Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold188
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: 942289
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.27
Warning! 138643 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:350474 original size:19 final size:20
Alignment explanation
Indices: 350435--350474 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
350425 ACAACACTTA
*
350435 TGTATCGATACATTTATTGTT
1 TGTATCGATACA-TAATTGTT
350456 TGTATCGATACA-AATTGTT
1 TGTATCGATACATAATTGTT
350475 GAAATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (20 bp):
TGTATCGATACATAATTGTT
Found at i:357556 original size:13 final size:13
Alignment explanation
Indices: 357538--357562 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
357528 CATGGCACAT
357538 TGTATCGATACAA
1 TGTATCGATACAA
357551 TGTATCGATACA
1 TGTATCGATACA
357563 TTGCTTCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:366233 original size:13 final size:13
Alignment explanation
Indices: 366215--366241 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
366205 ACATTATGCT
366215 TTGTATTGATACA
1 TTGTATTGATACA
366228 TTGTATTGATACA
1 TTGTATTGATACA
366241 T
1 T
366242 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:366271 original size:20 final size:19
Alignment explanation
Indices: 366225--366281 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
366215 TTGTATTGAT
* *
366225 ACATTGTATTGATACATGT
1 ACATTGTATCGATACATGG
*
366244 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
366263 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
366282 AAACTAGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:366370 original size:32 final size:33
Alignment explanation
Indices: 366313--366374 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
366303 CCACTGTTTG
*
366313 TATCGATACATGGCACATTGTATCGATACAATA
1 TATCGATACATGACACATTGTATCGATACAATA
*
366346 TATCGATACATGATA-ATTGTATCGATACA
1 TATCGATACATGACACATTGTATCGATACA
366375 TTGCTTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TATCGATACATGACACATTGTATCGATACAATA
Found at i:370948 original size:167 final size:165
Alignment explanation
Indices: 370671--371237 Score: 641
Period size: 167 Copynumber: 3.4 Consensus size: 165
370661 TTCTTTGAAA
* * * *
370671 ATTATCATTTAATTCATACATTAAATCAGTTTTCAAAAATTCATTCATTCTCATGAGTTGTTGAT
1 ATTATCATTTAATTTA-ATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAT
* *
370736 TTTTTCCTTGAAATT-TTCCTTTTTTCGAAATACATTATTTTCTACTTCATAATTTTTTTCG-AG
65 TTTTTCCTTGAAATTCTT--TTTTTTCGAAATACAGTATTTTCTACTCCATAATTTTTTT-GAAG
370799 GAGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAAT
127 G-GATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAAT
* * *
370839 ATTATCATTT-ATTTAATATTAAATTATTTTTCAAAAATCCATTCATTTTCATGAGTTTTTTGAT
1 ATTATCATTTAATTTAATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAG-TTTTTGA-
* * *
370903 TTTTTTCCTTAAAATTCTTTTTTTTCGAAATACCGTATTTTCTACTCCGTAAATTTTTTTGAAGG
64 TTTTTTCCTTGAAATTCTTTTTTTTCGAAATACAGTATTTTCTACTCCAT-AATTTTTTTGAAGG
*
370968 GATTTTTCTTAGTTTTTAATTTTTAAAATTTATCAAAT
128 GATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAAT
* * * * *
371006 ATTATTATTT-ATTTTATATTAAATCATTTTTC-AAAATTCATTCA-TTTCATTCA-CTTTTGAT
1 ATTATCATTTAATTTAATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA-TGAGTTTTTGAT
* * * * *
371067 TTTTTCCTTGAAATTCCTTTTTTTTTTCCAAATACGGTGTTTTTTACTCCATAATTGTTTTGAAG
65 TTTTTCCTTGAAATT-C--TTTTTTTTCGAAATACAGTATTTTCTACTCCATAATTTTTTTGAAG
* * ** *
371132 GGATTTTTCTTGGTTTTCAATTTTTAAAATTCATTGAAC
127 GGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAAT
* * * * * *
371171 ATCATCATTTGA-TTCATATTAAATCAGTTTT-AAAAAATAATTTATTTTCATGAG-TTTTGAAT
1 ATTATCATTTAATTTAATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTG-AT
371233 TTTTT
65 TTTTT
371238 TGGTGAAATT
Statistics
Matches: 345, Mismatches: 40, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
163 15 0.04
164 7 0.02
165 91 0.26
166 89 0.26
167 104 0.30
168 37 0.11
169 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.53
Consensus pattern (165 bp):
ATTATCATTTAATTTAATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATT
TTTTCCTTGAAATTCTTTTTTTTCGAAATACAGTATTTTCTACTCCATAATTTTTTTGAAGGGAT
TTTTCTTAGTTTTTAATTTTTAAAATTCATCAAAT
Found at i:373601 original size:155 final size:153
Alignment explanation
Indices: 373423--374163 Score: 622
Period size: 155 Copynumber: 4.8 Consensus size: 153
373413 TCGGATACAC
* * * *
373423 TTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCTCATCTATAATCCTTTTTAAATCCTTTA
1 TTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTTTA
* * * ** *
373488 AGGATATTAGGCACTTCTACGTCGAAGATATCTTCTAGGGGTATTTTGGTAATTTTTAAAAATCT
66 GGGATATTAGGTACTTCTACATCGAAGATATCCCCTAGGGGCATTTTGGTAATTTTT-AAAATCT
* *
373553 AGCCTTAGGTCATCACCGGGTCCCT
130 -GCCTTAAGTCGTCACCGGGTCCCT
* * * * *
373578 TTTTATGTCAAAGGTAGATATTTAGGATAGGTTCATCCCTTTTATAATCCTTTTTAAGTCCTTTA
1 TTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTTTA
** * * * * *** *
373643 GGGATACCAAGATACTT-TCACGTCAAAGGTATACTTATAGGGGCATTTTGGTAATTTCTTAGAA
66 GGGATA-TTAGGTACTTCT-ACATCGAAGATAT-CCCCTAGGGGCATTTTGGTAATTT-TTAAAA
* * * ***
373707 CCAATTCC-TAAGTCGTCACCAGGTCTGA
127 TC--TGCCTTAAGTCGTCACCGGGTCCCT
* * * *
373735 TTTTATGCCAAAGTTGGGTATTTAGGATAGATTCATCCCAACTATAATTCTTTTTAAGTCCTTTA
1 TTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTTTA
* * * * **
373800 GGGGTA-TCGAGTACTTCTACATCGAAGGTATCCCCTAAGGGCATTTTTATAATTTTCTAAAACT
66 GGGATATTAG-GTACTTCTACATCGAAGATATCCCCTAGGGGCATTTTGGTAATTTT-TAAAA-T
* * ***
373864 AACT-CC-TAGGTCGTCACTGGGTTTGT
128 --CTGCCTTAAGTCGTCACCGGGTCCCT
** * * * *
373890 TTTTATGCTGAAGGTGGGTA-TT----TAGGTTCATCCTAGTTTGTAATCCTTTTTAAATCCTTT
1 TTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCA-TCTATAATCCTTTTTAAGTCCTTT
* * *
373950 AGGGATATCAGGTACTTTTACATCGAAGATATCCCCTAGGGGCATTTTGGTAATATTTTAGAATC
65 AGGGATATTAGGTACTTCTACATCGAAGATATCCCCTAGGGGCATTTTGGTAAT-TTTTAAAATC
* *
374015 GTGTCTTAAGTTGTCACCGGGTCCGC-
129 -TGCCTTAAGTCGTCACCGGGTCC-CT
* *
374041 TTTTATACCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTTTAAGTCCTTTA
1 TTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTTTA
* ** * ** * **
374106 GGGGTATCGGGTACTTCGATGTCGAAGGTATCCCCTAGGGGCATTTTAATAATTTTTA
66 GGGATATTAGGTACTTCTACATCGAAGATATCCCCTAGGGGCATTTTGGTAATTTTTA
374164 TTGAATTTAG
Statistics
Matches: 468, Mismatches: 94, Indels: 49
0.77 0.15 0.08
Matches are distributed among these distances:
148 1 0.00
149 1 0.00
150 13 0.03
151 97 0.21
152 6 0.01
154 8 0.02
155 188 0.40
156 46 0.10
157 102 0.22
158 5 0.01
159 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (153 bp):
TTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTTTA
GGGATATTAGGTACTTCTACATCGAAGATATCCCCTAGGGGCATTTTGGTAATTTTTAAAATCTG
CCTTAAGTCGTCACCGGGTCCCT
Found at i:374097 original size:306 final size:309
Alignment explanation
Indices: 373422--374163 Score: 815
Period size: 306 Copynumber: 2.4 Consensus size: 309
373412 ATCGGATACA
* * * * *
373422 CTTTTATGCCAAAGGTAGATATTTAGGATAGGTTCATCTCATCTATAATCCTTTTTAAATCCTTT
1 CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTTTAAGTCCTTT
* * * * * ** * **
373487 AAGGATAT-TAGGCACTTCTACGTCGAAGATATCTTCTAGGGGTATTTTGGTAATTTTTAAAAAT
66 AGGGGTATCGA-GTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTAATAATTTTTAAAAAT
* *
373551 CTAGCCTTAGGTCATCACCGGGTCCCTTTTTATGTCAAAGGTAGATATTTAGGATAGGTTCATCC
130 CTAACCCTAGGTCATCACCGGGTCCCTTTTTATGTCAAAGGTAGATATTT---ATAGGTTCATCC
* * * **
373616 CTTTTATAATCCTTTTTAAGTCCTTTAGGGATACCAAGATACTTTCACGTCAAAGGTATACTTAT
192 CTTTTATAATCCTTTTTAAATCCTTTAGGGATACCAAGATACTTTCACATCAAAGATATACCCAT
*
373681 AGGGGCATTTTGGTAATTTCTTAGAACCAATTCCTAAGTCGTCACCAGGTCTG
257 AGGGGCATTTTGGTAATTTCTTAGAACCAATTCCTAAGTCGTCACCAGGTCCG
* * * *
373734 ATTTTATGCCAAAGTTGGGTATTTAGGATAGATTCATCCCAACTATAAT-TCTTTTTAAGTCCTT
1 CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCT-TTTTTAAGTCCTT
* * *
373798 TAGGGGTATCGAGTACTTCTACATCGAAGGTATCCCCTAAGGGCATTTTTATAATTTTCT-AAAA
65 TAGGGGTATCGAGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTAATAATTTT-TAAAAA
* * *** * * *
373862 -CTAACTCCTAGGTCGTCACTGGGTTTGTTTTTATG-CTGAAGGTGGGTA-TT-TAGGTTCAT-C
129 TCTAAC-CCTAGGTCATCACCGGGTCCCTTTTTATGTC-AAAGGTAGATATTTATAGGTTCATCC
* * * * *
373922 CTAGTTTGTAATCCTTTTTAAATCCTTTAGGGATATC-AGGTACTTTTACATCGAAGATAT-CCC
192 CT--TTTATAATCCTTTTTAAATCCTTTAGGGATACCAAGATACTTTCACATCAAAGATATACCC
* * * * * *
373985 CTAGGGGCATTTTGGTAATATT-TTAGAATC-GTGTCTTAAGTTGTCACCGGGTCCG
255 ATAGGGGCATTTTGGTAAT-TTCTTAGAACCAAT-TCCTAAGTCGTCACCAGGTCCG
*
374040 CTTTTATACCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTTTAAGTCCTTT
1 CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTTTAAGTCCTTT
* * *
374105 AGGGGTATCGGGTACTTCGATGTCGAAGGTATCCCCTAGGGGCATTTTAATAATTTTTA
66 AGGGGTATCGAGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTAATAATTTTTA
374164 TTGAATTTAG
Statistics
Matches: 360, Mismatches: 59, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
305 2 0.01
306 156 0.43
307 30 0.08
308 30 0.08
311 7 0.02
312 133 0.37
313 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (309 bp):
CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTTTAAGTCCTTT
AGGGGTATCGAGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTAATAATTTTTAAAAATC
TAACCCTAGGTCATCACCGGGTCCCTTTTTATGTCAAAGGTAGATATTTATAGGTTCATCCCTTT
TATAATCCTTTTTAAATCCTTTAGGGATACCAAGATACTTTCACATCAAAGATATACCCATAGGG
GCATTTTGGTAATTTCTTAGAACCAATTCCTAAGTCGTCACCAGGTCCG
Found at i:376398 original size:43 final size:42
Alignment explanation
Indices: 376350--376443 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
376340 AGCCTCTCAA
376350 GTCTAAGCCAATGGGCAAATGA-AAAGATG-AAGAAGTCTCCTGG
1 GTCTAAGCCAAT-GG-AAA-GACAAAGATGAAAGAAGTCTCCTGG
* * * **
376393 GTCTAAGCCGATTGATAGACATTGATGAAAGAAGTCTCCTGG
1 GTCTAAGCCAATGGAAAGACAAAGATGAAAGAAGTCTCCTGG
376435 GTCTAAGCC
1 GTCTAAGCC
376444 GATAGATAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
40 2 0.05
41 7 0.16
42 24 0.55
43 11 0.25
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (42 bp):
GTCTAAGCCAATGGAAAGACAAAGATGAAAGAAGTCTCCTGG
Found at i:376429 original size:42 final size:42
Alignment explanation
Indices: 376375--376719 Score: 226
Period size: 42 Copynumber: 8.3 Consensus size: 42
376365 CAAATGAAAA
* * *
376375 GATGAAGAAGTCTCCTGGGTCTAAGCCGATTGATAGAC-ATT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGATGGATAGACGATT
* * *
376416 GATGAAAGAAGTCTCCTGGGTCTAAGCCGATAGATAGACAATT
1 GATGAAA-AAGTCTCCCGGGTCTAAGCCGATGGATAGACGATT
* * ** * * * *** **
376459 TAAG-AAAA-TCTCCCAAGTCAAAGCTGACGGGCCGACGAAA
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGATGGATAGACGATT
** * * *
376499 GATGAAAAAGTCTCTTGGGTCTAAGTCGA-CGAGTAGACAATT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGATGGA-TAGACGATT
* *
376541 GATG---AAGTCTCCCAGGTCTAAGCC-AAGGAGTAGA-GATT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGATGGA-TAGACGATT
* ** *
376579 GATGAAAAAGTATCTTGAGTCTAAGCCGATGGATAGACGATT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGATGGATAGACGATT
* ** * *
376621 AATGAAAAAGTCTCCCGAATCTAAGCTGATGTG-CAGACGATT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGATG-GATAGACGATT
* *
376663 GATGAAAAAGTCTCCCGGGTCTAAGCCAATGTG-CAGACGATT
1 GATGAAAAAGTCTCCCGGGTCTAAGCCGATG-GATAGACGATT
*
376705 GATAAAAGAAGTCTC
1 GATGAAA-AAGTCTC
376720 TCAAGTCTAA
Statistics
Matches: 233, Mismatches: 58, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
38 8 0.03
39 23 0.10
40 21 0.09
41 32 0.14
42 136 0.58
43 13 0.06
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (42 bp):
GATGAAAAAGTCTCCCGGGTCTAAGCCGATGGATAGACGATT
Found at i:376742 original size:43 final size:43
Alignment explanation
Indices: 376640--378315 Score: 571
Period size: 43 Copynumber: 39.1 Consensus size: 43
376630 GTCTCCCGAA
* * * *
376640 TCTAAGCTGATGTGCAGACGATTGATGAAA--AAGTCTCCCGGG
1 TCTAAGCTGACGGGCAGACGATTGA-CAAAGGAAGTCTCTCGGG
** * * * * **
376682 TCTAAGCCAATGTGCAGACGATTGATAAAAGAAGTCTCTCAAG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* *
376725 TCTAAGCTGACGGGCAGACGGTTGACAAAGGAAGTCTC-CTAGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTC-GGG
* * * * *
376768 ACTAAGCCGATC-GGTAGAC-AGTTGACAAAGGAAGTCTCCCGAG
1 TCTAAGCTGA-CGGGCAGACGA-TTGACAAAGGAAGTCTCTCGGG
* * * ** * * *
376811 ACTGAGCCGACGGTTAGACGGTTGACAAAGGAAATCTCCCGGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * * * * ** * *
376854 ACTGAGCCGATGGG-AAAATAGTTGACAAAGAAAGTCT-TCGTGA
1 TCTAAGCTGACGGGCAGACGA-TTGACAAAGGAAGTCTCTCG-GG
* * * *
376897 T-TAAGCTGATGGGCAAATGATTGACAAAGGAAGTCTGTCGGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * * ** * **
376939 TCTGAGCTGACGGGTAAACGATTGACAAAGGAAACCTTTTAGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
** * ** * **
376982 TCTAAG-TCGACAAGCAGACAATTGATGGAA--AAGTCTCCCAAG
1 TCTAAGCT-GACGGGCAGACGATTGA-CAAAGGAAGTCTCTCGGG
* * * * **
377024 TATAAG-TCGACGAGCAAACGATTGATAAAGGAAGTCTC-CTAAG
1 TCTAAGCT-GACGGGCAGACGATTGACAAAGGAAGTCTCTC-GGG
* * * * *
377067 ACTGAG-TCGACAGGCAGACGGTTGGCAAAGGAAGTCTC-CTGGG
1 TCTAAGCT-GACGGGCAGACGATTGACAAAGGAAGTCTCTC-GGG
** * *
377110 TCTAAG-TCGACCAGTAGATGATTGACAAAGGAAGTCTC-CTGGG
1 TCTAAGCT-GACGGGCAGACGATTGACAAAGGAAGTCTCTC-GGG
** * * *
377153 TCTAAGCCAATGGGCAAACGATTGACAAAGGAAGTCTC-CTAGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTC-GGG
** * * * *
377196 TCTAAGCCAATGGGCAAACGATTGACAAAGTAAGTCTCCCGGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * * *
377239 TCTGAGCCGAAGGGCAGACGATTGACAAAGGAAGTTTC-CTGGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTC-GGG
* * ** * * *
377282 TCTAAGCTGACAGGTAGATAATTGACAAAGAAAGTCTCCCGAG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * ** * *
377325 TCTGAGCCGATAGGCAAACGATTGACAAAGGAAGTCTCTTGGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* ** * * **
377368 TCTAAGCCGATAGGTAGACGATTGACAAAGGAAGTCTCCCAAG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * * * * **
377411 TCTAAGCCGATGGGCAAACGATTGACAAAGGAAATCTCCCAAG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * ** * * * * *
377454 TTTGAGCTGACAAGCAAATGATTAATGAAA--AAGTCTCTCGTG
1 TCTAAGCTGACGGGCAGACGATTGA-CAAAGGAAGTCTCTCGGG
* * * * *
377496 TCTAAGTTGACGGGCAAACAATTGACAGAGGAAGTCTC-CTAGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTC-GGG
* * ** * * * * *
377539 ACTAAGCCGATAGGCAAACGGTTGACAAAAGAAGTTTCTCGAG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * * * *
377582 ACTGAGTTGACGGGCAGACGATTAACAAAGGAAGTCTCTCGAG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * * * * *
377625 TATGAA-CTGACAGGCAGACAATTGGCAAAGAAAGTCTTTCGGG
1 TCT-AAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * ** * * *
377668 TCTGAGCCGATAGGTAGACGATTGACAAAGGAAGTCTCCCGGC
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
** * **
377711 TCTAA-CTCGATAGGTAGACGATTGACAAAGGAAGTCTCTCAAG
1 TCTAAGCT-GACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * *
377754 TCTAAGCTGATGGGTAGACGATTGACAAAGGAAGTCTC-CTGAG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTC-GGG
* * * * *
377797 TCTAAGCCGACGGGCAGAGGATTGATAAAGGAAATCTC-CTAGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTC-GGG
* * * * *
377840 TCTGAGCCGACGGGCAGATGATTGATGAAA--AAGTCTCTTGGG
1 TCTAAGCTGACGGGCAGACGATTGA-CAAAGGAAGTCTCTCGGG
* * * * * **
377882 TCTAAG-TCAACTGGCAAACAATTGACAAAGGAAATCTAC-CTAG
1 TCTAAGCT-GACGGGCAGACGATTGACAAAGGAAGTCT-CTCGGG
* * * * ** *
377925 ACTAAGTTGACAGGCAAAC-AGTTGACAAAATAAGTCTCCCGGG
1 TCTAAGCTGACGGGCAGACGA-TTGACAAAGGAAGTCTCTCGGG
* * * * * * **
377968 ACTGAG-TCGACGTGCAGATGATTGACAAAGGAAGTATCCCATG
1 TCTAAGCT-GACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * * **
378011 TCTGAG-TCGATGGGTAGACGATTGACAAAGGAAGTCTCTCAAG
1 TCTAAGCT-GACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * * * * * *
378054 TCTGAGCTAATGGGTAGACGATTGACTAAGAAAATCTC-CGGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * ** * * * ** **
378096 ACTGAGCCAATGGGTAGATGATAAATGAAGGAAGTCTCTCGGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* ** * *** * *
378139 TCTAAGTTGACTAGTAGACGATTGATGGAGGAAGCCTCCCGGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* *** * ** ***
378182 TTTAAGCTGATATGTAGACGAAAGATGGA-GAAGTCTC-CTGGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTC-GGG
* * * * * ** *
378224 TCTAAGCCGATGGGTAGATGAATGATGAAGGAAGTCTCTCGAG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
* * * ** * * *
378267 ACTGAGCCGATAGGTAGACGATTGACAAAGGAAGTCTCCCAGG
1 TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
378310 TCTAAG
1 TCTAAG
378316 TCGACGAGCA
Statistics
Matches: 1261, Mismatches: 325, Indels: 95
0.75 0.19 0.06
Matches are distributed among these distances:
41 11 0.01
42 206 0.16
43 1023 0.81
44 21 0.02
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (43 bp):
TCTAAGCTGACGGGCAGACGATTGACAAAGGAAGTCTCTCGGG
Found at i:377522 original size:343 final size:343
Alignment explanation
Indices: 377164--377792 Score: 897
Period size: 343 Copynumber: 1.8 Consensus size: 343
377154 CTAAGCCAAT
* * *
377164 GGGCAAACGATTGACAAAGGAAGTCTCCTAGGTCTAAGCCAATGGGCAAACGATTGAC-AAAGTA
1 GGGCAAACAATTGACAAAGGAAGTCTCCTAGGACTAAGCCAATAGGCAAACGATTGACAAAAG-A
* * * * * *
377228 AGTCTCCCGGGTCTGAGCCGAAGGGCAGACGATTGACAAAGGAAGTTTC-CTGGGTCT-AAGCTG
65 AGTCTCCCGAGACTGAGCCGAAGGGCAGACGATTAACAAAGGAAGTCTCTC-GAGTATGAA-CTG
* *
377291 ACAGGTAGATAATTGACAAAGAAAGTCTCCCGAGTCTGAGCCGATAGGCAAACGATTGACAAAGG
128 ACAGGCAGACAATTGACAAAGAAAGTCTCCCGAGTCTGAGCCGATAGGCAAACGATTGACAAAGG
** *
377356 AAGTCTCTTGGGTCTAAGC-CGATAGGTAGACGATTGACAAAGGAAGTCTCCCAAGTCTAAGCCG
193 AAGTCTCCCGGCTCTAA-CTCGATAGGTAGACGATTGACAAAGGAAGTCTCCCAAGTCTAAGCCG
377420 ATGGGCAAACGATTGACAAAGGAAATCTCCCAAGTTTGAGCTGACAAGCAAATGATTAATGAAAA
257 ATGGGCAAACGATTGACAAAGGAAATCTCCCAAGTTTGAGCTGACAAGCAAATGATTAATGAAAA
377485 AGTCTCTCGTGTCTAAGTTGAC
322 AGTCTCTCGTGTCTAAGTTGAC
* * *
377507 GGGCAAACAATTGACAGAGGAAGTCTCCTAGGACTAAGCCGATAGGCAAACGGTTGACAAAAGAA
1 GGGCAAACAATTGACAAAGGAAGTCTCCTAGGACTAAGCCAATAGGCAAACGATTGACAAAAGAA
* * ** *
377572 GTTTCTCGAGACTGAGTTGACGGGCAGACGATTAACAAAGGAAGTCTCTCGAGTATGAACTGACA
66 GTCTCCCGAGACTGAGCCGAAGGGCAGACGATTAACAAAGGAAGTCTCTCGAGTATGAACTGACA
* ** * * *
377637 GGCAGACAATTGGCAAAGAAAGTCTTTCGGGTCTGAGCCGATAGGTAGACGATTGACAAAGGAAG
131 GGCAGACAATTGACAAAGAAAGTCTCCCGAGTCTGAGCCGATAGGCAAACGATTGACAAAGGAAG
* *
377702 TCTCCCGGCTCTAACTCGATAGGTAGACGATTGACAAAGGAAGTCTCTCAAGTCTAAGCTGATGG
196 TCTCCCGGCTCTAACTCGATAGGTAGACGATTGACAAAGGAAGTCTCCCAAGTCTAAGCCGATGG
* * *
377767 GTAGACGATTGACAAAGGAAGTCTCC
261 GCAAACGATTGACAAAGGAAATCTCC
377793 TGAGTCTAAG
Statistics
Matches: 249, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
342 1 0.00
343 241 0.97
344 7 0.03
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.20
Consensus pattern (343 bp):
GGGCAAACAATTGACAAAGGAAGTCTCCTAGGACTAAGCCAATAGGCAAACGATTGACAAAAGAA
GTCTCCCGAGACTGAGCCGAAGGGCAGACGATTAACAAAGGAAGTCTCTCGAGTATGAACTGACA
GGCAGACAATTGACAAAGAAAGTCTCCCGAGTCTGAGCCGATAGGCAAACGATTGACAAAGGAAG
TCTCCCGGCTCTAACTCGATAGGTAGACGATTGACAAAGGAAGTCTCCCAAGTCTAAGCCGATGG
GCAAACGATTGACAAAGGAAATCTCCCAAGTTTGAGCTGACAAGCAAATGATTAATGAAAAAGTC
TCTCGTGTCTAAGTTGAC
Found at i:378046 original size:86 final size:85
Alignment explanation
Indices: 376648--378048 Score: 650
Period size: 86 Copynumber: 16.4 Consensus size: 85
376638 AATCTAAGCT
* * * * * * *
376648 GATGTGCAGACGATTGATGAAA--AAGTCTCCCGGGTCTAAGCCAATGTGCAGACGATTGATAAA
1 GATGGGCAGACGATTGA-CAAAGGAAGTCTCCTGGGTCTAAGTCGACG-GCAGACGATTGACAAA
* * * * *
376711 AGAAGTCTCTCAAGTCTAAGCT
64 GGAAGTCTCCCAGGTCTGAGCC
* * * * * *
376733 GACGGGCAGACGGTTGACAAAGGAAGTCTCCTAGGACTAAGCCGATCGGTAGAC-AGTTGACAAA
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCGA-CGGCAGACGA-TTGACAAA
*
376797 GGAAGTCTCCC-GAGACTGAGCC
64 GGAAGTCTCCCAG-GTCTGAGCC
* ** * * * * * * * * * **
376819 GACGGTTAGACGGTTGACAAAGGAAATCTCCCGGGACTGAGCCGATGGGAAAATAGTTGACAAAG
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCGACGGCAGACGA-TTGACAAAG
* * ** * * *
376884 AAAGTCTTCGTGAT-TAAGCT
65 GAAGTCTCCCAGGTCTGAGCC
* * * * * *
376904 GATGGGCAAATGATTGACAAAGGAAGTCT-GTCGGGTCTGAG-CTGACGGGTAAACGATTGACAA
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCT-GGGTCTAAGTC-GAC-GGCAGACGATTGACAA
** *** * *
376967 AGGAAACCTTTTAGGTCTAAGTC
63 AGGAAGTCTCCCAGGTCTGAGCC
*** * ** *** * * *
376990 GACAAGCAGACAATTGATGGAA--AAGTCTCCCAAGTATAAGTCGACGAGCAAACGATTGATAAA
1 GATGGGCAGACGATTGA-CAAAGGAAGTCTCCTGGGTCTAAGTCGACG-GCAGACGATTGACAAA
* * * *
377053 GGAAGTCTCCTAAGACTGAGTC
64 GGAAGTCTCCCAGGTCTGAGCC
** * * * * *
377075 GACAGGCAGACGGTTGGCAAAGGAAGTCTCCTGGGTCTAAGTCGACCAGTAGATGATTGACAAAG
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCGA-CGGCAGACGATTGACAAAG
** *
377140 GAAGTCTCCTGGGTCTAAGCC
65 GAAGTCTCCCAGGTCTGAGCC
* * * * * * *
377161 AATGGGCAAACGATTGACAAAGGAAGTCTCCTAGGTCTAAGCCAATGGGCAAACGATTGACAAAG
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCGA-CGGCAGACGATTGACAAAG
* *
377226 TAAGTCTCCCGGGTCTGAGCC
65 GAAGTCTCCCAGGTCTGAGCC
* * * **
377247 GAAGGGCAGACGATTGACAAAGGAAGTTTCCTGGGTCTAAG-CTGACAGGTAGATAATTGACAAA
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTC-GAC-GGCAGACGATTGACAAA
*
377311 GAAAGTCTCCC-GAGTCTGAGCC
64 GGAAGTCTCCCAG-GTCTGAGCC
* * * * * *
377333 GATAGGCAAACGATTGACAAAGGAAGTCTCTTGGGTCTAAGCCGATAGGTAGACGATTGACAAAG
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCGA-CGGCAGACGATTGACAAAG
* *
377398 GAAGTCTCCCAAGTCTAAGCC
65 GAAGTCTCCCAGGTCTGAGCC
* * *** * * * * * * *
377419 GATGGGCAAACGATTGACAAAGGAAATCTCCCAAGTTTGAG-CTGACAAGCAAATGATTAATGAA
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTC-GAC-GGCAGACGATTGA-CAA
* * **
377483 A--AAGTCTCTC-GTGTCTAAGTT
63 AGGAAGTCTCCCAG-GTCTGAGCC
* * * * * * * * * * *
377504 GACGGGCAAACAATTGACAGAGGAAGTCTCCTAGGACTAAGCCGATAGGCAAACGGTTGACAAAA
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCGA-CGGCAGACGATTGACAAAG
* * * **
377569 GAAGTTTCTC-GAGACTGAGTT
65 GAAGTCTCCCAG-GTCTGAGCC
* * * * * * *
377590 GACGGGCAGACGATTAACAAAGGAAGTCT-CTCGAGTATGAACT-GACAGGCAGACAATTGGCAA
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCT-GGGTCT-AAGTCGAC-GGCAGACGATTGACAA
* ** *
377653 AGAAAGTCTTTCGGGTCTGAGCC
63 AGGAAGTCTCCCAGGTCTGAGCC
* * * * * * *
377676 GATAGGTAGACGATTGACAAAGGAAGTCTCCCGGCTCTAACTCGATAGGTAGACGATTGACAAAG
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCGA-CGGCAGACGATTGACAAAG
* * * *
377741 GAAGTCTCTCAAGTCTAAGCT
65 GAAGTCTCCCAGGTCTGAGCC
* * * * *
377762 GATGGGTAGACGATTGACAAAGGAAGTCTCCTGAGTCTAAGCCGACGGGCAGAGGATTGATAAAG
1 GATGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCGAC-GGCAGACGATTGACAAAG
* *
377827 GAAATCTCCTAGGTCTGAGCC
65 GAAGTCTCCCAGGTCTGAGCC
* * * * * * *
377848 GACGGGCAGATGATTGATGAAA--AAGTCTCTTGGGTCTAAGTCAACTGGCAAACAATTGACAAA
1 GATGGGCAGACGATTGA-CAAAGGAAGTCTCCTGGGTCTAAGTCGAC-GGCAGACGATTGACAAA
* * * * **
377911 GGAAATCTACCTA-GACTAAGTT
64 GGAAGTCT-CCCAGGTCTGAGCC
** * ** * * * *
377933 GACAGGCAAAC-AGTTGACAAAATAAGTCTCCCGGGACTGAGTCGACGTGCAGATGATTGACAAA
1 GATGGGCAGACGA-TTGACAAAGGAAGTCTCCTGGGTCTAAGTCGACG-GCAGACGATTGACAAA
* * *
377997 GGAAGTATCCCATGTCTGAGTC
64 GGAAGTCTCCCAGGTCTGAGCC
*
378019 GATGGGTAGACGATTGACAAAGGAAGTCTC
1 GATGGGCAGACGATTGACAAAGGAAGTCTC
378049 TCAAGTCTGA
Statistics
Matches: 992, Mismatches: 276, Indels: 95
0.73 0.20 0.07
Matches are distributed among these distances:
84 14 0.01
85 255 0.26
86 706 0.71
87 17 0.02
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (85 bp):
GATGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCGACGGCAGACGATTGACAAAGG
AAGTCTCCCAGGTCTGAGCC
Found at i:378059 original size:386 final size:385
Alignment explanation
Indices: 376746--378092 Score: 1090
Period size: 386 Copynumber: 3.5 Consensus size: 385
376736 GGGCAGACGG
* * * *
376746 TTGACAAAGGAAGTCTCCTAGGACTAAGCCGATC-GGTAGACAGTTGACAAAGGAAGTCTCCCGA
1 TTGACAAAGGAAATCTCCTAGGACTAAGCCGA-CAGGCAAACAGTTGACAAAAGAAGTCTCCCGA
* ** * * * * * * * **
376810 GACTGAGCCGACGGTTAGACGGTTGACAAAGGAAATCTCCCGGGACTGAGCCGATGGG-AAAATA
65 GACTGAGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCC-AGTCTGAGACGAAGGGCAGACGA
* * * * * * * * **
376874 GTTGACAAAGAAAGTCT-TCGTGAT-TAAGCTGATGGGCAAATGATTGACAAAGGAAGTCTGTCG
129 -TTGACAAAGGAAGTCTCTCG-GGTCTGAGCTGATAGGTAGACGATTGACAAAGAAAGTCTCCCG
* * * ** * ** * * * * * * * *
376937 GGTCTGAGCTGACGGGTAAACGATTGACAAAGGAAACCTTTTAGGTCTAAGTCGACAAGCAGACA
192 AGTCTGAACCGATAGGCAAACGATTGACAAAGGAAGTCTCTCAAGTCTAAGCCGATAGGTAGACG
** * * * * * *
377002 ATTGATGGAA--AAGTCTCCCAAGTATAAGTCGACGAGCAAACGATTGATAAAGGAAGTCTCCTA
257 ATTGA-CAAAGGAAGTCTCCCAAGTCTAAGCCGACGGGCAAACGATTGACAAAGGAAATCTCCCA
* * * * * * * * ** * *
377065 AGACTGAGTCGACAGGCAGACGGTT--GGCAAAGGAAGTCTC-CTGGGTCTAAGTCGACCAGTAG
321 AGTCTGAGCCGACAAGCAAATGATTAATG-AAA--AAGTCTCTC-GGGTCTAAGTCAACGGGCAA
**
377127 ATGA
382 ACAA
* * * * ** * *
377131 TTGACAAAGGAAGTCTCCTGGGTCTAAGCCAATGGGCAAAC-GATTGACAAAGGAAGTCT-CCTA
1 TTGACAAAGGAAATCTCCTAGGACTAAGCCGACAGGCAAACAG-TTGACAAAAGAAGTCTCCCGA
* * * * * * * * *
377194 GGTCTAAGCCAATGGGCAAACGATTGACAAAGTAAGTCTCCCGGGTCTGAGCCGAAGGGCAGACG
65 -GACTGAGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCC-AGTCTGAGACGAAGGGCAGACG
* * * **
377259 ATTGACAAAGGAAGTTTC-CTGGGTCTAAGCTGACAGGTAGATAATTGACAAAGAAAGTCTCCCG
128 ATTGACAAAGGAAGTCTCTC-GGGTCTGAGCTGATAGGTAGACGATTGACAAAGAAAGTCTCCCG
* ***
377323 AGTCTGAGCCGATAGGCAAACGATTGACAAAGGAAGTCTCTTGGGTCTAAGCCGATAGGTAGACG
192 AGTCTGAACCGATAGGCAAACGATTGACAAAGGAAGTCTCTCAAGTCTAAGCCGATAGGTAGACG
*
377388 ATTGACAAAGGAAGTCTCCCAAGTCTAAGCCGATGGGCAAACGATTGACAAAGGAAATCTCCCAA
257 ATTGACAAAGGAAGTCTCCCAAGTCTAAGCCGACGGGCAAACGATTGACAAAGGAAATCTCCCAA
* * * **
377453 GTTTGAGCTGACAAGCAAATGATTAATGAAAAAGTCTCTCGTGTCTAAGTTGACGGGCAAACAA
322 GTCTGAGCCGACAAGCAAATGATTAATGAAAAAGTCTCTCGGGTCTAAGTCAACGGGCAAACAA
* * * * * *
377517 TTGACAGAGGAAGTCTCCTAGGACTAAGCCGATAGGCAAACGGTTGACAAAAGAAGTTTCTCGAG
1 TTGACAAAGGAAATCTCCTAGGACTAAGCCGACAGGCAAACAGTTGACAAAAGAAGTCTCCCGAG
* * * * *
377582 ACTGAGTTGACGGGCAGACGATTAACAAAGGAAGTCTCTCGAGTATGA-ACTGACA-GGCAGACA
66 ACTGAGTCGACGGGCAGACGATTGACAAAGGAAGTCTC-CCAGTCTGAGAC-GA-AGGGCAGACG
* * * * *
377645 ATTGGCAAAGAAAGTCTTTCGGGTCTGAGCCGATAGGTAGACGATTGACAAAGGAAGTCTCCCG-
128 ATTGACAAAGGAAGTCTCTCGGGTCTGAGCTGATAGGTAGACGATTGACAAAGAAAGTCTCCCGA
* * * *
377709 GCTCT-AACTCGATAGGTAGACGATTGACAAAGGAAGTCTCTCAAGTCTAAGCTGATGGGTAGAC
193 G-TCTGAAC-CGATAGGCAAACGATTGACAAAGGAAGTCTCTCAAGTCTAAGCCGATAGGTAGAC
** * * * *
377773 GATTGACAAAGGAAGTCTCCTGAGTCTAAGCCGACGGGCAGAGGATTGATAAAGGAAATCTCCTA
256 GATTGACAAAGGAAGTCTCCCAAGTCTAAGCCGACGGGCAAACGATTGACAAAGGAAATCTCCCA
* ** * * * *
377838 GGTCTGAGCCGACGGGCAGATGATTGATGAAAAAGTCTCTTGGGTCTAAGTCAACTGGCAAACAA
321 AGTCTGAGCCGACAAGCAAATGATTAATGAAAAAGTCTCTCGGGTCTAAGTCAACGGGCAAACAA
** * *
377903 TTGACAAAGGAAATCTACCTA-GACTAAGTTGACAGGCAAACAGTTGACAAAATAAGTCTCCCGG
1 TTGACAAAGGAAATCT-CCTAGGACTAAGCCGACAGGCAAACAGTTGACAAAAGAAGTCTCCCGA
* * * * * *
377967 GACTGAGTCGACGTGCAGATGATTGACAAAGGAAGTATCCCATGTCTGAGTCGATGGGTAGACGA
65 GACTGAGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCCA-GTCTGAGACGAAGGGCAGACGA
** * * * *
378032 TTGACAAAGGAAGTCTCTCAAGTCTGAGCTAATGGGTAGACGATTGACTAAGAAAATCTCC
129 TTGACAAAGGAAGTCTCTCGGGTCTGAGCTGATAGGTAGACGATTGACAAAGAAAGTCTCC
378093 GGGACTGAGC
Statistics
Matches: 773, Mismatches: 165, Indels: 47
0.78 0.17 0.05
Matches are distributed among these distances:
384 4 0.01
385 121 0.16
386 569 0.74
387 75 0.10
388 3 0.00
389 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (385 bp):
TTGACAAAGGAAATCTCCTAGGACTAAGCCGACAGGCAAACAGTTGACAAAAGAAGTCTCCCGAG
ACTGAGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCCAGTCTGAGACGAAGGGCAGACGATT
GACAAAGGAAGTCTCTCGGGTCTGAGCTGATAGGTAGACGATTGACAAAGAAAGTCTCCCGAGTC
TGAACCGATAGGCAAACGATTGACAAAGGAAGTCTCTCAAGTCTAAGCCGATAGGTAGACGATTG
ACAAAGGAAGTCTCCCAAGTCTAAGCCGACGGGCAAACGATTGACAAAGGAAATCTCCCAAGTCT
GAGCCGACAAGCAAATGATTAATGAAAAAGTCTCTCGGGTCTAAGTCAACGGGCAAACAA
Found at i:379036 original size:89 final size:89
Alignment explanation
Indices: 378925--379125 Score: 294
Period size: 89 Copynumber: 2.2 Consensus size: 89
378915 TTTGGTAAGG
* * *
378925 AAGGATATGATTGGGAATGTGTGGGTTGCACCTTGCCCCAAGGAAATTAGGCTTGGTGATGCACC
1 AAGGATATGATTAGGAATGTGTGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTGGTGATGCACA
378990 AATACCATCTACTAGTTAGAGGAA
66 AATACCATCTACTAGTTAGAGGAA
* *
379014 AAGGATATAATTAGGAATGTGTGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTGGTGATGCATA
1 AAGGATATGATTAGGAATGTGTGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTGGTGATGCACA
* * * *
379079 AATACCATCTAGTGGTTGGATGAA
66 AATACCATCTACTAGTTAGAGGAA
**
379103 GGGGATATGATTAGGAAATGTGT
1 AAGGATATGATTAGG-AATGTGT
379126 TTTCCTTGAA
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 92 0.93
90 7 0.07
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (89 bp):
AAGGATATGATTAGGAATGTGTGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTGGTGATGCACA
AATACCATCTACTAGTTAGAGGAA
Found at i:380908 original size:20 final size:22
Alignment explanation
Indices: 380883--380927 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
380873 GTTATAGTGA
380883 TTCTTT-A-TTTCCTCATCTTT
1 TTCTTTCATTTTCCTCATCTTT
* *
380903 TTCTTTCATTTTTCTCATTTTT
1 TTCTTTCATTTTCCTCATCTTT
380925 TTC
1 TTC
380928 ACTTTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (22 bp):
TTCTTTCATTTTCCTCATCTTT
Found at i:380955 original size:20 final size:20
Alignment explanation
Indices: 380930--380971 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
380920 TTTTTTTCAC
380930 TTTCTTTTTCATTTCATTTT
1 TTTCTTTTTCATTTCATTTT
* *
380950 TTTCTTTTTCTTTTCCTTTT
1 TTTCTTTTTCATTTCATTTT
380970 TT
1 TT
380972 GTTTTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTTTTTCATTTCATTTT
Found at i:382907 original size:53 final size:53
Alignment explanation
Indices: 382827--382934 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
382817 TGGGGTTGGA
* *
382827 GTATCCCCTCGAAATTAACAAGGTTGGAGTATCCTCGATGGTGAAAAATCGAT
1 GTATCCCCTCGAAAATAACAAGGTTGGAGTATCCTCGATGGTGAAAAATCAAT
* * *
382880 GTATCCCTTCGAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATCAAT
1 GTATCCCCTCGAAAATAACAAGGTTGGAGTATCCTCGATGGTGAAAAATCAAT
382933 GT
1 GT
382935 TTTAGAAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (53 bp):
GTATCCCCTCGAAAATAACAAGGTTGGAGTATCCTCGATGGTGAAAAATCAAT
Found at i:382924 original size:132 final size:131
Alignment explanation
Indices: 382759--383007 Score: 313
Period size: 132 Copynumber: 1.9 Consensus size: 131
382749 ATATTTTGGA
* * ** * *
382759 GAAAAAATAGGGTTGGAGAATCCCCGATGGTGAAAAGTTGATATTTTGGAAATAAAATTGGGGTT
1 GAAAAAACAGGGTTGGAGAATCCCCGATGGTGAAAAATCAATATTTTAGAAATAAAATTAGGGTT
* * *
382824 GGAGTATCCCCTCG-AAATTAACAAGG-TTGGAGTATCCTCGATGGTGAAAAATCGATGTATCCC
66 GGAGTATCCCCTCGCAAA-CAAC-AGGATTGGAATATCCCCGATGGTGAAAAATCGATGTATCCC
382887 TTC
129 TTC
* * * * *
382890 GAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATCAATGTTTTAGAAATAAAGTTAGGGT
1 GAAAA-AACAGGGTTGGAGAATCCCCGATGGTGAAAAATCAATATTTTAGAAATAAAATTAGGGT
* *
382955 TGGAGTATCCCCTTGCAAACAACGGGATTGGAATATCCCCGATGGTGAAAAAT
65 TGGAGTATCCCCTCGCAAACAACAGGATTGGAATATCCCCGATGGTGAAAAAT
383008 TAGTGTTTTA
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
131 7 0.07
132 89 0.90
133 3 0.03
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (131 bp):
GAAAAAACAGGGTTGGAGAATCCCCGATGGTGAAAAATCAATATTTTAGAAATAAAATTAGGGTT
GGAGTATCCCCTCGCAAACAACAGGATTGGAATATCCCCGATGGTGAAAAATCGATGTATCCCTT
C
Found at i:382963 original size:79 final size:79
Alignment explanation
Indices: 382880--383263 Score: 382
Period size: 79 Copynumber: 4.9 Consensus size: 79
382870 AAAAATCGAT
* * *
382880 GTATCCCTTCGAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATCAATGTTTTAGAAATA
1 GTATCCCTTCGAAAATAATAGGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATA
***
382945 AAGTTAGGGTTGGA
66 AAACCAGGGTTGGA
* * * * * *
382959 GTATCCCCTT-GCAAACAA-CGGGATTGGAATATCCCCGATGGTGAAAAAT-TAGTGTTTTAGAA
1 GTAT-CCCTTCGAAAATAATAGGG-TTGGAGTATCCTCGATGGTGAAAAATCGA-TGTTTTAGAA
*
383021 ATAAAACCAGGGTTGAA
63 ATAAAACCAGGGTTGGA
* * * *
383038 GTATCCCTTCGAAAATAATGGGGTTAGAGTATCCTCGATTGTGAAAAATCGATGTTTTGGAAATA
1 GTATCCCTTCGAAAATAATAGGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATA
* *
383103 AAATCGGGGTTGGA
66 AAACCAGGGTTGGA
* * * * * * * * *
383117 GTACCCCCTCGAAAACAATGGGGTTGGAGTATCGTCGATGGTGGAGAATCGATATTTTAAAAATA
1 GTATCCCTTCGAAAATAATAGGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATA
*
383182 GAACC-GAGGTTGGA
66 AAACCAG-GGTTGGA
* * * * *
383196 GTATCCCTTC-AGAAATAATAGGGTTGGAGTATCCTTGATGGTGGACAATCGGTATTTTAGAAAT
1 GTATCCCTTCGA-AAATAATAGGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAAT
383260 AAAA
65 AAAA
383264 ACATGAATGT
Statistics
Matches: 251, Mismatches: 46, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
78 11 0.04
79 231 0.92
80 9 0.04
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
GTATCCCTTCGAAAATAATAGGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATA
AAACCAGGGTTGGA
Found at i:383175 original size:158 final size:158
Alignment explanation
Indices: 382880--383263 Score: 459
Period size: 158 Copynumber: 2.4 Consensus size: 158
382870 AAAAATCGAT
* *
382880 GTATCCCTTCGAAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATCAATGTTTTAGAAATA
1 GTATCCCTTCGAAAATAATAGGGTTGGAGTATCCTCGATTGTGAAAAATCGATGTTTTAGAAATA
* * * * * *
382945 AAGTTAGGGTTGGAGTATCCCCTTGCAAACAACGGGATTGGAATATCCCCGATGGTGAAAAATTA
66 AAATCAGGGTTGGAGTACCCCCTCGAAAACAACGGGATTGGAATATCCCCGATGGTGAAAAATGA
* *
383010 GTGTTTTAGAAATAAAACC-AGGGTTGAA
131 GTATTTTAAAAATAAAACCGA-GGTTGAA
* * *
383038 GTATCCCTTCGAAAATAATGGGGTTAGAGTATCCTCGATTGTGAAAAATCGATGTTTTGGAAATA
1 GTATCCCTTCGAAAATAATAGGGTTGGAGTATCCTCGATTGTGAAAAATCGATGTTTTAGAAATA
* * * * ** * *
383103 AAATCGGGGTTGGAGTACCCCCTCGAAAACAATGGGGTTGGAGTATCGTCGATGGTGGAGAATCG
66 AAATCAGGGTTGGAGTACCCCCTCGAAAACAACGGGATTGGAATATCCCCGATGGTGAAAAAT-G
* *
383168 A-TATTTTAAAAATAGAACCGAGGTTGGA
130 AGTATTTTAAAAATAAAACCGAGGTTGAA
* * * * * *
383196 GTATCCCTTC-AGAAATAATAGGGTTGGAGTATCCTTGATGGTGGACAATCGGTATTTTAGAAAT
1 GTATCCCTTCGA-AAATAATAGGGTTGGAGTATCCTCGATTGTGAAAAATCGATGTTTTAGAAAT
383260 AAAA
65 AAAA
383264 ACATGAATGT
Statistics
Matches: 191, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
157 1 0.01
158 188 0.98
159 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (158 bp):
GTATCCCTTCGAAAATAATAGGGTTGGAGTATCCTCGATTGTGAAAAATCGATGTTTTAGAAATA
AAATCAGGGTTGGAGTACCCCCTCGAAAACAACGGGATTGGAATATCCCCGATGGTGAAAAATGA
GTATTTTAAAAATAAAACCGAGGTTGAA
Found at i:385665 original size:50 final size:50
Alignment explanation
Indices: 385582--385716 Score: 191
Period size: 50 Copynumber: 2.7 Consensus size: 50
385572 AAAAAGGCCT
* * * *
385582 GAATGTATCGATACATTG-AGAAATATATTGATACATCTGGGTAAAACCCA
1 GAATGTATCGATACAATGAAG-AATGTATCGATACATCTAGGTAAAACCCA
* *
385632 GAATGTATTGATACAATGAAGAATGTATCGATACATCTAGGTAAAACCTA
1 GAATGTATCGATACAATGAAGAATGTATCGATACATCTAGGTAAAACCCA
*
385682 GAATGTATCGATACAATGAAGGATGTATCGATACA
1 GAATGTATCGATACAATGAAGAATGTATCGATACA
385717 AATTGTGGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
50 74 0.97
51 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (50 bp):
GAATGTATCGATACAATGAAGAATGTATCGATACATCTAGGTAAAACCCA
Found at i:386348 original size:42 final size:42
Alignment explanation
Indices: 386299--386430 Score: 129
Period size: 42 Copynumber: 3.1 Consensus size: 42
386289 CTGCTTTTCG
*
386299 AGGACAAAGGAAAAAAGGAAATAAAATGCGTCTTGCTCTTTA
1 AGGACAAAGGAAAAAAGGAAATAAAATGCGTCCTGCTCTTTA
** * * * *
386341 AGGACAAAGGAAAAGAAAAAAATTAAGTGTGTCCTGCTCTTTG
1 AGGACAAAGGAAAA-AAGGAAATAAAATGCGTCCTGCTCTTTA
* * * * * * *
386384 AGGATAAAAGAGAAAAGGAAATAAAGTGTGTCCTGCTTTTTG
1 AGGACAAAGGAAAAAAGGAAATAAAATGCGTCCTGCTCTTTA
386426 AGGAC
1 AGGAC
386431 TAAAAAATGC
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 42 0.57
43 32 0.43
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (42 bp):
AGGACAAAGGAAAAAAGGAAATAAAATGCGTCCTGCTCTTTA
Found at i:386564 original size:61 final size:61
Alignment explanation
Indices: 386413--386924 Score: 538
Period size: 61 Copynumber: 8.3 Consensus size: 61
386403 AATAAAGTGT
* * ** * *
386413 GTCCTGCTTTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGTTTTAAGAGGAAAAAGGAAAG
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-A-A--AAAGA-GAAAG
*
386478 T
61 C
* * ** *
386479 GTCCTGCTCTTTGGGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTTGCAAGGAGAAAGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGC
* * * *
386540 ATCTTGCTCTTTGAGGACAAGAAGGTGCCACCAACTTGTGTGGGCTTT-GAAAG-GAAAGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGC
* * * *
386599 GTCCTACTCTTTGAGGACTGGAATGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGC
* * *
386660 GTCCTACTCTTTAAGGACT-GATAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGC
1 GTCCTGCTCTTTGAGGACTAGA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAA-GC
* *
386721 GTCTTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGTTTTAAAATA-A-AAAGGC
1 GTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AGAGAAA-GC
* * * * *
386782 GTCCTGCTCTTTGAGGACCAAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAAAGAGAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAAGAGAAAGC
* *
386844 G-CCATGCTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAGAAGGC
1 GTCC-TGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAA-GAGAAAGC
*
386906 GTCTTGCTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
386925 GAAAGGATTA
Statistics
Matches: 383, Mismatches: 48, Indels: 33
0.83 0.10 0.07
Matches are distributed among these distances:
59 48 0.13
60 12 0.03
61 206 0.54
62 72 0.19
63 4 0.01
66 41 0.11
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGC
Found at i:386642 original size:120 final size:120
Alignment explanation
Indices: 386468--386923 Score: 544
Period size: 120 Copynumber: 3.8 Consensus size: 120
386458 TTTAAGAGGA
* * * ** *
386468 AAAAGGAAAGTGTCCTGCTCTTTGGGGACT-AGAAGGTGCCATCAACTTGTGTGGGCTTTGCAAG
1 AAAAGGAAAGCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAA
* * *
386532 GAGAAAGCATCTTGCTCTTTGAGGACAAGAAGGTGCCACCAACTTGTGTGGGCTTT
65 GAAAAAGCGTCCTGCTCTTTGAGGACAAGAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
386588 GAAAGGAAAGCGTCCTACTCTTTGAGGACTGGAATGTGCCACCAACTTGTGTGGGCTTTAAAAAG
1 AAAAGGAAAGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
* * *
386653 AAAAAGCGTCCTACTCTTTAAGGAC-TGATAGGTGCCACCAACTTGTGTGGGCTTT
66 AAAAAGCGTCCTGCTCTTTGAGGACAAGA-AGGTGCCACCAACTTGTGTGGGCTTT
* *
386708 AAAAGGAAAAGGCGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTAAAA
1 AAAAGG-AAA-GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
* * *
386773 TA-AAAAGGCGTCCTGCTCTTTGAGGACCAA-AAAGTGCCACCAACTTGTGTGAGCTTT
64 -AGAAAAAGCGTCCTGCTCTTTGAGGA-CAAGAAGGTGCCACCAACTTGTGTGGGCTTT
* *
386830 AAAAAAGAGAAGGCG-CCATGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 --AAAAG-GAAAGCGTCC-TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * *
386894 AAAGGAGAAGGCGTCTTGCTCTTTGAGGAC
62 AAA-GAAAAAGCGTCCTGCTCTTTGAGGAC
386924 TGAAAGGATT
Statistics
Matches: 289, Mismatches: 34, Indels: 23
0.84 0.10 0.07
Matches are distributed among these distances:
119 2 0.01
120 105 0.36
121 3 0.01
122 96 0.33
123 53 0.18
124 29 0.10
125 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (120 bp):
AAAAGGAAAGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
AAAAAGCGTCCTGCTCTTTGAGGACAAGAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:386732 original size:181 final size:182
Alignment explanation
Indices: 386413--386930 Score: 614
Period size: 181 Copynumber: 2.8 Consensus size: 182
386403 AATAAAGTGT
* * * * * *
386413 GTCCTGCTTTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGTTTTAAGAGGAAAAAGGAAAG
1 GTCCTACTCTTTGAGGACCAAAAAGTGCCACCAACTTGTGTGGGCTTTAA-A--AAGAA--AAAG
* * * ** *
386478 TGTCCTGCTCTTTGGGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTTGCAAGGAGAAA-GCAT
61 CGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCGT
* **
386542 CTTGCTCTTTGAGGACA-AGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GGAAA-GC
124 CTTGCTCTTTGAGGACAGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAATAAAAAGGC
*** *
386599 GTCCTACTCTTTGAGGACTGGAATGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCGTCC
1 GTCCTACTCTTTGAGGACCAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCGTCC
* *
386664 TACTCTTTAAGGACTGATAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCT
66 TGCTCTTTGAGGACTGA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCT
* *
386729 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTAAAATAAAAAGGC
130 CTTTGAGGACAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAATAAAAAGGC
* * * *
386782 GTCCTGCTCTTTGAGGACCAAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAAAGAGAAGGCG-C
1 GTCCTACTCTTTGAGGACCAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAAGAAAAAGCGTC
* *
386846 CATGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAGAAGGCGTCTT
65 C-TGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCTT
*
386911 GCTCTTTGAGGACTGAAAGG
127 GCTCTTTGAGGACAGAAAGG
386931 ATTAAAGGTT
Statistics
Matches: 290, Mismatches: 33, Indels: 19
0.85 0.10 0.06
Matches are distributed among these distances:
180 5 0.02
181 98 0.34
182 4 0.01
183 50 0.17
184 51 0.18
185 39 0.13
186 43 0.15
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (182 bp):
GTCCTACTCTTTGAGGACCAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCGTCC
TGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCTC
TTTGAGGACAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAATAAAAAGGC
Found at i:388559 original size:79 final size:80
Alignment explanation
Indices: 388388--388636 Score: 231
Period size: 79 Copynumber: 3.1 Consensus size: 80
388378 AAAACGGGGC
** *
388388 TGGAGTATCCCCGATTATGAAAAATCAGTGTTCTAGAAATAAAAATCGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTATGAAAAATCAGTGTTCTAGAAATAAAAATCGGAATTGGAGTATCCCCA
* *
388453 TGGAAATAACAGGGT
66 TGAAAATAACAAGGT
* * *
388468 TAGAGTATCCCCGATTAT-AGAAAATCGGTGTT-TTGAAA-ATAAAATCGGAATAT-GAGTATCC
1 TGGAGTATCCCCGATTATGA-AAAATCAGTGTTCTAGAAATA-AAAATCGGAAT-TGGAGTATCC
*
388529 CCATGAAAATAATAAGGT
63 CCATGAAAATAACAAGGT
* * * * * * * **
388547 TGGAGTATCCCCGACTGTGAGAAATCAATATTTTAGAAAT-AAAGTCGGGGTTGGAGTATCCCC-
1 TGGAGTATCCCCGATTATGAAAAATCAGTGTTCTAGAAATAAAAATCGGAATTGGAGTATCCCCA
* **
388610 TCAGAAATAACGGGGT
66 TGA-AAATAACAAGGT
388626 TGGAGTATCCC
1 TGGAGTATCCC
388637 AGATGAAATA
Statistics
Matches: 137, Mismatches: 24, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
78 4 0.03
79 98 0.72
80 35 0.26
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (80 bp):
TGGAGTATCCCCGATTATGAAAAATCAGTGTTCTAGAAATAAAAATCGGAATTGGAGTATCCCCA
TGAAAATAACAAGGT
Found at i:388627 original size:28 final size:29
Alignment explanation
Indices: 388592--388664 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 29
388582 GAAATAAAGT
*
388592 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCCACATGAAATAA
*
388620 CGGGGTTGGAGTAT-CCCAGATGAAATAA
1 CGGGGTTGGAGTATCCCCACATGAAATAA
*
388648 CAGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
388665 TGATTGTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 4 0.10
28 34 0.85
29 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCACATGAAATAA
Found at i:388632 original size:107 final size:107
Alignment explanation
Indices: 388521--388716 Score: 268
Period size: 107 Copynumber: 1.8 Consensus size: 107
388511 ATCGGAATAT
* *
388521 GAGTATCCC-CATGAAAATAATAAGGTTGGAGTATCCCCGACTGTGAGAAATCAATATTTTAGAA
1 GAGTATCCCACATG-AAATAACAAGGTTGGAGTATCCCCGACTGTGAAAAATCAATATTTTAGAA
* *
388585 ATAAAGTCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
65 ATAAAATCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
* * * * ** * *
388628 GAGTATCCCAGATGAAATAACAGGGTTGGAGTATCCCTGATTGTGAAAAATTGATGTTTTTGAAA
1 GAGTATCCCACATGAAATAACAAGGTTGGAGTATCCCCGACTGTGAAAAATCAATATTTTAGAAA
388693 TAAAATCGGAGTTGGAGTATCCCC
66 TAAAATCGGAGTTGGAGTATCCCC
388717 GATTACGGAA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
107 73 0.96
108 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (107 bp):
GAGTATCCCACATGAAATAACAAGGTTGGAGTATCCCCGACTGTGAAAAATCAATATTTTAGAAA
TAAAATCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
Found at i:388729 original size:51 final size:51
Alignment explanation
Indices: 388652--388767 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
388642 AAATAACAGG
* ** * *
388652 GTTGGAGTATCCCTGATTGTGAAAAATTGATGTTTTTGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAACCGGA
* *
388703 GTTGGAGTATCCCCGATTACGGAAAATTGATGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAACCGGA
*
388754 GTTAGAGTATCCCC
1 GTTGGAGTATCCCC
388768 TTGGAAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAACCGGA
Found at i:388842 original size:51 final size:51
Alignment explanation
Indices: 388782--388896 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
388772 AAATAATAGG
* *
388782 GTTAGAGTATCCTCAATGGTGAAAAATCGATGTTTTGGAAATAAAA-CAGGA
1 GTTAGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAATAAAATC-GGA
* * *
388833 GTTAGAGTATCCCCAATTGTGGAAAATTGATGTTTTAGAAATAAAATCGGA
1 GTTAGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAATAAAATCGGA
*
388884 G-TGGAGTATCCCC
1 GTTAGAGTATCCCC
388897 TTGGAAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 11 0.19
51 45 0.79
52 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (51 bp):
GTTAGAGTATCCCCAATGGTGAAAAATCGATGTTTTAGAAATAAAATCGGA
Found at i:388945 original size:129 final size:130
Alignment explanation
Indices: 388641--388975 Score: 453
Period size: 130 Copynumber: 2.6 Consensus size: 130
388631 TATCCCAGAT
*
388641 GAAATAACAGGGTTGGAGTATCC-CTGATTGTGAAAAATTGATGTTTTTGAAATAAAATCGGAGT
1 GAAATAACAGGGTTGGAGTATCCTC-GATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGT
* * *
388705 TGGAGTATCCCCGATTACGGAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTT
65 TAGAGTATCCCCAATTACGGAAAATTGATGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCCTT
388770 G
130 G
* * * * *
388771 GAAATAATAGGGTTAGAGTATCCTCAATGGTGAAAAATCGATGTTTTGGAAATAAAA-CAGGAGT
1 GAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTGGAAATAAAATC-GGAGT
** * *
388835 TAGAGTATCCCCAATTGTGGAAAATTGATGTTTTAGAAATAAAATCGGAG-TGGAGTATCCCCTT
65 TAGAGTATCCCCAATTACGGAAAATTGATGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCCTT
388899 G
130 G
* * * *
388900 GAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGAAAATAAAATC-GAGAT
1 GAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAG-T
*
388964 TGGAGTATCCCC
65 TAGAGTATCCCC
388976 TCGGAAATAA
Statistics
Matches: 178, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
128 3 0.02
129 75 0.42
130 99 0.56
131 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (130 bp):
GAAATAACAGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTT
AGAGTATCCCCAATTACGGAAAATTGATGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCCTTG
Found at i:388997 original size:79 final size:78
Alignment explanation
Indices: 388837--389035 Score: 274
Period size: 79 Copynumber: 2.5 Consensus size: 78
388827 ACAGGAGTTA
* * * *
388837 GAGTATCCCCAATTGTGGAAAATTGATGTTTT-AGAAATAAAATCGGAGTGGAGTATCCCCTTGG
1 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTGA-AAATAAAATCGGAGTGGAGTATCCCCTCGG
388901 AAATAACGGGGTTG
65 AAATAACGGGGTTG
* * *
388915 GAGTATCCTCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGAGATTGGAGTATCCCCTCGG
1 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCG-GAGTGGAGTATCCCCTCGG
*
388980 AAATAATGGGGTTG
65 AAATAACGGGGTTG
* * *
388994 GAGTATCCCCGATTGTAAAAAATTAGTGTTTTGGAAATAAAA
1 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAA
389036 ACATGAATGA
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
78 38 0.36
79 68 0.64
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (78 bp):
GAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTGGAGTATCCCCTCGGA
AATAACGGGGTTG
Found at i:390694 original size:20 final size:20
Alignment explanation
Indices: 390666--390715 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
390656 CACTGTTTGC
*
390666 ATCGATACATGGT-ACATTGT
1 ATCGATACATGATGA-ATTGT
*
390686 ATTGATACATGATGAATTGT
1 ATCGATACATGATGAATTGT
390706 ATCGATACAT
1 ATCGATACAT
390716 TGCTTGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (20 bp):
ATCGATACATGATGAATTGT
Found at i:399380 original size:13 final size:13
Alignment explanation
Indices: 399362--399386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
399352 ATTATGCTTG
399362 GTATCGATACATT
1 GTATCGATACATT
399375 GTATCGATACAT
1 GTATCGATACAT
399387 GCTCATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:399416 original size:20 final size:19
Alignment explanation
Indices: 399370--399426 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
399360 TGGTATCGAT
399370 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* * *
399389 TCATTGTATAGATACATGG
1 ACATTGTATCGATACATGC
399408 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
399427 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:399501 original size:20 final size:20
Alignment explanation
Indices: 399367--399508 Score: 85
Period size: 20 Copynumber: 7.0 Consensus size: 20
399357 GCTTGGTATC
399367 GATACATTGTATCGATACAT
1 GATACATTGTATCGATACAT
* *
399387 GCT-CATTGTATAGATACAT
1 GATACATTGTATCGATACAT
*
399406 G-GACAATTGTATCGATACAT
1 GATAC-ATTGTATCGATACAT
* * * * * *
399426 GAAAC-TGGCAGTAGCTACCT
1 GATACATTGTA-TCGATACAT
* *
399446 TATCACTATTTGTATTGATACAT
1 GAT-AC-A-TTGTATCGATACAT
*
399469 GATACATTATATCGATACAT
1 GATACATTGTATCGATACAT
*
399489 GATTA-ATTGTATCAATACAT
1 GA-TACATTGTATCGATACAT
399509 TGCTTGTAAC
Statistics
Matches: 91, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
19 20 0.22
20 51 0.56
21 7 0.08
22 2 0.02
23 8 0.09
24 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
GATACATTGTATCGATACAT
Found at i:401413 original size:20 final size:20
Alignment explanation
Indices: 401388--401442 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
401378 GTAAACCCAG
401388 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
401408 AATGTACCGATACAATGAAC
1 AATGTATCGATACAATGAAC
401428 AATGTATCGATACAA
1 AATGTATCGATACAA
401443 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:402143 original size:41 final size:41
Alignment explanation
Indices: 402058--402158 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
402048 TCCCACTTTT
* * *
402058 TGAGGACAAAGG-AAAAGAGAATGAAATGGGTCTTGCTTCT
1 TGAGGACAAAGGAAAAAGAAAAGGAAATGGGTCTTGCTTCA
*
402098 TGAGGACAAAGGAAGAAAGAAAAGGAAA-GTGTCTTGCTTCA
1 TGAGGACAAAGGAA-AAAGAAAAGGAAATGGGTCTTGCTTCA
402139 TGAGGACAAAGTGAAAAAGA
1 TGAGGACAAAG-GAAAAAGA
402159 GTACGTCCTA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
40 12 0.22
41 28 0.52
42 14 0.26
ACGTcount: A:0.44, C:0.09, G:0.30, T:0.18
Consensus pattern (41 bp):
TGAGGACAAAGGAAAAAGAAAAGGAAATGGGTCTTGCTTCA
Found at i:402305 original size:46 final size:44
Alignment explanation
Indices: 402162--402585 Score: 313
Period size: 46 Copynumber: 9.7 Consensus size: 44
402152 AAAAAGAGTA
* * * * *
402162 CGTCCTACT-TTTCGAGGACAAAA-GAAAAAAAGAAAAACGAATTG
1 CGTCCTGCTCTTT-GAGGACAAAAGGAAAAGAAG-GAAATGAAATG
*
402206 CGTCTTGCTCTTTGAGGACAAAA-G-AAA-AAGGAAAAT-AAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGG-AAATGAAA-TG
* * * *
402248 CGTCCTACTCTTTGAGAACTAGAAAGGAAAAGAAAGAAATGAAGTG
1 CGTCCTGCTCTTTGAGGAC-A-AAAGGAAAAGAAGGAAATGAAATG
*
402294 CATCCTGCTCTTTGAGGACAAAAGGGGAAAAGAAGGAAATTGAATAT-
1 CGTCCTGCTCTTTGAGGACAAAA--GGAAAAGAAGGAAA-TGAA-ATG
* * * *
402341 -GTCCTACTCTTTGAGGA-TAGAGGAAAA-AAGGAAATGACA--
1 CGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATGAAATG
* * * *
402380 CATCCTGCTCTTTGAGGAC-AAAGAAAAAGAAGGAAGTTAAATG
1 CGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATGAAATG
* * * *
402423 TGTCATGCTCTTTGAAGAC-AAAGG-AAA-AAGGAAATTAAAATG
1 CGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAA-TGAAATG
* * * *
402465 CATCCTGGTCTTTGAGGACTAGAAGGGAAAAGAAGGAAATGAAGTG
1 CGTCCTGCTCTTTGAGGAC-A-AAAGGAAAAGAAGGAAATGAAATG
* * * *
402511 CGTCTTGCTCTTTGAGGACAAAGGGACAAGAAAGAAATGAAATG
1 CGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATGAAATG
* *
402555 TGTCCTACTCTTTGAGGACAAAAGAGAAAAG
1 CGTCCTGCTCTTTGAGGACAAAAG-GAAAAG
402586 GAAAAAGCAT
Statistics
Matches: 302, Mismatches: 53, Indels: 49
0.75 0.13 0.12
Matches are distributed among these distances:
40 23 0.08
41 20 0.07
42 54 0.18
43 29 0.10
44 65 0.22
45 17 0.06
46 77 0.25
47 16 0.05
48 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.21
Consensus pattern (44 bp):
CGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATGAAATG
Found at i:402315 original size:88 final size:85
Alignment explanation
Indices: 402162--402618 Score: 287
Period size: 88 Copynumber: 5.3 Consensus size: 85
402152 AAAAAGAGTA
* * * * *
402162 CGTCCTACT-TTTCGAGGACAAAA-GAAAAAAAGAAAAACGAATTGCGTCTTGCTCTTTGAGGAC
1 CGTCCTACTCTTT-GAGAACAAAAGGAAAAAAAG--AAATGAAATGCATCCTGCTCTTTGAGGAC
402225 AAAAGAAA-AAGGAAAATAAAGTG
63 AAAAGAAAGAAGGAAAATAAA-TG
*
402248 CGTCCTACTCTTTGAGAACTAGAAAGGAAAAGAAAGAAATGAAGTGCATCCTGCTCTTTGAGGAC
1 CGTCCTACTCTTTGAGAAC-A-AAAGGAAAA-AAAGAAATGAAATGCATCCTGCTCTTTGAGGAC
* * *
402313 AAAAGGGGAAAAGAAGGAAATTGAATA
63 AAAA---G-AAAGAAGGAAAATAAATG
* * * * * *
402340 TGTCCTACTCTTTGAGGA-TAGAGGAAAAAAGGAAATGACA--CATCCTGCTCTTTGAGGACAAA
1 CGTCCTACTCTTTGAGAACAAAAGGAAAAAAAGAAATGAAATGCATCCTGCTCTTTGAGGACAAA
* **
402402 GAAAAAGAAGGAAGTTAAATG
66 -AGAAAGAAGGAAAATAAATG
* * * * * *
402423 TGTCATGCTCTTTGA-AGAC-AAAGG-AAAAAGGAAATTAAAATGCATCCTGGTCTTTGAGGACT
1 CGTCCTACTCTTTGAGA-ACAAAAGGAAAAAAAGAAA-TGAAATGCATCCTGCTCTTTGAGGAC-
* *
402485 AGAAGGGAAAAGAAGG-AAATGAAGTG
63 A-AA-AG-AAAGAAGGAAAAT-AAATG
* * * * * ** *
402511 CGTCTTGCTCTTTGAGGACAAAGGGACAAGAAAGAAATGAAATGTGTCCTACTCTTTGAGGACAA
1 CGTCCTACTCTTTGAGAACAAAAGGA-AAAAAAGAAATGAAATGCATCCTGCTCTTTGAGGACAA
402576 AAGAGAA-AAGG--AA-AAA-G
65 AAGA-AAGAAGGAAAATAAATG
* *
402593 CATCCTACTCTTTGAGGACTAAAAGG
1 CGTCCTACTCTTTGAGAAC-AAAAGG
402619 TGCCACCAAC
Statistics
Matches: 297, Mismatches: 48, Indels: 55
0.74 0.12 0.14
Matches are distributed among these distances:
82 27 0.09
83 43 0.14
85 20 0.07
86 42 0.14
87 13 0.04
88 70 0.24
89 18 0.06
90 25 0.08
91 9 0.03
92 20 0.07
93 10 0.03
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (85 bp):
CGTCCTACTCTTTGAGAACAAAAGGAAAAAAAGAAATGAAATGCATCCTGCTCTTTGAGGACAAA
AGAAAGAAGGAAAATAAATG
Found at i:402682 original size:62 final size:62
Alignment explanation
Indices: 402580--403107 Score: 636
Period size: 62 Copynumber: 8.5 Consensus size: 62
402570 GGACAAAAGA
* * * ** *
402580 GAAAAGGAAAAA-GCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGCTTT
1 GAAAA-GAAAAAGGCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT
402642 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
402704 GAAAAGAAAAAAGTGTCCTGCTCTTTGAAGACTAGAAATGTGCCACCAAATTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AGAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
402767 G-AAAGGAAAAGCCGTCATGCTCTTTGAGGACT-GGAAGGTACCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAG-AGGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
402828 AAAAAGAAAAAGACATTCTGCTCTTTGAAGACTAAGAGGTGCCAGCAACTTGTATGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT
* * *
402890 GAAAAAAAAAAGGCGTCTTGCTCTTTGAGGACTAAGAGGTGCCACTAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
402952 GAAAAGAAAAAGGCATCCTGCTTTTTGAGGACTAAAAGGGTGCCACCAACTT-TGTGGGCTTC
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAGA-GGTGCCACCAACTTGTGTGGGCTTT
* * * *
403014 G-AAAGGAAAAGGCATCCTGCTCTTTGAGGATTAA-AGGGTGCCACCAACTAGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAGA-GGTGCCACCAACTTGTGTGGGCTTT
*
403075 GAAAAGAAAAAAGGCGTCCTGCTCTTCGAGGAC
1 GAAAAG-AAAAAGGCGTCCTGCTCTTTGAGGAC
403108 AAAAAAGGGC
Statistics
Matches: 397, Mismatches: 60, Indels: 17
0.84 0.13 0.04
Matches are distributed among these distances:
60 15 0.04
61 69 0.17
62 251 0.63
63 62 0.16
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (62 bp):
GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:409419 original size:79 final size:77
Alignment explanation
Indices: 409251--409548 Score: 247
Period size: 79 Copynumber: 3.8 Consensus size: 77
409241 AACGGGTCTA
* * * *
409251 GAGTATCCCCGATTATGGAAAATCGGTGTTCTAGAAATAAAAATCAGGGTCGGAGTATCCCCTCG
1 GAGTATCCCCGATTAT-GAAAATCGGTGTTTTAGAAAT-AAAATC-GGGTTGGAGTATCCCCGCA
*
409316 AAAATAACAGTGTTG
63 AAAATAACAGGGTTG
* * **
409331 GAGTTTCCCCGATTATAGAAAATCGGTGTTTTAAAAATAAAATCGGGATTGGAGTATCTTCGCAA
1 GAGTATCCCCGATTAT-GAAAATCGGTGTTTTAGAAATAAAATCGGG-TTGGAGTATCCCCGCAA
**
409396 AAATAATGGGGTTG
64 AAATAACAGGGTTG
* *** * * * *
409410 GAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCAG
1 GAGTATCCCCGATTATGA-AAATCGGTGTTTTAGAAATAAAATC-GGGTTGGAGTATCCCCGCAA
409475 AAATAAC-GTGGTTG
64 AAATAACAG-GGTTG
* * * * ** * * *
409489 AAGTATCCCTGATTGTGAAAAATTGAAGTTTTGGAAATAAAATTGGAGTTTGAGTATCCC
1 GAGTATCCCCGATTATG-AAAATCGGTGTTTTAGAAATAAAATCGG-GTTGGAGTATCCC
409549 TAATTGTGGA
Statistics
Matches: 178, Mismatches: 34, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
78 8 0.04
79 132 0.74
80 38 0.21
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (77 bp):
GAGTATCCCCGATTATGAAAATCGGTGTTTTAGAAATAAAATCGGGTTGGAGTATCCCCGCAAAA
ATAACAGGGTTG
Found at i:409548 original size:51 final size:51
Alignment explanation
Indices: 409485--409597 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
409475 AAATAACGTG
* * * * *
409485 GTTGAAGTATCCCTGATTGTGAAAAATTGAA-GTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCTAATTGTGAAAAATT-AATGTTATAGAAATAAAACTGGA
* * * *
409536 GTTTGAGTATCCCTAATTGTGGACAATTAATGTTATAGAAATAAAACTGGG
1 GTTGGAGTATCCCTAATTGTGAAAAATTAATGTTATAGAAATAAAACTGGA
409587 GTTGGAGTATC
1 GTTGGAGTATC
409598 TCCTTGGAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 2 0.04
51 49 0.96
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.34
Consensus pattern (51 bp):
GTTGGAGTATCCCTAATTGTGAAAAATTAATGTTATAGAAATAAAACTGGA
Found at i:409555 original size:130 final size:128
Alignment explanation
Indices: 409406--409790 Score: 407
Period size: 130 Copynumber: 3.0 Consensus size: 128
409396 AAATAATGGG
*
409406 GTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAGAAATTAATGTTTTAGAAATAAA-TCGGGGTTGGAGTATCCCC
* * * **
409471 TCAGAAATAACGTGGTTGAAGTATCCCTGATTGTGAAAAATTGAAGTTTTGGAAATAAAATTGGA
65 TC-GAAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGA
* ** * *
409536 GTTTGAGTATCCCTAATTGTG-GACAATTAATGTTATAGAAATAAAACTGGGGTTGGAGTATCTC
1 GTTGGAGTATCCCCGATTGTGAGA-AATTAATGTTTTAGAAATAAATC-GGGGTTGGAGTATC-C
* * * * * *
409600 CTTGGAAATAACGGGGTT-AGAGTATCCCCGATGGTGAAAAATCGATCTTTTGGAAATATAACCG
63 CCTCGAAATAACGGGGTTGA-AGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACCG
*
409664 GG
127 GA
* * *** * *
409666 GTTGGAGTATCCCCGATTATGAAAAATTGGCGTTTT-GAAAATAAATTTGGGATTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGAGAAATTAATGTTTTAG-AAATAAA-TCGGGGTTGGAGTATCCC
* * * *
409730 CTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAAATGGTGTTTTGGAAATAAAA
64 CTCG-AAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAA
409791 ACATGAATGA
Statistics
Matches: 206, Mismatches: 40, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
129 9 0.04
130 193 0.94
131 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (128 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAATGTTTTAGAAATAAATCGGGGTTGGAGTATCCCCT
CGAAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGA
Found at i:409702 original size:51 final size:50
Alignment explanation
Indices: 409607--409730 Score: 126
Period size: 51 Copynumber: 2.4 Consensus size: 50
409597 CTCCTTGGAA
* * * *
409607 ATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATCTTTTGGAAAT
1 ATAACGGGGTTGGAGTATCCCCGATGATGAAAAATCGAGCTTTTGAAAAT
* *
409657 ATAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTG-GCGTTTTGAAAAT
1 ATAA-CGGGGTTGGAGTATCCCCGATGATGAAAAATCGAGC-TTTTGAAAAT
* *
409708 A-AATTTGGGATTGGAGTATCCCC
1 ATAA--CGGGGTTGGAGTATCCCC
409731 TCGAAAATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
50 7 0.11
51 55 0.89
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (50 bp):
ATAACGGGGTTGGAGTATCCCCGATGATGAAAAATCGAGCTTTTGAAAAT
Found at i:413325 original size:51 final size:51
Alignment explanation
Indices: 413256--413474 Score: 208
Period size: 51 Copynumber: 4.3 Consensus size: 51
413246 GAAATAACGA
** * * *
413256 GGTTGGAGTATCATCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAG
* * * * *
413307 AGTTGGAATATCCGCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCAG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAG
* * * * ** * *
413358 GGTTAGAGTATCCCCGATGGTGAAAAATCGATCATTTAGAAATATAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAG
* * **
413409 GGTTGGAGTATCCCCGATTATGAAAAATTGGCGTTTT-GAAAATAAAA-TTG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAG-AAATAAAACCAG
413459 GGATTGGAGTATCCCC
1 GG-TTGGAGTATCCCC
413475 TCGAAAATAA
Statistics
Matches: 133, Mismatches: 33, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
50 4 0.03
51 129 0.97
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAG
Found at i:417070 original size:51 final size:50
Alignment explanation
Indices: 417001--417219 Score: 206
Period size: 51 Copynumber: 4.3 Consensus size: 50
416991 GAAATAACGA
** * * *
417001 GGTTGGAGTATCATCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCG
* * * *
417051 GAGTTGGAATATCCGCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCAG
1 G-GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACC-G
* * * * * *
417103 GGTTAGAGTATCCCCGATGGTGAAAAATCGATCTTTTAGAAATATAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACC-G
* * * **
417154 GGTTGGTGTATCCCCGATTATGAAAAATTGGCGTTTT-GAAAATAAAATTG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAG-AAATAAAACCG
417204 GGATTGGAGTATCCCC
1 GG-TTGGAGTATCCCC
417220 TCGAAAATAA
Statistics
Matches: 134, Mismatches: 31, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
50 5 0.04
51 127 0.95
52 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCG
Found at i:420814 original size:51 final size:50
Alignment explanation
Indices: 420745--420963 Score: 206
Period size: 51 Copynumber: 4.3 Consensus size: 50
420735 GAAATAACGA
** * * *
420745 GGTTGGAGTATCATCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCG
* * * *
420795 GAGTTGGAATATCCGCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCAG
1 G-GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACC-G
* * * * * *
420847 GGTTAGAGTATCCCCGATGGTGAAAAATCGATCTTTTAGAAATATAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACC-G
* * * **
420898 GGTTGGTGTATCCCCGATTATGAAAAATTGGCGTTTT-GAAAATAAAATTG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAG-AAATAAAACCG
420948 GGATTGGAGTATCCCC
1 GG-TTGGAGTATCCCC
420964 TCGAAAATAA
Statistics
Matches: 134, Mismatches: 31, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
50 5 0.04
51 127 0.95
52 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCG
Found at i:424603 original size:51 final size:50
Alignment explanation
Indices: 424489--424603 Score: 131
Period size: 51 Copynumber: 2.3 Consensus size: 50
424479 GAAATAACGA
** * *
424489 GGTTGGAGTATCATCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCGCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCG
* * * *
424539 GAGTTGGAATATCCGCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCAG
1 G-GTTGGAGTATCCGCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACC-G
*
424591 GGTTTGAGTATCC
1 GGTTGGAGTATCC
424604 CCTCGAAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
50 1 0.02
51 50 0.94
52 2 0.04
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (50 bp):
GGTTGGAGTATCCGCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCG
Found at i:424731 original size:27 final size:27
Alignment explanation
Indices: 424669--424743 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
424659 AATAAAACCG
424669 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATAAATAAC
* *
424697 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATAAATAAC
424724 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
424744 TGTGAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.64
28 13 0.30
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATAAATAAC
Found at i:424816 original size:52 final size:51
Alignment explanation
Indices: 424727--425119 Score: 336
Period size: 51 Copynumber: 7.5 Consensus size: 51
424717 GATTAACGGG
* *
424727 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATTAGTG-TTTTGAAAATAAAATCGGA
* * * *
424779 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-ATGGAAAATTAGTGTTTTGAAAATAAAATCGGA
* * * *
424831 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGAAAATAAAATCGGA
* * * *
424882 GTTGGAGTATCCCCGATTGTGGAAAATTAATGTTTT-AGAAATAAAACCGGGG
1 GTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGA-AAATAAAATC-GGA
* * * * * * * *
424934 GTTGGAGTATCCCC-----TCGAAAATAACGGGGTTGGAGTATCCCCGATGATTAA-CGGG
1 GTTGGAGTATCCCCGATTATGGAAAATTA-GTGTTTTGA--A-----AAT-A-AAATCGGA
* *
424989 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGGAAAATTAGTG-TTTTGAAAATAAAATCGGA
*
425041 GTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTT-AGAAATAAAACTAGG-
1 GTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGA-AAATAAAA-TCGGA
*
425092 GTTGGAGTATCCCCGATTATGAAAAATT
1 GTTGGAGTATCCCCGATTATGGAAAATT
425120 GAGAAACTTA
Statistics
Matches: 278, Mismatches: 41, Indels: 45
0.76 0.11 0.12
Matches are distributed among these distances:
47 8 0.03
48 3 0.01
49 1 0.00
50 3 0.01
51 110 0.40
52 104 0.37
53 12 0.04
55 19 0.07
56 2 0.01
57 2 0.01
58 1 0.00
59 2 0.01
60 11 0.04
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:424935 original size:103 final size:104
Alignment explanation
Indices: 424723--424947 Score: 339
Period size: 103 Copynumber: 2.2 Consensus size: 104
424713 CGATGATTAA
* *
424723 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTGAAAATAAAATCGGAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTCGAAAATAAAATCGAAGTTGGAGTA
**
424788 TCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
66 TCCCCGATTAAAGGAAAATTAATGTTTTGAAAATAAAAC
* *
424827 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTCGAAAATAAAATCGAAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTCGAAAATAAAATCGAAGTTGGAGTA
**
424891 TCCCCGATT-GTGGAAAATTAATGTTTT-AGAAATAAAAC
66 TCCCCGATTAAAGGAAAATTAATGTTTTGA-AAATAAAAC
424929 CGGGGGTTGGAGTATCCCC
1 C-GGGGTTGGAGTATCCCC
424948 TCGAAAATAA
Statistics
Matches: 111, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
101 1 0.01
102 24 0.22
103 52 0.47
104 34 0.31
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (104 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTCGAAAATAAAATCGAAGTTGGAGTA
TCCCCGATTAAAGGAAAATTAATGTTTTGAAAATAAAAC
Found at i:424993 original size:27 final size:27
Alignment explanation
Indices: 424931--425005 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
424921 AATAAAACCG
424931 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATAAATAAC
* *
424959 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATAAATAAC
424986 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
425006 TATGAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.64
28 13 0.30
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATAAATAAC
Found at i:427490 original size:19 final size:21
Alignment explanation
Indices: 427466--427517 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
427456 AGCGATACAC
*
427466 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
427485 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
*
427506 TGTATTGATACA
1 TGTATCGATACA
427518 AATTATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.41
20 5 0.17
21 12 0.41
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:428512 original size:61 final size:60
Alignment explanation
Indices: 428410--428781 Score: 392
Period size: 61 Copynumber: 6.3 Consensus size: 60
428400 GTGCGTCATA
* *
428410 CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGTATCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-GCATCCTG
* * * * *
428471 CCCTTTAAGGACTGGAAGGTGCCACCAACTTTTGTGGGCTTTGCAAAA-AGAAAGCATCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGA-AAAGCATCCTG
* * * * *
428532 CTTTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAAGCATCCTG
** * *
428593 CTCTTTGAGGACTG-AAAGTGCCACCGGCTTATGTGGGCTTTG-AAAG--GAG--TCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCATCCTG
* * * **
428647 CTCTTGGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGTGTCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAGCATCCTG
* *
428708 TTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG----GCGTCCTG
1 CTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCATCCTG
428764 CTCTTTGAGGACT-AAAAG
1 CTCTTTGAGGACTGAAAAG
428782 GGCAAAAGGA
Statistics
Matches: 262, Mismatches: 38, Indels: 29
0.80 0.12 0.09
Matches are distributed among these distances:
54 23 0.09
55 24 0.09
56 23 0.09
59 6 0.02
60 28 0.11
61 123 0.47
62 35 0.13
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (60 bp):
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCATCCTG
Found at i:428683 original size:115 final size:116
Alignment explanation
Indices: 428410--428781 Score: 460
Period size: 115 Copynumber: 3.2 Consensus size: 116
428400 GTGCGTCATA
* * *
428410 CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGTATCCTGCCCT
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGTGTCCTGCTCT
* * * * *
428475 TTAAGGACTGGAAGGTGCCACCAACTTTTGTGGGCTTTGCAAAAAGAAAGCATCCTG
66 TTGAGGACTAGAAAGTGCCACCAACTTATGTGGGCTTTG---AAAG-GAG--TCCTG
* * * * *
428532 CTTTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCCTGCTCT
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGTGTCCTGCTCT
**
428597 TTGAGGACT-GAAAGTGCCACCGGCTTATGTGGGCTTTGAAAGGAGTCCTG
66 TTGAGGACTAGAAAGTGCCACCAACTTATGTGGGCTTTGAAAGGAGTCCTG
* * * * *
428647 CTCTTGGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGTGTCCTGTTCT
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGTGTCCTGCTCT
* * *
428712 TTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
66 TTGAGGACTAG-AAAGTGCCACCAACTTATGTGGGCTTTGAAAGGAGTCCTG
428764 CTCTTTGAGGACT-AAAAG
1 CTCTTTGAGGACTGAAAAG
428782 GGCAAAAGGA
Statistics
Matches: 217, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
115 69 0.32
116 5 0.02
117 49 0.23
118 4 0.02
121 25 0.12
122 65 0.30
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (116 bp):
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGTGTCCTGCTCT
TTGAGGACTAGAAAGTGCCACCAACTTATGTGGGCTTTGAAAGGAGTCCTG
Found at i:428741 original size:62 final size:61
Alignment explanation
Indices: 428641--428756 Score: 187
Period size: 62 Copynumber: 1.9 Consensus size: 61
428631 TTTGAAAGGA
* *
428641 GTCCTGCTCTTGGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGT
1 GTCCTGCTCTTGGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGT
* *
428702 GTCCTGTTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 GTCCTGCTCTTGGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
428757 CGTCCTGCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
61 17 0.34
62 33 0.66
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (61 bp):
GTCCTGCTCTTGGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGT
Found at i:428812 original size:176 final size:173
Alignment explanation
Indices: 428478--428790 Score: 395
Period size: 176 Copynumber: 1.8 Consensus size: 173
428468 CTGCCCTTTA
* *
428478 AGGACTGGAAGGTGCCACCAACTTTTGTGGGCTTTGCAAAAAGAAAGCATCCTGCTTTTTGAAGA
1 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGCTTTTTGAAGA
*
428543 CTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGA
66 CTGAAAAGTGCCACCAACTTGTGTGGGCTTT---AAGAGAAGGCGTCCTGCTCTTTGAGGACTAA
* * ** ** * *
428608 AAGTGCCACCGGCTTATGTGGGCTTTGAAAGGAGTCCTGCTCTTGG
128 AAGGGCAAAAGGCAGATCTGCGCTTTGAAAGGAGTCCTGCTCTTGG
**
428654 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAA-AAAGTGTCCTG-TTCTTTGA
1 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA--AAGAAAGCATCCTGCTT-TTTGA
*
428716 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-A-A-AAGGCGTCCTGCTCTTTGAGGACTA
63 AGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGAAGGCGTCCTGCTCTTTGAGGACTA
428778 AAAGGGCAAAAGG
127 AAAGGGCAAAAGG
428791 AGAGAGCGTC
Statistics
Matches: 123, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
171 33 0.27
172 1 0.01
173 1 0.01
175 5 0.04
176 52 0.42
177 31 0.25
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (173 bp):
AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGCTTTTTGAAGA
CTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAG
GGCAAAAGGCAGATCTGCGCTTTGAAAGGAGTCCTGCTCTTGG
Found at i:429872 original size:16 final size:14
Alignment explanation
Indices: 429853--429901 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
429843 CTTTTCTCTC
*
429853 TTTTTTCTTTGTTTT
1 TTTTTTTTTTG-TTT
429868 GTTTTTTTTTTGTTT
1 -TTTTTTTTTTGTTT
*
429883 TTTTGTTTTTGTTT
1 TTTTTTTTTTGTTT
429897 TTTTT
1 TTTTT
429902 AGAAGAGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 17 0.57
15 3 0.10
16 10 0.33
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTTGTTT
Found at i:429877 original size:19 final size:19
Alignment explanation
Indices: 429861--429898 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
429851 TCTTTTTTCT
429861 TTGTTTTGTTTTTTTTTTG
1 TTGTTTTGTTTTTTTTTTG
*
429880 TTTTTTTGTTTTTGTTTTT
1 TTGTTTTGTTTTT-TTTTT
429899 TTTAGAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (19 bp):
TTGTTTTGTTTTTTTTTTG
Found at i:435363 original size:12 final size:12
Alignment explanation
Indices: 435346--435370 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
435336 ATCATAAACC
435346 CACTGATCAACT
1 CACTGATCAACT
435358 CACTGATCAACT
1 CACTGATCAACT
435370 C
1 C
435371 GGCCTGTATT
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:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (12 bp):
CACTGATCAACT
Found at i:442451 original size:79 final size:79
Alignment explanation
Indices: 442313--442490 Score: 195
Period size: 79 Copynumber: 2.3 Consensus size: 79
442303 AAATAAAACA
* * *
442313 AGGGTTGAAGTGTCCCCGATTATAGAAAATAGATGTTTGAAAAGTAAAGTCAGGATTGGAGTATC
1 AGGGTTGGAGTATCCCCGATTATAGAAAATAGATGTTTGAAAAGTAAAGCCAGGATTGGAGTATC
*
442378 CCCAT-GAAAATAAT
66 CCC-TCGAAAATAAC
* *
442392 AGGGTTGGAGTATCCCCGATTAT-GAGAAATCA-ATATTTTGGAAA-TAAAGCCGAGG-TTGGAG
1 AGGGTTGGAGTATCCCCGATTATAGA-AAAT-AGAT-GTTTGAAAAGTAAAGCC-AGGATTGGAG
* *
442453 TATCCCCTCGGAAGTAAC
62 TATCCCCTCGAAAATAAC
*
442471 GGGGTTGGAGTATCCCCGAT
1 AGGGTTGGAGTATCCCCGAT
442491 GAAATAACGA
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
78 3 0.04
79 71 0.84
80 11 0.13
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.26
Consensus pattern (79 bp):
AGGGTTGGAGTATCCCCGATTATAGAAAATAGATGTTTGAAAAGTAAAGCCAGGATTGGAGTATC
CCCTCGAAAATAAC
Found at i:442485 original size:28 final size:28
Alignment explanation
Indices: 442442--442513 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
442432 GAAATAAAGC
** *
442442 CGAGGTTGGAGTATCCCCTCGGAAGTAA
1 CGAGGTTGGAGTATCCCCGAGGAAATAA
* *
442470 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGAGGTTGGAGTATCCCCGAGGAAATAA
442498 CGAGGTTGGAGTATCC
1 CGAGGTTGGAGTATCC
442514 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCGAGGAAATAA
Found at i:442557 original size:107 final size:107
Alignment explanation
Indices: 442368--442566 Score: 258
Period size: 107 Copynumber: 1.9 Consensus size: 107
442358 AAAGTCAGGA
* *
442368 TTGGAGTATCCCCATGAAAATAATAGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCATGAAAATAAGAGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGG
* * * *
442433 AAATAAAGCCGAGGTTGGAGTATCCCCTCGGAAGTAACGGGG
66 AAATAAAACCAAAGTTGGAATATCCCCTCGGAAGTAACGGGG
* * * * *
442475 TTGGAGTATCCCCGATG-AAATAACGA-GGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTT
1 TTGGAGTATCCCC-ATGAAAATAA-GAGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTT
*
442538 GGAAATAAAATCAAAGTTGGAATATCCCC
64 GGAAATAAAACCAAAGTTGGAATATCCCC
442567 GATTGTGGAG
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
107 74 0.95
108 4 0.05
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (107 bp):
TTGGAGTATCCCCATGAAAATAAGAGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGG
AAATAAAACCAAAGTTGGAATATCCCCTCGGAAGTAACGGGG
Found at i:442615 original size:51 final size:51
Alignment explanation
Indices: 442500--442617 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
442490 TGAAATAACG
*
442500 AGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCA
1 AGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCA
* * * * *
442551 AAGTTGGAATATCCCCGATTGTGGAGAATTGGTG-TTTGAGAAATAAAATCA
1 AGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTG-GAAATAAAATCA
* *
442602 GGGTTCGAGTATCCCC
1 AGGTTGGAGTATCCCC
442618 TCAAAAATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 4 0.07
51 52 0.93
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
AGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCA
Found at i:442650 original size:237 final size:237
Alignment explanation
Indices: 442231--442697 Score: 554
Period size: 237 Copynumber: 2.0 Consensus size: 237
442221 TTGGAGATAA
* *
442231 TAACGGGTTGGAGTATCCCCTCGAAGATAACGGGGTTGGAGAATCCCCGATTGTGAAAAATCGAT
1 TAACGGGTTGGAGTATCCCCTCGAAGATAACGAGGTTGGAGAATCCCCGATTGTGAAAAATAGAT
* *
442296 GATTTAGAAATAAAACAAGGGTTGAAGTGTCCCCGATTATAGAAAATAGATGTTTGAAAAGTAAA
66 GATTTAGAAATAAAACAAGAGTTGAAGTATCCCCGATTATAGAAAATAGATGTTTGAAAAGTAAA
* * * * *
442361 GTCAGGATTGGAGTATCCCCATGAAAATAATAGGGTTGGAGTATCCCCGATTATGAGAAATCAAT
131 ATCAGGATTCGAGTATCCCCATAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCAAT
* * *
442426 ATTTTGGAAATAAAGCC-GAGGTTGGAGTATCCCCTCGGAAG
196 ATTTTAGAAATAAAACCGGAGGTTAGAGTATCCCCTCGGAAG
* *
442467 TAACGGGGTTGGAGTATCCCCGAT-GAA-ATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATT
1 TAAC-GGGTTGGAGTATCCCC--TCGAAGATAACGAGGTTGGAGAATCCCCGATTGTGAAAAA-T
* * * * * * *
442530 AG-TGTTTTGGAAATAAAATCAA-AGTTGGAA-TATCCCCGATTGTGGAGAATTGGTGTTTGAGA
62 AGATGATTTAGAAATAAAA-CAAGAGTT-GAAGTATCCCCGATTATAGAAAATAGATGTTTGA-A
* * *
442592 AA-TAAAATCAGGGTTCGAGTATCCCC-TCAAAAATAACGGGGTTTGAGTATCCCCGATTATGAA
124 AAGTAAAATCAGGATTCGAGTATCCCCAT-AAAAATAACAGGGTTGGAGTATCCCCGATTATGAA
** * *
442655 AAATTGATGTTTTAGAAATAAAACCGGGGGTTAGAGTATCCCC
188 AAATCAATATTTTAGAAATAAAACCGGAGGTTAGAGTATCCCC
442698 GATTATGAAA
Statistics
Matches: 194, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
236 5 0.03
237 159 0.82
238 29 0.15
239 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (237 bp):
TAACGGGTTGGAGTATCCCCTCGAAGATAACGAGGTTGGAGAATCCCCGATTGTGAAAAATAGAT
GATTTAGAAATAAAACAAGAGTTGAAGTATCCCCGATTATAGAAAATAGATGTTTGAAAAGTAAA
ATCAGGATTCGAGTATCCCCATAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCAAT
ATTTTAGAAATAAAACCGGAGGTTAGAGTATCCCCTCGGAAG
Found at i:442696 original size:52 final size:51
Alignment explanation
Indices: 442628--442919 Score: 272
Period size: 51 Copynumber: 5.7 Consensus size: 51
442618 TCAAAAATAA
*
442628 CGGGGTTTGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* * * *
442679 CGGGGGTTAGAGTATCCCCGATTATG-AAAATTTAGTGTTTTTGGAAATAAAAT
1 C-GGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TG-TTTTAGAAATAAAAC
* * * * * * *
442732 CAGAGTTGGAGTATCCCTGATTAAAGGAAAATTGCTATTTT-GAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT-ATGAAAAATTGATGTTTTAG-AAATAAAAC
* * * *
442784 CGGGGTTGGAGTATCCCCGATTGT-AGAGAATT-A-GTGTTTCGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGA-AAAATTGATGT-TTTAG-AAATAAAAC
*** * *
442835 CAAAGTTGGAGTATCCCCGATTGTGGAAAATT-AGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAAC
442886 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
442920 GAAACTTAAC
Statistics
Matches: 193, Mismatches: 35, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
49 1 0.01
50 3 0.02
51 86 0.45
52 78 0.40
53 19 0.10
54 6 0.03
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:442818 original size:104 final size:101
Alignment explanation
Indices: 442636--442914 Score: 373
Period size: 102 Copynumber: 2.7 Consensus size: 101
442626 AACGGGGTTT
* *
442636 GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGGTTAGAGTATCCCCGAT
1 GAGTATCCCCGATTATGGAAAATTG-TGTTTTAGAAATAAAACC-GGGGTTGGAGTATCCCCGAT
* * *
442701 TATGAAAATTTAGTGTTTTTGGAAATAAAATCAGAGTTG
64 TATGAAAATTTAGTG-TTTCGAAAATAAAATCAAAGTTG
* * *
442740 GAGTATCCCTGATTAAAGGAAAATTGCTATTTT-GAAAATAAAACCGGGGTTGGAGTATCCCCGA
1 GAGTATCCCCGATT-ATGGAAAATTG-TGTTTTAG-AAATAAAACCGGGGTTGGAGTATCCCCGA
* *
442804 TTGTAGAGAA-TTAGTGTTTCGAAAATAAAATCAAAGTTG
63 TTAT-GAAAATTTAGTGTTTCGAAAATAAAATCAAAGTTG
*
442843 GAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATT
1 GAGTATCCCCGATTATGGAAAATT-GTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATT
442908 ATGAAAA
65 ATGAAAA
442915 ATTGAGAAAC
Statistics
Matches: 153, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
101 4 0.03
102 45 0.29
103 35 0.23
104 41 0.27
105 28 0.18
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (101 bp):
GAGTATCCCCGATTATGGAAAATTGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATTA
TGAAAATTTAGTGTTTCGAAAATAAAATCAAAGTTG
Found at i:442916 original size:51 final size:51
Alignment explanation
Indices: 442628--442917 Score: 293
Period size: 52 Copynumber: 5.6 Consensus size: 51
442618 TCAAAAATAA
*
442628 CGGGGTTTGAGTATCCCCGATTATGAAAAATT-GATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAG-TGTTTTAGAAATAAAAC
* * * *
442679 CGGGGGTTAGAGTATCCCCGATTATGAAAATTTAGTGTTTTTGGAAATAAAAT
1 C-GGGGTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTAGAAATAAAAC
* * * * * *
442732 CAGAGTTGGAGTATCCCTGATTAAAGGAAAATT-GCTATTTT-GAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT-ATGAAAAATTAG-TGTTTTAG-AAATAAAAC
* * * *
442784 CGGGGTTGGAGTATCCCCGATTGT-AGAGAATTAGTG-TTTCGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTAG-AAATAAAAC
*** * *
442835 CAAAGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAAC
442886 CGGGGTTGGAGTATCCCCGATTATGAAAAATT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATT
442918 GAGAAACTTA
Statistics
Matches: 194, Mismatches: 34, Indels: 22
0.78 0.14 0.09
Matches are distributed among these distances:
50 3 0.02
51 83 0.43
52 85 0.44
53 23 0.12
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAAC
Found at i:445641 original size:13 final size:13
Alignment explanation
Indices: 445623--445652 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
445613 AAAATGCTTG
445623 AATGTATCGATAC
1 AATGTATCGATAC
*
445636 AATGTATCTATAC
1 AATGTATCGATAC
445649 AATG
1 AATG
445653 AACAGTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:446478 original size:28 final size:28
Alignment explanation
Indices: 446447--446507 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
446437 AAGCAAGTTC
446447 TTTTTTTTCTT-TTTTTTTTATTTTGGTT
1 TTTTTTTTCTTCTTTTTTTTATTTT-GTT
* *
446475 TTTTGTTTGTTCTTTTTTTTATTTTGTT
1 TTTTTTTTCTTCTTTTTTTTATTTTGTT
446503 TTTTT
1 TTTTT
446508 GAAAAGGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.85
Consensus pattern (28 bp):
TTTTTTTTCTTCTTTTTTTTATTTTGTT
Found at i:446493 original size:17 final size:16
Alignment explanation
Indices: 446447--446507 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 16
446437 AAGCAAGTTC
*
446447 TTTT-TTTTCTTTTTT
1 TTTTATTTTGTTTTTT
*
446462 TTTTATTTTG---GTT
1 TTTTATTTTGTTTTTT
*
446475 TTTT-GTTTGTTCTTTT
1 TTTTATTTTGTT-TTTT
446491 TTTTATTTTGTTTTTT
1 TTTTATTTTGTTTTTT
446507 T
1 T
446508 GAAAAGGAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 11
0.69 0.10 0.22
Matches are distributed among these distances:
12 4 0.11
13 6 0.17
15 4 0.11
16 15 0.43
17 6 0.17
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.85
Consensus pattern (16 bp):
TTTTATTTTGTTTTTT
Found at i:446494 original size:24 final size:24
Alignment explanation
Indices: 446449--446494 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
446439 GCAAGTTCTT
*
446449 TTTTTTCTTTTTTTTTTATTTTGG
1 TTTTTTCTTTTTCTTTTATTTTGG
*
446473 TTTTTTGTTTGTTCTTTT-TTTT
1 TTTTTTCTTT-TTCTTTTATTTT
446495 ATTTTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (24 bp):
TTTTTTCTTTTTCTTTTATTTTGG
Found at i:450260 original size:370 final size:370
Alignment explanation
Indices: 449579--451042 Score: 2919
Period size: 370 Copynumber: 4.0 Consensus size: 370
449569 TATTTCTTGA
449579 CTTCTTCCTTCTAAGCTTCTGTTGTATGGGATTACAGTCAGGTTTGAGAGGAAGCTTATGGACCA
1 CTTCTTCCTTCTAAGCTTCTGTTGTATGGGATTACAGTCAGGTTTGAGAGGAAGCTTATGGACCA
449644 CAATATCGGTGTCTAATCCAGGCATGTCTTGGTAAGACCAGGCAAACACATCTCGATATTCTTGA
66 CAATATCGGTGTCTAATCCAGGCATGTCTTGGTAAGACCAGGCAAACACATCTCGATATTCTTGA
449709 AGGAAGCTTATTAACTTAGCTCAAGTGGATGGTTTTATAGAGGTTCCGATTTTAACTTCTTTTGG
131 AGGAAGCTTATTAACTTAGCTCAAGTGGATGGTTTTATAGAGGTTCCGATTTTAACTTCTTTTGG
*
449774 GTTTTCTTCTATCTCAAGGTTTATGGTTTCGGTGGGCTCTTCATGAGGTAATACTTGTTTTTCTT
196 GTTTTCTTCTATCCCAAGGTTTATGGTTTCGGTGGGCTCTTCATGAGGTAATACTTGTTTTTCTT
449839 CCTGTTCAATTAGTCTCAACAGGTCCTCGAGTACGGGGTTCTCTTTAAAATCCTCCTCTGACTCG
261 CCTGTTCAATTAGTCTCAACAGGTCCTCGAGTACGGGGTTCTCTTTAAAATCCTCCTCTGACTCG
449904 AACTCACTAGTACAGATCAATTGCTCAAATGCATTTGAAACTCCT
326 AACTCACTAGTACAGATCAATTGCTCAAATGCATTTGAAACTCCT
449949 CTTCTTCCTTCTAAGCTTCTGTTGTATGGGATTACAGTCAGGTTTGAGAGGAAGCTTATGGACCA
1 CTTCTTCCTTCTAAGCTTCTGTTGTATGGGATTACAGTCAGGTTTGAGAGGAAGCTTATGGACCA
450014 CAATATCGGTGTCTAATCCAGGCATGTCTTGGTAAGACCAGGCAAACACATCTCGATATTCTTGA
66 CAATATCGGTGTCTAATCCAGGCATGTCTTGGTAAGACCAGGCAAACACATCTCGATATTCTTGA
450079 AGGAAGCTTATTAACTTAGCTCAAGTGGATGGTTTTATAGAGGTTCCGATTTTAACTTCTTTTGG
131 AGGAAGCTTATTAACTTAGCTCAAGTGGATGGTTTTATAGAGGTTCCGATTTTAACTTCTTTTGG
450144 GTTTTCTTCTATCCCAAGGTTTATGGTTTCGGTGGGCTCTTCATGAGGTAATACTTGTTTTTCTT
196 GTTTTCTTCTATCCCAAGGTTTATGGTTTCGGTGGGCTCTTCATGAGGTAATACTTGTTTTTCTT
450209 CCTGTTCAATTAGTCTCAACAGGTCCTCGAGTACGGGGTTCTCTTTAAAATCCTCCTCTGACTCG
261 CCTGTTCAATTAGTCTCAACAGGTCCTCGAGTACGGGGTTCTCTTTAAAATCCTCCTCTGACTCG
450274 AACTCACTAGTACAGATCAATTGCTCAAATGCATTTGAAACTCCT
326 AACTCACTAGTACAGATCAATTGCTCAAATGCATTTGAAACTCCT
450319 CTTCTTCCTTCTAAGCTTCTGTTGTATGGGATTACAGTCAGGTTTGAGAGGAAGCTTATGGACCA
1 CTTCTTCCTTCTAAGCTTCTGTTGTATGGGATTACAGTCAGGTTTGAGAGGAAGCTTATGGACCA
450384 CAATATCGGTGTCTAATCCAGGCATGTCTTGGTAAGACCAGGCAAACACATCTCGATATTCTTGA
66 CAATATCGGTGTCTAATCCAGGCATGTCTTGGTAAGACCAGGCAAACACATCTCGATATTCTTGA
450449 AGGAAGCTTATTAACTTAGCTCAAGTGGATGGTTTTATAGAGGTTCCGATTTTAACTTCTTTTGG
131 AGGAAGCTTATTAACTTAGCTCAAGTGGATGGTTTTATAGAGGTTCCGATTTTAACTTCTTTTGG
450514 GTTTTCTTCTATCCCAAGGTTTATGGTTTCGGTGGGCTCTTCATGAGGTAATACTTGTTTTTCTT
196 GTTTTCTTCTATCCCAAGGTTTATGGTTTCGGTGGGCTCTTCATGAGGTAATACTTGTTTTTCTT
450579 CCTGTTCAATTAGTCTCAACAGGTCCTCGAGTACGGGGTTCTCTTTAAAATCCTCCTCTGACTCG
261 CCTGTTCAATTAGTCTCAACAGGTCCTCGAGTACGGGGTTCTCTTTAAAATCCTCCTCTGACTCG
450644 AACTCACTAGTACAGATCAATTGCTCAAATGCATTTGAAACTCCT
326 AACTCACTAGTACAGATCAATTGCTCAAATGCATTTGAAACTCCT
450689 CTTCTTCCTTCTAAGCTTCTGTTGTATGGGATTACAGTCAGGTTTGAGAGGAAGCTTATGGACCA
1 CTTCTTCCTTCTAAGCTTCTGTTGTATGGGATTACAGTCAGGTTTGAGAGGAAGCTTATGGACCA
450754 CAATATCGGTGTCTAATCCAGGCATGTCTTGGTAAGACCAGGCAAACACATCTCGATATTCTTGA
66 CAATATCGGTGTCTAATCCAGGCATGTCTTGGTAAGACCAGGCAAACACATCTCGATATTCTTGA
450819 AGGAAGCTTATTAACTTAGCTCAAGTGGATGGTTTTATAGAGGTTCCGATTTTAACTTCTTTTGG
131 AGGAAGCTTATTAACTTAGCTCAAGTGGATGGTTTTATAGAGGTTCCGATTTTAACTTCTTTTGG
450884 GTTTTCTTCTATCCCAAGGTTTATGGTTTCGGTGGGCTCTTCATGAGGTAATACTTGTTTTTCTT
196 GTTTTCTTCTATCCCAAGGTTTATGGTTTCGGTGGGCTCTTCATGAGGTAATACTTGTTTTTCTT
450949 CCTGTTCAATTAGTCTCAACAGGTCCTCGAGTACGGGGTTCTCTTTAAAATCCTCCTCTGACTCG
261 CCTGTTCAATTAGTCTCAACAGGTCCTCGAGTACGGGGTTCTCTTTAAAATCCTCCTCTGACTCG
451014 AACTCACTAGTACAGATCAATTGCTCAAA
326 AACTCACTAGTACAGATCAATTGCTCAAA
451043 GTTAATTTCT
Statistics
Matches: 1093, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
370 1093 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (370 bp):
CTTCTTCCTTCTAAGCTTCTGTTGTATGGGATTACAGTCAGGTTTGAGAGGAAGCTTATGGACCA
CAATATCGGTGTCTAATCCAGGCATGTCTTGGTAAGACCAGGCAAACACATCTCGATATTCTTGA
AGGAAGCTTATTAACTTAGCTCAAGTGGATGGTTTTATAGAGGTTCCGATTTTAACTTCTTTTGG
GTTTTCTTCTATCCCAAGGTTTATGGTTTCGGTGGGCTCTTCATGAGGTAATACTTGTTTTTCTT
CCTGTTCAATTAGTCTCAACAGGTCCTCGAGTACGGGGTTCTCTTTAAAATCCTCCTCTGACTCG
AACTCACTAGTACAGATCAATTGCTCAAATGCATTTGAAACTCCT
Found at i:457045 original size:51 final size:51
Alignment explanation
Indices: 456964--457069 Score: 185
Period size: 51 Copynumber: 2.1 Consensus size: 51
456954 TAGATGTATA
*
456964 GATACATCTAGGTAAAAAGACAGAATGTATCGATATATTGAAGAATATATC
1 GATAAATCTAGGTAAAAAGACAGAATGTATCGATATATTGAAGAATATATC
* *
457015 GATAAATCTAGGTAAAAAGGCAGAATGTATCGATATATTGAAGAATGTATC
1 GATAAATCTAGGTAAAAAGACAGAATGTATCGATATATTGAAGAATATATC
457066 GATA
1 GATA
457070 CATTGAAGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.27
Consensus pattern (51 bp):
GATAAATCTAGGTAAAAAGACAGAATGTATCGATATATTGAAGAATATATC
Found at i:457061 original size:20 final size:20
Alignment explanation
Indices: 457036--457132 Score: 133
Period size: 20 Copynumber: 4.8 Consensus size: 20
457026 GTAAAAAGGC
*
457036 AGAATGTATCGATATATTGA
1 AGAATGTATCGATACATTGA
457056 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
457076 AGAATGTATCGATACATTTA
1 AGAATGTATCGATACATTGA
* *
457096 TA-TATGTATCAATACATTGA
1 -AGAATGTATCGATACATTGA
*
457116 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
457133 CTGGGTAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
19 1 0.01
20 66 0.97
21 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.34
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:457972 original size:49 final size:49
Alignment explanation
Indices: 457839--458007 Score: 143
Period size: 49 Copynumber: 3.5 Consensus size: 49
457829 AAGAAGGGAG
* * * *
457839 CCAATGTGCTAATTC-AGAGCCAGCGACATTGGG-TATAGGGAAAAGTGGA
1 CCAATGTGCTGATTCAAG-GCCAACGACATTGGGCTA-AGGGAAAAATCGA
* * * ** *
457888 CTAACGTGCTGATTCAAGGCCAACAATGTTAGGCTAAGGGAAAAATCGA
1 CCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAAGGGAAAAATCGA
* * *
457937 CCAATGTGTTGATTCAAGGCCAACGACATTGGGCTAA--TAAAAGT-G-
1 CCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAAGGGAAAAATCGA
* *
457982 CCAATATGCTGATTCAATGCCAACGA
1 CCAATGTGCTGATTCAAGGCCAACGA
458008 TATCAGACTT
Statistics
Matches: 96, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
45 23 0.24
46 1 0.01
47 5 0.05
49 63 0.66
50 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (49 bp):
CCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAAGGGAAAAATCGA
Found at i:458086 original size:30 final size:28
Alignment explanation
Indices: 458067--458577 Score: 412
Period size: 30 Copynumber: 17.3 Consensus size: 28
458057 GAGTTGTGTA
*
458067 GGCTTTGAAAGGGTGCCACCGACTTGTG
1 GGCTTTGAAAGGGTGCCACTGACTTGTG
*
458095 GGCTTTGAAAGGGTGTGCCACTGACTTTTG
1 GGCTTTGAAA-GG-GTGCCACTGACTTGTG
* * * *
458125 GCCTTTGGAAGGGTGCCACCGATTTGTGTG
1 GGCTTTGAAAGGGTGCCACTGA-CT-TGTG
* * *
458155 GGCTTTGAACAAAGTTGCCACCGACTTGTG
1 GGCTTTG-A-AAGGGTGCCACTGACTTGTG
*
458185 TGGACTTTGAAAAGAGTTGCCACTGACTTGTG
1 -GG-CTTTG-AAAG-GGTGCCACTGACTTGTG
* * *
458217 GACTTTGAAAGGGTGCCACCGATTTGTGTG
1 GGCTTTGAAAGGGTGCCACTGA-CT-TGTG
* **
458247 GGCTTTGAACAGAGTTGCCACCAACTTGTG
1 GGCTTTGAA-AG-GGTGCCACTGACTTGTG
* *
458277 TGGACTTTGAAAAGAGTTACCACTGACTTGTG
1 -GG-CTTTG-AAAG-GGTGCCACTGACTTGTG
* *
458309 GGCTTTGAAAAGGTATGCCACTAACTTGTG
1 GGCTTTG-AAAGG-GTGCCACTGACTTGTG
* * *
458339 GGCTTTGAAAAGATGTCACTGACTTGTG
1 GGCTTTGAAAGGGTGCCACTGACTTGTG
*
458367 GACTTTGAGAAGGGTGCCACTGACTTGTG
1 GGCTTTGA-AAGGGTGCCACTGACTTGTG
*
458396 AGCTTTGAAAGGGTATGCCACTGACTTGTG
1 GGCTTTGAAAGGG--TGCCACTGACTTGTG
* * *
458426 GGCTTTGAAAAGATGCCACTAACTTGTG
1 GGCTTTGAAAGGGTGCCACTGACTTGTG
*
458454 GGCTTTGAAAAGGATGCCACTGACTTGTG
1 GGCTTTG-AAAGGGTGCCACTGACTTGTG
* *
458483 GGCTTTGAGAAGGATGCCACTGACTTTTG
1 GGCTTTGA-AAGGGTGCCACTGACTTGTG
** * *
458512 GGCTTTGAAAGAATGCCATTGACATGTG
1 GGCTTTGAAAGGGTGCCACTGACTTGTG
** * * *
458540 GTTTTTTGAATA-GATGCCACTGACCTATG
1 G-GCTTTGAA-AGGGTGCCACTGACTTGTG
458569 GGCTTTGAA
1 GGCTTTGAA
458578 GAGATGAACG
Statistics
Matches: 403, Mismatches: 56, Indels: 48
0.79 0.11 0.09
Matches are distributed among these distances:
28 99 0.25
29 111 0.28
30 112 0.28
31 13 0.03
32 66 0.16
33 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (28 bp):
GGCTTTGAAAGGGTGCCACTGACTTGTG
Found at i:458140 original size:58 final size:59
Alignment explanation
Indices: 458067--458522 Score: 419
Period size: 58 Copynumber: 7.7 Consensus size: 59
458057 GAGTTGTGTA
* * *
458067 GGCTTTG-AAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGGTGTGCCACTGACTTTTG
1 GGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGTGCCACTGACTTGTG
* * * * * ** *
458125 GCCTTTG-GAAGGGTGCCACCGATTTGTGTGGGCTTTGAACAAAGT-TGCCACCGACTTGTG
1 GGCTTTGAAAAGGATGCCACTGA-CT-TGTGGGCTTTGAA-AGGGTGTGCCACTGACTTGTG
* * * *
458185 TGGACTTTGAAAAGAGTTGCCACTGACTTGTGGACTTTGAAA-GG-GTGCCACCGATTTGTGTG
1 -GG-CTTTGAAAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGGTGTGCCACTGA-CT-TGTG
* * ** * *
458247 GGCTTTGAACAGAGTTGCCACCAACTTGTGTGGACTTTGAAAAGAGT-TACCACTGACTTGTG
1 GGCTTTGAAAAG-GATGCCACTGACTTGTG-GG-CTTTG-AAAGGGTGTGCCACTGACTTGTG
* * *
458309 GGCTTTGAAAAGGTATGCCACTAACTTGTGGGCTTTGAAAAGATGT--CACTGACTTGTG
1 GGCTTTGAAAAGG-ATGCCACTGACTTGTGGGCTTTGAAAGGGTGTGCCACTGACTTGTG
* * * * *
458367 GACTTTGAGAAGGGTGCCACTGACTTGTGAGCTTTGAAAGGGTATGCCACTGACTTGTG
1 GGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGTGCCACTGACTTGTG
* * *
458426 GGCTTTGAAAA-GATGCCACTAACTTGTGGGCTTTGAAAAGG-ATGCCACTGACTTGTG
1 GGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGTGCCACTGACTTGTG
* *
458483 GGCTTTGAGAAGGATGCCACTGACTTTTGGGCTTTGAAAG
1 GGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
458523 AATGCCATTG
Statistics
Matches: 331, Mismatches: 47, Indels: 40
0.79 0.11 0.10
Matches are distributed among these distances:
57 52 0.16
58 94 0.28
59 26 0.08
60 67 0.20
61 12 0.04
62 55 0.17
63 8 0.02
64 17 0.05
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (59 bp):
GGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGTGCCACTGACTTGTG
Found at i:458212 original size:92 final size:88
Alignment explanation
Indices: 458050--458529 Score: 476
Period size: 92 Copynumber: 5.4 Consensus size: 88
458040 TGAAAAAAGT
* * * * *
458050 TGCCACCGAGTTGTGTAGGCTTTGAAAGGGTGCCACCGACTTGTG-GG-CTTTGAAAGGGTGTGC
1 TGCCACCGA-TTTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGTGGACTTTGAAAAGGT-TGC
* * *
458113 CACTGACTTTTGGCCTTTGGAAGGG
64 CACTGACTTGTGGGCTTTGAAAGGG
*
458138 TGCCACCGATTTGTGTGGGCTTTGAACAAAGTTGCCACCGACTTGTGTGGACTTTGAAAAGAGTT
1 TGCCACCGATTT-TGTGGGCTTTG-A-AAAGATGCCACCGACTTGTGTGGACTTTGAAAAG-GTT
*
458203 GCCACTGACTTGTGGACTTTGAAAGGG
62 GCCACTGACTTGTGGGCTTTGAAAGGG
* *
458230 TGCCACCGATTTGTGTGGGCTTTGAACAGAGTTGCCACCAACTTGTGTGGACTTTGAAAAGAGTT
1 TGCCACCGATTT-TGTGGGCTTTGAA-A-AGATGCCACCGACTTGTGTGGACTTTGAAAAG-GTT
* *
458295 ACCACTGACTTGTGGGCTTTGAAAAGGTA
62 GCCACTGACTTGTGGGCTTTG-AAAGG-G
* ** * * * *
458324 TGCCA-CTAACTTGTGGGCTTTGAAAAGATGTCACTGAC-T-TGTGGACTTTGAGAAGGGTGCCA
1 TGCCACCGATTTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGTGGACTTTGAAAAGGTTGCCA
*
458386 CTGACTTGTGAGCTTTGAAAGGG
66 CTGACTTGTGGGCTTTGAAAGGG
* * ** *
458409 TATGCCACTGA-CTTGTGGGCTTTGAAAAGATGCCACTAACTTGTG-GG-CTTTGAAAAGGATGC
1 --TGCCACCGATTTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGTGGACTTTGAAAAGGTTGC
*
458471 CACTGACTTGTGGGCTTTGAGAAGGA
64 CACTGACTTGTGGGCTTTGA-AAGGG
* *
458497 TGCCACTGACTTT-TGGGCTTTG-AAAGAATGCCA
1 TGCCACCGATTTTGTGGGCTTTGAAAAG-ATGCCA
458530 TTGACATGTG
Statistics
Matches: 341, Mismatches: 33, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
85 4 0.01
86 29 0.09
87 89 0.26
88 42 0.12
89 4 0.01
90 28 0.08
91 5 0.01
92 125 0.37
93 10 0.03
94 5 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (88 bp):
TGCCACCGATTTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGTGGACTTTGAAAAGGTTGCCA
CTGACTTGTGGGCTTTGAAAGGG
Found at i:463922 original size:32 final size:32
Alignment explanation
Indices: 463875--463952 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
463865 GCAGTAGCTT
*
463875 TGTAGCAATACATTGTATCGATACAACACTTA
1 TGTATCAATACATTGTATCGATACAACACTTA
* * *
463907 TGTATCAATATATTGTGTCGATACAACACTTG
1 TGTATCAATACATTGTATCGATACAACACTTA
*
463939 TGTATCGATACATT
1 TGTATCAATACATT
463953 TACTGTTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (32 bp):
TGTATCAATACATTGTATCGATACAACACTTA
Found at i:463948 original size:19 final size:19
Alignment explanation
Indices: 463888--463950 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
463878 AGCAATACAT
*
463888 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTG
* *
463907 TGTATC-A-A-TATA-TTG
1 TGTATCGATACAACACTTG
463922 TG--TCGATACAACACTTG
1 TGTATCGATACAACACTTG
463939 TGTATCGATACA
1 TGTATCGATACA
463951 TTTACTGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
13 2 0.06
14 1 0.03
15 5 0.15
16 4 0.12
17 6 0.18
18 1 0.03
19 14 0.42
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTG
Found at i:476492 original size:39 final size:39
Alignment explanation
Indices: 476438--476515 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
476428 TCACAAAAAA
476438 TGGCATCAAAACATCAAGACAATCCTAAAACTACCACAT
1 TGGCATCAAAACATCAAGACAATCCTAAAACTACCACAT
476477 TGGCATCAAAACATCAAGACAATCCTAAAACTACCACAT
1 TGGCATCAAAACATCAAGACAATCCTAAAACTACCACAT
476516 CCAAGGCCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.28, G:0.08, T:0.18
Consensus pattern (39 bp):
TGGCATCAAAACATCAAGACAATCCTAAAACTACCACAT
Found at i:477348 original size:20 final size:20
Alignment explanation
Indices: 477322--477376 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
477312 AAAAAGATAG
*
477322 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
477342 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
477362 AATGTATCAATACAT
1 AATGTATCGATACAT
477377 CAAGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:482083 original size:4 final size:4
Alignment explanation
Indices: 482074--482101 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
482064 ACAAAACAAG
482074 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
482102 GCACCTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:484462 original size:79 final size:78
Alignment explanation
Indices: 484325--484667 Score: 348
Period size: 79 Copynumber: 4.3 Consensus size: 78
484315 ACCCCAATTA
* * * ** *
484325 TGGAAAATCAATGTTTTAGAAATAAAGCTAGGGTTGGAGTATCCCCTCGGGAACAATGGGGTT-G
1 TGGAAAATC-ATGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAG
*
484389 AAGTATCCCTGATGG
65 -AGTATCCCCGATGG
484404 TGGAAAATCGATGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAG
1 TGGAAAATC-ATGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAG
*
484469 AGTATCCCCGATTG
65 AGTATCCCCGATGG
* * * * * * *
484483 TGAAAAATCAGTGTTTTGGGAATAAAATC-AGAGTTGGAGTATCCTCTAGAAAATAATGGGATTA
1 TGGAAAATCA-TGTTTTAGAAATAAAACCAAG-GTTGGAGTATCCCCTCGAAAATAATGGGGTTA
**
484547 GAGTATCCTTGATGG
64 GAGTATCCCCGATGG
* * * * * * * * *
484562 TAGATAATTCATGTTTTAGAAATAAAATCGAGGTTAGAGCATCCCTTCGAAAATAACGGGGTTGG
1 TGGA-AAATCATGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAG
484627 AGTATCCCCGATGG
65 AGTATCCCCGATGG
* * *
484641 TGGATAATGGATATTTTAGAAATAAAA
1 TGGAAAAT-CATGTTTTAGAAATAAAA
484668 ATATGAATGA
Statistics
Matches: 219, Mismatches: 39, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
78 5 0.02
79 206 0.94
80 8 0.04
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (78 bp):
TGGAAAATCATGTTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAGA
GTATCCCCGATGG
Found at i:485146 original size:35 final size:35
Alignment explanation
Indices: 485100--485169 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
485090 TATTATCAAA
485100 AAATTACAAATTATACCTTTATGAAAAGGGAATTT
1 AAATTACAAATTATACCTTTATGAAAAGGGAATTT
485135 AAATTACAAATTATACCTTTATGAAAAGGGAATTT
1 AAATTACAAATTATACCTTTATGAAAAGGGAATTT
485170 CATGAGCTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (35 bp):
AAATTACAAATTATACCTTTATGAAAAGGGAATTT
Found at i:490453 original size:158 final size:157
Alignment explanation
Indices: 490074--490468 Score: 426
Period size: 157 Copynumber: 2.5 Consensus size: 157
490064 TTAAAGAATG
* * * * * *
490074 CCTTCGACCTAAAAGCA-CCTAATACCTCTAAAGGACTTAAAAAGGACT-GTAAAAGG-GATGAA
1 CCTTCAACGTAAAAGTATCCTAGTACCCCTAAAGGACTTAAAAA-GACTAG-AAATGGTGATGAA
* * ** * * * *
490136 CCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCTGGTGATGACTTAGGAGTTGGTTCTAA
64 CCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGAACTGATGACAACCTAAGACTCGGTTCTAA
490201 AAAATTACCAAAATGCCCCAAGGGGTATA
129 AAAATTACCAAAATGCCCCAAGGGGTATA
* * * * * *
490230 GCTTTAACGTAAAAGTATCCTAGCAACCCTAAAGGACTTAAAAAGACTAGAAATGATGATAAACC
1 CCTTCAACGTAAAAGTATCCTAGTACCCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACC
* * *
490295 TATCTTAAATGCCCACTTTCGGCATAAAAG-TGAACTCGATGACAACCTAAGACTCGGTTCTAGA
66 TATCCTAAATGCCCACCTTCGGCATAAAAGCAGAACT-GATGACAACCTAAGACTCGGTTCT--A
** *
490359 AAAAATTATGAAAATGCCCCTAGGGG-ATA
128 AAAAATTACCAAAATGCCCCAAGGGGTATA
* *
490388 CCTTCAACGTGAAAGTATCCCT-GTACCCCTAAAGGACTTAAAAAGCACTAGAAATGGTG-CGAA
1 CCTTCAACGTAAAAGTAT-CCTAGTACCCCTAAAGGACTTAAAAAG-ACTAGAAATGGTGATGAA
490451 CCTATCCTAAATGCCCAC
64 CCTATCCTAAATGCCCAC
490469 ATTCAACGTA
Statistics
Matches: 196, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
156 24 0.12
157 75 0.38
158 58 0.30
159 39 0.20
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (157 bp):
CCTTCAACGTAAAAGTATCCTAGTACCCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACC
TATCCTAAATGCCCACCTTCGGCATAAAAGCAGAACTGATGACAACCTAAGACTCGGTTCTAAAA
AATTACCAAAATGCCCCAAGGGGTATA
Found at i:490500 original size:158 final size:156
Alignment explanation
Indices: 490074--490501 Score: 438
Period size: 158 Copynumber: 2.7 Consensus size: 156
490064 TTAAAGAATG
* * * * * *
490074 CCTTCGACCTAAAAGCA-CCTAATACCTCTAAAGGACTTAAAAAGGACT-GTAAAAGG-GATGAA
1 CCTTCAACGTAAAAGTATCCTAGTACCCCTAAAGGACTTAAAAA-GACTAG-AAATGGTGATGAA
* * * * * * *
490136 CCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCTGGTGATGACTTAGGAGTTGGTTCTAA
64 CCTATCCTAAATGCCCACATTCGGCATAAAAGTAGACC-GGTGATAACCTAAGACTCGGTTCTAA
490201 AAAATTACCAAAATGCCCCAAGGGGTATA
128 AAAATTACCAAAATGCCCCAAGGGGTATA
* * * * * *
490230 GCTTTAACGTAAAAGTATCCTAGCAACCCTAAAGGACTTAAAAAGACTAGAAATGATGATAAACC
1 CCTTCAACGTAAAAGTATCCTAGTACCCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACC
* * * *
490295 TATCTTAAATGCCCACTTTCGGCATAAAAGT-GAACTCGATGACAACCTAAGACTCGGTTCTAGA
66 TATCCTAAATGCCCACATTCGGCATAAAAGTAG-AC-CGGTGATAACCTAAGACTCGGTTCT--A
** *
490359 AAAAATTATGAAAATGCCCCTAGGGG-ATA
127 AAAAATTACCAAAATGCCCCAAGGGGTATA
* *
490388 CCTTCAACGTGAAAGTATCCCT-GTACCCCTAAAGGACTTAAAAAGCACTAGAAATGGTG-CGAA
1 CCTTCAACGTAAAAGTAT-CCTAGTACCCCTAAAGGACTTAAAAAG-ACTAGAAATGGTGATGAA
** *
490451 CCTATCCTAAATGCCCACATTCAACGTAAAAGTAGAGCCGGTGATAACCTA
64 CCTATCCTAAATGCCCACATTCGGCATAAAAGTAGA-CCGGTGATAACCTA
490502 GTGTTAGGAT
Statistics
Matches: 221, Mismatches: 40, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
156 21 0.10
157 77 0.35
158 82 0.37
159 41 0.19
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (156 bp):
CCTTCAACGTAAAAGTATCCTAGTACCCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACC
TATCCTAAATGCCCACATTCGGCATAAAAGTAGACCGGTGATAACCTAAGACTCGGTTCTAAAAA
ATTACCAAAATGCCCCAAGGGGTATA
Found at i:490914 original size:13 final size:13
Alignment explanation
Indices: 490896--490921 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
490886 TACACAAAGT
490896 ATGTATCGATACA
1 ATGTATCGATACA
490909 ATGTATCGATACA
1 ATGTATCGATACA
490922 TAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:490919 original size:32 final size:33
Alignment explanation
Indices: 490878--490941 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
490868 TAGCCAAACT
**
490878 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
490910 TGTATCGATACATAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
490942 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:494829 original size:15 final size:15
Alignment explanation
Indices: 494809--494840 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
494799 ATAAAAATGT
*
494809 TCAAAATGAGGAAGC
1 TCAAAATGAAGAAGC
494824 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
494839 TC
1 TC
494841 CAAACGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:495526 original size:20 final size:20
Alignment explanation
Indices: 495503--495596 Score: 98
Period size: 20 Copynumber: 4.6 Consensus size: 20
495493 AGAATTCAAA
*
495503 GTATCGATACATGTCGCAAT
1 GTATCGATACATGTAGCAAT
* **
495523 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAGCA-AT
*
495544 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTAGCAAT
* **
495564 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAGCA-AT
495585 GTATCGATACAT
1 GTATCGATACAT
495597 TTCTTGGCAG
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 30 0.50
21 30 0.50
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (20 bp):
GTATCGATACATGTAGCAAT
Found at i:495547 original size:21 final size:21
Alignment explanation
Indices: 495521--495596 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
495511 ACATGTCGCA
495521 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
495542 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
495562 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
495583 ATGTATCGATACAT
1 ATGTATCGATACAT
495597 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:495554 original size:41 final size:41
Alignment explanation
Indices: 495503--495596 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
495493 AGAATTCAAA
495503 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
*
495544 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
495585 GTATCGATACAT
1 GTATCGATACAT
495597 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (41 bp):
GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
Found at i:495653 original size:13 final size:13
Alignment explanation
Indices: 495635--495660 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
495625 TACAGCAAGT
495635 ATGTATCGATACA
1 ATGTATCGATACA
495648 ATGTATCGATACA
1 ATGTATCGATACA
495661 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:497907 original size:21 final size:21
Alignment explanation
Indices: 497874--497918 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
497864 TTGCAAGTTG
*
497874 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
497896 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
497916 AAA
1 AAA
497919 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:501837 original size:20 final size:21
Alignment explanation
Indices: 501768--501845 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
501758 AATGTCCAAA
*
501768 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
501788 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
501813 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
501833 TTGTATCGATACA
1 ATGTATCGATACA
501846 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 30 0.64
24 3 0.06
25 14 0.30
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:501852 original size:13 final size:13
Alignment explanation
Indices: 501834--501871 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
501824 CATTTTTCTT
501834 TGTATCGATACAA
1 TGTATCGATACAA
*
501847 TGTATCGATACAC
1 TGTATCGATACAA
501860 TGTATCGATACA
1 TGTATCGATACA
501872 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:504347 original size:20 final size:20
Alignment explanation
Indices: 504324--504417 Score: 98
Period size: 20 Copynumber: 4.6 Consensus size: 20
504314 AGAATTCAAA
*
504324 GTATCGATACATGTCGCAAT
1 GTATCGATACATGTAGCAAT
* **
504344 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAGCA-AT
*
504365 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTAGCAAT
* **
504385 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAGCA-AT
504406 GTATCGATACAT
1 GTATCGATACAT
504418 TTCTTGGCAG
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 30 0.50
21 30 0.50
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (20 bp):
GTATCGATACATGTAGCAAT
Found at i:504368 original size:21 final size:21
Alignment explanation
Indices: 504342--504417 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
504332 ACATGTCGCA
504342 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
504363 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
504383 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
504404 ATGTATCGATACAT
1 ATGTATCGATACAT
504418 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:504375 original size:41 final size:41
Alignment explanation
Indices: 504324--504417 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
504314 AGAATTCAAA
504324 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
*
504365 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
504406 GTATCGATACAT
1 GTATCGATACAT
504418 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (41 bp):
GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
Found at i:504474 original size:13 final size:13
Alignment explanation
Indices: 504456--504481 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
504446 TACAGCAAGT
504456 ATGTATCGATACA
1 ATGTATCGATACA
504469 ATGTATCGATACA
1 ATGTATCGATACA
504482 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:506961 original size:13 final size:13
Alignment explanation
Indices: 506943--506980 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
506933 CATTTTTCTT
*
506943 TGTATCGATATAA
1 TGTATCGATACAA
*
506956 TGTATCGATACAC
1 TGTATCGATACAA
506969 TGTATCGATACA
1 TGTATCGATACA
506981 GGGTGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:509455 original size:20 final size:20
Alignment explanation
Indices: 509432--509525 Score: 98
Period size: 20 Copynumber: 4.6 Consensus size: 20
509422 AGAATTCAAA
*
509432 GTATCGATACATGTCGCAAT
1 GTATCGATACATGTAGCAAT
* **
509452 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAGCA-AT
*
509473 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTAGCAAT
* **
509493 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAGCA-AT
509514 GTATCGATACAT
1 GTATCGATACAT
509526 TTCTTGGCAG
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 30 0.50
21 30 0.50
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (20 bp):
GTATCGATACATGTAGCAAT
Found at i:509476 original size:21 final size:21
Alignment explanation
Indices: 509450--509525 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
509440 ACATGTCGCA
509450 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
509471 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
509491 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
509512 ATGTATCGATACAT
1 ATGTATCGATACAT
509526 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:509483 original size:41 final size:41
Alignment explanation
Indices: 509432--509525 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
509422 AGAATTCAAA
509432 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
*
509473 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
509514 GTATCGATACAT
1 GTATCGATACAT
509526 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (41 bp):
GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
Found at i:509582 original size:13 final size:13
Alignment explanation
Indices: 509564--509589 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
509554 TACAGCAAGT
509564 ATGTATCGATACA
1 ATGTATCGATACA
509577 ATGTATCGATACA
1 ATGTATCGATACA
509590 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:512052 original size:13 final size:13
Alignment explanation
Indices: 512034--512065 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
512024 TCTTTATATT
512034 GATACAATGTATC
1 GATACAATGTATC
*
512047 GATACACTGTATC
1 GATACAATGTATC
512060 GATACA
1 GATACA
512066 GGGGGATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (13 bp):
GATACAATGTATC
Found at i:514631 original size:13 final size:13
Alignment explanation
Indices: 514613--514638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
514603 TACACAAAGT
514613 ATGTATCGATACA
1 ATGTATCGATACA
514626 ATGTATCGATACA
1 ATGTATCGATACA
514639 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:514636 original size:32 final size:33
Alignment explanation
Indices: 514595--514658 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
514585 TAGCCAAACT
**
514595 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
514627 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
514659 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:518754 original size:52 final size:52
Alignment explanation
Indices: 518606--518734 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
518596 CGAAATATGA
518606 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
518658 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
518710 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
518735 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:518834 original size:19 final size:18
Alignment explanation
Indices: 518810--518903 Score: 73
Period size: 19 Copynumber: 5.6 Consensus size: 18
518800 TAGCTTATAT
518810 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
518829 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
518842 TGTATCAATACAACACTTA
1 TGTATCGATACAA-ACTTA
518861 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
518874 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
518894 TGTATCGATA
1 TGTATCGATA
518904 TAAATCGTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 25
0.69 0.02 0.29
Matches are distributed among these distances:
13 21 0.35
14 2 0.03
16 4 0.07
18 1 0.02
19 22 0.37
20 10 0.17
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:518847 original size:13 final size:13
Alignment explanation
Indices: 518829--518885 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
518819 ACAAAACTTA
518829 TGTATCGATACAT
1 TGTATCGATACAT
*
518842 TGTATCAATACAACACTT
1 TGTATCGAT---ACA--T
518860 ATGTATCGATACAT
1 -TGTATCGATACAT
518874 TGTATCGATACA
1 TGTATCGATACA
518886 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:518853 original size:32 final size:32
Alignment explanation
Indices: 518808--518903 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
518798 AGTAGCTTAT
*
518808 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
518840 ATTGTATCAATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
518872 ATTGTATCGATACAACACTTTATGTATCGATA
1 ATTGTATCGATACAACAC-TTATGTATCGATA
518904 TAAATCGTTG
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 47 0.78
33 13 0.22
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:520149 original size:130 final size:130
Alignment explanation
Indices: 519913--520160 Score: 333
Period size: 129 Copynumber: 1.9 Consensus size: 130
519903 AATTATTTAT
*
519913 AAAAAAATCATTTTGTACCTTAATGGATACCCAAAAAGATAAAAAAAAAAATTTGAAATCTTTTA
1 AAAAAAATCATTTCGTACCTTAATGGATACCCAAAAAGATAAAAAAAAAAATTTGAAATCTTTTA
* * *
519978 TGCCCCTACGGATACCGATATGAATATAAAAGACTTGAAAATAATTGATATTTATTTATATTTGA
66 TACCCCTACGGATACCGATAAGAATATAAAAGACTTAAAAATAATTGATATTTATTTATATTTGA
* * ** *** *
520043 AAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGAT-GCAAAAAGTTTTTTAAATCTTTTA
1 AAAAAAATCATTTCGTACCTTAATGGATACCCAAAAAGATAAAAAAAAAAATTTGAAATCTTTTA
* *
520107 TACCCCTACGGATACTC-ATAAGAATATAAAAGA-TTAAAAA-AATTAATGTTTATT
66 TACCCCTACGGATAC-CGATAAGAATATAAAAGACTTAAAAATAATTGATATTTATT
520161 GTAATTAACG
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
127 12 0.12
128 6 0.06
129 47 0.46
130 38 0.37
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (130 bp):
AAAAAAATCATTTCGTACCTTAATGGATACCCAAAAAGATAAAAAAAAAAATTTGAAATCTTTTA
TACCCCTACGGATACCGATAAGAATATAAAAGACTTAAAAATAATTGATATTTATTTATATTTGA
Found at i:520479 original size:164 final size:164
Alignment explanation
Indices: 520026--520600 Score: 824
Period size: 166 Copynumber: 3.5 Consensus size: 164
520016 AAATAATTGA
* * * *
520026 TATTTATTTATATTTGAAAAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATGCAAAAAG
1 TATTTATTTATTTTTGAAAAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAG
* * * * *
520091 TTTTTTAAATCTTTTATACCCCTACGGATACTCATAAGAATATAAAAGA-TTAAAAA-AATTAAT
66 TTTTTGAAATCTTTTATACCCTTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAAT
* * * * *
520154 GTTTATTGTAATTAACGAAGATTGAATTTAATAT
131 ATTTGTTGTAATTAACGATGAGTAAATTTAATAT
*
520188 TATTTATCTATTTATTTTTGAAAAAAAATCATTTCGTACCTTAATGGATACCCAAAAAGATACGA
1 TA--T-T-TATTTATTTTTGAAAAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATACGA
* *
520253 AAAATTTTTGAAATCTTTTATA-CCTTACGGATACCCATAGGAATATAAAAAATTTAAAAATGAT
62 AAAGTTTTTGAAATCTTTTATACCCTTACGGATACCCATAGGAATATAAAAGATTTAAAAATGAT
520317 TAATATTTGTTGTAATTAACGATGAGTAAATTTAATAT
127 TAATATTTGTTGTAATTAACGATGAGTAAATTTAATAT
* * *
520355 TATTTATTTATTTTTGAAAAAAAATCATTTCATA-CTTAAATGGATACCTGAAAAGATATGAAAA
1 TATTTATTTATTTTTGAAAAAAAATCATTTCGTACCTT-AATGGATACCCGAAAAGATACGAAAA
520419 GTTTTTGAAATCTTTTATACCCTTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAA
65 GTTTTTGAAATCTTTTATACCCTTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAA
520484 TATTTGTTGTAATT-A--ATGAGTAAATTTAATAT
130 TATTTGTTGTAATTAACGATGAGTAAATTTAATAT
* * *
520516 TATTTATTCATTTTTG-AAAAAAATTATTTCGTACCTTAATGGATACCCGAAAATATACGAAAAG
1 TATTTATTTATTTTTGAAAAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAG
* *
520580 TTTTTGAAACCTTCTATACCC
66 TTTTTGAAATCTTTTATACCC
520601 CAATGATACC
Statistics
Matches: 373, Mismatches: 31, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
160 58 0.16
161 35 0.09
162 5 0.01
163 71 0.19
164 60 0.16
165 28 0.08
166 79 0.21
167 37 0.10
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (164 bp):
TATTTATTTATTTTTGAAAAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAG
TTTTTGAAATCTTTTATACCCTTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAAT
ATTTGTTGTAATTAACGATGAGTAAATTTAATAT
Found at i:521569 original size:10 final size:11
Alignment explanation
Indices: 521528--521566 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
521518 TGAATTTTAT
521528 TTTTTTCTCTTC
1 TTTTTTCTC-TC
*
521540 TTTTTTCTCAC
1 TTTTTTCTCTC
521551 TTTTTTCTCTC
1 TTTTTTCTCTC
521562 TTTTT
1 TTTTT
521567 CTCCTTGCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTTCTCTC
Found at i:522797 original size:165 final size:166
Alignment explanation
Indices: 522038--522819 Score: 777
Period size: 166 Copynumber: 4.7 Consensus size: 166
522028 TCAATATATA
* * * * *
522038 AAAAAATTCAAAATTAATG-AAATAAATTGAATTTTTCAAAACTGAATT-A-ATGGCAATTTAAT
1 AAAAAATTCAAAACTCATGAAAATAAATT-AATTTTTTAAAACTGAATTAACAT-G-AAATAAAT
* * *** * *
522100 GACAATATTAGATG-CATTTTAAAAATTTTAGACTGAAG-AAAATCCCC-CCAAAAATATTTACG
63 GATAATATTTGATGAC-TTTTAAAAATCAAAAACT-AAGAAAAATCCCCTCGAAAAA-ATTTACG
* * * * * **
522162 GAGAAGAAAACT-CGGT-TTCTTGAAAAAAGAG-GAATTTCAATA
125 AAGTAGAAAA-TACTGTATT-TAGGAAAAAGAGAG-ATTTCAAGG
* * * * * * * *
522204 AAAAAATCCAAAACGCATGAAAATGAATTTATTTTTTAAAATTAAATTAAAATGAAATAAATTAT
1 AAAAAATTCAAAACTCATGAAAATAAATTAATTTTTTAAAACTGAATTAACATGAAATAAATGAT
* * * * ** *
522269 AATATTTTATGACTTTTAAAAATTTAATATCGCA-AAAAATCTCCTCGAAAAAATTTAC-AGAGT
66 AATATTTGATGACTTTTAAAAA-TCAAAAACTAAGAAAAATCCCCTCGAAAAAATTTACGA-AGT
*
522332 AGAAAATACTATATTTAGGAAAAAGAG-GTATTTCAAGG
129 AGAAAATACTGTATTTAGGAAAAAGAGAG-ATTTCAAGG
* *
522370 AAAAAAATCCAAAACTCATGAAAATAAATTAATTTTTTAAAACTCAATTAACATGAAATAAATGA
1 -AAAAAATTCAAAACTCATGAAAATAAATTAATTTTTTAAAACTGAATTAACATGAAATAAATGA
* *
522435 TAATATTTGATGACTTTTAAAAATCAAAAACTAAGAAAAATCCCTTCGAAAAAATTTACGGAGTA
65 TAATATTTGATGACTTTTAAAAATCAAAAACTAAGAAAAATCCCCTCGAAAAAATTTACGAAGTA
* * *
522500 GAAAATA-TCGTATTTAGGAAAAAGAAAAATTTTAAGG
130 GAAAATACT-GTATTTAGGAAAAAGAGAGATTTCAAGG
* * * *
522537 AAAAAATTCAAAACTCATGAAAATGAATTTATTTTTTAAAACTGAGTTTACATGAAATAAATGAT
1 AAAAAATTCAAAACTCATGAAAATAAATTAATTTTTTAAAACTGAATTAACATGAAATAAATGAT
*
522602 AATATTTGATGACTTTCAAAAATCAAAAACTAAGAAAAATCCCCTC-AAACAAATTTACGAAGTA
66 AATATTTGATGACTTTTAAAAATCAAAAACTAAGAAAAATCCCCTCGAAA-AAATTTACGAAGTA
* *
522666 GAAAATACTGTATTT-CGAAAAAGAGAGATTTGAAGG
130 GAAAATACTGTATTTAGGAAAAAGAGAGATTTCAAGG
* * * * * * * *
522702 AAAAAATTGAAAATTCA-CAGAAATAAATGAATTTTTGAAAAATGAATTAATATGAAATAAATAA
1 AAAAAATTCAAAACTCATGA-AAATAAATTAATTTTTTAAAACTGAATTAACATGAAATAAATGA
* *
522766 TAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCTCGAAAAAA
65 TAATATTTGATGACTTTTAAAAATCAAAAACTAAGAAAAATCCCCTCGAAAAAA
522820 GGGAAATTTC
Statistics
Matches: 516, Mismatches: 81, Indels: 39
0.81 0.13 0.06
Matches are distributed among these distances:
164 1 0.00
165 118 0.23
166 237 0.46
167 158 0.31
168 2 0.00
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.29
Consensus pattern (166 bp):
AAAAAATTCAAAACTCATGAAAATAAATTAATTTTTTAAAACTGAATTAACATGAAATAAATGAT
AATATTTGATGACTTTTAAAAATCAAAAACTAAGAAAAATCCCCTCGAAAAAATTTACGAAGTAG
AAAATACTGTATTTAGGAAAAAGAGAGATTTCAAGG
Done.