Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 148 of 189
Found at i:44907170 original size:282 final size:282
Alignment explanation
Indices: 44906666--44907231 Score: 1105
Period size: 282 Copynumber: 2.0 Consensus size: 282
44906656 AAATAAGAAA
44906666 AGACCAAAGCTGATCAGTGGGAGAAGAAATTTCAAGACGCCCTAGTTAGAGAGAGCGCTTTGGAG
1 AGACCAAAGCTGATCAGTGGGAGAAGAAATTTCAAGACGCCCTAGTTAGAGAGAGCGCTTTGGAG
* *
44906731 AAAAACTTGTCAGAATGCTAGAATGAAGAAGCAAGATTAAAAGCCCGGGTAGTAGAGTTGGAAAA
66 AAAAACTTGTCAGAATACCAGAATGAAGAAGCAAGATTAAAAGCCCGGGTAGTAGAGTTGGAAAA
44906796 GTCGCTTCATCTGCACCGTAGTCACAACTCTGTGATAGAGTTAAGAGCAAGCTTAAATAAGATCG
131 GTCGCTTCATCTGCACCGTAGTCACAACTCTGTGATAGAGTTAAGAGCAAGCTTAAATAAGATCG
*
44906861 AAGAACTGAAAGGAAAGATAGGGGATCTTGAGGACGCATTGCACAATTCTGAACTGCGAATGGAA
196 AAGAACTGAAAGGAAAGATAGGGGATCTTGAGGACGCATTGCACAATTCTGAACTCCGAATGGAA
44906926 CTTCTTGAAAGGCGTAATGAAC
261 CTTCTTGAAAGGCGTAATGAAC
44906948 AGACCAAAGCTGATCAGTGGGAGAAGAAATTTCAAGACGCCCTAGTTAGAGAGAGCGCTTTGGAG
1 AGACCAAAGCTGATCAGTGGGAGAAGAAATTTCAAGACGCCCTAGTTAGAGAGAGCGCTTTGGAG
44907013 AAAAACTTGTCAGAATACCAGAATGAAGAAGCAAGATTAAAAGCCCGGGTAGTAGAGTTGGAAAA
66 AAAAACTTGTCAGAATACCAGAATGAAGAAGCAAGATTAAAAGCCCGGGTAGTAGAGTTGGAAAA
44907078 GTCGCTTCATCTGCACCGTAGTCACAACTCTGTGATAGAGTTAAGAGCAAGCTTAAATAAGATCG
131 GTCGCTTCATCTGCACCGTAGTCACAACTCTGTGATAGAGTTAAGAGCAAGCTTAAATAAGATCG
44907143 AAGAACTGAAAGGAAAGATAGGGGATCTTGAGGACGCATTGCACAATTCTGAACTCCGAATGGAA
196 AAGAACTGAAAGGAAAGATAGGGGATCTTGAGGACGCATTGCACAATTCTGAACTCCGAATGGAA
44907208 CTTCTTGAAAGGCGTAATGAAC
261 CTTCTTGAAAGGCGTAATGAAC
44907230 AG
1 AG
44907232 TGCCAAGAGC
Statistics
Matches: 281, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
282 281 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (282 bp):
AGACCAAAGCTGATCAGTGGGAGAAGAAATTTCAAGACGCCCTAGTTAGAGAGAGCGCTTTGGAG
AAAAACTTGTCAGAATACCAGAATGAAGAAGCAAGATTAAAAGCCCGGGTAGTAGAGTTGGAAAA
GTCGCTTCATCTGCACCGTAGTCACAACTCTGTGATAGAGTTAAGAGCAAGCTTAAATAAGATCG
AAGAACTGAAAGGAAAGATAGGGGATCTTGAGGACGCATTGCACAATTCTGAACTCCGAATGGAA
CTTCTTGAAAGGCGTAATGAAC
Found at i:44915865 original size:44 final size:45
Alignment explanation
Indices: 44915791--44917074 Score: 1013
Period size: 44 Copynumber: 29.3 Consensus size: 45
44915781 GTCATTAAAA
* * *
44915791 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * *
44915835 CATG-TCCTGTCTTCCTATATTGGTAG-GAAGTGGATCAAAGAT-G
1 CA-GATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
44915878 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * ** *
44915923 TAGATCTTGTCTTCATGTGCTAGT-GTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
44915967 CAGATCCTATCTTCCTATATTGGTAG-GGAGTGGATCGGAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * *
44916010 C--ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * * *
44916052 CAGGTCCTGTCTTCCAATATTGGTAG-AAAGTGGATCAAAGATA-
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * * *
44916095 CAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
44916140 CAGATTTTGTCTTCATGTGTTGG-CGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * * *
44916184 CAGGTCCTATCTTCCTATAATGGTAG-GGAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * *
44916227 CAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * *
44916271 CA-AGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCAAAGAT-G
1 CAGA-TCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
44916314 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * * *
44916359 CAGATCTTGTCTTCATGTGTTGG-CGCGAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
44916403 CAGGTCCTATCTTCCTATATTGGTAG-GGAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
44916446 CAGATCTTGTTTTCATGTATTGG-CGTGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * *
44916490 CAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCAAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
44916533 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * * * *
44916578 TATATCTTGTCTTCATGTGTTGG-CGTGAAGTAGATCGAGGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * * * * * * *
44916622 AAGGTCCTATCTGCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
44916667 TAGATCTTCTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * * *
44916711 TAGGTCCTATCTTCCTATATTGGCAG-GAAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * *
44916754 CAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * *
44916799 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * * * *
44916843 TAGGTCCTATCTTCCTATATTGGCAG-GAAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * *
44916886 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * *
44916931 TAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * * *
44916975 CAGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
* * *
44917018 CAGATCTTGTCTTCCCATACTGGT-GACGAAGTAGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAG-TGAAGTAGATCGAAGATAG
44917062 CAGATCTTGTCTT
1 CAGATCTTGTCTT
44917075 TTCATACTGG
Statistics
Matches: 958, Mismatches: 245, Indels: 74
0.75 0.19 0.06
Matches are distributed among these distances:
40 1 0.00
41 29 0.03
42 5 0.01
43 209 0.22
44 564 0.59
45 150 0.16
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAG
Found at i:44916332 original size:219 final size:219
Alignment explanation
Indices: 44915791--44917031 Score: 1828
Period size: 219 Copynumber: 5.7 Consensus size: 219
44915781 GTCATTAAAA
*
44915791 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCATGTCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATT
44915856 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* * * * *
44915921 AGTAGATCTTGTCTTCATGTGCTAGTGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATA
131 AGCAGATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATA
*
44915986 TTGGTAGGGAGTGGATCGGAGATG
196 TTGGTAGGGAGTGGATCGAAGATG
*
44916010 C--ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCAATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATT
* * *
44916073 GGTAGAAAGTGGATCAAAGATACAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
*
44916138 AGCAGATTTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATA
131 AGCAGATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATA
*
44916203 ATGGTAGGGAGTGGATCGAAGATG
196 TTGGTAGGGAGTGGATCGAAGATG
* *
44916227 CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAAGTCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATT
44916292 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* *
44916357 AGCAGATCTTGTCTTCATGTGTTGGCGCGAAGTAGATCGAAGATAACAGGTCCTATCTTCCTATA
131 AGCAGATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATA
44916422 TTGGTAGGGAGTGGATCGAAGATG
196 TTGGTAGGGAGTGGATCGAAGATG
* *
44916446 CAGATCTTGTTTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATT
44916511 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* * * * * *
44916576 AGTATATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAGGATAGAAGGTCCTATCTGCCCATA
131 AGCAGATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATA
* * *
44916641 CTGGT-GGCGAAGTAGATCGAAGAAAG
196 TTGGTAGG-G-AGTGGATCGAAG-ATG
* * * *
44916667 TAGATCTTCTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTATCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATT
* * * *
44916732 GGCAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* *
44916797 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTATCTTCCTATA
131 AGCAGATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATA
* *
44916862 TTGGCAGGAAGTGGATCGAAGATG
196 TTGGTAGGGAGTGGATCGAAGATG
*** * * * * * * * *
44916886 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATAT
* * * * * * * * * *
44916951 TGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAA
65 TGGTAG-GAAGTGGATCAAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
*
44917014 G-ATGCAGATCTTGTCTTC
128 GAAAGCAGATCTTGTCTTC
44917032 CCATACTGGT
Statistics
Matches: 931, Mismatches: 82, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
217 204 0.22
218 2 0.00
219 431 0.46
220 87 0.09
221 205 0.22
222 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (219 bp):
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATT
GGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
AGCAGATCTTGTCTTCATGTGTTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATA
TTGGTAGGGAGTGGATCGAAGATG
Found at i:44918782 original size:15 final size:15
Alignment explanation
Indices: 44918764--44918794 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44918754 TGGTTTAAAT
44918764 TTATATATTATCATC
1 TTATATATTATCATC
*
44918779 TTATATATTATTATC
1 TTATATATTATCATC
44918794 T
1 T
44918795 ATGTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:44919739 original size:107 final size:106
Alignment explanation
Indices: 44919553--44919959 Score: 577
Period size: 107 Copynumber: 3.8 Consensus size: 106
44919543 TTTTCTAAAC
*
44919553 AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTACTGGGTTTCGATTTCTC
1 AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
44919618 GTTCGACCAAATAGCCAAATATCATTTTTAAACTTTTAAAAT
66 GTTCGACCAAATAGCCAAATATC-TTTTTAAACTTTTAAAAT
*
44919660 AAGGCAATATTTCACGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
1 AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
*
44919725 GTTCGACCAAATAGCCAAATATCCTTTTTAAACATTTAAAAT
66 GTTCGACCAAATAGCCAAATAT-CTTTTTAAACTTTTAAAAT
* * * * * *
44919767 AAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACATACCCTAACATGTTGGGTTTCGACTTCTC
1 AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
* * * *
44919832 GTTTGACCAAATAGCCAAATATCCTTTTAAACTTTCAAAGT
66 GTTCGACCAAATAGCCAAATATCTTTTTAAACTTTTAAAAT
* * * * * * * *
44919873 TAGGCAATATTT-GCGTTTGGAAATTTGAGAGAATGTGCCCTAACGTGCTGGGTCTC-AATT-GC
1 AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
*
44919935 GTTTGACCAAATAGCCAAATATCTT
66 GTTCGACCAAATAGCCAAATATCTT
44919960 CTTAGCTTTC
Statistics
Matches: 270, Mismatches: 29, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
103 25 0.09
104 3 0.01
105 34 0.13
106 26 0.10
107 181 0.67
108 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (106 bp):
AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
GTTCGACCAAATAGCCAAATATCTTTTTAAACTTTTAAAAT
Found at i:44926055 original size:21 final size:22
Alignment explanation
Indices: 44926031--44926073 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
44926021 AACAAATAAA
*
44926031 AAAATAAAATTAT-TAAATATT
1 AAAATAAAATAATATAAATATT
44926052 AAAATAAAATAATATAAATATT
1 AAAATAAAATAATATAAATATT
44926074 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAATAAAATAATATAAATATT
Found at i:44930450 original size:20 final size:21
Alignment explanation
Indices: 44930422--44930479 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
44930412 AAAAATATAT
44930422 AAAATATAAAATTATTTAAA-
1 AAAATATAAAATTATTTAAAG
* * *
44930442 AATATATAAATTTA-TAAAAG
1 AAAATATAAAATTATTTAAAG
44930462 AAAATATAAATATTATTT
1 AAAATATAAA-ATTATTT
44930480 CACATTCAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 4 0.14
20 21 0.72
21 3 0.10
22 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAATATAAAATTATTTAAAG
Found at i:44930459 original size:18 final size:18
Alignment explanation
Indices: 44930407--44930460 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
44930397 TATTATTTTG
*
44930407 AAAT-TAAAAATATAT-A
1 AAATATAAAATTATATAA
*
44930423 AAATATAAAATTATTTAA
1 AAATATAAAATTATATAA
44930441 AAATATATAAATT-TATAA
1 AAATATA-AAATTATATAA
44930459 AA
1 AA
44930461 GAAAATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 14 0.44
19 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATATAAAATTATATAA
Found at i:44930988 original size:61 final size:61
Alignment explanation
Indices: 44930923--44931051 Score: 163
Period size: 60 Copynumber: 2.1 Consensus size: 61
44930913 TGATCCTAAA
* * *
44930923 TCTAAAAAAATCGACAAATTTAGCCCTCAATGTTTACAA-AATTTTCCATTTTAGTTCAAAT
1 TCTAAAAAAATCAACAAATTTAGCCCTCAATATTTACAATAATTTT-CAATTTAGTTCAAAT
* * * * *
44930984 TCT-AAAAATTTAATAAATTTAGCCCTGAATATTTACAATAATTTTCAATTTAGTTCTAAT
1 TCTAAAAAAATCAACAAATTTAGCCCTCAATATTTACAATAATTTTCAATTTAGTTCAAAT
44931044 TCTAAAAA
1 TCTAAAAA
44931052 TTAAAAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 45 0.78
61 13 0.22
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (61 bp):
TCTAAAAAAATCAACAAATTTAGCCCTCAATATTTACAATAATTTTCAATTTAGTTCAAAT
Found at i:44931004 original size:60 final size:60
Alignment explanation
Indices: 44930938--44931053 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 60
44930928 AAAAATCGAC
* *
44930938 AAATTTAGCCCTCAATGTTTACAA-AATTTTCCATTTTAGTTCAAATTCTAAAAATTTAAT
1 AAATTTAGCCCTCAATATTTACAATAATTTT-CAATTTAGTTCAAATTCTAAAAATTTAAT
* *
44930998 AAATTTAGCCCTGAATATTTACAATAATTTTCAATTTAGTTCTAATTCTAAAAATT
1 AAATTTAGCCCTCAATATTTACAATAATTTTCAATTTAGTTCAAATTCTAAAAATT
44931054 AAAAAAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 45 0.88
61 6 0.12
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (60 bp):
AAATTTAGCCCTCAATATTTACAATAATTTTCAATTTAGTTCAAATTCTAAAAATTTAAT
Found at i:44931069 original size:20 final size:21
Alignment explanation
Indices: 44931046--44931090 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
44931036 GTTCTAATTC
44931046 TAAAAAT-TAAAAAAATATTT
1 TAAAAATCTAAAAAAATATTT
* *
44931066 T-AAATTCTAAAAAGATATTT
1 TAAAAATCTAAAAAAATATTT
44931086 TAAAA
1 TAAAA
44931091 CTTTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAATCTAAAAAAATATTT
Found at i:44933292 original size:55 final size:57
Alignment explanation
Indices: 44933175--44933300 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 57
44933165 TGATTATGGT
** *** *
44933175 TTTCTCCAAAATGAAAATGAAAATGGAGAAAATAGAATCATTTGGAAATGAATGTGGT
1 TTTCT-CAAAATGAAAATGAAAATGGAGAAAATAGAATCATTTACAAATGAACAAGGA
44933233 TTTCTCAAAAT-AGAAATGAAAAT-GAG-AAAT-GAATTCATTTACAAATGAACAAGGA
1 TTTCTCAAAATGA-AAATGAAAATGGAGAAAATAGAA-TCATTTACAAATGAACAAGGA
*
44933288 TTTCTAAAAATGA
1 TTTCTCAAAATGA
44933301 TCAGAAGATT
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
54 3 0.05
55 29 0.50
56 5 0.09
57 16 0.28
58 5 0.09
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.28
Consensus pattern (57 bp):
TTTCTCAAAATGAAAATGAAAATGGAGAAAATAGAATCATTTACAAATGAACAAGGA
Found at i:44935582 original size:17 final size:17
Alignment explanation
Indices: 44935560--44935607 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
44935550 GTTGTCACAT
*
44935560 GAATTAAATTAATTACA
1 GAATTAATTTAATTACA
*
44935577 GAATTAATTTAATTATA
1 GAATTAATTTAATTACA
44935594 GAATTAATTTAATT
1 GAATTAATTTAATT
44935608 GGGTAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (17 bp):
GAATTAATTTAATTACA
Found at i:44939666 original size:23 final size:22
Alignment explanation
Indices: 44939626--44939668 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
44939616 ATAATAGAAT
* *
44939626 TTAAAAATATACACTAAATACA
1 TTAAAAATATAAAATAAATACA
44939648 TTAAAAATATTAAAATAAATA
1 TTAAAAATA-TAAAATAAATA
44939669 TTTCCTAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
TTAAAAATATAAAATAAATACA
Found at i:44948159 original size:51 final size:49
Alignment explanation
Indices: 44948097--44948209 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 49
44948087 TTATAAAACT
* *
44948097 TATATATATAAAATATA-TAATGCATTTATGAAAACAATGAAAATATA-AATA
1 TATA-ATATAAAATATATTAATGCATTTA-CAAAAAAATG-AAATATACAA-A
* *
44948148 TATACATATAAAATATATTCATGCATTTACAAAAAAATGAAATATACAAG
1 TATA-ATATAAAATATATTAATGCATTTACAAAAAAATGAAATATACAAA
44948198 TATAATATAAAA
1 TATAATATAAAA
44948210 ACGTGGAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
49 8 0.15
50 11 0.20
51 26 0.47
52 10 0.18
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (49 bp):
TATAATATAAAATATATTAATGCATTTACAAAAAAATGAAATATACAAA
Found at i:44948486 original size:15 final size:13
Alignment explanation
Indices: 44948466--44948503 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
44948456 TATATGTAGG
44948466 TATAATAATATATAA
1 TATAATAATA-A-AA
44948481 TATAATAATAAAA
1 TATAATAATAAAA
44948494 -ATAATAATAA
1 TATAATAATAA
44948504 CAAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TATAATAATAAAA
Found at i:44948508 original size:15 final size:15
Alignment explanation
Indices: 44948482--44948515 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44948472 AATATATAAT
*
44948482 ATAATAATAAAAATA
1 ATAATAACAAAAATA
*
44948497 ATAATAACAAAATTA
1 ATAATAACAAAAATA
44948512 ATAA
1 ATAA
44948516 AATAGACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAATAACAAAAATA
Found at i:44948763 original size:19 final size:21
Alignment explanation
Indices: 44948725--44948763 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
44948715 CCCTTTTTAA
*
44948725 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
44948746 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
44948764 AGAAAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:44948960 original size:22 final size:21
Alignment explanation
Indices: 44948925--44949022 Score: 69
Period size: 21 Copynumber: 4.7 Consensus size: 21
44948915 AAAGGGTATC
* * *
44948925 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
44948946 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
44948969 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
44948988 TGCATATATCATA--TCTAAGAT
1 TACA-A-ATCATATCTCTAAGAT
* *
44949009 TGCATATCATATCT
1 TACAAATCATATCT
44949023 AAGATTGCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
19 17 0.27
21 22 0.34
22 15 0.23
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:44948970 original size:23 final size:22
Alignment explanation
Indices: 44948925--44948982 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
44948915 AAAGGGTATC
* * *
44948925 TACAAATTAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
44948946 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
44948969 TACATATCATATCT
1 TACAAATCATATCT
44948983 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:44948985 original size:19 final size:19
Alignment explanation
Indices: 44948961--44949035 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
44948951 AATCATATCT
44948961 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
44948980 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
44949001 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
44949020 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
44949036 CTCGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:44948998 original size:21 final size:21
Alignment explanation
Indices: 44948972--44949034 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
44948962 CTAAGATTAC
44948972 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
44948993 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
44949012 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
44949033 AT
1 AT
44949035 CCTCGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:44949933 original size:44 final size:43
Alignment explanation
Indices: 44949877--44950252 Score: 408
Period size: 44 Copynumber: 8.7 Consensus size: 43
44949867 GCTATTTTTC
* * * *
44949877 ACCTACTCCACTGCTGCTCAGGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTGCTGC-CAGGGAGATAGGATTCACAATCTTTA
* * * *
44949921 ACCTATTACACTGCTGACCAGGGAGATAAGA-CCTACAATCTTCA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTC-ACAATCTTTA
* * * * *
44949965 ATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATTTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
*
44950009 ACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
*
44950053 GCCTATTCCACTGCTGTCCAGGGAGATAGGA-T-----TCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
* * * *
44950091 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
*
44950135 ACCTATTCCACTGCTGACCAAGGAGATAGGATTCA-ACATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACA-ATCTTTA
44950179 ACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
*
44950223 ACCTATTCCACTGCTGACCAGGAAGATAGG
1 ACCTATTCCACTGCTG-CCAGGGAGATAGG
44950253 GCTGGGGTCA
Statistics
Matches: 282, Mismatches: 39, Indels: 22
0.82 0.11 0.06
Matches are distributed among these distances:
38 33 0.12
39 1 0.00
43 3 0.01
44 242 0.86
45 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
ACCTATTCCACTGCTGCCAGGGAGATAGGATTCACAATCTTTA
Found at i:44950114 original size:170 final size:170
Alignment explanation
Indices: 44949923--44950252 Score: 477
Period size: 170 Copynumber: 1.9 Consensus size: 170
44949913 GATCTTCAAC
* * *
44949923 CTATTACACTGCTGACCAGGGAGATA-AGA-CCTACAATCTTCAATCTATTCCACTACTGCCCAG
1 CTATTACACTGCTGACCAGGGAGATAGA-ATCCT-CAATCTTCAACCTATTCCACTACTGACCAA
* *
44949986 GGAGATAGAATTC-TCAATTTTTAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCT
64 GGAGATAGAATTCAAC-ATCTTTAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCT
* * *
44950050 TTAGCCTATTCCACTGCTGTCCAGGGAGATAGGATTCTTTAAT
128 TTAACCTATTCCACTGCTGACCAGGAAGATAGGATTCTTTAAT
* * * *
44950093 CTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAAGG
1 CTATTACACTGCTGACCAGGGAGATAGAATCCTCAATCTTCAACCTATTCCACTACTGACCAAGG
* * *
44950158 AGATAGGATTCAACATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTA
66 AGATAGAATTCAACATCTTTAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTTA
44950223 ACCTATTCCACTGCTGACCAGGAAGATAGG
131 ACCTATTCCACTGCTGACCAGGAAGATAGG
44950253 GCTGGGGTCA
Statistics
Matches: 142, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
170 138 0.97
171 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (170 bp):
CTATTACACTGCTGACCAGGGAGATAGAATCCTCAATCTTCAACCTATTCCACTACTGACCAAGG
AGATAGAATTCAACATCTTTAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTTA
ACCTATTCCACTGCTGACCAGGAAGATAGGATTCTTTAAT
Found at i:44950152 original size:126 final size:126
Alignment explanation
Indices: 44949877--44950212 Score: 460
Period size: 126 Copynumber: 2.6 Consensus size: 126
44949867 GCTATTTTTC
* * * * * *
44949877 ACCTACTCCACTGCTG-CTCAGGGAGATAGGGTTCACGATCTTCAACCTATTACACTGCTGACCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCA
* *
44949941 GGGAGATAAGACCTACAATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATTT
65 GGGAGATAGGA--T----TCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCT
*
44950006 TTA
124 TCA
* *
44950009 ACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTTAGCCTATTCCACTGCTGTCCAG
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAG
* *
44950074 GGAGATAGGATTCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCA
66 GGAGATAGGATTCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCA
*
44950135 ACCTATTCCACTGCTGACCAAGGAGATAGGATTCA-ACATCTTTAACCTATTCCACTGCTGTCCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACA-ATCTTTAACCTATTCCACTGCTGTCCA
44950199 GGGAGATAGGATTC
65 GGGAGATAGGATTC
44950213 ACAATCTTTA
Statistics
Matches: 186, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
125 1 0.01
126 119 0.64
130 1 0.01
132 64 0.34
133 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (126 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAG
GGAGATAGGATTCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCA
Found at i:44950311 original size:88 final size:88
Alignment explanation
Indices: 44950252--44950521 Score: 369
Period size: 88 Copynumber: 3.1 Consensus size: 88
44950242 AGGAAGATAG
* * * * *
44950252 GGCTGGGGTCATCAATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
*
44950317 TCCGCTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * * *
44950340 GGCTGGTGTCTTTGATCTGCTTCGTTGTCGGTGCAGAAAGGCAAGATCTGCTATTTTCAGCCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
* * *
44950405 TTCGCTACAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * * *
44950428 GGCTGATGTCTTCGATCTGCTTTGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
44950493 TCCACTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
44950516 GGCTGG
1 GGCTGG
44950522 GTACCGTAAC
Statistics
Matches: 158, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 158 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
TCCACTGCAACCCAGGGAGGCAA
Found at i:44953757 original size:19 final size:21
Alignment explanation
Indices: 44953719--44953757 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
44953709 CTTTTTTTAA
*
44953719 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
44953740 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
44953758 AACAGTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:44953952 original size:22 final size:21
Alignment explanation
Indices: 44953917--44953995 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 21
44953907 AAAGGGTATC
* * *
44953917 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
44953938 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
44953961 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
44953980 TGCATATATCATATCT
1 TACA-A-ATCATATCT
44953996 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
19 11 0.24
21 9 0.20
22 15 0.33
23 11 0.24
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:44953962 original size:23 final size:22
Alignment explanation
Indices: 44953917--44953974 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
44953907 AAAGGGTATC
* * *
44953917 TACAAATTAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
44953938 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
44953961 TACATATCATATCT
1 TACAAATCATATCT
44953975 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:44953977 original size:19 final size:19
Alignment explanation
Indices: 44953953--44954008 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
44953943 AATCATATCT
44953953 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
44953972 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
44953993 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
44954009 CTCGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.44
21 18 0.56
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:44953990 original size:21 final size:21
Alignment explanation
Indices: 44953964--44954007 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
44953954 CTAAGATTAC
44953964 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
44953985 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
44954006 AT
1 AT
44954008 CCTCGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:44958441 original size:23 final size:23
Alignment explanation
Indices: 44958377--44958444 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
44958367 TAAATTACAG
44958377 TTACTTAAGTGTTCTAAATAGAT
1 TTACTTAAGTGTTCTAAATAGAT
* *
44958400 TTAATTCA-TGTT-TATAATATGA-
1 TTACTTAAGTGTTCTA-AATA-GAT
*
44958422 TTACTGAAGTGTTCTAAATAGAT
1 TTACTTAAGTGTTCTAAATAGAT
44958445 ATAAATCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
21 2 0.06
22 15 0.43
23 16 0.46
24 2 0.06
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.44
Consensus pattern (23 bp):
TTACTTAAGTGTTCTAAATAGAT
Found at i:44960330 original size:114 final size:114
Alignment explanation
Indices: 44960130--44960485 Score: 518
Period size: 114 Copynumber: 3.1 Consensus size: 114
44960120 GAATAGAATA
* * * ** *
44960130 TTTTGCAGCATTTTAGCCCAAACGCCACTAAAAATGCTACTAAAAACAGTGCCGTTTTGCAAAAT
1 TTTTGCGGCGTTTTAGCCCAAACGCCACTAAAAATGCTGCTAAAAATGGCGCCGTTTTGCAAAAT
* *
44960195 TTTAATACATATTCGCGGCGTTTTTGGTCCAAACGCCTCAATTGCTTCC
66 TTTAATACATATTCGCGGCGTTTTTGGTCCAAACGCCGCTATTGCTTCC
* * * * **
44960244 TTTTGCGGTGTTTTAGCCTAAATGCTACTAAAAATGCTGCTAAAAATGGCGTTGTTTTGCAAAAT
1 TTTTGCGGCGTTTTAGCCCAAACGCCACTAAAAATGCTGCTAAAAATGGCGCCGTTTTGCAAAAT
*
44960309 TTTAATACATATTCGCGGCGTTTTTGGTCTAAACGCCGCTATTGCTTCC
66 TTTAATACATATTCGCGGCGTTTTTGGTCCAAACGCCGCTATTGCTTCC
44960358 TTTTGCGGCGTTTTAGCCCAAACGCCACTAAAAGA-GCTGCTAAAAATGGCGCCGTTTTGCAAAA
1 TTTTGCGGCGTTTTAGCCCAAACGCCACTAAAA-ATGCTGCTAAAAATGGCGCCGTTTTGCAAAA
* * *
44960422 TTTTAATACATATTTGCGGCGTTTTTGGTCCAAACACCGCTATTGCTTCA
65 TTTTAATACATATTCGCGGCGTTTTTGGTCCAAACGCCGCTATTGCTTCC
*
44960472 TTTTACGGC-TTTTA
1 TTTTGCGGCGTTTTA
44960486 TAATAAAAAC
Statistics
Matches: 215, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
113 5 0.02
114 209 0.97
115 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (114 bp):
TTTTGCGGCGTTTTAGCCCAAACGCCACTAAAAATGCTGCTAAAAATGGCGCCGTTTTGCAAAAT
TTTAATACATATTCGCGGCGTTTTTGGTCCAAACGCCGCTATTGCTTCC
Found at i:44961241 original size:17 final size:17
Alignment explanation
Indices: 44961221--44961254 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
44961211 AAAAAATATT
44961221 TTAATTTT-TTTATTTTA
1 TTAATTTTATTT-TTTTA
44961238 TTAATTTTATTTTTTTA
1 TTAATTTTATTTTTTTA
44961255 GCTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTAATTTTATTTTTTTA
Found at i:44961252 original size:22 final size:21
Alignment explanation
Indices: 44961218--44961278 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
44961208 AATAAAAAAT
44961218 ATTTTAATTTTTTTATTTTATTA
1 ATTTT-ATTTTTTTATTTT-TTA
**
44961241 ATTTTATTTTTTTAGCTTTTA
1 ATTTTATTTTTTTATTTTTTA
*
44961262 AATTTATTTTATTTATT
1 ATTTTATTTT-TTTATT
44961279 AAATTACCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 12 0.38
22 15 0.47
23 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
ATTTTATTTTTTTATTTTTTA
Found at i:44961441 original size:37 final size:36
Alignment explanation
Indices: 44961378--44961447 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
44961368 CAATTAATTA
*
44961378 ATTTTTAAATTTTAAAAATTCAAAAAATATAAATAT
1 ATTTTTAAAATTTAAAAATTCAAAAAATATAAATAT
*
44961414 ATTTTTAAAATTT-AAAATTTATTAAAAATATAAA
1 ATTTTTAAAATTTAAAAATTCA--AAAAATATAAA
44961448 AATTAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 7 0.23
36 12 0.40
37 11 0.37
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (36 bp):
ATTTTTAAAATTTAAAAATTCAAAAAATATAAATAT
Found at i:44961451 original size:19 final size:19
Alignment explanation
Indices: 44961400--44961457 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
44961390 TAAAAATTCA
44961400 AAAAATATAAATATATTT-TT
1 AAAAATATAAA-A-ATTTATT
*
44961420 -AAAAT-TTAAAATTTATT
1 AAAAATATAAAAATTTATT
*
44961437 AAAAATATAAAAATTAATT
1 AAAAATATAAAAATTTATT
44961456 AA
1 AA
44961458 TTACTAACGT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 8 0.25
19 17 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATATAAAAATTTATT
Found at i:44965060 original size:25 final size:25
Alignment explanation
Indices: 44965024--44965086 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
44965014 AAAAACTTAC
* *
44965024 ACGGTGAT-CAGCAGAGGACTGTTG
1 ACGGCGATGCAGCAGAGGACTGTCG
44965048 ACGGCGATGCAGCAGAGGACTGTCG
1 ACGGCGATGCAGCAGAGGACTGTCG
44965073 ACGGCGATGCAGCA
1 ACGGCGATGCAGCA
44965087 AACGTTGGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 7 0.19
25 29 0.81
ACGTcount: A:0.25, C:0.22, G:0.38, T:0.14
Consensus pattern (25 bp):
ACGGCGATGCAGCAGAGGACTGTCG
Found at i:44968926 original size:51 final size:51
Alignment explanation
Indices: 44968861--44969054 Score: 264
Period size: 51 Copynumber: 3.8 Consensus size: 51
44968851 TAAATGATAC
* *
44968861 CCGATTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCAT
1 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCAT
* * ***
44968912 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCT-AT
1 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATTTTCAT
* * * *
44968963 CCGGTACGCATAGTAGCCTGCACATAGTACTACACACATTACCATTTTCAT
1 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCAT
*
44969014 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA
1 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGA
44969055 TCTAGTAACT
Statistics
Matches: 120, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
50 3 0.03
51 114 0.95
52 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCAT
Found at i:44968996 original size:102 final size:102
Alignment explanation
Indices: 44968869--44969056 Score: 349
Period size: 102 Copynumber: 1.8 Consensus size: 102
44968859 ACCCGATTCA
**
44968869 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACACATGACCATTTTCATCCGATACACGTAGTAGCCTGCA
44968934 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
*
44968971 CATAGTAGCCTGCACATAGTACTACACACATTACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACACATGACCATTTTCATCCGATACACGTAGTAGCCTGCA
44969036 CATAGTACTACACACGTGATC
66 CATAGTACTACACACGTGATC
44969057 TAGTAACTTC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 83 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACACATGACCATTTTCATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:44971906 original size:32 final size:33
Alignment explanation
Indices: 44971870--44971933 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 33
44971860 TGGCGGTAGA
44971870 AGACCAA-AGGTCTGAACCA-GGCGGCGCTTAGG
1 AGACCAACA-GTCTGAACCAGGGCGGCGCTTAGG
*
44971902 AGACCAACAGTCTGAAGCAGGGGCGGCGCTTA
1 AGACCAACAGTCTGAACCA-GGGCGGCGCTTA
44971934 AGGTTTCAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 16 0.57
33 1 0.04
34 11 0.39
ACGTcount: A:0.28, C:0.25, G:0.34, T:0.12
Consensus pattern (33 bp):
AGACCAACAGTCTGAACCAGGGCGGCGCTTAGG
Found at i:44973025 original size:46 final size:46
Alignment explanation
Indices: 44972973--44973759 Score: 1178
Period size: 46 Copynumber: 17.1 Consensus size: 46
44972963 CAATCGACTT
** * * *
44972973 CGCTGCCAAATACAAAAAGACAAGATCTGATGTCTTCAATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
*
44973019 CACTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
* * * *
44973065 CTCTGCCAAATATAGGAAGACAAGATATGTTATCTTCGATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
44973111 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
* *
44973157 CTCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCAATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
* *
44973203 CGCTGTCAAATACAGGAAGATAAGATCTGCTATCTTCGATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
* * *
44973249 CTCTACTAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
* *
44973295 CGCTGCCAAATACAAGAAGACAAGATCTGCTATCTTTGATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
* *
44973341 CGCTGCCAAATACAGGAAGACAAGATCTGCTATTTTTGATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
* * *
44973387 CGCTGCTAAATACATGAAAACAAGATCTGCTATCTTCGATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
** * * *
44973433 TACTGCCAAATACAGGAAGACAAGATCTACTATTTTCGATCTATTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
* *
44973479 CGCTGCCAAATATAGGAAGACAAGATCTACTATCTTCGATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
*
44973525 TGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
* * *
44973571 CGCTACCAAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
* * *
44973617 CGCTGCAAAATACATGAAGACAAGATCTGCTATCTTCAATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
* * *
44973663 CTCTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTT
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
** *
44973709 CTTTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTC
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
44973755 CGCTG
1 CGCTG
44973760 TCGATCTACT
Statistics
Matches: 669, Mismatches: 72, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 669 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (46 bp):
CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTC
Found at i:44973153 original size:138 final size:138
Alignment explanation
Indices: 44972973--44973898 Score: 1251
Period size: 138 Copynumber: 6.6 Consensus size: 138
44972963 CAATCGACTT
** * * * *
44972973 CGCTGCCAAATACAAAAAGACAAGATCTGATGTCTTCAATCTACTCCACTGCCAAATACAGGAAG
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAATACAGGAAG
* * * *
44973038 ACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAATATAGGAAGACAAGATATGTTATCTTCG
66 ACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCG
44973103 ATCTACTC
131 ATCTACTC
44973111 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAATACAGGAAG
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAATACAGGAAG
* * *
44973176 ACAAGATCTGCTATCTTCAATCTACTCCGCTGTCAAATACAGGAAGATAAGATCTGCTATCTTCG
66 ACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCG
44973241 ATCTACTC
131 ATCTACTC
* * * * *
44973249 CTCTACTAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAAGAAG
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAATACAGGAAG
* * *
44973314 ACAAGATCTGCTATCTTTGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATTTTTG
66 ACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCG
44973379 ATCTACTC
131 ATCTACTC
* * *
44973387 CGCTGCTAAATACATGAAAACAAGATCTGCTATCTTCGATCTACT-CTACTGCCAAATACAGGAA
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCT-CTGCCAAATACAGGAA
* * * * *
44973451 GACAAGATCTACTATTTTCGATCTATTCCGCTGCCAAATATAGGAAGACAAGATCTACTATCTTC
65 GACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTC
44973516 GATCTACTC
130 GATCTACTC
* * * *
44973525 TGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTACCAAATATAGGAAG
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAATACAGGAAG
* * * *
44973590 ACAAGATCTGCTATCTTCGATCTACTTCGCTGCAAAATACATGAAGACAAGATCTGCTATCTTCA
66 ACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCG
44973655 ATCTACTC
131 ATCTACTC
* * * * *
44973663 CTCTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCTTTGCCAAATACAAGAAG
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAATACAGGAAG
*
44973728 ACAAGATCTGCTATCTTCGATCTACTCCGCTGTCGATCTACTCTGCTGCCAAATACAGGAAGATA
66 ACAAGATCTGCTATCTTCG----A-T---C--T--A-CT-C-C-GCTGCCAAATACAGGAAGACA
*
44973793 AGATCTGCTATCTTTGATCTACTC
115 AGATCTGCTATCTTCGATCTACTC
* * * * *
44973817 TGCTGCCAAATATAGGAAGACAAAATCTACTATCTTCGATCAACTCCTCTGCCAAATACAGGAAG
1 CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAATACAGGAAG
44973882 ACAAGATCTGCTATCTT
66 ACAAGATCTGCTATCTT
44973899 TTAGTCCATT
Statistics
Matches: 691, Mismatches: 79, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
137 1 0.00
138 569 0.82
139 1 0.00
142 1 0.00
143 1 0.00
146 1 0.00
148 1 0.00
150 1 0.00
151 2 0.00
153 1 0.00
154 112 0.16
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (138 bp):
CGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCTCTGCCAAATACAGGAAG
ACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCG
ATCTACTC
Found at i:44973765 original size:16 final size:16
Alignment explanation
Indices: 44973744--44973775 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44973734 TCTGCTATCT
44973744 TCGATCTACTCCGCTG
1 TCGATCTACTCCGCTG
*
44973760 TCGATCTACTCTGCTG
1 TCGATCTACTCCGCTG
44973776 CCAAATACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.34, G:0.19, T:0.34
Consensus pattern (16 bp):
TCGATCTACTCCGCTG
Found at i:44973796 original size:62 final size:62
Alignment explanation
Indices: 44973698--44973821 Score: 187
Period size: 62 Copynumber: 2.0 Consensus size: 62
44973688 TCTGCTATCT
*
44973698 TCGATCTACTTCTTTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTG
1 TCGATCTACTTCTCTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTG
* * * *
44973760 TCGATCTAC-TCTGCTGCCAAATACAGGAAGATAAGATCTGCTATCTTTGATCTACTCTGCTG
1 TCGATCTACTTCT-CTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTG
44973822 CCAAATATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 3 0.05
62 53 0.95
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (62 bp):
TCGATCTACTTCTCTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTG
Found at i:44973796 original size:108 final size:108
Alignment explanation
Indices: 44973655--44973863 Score: 305
Period size: 108 Copynumber: 1.9 Consensus size: 108
44973645 GCTATCTTCA
*
44973655 ATCTACTCCTCTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCT-TTGCCAAA
1 ATCTACTCCTCTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTAC-TCTGCTGCCAAA
* * *
44973719 TACAAGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGTCG
65 TACAAGAAGACAAAATCTACTATCTTCGATCAACTCCGCTGTCG
* * *
44973763 ATCTACT-CTGCTGCCAAATACAGGAAGATAAGATCTGCTATCTTTGATCTACTCTGCTGCCAAA
1 ATCTACTCCT-CTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAA
* *
44973827 TATAGGAAGACAAAATCTACTATCTTCGATCAACTCC
65 TACAAGAAGACAAAATCTACTATCTTCGATCAACTCC
44973864 TCTGCCAAAT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 5 0.06
108 85 0.94
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (108 bp):
ATCTACTCCTCTGCCAAATACAAGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAAT
ACAAGAAGACAAAATCTACTATCTTCGATCAACTCCGCTGTCG
Found at i:44973815 original size:46 final size:46
Alignment explanation
Indices: 44973762--44973899 Score: 206
Period size: 46 Copynumber: 3.0 Consensus size: 46
44973752 CTCCGCTGTC
*
44973762 GATCTACTCTGCTGCCAAATACAGGAAGATAAGATCTGCTATCTTT
1 GATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTT
* * * *
44973808 GATCTACTCTGCTGCCAAATATAGGAAGACAAAATCTACTATCTTC
1 GATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTT
*
44973854 GATCAACTCCT-CTGCCAAATACAGGAAGACAAGATCTGCTATCTTT
1 GATCTACT-CTGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTT
44973900 TAGTCCATTC
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 79 0.98
47 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (46 bp):
GATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTT
Found at i:44973886 original size:154 final size:154
Alignment explanation
Indices: 44973606--44973898 Score: 437
Period size: 154 Copynumber: 1.9 Consensus size: 154
44973596 TCTGCTATCT
*
44973606 TCGATCTACTTCGCTGCAAAATACATGAAGACAAGATCTGCTATCTTCAATCTACTCCTCTGCCA
1 TCGATCTACTTCGCTGCAAAATACAGGAAGACAAGATCTGCTATCTTCAATCTACTCCTCTGCCA
* * * * *
44973671 AATACAAGAAGACAAGATCTGCTATCTTCGATCTACTTCTTTGCCAAATACAAGAAGACAAGATC
66 AATACAAGAAGACAAAATCTACTATCTTCGATCAACTCCTCTGCCAAATACAAGAAGACAAGATC
44973736 TGCTATCTTCGATCTACTCCGCTG
131 TGCTATCTTCGATCTACTCCGCTG
* * **
44973760 TCGATCTAC-TCTGCTGCCAAATACAGGAAGATAAGATCTGCTATCTTTGATCTACT-CTGCTGC
1 TCGATCTACTTC-GCTGCAAAATACAGGAAGACAAGATCTGCTATCTTCAATCTACTCCT-CTGC
* * *
44973823 CAAATATAGGAAGACAAAATCTACTATCTTCGATCAACTCCTCTGCCAAATACAGGAAGACAAGA
64 CAAATACAAGAAGACAAAATCTACTATCTTCGATCAACTCCTCTGCCAAATACAAGAAGACAAGA
44973888 TCTGCTATCTT
129 TCTGCTATCTT
44973899 TTAGTCCATT
Statistics
Matches: 124, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
153 4 0.03
154 120 0.97
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (154 bp):
TCGATCTACTTCGCTGCAAAATACAGGAAGACAAGATCTGCTATCTTCAATCTACTCCTCTGCCA
AATACAAGAAGACAAAATCTACTATCTTCGATCAACTCCTCTGCCAAATACAAGAAGACAAGATC
TGCTATCTTCGATCTACTCCGCTG
Found at i:44974307 original size:24 final size:24
Alignment explanation
Indices: 44974275--44974326 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
44974265 GCCCTTACTG
*
44974275 TAATCTTC-AGAGTTAAATCCGCTA
1 TAATCTTCAAG-GTTAAATCCACTA
44974299 TAATCTTCAAGGTTAAATCCACTA
1 TAATCTTCAAGGTTAAATCCACTA
44974323 TAAT
1 TAAT
44974327 TTTGGGACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (24 bp):
TAATCTTCAAGGTTAAATCCACTA
Found at i:44974939 original size:103 final size:99
Alignment explanation
Indices: 44974781--44975065 Score: 316
Period size: 98 Copynumber: 2.9 Consensus size: 99
44974771 AAATATTATT
* * * *
44974781 ACAATGGACAAGATG-AAATTTTATTGAGAACGAAG-CTCGCAATGAATAAATTAATCAAGATGG
1 ACAATGGATAAAATGAAAATTTTATTGAGAAC-AAGACTCGAAATGAATAAATTAATCAAGATAG
* *
44974844 CAACTTTTGCTAAGATACGAATTGAATAAGA-T-GC
65 CAAATTTTGCTAAGATACGAA-TGAAAAAGATTAGC
*
44974878 A-AA-GGATTATCACAATGGATAAGATTTTATTGATAACAAGACTCGAAATGAATAAATTAATCA
1 ACAATGGA-TA--A-AAT-GA-AA-ATTTTATTGAGAACAAGACTCGAAATGAATAAATTAATCA
* *
44974941 AGATAGCAAATTTTGCTAAGATAAG-ATGAAAAAGATTATC
59 AGATAGCAAATTTTGCTAAGATACGAATGAAAAAGATTAGC
* *
44974981 ACAATGGATAAGATGAAAATTTTATTGAGAACAA-AGCTCAAAATGAATAAATTAATCAAGATAG
1 ACAATGGATAAAATGAAAATTTTATTGAGAACAAGA-CTCGAAATGAATAAATTAATCAAGATAG
*
44975045 AAAATTTTGCTAAGATACGAA
65 CAAATTTTGCTAAGATACGAA
44975066 ATGAGAATAA
Statistics
Matches: 159, Mismatches: 14, Indels: 28
0.79 0.07 0.14
Matches are distributed among these distances:
95 3 0.02
96 3 0.02
97 2 0.01
98 60 0.38
99 5 0.03
100 3 0.02
101 10 0.06
102 8 0.05
103 58 0.36
104 4 0.03
105 3 0.02
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.27
Consensus pattern (99 bp):
ACAATGGATAAAATGAAAATTTTATTGAGAACAAGACTCGAAATGAATAAATTAATCAAGATAGC
AAATTTTGCTAAGATACGAATGAAAAAGATTAGC
Found at i:44975906 original size:18 final size:18
Alignment explanation
Indices: 44975858--44975907 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
44975848 CCGAGTAGAG
44975858 TTTTTTTGTATTTTTTATT
1 TTTTTTTGT-TTTTTTATT
* *
44975877 TTTTTCTCTTTTTTTATT
1 TTTTTTTGTTTTTTTATT
44975895 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
44975908 GCCTCTACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.06, C:0.04, G:0.04, T:0.86
Consensus pattern (18 bp):
TTTTTTTGTTTTTTTATT
Found at i:44979425 original size:32 final size:33
Alignment explanation
Indices: 44979389--44979454 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 33
44979379 TGGCGGTAGA
44979389 AGACCAA-AGGTCTGAACCA-GGCGGCGCTTAGG
1 AGACCAACA-GTCTGAACCAGGGCGGCGCTTAGG
44979421 AGACCAACAGTCTGAACCAGGGGCGGCGCTTAGG
1 AGACCAACAGTCTGAACCA-GGGCGGCGCTTAGG
44979455 GTTTTAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 17 0.55
33 1 0.03
34 13 0.42
ACGTcount: A:0.27, C:0.26, G:0.35, T:0.12
Consensus pattern (33 bp):
AGACCAACAGTCTGAACCAGGGCGGCGCTTAGG
Found at i:44980620 original size:27 final size:27
Alignment explanation
Indices: 44980590--44980700 Score: 107
Period size: 27 Copynumber: 4.1 Consensus size: 27
44980580 TCAGTGTTCA
* *
44980590 CCATACGTACCATTCCTTCAGAGTTTT
1 CCATACGTACTATTCCTTCAAAGTTTT
* ** *
44980617 CCATATGTACTATTTTTTCAATGTTCTT
1 CCATACGTACTATTCCTTCAAAGTT-TT
* * *
44980645 -CATACGCACTATTCTTTCAAAATTTT
1 CCATACGTACTATTCCTTCAAAGTTTT
* *
44980671 CCATATGTACTATTCCTTCAAAGTTAT
1 CCATACGTACTATTCCTTCAAAGTTTT
44980698 CCA
1 CCA
44980701 CACATATCAT
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
26 2 0.03
27 62 0.94
28 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.42
Consensus pattern (27 bp):
CCATACGTACTATTCCTTCAAAGTTTT
Found at i:44980911 original size:27 final size:26
Alignment explanation
Indices: 44980838--44980911 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
44980828 TCCATAGATC
* *
44980838 GCCACAAGGGCTTCCATTTCATAGATT
1 GCCACAA-GGCTTCCATTTTATAGACT
*
44980865 GCCACATAGTCTTCCATTTTATAGACT
1 GCCACA-AGGCTTCCATTTTATAGACT
*
44980892 GCCACAGAGGCTTTCATTTT
1 GCCACA-AGGCTTCCATTTT
44980912 TCCAGTGTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (26 bp):
GCCACAAGGCTTCCATTTTATAGACT
Found at i:44984006 original size:27 final size:27
Alignment explanation
Indices: 44983976--44984072 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
44983966 TTCATTATAC
**
44983976 GTACTATTCCTTCAAAGTTCGCCATAT
1 GTACTATTCCTTCAAAGTTTTCCATAT
* * *
44984003 GTACTATTCTTTCAGTA-TTTTCCATAC
1 GTACTATTCCTTCA-AAGTTTTCCATAT
* * * *
44984030 GTACTATTCTTTTAGAGTTTTTCATAT
1 GTACTATTCCTTCAAAGTTTTCCATAT
44984057 GTACTATTCCTTCAAA
1 GTACTATTCCTTCAAA
44984073 TTTAGCCACA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (27 bp):
GTACTATTCCTTCAAAGTTTTCCATAT
Found at i:44990311 original size:39 final size:39
Alignment explanation
Indices: 44990256--44990411 Score: 145
Period size: 39 Copynumber: 3.7 Consensus size: 39
44990246 ATAATAAATA
*
44990256 TTTTT-ATTTTTTTAATTTTAAAATACTTTTAAAATATT
1 TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATATT
*
44990294 TTTTTAATTTTTTTAATTTTAAAATTTTTTTAATTTTTTTAAAATACT
1 TTTTTAATTTTTTTAATTTTAAAA------T-A--TTTTTAAAATATT
44990342 TTTTTTAA-TTTTTTAATTTTAAAATATTTTTAAAATACTT
1 TTT-TTAATTTTTTTAATTTTAAAATATTTTTAAAATA-TT
44990382 TTTTTAATTTTTATTTTAATTTTTAAAATA
1 TTTTTAA--TTT-TTTTAA-TTTTAAAATA
44990412 AATTTTTGGT
Statistics
Matches: 98, Mismatches: 3, Indels: 28
0.76 0.02 0.22
Matches are distributed among these distances:
38 5 0.05
39 33 0.34
40 4 0.04
41 1 0.01
42 3 0.03
43 6 0.06
44 10 0.10
45 1 0.01
46 1 0.01
48 30 0.31
49 4 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (39 bp):
TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATATT
Found at i:44990336 original size:48 final size:48
Alignment explanation
Indices: 44990282--44990374 Score: 161
Period size: 48 Copynumber: 1.9 Consensus size: 48
44990272 TTTAAAATAC
*
44990282 TTTTAAAATA-TTTTTTTAATTTTTTTAATTTTAAAATTTTTTTAATTT
1 TTTTAAAATACTTTTTTTAA-TTTTTTAATTTTAAAATATTTTTAATTT
44990330 TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATATTTTTAA
1 TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATATTTTTAA
44990375 AATACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
48 34 0.79
49 9 0.21
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (48 bp):
TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATATTTTTAATTT
Found at i:44990346 original size:14 final size:14
Alignment explanation
Indices: 44990327--44990388 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
44990317 ATTTTTTTAA
44990327 TTTTTTTAAAATAC
1 TTTTTTTAAAATAC
**
44990341 TTTTTTT--AATTT
1 TTTTTTTAAAATAC
44990353 TTTAATTTTAAAATA-
1 TTT--TTTTAAAATAC
44990368 --TTTTTAAAATAC
1 TTTTTTTAAAATAC
44990380 TTTTTTTAA
1 TTTTTTTAA
44990389 TTTTTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
11 10 0.26
12 6 0.16
13 1 0.03
14 18 0.47
16 3 0.08
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTTAAAATAC
Found at i:44990355 original size:9 final size:9
Alignment explanation
Indices: 44990291--44990335 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
44990281 CTTTTAAAAT
44990291 ATTTTTTTA
1 ATTTTTTTA
44990300 ATTTTTTTA
1 ATTTTTTTA
**
44990309 A-TTTTAAA
1 ATTTTTTTA
44990317 ATTTTTTTA
1 ATTTTTTTA
44990326 ATTTTTTTA
1 ATTTTTTTA
44990335 A
1 A
44990336 AATACTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 6 0.19
9 25 0.81
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:44990393 original size:48 final size:48
Alignment explanation
Indices: 44990271--44990393 Score: 119
Period size: 48 Copynumber: 2.5 Consensus size: 48
44990261 ATTTTTTTAA
***
44990271 TTTTAAAATACTTTTAAAATATTTTTTTAATTTTTTTAATTTTAAAATT
1 TTTTAAAATACTTTTTTTA-ATTTTTTTAATTTTTTTAATTTTAAAATT
* *
44990320 TTTT-TAAT--TTTTTTAAAATACTTTTTTTAA-TTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTT----TAATTTTTTTAATTTTTTTAATTTTAAAAT-T
44990369 TTTTAAAATACTTTTTTTAATTTTT
1 TTTTAAAATACTTTTTTTAATTTTT
44990394 ATTTTAATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
46 4 0.07
48 27 0.46
49 18 0.31
50 4 0.07
52 6 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (48 bp):
TTTTAAAATACTTTTTTTAATTTTTTTAATTTTTTTAATTTTAAAATT
Found at i:44998203 original size:20 final size:21
Alignment explanation
Indices: 44998163--44998211 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
44998153 AACTTCTATG
44998163 GAGAAAAAGAAATAATAAAAA
1 GAGAAAAAGAAATAATAAAAA
*
44998184 GAGAAAAAGAAGTAAT-AAAA
1 GAGAAAAAGAAATAATAAAAA
44998204 GAAGAAAA
1 G-AGAAAA
44998212 TAAGAAAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.08
Consensus pattern (21 bp):
GAGAAAAAGAAATAATAAAAA
Found at i:44999851 original size:28 final size:28
Alignment explanation
Indices: 44999809--44999865 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
44999799 AAAGTTGATA
*
44999809 AGTCAATCGCTATTAGTTTAAATGTGTT
1 AGTCAATCGCAATTAGTTTAAATGTGTT
44999837 AGTCAATCGCAATTAGTTTAAATGTGTT
1 AGTCAATCGCAATTAGTTTAAATGTGTT
44999865 A
1 A
44999866 ATTGATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (28 bp):
AGTCAATCGCAATTAGTTTAAATGTGTT
Found at i:45003435 original size:10 final size:10
Alignment explanation
Indices: 45003420--45003492 Score: 74
Period size: 10 Copynumber: 7.3 Consensus size: 10
45003410 GGGGTAGGAC
45003420 ATGATATGTT
1 ATGATATGTT
45003430 ATGATATGTT
1 ATGATATGTT
45003440 ATGATATGTT
1 ATGATATGTT
* *
45003450 ACGCTATGTT
1 ATGATATGTT
* * *
45003460 ACGAAATGAT
1 ATGATATGTT
*
45003470 ATGATATGAT
1 ATGATATGTT
**
45003480 ACAATATGTT
1 ATGATATGTT
45003490 ATG
1 ATG
45003493 TTTTAATAAG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 51 1.00
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (10 bp):
ATGATATGTT
Found at i:45003437 original size:5 final size:5
Alignment explanation
Indices: 45003420--45003480 Score: 50
Period size: 5 Copynumber: 12.2 Consensus size: 5
45003410 GGGGTAGGAC
* * * * * * * *
45003420 ATGAT ATGTT ATGAT ATGTT ATGAT ATGTT ACGCT ATGTT ACGAA ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
45003470 ATGAT ATGAT A
1 ATGAT ATGAT A
45003481 CAATATGTTA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (5 bp):
ATGAT
Found at i:45003460 original size:30 final size:30
Alignment explanation
Indices: 45003423--45003492 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
45003413 GTAGGACATG
* * * *
45003423 ATATGTTATGATATGTTATGATATGTTACG
1 ATATGTTATGAAATGATATGATATGATACA
* *
45003453 CTATGTTACGAAATGATATGATATGATACA
1 ATATGTTATGAAATGATATGATATGATACA
45003483 ATATGTTATG
1 ATATGTTATG
45003493 TTTTAATAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (30 bp):
ATATGTTATGAAATGATATGATATGATACA
Found at i:45009291 original size:31 final size:31
Alignment explanation
Indices: 45009256--45009325 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
45009246 TTAATATAAT
45009256 ATTTGGTACTTAAACTTGACACTTTTTCTTA
1 ATTTGGTACTTAAACTTGACACTTTTTCTTA
*
45009287 ATTTGGTACTTAAGCTTGACACTTTTTCTTA
1 ATTTGGTACTTAAACTTGACACTTTTTCTTA
45009318 ATTTGGTA
1 ATTTGGTA
45009326 TTTGATCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTTGGTACTTAAACTTGACACTTTTTCTTA
Found at i:45009395 original size:58 final size:58
Alignment explanation
Indices: 45009311--45009422 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
45009301 CTTGACACTT
* ** *
45009311 TTTCTTAATTTGGTATTTGATCTTTTTTGGAGTTCAATTTGGTACCTGAACTTGACTC
1 TTTCCTAATTTGGTACCTGAACTTTTTTGGAGTTCAATTTGGTACCTGAACTTGACTC
*** *
45009369 TTTCCTAATTTGGTACCTGAACTTTTTTTTTGTTCAATTTGGTACTTGAACTTG
1 TTTCCTAATTTGGTACCTGAACTTTTTTGGAGTTCAATTTGGTACCTGAACTTG
45009423 TCAAATGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (58 bp):
TTTCCTAATTTGGTACCTGAACTTTTTTGGAGTTCAATTTGGTACCTGAACTTGACTC
Found at i:45009407 original size:29 final size:29
Alignment explanation
Indices: 45009342--45009422 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
45009332 CTTTTTTGGA
45009342 GTTCAATTTGGTACCTGAACTTGACTCTT
1 GTTCAATTTGGTACCTGAACTTGACTCTT
* *** *
45009371 -TCCTAATTTGGTACCTGAACTTTTTTTTT
1 GTTC-AATTTGGTACCTGAACTTGACTCTT
*
45009400 GTTCAATTTGGTACTTGAACTTG
1 GTTCAATTTGGTACCTGAACTTG
45009423 TCAAATGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 2 0.05
29 38 0.90
30 2 0.05
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.47
Consensus pattern (29 bp):
GTTCAATTTGGTACCTGAACTTGACTCTT
Found at i:45010209 original size:22 final size:24
Alignment explanation
Indices: 45010170--45010213 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
45010160 TGTTTCAAAT
45010170 TTATTGATTTTTAAAATTTTATTA
1 TTATTGATTTTTAAAATTTTATTA
*
45010194 TTATT-ATTTTT-TAATTTTAT
1 TTATTGATTTTTAAAATTTTAT
45010214 GAAATACACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTATTGATTTTTAAAATTTTATTA
Found at i:45010973 original size:13 final size:11
Alignment explanation
Indices: 45010936--45010969 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
45010926 CATCCATGCG
*
45010936 TTTTAAATACAA
1 TTTTTAATA-AA
45010948 TTTTTAATAAA
1 TTTTTAATAAA
45010959 TTTTTAATAAA
1 TTTTTAATAAA
45010970 AATTAAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTTTAATAAA
Found at i:45011202 original size:23 final size:24
Alignment explanation
Indices: 45011172--45011217 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
45011162 TTAAAATAAA
*
45011172 TAAATTTAAATAT-ATAATTTATT
1 TAAATTTAAATATAAAAATTTATT
*
45011195 TAAATTTAATTATAAAAATTTAT
1 TAAATTTAAATATAAAAATTTAT
45011218 AAATATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TAAATTTAAATATAAAAATTTATT
Found at i:45015032 original size:21 final size:21
Alignment explanation
Indices: 45015007--45015057 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
45014997 TTAATTTATT
45015007 GTTTCTTGCTTATTTAAGTTA
1 GTTTCTTGCTTATTTAAGTTA
*
45015028 GTTTCTTACTTATTTAAGTTA
1 GTTTCTTGCTTATTTAAGTTA
45015049 G-TTCTTGCT
1 GTTTCTTGCT
45015058 GCTTTGGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.18, C:0.12, G:0.14, T:0.57
Consensus pattern (21 bp):
GTTTCTTGCTTATTTAAGTTA
Found at i:45016713 original size:20 final size:21
Alignment explanation
Indices: 45016676--45016714 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45016666 TACTAAAATA
**
45016676 TTTTTAAAATATTTTTTTTAT
1 TTTTTAAAATATAATTTTTAT
45016697 TTTTTAAAATA-AATTTTT
1 TTTTTAAAATATAATTTTT
45016715 GGTATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTAAAATATAATTTTTAT
Found at i:45016720 original size:23 final size:23
Alignment explanation
Indices: 45016676--45016732 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
45016666 TACTAAAATA
**
45016676 TTTTTAAAAT--ATTTTTTTTAT
1 TTTTTAAAATAAATTTTTGGTAT
45016697 TTTTTAAAATAAATTTTTGGTAT
1 TTTTTAAAATAAATTTTTGGTAT
*
45016720 TTATTAAAA-AAAT
1 TTTTTAAAATAAAT
45016733 AGGCCAGACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.32
22 4 0.13
23 17 0.55
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTTAAAATAAATTTTTGGTAT
Found at i:45020550 original size:13 final size:13
Alignment explanation
Indices: 45020534--45020559 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45020524 ACATTATATT
45020534 TATTTAATTAAAA
1 TATTTAATTAAAA
45020547 TATTTAATTAAAA
1 TATTTAATTAAAA
45020560 ACTTGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTAATTAAAA
Found at i:45021112 original size:3 final size:3
Alignment explanation
Indices: 45021106--45021135 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
45021096 AATCTTTTTT
45021106 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45021136 GGTAAAAAGA
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):
TAA
Found at i:45021367 original size:28 final size:28
Alignment explanation
Indices: 45021335--45021397 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
45021325 TAAATATAAC
*
45021335 TGTAATACTAATTAAGTGATAATTAAAA
1 TGTAACACTAATTAAGTGATAATTAAAA
45021363 TGTAACACTAATTAAGTGATAATTAAAA
1 TGTAACACTAATTAAGTGATAATTAAAA
45021391 TGTAACA
1 TGTAACA
45021398 TCCTAAGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.33
Consensus pattern (28 bp):
TGTAACACTAATTAAGTGATAATTAAAA
Found at i:45025474 original size:34 final size:34
Alignment explanation
Indices: 45025424--45025503 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 34
45025414 CAAACACTTA
* *
45025424 ATAAACATGATTATTTGCTACTG-AGTTTATCTGTT
1 ATAAACAT-ATTATTTGCTACTGTA-TTGAACTGTT
*
45025459 ATAAACATATTATTTGCTATTGTATTGAACTGTT
1 ATAAACATATTATTTGCTACTGTATTGAACTGTT
*
45025493 ATAAGCATATT
1 ATAAACATATT
45025504 TATTGTTACC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 31 0.77
35 9 0.22
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (34 bp):
ATAAACATATTATTTGCTACTGTATTGAACTGTT
Found at i:45025518 original size:34 final size:34
Alignment explanation
Indices: 45025454--45025555 Score: 91
Period size: 34 Copynumber: 3.0 Consensus size: 34
45025444 CTGAGTTTAT
* **
45025454 CTGTTATAAACATATTATTTGCTATTGTATTGAA
1 CTGTTATAAGCATATTATTTGCTACCGTATTGAA
* **
45025488 CTGTTATAAGCATATT-TATTGTTACCGTATTGTT
1 CTGTTATAAGCATATTAT-TTGCTACCGTATTGAA
* *
45025522 CTGTTAAAAGCATAATTAAATT-CTACCGTATTGA
1 CTGTTATAAGCAT-ATT-ATTTGCTACCGTATTGA
45025556 TCTATTTGAG
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
33 1 0.02
34 38 0.70
35 13 0.24
36 2 0.04
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (34 bp):
CTGTTATAAGCATATTATTTGCTACCGTATTGAA
Found at i:45027050 original size:11 final size:11
Alignment explanation
Indices: 45027034--45027063 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
45027024 TGCTTATATA
45027034 TATAAATAATT
1 TATAAATAATT
45027045 TATAAATAATT
1 TATAAATAATT
*
45027056 TACAAATA
1 TATAAATA
45027064 GATACAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
TATAAATAATT
Found at i:45027564 original size:29 final size:28
Alignment explanation
Indices: 45027524--45027604 Score: 74
Period size: 29 Copynumber: 2.9 Consensus size: 28
45027514 ATTTTAATAA
* * *
45027524 AAAATATTTAAAAGTTATTAAAAATTAG
1 AAAATATTTAAAAATCATAAAAAATTAG
* *
45027552 AAAATTTTATAAAAATCATAAAAAATTAT
1 AAAATATT-TAAAAATCATAAAAAATTAG
* *
45027581 AAAATATATAGAAAT-ATAGAAAAA
1 AAAATATTTAAAAATCATA-AAAAA
45027605 ATAATAAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
27 3 0.07
28 18 0.42
29 22 0.51
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (28 bp):
AAAATATTTAAAAATCATAAAAAATTAG
Found at i:45027574 original size:19 final size:18
Alignment explanation
Indices: 45027502--45027622 Score: 66
Period size: 19 Copynumber: 6.2 Consensus size: 18
45027492 AAAAAGATAA
45027502 AAAAATAATAAAATTTTAAT
1 AAAAAT-ATAAAATTTT-AT
45027522 AAAAAATATTTAAAAGTTATTA-
1 -AAAAATA--TAAAA-TT-TTAT
* *
45027544 AAAATTAGAAAATTTTAT
1 AAAAATATAAAATTTTAT
**
45027562 AAAAATCATAAAAAATTAT
1 AAAAAT-ATAAAATTTTAT
* *
45027581 AAAATATATAGAAA-TATAGA
1 AAAA-ATATA-AAATTTTA-T
45027601 AAAAATAATAAAATTTTAT
1 AAAAAT-ATAAAATTTTAT
45027620 AAA
1 AAA
45027623 GTCGTAAGAA
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
17 3 0.04
18 7 0.09
19 30 0.38
20 16 0.21
21 12 0.15
22 5 0.06
23 3 0.04
24 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAAATATAAAATTTTAT
Found at i:45028170 original size:16 final size:16
Alignment explanation
Indices: 45028149--45028183 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
45028139 ATTTTTTATA
45028149 ATATTTTTACAATTTT
1 ATATTTTTACAATTTT
45028165 ATATTTTTACAATTTT
1 ATATTTTTACAATTTT
45028181 ATA
1 ATA
45028184 AAAAAATTAC
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:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTTTTACAATTTT
Found at i:45028205 original size:22 final size:22
Alignment explanation
Indices: 45028177--45028228 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
45028167 ATTTTTACAA
45028177 TTTTATAAAAAAATTACAATTT
1 TTTTATAAAAAAATTACAATTT
***
45028199 TTTTATAAATTCATTACAATTT
1 TTTTATAAAAAAATTACAATTT
45028221 TTTATATA
1 TTT-TATA
45028229 TTTTTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTATAAAAAAATTACAATTT
Found at i:45029798 original size:17 final size:18
Alignment explanation
Indices: 45029778--45029814 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
45029768 GGTTTTTCAC
*
45029778 ATTTTTTAT-TTTTTAAA
1 ATTTTGTATCTTTTTAAA
45029795 A-TTTGTATCTTTTTAAA
1 ATTTTGTATCTTTTTAAA
45029812 ATT
1 ATT
45029815 ATAAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.35
17 10 0.59
18 1 0.06
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTGTATCTTTTTAAA
Found at i:45029824 original size:17 final size:16
Alignment explanation
Indices: 45029785--45029827 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
45029775 CACATTTTTT
**
45029785 ATTTTTTAAAATTTGT
1 ATTTTTTAAAATTTAA
45029801 ATCTTTTTAAAATTATAA
1 AT-TTTTTAAAATT-TAA
45029819 ATTTTTTAA
1 ATTTTTTAA
45029828 CATATAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 18 0.78
18 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (16 bp):
ATTTTTTAAAATTTAA
Found at i:45032281 original size:21 final size:19
Alignment explanation
Indices: 45032245--45032283 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
45032235 CTGTTAAGTT
45032245 TTTTTTTCTTTTCTTCTTA
1 TTTTTTTCTTTTCTTCTTA
45032264 TTTTTTTCTTCTTCCTTCTT
1 TTTTTTTCTT-TT-CTTCTT
45032284 TTCCTTCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTTCTTTTCTTCTTA
Found at i:45034735 original size:138 final size:138
Alignment explanation
Indices: 45034478--45034796 Score: 532
Period size: 138 Copynumber: 2.3 Consensus size: 138
45034468 TCTAGAGTGT
* *
45034478 CACTAAATCTTTTTACGCAAAGAAGAATGAAAACCCAAACACCCCACCCCGGTTACTCGATCAGT
1 CACTCAATATTTTTACGCAAAGAAGAATGAAAACCCAAACACCCCACCCCGGTTACTCGATCAGT
*
45034543 CACATCTCTAGATGGCTACTAGCTTTACTCATAATTGTTAAGACTAGTGGAGAAAGTGAATAGCT
66 CACATCTCTAGATGGCTACTAGCTTTACTCATAATTGTTAAGACTAGTGGAGAAAATGAATAGCT
45034608 TAGAATGC
131 TAGAATGC
*
45034616 CACTCAATATTTTTACGCAAAGAAGAATGAAAACCCAAATACCCCACCCCGGTTACTCGATCAGT
1 CACTCAATATTTTTACGCAAAGAAGAATGAAAACCCAAACACCCCACCCCGGTTACTCGATCAGT
45034681 CACATCTCTAGATGGCTACTAGCTTTACTCATAATTGTTAAGACTAGTGGAGAAAATGAATAGCT
66 CACATCTCTAGATGGCTACTAGCTTTACTCATAATTGTTAAGACTAGTGGAGAAAATGAATAGCT
45034746 TAGAATGC
131 TAGAATGC
* ** * * *
45034754 CACTCAATCTTTAGACGCGAAGACAG-ATGACAACCCAAGCACC
1 CACTCAATATTTTTACGCAAAGA-AGAATGAAAACCCAAACACC
45034797 TAACCCTAAT
Statistics
Matches: 169, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
138 167 0.99
139 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (138 bp):
CACTCAATATTTTTACGCAAAGAAGAATGAAAACCCAAACACCCCACCCCGGTTACTCGATCAGT
CACATCTCTAGATGGCTACTAGCTTTACTCATAATTGTTAAGACTAGTGGAGAAAATGAATAGCT
TAGAATGC
Found at i:45038840 original size:25 final size:27
Alignment explanation
Indices: 45038812--45038863 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
45038802 CCTAAAGTTG
*
45038812 TAATAG-A-CTTGAATCGTAAGTGTCA
1 TAATAGTACCTTGAATCGGAAGTGTCA
*
45038837 TAATAGTACCTTGAATGGGAAGTGTCA
1 TAATAGTACCTTGAATCGGAAGTGTCA
45038864 ACTAGAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 6 0.26
26 1 0.04
27 16 0.70
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (27 bp):
TAATAGTACCTTGAATCGGAAGTGTCA
Found at i:45041455 original size:26 final size:26
Alignment explanation
Indices: 45041396--45041449 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
45041386 GCCATATTAG
* *
45041396 GAAGCTCACAAAGAGCCTTTAATCGG
1 GAAGCTCACAAAGAGCCTATAATCGA
45041422 GAAGCTCACAAAGAGCCATATAA-CGA
1 GAAGCTCACAAAGAGCC-TATAATCGA
45041448 GA
1 GA
45041450 CACTCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCTATAATCGA
Found at i:45054401 original size:25 final size:25
Alignment explanation
Indices: 45054367--45054463 Score: 76
Period size: 25 Copynumber: 3.9 Consensus size: 25
45054357 GAAGCTCATA
45054367 TAACAGGAAGCTCATATGAGCCATG
1 TAACAGGAAGCTCATATGAGCCATG
* *
45054392 TAACAGGAAGCTTAT-TCG-G-GATG
1 TAACAGGAAGCTCATAT-GAGCCATG
* *
45054415 TATAACAGGAAGCTCATAAGAGCCATA
1 --TAACAGGAAGCTCATATGAGCCATG
* * *
45054442 T-TCAGGAAGCTTATACGAGCCA
1 TAACAGGAAGCTCATATGAGCCA
45054464 ATAACGGGTA
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
23 3 0.05
24 20 0.35
25 31 0.54
26 1 0.02
27 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (25 bp):
TAACAGGAAGCTCATATGAGCCATG
Found at i:45054602 original size:26 final size:25
Alignment explanation
Indices: 45054543--45054613 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
45054533 AGCCATATCG
45054543 GGAAGCTC-CGAAGAGCCATTAATC
1 GGAAGCTCACGAAGAGCCATTAATC
* * *
45054567 AGGAACCTCACAAAGAGCCTTTAATC
1 -GGAAGCTCACGAAGAGCCATTAATC
*
45054593 GGAAAGCTCATGAAGAGCCAT
1 GG-AAGCTCACGAAGAGCCAT
45054614 ATATCGGGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 9 0.24
26 28 0.76
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.17
Consensus pattern (25 bp):
GGAAGCTCACGAAGAGCCATTAATC
Found at i:45063358 original size:314 final size:314
Alignment explanation
Indices: 45062789--45063417 Score: 1125
Period size: 314 Copynumber: 2.0 Consensus size: 314
45062779 ATAATGGGTC
* *
45062789 AGTCCAATATGTTGTTCTCTAACACACATATTCATGCATCGATTCTGATATTCCATATCAATGAT
1 AGTCCAATATGTTGTTCTCTAACACACATATTCATGCATCGATTCTGACATTCCATATCAATGAC
* *
45062854 AACTCTTTATCATCAATCAACTACATGTTAGTCTTAATGCATTATTGTTTTCCTATCCAACAATA
66 AACTCTTTATCATCAATCAACTACATGTTAGTCTTAATGCATTATCGTTGTCCTATCCAACAATA
*
45062919 ATACTTGGCTAAGGATCTTTTAAGAATAATCATATTATTCTTAGGACATTATTAGAAAACAGTTT
131 ATACTTGACTAAGGATCTTTTAAGAATAATCATATTATTCTTAGGACATTATTAGAAAACAGTTT
45062984 ATTTATACACACAGAAAAGAAACTGAAATAATAATGGTAACGCCTTATATTAATAAACATGATTA
196 ATTTATACACACAGAAAAGAAACTGAAATAATAATGGTAACGCCTTATATTAATAAACATGA-TA
* *
45063049 AA-CAAGTATTTTATTACAACCCTCTCATGATTGATCTTTGGGCATACTCTAACA
260 AATCAAGTATGTTATTACAACCATCTCATGATTGATCTTTGGGCATACTCTAACA
45063103 AGTCCAATATGTTGTTCTCTAACACACATATTCATGCATCGATTCTGACATTCCATATCAATGAC
1 AGTCCAATATGTTGTTCTCTAACACACATATTCATGCATCGATTCTGACATTCCATATCAATGAC
* *
45063168 AACTCTTTATCATCAATCAACTACATGTTAGTCTTACTGTATTATCGTTGTCCTATCCAACAATA
66 AACTCTTTATCATCAATCAACTACATGTTAGTCTTAATGCATTATCGTTGTCCTATCCAACAATA
* *
45063233 ATACTTGACTAAGGATCTTTTAAGAATAATCATATTATTCTTAGGACATTATTATAAAAGAGTTT
131 ATACTTGACTAAGGATCTTTTAAGAATAATCATATTATTCTTAGGACATTATTAGAAAACAGTTT
*
45063298 ATTTATACACACAGAAAAGAAACTGAAATAATAATGGTAACGTCTTATATTAATAAACATGATAA
196 ATTTATACACACAGAAAAGAAACTGAAATAATAATGGTAACGCCTTATATTAATAAACATGATAA
*
45063363 ATCAAGTATGTTGTTACAACCATCTCATGATTGATCTTTGGGCATACTCTAACA
261 ATCAAGTATGTTATTACAACCATCTCATGATTGATCTTTGGGCATACTCTAACA
45063417 A
1 A
45063418 TACCAACATA
Statistics
Matches: 301, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
313 4 0.01
314 297 0.99
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.35
Consensus pattern (314 bp):
AGTCCAATATGTTGTTCTCTAACACACATATTCATGCATCGATTCTGACATTCCATATCAATGAC
AACTCTTTATCATCAATCAACTACATGTTAGTCTTAATGCATTATCGTTGTCCTATCCAACAATA
ATACTTGACTAAGGATCTTTTAAGAATAATCATATTATTCTTAGGACATTATTAGAAAACAGTTT
ATTTATACACACAGAAAAGAAACTGAAATAATAATGGTAACGCCTTATATTAATAAACATGATAA
ATCAAGTATGTTATTACAACCATCTCATGATTGATCTTTGGGCATACTCTAACA
Found at i:45065736 original size:96 final size:95
Alignment explanation
Indices: 45065617--45065931 Score: 396
Period size: 96 Copynumber: 3.3 Consensus size: 95
45065607 GTTTTTAGAT
* * * *
45065617 TTTAGGGTTTTAAGGAAAAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTAT
1 TTTAGGTTTTTAAGG-AAAAAATTAAATAAAT-AGGGTTTAGGGTTACTTGAGTAAATTAATTAT
45065682 AAA-TTTTAAAAAATTAGATTAGGGTTTAATG
64 AAATTTTTAAAAAATTAGATTAGGGTTTAATG
45065713 TTTATGGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTA-GGTTTTTAAGGAAAAAATTAAATAAA-TAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
45065778 AAATTTTTTTTAAAAAA-TAGATTAGGGTTT-A-G
64 AAA---TTTTTAAAAAATTAGATTAGGGTTTAATG
* *
45065810 ----GGTTTTTAAGGAAAAAATCAAATAAACTAGGGTTTAGGGATACTTGAGTAAATTAATTATA
1 TTTAGGTTTTTAAGGAAAAAATTAAATAAA-TAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
* * *
45065871 AATTTTTAAAAAATTAGATTGGGGTTTAGTA
65 AATTTTTAAAAAATTAGATTAGGGTTTAATG
*
45065902 TTTAGGGTTTTTAAGG-AAAAATAAAATAAA
1 TTTA-GGTTTTTAAGGAAAAAATTAAATAAA
45065932 GCTAGTTGTT
Statistics
Matches: 194, Mismatches: 11, Indels: 28
0.83 0.05 0.12
Matches are distributed among these distances:
89 11 0.06
90 12 0.06
92 60 0.31
96 64 0.33
97 23 0.12
98 1 0.01
99 13 0.07
100 10 0.05
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.39
Consensus pattern (95 bp):
TTTAGGTTTTTAAGGAAAAAATTAAATAAATAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA
ATTTTTAAAAAATTAGATTAGGGTTTAATG
Found at i:45065827 original size:92 final size:90
Alignment explanation
Indices: 45065617--45065899 Score: 374
Period size: 92 Copynumber: 3.1 Consensus size: 90
45065607 GTTTTTAGAT
* * * *
45065617 TTTAGGG-TTTTAAGGAAAAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTA
1 TTTAGGGTTTTTAAGG-AAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
45065681 TAAA-TTTTAAAAAATTAGATTAGGG
65 TAAATTTTTAAAAAATTAGATTAGGG
45065706 TTTAATGTTTATGGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAAT
1 TTT-A-G-----GGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAAT
45065771 TAATTATAAATTTTTTTTAAAAAA-TAGATTAGGG
59 TAATTATAAA---TTTTTAAAAAATTAGATTAGGG
* * *
45065805 TTTAGGGTTTTTAAGGAAAAAATCAAATAAACTAGGGTTTAGGGATACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
*
45065870 AAATTTTTAAAAAATTAGATTGGGG
66 AAATTTTTAAAAAATTAGATTAGGG
45065895 TTTAG
1 TTTAG
45065900 TATTTAGGGT
Statistics
Matches: 173, Mismatches: 8, Indels: 25
0.84 0.04 0.12
Matches are distributed among these distances:
89 14 0.08
90 15 0.09
91 1 0.01
92 60 0.35
96 50 0.29
97 9 0.05
98 1 0.01
99 13 0.08
100 10 0.06
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (90 bp):
TTTAGGGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
AAATTTTTAAAAAATTAGATTAGGG
Found at i:45068459 original size:13 final size:13
Alignment explanation
Indices: 45068441--45068465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45068431 AATTTTCTAG
45068441 ATTTTTTATTATA
1 ATTTTTTATTATA
45068454 ATTTTTTATTAT
1 ATTTTTTATTAT
45068466 TTTATCAACT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTTTATTATA
Found at i:45068559 original size:18 final size:18
Alignment explanation
Indices: 45068514--45068562 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
45068504 AAATTAACTA
*
45068514 ATATTTATATAATTTAAAT
1 ATATTT-TATAATATAAAT
* *
45068533 AAATATTATAATATAAAT
1 ATATTTTATAATATAAAT
*
45068551 TTATTTTATAAT
1 ATATTTTATAAT
45068563 GTGACATAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTTATAATATAAAT
Found at i:45070346 original size:3 final size:3
Alignment explanation
Indices: 45070338--45070373 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
45070328 GATTTTTGAA
45070338 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
45070374 TAAGCTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:45079658 original size:19 final size:19
Alignment explanation
Indices: 45079623--45079667 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
45079613 CTATTTCATA
*
45079623 TATATTTTTAGATTTTATC
1 TATATTTTTAGAATTTATC
* *
45079642 TATATTTTTTGAATTTATT
1 TATATTTTTAGAATTTATC
45079661 TATATTT
1 TATATTT
45079668 ATATTTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TATATTTTTAGAATTTATC
Found at i:45079708 original size:10 final size:9
Alignment explanation
Indices: 45079688--45079774 Score: 61
Period size: 9 Copynumber: 9.1 Consensus size: 9
45079678 TTTTATTTTC
*
45079688 ATTTTTCAT
1 ATTTTTTAT
45079697 ATATTTTTAT
1 AT-TTTTTAT
45079707 ATTTTTTA-
1 ATTTTTTAT
45079715 A-TTTTTAT
1 ATTTTTTAT
*
45079723 AATTTTTTCTAA
1 -A-TTTTT-TAT
45079735 ATTTTTTAT
1 ATTTTTTAT
*
45079744 ATGTTTATTTTT
1 A--TTT-TTTAT
45079756 ATTTTTTAT
1 ATTTTTTAT
*
45079765 AATTTTTAT
1 ATTTTTTAT
45079774 A
1 A
45079775 GCTTTATATA
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
7 6 0.10
8 1 0.02
9 25 0.40
10 16 0.25
11 8 0.13
12 7 0.11
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.70
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:45079742 original size:21 final size:20
Alignment explanation
Indices: 45079700--45079771 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 20
45079690 TTTTCATATA
45079700 TTTTTAT-A-TTTTTT-AA-
1 TTTTTATAATTTTTTTAAAT
45079716 TTTTTATAATTTTTTCTAAAT
1 TTTTTATAATTTTTT-TAAAT
**
45079737 TTTTTAT-ATGTTTATTTTTAT
1 TTTTTATAAT-TTT-TTTAAAT
45079758 TTTTTATAATTTTT
1 TTTTTATAATTTTT
45079772 ATAGCTTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
16 7 0.15
17 1 0.02
18 5 0.11
19 1 0.02
20 5 0.11
21 23 0.50
22 4 0.09
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (20 bp):
TTTTTATAATTTTTTTAAAT
Found at i:45080154 original size:23 final size:26
Alignment explanation
Indices: 45080107--45080164 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 26
45080097 AAGTTATTTT
45080107 TCAAATATTCATGTAATATATTTAAC
1 TCAAATATTCATGTAATATATTTAAC
45080133 -CAAAATATT-AT-TAAT-TATTTAAC
1 TC-AAATATTCATGTAATATATTTAAC
45080156 TCAAATATT
1 TCAAATATT
45080165 TGTTAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 15 0.50
24 5 0.17
25 3 0.10
26 7 0.23
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (26 bp):
TCAAATATTCATGTAATATATTTAAC
Found at i:45080170 original size:24 final size:25
Alignment explanation
Indices: 45080107--45080172 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
45080097 AAGTTATTTT
45080107 TCAAATATTCATG-TAATATATTTAAC
1 TCAAATATT--TGTTAATATATTTAAC
*
45080133 -CAAA-ATATTATTAAT-TATTTAAC
1 TCAAATAT-TTGTTAATATATTTAAC
45080156 TCAAATATTTGTTAATA
1 TCAAATATTTGTTAATA
45080173 ATAAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
23 9 0.27
24 17 0.52
25 7 0.21
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (25 bp):
TCAAATATTTGTTAATATATTTAAC
Found at i:45080776 original size:14 final size:14
Alignment explanation
Indices: 45080757--45080809 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
45080747 TTCTTGTGAT
45080757 AAATATTAATACTG
1 AAATATTAATACTG
* *
45080771 AAATATTAACACTC
1 AAATATTAATACTG
45080785 AAATATTAAT--TG
1 AAATATTAATACTG
45080797 AAATATTAATACT
1 AAATATTAATACT
45080810 CAATGAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 11 0.33
14 22 0.67
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (14 bp):
AAATATTAATACTG
Found at i:45080804 original size:26 final size:27
Alignment explanation
Indices: 45080757--45080812 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
45080747 TTCTTGTGAT
45080757 AAATATTAATACTGAAATATTAACACTC
1 AAATATTAATA-TGAAATATTAACACTC
*
45080785 AAATATTAAT-TGAAATATTAATACTC
1 AAATATTAATATGAAATATTAACACTC
45080811 AA
1 AA
45080813 TGAATTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 17 0.63
28 10 0.37
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.34
Consensus pattern (27 bp):
AAATATTAATATGAAATATTAACACTC
Found at i:45081607 original size:24 final size:25
Alignment explanation
Indices: 45081580--45081626 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
45081570 ACATATTTTT
45081580 AAAA-ATTTATTTTCAAT-TTGTTCA
1 AAAATATTTATTTT-AATATTGTTCA
45081604 AAAATATTTATTTTAATATTGTT
1 AAAATATTTATTTTAATATTGTT
45081627 AGTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (25 bp):
AAAATATTTATTTTAATATTGTTCA
Found at i:45086006 original size:14 final size:14
Alignment explanation
Indices: 45085987--45086026 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
45085977 TTGATTGGCT
45085987 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
45086001 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
45086015 GGAAAATGTTTT
1 GTAAAATGTTTT
45086027 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:45086039 original size:34 final size:35
Alignment explanation
Indices: 45085995--45086061 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
45085985 CTGTAAAATG
* *
45085995 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
45086029 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
45086062 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:45086048 original size:20 final size:20
Alignment explanation
Indices: 45086010--45086049 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45086000 CGTAAAATGA
**
45086010 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
45086030 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
45086050 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:45087435 original size:27 final size:27
Alignment explanation
Indices: 45087405--45087474 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
45087395 AATAATCAAT
*
45087405 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
45087432 TCAATATCTAACCAATTCAAGACATATA
1 TCAATATCCAA-CAATTCAAAACATATA
*
45087460 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
45087475 CTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:45098923 original size:43 final size:42
Alignment explanation
Indices: 45098850--45098957 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 42
45098840 CGAAGCAGTC
* * *
45098850 ATACTGACACATAAGTGTATCA-TCGAATAAATTGAAGAAAAT
1 ATACTGGCACATAAGTGCATCATTTG-ATAAATTGAAGAAAAT
*
45098892 ATACTGGCACACGT-AGTGCATCATTTGATAAATTGAAGCAAAT
1 ATACTGGCACA--TAAGTGCATCATTTGATAAATTGAAGAAAAT
*
45098935 ATATTGGCACATAAGTGCATCAT
1 ATACTGGCACATAAGTGCATCAT
45098958 CAATTAAACC
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
41 1 0.02
42 20 0.35
43 33 0.58
44 3 0.05
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (42 bp):
ATACTGGCACATAAGTGCATCATTTGATAAATTGAAGAAAAT
Found at i:45101944 original size:110 final size:110
Alignment explanation
Indices: 45101734--45102052 Score: 426
Period size: 110 Copynumber: 2.9 Consensus size: 110
45101724 GAAATTCGAG
* * * * * * * *
45101734 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAAGGTACGTTTCCTT
1 AGGATATTTAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
* * * * *
45101797 AAATTTCCAAACGCAAAATATTATCTTACTTCGAAATTTTTAAAA
66 GAATTTCCAAACGCAAAACATTACCTTATTTCAAAATTTTTAAAA
* *
45101842 AGGGTATTTAGCCATTTGGTTAAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
* * * *
45101907 GAATTTCCAAATGCAAAACATTGCCTTATTTTAAAATTTTTTAAA
66 GAATTTCCAAACGCAAAACATTACCTTATTTCAAAATTTTTAAAA
* *
45101952 AGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
*
45102017 GAATTTCCAAACGCAAAACATTACCTTATTTGAAAA
66 GAATTTCCAAACGCAAAACATTACCTTATTTCAAAA
45102053 AAATTTTGTT
Statistics
Matches: 183, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
108 24 0.13
110 159 0.87
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (110 bp):
AGGATATTTAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
GAATTTCCAAACGCAAAACATTACCTTATTTCAAAATTTTTAAAA
Found at i:45102565 original size:3 final size:3
Alignment explanation
Indices: 45102557--45102631 Score: 59
Period size: 3 Copynumber: 25.7 Consensus size: 3
45102547 TAGATGAAGA
* *
45102557 AAT AAT AAT AAT AACT AAT AAT AAC AAT AAT AAT AA- AAT -AT GAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
45102601 AA- AAT ATT AAA AAT AAT GAAG AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
45102632 AAATGCTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
2 8 0.14
3 45 0.78
4 5 0.09
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:45103649 original size:20 final size:21
Alignment explanation
Indices: 45103626--45103672 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
45103616 GTTTTTGGAC
*
45103626 TGGGTTTTAATTTT-TCT-TTT
1 TGGGTTGTAATTTTAT-TGTTT
*
45103646 TGGGCTGTAATTTTATTGTTT
1 TGGGTTGTAATTTTATTGTTT
45103667 TGGGTT
1 TGGGTT
45103673 AGGTCTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.11, C:0.04, G:0.23, T:0.62
Consensus pattern (21 bp):
TGGGTTGTAATTTTATTGTTT
Found at i:45105112 original size:27 final size:27
Alignment explanation
Indices: 45105072--45105125 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 27
45105062 TTTTCAATAT
*
45105072 TATATTTTTCATAATTTAATTAGTAAAAA
1 TATATTTTTCATAA--TAACTAGTAAAAA
45105101 TATA-TTTT-ATAATAACTAGTAAAAA
1 TATATTTTTCATAATAACTAGTAAAAA
45105126 CATTACCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 12 0.50
27 4 0.17
28 4 0.17
29 4 0.17
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (27 bp):
TATATTTTTCATAATAACTAGTAAAAA
Found at i:45105201 original size:21 final size:21
Alignment explanation
Indices: 45105150--45105202 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
45105140 TTGTTTATTT
*
45105150 ATAAAAAGATATAAGGAAAAAG
1 ATAAAAA-ATACAAGGAAAAAG
*
45105172 ATAAGAAATACAAGGAAAAA-
1 ATAAAAAATACAAGGAAAAAG
45105192 ATAGAAAAATA
1 ATA-AAAAATA
45105203 TATATATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.11
21 18 0.67
22 6 0.22
ACGTcount: A:0.70, C:0.02, G:0.15, T:0.13
Consensus pattern (21 bp):
ATAAAAAATACAAGGAAAAAG
Found at i:45106193 original size:16 final size:16
Alignment explanation
Indices: 45106167--45106204 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
45106157 ATACATATTA
45106167 CATATTGAATAATAAT
1 CATATTGAATAATAAT
* *
45106183 TATATTTAATAATAAT
1 CATATTGAATAATAAT
45106199 CATATT
1 CATATT
45106205 AAAATTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (16 bp):
CATATTGAATAATAAT
Found at i:45110239 original size:32 final size:32
Alignment explanation
Indices: 45110198--45110262 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
45110188 ATAAAGAAAA
45110198 AAAAAATCCACACTTTGATTTCCAACAATCAT
1 AAAAAATCCACACTTTGATTTCCAACAATCAT
45110230 AAAAAATCCACACTTTGATTTCCAACAATCAT
1 AAAAAATCCACACTTTGATTTCCAACAATCAT
45110262 A
1 A
45110263 TGCATATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.25, G:0.03, T:0.28
Consensus pattern (32 bp):
AAAAAATCCACACTTTGATTTCCAACAATCAT
Found at i:45112962 original size:27 final size:27
Alignment explanation
Indices: 45112924--45112977 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
45112914 TAGAAAAAAG
* *
45112924 TTAACAAAGGACTTTTCCTGCATTAAC
1 TTAACAAAGGACTTTGCATGCATTAAC
45112951 TTAACAAAGGACTTTGCATGCATTAAC
1 TTAACAAAGGACTTTGCATGCATTAAC
45112978 GATAGAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (27 bp):
TTAACAAAGGACTTTGCATGCATTAAC
Found at i:45115206 original size:124 final size:125
Alignment explanation
Indices: 45114990--45115298 Score: 503
Period size: 124 Copynumber: 2.5 Consensus size: 125
45114980 TCAAAGCAAT
* * *
45114990 ATGCTTTATCAGAAGAATTTCTGAAGTCGCGCCCACGTGGACGTGCTTTTGCTACAGTAGGTCCT
1 ATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCT
45115055 GGAAAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTAT-AAAAACGCTTCAAGCAGG
66 GGAAAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAGG
* * * *
45115114 ATGTTTTATCAGAAGAATTTCTGAAATTGCGCCCTCATGGACGCGCTTTTGCTATAGTAGGTCCT
1 ATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCT
* * * *
45115179 GGAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGCAGG
66 GGAAAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAGG
*
45115239 ATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAGTAG
1 ATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
45115299 CATGTTTGGG
Statistics
Matches: 168, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
124 96 0.57
125 72 0.43
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (125 bp):
ATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCT
GGAAAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAGG
Done.