Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 78 of 144
Found at i:23522076 original size:43 final size:44
Alignment explanation
Indices: 23522029--23522152 Score: 155
Period size: 43 Copynumber: 2.9 Consensus size: 44
23522019 TTATAGTGGT
* **
23522029 GTTTGTGGTAGAAGCGTCACTAAAAATCATGATTC-TTAGCGCC
1 GTTTGTGGTAGAAGCGTCGCTAAAGGTCATGATTCTTTAGCGCC
* * ** *
23522072 GTTTGTAGTATAAGCCCCGCTAAAGGTCATGA-TCTTTAGCGGC
1 GTTTGTGGTAGAAGCGTCGCTAAAGGTCATGATTCTTTAGCGCC
23522115 GTTTGTGGTAGAAGCGTCGCTAAAGGTCATGA-TCTTTA
1 GTTTGTGGTAGAAGCGTCGCTAAAGGTCATGATTCTTTA
23522153 ACGGCTTTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 2 0.03
43 66 0.97
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (44 bp):
GTTTGTGGTAGAAGCGTCGCTAAAGGTCATGATTCTTTAGCGCC
Found at i:23525563 original size:16 final size:16
Alignment explanation
Indices: 23525542--23525576 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
23525532 TGTGTTTCAT
23525542 TTTTGACTGCATGGCA
1 TTTTGACTGCATGGCA
23525558 TTTTGACTGCATGGCA
1 TTTTGACTGCATGGCA
23525574 TTT
1 TTT
23525577 CATTATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (16 bp):
TTTTGACTGCATGGCA
Found at i:23528875 original size:21 final size:21
Alignment explanation
Indices: 23528851--23528892 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23528841 GTGATGTGAA
* *
23528851 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAAATAAAAATG
23528872 AAAAATGAAAAAATAAAAATG
1 AAAAATGAAAAAATAAAAATG
23528893 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAAATAAAAATG
Found at i:23528876 original size:7 final size:7
Alignment explanation
Indices: 23528851--23528892 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
23528841 GTGATGTGAA
23528851 AAAAATG
1 AAAAATG
23528858 AAAAGATG
1 AAAA-ATG
23528866 -AAAATG
1 AAAAATG
23528872 AAAAATG
1 AAAAATG
23528879 AAAAAAT-
1 -AAAAATG
23528886 AAAAATG
1 AAAAATG
23528893 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 9 0.29
7 13 0.42
8 9 0.29
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:23530252 original size:44 final size:44
Alignment explanation
Indices: 23530197--23531096 Score: 948
Period size: 44 Copynumber: 20.4 Consensus size: 44
23530187 ATACTGGTGG
*
23530197 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACA
23530241 TGAAGTAGATCGAA-AGTAAT-GCATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGA-TAATAG-ATCTTGTCTTCATGTATTGACA
** *
23530285 TGAAGTAGATC-AGAGATAGCAGATCTTATCTTCATGTATTGACA
1 TGAAGTAGATCGA-AGATAATAGATCTTGTCTTCATGTATTGACA
* * *
23530329 TGAAGTAGATCGAAGGTAATGGATTTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACA
*** * ***
23530373 TGAAGTAGATC-AGAGAT-ATCAGATCTTGTCTTCCCATACTGGGGG
1 TGAAGTAGATCGA-AGATAAT-AGATCTTGTCTTCATGTA-TTGACA
* * *
23530418 TGAAGTAGATCGAAGGTAATGGATCTTGCCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACA
* ** *
23530462 TGAAGTAGATCAAAGATAGCAGATCTTATCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACA
* *
23530506 TGAAGTAGATC-AGAGATAACAGATCTTATCTTCATGTATTGACA
1 TGAAGTAGATCGA-AGATAATAGATCTTGTCTTCATGTATTGACA
* *
23530550 TGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACA
* *** * ***
23530594 TGAAGTAGATC-AGAGATAGTAGATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCGA-AGATAATAGATCTTGTCTTCATGTA-TTGACA
* *
23530639 TGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACA
* * *
23530683 TGAAGTAAATC-AGAGATAGTAGATCTTGTCTTCATGTATTGGCA
1 TGAAGTAGATCGA-AGATAATAGATCTTGTCTTCATGTATTGACA
* * *
23530727 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGGCG
1 TGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACA
** *
23530771 TGACA-TAGATC-AGAGATAGCAGATCTTGTCTTCATGTATTGGCA
1 TGA-AGTAGATCGA-AGATAATAGATCTTGTCTTCATGTATTGACA
23530815 TGAAGTAGATCGAAGATAAT-GAATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATAG-ATCTTGTCTTCATGTATTGACA
** * *
23530859 TGAAGTAGATC-AGAGATAGCAGATCTTGTCTTCATGTATTGGCG
1 TGAAGTAGATCGA-AGATAATAGATCTTGTCTTCATGTATTGACA
* * * * * *
23530903 TGAAGAAGATCGAAGA-AAGCAGATCTTGTTTTCATGTACTGGCG
1 TGAAGTAGATCGAAGATAA-TAGATCTTGTCTTCATGTATTGACA
* * * *
23530947 TGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT-AGCG
1 TGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGA-CA
* * * * *
23530991 TGAAGTAGATTGAAGA-AAGCAGATCTTGTCTTCATGTACTGGCG
1 TGAAGTAGATCGAAGATAA-TAGATCTTGTCTTCATGTATTGACA
** *
23531035 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGCATTGACA
1 TGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACA
23531079 TGAAGTAGATCGAAGATA
1 TGAAGTAGATCGAAGATA
23531097 CCAGTCTTAT
Statistics
Matches: 728, Mismatches: 96, Indels: 64
0.82 0.11 0.07
Matches are distributed among these distances:
43 16 0.02
44 635 0.87
45 73 0.10
46 4 0.01
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (44 bp):
TGAAGTAGATCGAAGATAATAGATCTTGTCTTCATGTATTGACA
Found at i:23530554 original size:221 final size:221
Alignment explanation
Indices: 23530171--23531067 Score: 1088
Period size: 221 Copynumber: 4.1 Consensus size: 221
23530161 TAAAAATTAA
23530171 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTAT
23530236 TGACATGAAGTAGATCGAAAG-TA--ATGCATCTTGTCTTCATGTATTGACATGAAGTAGATC-A
66 TGACATGAAGTAGATC-AAAGATAGCA-G-ATCTTGTCTTCATGTATTGACATGAAGTAGATCGA
* *
23530297 GAGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGGTAATGGATTTTGTCTTC
128 -AGATAACAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGGTAATGGATCTTGTCTTC
23530362 ATGTATTGACATGAAGTAGATC-AGAGATAT
192 ATGTATTGACATGAAGTAGATCGA-AGATAT
* * *
23530392 CAGATCTTGTCTTCCCATACTGGGGGTGAAGTAGATCGAAGGTAATGGATCTTGCCTTCATGTAT
1 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTAT
*
23530457 TGACATGAAGTAGATCAAAGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATC-AGAG
66 TGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AG
23530521 ATAACAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATG
130 ATAACAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATG
23530586 TATTGACATGAAGTAGATC-AGAGATAGT
195 TATTGACATGAAGTAGATCGA-AGATA-T
*
23530614 -AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTAT
* * * *
23530678 TGACATGAAGTAAATCAGAGATAGTAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGA
66 TGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGA
** * * * * ***
23530743 TAATGGATCTTGTCTTCATGTATTGGCGTGACA-TAGATC-AGAGATAGCAGATCTTGTCTTCAT
131 TAACAGATCTTATCTTCATGTATTGACATGA-AGTAGATCGA-AGGTAATGGATCTTGTCTTCAT
*
23530806 GTATTGGCATGAAGTAGATCGAAGATAAT
194 GTATTGACATGAAGTAGATCGAAGAT-AT
* *** * *** ***
23530835 GA-ATCTTGTCTTCATGTA-TTGACATGAAGTAGATC-AGAGATAGCAGATCTTGTCTTCATGTA
1 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTA
* * * * * * * * *
23530897 TTGGCGTGAAGAAGATCGAAGAAAGCAGATCTTGTTTTCATGTACTGGCGTGAAGTAGATCGAAG
65 TTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAG
* * * * * *
23530962 AAAACAGATCTTGTCTTCATGTACT-AGCGTGAAGTAGATTGAA-G-AAAGCAGATCTTGTCTTC
130 ATAACAGATCTTATCTTCATGTATTGA-CATGAAGTAGATCGAAGGTAATG--GATCTTGTCTTC
* * * *
23531024 ATGTACTGGCGTGAAGTAGATCGAAGATAG
192 ATGTATTGACATGAAGTAGATCGAAGATAT
23531054 CAGATCTTGTCTTC
1 CAGATCTTGTCTTC
23531068 ATGCATTGAC
Statistics
Matches: 600, Mismatches: 59, Indels: 35
0.86 0.09 0.05
Matches are distributed among these distances:
218 1 0.00
219 4 0.01
220 174 0.29
221 413 0.69
222 7 0.01
223 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (221 bp):
CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTAT
TGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGA
TAACAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATGT
ATTGACATGAAGTAGATCGAAGATAT
Found at i:23532030 original size:25 final size:25
Alignment explanation
Indices: 23531983--23532030 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
23531973 CTTAGTTTCG
**
23531983 TTTTGTTATTTTTTTTTGTTTTAGC
1 TTTTGTTATTTTTTTTTCATTTAGC
23532008 TTTT-TTATTTTATTTTTCATTTA
1 TTTTGTTATTTT-TTTTTCATTTA
23532031 AAATATAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.77
Consensus pattern (25 bp):
TTTTGTTATTTTTTTTTCATTTAGC
Found at i:23533362 original size:94 final size:94
Alignment explanation
Indices: 23533276--23533468 Score: 368
Period size: 94 Copynumber: 2.0 Consensus size: 94
23533266 TTTGTTGTTC
*
23533276 TATATTCCATTATTTTATACTTATTGTACATATATACATATATTTAAATGCACACATATTTTATG
1 TATATTCCATTATTTTATACATATTGTACATATATACATATATTTAAATGCACACATATTTTATG
23533341 ATATACCCATACATTTTTTTTTGTAAATA
66 ATATACCCATACATTTTTTTTTGTAAATA
23533370 TATATTCCATTATTTTATACATATTGTACATATATACATATATTTAAATGCACACATATTTTATG
1 TATATTCCATTATTTTATACATATTGTACATATATACATATATTTAAATGCACACATATTTTATG
23533435 ATATACCCATACATTTTTATTTTGTAAATA
66 ATATACCCATACATTTTT-TTTTGTAAATA
23533465 TATA
1 TATA
23533469 CACATATCCA
Statistics
Matches: 97, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
94 82 0.85
95 15 0.15
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.47
Consensus pattern (94 bp):
TATATTCCATTATTTTATACATATTGTACATATATACATATATTTAAATGCACACATATTTTATG
ATATACCCATACATTTTTTTTTGTAAATA
Found at i:23533862 original size:110 final size:110
Alignment explanation
Indices: 23533695--23533912 Score: 418
Period size: 110 Copynumber: 2.0 Consensus size: 110
23533685 GTGTCCTAAC
23533695 TTACTGGATTGCGATTATTTTTCGATGAATTTAGAAAGCCATGTATTTGTTTTGCAATAAATTCA
1 TTACTGGATTGCGATTATTTTTCGATGAATTTAGAAAGCCATGTATTTGTTTTGCAATAAATTCA
23533760 CAAATTTCAAATAAAACTTATTCTCGGGAATTCAAAAATGTTGAG
66 CAAATTTCAAATAAAACTTATTCTCGGGAATTCAAAAATGTTGAG
*
23533805 TTACTGGATTGCGATTATTTTTCGATGAATTTAGAAAGTCATGTATTTGTTTTGCAATAAATTCA
1 TTACTGGATTGCGATTATTTTTCGATGAATTTAGAAAGCCATGTATTTGTTTTGCAATAAATTCA
*
23533870 CAAATTTCAAATAAAGCTTATTCTCGGGAATTCAAAAATGTTG
66 CAAATTTCAAATAAAACTTATTCTCGGGAATTCAAAAATGTTG
23533913 GGTCCTAACT
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 106 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (110 bp):
TTACTGGATTGCGATTATTTTTCGATGAATTTAGAAAGCCATGTATTTGTTTTGCAATAAATTCA
CAAATTTCAAATAAAACTTATTCTCGGGAATTCAAAAATGTTGAG
Found at i:23534921 original size:16 final size:16
Alignment explanation
Indices: 23534900--23534934 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
23534890 TGTGTTTCAT
23534900 TTTTGACTGCATGGCA
1 TTTTGACTGCATGGCA
23534916 TTTTGACTGCATGGCA
1 TTTTGACTGCATGGCA
23534932 TTT
1 TTT
23534935 CATTATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (16 bp):
TTTTGACTGCATGGCA
Found at i:23538233 original size:21 final size:21
Alignment explanation
Indices: 23538209--23538250 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23538199 GTGATGTGAA
* *
23538209 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAAATAAAAATG
23538230 AAAAATGAAAAAATAAAAATG
1 AAAAATGAAAAAATAAAAATG
23538251 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAAATAAAAATG
Found at i:23538234 original size:7 final size:7
Alignment explanation
Indices: 23538209--23538250 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
23538199 GTGATGTGAA
23538209 AAAAATG
1 AAAAATG
23538216 AAAAGATG
1 AAAA-ATG
23538224 -AAAATG
1 AAAAATG
23538230 AAAAATG
1 AAAAATG
23538237 AAAAAAT-
1 -AAAAATG
23538244 AAAAATG
1 AAAAATG
23538251 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 9 0.29
7 13 0.42
8 9 0.29
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:23539610 original size:44 final size:44
Alignment explanation
Indices: 23539555--23540239 Score: 665
Period size: 44 Copynumber: 15.4 Consensus size: 44
23539545 ATACTGGTGG
23539555 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA
*
23539599 TGAAGTAGATCGAA-AGTAATGCATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGA-TAATGGATCTTGTCTTCATGTATTGACA
** *
23539643 TGAAGTAGATC-AGAGATAACAGATCTTATCTTCATGTATTGACA
1 TGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGACA
*
23539687 TGAAGTAGATCG-AGATCAGAGATAGCAGATCTTATCTTCATGTATTGACA
1 TGAAGTAGATCGAAGAT---A-AT-G--GATCTTGTCTTCATGTATTGACA
* *
23539737 TGAAGTAGATCGAAGGTAATGGATTTTGTCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA
* *** * ***
23539781 TGAAGTAGATC-AGAGAT-ATCAGATCTTGTCTTCCCATACTGGGGG
1 TGAAGTAGATCGA-AGATAAT-GGATCTTGTCTTCATGTA-TTGACA
* *
23539826 TGAAGTAGATCGAAGGTAATGGATCTTGCCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA
* *** *
23539870 TGAAGTAGATCAAAGATAGCAGATCTTATCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA
** *
23539914 TGAAGTAGATC-AGAGATAACAGATCTTATCTTCATGTATTGACA
1 TGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGACA
* *
23539958 TGAAGTAGATCGAAGGTAATGGATCTTATCTTCATGTATTGACA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA
*** * *
23540002 TGAAGTAGATC-AGAGATAGCAGATCTTGTCTTCATGTATTGGCG
1 TGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGACA
* * * * *
23540046 TGAAGAAGATCGAAGA-AA-GCAGATCTTGTTTTCATGTACTGGCG
1 TGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGACA
* ** * *
23540090 TGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT-AGCG
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGA-CA
* * * *
23540134 TGAAGTAGATTGAAGA-AA-GCAGATCTTGTCTTCATGTACTGGCG
1 TGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGACA
*** *
23540178 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGCATTGACA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA
23540222 TGAAGTAGATCGAAGATA
1 TGAAGTAGATCGAAGATA
23540240 CCAGTCTTAT
Statistics
Matches: 543, Mismatches: 67, Indels: 62
0.81 0.10 0.09
Matches are distributed among these distances:
43 14 0.03
44 447 0.82
45 35 0.06
46 5 0.01
47 3 0.01
48 1 0.00
50 35 0.06
51 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (44 bp):
TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA
Found at i:23540013 original size:132 final size:132
Alignment explanation
Indices: 23539555--23540239 Score: 792
Period size: 132 Copynumber: 5.1 Consensus size: 132
23539545 ATACTGGTGG
23539555 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAAG-TA--
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AAAGATAGC
*
23539617 ATGCATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAACAGATCTTATCTTCATGTAT
65 A-G-ATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTAT
23539682 TGACA
128 TGACA
* *
23539687 TGAAGTAGATCG-AGATCAGAGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAA
1 TGAAGTAGATCGAAGAT---A-AT-G--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAA
* *** * * **
23539751 GGTAATGGATTTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATATCAGATCTTGTCTTCCC
59 GATAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAACAGATCTTGTCTTCAT
* * ***
23539816 ATACTGGGGG
124 GTA-TTGACA
* *
23539826 TGAAGTAGATCGAAGGTAATGGATCTTGCCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
* *
23539891 GATCTTATCTTCATGTATTGACATGAAGTAGATCAGAGATAACAGATCTTATCTTCATGTATTGA
66 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTATTGA
23539956 CA
131 CA
* * *
23539958 TGAAGTAGATCGAAGGTAATGGATCTTATCTTCATGTATTGACATGAAGTAGATCAGAGATAGCA
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
* * * * *
23540023 GATCTTGTCTTCATGTATTGGCGTGAAGAAGATC-GAAGA-AAGCAGATCTTGTTTTCATGTACT
66 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGATAA-CAGATCTTGTCTTCATGTATT
* *
23540086 GGCG
129 GACA
* ** * * ** *
23540090 TGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT-AGCGTGAAGTAGATTGAAGAAAGC
1 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGA-CATGAAGTAGATCAAAGATAGC
* * * * *
23540154 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-GAAGATAGCAGATCTTGTCTTCATGCATT
65 AGATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGATAACAGATCTTGTCTTCATGTATT
23540218 GACA
129 GACA
23540222 TGAAGTAGATCGAAGATA
1 TGAAGTAGATCGAAGATA
23540240 CCAGTCTTAT
Statistics
Matches: 473, Mismatches: 64, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
131 8 0.02
132 255 0.54
133 92 0.19
134 1 0.00
135 3 0.01
136 3 0.01
137 4 0.01
138 89 0.19
139 15 0.03
140 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (132 bp):
TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTATTGA
CA
Found at i:23540237 original size:88 final size:88
Alignment explanation
Indices: 23539555--23540237 Score: 745
Period size: 88 Copynumber: 7.7 Consensus size: 88
23539545 ATACTGGTGG
** *
23539555 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAAGTAATG
1 TGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATCG-AAG-AAAG
*
23539620 C--ATCTTGTCTTCATGTATTGACA
64 CAGATCTTGTCTTCATGTACTGACA
*
23539643 TGAAGTAGATC-AGAGATAACAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAGATCAGA
1 TGAAGTAGATCGA-AGATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATC--GA--AGA
* *
23539707 GATAGCAGATCTTATCTTCATGTATTGACA
61 -A-AGCAGATCTTGTCTTCATGTACTGACA
* ** * * *
23539737 TGAAGTAGATCGAAGGTAATGGATTTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGATATC
1 TGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGAAAGC
*** ***
23539801 AGATCTTGTCTTCCCATACTGGGGG
65 AGATCTTGTCTTCATGTACT-GACA
* ** * * *
23539826 TGAAGTAGATCGAAGGTAATGGATCTTGCCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
1 TGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAAAGCA
* *
23539891 GATCTTATCTTCATGTATTGACA
66 GATCTTGTCTTCATGTACTGACA
* *
23539914 TGAAGTAGATC-AGAGATAACAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGGTAAT
1 TGAAGTAGATCGA-AGATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAA-G-AAA
* *
23539978 G--GATCTTATCTTCATGTATTGACA
63 GCAGATCTTGTCTTCATGTACTGACA
* * * *
23540002 TGAAGTAGATC-AGAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGAAAGC
1 TGAAGTAGATCGA-AGATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAAAGC
* * *
23540066 AGATCTTGTTTTCATGTACTGGCG
65 AGATCTTGTCTTCATGTACTGACA
* * * *
23540090 TGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT-AGCGTGAAGTAGATTGAAGAAAGC
1 TGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGA-CATGAAGTAGATCGAAGAAAGC
* *
23540154 AGATCTTGTCTTCATGTACTGGCG
65 AGATCTTGTCTTCATGTACTGACA
* *
23540178 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGCATTGACATGAAGTAGATCGAAGA
1 TGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGA
23540238 TACCAGTCTT
Statistics
Matches: 511, Mismatches: 64, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
86 3 0.01
87 3 0.01
88 342 0.67
89 79 0.15
90 8 0.02
91 4 0.01
92 2 0.00
94 69 0.14
95 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (88 bp):
TGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAAAGCA
GATCTTGTCTTCATGTACTGACA
Found at i:23541173 original size:25 final size:25
Alignment explanation
Indices: 23541126--23541173 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
23541116 CTTAGTTTCG
**
23541126 TTTTGTTATTTTTTTTTGTTTTAGC
1 TTTTGTTATTTTTTTTTCATTTAGC
23541151 TTTT-TTATTTTATTTTTCATTTA
1 TTTTGTTATTTT-TTTTTCATTTA
23541174 AAATATAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.77
Consensus pattern (25 bp):
TTTTGTTATTTTTTTTTCATTTAGC
Found at i:23541882 original size:25 final size:25
Alignment explanation
Indices: 23541828--23541899 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 25
23541818 TATTACTTTG
* * *
23541828 TATTTTCTATACAT-ATAAATACGCA
1 TATTTT-TATATATAATATATAAGCA
23541853 T-TTTTTATATATAATATATAAGCA
1 TATTTTTATATATAATATATAAGCA
*
23541877 TATTTTTA-ATATATATTTATAAG
1 TATTTTTATATATA-ATATATAAG
23541900 TACGCATCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 6 0.15
24 19 0.47
25 15 0.38
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (25 bp):
TATTTTTATATATAATATATAAGCA
Found at i:23543487 original size:3 final size:3
Alignment explanation
Indices: 23543479--23543508 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
23543469 GTAACGATGA
23543479 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23543509 CAATTATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23543619 original size:20 final size:19
Alignment explanation
Indices: 23543581--23543624 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
23543571 TTATATTTAT
*
23543581 AATATTTACTATAAATAAA
1 AATATTTACAATAAATAAA
*
23543600 AATATTCTACAATTAATAAA
1 AATATT-TACAATAAATAAA
*
23543620 TATAT
1 AATAT
23543625 ATTTGCTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AATATTTACAATAAATAAA
Found at i:23546924 original size:23 final size:24
Alignment explanation
Indices: 23546880--23546935 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
23546870 AGGAACTTCG
23546880 TACTTTAGTTGCACTTACTTTAGT
1 TACTTTAGTTGCACTTACTTTAGT
**
23546904 TACTTTAGTT-CTTTTACTTTAGT
1 TACTTTAGTTGCACTTACTTTAGT
*
23546927 CACTTTAGT
1 TACTTTAGT
23546936 AAAACTGTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.54
Consensus pattern (24 bp):
TACTTTAGTTGCACTTACTTTAGT
Found at i:23549716 original size:29 final size:29
Alignment explanation
Indices: 23549673--23549736 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
23549663 GCAGACTGTA
**
23549673 TCACACGGCTGTGTGGC-AACCTGTGTGGG
1 TCACACGGCCATGTGGCTAACC-GTGTGGG
* *
23549702 TCACACGGCCATGTGGCTGATCGTGTGGG
1 TCACACGGCCATGTGGCTAACCGTGTGGG
23549731 TCACAC
1 TCACAC
23549737 AGTTGTGTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.16, C:0.27, G:0.34, T:0.23
Consensus pattern (29 bp):
TCACACGGCCATGTGGCTAACCGTGTGGG
Found at i:23558192 original size:57 final size:57
Alignment explanation
Indices: 23558104--23558216 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
23558094 TACCTAAGTC
*
23558104 ACAAGAAATCATGATTCAACATAACCTTTTTATGATTAACCTTTCATGCAATAATCT
1 ACAAGAAATCATGATTCAACATAACCTTTTTATGATTAACCTTTCATACAATAATCT
* *
23558161 ACAAGAAATCATGATTCGACATAAGCTTTTTATGATTAACCTTTCATACAATAATC
1 ACAAGAAATCATGATTCAACATAACCTTTTTATGATTAACCTTTCATACAATAATC
23558217 CTTAAGTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.35
Consensus pattern (57 bp):
ACAAGAAATCATGATTCAACATAACCTTTTTATGATTAACCTTTCATACAATAATCT
Found at i:23559960 original size:26 final size:26
Alignment explanation
Indices: 23559906--23559960 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
23559896 AATTTTCTCC
*
23559906 AAATTTTATCGAGGGTAAAATCGTCA
1 AAATTTTATCGAGGGTAAAATCGTAA
*
23559932 AAATTTTA-CTGAGGGTAAAATTGTAA
1 AAATTTTATC-GAGGGTAAAATCGTAA
23559958 AAA
1 AAA
23559961 AATTTATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (26 bp):
AAATTTTATCGAGGGTAAAATCGTAA
Found at i:23559973 original size:26 final size:26
Alignment explanation
Indices: 23559916--23559976 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
23559906 AAATTTTATC
* *
23559916 GAGGGTAAAATCGTCAAAATTTTACT
1 GAGGGTAAAATCGTAAAAAATTTACT
* *
23559942 GAGGGTAAAATTGTAAAAAAATTTATT
1 GAGGGTAAAATCGT-AAAAAATTTACT
23559969 G-GGGTAAA
1 GAGGGTAAA
23559977 TTTTGGATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.30
Consensus pattern (26 bp):
GAGGGTAAAATCGTAAAAAATTTACT
Found at i:23561351 original size:24 final size:24
Alignment explanation
Indices: 23561301--23561351 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
23561291 TAAGAAGAAA
* **
23561301 ATGGTTGTTTGATATGTTTTTGAT
1 ATGGTTATTTGATATGTTTAAGAT
* *
23561325 ATGGTTATTTGGTATGTTTAAGGT
1 ATGGTTATTTGATATGTTTAAGAT
23561349 ATG
1 ATG
23561352 TTAAATGAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (24 bp):
ATGGTTATTTGATATGTTTAAGAT
Found at i:23568327 original size:22 final size:21
Alignment explanation
Indices: 23568282--23568327 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
23568272 CTCACACACC
* *
23568282 TGTGTCTTCCCCACACGCCTG
1 TGTGGCTTCCCCACACGCCCG
*
23568303 TGTGGCTTCCTCCGCACGCCCG
1 TGTGGCTTCC-CCACACGCCCG
23568325 TGT
1 TGT
23568328 TGCTAGACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.07, C:0.41, G:0.24, T:0.28
Consensus pattern (21 bp):
TGTGGCTTCCCCACACGCCCG
Found at i:23572551 original size:18 final size:18
Alignment explanation
Indices: 23572528--23572565 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23572518 ATGTCTAAGA
23572528 TTAAATTAAAATTAAAGT
1 TTAAATTAAAATTAAAGT
23572546 TTAAATTAAAATTAAAGT
1 TTAAATTAAAATTAAAGT
23572564 TT
1 TT
23572566 CAAGTATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TTAAATTAAAATTAAAGT
Found at i:23583018 original size:14 final size:15
Alignment explanation
Indices: 23582999--23583027 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23582989 CGAGTCCAAA
23582999 AATAACCC-AATTAC
1 AATAACCCAAATTAC
23583013 AATAACCCAAATTAC
1 AATAACCCAAATTAC
23583028 CAGCCCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAACCCAAATTAC
Found at i:23583233 original size:23 final size:23
Alignment explanation
Indices: 23583180--23583225 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
23583170 GCACTGCACA
* *
23583180 CCTCCGTATGTGCCACGTCCGCG
1 CCTCCGTAGGTGCCACGTCCCCG
23583203 CCTCCGTAGGTGCCACGTCCCCG
1 CCTCCGTAGGTGCCACGTCCCCG
23583226 ATCTCGTACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.46, G:0.26, T:0.20
Consensus pattern (23 bp):
CCTCCGTAGGTGCCACGTCCCCG
Found at i:23584254 original size:16 final size:15
Alignment explanation
Indices: 23584235--23584275 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
23584225 CATAAAAAAG
23584235 TTTACTTAATATTTCA
1 TTTACTTAATATTT-A
* *
23584251 TTTAATTATTATTTA
1 TTTACTTAATATTTA
23584266 TTTACTTAAT
1 TTTACTTAAT
23584276 TTTGATCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTACTTAATATTTA
Found at i:23588906 original size:13 final size:13
Alignment explanation
Indices: 23588888--23588928 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
23588878 GATCCAATTC
23588888 AAAAAAAATCAAA
1 AAAAAAAATCAAA
*
23588901 AAAAAAAATCAAG
1 AAAAAAAATCAAA
*
23588914 AACAAAAA-CAAA
1 AAAAAAAATCAAA
23588926 AAA
1 AAA
23588929 GGAAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.05
Consensus pattern (13 bp):
AAAAAAAATCAAA
Found at i:23588994 original size:7 final size:8
Alignment explanation
Indices: 23588969--23588993 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23588959 AAAAAGAGAG
23588969 AAGGAAAA
1 AAGGAAAA
23588977 AAGGAAAA
1 AAGGAAAA
23588985 AAGGAAAA
1 AAGGAAAA
23588993 A
1 A
23588994 GAAAAGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AAGGAAAA
Found at i:23591370 original size:132 final size:132
Alignment explanation
Indices: 23591229--23591938 Score: 837
Period size: 132 Copynumber: 5.4 Consensus size: 132
23591219 GACACCAGCC
* * **
23591229 TTACCTCCCTATGGTTACAGTGGAGTACACTGAAGCTAGTAATTCTATCTCCCTGGTTGGCAGTG
1 TTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTG
*
23591294 GAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGA
66 GAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAA
23591359 TT
131 TT
* * ** *
23591361 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGTTGGTAGTG
1 TTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTG
* * * *
23591426 GAATAGATTGGAA-ATTACAGATCTTGTCTCCCTAAGCAGTAGCT-GAGCAAATCGAAGACGGCT
66 GAATAGATT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAG-TGGAGCAGATCGAAGATGGCG
23591489 AATT
129 AATT
* * * * * * * * ** * *
23591493 TTATCT-TC-AAGAG-TA-AG-GAAGCAGATTTAAGCCA-CAAGCCCTATCTCCCTAGTCAGTAG
1 TTACCTCCCTATG-GTTACAGTGGAGTACATTGAAGCCAGTAA-TTCTATCTCCCTGGTCAGCAG
* * ** * *
23591552 TGGAATAGGTT-AGGATTTTAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCG
64 TGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCG
*
23591616 GATT
129 AATT
* * * *
23591620 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATATCCTTGGGCAGCAGTG
1 TTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTG
*
23591685 GAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAA
66 GAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAA
*
23591750 CT
131 TT
* * * * *
23591752 TTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAGTTCTA-CTTCCCTGGGCAGCAGT
1 TTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGTCAGCAGT
* ** *
23591816 GGAATAGATTGAAGATTACAGATCTTACCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGGCGA
65 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGA
23591881 ATT
130 ATT
* * * *
23591884 TTACCTCCCTAAGGTTACAGTGGAGTATATTGAAGCCACTAATCCTATCTCCCTG
1 TTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
23591939 AAATTATAGT
Statistics
Matches: 488, Mismatches: 75, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
126 2 0.00
127 50 0.10
128 42 0.09
129 5 0.01
130 5 0.01
131 39 0.08
132 340 0.70
133 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (132 bp):
TTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTG
GAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAA
TT
Found at i:23592191 original size:50 final size:50
Alignment explanation
Indices: 23592130--23592305 Score: 169
Period size: 50 Copynumber: 3.5 Consensus size: 50
23592120 AATGGAACAA
* * *
23592130 GATTAAAGCCACAACGGTGAATCTTACTTCCTCGACATTGCCGTTAAAAT
1 GATTAAAGCCACAACAGCGAATCTTACTTCCTCGACATTGCAGTTAAAAT
* * ** * *
23592180 GATTAAAGCCACAACAGCGAATCTCACTT-CTCAAGCGGTGTAGTGAAACAT
1 GATTAAAGCCACAACAGCGAATCTTACTTCCTCGA-CATTGCAGTTAAA-AT
* * * * *
23592231 -ATTAAAGCCACATC-GATGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
1 GATTAAAGCCACAACAG-CGAATCTTACTTCCTCGACATTGCAGTTAAAAT
*
23592280 GATTAAAGCTACAACAGCGAATCTTA
1 GATTAAAGCCACAACAGCGAATCTTA
23592306 TTACCTTGGC
Statistics
Matches: 96, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
49 6 0.06
50 84 0.88
51 6 0.06
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (50 bp):
GATTAAAGCCACAACAGCGAATCTTACTTCCTCGACATTGCAGTTAAAAT
Found at i:23592356 original size:100 final size:100
Alignment explanation
Indices: 23592098--23592387 Score: 314
Period size: 100 Copynumber: 2.9 Consensus size: 100
23592088 GAGAATAGCA
* * * *
23592098 AATCTTACTTCCCTGGCAATGCAATGGAACAAGATTAAAGCCACAACGGTGAATCTTACTTCCTC
1 AATCTTACTTCCTTGGCGATGCAGTGGAAC-AGATTAAAGCCACAACGGTGAATCTTGCTTCCTC
* *
23592163 GACATTGCCGTTAAAATGATTAAAGCCACAACAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
* ** * * * * * * *
23592199 AATCTCACTT-CTCAAGCGGTGTAGTGAAACATATTAAAGCCACATCGATGAATCTTGCTTCCCC
1 AATCTTACTTCCT-TGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCTC
*
23592263 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
** * * *
23592299 AATCTTA-TTACCTTGGCGATGCAGTGGAACAGATTAGCGCCATAACGGCGAACCTTGCTTCCTC
1 AATCTTACTT-CCTTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCTC
** *
23592363 GACATCACAGTTAAACAGATTAAAG
65 GACATTGCAGTTAAAAAGATTAAAG
23592388 TTACGAGTTA
Statistics
Matches: 151, Mismatches: 35, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
99 2 0.01
100 128 0.85
101 21 0.14
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (100 bp):
AATCTTACTTCCTTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCG
ACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
Found at i:23592854 original size:14 final size:15
Alignment explanation
Indices: 23592835--23592863 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23592825 CGAGTCAAAA
23592835 AATAACCC-AATTAC
1 AATAACCCAAATTAC
23592849 AATAACCCAAATTAC
1 AATAACCCAAATTAC
23592864 CAGCCCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAACCCAAATTAC
Found at i:23597888 original size:38 final size:37
Alignment explanation
Indices: 23597818--23597890 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
23597808 ATTTCATAAT
*
23597818 TTCACTTTTTCACTTTCAATCAGAATTCAATTCAAAA
1 TTCACTTTTCCACTTTCAATCAGAATTCAATTCAAAA
23597855 TTCACTTTTCCA-TTTCTAAGTC-GATATTCAATTCAA
1 TTCACTTTTCCACTTTC-AA-TCAGA-ATTCAATTCAA
23597891 TTCCACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 15 0.47
38 13 0.41
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (37 bp):
TTCACTTTTCCACTTTCAATCAGAATTCAATTCAAAA
Found at i:23597921 original size:23 final size:22
Alignment explanation
Indices: 23597878--23597921 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
23597868 TTCTAAGTCG
23597878 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
23597901 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
23597922 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:23598038 original size:45 final size:45
Alignment explanation
Indices: 23597960--23598057 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
23597950 AATAATAACA
* * *
23597960 GATACTCGGTGGATTCAGCACATAGCAACCACCTTATTAATCAAT
1 GATATTCGATGGAATCAGCACATAGCAACCACCTTATTAATCAAT
* *
23598005 GATATTCGATGGAATCAGCACATAGCAAGCACCTTATTAATTAAT
1 GATATTCGATGGAATCAGCACATAGCAACCACCTTATTAATCAAT
23598050 GATATTCG
1 GATATTCG
23598058 GTTCACATAG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (45 bp):
GATATTCGATGGAATCAGCACATAGCAACCACCTTATTAATCAAT
Found at i:23598123 original size:51 final size:50
Alignment explanation
Indices: 23598065--23598247 Score: 215
Period size: 51 Copynumber: 3.6 Consensus size: 50
23598055 TCGGTTCACA
*
23598065 TAGTAGCCTGCACATAGTACTACACATGTGAACATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGAACA-TACCATCCGATACACG
* * * * * * *
23598116 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGAAC-ATACCATCCGATACACG
* * * * *
23598167 TAGTAGCCTGCACATAGTACTACACATGCG-ACCTATCATCCTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGAACATACCATCCGA-TACACG
23598217 TAGTAGCCTGCACATAGTACTACACACGTGA
1 TAGTAGCCTGCACATAGTACTACACACGTGA
23598248 CCATCACTTT
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
49 4 0.04
50 33 0.31
51 69 0.64
52 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGAACATACCATCCGATACACG
Found at i:23598240 original size:101 final size:102
Alignment explanation
Indices: 23598063--23598247 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
23598053 ATTCGGTTCA
* *
23598063 CATAGTAGCCTGCACATAGTACTACACATGTGAACATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGAACACTACCATCCGATACACGTAGTAGCCTGCA
23598128 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
66 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* *
23598165 CATAGTAGCCTGCACATAGTACTACACATGCG-AC-CTATCATCCTAGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGAACACTACCATCCGA-TACACGTAGTAGCCTGC
23598228 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
23598248 CCATCACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 8 0.10
101 39 0.50
102 31 0.40
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGAACACTACCATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:23607537 original size:22 final size:21
Alignment explanation
Indices: 23607512--23607554 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
23607502 TGATAAAATT
23607512 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
23607534 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
23607555 CCAACTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:23620319 original size:27 final size:27
Alignment explanation
Indices: 23620281--23620343 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
23620271 CGACATCATA
*
23620281 GATAGTCCAACAAGACATTAAACACAG
1 GATAGTCCAACAAGACACTAAACACAG
* * *
23620308 GATAGTTCAACATGACACTAAACACCG
1 GATAGTCCAACAAGACACTAAACACAG
*
23620335 GATGGTCCA
1 GATAGTCCA
23620344 TTGATGCGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (27 bp):
GATAGTCCAACAAGACACTAAACACAG
Found at i:23620424 original size:20 final size:19
Alignment explanation
Indices: 23620380--23620416 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23620370 CATGTAAGAC
23620380 CATAGTTGAAAGACACTAT
1 CATAGTTGAAAGACACTAT
23620399 CATAGTTGAAA-ACACTAT
1 CATAGTTGAAAGACACTAT
23620417 GACATAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (19 bp):
CATAGTTGAAAGACACTAT
Found at i:23622242 original size:21 final size:21
Alignment explanation
Indices: 23622197--23622259 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
23622187 TTTGAACCAT
* *
23622197 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
23622219 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
23622240 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
23622260 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:23629168 original size:22 final size:22
Alignment explanation
Indices: 23629143--23629187 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
23629133 ATTGGATTAA
23629143 AATTAAAATTAATTAT-ATTTTG
1 AATTAAAATT-ATTATAATTTTG
* *
23629165 AATTAATATTTTTATAATTTTG
1 AATTAAAATTATTATAATTTTG
23629187 A
1 A
23629188 CCTTCTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
AATTAAAATTATTATAATTTTG
Found at i:23629322 original size:11 final size:11
Alignment explanation
Indices: 23629308--23629348 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
23629298 GAAAATAATC
*
23629308 AAAATTAATAAA
1 AAAATTAAT-AT
23629320 AAAATTAATAT
1 AAAATTAATAT
23629331 AAAATTAAT-T
1 AAAATTAATAT
23629341 AAAATTAA
1 AAAATTAA
23629349 ACATGTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
10 9 0.32
11 10 0.36
12 9 0.32
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:23632958 original size:45 final size:44
Alignment explanation
Indices: 23632885--23633047 Score: 177
Period size: 45 Copynumber: 3.6 Consensus size: 44
23632875 GGCTATAGTC
* *
23632885 TAAAATGAGTAAGATCATAGCTGGAAGATGTTATGACATCATGA
1 TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATGA
* *
23632929 TAAGGATGAGTAAGACCATAGCTGAAAGATACTCTA-G-CATCATGA
1 TAA-AATGAGTAAGACCATAGCTGAAAGAT-GT-TATGACATCATGA
* * *
23632974 TATAAATGAGTAAGGCCATAACTGAAAGATGTTATGACATCATGG
1 TA-AAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATGA
* * *
23633019 TAAACAGGATTAAGACCATAGCTAAAAGA
1 TAAA-ATGAGTAAGACCATAGCTGAAAGA
23633048 AGCTACGACA
Statistics
Matches: 98, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
43 2 0.02
44 7 0.07
45 84 0.86
46 3 0.03
47 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.24
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATGA
Found at i:23634260 original size:13 final size:13
Alignment explanation
Indices: 23634230--23634263 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
23634220 GTTCCCAAGT
*
23634230 TATGTTTT-AATC
1 TATGTTTTAAATA
23634242 TATGTTTTAAATA
1 TATGTTTTAAATA
23634255 TATGTTTTA
1 TATGTTTTA
23634264 TGCATGCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (13 bp):
TATGTTTTAAATA
Found at i:23641503 original size:137 final size:138
Alignment explanation
Indices: 23641254--23641522 Score: 371
Period size: 137 Copynumber: 2.0 Consensus size: 138
23641244 GAGCTATAAT
* * *
23641254 ATGGGCCTGATCACACAAGTTGTCGGTCAGAATGTAAGCTACACAATGCTACTCACACAAGCTGT
1 ATGGGCCTGATCACACAAGTTGTCGGTCAAAACGTAAGCTACACAATGCTACTCACACAAGCTAT
* * * * * * * *
23641319 CGAGTATCGGCAACTAATGCTAGACCTCATCCATCGGTAGGACATTCAAGACCAACACCCGAAAC
66 CGAGTATCCGCAACAAATGCTAGAACTCAGCCACCGGCAGGAAATTCAAGACCAACACCCAAAAC
23641384 ATAGTAAC
131 ATAGTAAC
* * *
23641392 ATGGGTCTGCTCACACAAGTTGTCGGTCAAAACGT-AGCTACACGATGCTACTCACACAAGCTAT
1 ATGGGCCTGATCACACAAGTTGTCGGTCAAAACGTAAGCTACACAATGCTACTCACACAAGCTAT
* *
23641456 CGAGTATCCGCAACAAATG-TCAGAACTCAGCCACCGGCAGGAAATTCAAGGCCACCACCCAAAA
66 CGAGTATCCGCAACAAATGCT-AGAACTCAGCCACCGGCAGGAAATTCAAGACCAACACCCAAAA
23641520 CAT
130 CAT
23641523 GGAAACCCTA
Statistics
Matches: 114, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
136 1 0.01
137 82 0.72
138 31 0.27
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (138 bp):
ATGGGCCTGATCACACAAGTTGTCGGTCAAAACGTAAGCTACACAATGCTACTCACACAAGCTAT
CGAGTATCCGCAACAAATGCTAGAACTCAGCCACCGGCAGGAAATTCAAGACCAACACCCAAAAC
ATAGTAAC
Found at i:23649882 original size:16 final size:16
Alignment explanation
Indices: 23649852--23649887 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
23649842 TTTTTAACAT
23649852 AAATTAAACTAAATTCA
1 AAATTAAACTAAATT-A
23649869 AAATTAAA-TAAATTA
1 AAATTAAACTAAATTA
23649884 AAAT
1 AAAT
23649888 AATTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 6 0.32
17 8 0.42
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATTAAACTAAATTA
Found at i:23651521 original size:27 final size:27
Alignment explanation
Indices: 23651491--23651812 Score: 409
Period size: 27 Copynumber: 11.9 Consensus size: 27
23651481 AAATGATCGG
* * *
23651491 AATACCTTTGAAGGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACTGA
* * *
23651518 AATACCCTTGAAAGGTAAAATGACTAA
1 AATACCCTCGAAGGGTAAAATGACTGA
*
23651545 AATACCCTCGATGGGTAAAATGA-TCGA
1 AATACCCTCGAAGGGTAAAATGACT-GA
*
23651572 AATACCCTCGAAGGGTAAAATGACTAA
1 AATACCCTCGAAGGGTAAAATGACTGA
23651599 AATACCCTCGAAGGGTAAAATGA-TCGA
1 AATACCCTCGAAGGGTAAAATGACT-GA
* * *
23651626 AATACCCTCTAAAGTTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACTGA
* *
23651653 AATACCCTCAAAAGGTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACTGA
*
23651680 AATACCCTCGAAGAGTAAAATGA-TCGA
1 AATACCCTCGAAGGGTAAAATGACT-GA
*
23651707 AATACCCCCGAAGGGTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACTGA
* * *
23651734 AATACCCCCAAAGGGTAAAATGATTGA
1 AATACCCTCGAAGGGTAAAATGACTGA
23651761 AATACCCTCGAAGGGTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACTGA
*
23651788 AATACCC-CCATAGGGTAAAATGACT
1 AATACCCTCGA-AGGGTAAAATGACT
23651813 ATTATACCCC
Statistics
Matches: 261, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.02
27 253 0.97
28 3 0.01
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (27 bp):
AATACCCTCGAAGGGTAAAATGACTGA
Found at i:23659043 original size:44 final size:44
Alignment explanation
Indices: 23658975--23659080 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
23658965 TTTTATCTAA
* * * *
23658975 GAAAAAAAG--TTTAAAAATATGAGAATATAATATTGGGTTGTT
1 GAAAAAAAGAATTTAAAAAGAGGAGAAGATAATATTAGGTTGTT
*
23659017 GAAAAAAAGAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTT
1 GAAAAAAAGAATTTAAAAAGAGGAGAAGATAATATTAGGTTGTT
*
23659061 G-AAAAATGAATTTAAGAAAG
1 GAAAAAAAGAATTTAA-AAAG
23659081 GTATAAAAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
42 9 0.16
43 13 0.24
44 33 0.60
ACGTcount: A:0.51, C:0.01, G:0.21, T:0.27
Consensus pattern (44 bp):
GAAAAAAAGAATTTAAAAAGAGGAGAAGATAATATTAGGTTGTT
Found at i:23660123 original size:50 final size:50
Alignment explanation
Indices: 23660048--23660149 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
23660038 AGTTTACTTT
*
23660048 AATTTCCATAGGTTTGCCATCAATGTATGAGAAGAGGCTTTCCTGCTAGC
1 AATTTCCATAGGTTTGCCATCAATGTATGAGAAGAGGCATTCCTGCTAGC
23660098 AATTTCCATAGGTTTGCCATCAATGTATGAGAAGAGGCATTCCTGCTAGC
1 AATTTCCATAGGTTTGCCATCAATGTATGAGAAGAGGCATTCCTGCTAGC
23660148 AA
1 AA
23660150 AGAATATCCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (50 bp):
AATTTCCATAGGTTTGCCATCAATGTATGAGAAGAGGCATTCCTGCTAGC
Found at i:23664248 original size:43 final size:43
Alignment explanation
Indices: 23664121--23664235 Score: 196
Period size: 42 Copynumber: 2.7 Consensus size: 43
23664111 ATCCTAGAAA
*
23664121 AAAAAAGAATTTAAAAAGAGGAGATGATAATCTTGGGATGTTG
1 AAAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGATGTTG
*
23664164 -AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGCTGTTG
1 AAAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGATGTTG
*
23664206 AAAAAAGAATTTAAAAAGAGGAGAAAATAA
1 AAAAAAGAATTTAAAAAGAGGAGAAGATAA
23664236 ACATGGGTTG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
42 40 0.59
43 28 0.41
ACGTcount: A:0.52, C:0.03, G:0.23, T:0.22
Consensus pattern (43 bp):
AAAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGATGTTG
Found at i:23674522 original size:29 final size:28
Alignment explanation
Indices: 23674490--23674545 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
23674480 TCAGGTTACA
* * *
23674490 TTTTAGTTACTTATGTTTGAAATGTTATG
1 TTTTAGTCACTTACG-TTAAAATGTTATG
23674519 TTTTAGTCACTTACGTTAAAATGTTAT
1 TTTTAGTCACTTACGTTAAAATGTTAT
23674546 AACATTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (28 bp):
TTTTAGTCACTTACGTTAAAATGTTATG
Found at i:23675847 original size:19 final size:19
Alignment explanation
Indices: 23675823--23675874 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
23675813 CGCCTCTTTT
23675823 TGCATT-CATTTCATTCATA
1 TGCATTACATTTCA-TCATA
23675842 TGCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
*
23675861 TGCATTATATTTCA
1 TGCATTACATTTCA
23675875 CAAAAAGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 24 0.77
20 7 0.23
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:23682630 original size:45 final size:45
Alignment explanation
Indices: 23682566--23682825 Score: 252
Period size: 45 Copynumber: 5.5 Consensus size: 45
23682556 ACAAGTTACA
23682566 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
* * * * * * *
23682611 AATCTTATTTTCCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAA--TA-TAG---CG
23682662 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
* * * * * * *
23682707 AATCTTATTTTCCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAA--TA-TAG---CG
*
23682758 AATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAA-TAGATTGAATATAGCG
*
23682803 AATCTTATTTCCCTGAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCA
23682826 ACGGAATAAA
Statistics
Matches: 172, Mismatches: 30, Indels: 26
0.75 0.13 0.11
Matches are distributed among these distances:
45 90 0.52
47 4 0.02
48 8 0.05
49 3 0.02
50 2 0.01
51 65 0.38
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
Found at i:23682696 original size:147 final size:146
Alignment explanation
Indices: 23682417--23682684 Score: 394
Period size: 147 Copynumber: 1.8 Consensus size: 146
23682407 GATTAAAGCC
* * * *
23682417 ACAAATCTTATCTCTCTAGAGTTACATTGGAGCAGATTGAATATGCGAATTTTATTTCCCTGAAC
1 ACAAATCTTATCTCCCTAGAGTTACAGTGGAACAGATTGAATATGCGAATCTTATTTCCCTGAAC
* * *
23682482 TTGTAATGGAATAAATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAATGCAACAG
66 TTGCAATGAAACAAATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAATGCAACAG
23682547 ATTAAAGCTACAAGTT
131 ATTAAAGCTACAAGTT
* * *
23682563 ACAAATCTTATCTCCCT-GAAGTTGCAGTGGAATAGATTGAATATAGCGAATCTTATTTTCCTGA
1 ACAAATCTTATCTCCCTAG-AGTTACAGTGGAACAGATTGAATAT-GCGAATCTTATTTCCCTGA
* * *
23682627 AGTTGCAGTGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCA
64 ACTTGCAATGAAACAAATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCA
23682685 GTGGAATAGA
Statistics
Matches: 107, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
145 1 0.01
146 37 0.35
147 69 0.64
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (146 bp):
ACAAATCTTATCTCCCTAGAGTTACAGTGGAACAGATTGAATATGCGAATCTTATTTCCCTGAAC
TTGCAATGAAACAAATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAATGCAACAG
ATTAAAGCTACAAGTT
Found at i:23682784 original size:51 final size:51
Alignment explanation
Indices: 23682496--23682785 Score: 352
Period size: 51 Copynumber: 5.9 Consensus size: 51
23682486 AATGGAATAA
* *
23682496 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAATGCAACAG
1 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAACAG
* *
23682547 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAATAG
1 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAACAG
* * * * *
23682598 ATTGAA--TA-TAG---CGAATCTTATTTTCCTGAAGTTGCAGTGAAACAG
1 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAACAG
* *
23682643 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAATAG
1 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAACAG
* * * * *
23682694 ATTGAA--TA-TAG---CGAATCTTATTTTCCTGAAGTTGCAGTGAAACAG
1 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAACAG
23682739 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAA
1 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAA
23682786 GTAGATTGAA
Statistics
Matches: 198, Mismatches: 29, Indels: 24
0.79 0.12 0.10
Matches are distributed among these distances:
45 68 0.34
47 4 0.02
48 8 0.04
49 4 0.02
51 114 0.58
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (51 bp):
ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGAAACAG
Found at i:23682792 original size:147 final size:144
Alignment explanation
Indices: 23682496--23682785 Score: 343
Period size: 147 Copynumber: 2.0 Consensus size: 144
23682486 AATGGAATAA
23682496 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAATGCAACAGATTAAAGCTACAAG
1 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAATGCAACAGATTAAA-CTACAAG
* * * * * * *
23682561 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCGAATCTTATTTTCCTG
65 -T-CAAATCTTATCTCCCTGAAGTTGCAGTGAAACAGATTAAATAAAGCAAATCTTATCTCCCTG
23682626 AAGTTGCAGTGAAACAG
128 AAGTTGCAGTGAAACAG
* * * * *
23682643 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAA-TA-TAG-
1 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAATGCAACAGATTAAACTACAAGT
* * *
23682705 CGAATCTTATTTTCCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCC
66 CAAATCTTATCTCCCTGAAGTTGCAGTGAAACAGATTAAA--TA-AAG---CAAATCTTATCTCC
23682770 CTGAAGTTGCAGTGAA
125 CTGAAGTTGCAGTGAA
23682786 GTAGATTGAA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
141 34 0.28
143 2 0.02
144 4 0.03
145 2 0.02
147 80 0.66
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (144 bp):
ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAATGCAACAGATTAAACTACAAGT
CAAATCTTATCTCCCTGAAGTTGCAGTGAAACAGATTAAATAAAGCAAATCTTATCTCCCTGAAG
TTGCAGTGAAACAG
Found at i:23682875 original size:192 final size:192
Alignment explanation
Indices: 23682515--23683015 Score: 536
Period size: 192 Copynumber: 2.6 Consensus size: 192
23682505 ACAAGTTACA
*
23682515 AATCTTATCTCCCTGAAGTTGCAATGCAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAATGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
* * ** *
23682580 GAAGTTGCAGTGGAATAGATTGAATATAGCGAATCTTATTTTCCTGAAGTTGCAGTGAAACAGAT
66 GAAGTTGCAGTGGAATAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAACGAAACAAAT
*** * *
23682645 TAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAATATAGCG
131 TAAAGCTACAAACCACAAATCCTATCTCCCTAAAGTTGCAGTGGAATAGATTGAATATAGCG
* * *
23682707 AATCTTATTTTCCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAATGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
* *
23682772 GAAGTTGCAGT-GAAGTAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAACGGAATAAA
66 GAAGTTGCAGTGGAA-TAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAACGAAACAAA
* * * * **
23682836 TTAAAGCTATAAACCACAAATCCTATAC-CCTTAAAGTTGCAATGGGACGGATTGAAGTCATTAT
130 TTAAAGCTACAAACCACAAATCCTAT-CTCCCTAAAGTTGCAGTGGAATAGATTGAA-T-A-TA-
*
23682900 GGTG
190 -GCG
* * * * * * *
23682904 AATATTATCTCCTTGAAGTTGTAGA-GGAGCATATTAAAGC--C-----ACAAATCTTATCTCCT
1 AATCTTATCTCCCTGAAGTTGCA-ATGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
* * * * **
23682961 TGAAGTTGCAGTGGAGTAGATTGGAGATAGCAAATCTTATCTCTATGAAGTTGCA
65 TGAAGTTGCAGTGGAATAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
23683016 GTAGAACAGA
Statistics
Matches: 261, Mismatches: 39, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
190 61 0.23
191 5 0.02
192 157 0.60
193 2 0.01
194 1 0.00
195 3 0.01
197 32 0.12
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (192 bp):
AATCTTATCTCCCTGAAGTTGCAATGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
GAAGTTGCAGTGGAATAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAACGAAACAAAT
TAAAGCTACAAACCACAAATCCTATCTCCCTAAAGTTGCAGTGGAATAGATTGAATATAGCG
Found at i:23682876 original size:96 final size:96
Alignment explanation
Indices: 23682515--23682844 Score: 545
Period size: 96 Copynumber: 3.4 Consensus size: 96
23682505 ACAAGTTACA
* *
23682515 AATCTTATCTCCCTGAAGTTGCAATGCAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
1 AATCTTATTTCCCTGAAGTTGCAATGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
23682580 GAAGTTGCAGTGGAATAGATTGAATATAGCG
66 GAAGTTGCAGTGGAATAGATTGAATATAGCG
* *
23682611 AATCTTATTTTCCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
1 AATCTTATTTCCCTGAAGTTGCAATGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
23682676 GAAGTTGCAGTGGAATAGATTGAATATAGCG
66 GAAGTTGCAGTGGAATAGATTGAATATAGCG
* *
23682707 AATCTTATTTTCCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
1 AATCTTATTTCCCTGAAGTTGCAATGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
*
23682772 GAAGTTGCAGT-GAAGTAGATTGAAGATAGCG
66 GAAGTTGCAGTGGAA-TAGATTGAATATAGCG
* * * *
23682803 AATCTTATTTCCCTGAAGTTGCAACGGAATAAATTAAAGCTA
1 AATCTTATTTCCCTGAAGTTGCAATGAAACAGATTAAAGCTA
23682845 TAAACCACAA
Statistics
Matches: 222, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
95 3 0.01
96 219 0.99
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (96 bp):
AATCTTATTTCCCTGAAGTTGCAATGAAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
GAAGTTGCAGTGGAATAGATTGAATATAGCG
Found at i:23683010 original size:45 final size:44
Alignment explanation
Indices: 23682945--23683122 Score: 178
Period size: 44 Copynumber: 4.0 Consensus size: 44
23682935 TATTAAAGCC
* * *
23682945 ACAAATCTTATCTC-CTTGAAGTTGCAGTGGAGTAGATTGGAGAT
1 ACAAATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATTGAAGAT
* * * *
23682989 AGCAAATCTTATCTCTATGAAGTTGCAGTAGAACAGATTTAAGCT
1 A-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGAT
* * * * **
23683034 ACAAATCTCATCTCTCTGATGTTGTAGTATAGCAGATTGAAGCC
1 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGAT
* * * *
23683078 ACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAGAT
1 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGAT
23683122 A
1 A
23683123 GCGAATTTTA
Statistics
Matches: 107, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
44 71 0.66
45 36 0.34
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGAT
Found at i:23684625 original size:26 final size:26
Alignment explanation
Indices: 23684546--23684627 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
23684536 GATGGTCACG
23684546 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * * *
23684572 CGTGTACCGGA--ATGAT--AGGTTGC-A
1 TGTGTA--GTACTATG-TGCAGGCTACTA
23684596 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
23684622 TGTGTA
1 TGTGTA
23684628 TCGGATAGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
22 2 0.05
23 1 0.03
24 9 0.22
25 10 0.25
26 15 0.38
27 1 0.03
28 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:23684671 original size:51 final size:50
Alignment explanation
Indices: 23684541--23684732 Score: 206
Period size: 51 Copynumber: 3.8 Consensus size: 50
23684531 AAAGTGATGG
* * * *
23684541 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATA-GTTTGA
** * *
23684591 TTGCATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTTT-GA
* * * * *
23684642 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGT-TTGA
* * *
23684693 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGAATCG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
23684733 AATATCATTG
Statistics
Matches: 117, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
50 39 0.33
51 77 0.66
52 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTTTGA
Found at i:23684787 original size:45 final size:45
Alignment explanation
Indices: 23684736--23684822 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
23684726 TGAATCGAAT
* * *
23684736 ATCATTGATTAGTAAGGTGGTTGTTATGTGCTGATTCCACCGGAC
1 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGGAC
23684781 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
23684823 AGTATATGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (45 bp):
ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGGAC
Found at i:23689020 original size:20 final size:21
Alignment explanation
Indices: 23688997--23689042 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
23688987 ATTTCATGGC
*
23688997 TTTTTTAG-AAATTTGGGTTT
1 TTTTTTAGAAAATTTGGGATT
*
23689017 TTTTTTGGAAAATTTGGGATT
1 TTTTTTAGAAAATTTGGGATT
23689038 TTTTT
1 TTTTT
23689043 GTAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.61
Consensus pattern (21 bp):
TTTTTTAGAAAATTTGGGATT
Found at i:23689043 original size:20 final size:21
Alignment explanation
Indices: 23688997--23689043 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
23688987 ATTTCATGGC
* *
23688997 TTTTTTAG-AAATTTGGGTTT
1 TTTTTTGGAAAATTTGGGTAT
23689017 TTTTTTGGAAAATTTGGG-AT
1 TTTTTTGGAAAATTTGGGTAT
23689037 TTTTTTG
1 TTTTTTG
23689044 TAATTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.19, C:0.00, G:0.21, T:0.60
Consensus pattern (21 bp):
TTTTTTGGAAAATTTGGGTAT
Found at i:23714571 original size:6 final size:6
Alignment explanation
Indices: 23714560--23714584 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23714550 GAAGGTAATT
23714560 ATTGAA ATTGAA ATTGAA ATTGAA A
1 ATTGAA ATTGAA ATTGAA ATTGAA A
23714585 ATTTAAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
ATTGAA
Found at i:23730267 original size:17 final size:18
Alignment explanation
Indices: 23730245--23730278 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23730235 AACTTTGTTT
23730245 ATAATTTT-ATTAAAAAA
1 ATAATTTTAATTAAAAAA
23730262 ATAATTTTAATTAAAAA
1 ATAATTTTAATTAAAAA
23730279 CGGGCAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAATTTTAATTAAAAAA
Found at i:23733537 original size:5 final size:5
Alignment explanation
Indices: 23733502--23733530 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
23733492 AAAAATCTTT
23733502 TAATA TAATA TAATA TAATA TAATA TAAT
1 TAATA TAATA TAATA TAATA TAATA TAAT
23733531 TATATTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:23736599 original size:18 final size:19
Alignment explanation
Indices: 23736573--23736610 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
23736563 AGGAGTATAG
*
23736573 TCTTGCTTGA-ACCAGTCA
1 TCTTCCTTGATACCAGTCA
*
23736591 TCTTCCTTGATACCCGTCA
1 TCTTCCTTGATACCAGTCA
23736610 T
1 T
23736611 TGTTATCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.18, C:0.32, G:0.13, T:0.37
Consensus pattern (19 bp):
TCTTCCTTGATACCAGTCA
Found at i:23740856 original size:2 final size:2
Alignment explanation
Indices: 23740815--23740843 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23740805 CAATCAAAGA
23740815 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
23740844 GTGTTTGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:23744114 original size:13 final size:13
Alignment explanation
Indices: 23744096--23744120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23744086 TAGGTTTGAT
23744096 TTAATATTTATTA
1 TTAATATTTATTA
23744109 TTAATATTTATT
1 TTAATATTTATT
23744121 TTCAAAATAA
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:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATATTTATTA
Found at i:23745753 original size:83 final size:83
Alignment explanation
Indices: 23745614--23745779 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
23745604 TTCACCACTT
23745614 AAGGTTTGTGTGATTGAAGTTGCAGATTTAATAGCTTCCTGCAAATATAAAGCAGGTCATCTTAA
1 AAGGTTTGTGTGATTGAAGTTGCAGATTTAATAGCTTCCTGCAAATATAAAGCAGGTCATCTTAA
23745679 AAGAGTTAGCTGTACCAG
66 AAGAGTTAGCTGTACCAG
*
23745697 AAGGTTTGTGTGATTGAAGTTGCAGATTTAATAGTTTCCTGCAAATATAAAGCAGGTCATCTTAA
1 AAGGTTTGTGTGATTGAAGTTGCAGATTTAATAGCTTCCTGCAAATATAAAGCAGGTCATCTTAA
23745762 AAGAGTTAGCTGTACCAG
66 AAGAGTTAGCTGTACCAG
23745780 CAAAGTCAGT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (83 bp):
AAGGTTTGTGTGATTGAAGTTGCAGATTTAATAGCTTCCTGCAAATATAAAGCAGGTCATCTTAA
AAGAGTTAGCTGTACCAG
Found at i:23752903 original size:23 final size:23
Alignment explanation
Indices: 23752877--23752925 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
23752867 ATTTTTTTTC
23752877 TTCGGTTTAATCAATTCAATCCA
1 TTCGGTTTAATCAATTCAATCCA
* *
23752900 TTCGGTTTGATCAATTCAATCGA
1 TTCGGTTTAATCAATTCAATCCA
23752923 TTC
1 TTC
23752926 AATTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (23 bp):
TTCGGTTTAATCAATTCAATCCA
Found at i:23762195 original size:50 final size:50
Alignment explanation
Indices: 23762080--23762328 Score: 282
Period size: 50 Copynumber: 4.8 Consensus size: 50
23762070 GATAATAACA
* * * ** * *
23762080 TGCCAAAGCCATGTACCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
23762131 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
23762181 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
23762231 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
23762286 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
23762329 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
50 93 0.55
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:23762263 original size:100 final size:104
Alignment explanation
Indices: 23762079--23762328 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 104
23762069 TGATAATAAC
* ** * *
23762079 ATGCCAAAGCCATGTACCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
*
23762144 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTATAGGGGACCTCTCAATCTTAAGG
* *
23762181 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
23762245 CCCAGACATGGTCTTATAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTATAGGGGACCTCTCA--ATCTTAAGG
* *
23762286 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23762329 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 51 0.39
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTATAGGGGACCTCTCAATCTTAAGG
Found at i:23768590 original size:58 final size:58
Alignment explanation
Indices: 23768500--23768615 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
23768490 GCAAATAAAT
23768500 AACAATATTTAACTCAAATAGTTAAACTCAAATGTCTATATCTCTAATTTACTCTTTA
1 AACAATATTTAACTCAAATAGTTAAACTCAAATGTCTATATCTCTAATTTACTCTTTA
*
23768558 AACAATATTTAACTCAAATAGTTAAACTCAAATGTCTATATCTCTAGTTTACTCTTTA
1 AACAATATTTAACTCAAATAGTTAAACTCAAATGTCTATATCTCTAATTTACTCTTTA
23768616 GTTAATCTCA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.40
Consensus pattern (58 bp):
AACAATATTTAACTCAAATAGTTAAACTCAAATGTCTATATCTCTAATTTACTCTTTA
Found at i:23768933 original size:51 final size:54
Alignment explanation
Indices: 23768852--23768998 Score: 176
Period size: 51 Copynumber: 2.7 Consensus size: 54
23768842 TGATAATAAC
* **
23768852 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATG-TT-GG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATGATTAGG
* * *
23768904 -TGCCCATGCCATGTCCCAGACATGATCTTACAGGGGA-CCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATGA--TT-AGG
*
23768959 ATGCCAATGCCATGCCCCAGACATGGTCTTACATGGGATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
23768999 TCTTTACCCA
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
50 7 0.09
51 33 0.42
53 2 0.03
55 2 0.03
56 33 0.42
57 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (54 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATGATTAGG
Found at i:23772429 original size:27 final size:27
Alignment explanation
Indices: 23772005--23772423 Score: 488
Period size: 27 Copynumber: 15.5 Consensus size: 27
23771995 TATGATTCGT
23772005 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
*
23772032 GATAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
23772059 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* * * *
23772086 GGTAATACGATTGAAATTCCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* ** *
23772113 GGTAAAATAACCAAAATACCCTCAAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
23772140 GGTAAAATTA-TCGAAATACCCTTGAAG
1 GGTAAAATGACT-GAAATACCCTCGAAG
* *
23772167 GGTAAAATGACTAAAATACCATCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
23772194 GGTAAAATTACTAAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* * *
23772221 GGTAAAATAACTAAAATACCCATCAAAG
1 GGTAAAATGACTGAAATACCC-TCGAAG
*
23772249 GGTAAAATGACTGAAATACGCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
23772276 GGTAAAATTA-TCGAAATACCTTCGAAG
1 GGTAAAATGACT-GAAATACCCTCGAAG
*
23772303 GGTAAAATTACTGAAATACCC-CTGAAG
1 GGTAAAATGACTGAAATACCCTC-GAAG
* * *
23772330 AGTAAAATTA-TCGAAATACCCTTGAAG
1 GGTAAAATGACT-GAAATACCCTCGAAG
* *
23772357 GGTAAAATTACGGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
23772384 GGTAAAATTA-TCGAAATACCCCCGAAG
1 GGTAAAATGACT-GAAATACCCTCGAAG
23772411 GGTAAAATGACTG
1 GGTAAAATGACTG
23772424 TTATACTCCT
Statistics
Matches: 338, Mismatches: 43, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.01
27 309 0.91
28 26 0.08
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCTCGAAG
Found at i:23783814 original size:22 final size:21
Alignment explanation
Indices: 23783765--23783814 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
23783755 CACTTATCTG
23783765 ATTTTGGTAGATTACCGCACT
1 ATTTTGGTAGATTACCGCACT
* * *
23783786 ATATTTGGTAGCTTGACTGTACT
1 AT-TTTGGTAGATT-ACCGCACT
23783809 ATTTTG
1 ATTTTG
23783815 AAAGTGATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 14 0.58
23 8 0.33
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (21 bp):
ATTTTGGTAGATTACCGCACT
Found at i:23783965 original size:6 final size:6
Alignment explanation
Indices: 23783954--23784010 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
23783944 ACCTTTATTA
* * * * *
23783954 GTATCT GTATCT GTATTT GTATTT GTATTT GTATCT ATATCT GTAACT
1 GTATCT GTATCT GTATCT GTATCT GTATCT GTATCT GTATCT GTATCT
23784002 -TATCT GTAT
1 GTATCT GTAT
23784011 TCGTATTTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
5 4 0.09
6 40 0.91
ACGTcount: A:0.21, C:0.11, G:0.14, T:0.54
Consensus pattern (6 bp):
GTATCT
Found at i:23783970 original size:18 final size:18
Alignment explanation
Indices: 23783935--23783998 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
23783925 TATCAATATC
* * *
23783935 AGTATCTGCACCTTTATT
1 AGTATCTGTATCTGTATT
23783953 AGTATCTGTATCTGTATT
1 AGTATCTGTATCTGTATT
* * *
23783971 TGTATTTGTATTTGTATCT
1 AGTATCTGTATCTGTAT-T
23783990 A-TATCTGTA
1 AGTATCTGTA
23783999 ACTTATCTGT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 36 0.97
19 1 0.03
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (18 bp):
AGTATCTGTATCTGTATT
Found at i:23783974 original size:12 final size:12
Alignment explanation
Indices: 23783954--23784038 Score: 61
Period size: 12 Copynumber: 7.2 Consensus size: 12
23783944 ACCTTTATTA
*
23783954 GTATCTGTATCT
1 GTATTTGTATCT
*
23783966 GTATTTGTATTT
1 GTATTTGTATCT
23783978 GTATTTGTATCT
1 GTATTTGTATCT
* * *
23783990 ATATCTGTAACT
1 GTATTTGTATCT
*
23784002 -TATCTGTAT-T
1 GTATTTGTATCT
23784012 CGTATTTGT-TACT
1 -GTATTTGTAT-CT
23784025 GT-TATTGTATCT
1 GTAT-TTGTATCT
23784037 GT
1 GT
23784039 GCTGTTTGTA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
10 1 0.02
11 10 0.17
12 46 0.78
13 2 0.03
ACGTcount: A:0.19, C:0.11, G:0.15, T:0.55
Consensus pattern (12 bp):
GTATTTGTATCT
Found at i:23785314 original size:21 final size:22
Alignment explanation
Indices: 23785284--23785330 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
23785274 TTGAATGTAT
* *
23785284 AAAAGCAAAATGAGTACAAAGA
1 AAAAGCAAAAGGAGTAAAAAGA
*
23785306 AAAAG-AAAAGGTGTAAAAAGA
1 AAAAGCAAAAGGAGTAAAAAGA
23785327 AAAA
1 AAAA
23785331 AAACAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.68, C:0.04, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAGCAAAAGGAGTAAAAAGA
Found at i:23794568 original size:18 final size:18
Alignment explanation
Indices: 23794545--23794580 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23794535 ATATCATGAT
* *
23794545 AATGCCATTGACGCTAAG
1 AATGCCATCGACACTAAG
23794563 AATGCCATCGACACTAAG
1 AATGCCATCGACACTAAG
23794581 GATAAAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.19
Consensus pattern (18 bp):
AATGCCATCGACACTAAG
Found at i:23797288 original size:13 final size:13
Alignment explanation
Indices: 23797270--23797294 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23797260 CAAATTTTAT
23797270 AACAATATATTAA
1 AACAATATATTAA
23797283 AACAATATATTA
1 AACAATATATTA
23797295 CATTAATAAT
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
AACAATATATTAA
Found at i:23797340 original size:13 final size:13
Alignment explanation
Indices: 23797313--23797530 Score: 155
Period size: 13 Copynumber: 17.7 Consensus size: 13
23797303 ATTAAGGTGT
*
23797313 AGTAT-TTATAAC
1 AGTATATTAAAAC
23797325 AGTATATTAAAAC
1 AGTATATTAAAAC
23797338 AGTATATTAAAAC
1 AGTATATTAAAAC
* *
23797351 AATATATTTATAAC
1 AGTATA-TTAAAAC
* *
23797365 AGTATACTAAAAT
1 AGTATATTAAAAC
*
23797378 AGTATATTAAAAT
1 AGTATATTAAAAC
* *
23797391 AGTATATTTATAAT
1 AGTATA-TTAAAAC
23797405 AGTATATTAAAATC
1 AGTATATTAAAA-C
23797419 -G--T-TT--AAC
1 AGTATATTAAAAC
23797426 AGTATATTAAAAC
1 AGTATATTAAAAC
*
23797439 AGTATATTACAA-
1 AGTATATTAAAAC
*
23797451 A-T-T-TTATAAC
1 AGTATATTAAAAC
*
23797461 AGTATATTAAAAT
1 AGTATATTAAAAC
* *
23797474 AGTATATTTATAAT
1 AGTATA-TTAAAAC
23797488 AGTATATTAAAATC
1 AGTATATTAAAA-C
23797502 -G--T-TT--AAC
1 AGTATATTAAAAC
23797509 AGTATATTAAAAC
1 AGTATATTAAAAC
23797522 AGTATATTA
1 AGTATATTA
23797531 CAAATTTTAT
Statistics
Matches: 166, Mismatches: 18, Indels: 43
0.73 0.08 0.19
Matches are distributed among these distances:
7 2 0.01
8 6 0.04
9 5 0.03
10 8 0.05
11 8 0.05
12 7 0.04
13 95 0.57
14 35 0.21
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (13 bp):
AGTATATTAAAAC
Found at i:23797345 original size:27 final size:26
Alignment explanation
Indices: 23797313--23797552 Score: 135
Period size: 27 Copynumber: 9.8 Consensus size: 26
23797303 ATTAAGGTGT
23797313 AGTAT-TTATAACAGTATATTAAAAC
1 AGTATATTATAACAGTATATTAAAAC
* * *
23797338 AGTATATTAAAACAATATATTTATAAC
1 AGTATATTATAACAGTATA-TTAAAAC
* * * *
23797365 AGTATACTAAAATAGTATATTAAAAT
1 AGTATATTATAACAGTATATTAAAAC
*
23797391 AGTATATTTATAATAGTATATTAAAATC
1 AGTATA-TTATAACAGTATATTAAAA-C
23797419 -G----TT-TAACAGTATATTAAAAC
1 AGTATATTATAACAGTATATTAAAAC
* *
23797439 AGTATATTACAA-A-T-T-TTATAAC
1 AGTATATTATAACAGTATATTAAAAC
* * * *
23797461 AGTATATTAAAATAGTATATTTATAAT
1 AGTATATTATAACAGTATA-TTAAAAC
*
23797488 AGTATATTA-AA-A-TCGT-TT--AAC
1 AGTATATTATAACAGT-ATATTAAAAC
* *
23797509 AGTATATTAAAACAGTATATTACAA-
1 AGTATATTATAACAGTATATTAAAAC
23797534 A-T-T-TTATAACAGTATATTA
1 AGTATATTATAACAGTATATTA
23797553 CATTAAAAAT
Statistics
Matches: 173, Mismatches: 20, Indels: 47
0.72 0.08 0.20
Matches are distributed among these distances:
20 1 0.01
21 27 0.16
22 36 0.21
23 7 0.04
24 7 0.04
25 12 0.07
26 28 0.16
27 55 0.32
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (26 bp):
AGTATATTATAACAGTATATTAAAAC
Found at i:23797417 original size:40 final size:40
Alignment explanation
Indices: 23797315--23797417 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
23797305 TAAGGTGTAG
*
23797315 TATTTATAACAGTATATTAAAACAGTATATTAAAACAATA
1 TATTTATAACAGTATATTAAAATAGTATATTAAAACAATA
* * *
23797355 TATTTATAACAGTATACTAAAATAGTATATTAAAATAGTA
1 TATTTATAACAGTATATTAAAATAGTATATTAAAACAATA
*
23797395 TATTTATAATAGTATATTAAAAT
1 TATTTATAACAGTATATTAAAAT
23797418 CGTTTAACAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (40 bp):
TATTTATAACAGTATATTAAAATAGTATATTAAAACAATA
Found at i:23797478 original size:35 final size:34
Alignment explanation
Indices: 23797391--23797481 Score: 121
Period size: 35 Copynumber: 2.6 Consensus size: 34
23797381 ATATTAAAAT
*
23797391 AGTATATTTATAATAGTATATTAAAATCGTTTAAC
1 AGTATA-TTAAAATAGTATATTAAAATCGTTTAAC
* *
23797426 AGTATATTAAAACAGTATATTACAAAT-TTTATAAC
1 AGTATATTAAAATAGTATATTA-AAATCGTT-TAAC
23797461 AGTATATTAAAATAGTATATT
1 AGTATATTAAAATAGTATATT
23797482 TATAATAGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
34 16 0.32
35 34 0.68
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (34 bp):
AGTATATTAAAATAGTATATTAAAATCGTTTAAC
Found at i:23797478 original size:48 final size:50
Alignment explanation
Indices: 23797315--23797554 Score: 110
Period size: 48 Copynumber: 4.9 Consensus size: 50
23797305 TAAGGTGTAG
* * *
23797315 TATTTATAACAGTATATTAAAACAGTATATTAAAACAATATATTTATAACA
1 TATTTATAACAGTATATTAAAACAGTATATTAAAACAGTATA-TTACAATA
* * * * * *
23797366 GTATACTAAAATAGTATATTAAAATAGTATATTTATAATAGTATATTA-AA-A
1 -TAT-TTATAACAGTATATTAAAACAGTATA-TTAAAACAGTATATTACAATA
** * * * * *
23797417 TCGTT-TAACAGTATATTAAAACAGTATATTACAA-ATTTTATAACAGTA
1 TATTTATAACAGTATATTAAAACAGTATATTAAAACAGTATATTACAATA
* * * * * *
23797465 TA-TTAAAATAGTATATTTATAATAGTATATTAAAATC-GT-T-TAACAGTA
1 TATTTATAACAGTATA-TTAAAACAGTATATTAAAA-CAGTATATTACAATA
* * *
23797513 TA-TTAAAACAGTATATTACAA-A-T-T-TTATAACAGTATATTACA
1 TATTTATAACAGTATATTAAAACAGTATATTAAAACAGTATATTACA
23797555 TTAAAAATTA
Statistics
Matches: 148, Mismatches: 29, Indels: 29
0.72 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 7 0.05
44 2 0.01
45 5 0.03
46 7 0.05
47 13 0.09
48 52 0.35
49 18 0.12
50 2 0.01
51 1 0.01
52 5 0.03
53 25 0.17
54 10 0.07
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (50 bp):
TATTTATAACAGTATATTAAAACAGTATATTAAAACAGTATATTACAATA
Found at i:23797483 original size:83 final size:83
Alignment explanation
Indices: 23797378--23797552 Score: 350
Period size: 83 Copynumber: 2.1 Consensus size: 83
23797368 ATACTAAAAT
23797378 AGTATATTAAAATAGTATATTTATAATAGTATATTAAAATCGTTTAACAGTATATTAAAACAGTA
1 AGTATATTAAAATAGTATATTTATAATAGTATATTAAAATCGTTTAACAGTATATTAAAACAGTA
23797443 TATTACAAATTTTATAAC
66 TATTACAAATTTTATAAC
23797461 AGTATATTAAAATAGTATATTTATAATAGTATATTAAAATCGTTTAACAGTATATTAAAACAGTA
1 AGTATATTAAAATAGTATATTTATAATAGTATATTAAAATCGTTTAACAGTATATTAAAACAGTA
23797526 TATTACAAATTTTATAAC
66 TATTACAAATTTTATAAC
23797544 AGTATATTA
1 AGTATATTA
23797553 CATTAAAAAT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 92 1.00
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (83 bp):
AGTATATTAAAATAGTATATTTATAATAGTATATTAAAATCGTTTAACAGTATATTAAAACAGTA
TATTACAAATTTTATAAC
Found at i:23797490 original size:14 final size:14
Alignment explanation
Indices: 23797453--23797495 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
23797443 TATTACAAAT
*
23797453 TTTATAACAGTATA
1 TTTATAATAGTATA
*
23797467 -TTAAAATAGTATA
1 TTTATAATAGTATA
23797480 TTTATAATAGTATA
1 TTTATAATAGTATA
23797494 TT
1 TT
23797496 AAAATCGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (14 bp):
TTTATAATAGTATA
Found at i:23797513 original size:35 final size:36
Alignment explanation
Indices: 23797474--23797551 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
23797464 ATATTAAAAT
* *
23797474 AGTATATTTATAATAGTATATTA-AAATCGTT-TAAC
1 AGTATATTTAAAACAGTATATTACAAAT-GTTATAAC
*
23797509 AGTATA-TTAAAACAGTATATTACAAATTTTATAAC
1 AGTATATTTAAAACAGTATATTACAAATGTTATAAC
23797544 AGTATATT
1 AGTATATT
23797552 ACATTAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 16 0.43
35 20 0.54
36 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (36 bp):
AGTATATTTAAAACAGTATATTACAAATGTTATAAC
Found at i:23809794 original size:30 final size:30
Alignment explanation
Indices: 23809758--23809827 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 30
23809748 ATCGTAACTG
23809758 TCCCTTTTCATTAATCCATGGTCATCACCA
1 TCCCTTTTCATTAATCCATGGTCATCACCA
* **
23809788 TCCCTTTTCA-TAGTTGATGGTCATCACCA
1 TCCCTTTTCATTAATCCATGGTCATCACCA
23809817 TCCCTTTTCAT
1 TCCCTTTTCAT
23809828 AATTCGATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 26 0.72
30 10 0.28
ACGTcount: A:0.20, C:0.31, G:0.09, T:0.40
Consensus pattern (30 bp):
TCCCTTTTCATTAATCCATGGTCATCACCA
Found at i:23809814 original size:29 final size:29
Alignment explanation
Indices: 23809775--23809974 Score: 174
Period size: 29 Copynumber: 6.9 Consensus size: 29
23809765 TCATTAATCC
23809775 ATGGTCATCACCATCCCTTTTCATAGTTG
1 ATGGTCATCACCATCCCTTTTCATAGTTG
*
23809804 ATGGTCATCACCATCCCTTTTCATAATTCG
1 ATGGTCATCACCATCCCTTTTCATAGTT-G
* * * * *
23809834 ATAG-C-TGAAGCTATCCCTTTTCATAATCG
1 ATGGTCAT-CA-CCATCCCTTTTCATAGTTG
* * * * *
23809863 GTAGTCGA-AACTATCCCTTTTCATA-TTCA
1 ATGGTC-ATCACCATCCCTTTTCATAGTT-G
* * *
23809892 ATGGTCGTCACCATCCTTTTTCATAGGTG
1 ATGGTCATCACCATCCCTTTTCATAGTTG
* *
23809921 ATGGTCGTCACCATCCTTTTTCATAGTTG
1 ATGGTCATCACCATCCCTTTTCATAGTTG
*
23809950 ATGGTCGTCACCATCCCTTTTCATA
1 ATGGTCATCACCATCCCTTTTCATA
23809975 ATCGATAGCC
Statistics
Matches: 144, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.01
29 118 0.82
30 24 0.17
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.38
Consensus pattern (29 bp):
ATGGTCATCACCATCCCTTTTCATAGTTG
Found at i:23809852 original size:30 final size:29
Alignment explanation
Indices: 23809816--23810002 Score: 126
Period size: 29 Copynumber: 6.4 Consensus size: 29
23809806 GGTCATCACC
*
23809816 ATCCCTTTTCATAATTCGATAG-CTGAAGCT
1 ATCCCTTTTCATAA-TCGATAGTC-GAAACT
*
23809846 ATCCCTTTTCATAATCGGTAGTCGAAACT
1 ATCCCTTTTCATAATCGATAGTCGAAACT
* * * ** *
23809875 ATCCCTTTTCATATTCAATGGTCGTCACC
1 ATCCCTTTTCATAATCGATAGTCGAAACT
* * * ** *
23809904 ATCCTTTTTCATAGGT-GATGGTCGTCACC
1 ATCCCTTTTCATA-ATCGATAGTCGAAACT
* * * * ** *
23809933 ATCCTTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCATAATCGATAGTCGAAACT
* *
23809962 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGTCGAAACT
23809991 ATCCCTTTTCAT
1 ATCCCTTTTCAT
23810003 TGGTTGATGA
Statistics
Matches: 133, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 115 0.86
30 16 0.12
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGTCGAAACT
Found at i:23810000 original size:58 final size:57
Alignment explanation
Indices: 23809846--23810011 Score: 174
Period size: 58 Copynumber: 2.8 Consensus size: 57
23809836 AGCTGAAGCT
* *
23809846 ATCCCTTTTCATAATCGGTAGTCGAAACTATCCCTTTTCATA-TTCAATGGTCGTCACC
1 ATCCCTTTTCATAATCGATAGTCG-AACTATCCCTTTTCATAGTT-GATGGTCGTCACC
* * * * * *
23809904 ATCCTTTTTCATAGGT-GATGGTCGTCACCATCCTTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCATA-ATCGATAGTCG-AACTATCCCTTTTCATAGTTGATGGTCGTCACC
* *
23809962 ATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATTGGTTGATG
1 ATCCCTTTTCATAATCGATAGTCGAA-CTATCCCTTTTCA-TAGTTGATG
23810012 ATCGCAGATA
Statistics
Matches: 86, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
57 2 0.02
58 73 0.85
59 11 0.13
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (57 bp):
ATCCCTTTTCATAATCGATAGTCGAACTATCCCTTTTCATAGTTGATGGTCGTCACC
Found at i:23814524 original size:21 final size:22
Alignment explanation
Indices: 23814500--23814544 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
23814490 AGAAAAAAAG
23814500 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
23814521 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
23814543 AA
1 AA
23814545 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:23822385 original size:21 final size:21
Alignment explanation
Indices: 23822361--23822405 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
23822351 ATTGAGTTAA
23822361 TCTATTTTCATTTT-TTTATTT
1 TCTA-TTTCATTTTATTTATTT
*
23822382 TCTATTTCCTTTTACTTTATTT
1 TCTATTTCATTTTA-TTTATTT
23822404 TC
1 TC
23822406 ACGCATTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 4 0.19
22 9 0.43
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTATTTCATTTTATTTATTT
Found at i:23822942 original size:14 final size:14
Alignment explanation
Indices: 23822925--23822955 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23822915 ATTATTGCAC
*
23822925 ATTTATTATTTAAA
1 ATTTATTACTTAAA
23822939 ATTTATTACTTAAA
1 ATTTATTACTTAAA
23822953 ATT
1 ATT
23822956 CGACATCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTATTACTTAAA
Found at i:23826058 original size:26 final size:26
Alignment explanation
Indices: 23826029--23826111 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
23826019 GTCATTTAGT
23826029 TTGGGCTTTAATTGGGTCTGGGCTTG
1 TTGGGCTTTAATTGGGTCTGGGCTTG
* * * *
23826055 TTGGGC-TAAGATTCAGGTTTAGG--T-
1 TTGGGCTTTA-ATT-GGGTCTGGGCTTG
23826079 TTGGGCTTTAATTGGGTCTGGGCTTG
1 TTGGGCTTTAATTGGGTCTGGGCTTG
23826105 TTGGGCT
1 TTGGGCT
23826112 AAGAATCAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
23 6 0.14
24 9 0.21
25 6 0.14
26 16 0.37
27 6 0.14
ACGTcount: A:0.11, C:0.11, G:0.37, T:0.41
Consensus pattern (26 bp):
TTGGGCTTTAATTGGGTCTGGGCTTG
Found at i:23826089 original size:50 final size:49
Alignment explanation
Indices: 23826023--23826135 Score: 199
Period size: 50 Copynumber: 2.3 Consensus size: 49
23826013 ATTCAGGTCA
*
23826023 TTTAGTTTGGGCTTTAATTGGGTCTGGGCTTGTTGGGCTAAGATTCAGG
1 TTTAGTTTGGGCTTTAATTGGGTCTGGGCTTGTTGGGCTAAGAATCAGG
23826072 TTTAGGTTTGGGCTTTAATTGGGTCTGGGCTTGTTGGGCTAAGAATCAGG
1 TTTA-GTTTGGGCTTTAATTGGGTCTGGGCTTGTTGGGCTAAGAATCAGG
23826122 TTTAAGTTTGGGCT
1 TTT-AGTTTGGGCT
23826136 AGAGTCTTCT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
49 4 0.07
50 56 0.92
51 1 0.02
ACGTcount: A:0.15, C:0.10, G:0.35, T:0.41
Consensus pattern (49 bp):
TTTAGTTTGGGCTTTAATTGGGTCTGGGCTTGTTGGGCTAAGAATCAGG
Found at i:23826380 original size:3 final size:3
Alignment explanation
Indices: 23826372--23826408 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
23826362 GTTTTCAAGG
23826372 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23826409 AACACATTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23830742 original size:20 final size:21
Alignment explanation
Indices: 23830717--23830771 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
23830707 GAGTTTTCTT
23830717 TTATATATTTTTTAA-GTTTA
1 TTATATATTTTTTAATGTTTA
* * *
23830737 TTATATATTCTTTAATTTTTT
1 TTATATATTTTTTAATGTTTA
*
23830758 TTATAAATTTTTTA
1 TTATATATTTTTTA
23830772 GATATAAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATATATTTTTTAATGTTTA
Found at i:23831987 original size:34 final size:34
Alignment explanation
Indices: 23831944--23832033 Score: 126
Period size: 34 Copynumber: 2.6 Consensus size: 34
23831934 ACTTTTACAA
*
23831944 ATATCATATCAGAATGTCATATTACCATAAACAT
1 ATATCATATCAGAATGTCATATTACCAAAAACAT
**
23831978 ATATCATATCAGAATGTCATATTTTCAAAAACAT
1 ATATCATATCAGAATGTCATATTACCAAAAACAT
* * *
23832012 ATATCAGATCAAAATGTAATAT
1 ATATCATATCAGAATGTCATAT
23832034 CAAATCAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (34 bp):
ATATCATATCAGAATGTCATATTACCAAAAACAT
Found at i:23834305 original size:18 final size:19
Alignment explanation
Indices: 23834268--23834304 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23834258 TGTAAAAAAA
*
23834268 TATAAAT-TTTGAAATTTT
1 TATAAATATTTTAAATTTT
23834286 TATAAATATTTTAAATTTT
1 TATAAATATTTTAAATTTT
23834305 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:23834314 original size:19 final size:20
Alignment explanation
Indices: 23834273--23834316 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
23834263 AAAAATATAA
*
23834273 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTTAAAAAT
23834293 ATTTT-AAA-TTTTAAAAATT
1 ATTTTGAAATTTTTAAAAA-T
23834312 ATTTT
1 ATTTT
23834317 TGAATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAAAT
Found at i:23840663 original size:43 final size:43
Alignment explanation
Indices: 23840616--23840756 Score: 228
Period size: 43 Copynumber: 3.3 Consensus size: 43
23840606 GCCTTACATA
** *
23840616 GAAATCTCGTATCGATGCCAATAGCTCAGCTATGGTCTTACAC
1 GAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACAC
* *
23840659 GAAATCTCAAATCGATACCAATAGCCCAACTATGGTCTTACAC
1 GAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACAC
*
23840702 GGAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACAC
1 GAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACAC
23840745 GAAATCTCAAAT
1 GAAATCTCAAAT
23840757 AGATATTGGA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
GAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACAC
Found at i:23842408 original size:14 final size:14
Alignment explanation
Indices: 23842389--23842416 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23842379 AAAGAGATGC
23842389 TATTTTTATTTTTT
1 TATTTTTATTTTTT
23842403 TATTTTTATTTTTT
1 TATTTTTATTTTTT
23842417 CCGATTCGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TATTTTTATTTTTT
Found at i:23842566 original size:16 final size:15
Alignment explanation
Indices: 23842541--23842584 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
23842531 TTTTTATTTA
23842541 TTTT-TTTTGTTTTC
1 TTTTCTTTTGTTTTC
23842555 TTTTTCTTTTGTTTTC
1 -TTTTCTTTTGTTTTC
*
23842571 CTTTCTTTT-TTTTC
1 TTTTCTTTTGTTTTC
23842585 ATGGTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 12 0.44
16 10 0.37
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTGTTTTC
Found at i:23848679 original size:7 final size:7
Alignment explanation
Indices: 23848669--23848706 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
23848659 AAAAAAAGAG
23848669 TGAAAAA
1 TGAAAAA
23848676 TGAAAAA
1 TGAAAAA
23848683 -GTAAAAA
1 TG-AAAAA
23848690 TGAAAAA
1 TGAAAAA
*
23848697 TAAAAAA
1 TGAAAAA
23848704 TGA
1 TGA
23848707 TGAAAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 1 0.04
7 25 0.93
8 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:23848688 original size:14 final size:14
Alignment explanation
Indices: 23848671--23848722 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
23848661 AAAAAGAGTG
23848671 AAAAATGAAAAAGT
1 AAAAATGAAAAAGT
23848685 AAAAATGAAAAA-T
1 AAAAATGAAAAAGT
23848698 AAAAAATGATGAAAAAGT
1 --AAAA--ATGAAAAAGT
23848716 AAAAATG
1 AAAAATG
23848723 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 1 0.03
14 15 0.45
15 4 0.12
16 4 0.12
17 8 0.24
18 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.15
Consensus pattern (14 bp):
AAAAATGAAAAAGT
Found at i:23848721 original size:17 final size:17
Alignment explanation
Indices: 23848675--23848722 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
23848665 AGAGTGAAAA
23848675 ATGAAAAAGT-AAAA--
1 ATGAAAAAGTAAAAATG
23848689 ATGAAAAA-TAAAAAATG
1 ATGAAAAAGT-AAAAATG
23848706 ATGAAAAAGTAAAAATG
1 ATGAAAAAGTAAAAATG
23848723 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.03
14 8 0.28
15 4 0.14
17 15 0.52
18 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.17
Consensus pattern (17 bp):
ATGAAAAAGTAAAAATG
Found at i:23850197 original size:129 final size:129
Alignment explanation
Indices: 23849967--23850712 Score: 1224
Period size: 129 Copynumber: 5.8 Consensus size: 129
23849957 GTAAATATAG
* ** *
23849967 CAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAGACGAAAAATCTTATCTTCAAAAGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTA
23850032 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* **
23850096 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAACTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTA
*
23850161 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCATTGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* * *
23850225 CAGATCTTGTCTCCCTAAGTAGTAGCGGAGCAGATCGAAGACGGCGAATTTTATCTTCAAGAGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTA
* * * * * *
23850290 AGGAAGCAGA-TAAGAGCTATAAGTCATATATCCCTGGTCAACAGTGGAATAGGTTGAGAAATTA
66 AGGAAGCAGATTTA-AGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
*
23850354 CAGCTCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTA
*
23850419 AGGAAGCAGATTTAAGCCACAAGTCCTATATCTCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* *
23850483 CAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGGAGACGGCAAATCTTATCTTCAAGAGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTA
* *
23850548 TGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAACAGTGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* * * *
23850612 CAGATCTTGTCTCCCTAAGTAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTA
*
23850677 AGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTG
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTG
23850713 AATGTGCAGT
Statistics
Matches: 572, Mismatches: 43, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
128 2 0.00
129 568 0.99
130 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (129 bp):
CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTA
AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
Found at i:23851521 original size:13 final size:13
Alignment explanation
Indices: 23851503--23851530 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23851493 GAAAGAGATG
23851503 TTATTTTTATTTT
1 TTATTTTTATTTT
23851516 TTATTTTTATTTT
1 TTATTTTTATTTT
23851529 TT
1 TT
23851531 CCGATTCGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:23863283 original size:40 final size:40
Alignment explanation
Indices: 23863228--23863307 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
23863218 TGGAGAGGTG
* *
23863228 GTGTAATAAGGATTATGTAATAGTTATTATGAAAATGAGT
1 GTGTAATAAGGATTATGTAATAGTCATTATAAAAATGAGT
* * *
23863268 GTGTACTATGGATTATGTAATAGTCATTGTAAAAATGAGT
1 GTGTAATAAGGATTATGTAATAGTCATTATAAAAATGAGT
23863308 ATTTTCTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.38
Consensus pattern (40 bp):
GTGTAATAAGGATTATGTAATAGTCATTATAAAAATGAGT
Done.