Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008828.1 Hibiscus syriacus cultivar Beakdansim tig00112010_pilon, whole genome shotgun sequence
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: 258892
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1624 original size:33 final size:33
Alignment explanation
Indices: 1555--1616 Score: 101
Period size: 31 Copynumber: 1.9 Consensus size: 33
1545 TATAGCTAAA
*
1555 AAAAATCGTCTTTATTCGAATTTTGCCAAAAGC
1 AAAAATCGTCATTATTCGAATTTTGCCAAAAGC
1588 AAAAATCGT-ATT-TTCGAATTTTGCCAAAA
1 AAAAATCGTCATTATTCGAATTTTGCCAAAA
1617 TAGCAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 17 0.61
32 2 0.07
33 9 0.32
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (33 bp):
AAAAATCGTCATTATTCGAATTTTGCCAAAAGC
Found at i:6395 original size:21 final size:21
Alignment explanation
Indices: 6329--6396 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
6319 TTTTAGTAAC
6329 ATTTTAATAA-A-AATATTA-
1 ATTTTAATAATATAATATTAT
**
6347 ATTATTAA-AATACTTTTATTAAT
1 ATT-TTAATAATA-TAATATT-AT
6370 AATTTTAATAATATAATATTAT
1 -ATTTTAATAATATAATATTAT
6392 ATTTT
1 ATTTT
6397 TAGGGTCACA
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
18 5 0.13
19 5 0.13
21 9 0.24
22 3 0.08
23 9 0.24
24 7 0.18
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTTAATAATATAATATTAT
Found at i:6582 original size:24 final size:27
Alignment explanation
Indices: 6524--6582 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
6514 AGTATTTTTA
6524 TTTAATAAAATATAATAATATTAATAT
1 TTTAATAAAATATAATAATATTAATAT
* * *
6551 TTTTATAAATTGTAA-AA-ATT-ATAT
1 TTTAATAAAATATAATAATATTAATAT
6575 TTTAATAA
1 TTTAATAA
6583 TATTACTGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 11 0.39
25 3 0.11
26 2 0.07
27 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TTTAATAAAATATAATAATATTAATAT
Found at i:7169 original size:43 final size:43
Alignment explanation
Indices: 7108--7191 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
7098 GTTAAGATCT
* *
7108 TAGATTCCAAGTTAGAATTGTTCATAATATTCTAAATAACTAA
1 TAGATTCCAAGCTAGAATTATTCATAATATTCTAAATAACTAA
*
7151 TAGATTCCACGCTAGAATTATTCATAATATTCTAAATAACT
1 TAGATTCCAAGCTAGAATTATTCATAATATTCTAAATAACT
7192 TTTAATAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.37
Consensus pattern (43 bp):
TAGATTCCAAGCTAGAATTATTCATAATATTCTAAATAACTAA
Found at i:8825 original size:36 final size:36
Alignment explanation
Indices: 8785--8866 Score: 164
Period size: 36 Copynumber: 2.3 Consensus size: 36
8775 TATAGAAATC
8785 CAATTAAATTGGAATCAAATAATATTATAATATTTA
1 CAATTAAATTGGAATCAAATAATATTATAATATTTA
8821 CAATTAAATTGGAATCAAATAATATTATAATATTTA
1 CAATTAAATTGGAATCAAATAATATTATAATATTTA
8857 CAATTAAATT
1 CAATTAAATT
8867 TAAATAGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (36 bp):
CAATTAAATTGGAATCAAATAATATTATAATATTTA
Found at i:17407 original size:59 final size:59
Alignment explanation
Indices: 17334--17471 Score: 222
Period size: 59 Copynumber: 2.3 Consensus size: 59
17324 CCATTTTAGA
* * * *
17334 GCCCAAAGGATTTATTAAAATATCTTGGACTAAGTTTATTTGGAATTGGGCTAAGTTGG
1 GCCCAAAAGATTTATTAAAATAGCTTGGACTAAGTATATTTGGAATTGGGCTAAGCTGG
17393 GCCCAAAAGATTTATTAAAATAGCTTGGACTAAGTATATTTGGAATTGGGCTAAGCTGG
1 GCCCAAAAGATTTATTAAAATAGCTTGGACTAAGTATATTTGGAATTGGGCTAAGCTGG
* *
17452 ACCCAAAAGATTTATGAAAA
1 GCCCAAAAGATTTATTAAAA
17472 GTAATGATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 73 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (59 bp):
GCCCAAAAGATTTATTAAAATAGCTTGGACTAAGTATATTTGGAATTGGGCTAAGCTGG
Found at i:23956 original size:2 final size:2
Alignment explanation
Indices: 23943--24032 Score: 114
Period size: 2 Copynumber: 46.0 Consensus size: 2
23933 TATTATTAAG
*
23943 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
23985 AT AT AT TT AT -T AT GT AT AT AT CAT A- AC AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
24025 AT AT AT AT
1 AT AT AT AT
24033 TATTTTTATT
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
1 3 0.04
2 72 0.94
3 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24019 original size:17 final size:17
Alignment explanation
Indices: 23949--24035 Score: 81
Period size: 17 Copynumber: 5.1 Consensus size: 17
23939 TAAGATATAA
*
23949 ATATATATATATATA-T
1 ATATATATATACATATT
*
23965 ATATATATATATATATAT
1 ATATATATATACATAT-T
* *
23983 ATATATATTTA-TTATGT
1 ATATATATATACATAT-T
24000 ATATATCATA-ACATATT
1 ATATAT-ATATACATATT
*
24017 ATATATATATATATATT
1 ATATATATATACATATT
24034 AT
1 AT
24036 TTTTATTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
16 18 0.30
17 26 0.43
18 16 0.27
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (17 bp):
ATATATATATACATATT
Found at i:31794 original size:2 final size:2
Alignment explanation
Indices: 31787--31826 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
31777 GAATTATGAA
31787 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31827 CCACTAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32271 original size:60 final size:59
Alignment explanation
Indices: 32104--32271 Score: 173
Period size: 60 Copynumber: 2.8 Consensus size: 59
32094 CCTCATTTTC
* * * *
32104 AAATTGGTCCTTAAACTTTTAAACATTTCATTTTCATCCTTAAACTATGACTATCATCCT
1 AAATTGGTTCATAAACTTTTGAACATTTCATTTTCATCC-TAAATTATGACTATCATCCT
* * *
32164 AAATTAGTCCTCA-AAA-TTTTGAACATTTCATTTTCATCCTCCAATTATGATCT-TCATTCT
1 AAATTGGT--TCATAAACTTTTGAACATTTCATTTTCATCCT-AAATTATGA-CTATCATCCT
*
32224 AAATTGGTTCATAAACTTTTTGAATATTTCAGTTTT-ATCCTAAATTAT
1 AAATTGGTTCATAAAC-TTTTGAACATTTCA-TTTTCATCCTAAATTAT
32272 ACGTATATAC
Statistics
Matches: 90, Mismatches: 10, Indels: 16
0.78 0.09 0.14
Matches are distributed among these distances:
58 3 0.03
59 4 0.04
60 55 0.61
61 23 0.26
62 5 0.06
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (59 bp):
AAATTGGTTCATAAACTTTTGAACATTTCATTTTCATCCTAAATTATGACTATCATCCT
Found at i:32508 original size:60 final size:60
Alignment explanation
Indices: 32431--32575 Score: 184
Period size: 60 Copynumber: 2.4 Consensus size: 60
32421 TAGGGACCAA
* * * *
32431 TAAAATGAGATTCATAGTTTGGGGATGAAATTGGGATGCTCAAATGTTTAAGAACTAATT
1 TAAAATGAGAGTCATAGTTTGGGGATGAAATTAGAATGCTCAAAAGTTTAAGAACTAATT
* * * * *
32491 TAAAATGAGAGTCATAGTTTGAGGATGAAATTATAATGCTTAAAAGTTTAAGGATTAATT
1 TAAAATGAGAGTCATAGTTTGGGGATGAAATTAGAATGCTCAAAAGTTTAAGAACTAATT
*
32551 TAAAATGATG-GTCATAGTTTAGGGA
1 TAAAATGA-GAGTCATAGTTTGGGGA
32576 CATATGATAC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 72 0.99
61 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (60 bp):
TAAAATGAGAGTCATAGTTTGGGGATGAAATTAGAATGCTCAAAAGTTTAAGAACTAATT
Found at i:35060 original size:2 final size:2
Alignment explanation
Indices: 35053--35088 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
35043 AGTCTCACTA
35053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35089 TCATAAGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37650 original size:24 final size:24
Alignment explanation
Indices: 37623--37671 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
37613 ATCCAAGACA
37623 AAAGGTAATTCTCATTTTGATGCT
1 AAAGGTAATTCTCATTTTGATGCT
37647 AAAGGTAATTCTCATTTTGATGCT
1 AAAGGTAATTCTCATTTTGATGCT
37671 A
1 A
37672 TCTCTATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (24 bp):
AAAGGTAATTCTCATTTTGATGCT
Found at i:42518 original size:17 final size:18
Alignment explanation
Indices: 42486--42520 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
42476 AGATAACCAA
42486 GTATAAGTCATATTATATT
1 GTATAAGT-ATATTATATT
42505 GTATAAGT-TATTATAT
1 GTATAAGTATATTATAT
42521 GAGAAAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (18 bp):
GTATAAGTATATTATATT
Found at i:43832 original size:22 final size:23
Alignment explanation
Indices: 43787--43832 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
43777 ATTAAAAGAA
* *
43787 TAGATATAAGAGGATATGATTAT
1 TAGATATAAGAGGATAAGAATAT
*
43810 TAGATATAA-ATGATAAGAATAT
1 TAGATATAAGAGGATAAGAATAT
43832 T
1 T
43833 GTTGGTGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (23 bp):
TAGATATAAGAGGATAAGAATAT
Found at i:55864 original size:21 final size:23
Alignment explanation
Indices: 55838--55880 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
55828 AAATTAAGTT
55838 AAATGAATTT-TAAG-ATATTCC
1 AAATGAATTTCTAAGTATATTCC
*
55859 AAATGATTTTCTAAGTATATTC
1 AAATGAATTTCTAAGTATATTC
55881 GATAGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (23 bp):
AAATGAATTTCTAAGTATATTCC
Found at i:58107 original size:23 final size:23
Alignment explanation
Indices: 58079--58147 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
58069 ACATCTTATA
58079 TGGCACTTCGGTGCATTTATAC-
1 TGGCACTTCGGTGCATTTATACG
* * *
58101 TCGGCACTACGGTGCAATTCTACG
1 T-GGCACTTCGGTGCATTTATACG
*
58125 TGGCACTTCGGTGAATTTATACG
1 TGGCACTTCGGTGCATTTATACG
58148 AGTTGTGATG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 1 0.03
23 36 0.95
24 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTATACG
Found at i:59253 original size:90 final size:92
Alignment explanation
Indices: 59093--59261 Score: 252
Period size: 90 Copynumber: 1.9 Consensus size: 92
59083 TGTATACCCG
* * * * *
59093 TATTATATTATTATATATGCAATAAAGCTTGAGTTGTCCCTCTATAGCAACTGGTTAATAGCCTC
1 TATTATACTATTATATATGCAATAAAGATTGAGTTGTCCCTATAGAGCAACTGGTTAATAGCCCC
59158 AACTTTATGGATAATATCCAGCTAGCC
66 AACTTTATGGATAATATCCAGCTAGCC
* *
59185 TATTATACTATTATAT-T-CAATAAAGATTGAGTTGTCCCTATAGAGCAATTGTTTAATAGCCCC
1 TATTATACTATTATATATGCAATAAAGATTGAGTTGTCCCTATAGAGCAACTGGTTAATAGCCCC
*
59248 GACTTTATGGATAA
66 AACTTTATGGATAA
59262 GTTTCAACTA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
90 53 0.77
91 1 0.01
92 15 0.22
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.37
Consensus pattern (92 bp):
TATTATACTATTATATATGCAATAAAGATTGAGTTGTCCCTATAGAGCAACTGGTTAATAGCCCC
AACTTTATGGATAATATCCAGCTAGCC
Found at i:72796 original size:24 final size:24
Alignment explanation
Indices: 72769--72818 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
72759 TGGTGGTTGA
*
72769 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
72793 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
72817 TT
1 TT
72819 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:75347 original size:123 final size:122
Alignment explanation
Indices: 75128--75557 Score: 569
Period size: 123 Copynumber: 3.5 Consensus size: 122
75118 TCGAGGGATT
* * * * *
75128 AACATTTTCAGAAGGAGTTCGTAATAAAAAGAAATCATTTAAAGAGGAAAAAGAAGTTCATAATC
1 AACATTTTCAGAAGGAGTTCGTAATAATAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
* *
75193 TAAAGAACTTATTCAACCTTTTTCTCGACTCTATCGCAGAAGGAGATAGAGCATCATC
66 TAAAGAACTTATTCAA-CTTTTGCTCAACTCTATCGCAGAAGGAGATAGAGCATCATC
*
75251 AACATTTTTAGAAGGAGTTCGTAATAATAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
1 AACATTTTCAGAAGGAGTTCGTAATAATAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
* * * *
75316 TAAAGAACTTATTCAATCTTTTGCTCTACTCTATCGCAGAAGGAGATAAAGTAGCATC
66 TAAAGAACTTATTCAA-CTTTTGCTCAACTCTATCGCAGAAGGAGATAGAGCATCATC
* * *
75374 AACATTTTCATAAGGAGTCCG---TAATAAGAACTCATCTGAATAGGAAGAAGAAGTTCATAATC
1 AACATTTTCAGAAGGAGTTCGTAATAATAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
* * *
75436 TGAAGAACTTATTCAACATTTTGCTAAACTCTATCACAGAAGGAGATAGAGCATCATC
66 TAAAGAACTTATTCAAC-TTTTGCTCAACTCTATCGCAGAAGGAGATAGAGCATCATC
* * * * * * * * *
75494 AATATTTCCAGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAGAGAAAGAAAAAGTTCATAAT
1 AACATTTTCAGAAGGAGTTCGTAATAATAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
75558 AAGAAGAGTT
Statistics
Matches: 268, Mismatches: 35, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
119 1 0.00
120 104 0.39
123 163 0.61
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (122 bp):
AACATTTTCAGAAGGAGTTCGTAATAATAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
TAAAGAACTTATTCAACTTTTGCTCAACTCTATCGCAGAAGGAGATAGAGCATCATC
Found at i:75576 original size:243 final size:244
Alignment explanation
Indices: 75128--75581 Score: 624
Period size: 243 Copynumber: 1.9 Consensus size: 244
75118 TCGAGGGATT
* *
75128 AACATTTTCAGAAGGAGTTCGTAATAAAAAGAAATCATTTAAAGAGGAAAAAGAAGTTCATAATC
1 AACATTTTCAGAAGGAGTCCGTAAT--AAAGAAATCATCTAAAGAGGAAAAAGAAGTTCATAATC
* * ** *
75193 TAAAGAACTTATTCAACCTTTTTCTCGACTCTATCGCAGAAGGAGATAGAGCATCATCAACATTT
64 TAAAGAACTTATTCAACATTTTGCTAAACTCTATCACAGAAGGAGATAGAGCATCATCAACATTT
** * * * * * * *
75258 TTAGAAGGAGTTCGTAATAATAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTAAAGAA
129 CCAGAAAGAGTTCATAATAAGAAGAACTCATCCGAAGAGAAAGAAAAAGTTCATAATCAAAAGAA
75323 CTTATTCAATCTTTTGCTCTACTCTATCGCAGAAGGAGATAAAGTAGCATC
194 CTTATTCAATCTTTTGCTCTACTCTATCGCAGAAGGAGATAAAGTAGCATC
* * * * * *
75374 AACATTTTCATAAGGAGTCCGTAAT-AAGAACTCATCTGAATAGGAAGAAGAAGTTCATAATCTG
1 AACATTTTCAGAAGGAGTCCGTAATAAAGAAATCATCTAAAGAGGAAAAAGAAGTTCATAATCTA
*
75438 AAGAACTTATTCAACATTTTGCTAAACTCTATCACAGAAGGAGATAGAGCATCATCAATATTTCC
66 AAGAACTTATTCAACATTTTGCTAAACTCTATCACAGAAGGAGATAGAGCATCATCAACATTTCC
* **
75503 AGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAGAGAAAGAAAAAGTTCATAAT-AAGAAGAGT
131 AGAAAGAGTTCATAATAAGAAGAACTCATCCGAAGAGAAAGAAAAAGTTCATAATCAA-AAGAAC
*
75567 TTGTTCAATCTTTTG
195 TTATTCAATCTTTTG
75582 ATAGATTCCA
Statistics
Matches: 180, Mismatches: 27, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
242 1 0.01
243 156 0.87
246 23 0.13
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (244 bp):
AACATTTTCAGAAGGAGTCCGTAATAAAGAAATCATCTAAAGAGGAAAAAGAAGTTCATAATCTA
AAGAACTTATTCAACATTTTGCTAAACTCTATCACAGAAGGAGATAGAGCATCATCAACATTTCC
AGAAAGAGTTCATAATAAGAAGAACTCATCCGAAGAGAAAGAAAAAGTTCATAATCAAAAGAACT
TATTCAATCTTTTGCTCTACTCTATCGCAGAAGGAGATAAAGTAGCATC
Found at i:75759 original size:119 final size:119
Alignment explanation
Indices: 75415--76174 Score: 872
Period size: 119 Copynumber: 6.4 Consensus size: 119
75405 TCATCTGAAT
*** * * * * * * *
75415 AGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACATTTTGCTAAACTCTATCACAGAAGGA
1 AGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGATAGATTCCATCACAGAAGGA
*
75480 GATAGAGCATCATCAATATTTCC-A-GAAAGAGTTCATAATAAGAAGAACTCGTCCG-AAG
66 GAT-G-G-ATCGTC---A-TTCCAATGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAAG
* * * * *
75538 AGAAAGAAAAAGTTCATAATAAGAAGAGTTTGTTCAATCTTTTGATAGATTCCAT--CAGAAGGA
1 AGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGATAGATTCCATCACAGAAGGA
* * * *
75601 GATGAACCATCATTCCAATGAAAGAGTTCATAATAAGAAGAAGTCGTCCGAAAG
66 GATGGATCGTCATTCCAATGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAAG
* * * *
75655 AGGAAGAATAAATTCATAATAAAAAGAGCTTGTTCAACCTTTTGCTAGATTCCATCACAGAATGA
1 AGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGATAGATTCCATCACAGAAGGA
*
75720 GATGGATCGTCATTCCAATGAAAGAGTTCATAATAAGAAGAACTCATCCG-AAG
66 GATGGATCGTCATTCCAATGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAAG
*
75773 AGGAAGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACCTTTTGATAGATTCCATCACAGAAGGA
1 AGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGATAGATTCCATCACAGAAGGA
* * * *
75838 GATGGATCGTCATTCCAATGGAAGAGTTCATAATAAAAAGAACTTGTCCAAAAG
66 GATGGATCGTCATTCCAATGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAAG
*
75892 AGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTTAACCTTTTGATAGATTCCATCACAGAAGGA
1 AGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGATAGATTCCATCACAGAAGGA
* *
75957 GAT-GAGTCGTCATTCCAGTGGAAGAGTTCATAATAAGAAGAACTCGTCCGAAAG
66 GATGGA-TCGTCATTCCAATGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAAG
* * * *
76011 AGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGTTGGATTCCATCACTGAAAGA
1 AGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGATAGATTCCATCACAGAAGGA
* ** * * * * * * *
76076 AATAAATCATCATTCTCAGTG-GAGAGTTTATAATGAGAAAAACTCATCC-AAAG
66 GATGGATCGTCATTC-CAATGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAAG
* * * * * *
76129 AAGAAGAATAAGAAGTTCATAATGAGAAGAACTTGTGCAACATTTT
1 -AG--GAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTT
76175 TGTCTTAATC
Statistics
Matches: 561, Mismatches: 64, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
114 4 0.01
115 2 0.00
116 30 0.05
117 51 0.09
118 119 0.21
119 260 0.46
120 7 0.01
121 46 0.08
123 42 0.07
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.25
Consensus pattern (119 bp):
AGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGATAGATTCCATCACAGAAGGA
GATGGATCGTCATTCCAATGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAAG
Found at i:75935 original size:237 final size:237
Alignment explanation
Indices: 75504--76174 Score: 884
Period size: 237 Copynumber: 2.8 Consensus size: 237
75494 AATATTTCCA
* * *
75504 GAAAGAGTTCATAATAAGAAGAACTCGTCCGAAGAGAAAGAAAAAGTTCATAATAAGAAGAGTTT
1 GAAAGAGTTCATAATAAGAAGAACTCGTCCGAAGAGGAAGAAGAAGTTCATAATAAGAAGAGCTT
*
75569 GTTCAATCTTTTGATAGATTCCAT--CAGAAGGAGATGAACCATCATTCCAATGAAAGAGTTCAT
66 GTTCAACCTTTTGATAGATTCCATCACAGAAGGAGATGAACCATCATTCCAATGAAAGAGTTCAT
* * * *
75632 AATAAGAAGAAGTCGTCCGAAAGAGGAAGAATAAATTCATAATAAAAAGAGCTTGTTCAACCTTT
131 AATAAAAAGAACTCGTCCAAAAGAGGAAGAAGAAATTCATAATAAAAAGAGCTTGTTCAACCTTT
* *
75697 TGCTAGATTCCATCACAGAATGAGATG-GATCGTCATTCCAAT
196 TGATAGATTCCATCACAGAAGGAGATGAG-TCGTCATTCCAAT
*
75739 GAAAGAGTTCATAATAAGAAGAACTCATCCGAAGAGGAAGAAGAAGTTCATAATAAGAAGAGCTT
1 GAAAGAGTTCATAATAAGAAGAACTCGTCCGAAGAGGAAGAAGAAGTTCATAATAAGAAGAGCTT
* * * *
75804 GTTCAACCTTTTGATAGATTCCATCACAGAAGGAGATGGATCGTCATTCCAATGGAAGAGTTCAT
66 GTTCAACCTTTTGATAGATTCCATCACAGAAGGAGATGAACCATCATTCCAATGAAAGAGTTCAT
* * *
75869 AATAAAAAGAACTTGTCCAAAAGAGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTTAACCTTT
131 AATAAAAAGAACTCGTCCAAAAGAGGAAGAAGAAATTCATAATAAAAAGAGCTTGTTCAACCTTT
*
75934 TGATAGATTCCATCACAGAAGGAGATGAGTCGTCATTCCAGT
196 TGATAGATTCCATCACAGAAGGAGATGAGTCGTCATTCCAAT
* *
75976 GGAAGAGTTCATAATAAGAAGAACTCGTCCGAAAGAGGAAGAAGAAGTTCATAATAAAAAGAGCT
1 GAAAGAGTTCATAATAAGAAGAACTCGTCCG-AAGAGGAAGAAGAAGTTCATAATAAGAAGAGCT
* * * * * * * * * *
76041 TGTTCAACCTTTTGTTGGATTCCATCACTGAAAGAAATAAATCATCATTCTCAGTG-GAGAGTTT
65 TGTTCAACCTTTTGATAGATTCCATCACAGAAGGAGATGAACCATCATTC-CAATGAAAGAGTTC
* * * * * * * * *
76105 ATAATGAGAAA-AACTCATCCAAAGAAGAAGAATAAGAAGTTCATAATGAGAAGAACTTGTGCAA
129 ATAAT-AAAAAGAACTCGTCC-AA-AAGAGGAAGAAGAAATTCATAATAAAAAGAGCTTGTTCAA
*
76169 CATTTT
191 CCTTTT
76175 TGTCTTAATC
Statistics
Matches: 384, Mismatches: 44, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
235 84 0.22
237 159 0.41
238 93 0.24
239 10 0.03
240 38 0.10
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (237 bp):
GAAAGAGTTCATAATAAGAAGAACTCGTCCGAAGAGGAAGAAGAAGTTCATAATAAGAAGAGCTT
GTTCAACCTTTTGATAGATTCCATCACAGAAGGAGATGAACCATCATTCCAATGAAAGAGTTCAT
AATAAAAAGAACTCGTCCAAAAGAGGAAGAAGAAATTCATAATAAAAAGAGCTTGTTCAACCTTT
TGATAGATTCCATCACAGAAGGAGATGAGTCGTCATTCCAAT
Found at i:76054 original size:356 final size:356
Alignment explanation
Indices: 75399--76174 Score: 988
Period size: 356 Copynumber: 2.2 Consensus size: 356
75389 AGTCCGTAAT
* * ** * *
75399 AAGAACTCATCTGAATAGGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACATTTTGCTAAA
1 AAGAACTCATCCGAAGAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACATTTTGATAAA
* *
75464 CTCTATCACAGAAGGAGATAGAGCATCATCAATATTTCCAGAAAGAGTTCATAATAAGAAGAACT
66 CTCCATCACAGAAGGAGATAGAGCATCATC-A-ATTTCCAGAAAGAGTTCATAATAAAAAGAACT
* * * *
75529 CGTCCGAAGAGAAAGAAAAAGTTCATAATAAGAAGAGTTTGTTCAATCTTTTGATAGATTCCATC
129 CGTCCAAAGAGAAAGAAAAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGATAGATTCCATC
*
75594 AGAAGGAGATGAACCATCATTCCAATGAAAGAGTTCATAATAAGAAGAAGTCGTCCGAAAGAGGA
194 AGAAGGAGATGAACCATCATTCCAATGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAAGAGGA
* * * *
75659 AGAATAAATTCATAATAAAAAGAGCTTGTTCAACCTTTTGCTAGATTCCATCACAGAATGAGATG
259 AGAAGAAATTCATAATAAAAAGAGCTTGTTCAACCTTTTGCTAGATTCCATCACAGAAAGAAATA
* *
75724 GATCGTCATTC-CAATGAAAGAGTTCATAATAAG
324 AATCATCATTCTCAATG-AAGAGTTCATAATAAG
* * *
75757 AAGAACTCATCCGAAGAGGAAGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACCTTTTGATAGA
1 AAGAACTCATCCGAAGAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACATTTTGATAAA
* * *
75822 TTCCATCACAGAAGGAGAT-G-G-ATCGTC-A-TTCCAATGGAAGAGTTCATAATAAAAAGAACT
66 CTCCATCACAGAAGGAGATAGAGCATCATCAATTTCC-A-GAAAGAGTTCATAATAAAAAGAACT
* * * *
75882 TGTCCAAAAGAGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTTAACCTTTTGATAGATTCCAT
129 CGTCC-AAAGAGAAAGAAAAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGATAGATTCCAT
** * * *
75947 CACAGAAGGAGATGAGTCGTCATTCCAGTGGAAGAGTTCATAATAAGAAGAACTCGTCCGAAAGA
193 --CAGAAGGAGATGAACCATCATTCCAATGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAAGA
* * * *
76012 GGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGTTGGATTCCATCACTGAAAGAA
256 GGAAGAAGAAATTCATAATAAAAAGAGCTTGTTCAACCTTTTGCTAGATTCCATCACAGAAAGAA
* * * *
76077 ATAAATCATCATTCTCAGTGGAGAGTTTATAATGAG
321 ATAAATCATCATTCTCAATGAAGAGTTCATAATAAG
* * * * *
76113 AAAAACTCATCCAAAGAAGAAGAATAAGAAGTTCATAATGAGAAGAACTTGTGCAACATTTT
1 AAGAACTCATCC---GAAGAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACATTTT
76175 TGTCTTAATC
Statistics
Matches: 360, Mismatches: 49, Indels: 17
0.85 0.12 0.04
Matches are distributed among these distances:
351 4 0.01
352 2 0.01
353 27 0.08
354 52 0.14
355 5 0.01
356 151 0.42
357 5 0.01
358 73 0.20
359 41 0.11
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.25
Consensus pattern (356 bp):
AAGAACTCATCCGAAGAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACATTTTGATAAA
CTCCATCACAGAAGGAGATAGAGCATCATCAATTTCCAGAAAGAGTTCATAATAAAAAGAACTCG
TCCAAAGAGAAAGAAAAAGTTCATAATAAAAAGAGCTTGTTCAACCTTTTGATAGATTCCATCAG
AAGGAGATGAACCATCATTCCAATGAAAGAGTTCATAATAAGAAGAACTCGTCCGAAAGAGGAAG
AAGAAATTCATAATAAAAAGAGCTTGTTCAACCTTTTGCTAGATTCCATCACAGAAAGAAATAAA
TCATCATTCTCAATGAAGAGTTCATAATAAG
Found at i:79544 original size:41 final size:41
Alignment explanation
Indices: 79487--79568 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
79477 CTAAAGGAAA
79487 ACCGGTTTGTCTTAGTTTGAAACGAAGAATGGGGATTGGTC
1 ACCGGTTTGTCTTAGTTTGAAACGAAGAATGGGGATTGGTC
79528 ACCGGTTTGTCTTAGTTTGAAACGAAGAATGGGGATTGGTC
1 ACCGGTTTGTCTTAGTTTGAAACGAAGAATGGGGATTGGTC
79569 TTCTTTTCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (41 bp):
ACCGGTTTGTCTTAGTTTGAAACGAAGAATGGGGATTGGTC
Found at i:80326 original size:4 final size:4
Alignment explanation
Indices: 80317--80341 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
80307 TTAATTTAAT
80317 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
80342 TGAAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:80347 original size:12 final size:11
Alignment explanation
Indices: 80314--80349 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
80304 ACTTTAATTT
80314 AATAATAAATA
1 AATAATAAATA
80325 AATAAATAAATA
1 AAT-AATAAATA
80337 AATAATGAAATA
1 AATAAT-AAATA
80349 A
1 A
80350 TTATGCAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (11 bp):
AATAATAAATA
Found at i:87914 original size:21 final size:21
Alignment explanation
Indices: 87875--87914 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
87865 TCTGGGGTAT
*
87875 TCAAGATTTTACATTCAATTA
1 TCAAGATTTTACATACAATTA
87896 TCAAGATTTTA-AGTACAAT
1 TCAAGATTTTACA-TACAAT
87915 GAACCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (21 bp):
TCAAGATTTTACATACAATTA
Found at i:94760 original size:19 final size:19
Alignment explanation
Indices: 94736--94774 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
94726 TGCTTAATCC
94736 CTTCTTCTTCAGGAAATGA
1 CTTCTTCTTCAGGAAATGA
*
94755 CTTCTTCTTTAGGAAATGA
1 CTTCTTCTTCAGGAAATGA
94774 C
1 C
94775 ATTCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (19 bp):
CTTCTTCTTCAGGAAATGA
Found at i:95007 original size:3 final size:3
Alignment explanation
Indices: 95001--95057 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
94991 TTATCTTTTA
*
95001 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTA TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
95049 TTC ATTC TT
1 TTC -TTC TT
95058 TCTTTGAAGC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:101850 original size:2 final size:2
Alignment explanation
Indices: 101843--101885 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
101833 AAAACATTAA
101843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
101886 TAGTAACTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:108620 original size:27 final size:24
Alignment explanation
Indices: 108584--108634 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
108574 AATGTGTTAG
*
108584 TTTTTGTTGTTGTTGTGGTTACTAA
1 TTTTT-TTATTGTTGTGGTTACTAA
108609 TTTTTTTATTGTTGTGGTTACTAA
1 TTTTTTTATTGTTGTGGTTACTAA
108633 TT
1 TT
108635 CTATAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.14, C:0.04, G:0.20, T:0.63
Consensus pattern (24 bp):
TTTTTTTATTGTTGTGGTTACTAA
Found at i:114957 original size:7 final size:6
Alignment explanation
Indices: 114943--114981 Score: 51
Period size: 7 Copynumber: 6.0 Consensus size: 6
114933 AAAGACTAAT
114943 ATAAAA ATGAAAA ATAAAAA ATAAAAA ATAAAA ATAAAA
1 ATAAAA AT-AAAA AT-AAAA AT-AAAA ATAAAA ATAAAA
114982 GGAAAAGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:114962 original size:14 final size:14
Alignment explanation
Indices: 114940--114981 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
114930 AATAAAGACT
*
114940 AATATAAAAATGAAA
1 AATA-AAAAATAAAA
114955 AATAAAAAATAAAA
1 AATAAAAAATAAAA
114969 AAT-AAAAATAAAA
1 AATAAAAAATAAAA
114982 GGAAAAGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 10 0.38
14 12 0.46
15 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (14 bp):
AATAAAAAATAAAA
Found at i:114966 original size:20 final size:20
Alignment explanation
Indices: 114940--114981 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
114930 AATAAAGACT
114940 AATATAAAAATGAAAAATAAAA
1 AATA-AAAAAT-AAAAATAAAA
114962 AATAAAAAATAAAAATAAAA
1 AATAAAAAATAAAAATAAAA
114982 GGAAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
21 6 0.30
22 4 0.20
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (20 bp):
AATAAAAAATAAAAATAAAA
Found at i:125612 original size:21 final size:21
Alignment explanation
Indices: 125587--125630 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
125577 TCTGCTTACG
125587 GGTTCACTCCCTCTTGCTTCA
1 GGTTCACTCCCTCTTGCTTCA
*
125608 GGTTCATTCCCTCTTGCTTCA
1 GGTTCACTCCCTCTTGCTTCA
125629 GG
1 GG
125631 GAGTAGAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.34, G:0.18, T:0.39
Consensus pattern (21 bp):
GGTTCACTCCCTCTTGCTTCA
Found at i:125655 original size:74 final size:74
Alignment explanation
Indices: 125541--125683 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 74
125531 ATGGGTTCTC
**
125541 TCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTTACGGGTTCACTCCCTCTTGCTT
1 TCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCCCACGGGTTCACTCCCTCTTGCTT
125606 CAGGTTCAT
66 CAGGTTCAT
* * *
125615 TCCCTCTTGCTTCAGGGAGTAGAACTCG-ATCATTCTTCTGCCCACGGGTTCATTCCCTCTTGCT
1 TCCCTATTGCTTCAGGGAGTAGAACTCGAAT-AATCTTCTGCCCACGGGTTCACTCCCTCTTGCT
125679 TCAGG
65 TCAGG
125684 GAGTAGAACT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 2 0.03
74 61 0.97
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (74 bp):
TCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCCCACGGGTTCACTCCCTCTTGCTT
CAGGTTCAT
Found at i:125688 original size:53 final size:53
Alignment explanation
Indices: 125608--125760 Score: 270
Period size: 53 Copynumber: 2.9 Consensus size: 53
125598 TCTTGCTTCA
* *
125608 GGTTCATTCCCTCTTGCTTCAGGGAGTAGAACTCGATCATTCTTCTGCCCACG
1 GGTTCATTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCCACG
*
125661 GGTTCATTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACG
1 GGTTCATTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCCACG
*
125714 GGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
1 GGTTCATTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
125761 GTGTGATTCT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 96 1.00
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.31
Consensus pattern (53 bp):
GGTTCATTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCCACG
Found at i:126306 original size:42 final size:42
Alignment explanation
Indices: 126260--126610 Score: 168
Period size: 42 Copynumber: 8.2 Consensus size: 42
126250 CTTACAAATT
*
126260 ACCCGAAGGATTTAATCATCTTGCTCGAAAGACTTACTGATG
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
* * *
126302 ACCCGAAGGACTTCATCATCATGTTCGAAAGACTTACTGAT-
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
* * * ** *
126343 ----G--GG-TTTACTTCA-CTACT-CTTCCATAAAGGCTTACAAATT
1 ACCCGAAGGATTTA-ATCATC-A-TGC-T-C-GAAAGACTTACTGATG
* * * *
126382 TCTCGAAGGATTTAATCATCATGCTTGAAAGACTTATTGATG
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
* * *
126424 GCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGG
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGAT-G
* * * ** * * ** *
126467 CACTTACTGATGGGTTTGCTTCA-CTACT-CTTTCGTGAAGGCTTACAAATT
1 -AC---CCGAAGGATTT-AATCATC-A-TGC--TCG-AAAGACTTACTGATG
*
126517 ACCCTAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
* * * *
126559 GCCCTAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATG
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
*
126601 GCCCGAAGGA
1 ACCCGAAGGA
126611 CTTACTAAGT
Statistics
Matches: 228, Mismatches: 52, Indels: 58
0.67 0.15 0.17
Matches are distributed among these distances:
34 3 0.01
35 6 0.03
36 2 0.01
37 2 0.01
38 11 0.05
42 140 0.61
43 5 0.02
44 4 0.02
45 12 0.05
46 13 0.06
47 8 0.04
48 6 0.03
49 3 0.01
50 3 0.01
51 10 0.04
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (42 bp):
ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
Found at i:126319 original size:122 final size:121
Alignment explanation
Indices: 126115--126601 Score: 546
Period size: 122 Copynumber: 3.9 Consensus size: 121
126105 TTGCTCTAAC
* ** * * **
126115 ACTCTTCCGAGAAGGCTTA-AAATGGCCCGAAGGACTT-ATCATCTTGCTCGAAAGACTTACAAA
1 ACTCTT-CGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
* * *
126178 TGACCCAAAAGATTTCATCATCATGCTCGAAAGACTTACTGATGGATTTGCTTCACT
65 TGACCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGATTTGCTTCACT
* *
126235 AGTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCTTGCTCGAAAGACTTACTGA
1 ACTCTTC-GTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
* * *
126300 TGACCCGAAGGACTTCATCATCATGTTCGAAAGACTTACTGATGGGTTTACTTCACT
65 TGACCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGATTTGCTTCACT
* * * * * *
126357 ACTCTTCCATAAAGGCTTACAAATTTCTCGAAGGATTTAATCATCATGCTTGAAAGACTTATTGA
1 ACTCTT-CGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
*
126422 TGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCT
65 TGACCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGAT-G--------GA----TTTGCT
126487 TCACT
117 TCACT
*
126492 ACTCTTTCGTGAAGGCTTACAAATTACCCTAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
1 ACTC-TTCGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
* * * * * *
126557 TGGCCCTAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGG
65 TGACCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGG
126602 CCCGAAGGAC
Statistics
Matches: 312, Mismatches: 37, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
119 1 0.00
120 15 0.05
121 15 0.05
122 171 0.55
123 2 0.01
126 1 0.00
131 1 0.00
134 1 0.00
135 103 0.33
136 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (121 bp):
ACTCTTCGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGAT
GACCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGATTTGCTTCACT
Found at i:126457 original size:22 final size:21
Alignment explanation
Indices: 126396--126459 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
126386 GAAGGATTTA
*
126396 ATCATCATGCTTGAAAGACTT
1 ATCATCATGCTCGAAAGACTT
* * *
126417 AT--TGATGGCCCGAAGGACTT
1 ATCATCAT-GCTCGAAAGACTT
126437 CATCATCATGCTCGAAAGACTT
1 -ATCATCATGCTCGAAAGACTT
126459 A
1 A
126460 CTGATGGCAC
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
19 3 0.09
20 10 0.31
21 5 0.16
22 11 0.34
23 3 0.09
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (21 bp):
ATCATCATGCTCGAAAGACTT
Found at i:126473 original size:13 final size:13
Alignment explanation
Indices: 126455--126479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
126445 TGCTCGAAAG
126455 ACTTACTGATGGC
1 ACTTACTGATGGC
126468 ACTTACTGATGG
1 ACTTACTGATGG
126480 GTTTGCTTCA
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:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:126579 original size:135 final size:135
Alignment explanation
Indices: 126333--126602 Score: 414
Period size: 135 Copynumber: 2.0 Consensus size: 135
126323 TGTTCGAAAG
* *
126333 ACTTACTGATGGGTTTACTTCACTACTCTTCCATAAAGGCTTACAAATTTCTCGAAGGATTTAAT
1 ACTTACTGATGGGTTTACTTCACTACTCTTCCATAAAGGCTTACAAATTACCCGAAGGATTTAAT
* * * *
126398 CATCATGCTTGAAAGACTTATTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTG
66 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACTG
126463 ATGGC
131 ATGGC
* * * * *
126468 ACTTACTGATGGGTTTGCTTCACTACTCTTTCGTGAAGGCTTACAAATTACCCTAAGGATTTAAT
1 ACTTACTGATGGGTTTACTTCACTACTCTTCCATAAAGGCTTACAAATTACCCGAAGGATTTAAT
* * *
126533 CATCATGCTCGAAAGACTTACTGATGGCCCTAAGGATTTAAGCATCATGCTCGAAAGACTTATTG
66 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACTG
126598 ATGGC
131 ATGGC
126603 CCGAAGGACT
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
135 121 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (135 bp):
ACTTACTGATGGGTTTACTTCACTACTCTTCCATAAAGGCTTACAAATTACCCGAAGGATTTAAT
CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACTG
ATGGC
Found at i:132848 original size:6 final size:6
Alignment explanation
Indices: 132839--132886 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
132829 TGCGAATAAG
*
132839 AATGCA AATGCG AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA
1 AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA
132887 CAAGGTGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.17
Consensus pattern (6 bp):
AATGCA
Found at i:135448 original size:14 final size:14
Alignment explanation
Indices: 135429--135459 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
135419 TTTTTAAACT
*
135429 AAAATAATAATAAA
1 AAAATAAAAATAAA
135443 AAAATAAAAATAAA
1 AAAATAAAAATAAA
135457 AAA
1 AAA
135460 CCTCATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:135893 original size:17 final size:18
Alignment explanation
Indices: 135866--135902 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
135856 TTACTAAGAT
135866 ATATATAAACTAAACCTA
1 ATATATAAACTAAACCTA
*
135884 ATAT-TAAACTAATCCTA
1 ATATATAAACTAAACCTA
135901 AT
1 AT
135903 CTACTTCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (18 bp):
ATATATAAACTAAACCTA
Found at i:136994 original size:19 final size:19
Alignment explanation
Indices: 136970--137006 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
136960 ATGACCAACA
*
136970 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
136989 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
137007 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:137097 original size:21 final size:21
Alignment explanation
Indices: 137051--137104 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
137041 GATTTTGACT
137051 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTCCAAA
* * *
137072 TTCGCGTTGCGA-TTTCAGAAA
1 ATCGCATTGCGATTTTC-CAAA
*
137093 ATCGCAATGCGA
1 ATCGCATTGCGA
137105 ATATGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (21 bp):
ATCGCATTGCGATTTTCCAAA
Found at i:137136 original size:20 final size:20
Alignment explanation
Indices: 137113--137162 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
137103 GAATATGTAA
*
137113 ATCGTAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
137133 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
137153 GTTGCAACGC
1 ATCGCAACGC
137163 TGAATTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:138032 original size:24 final size:24
Alignment explanation
Indices: 137975--138034 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
137965 TAGTTAGTAT
137975 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* *
137999 -CCAGACTTTGATCTTGGTCAATAC
1 TCGA-AATTTGATCTTGGTCAATAC
*
138023 TCGAATTTTGAT
1 TCGAAATTTGAT
138035 GATGTTTCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.07
24 26 0.87
25 2 0.07
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:140606 original size:140 final size:140
Alignment explanation
Indices: 140354--140636 Score: 512
Period size: 140 Copynumber: 2.0 Consensus size: 140
140344 GCAAACATTG
140354 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGT
* * *
140419 TTGAACATTGTTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGCTGTTATCACTTATTACACATTCATTTGAATATCACAACG
140484 CGAATTTGAC
131 CGAATTTGAC
* *
140494 TATTATTTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTATTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGT
*
140559 TTGAACATTGCTATGATCTGTTCAGCTGTTATCACTTATTACACATTCATTTGACTATCACAACG
66 TTGAACATTGCTATGATCTGTTCAGCTGTTATCACTTATTACACATTCATTTGAATATCACAACG
140624 CGAATTTGAC
131 CGAATTTGAC
140634 TAT
1 TAT
140637 CGCAACGCAA
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAATAACTTGAGT
TTGAACATTGCTATGATCTGTTCAGCTGTTATCACTTATTACACATTCATTTGAATATCACAACG
CGAATTTGAC
Found at i:140690 original size:54 final size:54
Alignment explanation
Indices: 140607--140753 Score: 224
Period size: 54 Copynumber: 2.7 Consensus size: 54
140597 TTACACATTC
* *
140607 ATTTGACTATCACAACGCGAATTTGACTATCGCAACGCAAAAATCACAACATGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCACAACACGA
* * * * *
140661 ATTTGACTATTGCAACGTGAATTTTACTATCGCAACGCAAAAATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCACAACACGA
140715 A-TTGACTATCGCAACGCGAATTTGACTATCGCAACGCAA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAA
140754 TTTGACTATC
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 35 0.42
54 48 0.58
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (54 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCACAACACGA
Found at i:140727 original size:19 final size:20
Alignment explanation
Indices: 140703--140775 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 20
140693 CAACGCAAAA
140703 ATCGCAACGCGAA-TTGACT
1 ATCGCAACGCGAATTTGACT
140722 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
140742 ATCGCAACGC-AATTTGACT
1 ATCGCAACGCGAATTTGACT
*
140761 ATCGCAACGTGAATT
1 ATCGCAACGCGAATT
140776 GATTATCGGG
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
19 31 0.61
20 20 0.39
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:140743 original size:53 final size:53
Alignment explanation
Indices: 140609--140850 Score: 223
Period size: 54 Copynumber: 4.6 Consensus size: 53
140599 ACACATTCAT
* * **
140609 TTGACTATCACAACGCGAATTTGACTATCGCAACGCAAAAATCACAACATGAA
1 TTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCGAA
* * *
140662 TTTGACTATTGCAACGTGAATTTTACTATCGCAACGCAAAAATCGCAACGCGAA
1 -TTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCGAA
* *
140716 TTGACTATCGCAACGCGAATTTGACTATCGCAACGCAATTTGACTATCGCAACGTGAA
1 TTGACTATCGCAACGCGAATTTGACTATCGCAACGCAA----A-AATCGCAACGCGAA
* ** *
140774 TTGATTATCG----G-G--TTTGACTATCGCAACG-AGAAAATCGCAAATCGTA
1 TTGACTATCGCAACGCGAATTTGACTATCGCAACGCA-AAAATCGCAACGCGAA
*
140820 TTAGACTATCGCAACGCGAA-TTGACTTTCGC
1 TT-GACTATCGCAACGCGAATTTGACTATCGC
140851 GTTATGATTT
Statistics
Matches: 154, Mismatches: 20, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
46 11 0.07
47 8 0.05
50 1 0.01
51 18 0.12
52 1 0.01
53 46 0.30
54 47 0.31
57 1 0.01
58 21 0.14
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (53 bp):
TTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCGAA
Found at i:140783 original size:19 final size:20
Alignment explanation
Indices: 140607--140775 Score: 150
Period size: 20 Copynumber: 9.2 Consensus size: 20
140597 TTACACATTC
*
140607 ATTTGACTATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
140627 ATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* * **
140646 A----A-AATCACAACATGA
1 ATTTGACTATCGCAACGCGA
* *
140661 ATTTGACTATTGCAACGTGA
1 ATTTGACTATCGCAACGCGA
*
140681 ATTTTACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
*
140700 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
140715 A-TTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
140734 ATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
*
140753 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
140773 ATT
1 ATT
140776 GATTATCGGG
Statistics
Matches: 121, Mismatches: 15, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
14 17 0.14
15 6 0.05
18 1 0.01
19 36 0.30
20 61 0.50
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:140880 original size:20 final size:19
Alignment explanation
Indices: 140856--140902 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
140846 TTCGCGTTAT
*
140856 GATTTTGGCTTTCGCATTGC
1 GATTTTGACTTTCG-ATTGC
*
140876 TATTTTGACTTTCGATTGC
1 GATTTTGACTTTCGATTGC
140895 GATTTTGA
1 GATTTTGA
140903 GTTTAGCGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.49
Consensus pattern (19 bp):
GATTTTGACTTTCGATTGC
Found at i:140899 original size:19 final size:20
Alignment explanation
Indices: 140840--140916 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
140830 GCAACGCGAA
* **
140840 TTGACTTTCGCGTTATGATT
1 TTGACTTTCGCATTGCGATT
* *
140860 TTGGCTTTCGCATTGCTATT
1 TTGACTTTCGCATTGCGATT
140880 TTGACTTTCG-ATTGCGATT
1 TTGACTTTCGCATTGCGATT
* * *
140899 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
140917 AAGTGTACCT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
19 16 0.35
20 30 0.65
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.47
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:142466 original size:21 final size:21
Alignment explanation
Indices: 142406--142523 Score: 110
Period size: 21 Copynumber: 5.6 Consensus size: 21
142396 GTGAATCGGG
* * *
142406 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGATGGGAGGGGC
* **
142427 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* *
142448 CTTTTGAACGATGGGAGGGGA
1 CTCTTGAACGATGGGAGGGGC
** **
142469 CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* *
142490 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGATGGGAGGGGC
142511 CTCTTGAACGATG
1 CTCTTGAACGATG
142524 ACAGGTGAGT
Statistics
Matches: 73, Mismatches: 24, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 73 1.00
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:142473 original size:42 final size:42
Alignment explanation
Indices: 142406--142528 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 42
142396 GTGAATCGGG
* * *
142406 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGATGGGAGGGGA-CTCTTGAACGATGACAGGGGC
* ** *
142448 CTTTTGAACGATGGGAGGGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGATGGGAGGGGACTCTTGAACGATGACAGGGGC
* * *
142490 CTCTTGAACGATAGGAGAGGCCTCTTGAACGATGACAGG
1 CTCTTGAACGATGGGAGGGGACTCTTGAACGATGACAGG
142529 TGAGTCAGGC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGATGGGAGGGGACTCTTGAACGATGACAGGGGC
Found at i:143028 original size:20 final size:20
Alignment explanation
Indices: 143003--143046 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
142993 AATAGTTTTT
*
143003 GAAACTTAAAATTGCAACAC
1 GAAACTTAAAATCGCAACAC
*
143023 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
143043 GAAA
1 GAAA
143047 ATGACTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.20, G:0.14, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:143059 original size:20 final size:19
Alignment explanation
Indices: 143033--143085 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
143023 GAAACTTAAA
143033 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAA-GACT
* *
143053 ATTGCAACACGGAAAAGACT
1 ATCGCAACGC-GAAAAGACT
143073 ATCGCAACGCGAA
1 ATCGCAACGCGAA
143086 TTTAACTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.11
20 20 0.71
21 5 0.18
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAAAGACT
Found at i:145397 original size:810 final size:809
Alignment explanation
Indices: 143801--145420 Score: 2963
Period size: 810 Copynumber: 2.0 Consensus size: 809
143791 TCAGCCTGTA
*
143801 ATGGAGTGTTGGCCTCCTAACAATATAAAAGCTCAAAAAAGTTAAACGTGTACTAGTAATAACTT
1 ATGGAGTGTTGGCCTCCTAAAAATATAAAAGCTCAAAAAAGTTAAACGTGTACTAGTAATAACTT
* *
143866 GTTTATATTTGGTAGTATTTGTGTTAACTTACATCATTTATTGTCGTATACCGTAGTAACTCTTC
66 GTTTATATATGGTAGTATATGTGTTAACTTACATCATTTATTGTCGTATACCGTAGTAACTCTTC
*
143931 CCAAATCAACAGTCGTCGTTTCCTCTTCCAGTAAATAGCTCTAGGAATATCATTTGAAGTTTTTA
131 CCAAATCAACAGTCGTCGTTTCCTCTTCCAGGAAATAGCTCTAGGAATATCATTTGAAGTTTTTA
* *
143996 ATGCATATGTCTGCATGTCGGGAAAATCCTCAAATATCCAAATCTACAAACAATATAATACACAA
196 ATGCATATGTATGCATGTCGGGAAAAGCCTCAAATATCCAAATCTACAAACAATATAATACACAA
* *
144061 ACATTAGTAATTGTTAAATAATTAATTTTAATTTTGGAAACATTATATAGAAATTCTTACCTTAA
261 ACATTAGTAATTATTAAATAATTAATTATAATTTTGGAAACATTATATAGAAATTCTTACCTTAA
* *
144126 AGGCTCAAATAAAGCCTGACAAAGTGTATTTGGAACCATCGACATGCAAACTTTTGCGGTCATCA
326 AGGCCCAAATAAAGCCTGACAAAGTGTATTTGGAACCATCGACACGCAAACTTTTGCGGTCATCA
* ** *
144191 AAGGTAGGTGACAACTTATTCCAGGTAGCTTTCCATAGATACGAACCCCACAGAAATAGGTTCCA
391 AAGGCAGACGACAACTTATTCCAGGTAGCTTTCCATAGATAAGAACCCCACAGAAATAGGTTCCA
*
144256 TGCATTTAGGTCTTCTACCAATAATATTAGGTCCTTAGGAATAGGTTGTCTAGCCTCTCTGCCTA
456 TGCATTTAGGTCTTCTACCAATAATATTAGGTCATTAGGAATAGGTTGTCTAGCCTCTCTGCCTA
* *
144321 AAAAGCCGGCATGCAAAAGTACTAAAAAGCATACTCGGACAACATCGACGTCATCCATCCGAGTG
521 AAAAACCGGCATGCAAAAGTACTAAAAAGCATACTCGGACAACATCGACGTCATCCATCCGAGTA
* *
144386 AAACCATCTTTCTTATTCAATAATCTCGTCAAGTCGTCGACGTGTAAATTCGGCTTCTCCATTGA
586 AAACCATATTTCTTATTCAATAATCTCGTCAAGTCGTCGACGTGTAAATTCGACTTCTCCATTGA
144451 CAGCTCAGGAAAAACCCGGGATAACCATGATGAGCGGATAATATGACTAGTGTATCGACCTACAT
651 CAGCTCAGGAAAAACCCGGGATAACCATGATGAGCGGATAATATGACTAGTGTATCGACCTACAT
*
144516 CATCGTTTCTGAAGCGTAGACCAGTGATTAAGCAAAACTCCTCCCGCCCAAAACACGTATACGCC
716 CATCGTTTCCGAAGCGTAGACCAGTGATTAAGCAAAACTCCTCCCGCCCAAAACACGTATACGCC
144581 GATGGAAAATGAAACCATATCTCTTCATT
781 GATGGAAAATGAAACCATATCTCTTCATT
144610 ATGGAGTGTTGGCCTCCTAAAAATATAAAAGCTCAAACAAAGTTAAACGTGTACTAGTAATAACT
1 ATGGAGTGTTGGCCTCCTAAAAATATAAAAGCTCAAA-AAAGTTAAACGTGTACTAGTAATAACT
144675 TGTTTATATATGGTAGTATATGTGTTAACTTACATCATTTATTGTCGTATACCGTAGTAACTCTT
65 TGTTTATATATGGTAGTATATGTGTTAACTTACATCATTTATTGTCGTATACCGTAGTAACTCTT
*
144740 CCCAAATCAACAGTTGTCGTTTCCTCTTCCAGGAAATAGCTCTAGGAATATCATTTGAAGTTTTT
130 CCCAAATCAACAGTCGTCGTTTCCTCTTCCAGGAAATAGCTCTAGGAATATCATTTGAAGTTTTT
144805 AATGCATATGTATGCATGTCGGGAAAAGCCTCAAATATCCAAATCTACAAACAATATAATACACA
195 AATGCATATGTATGCATGTCGGGAAAAGCCTCAAATATCCAAATCTACAAACAATATAATACACA
*
144870 AACATTAGTAATTATTAAATAATTAATTATAATTTTGGAAATATTATATAGAAATTCTTACCTTA
260 AACATTAGTAATTATTAAATAATTAATTATAATTTTGGAAACATTATATAGAAATTCTTACCTTA
*
144935 AAGGCCCAAATAAAGCCTGACAAAGTGTATTTGGAACCATCGCCACGCAAACTTTTGCGGTCATC
325 AAGGCCCAAATAAAGCCTGACAAAGTGTATTTGGAACCATCGACACGCAAACTTTTGCGGTCATC
*
145000 AAAGGCAGACGACAACTTATTCCAGGTAGCTTTCCATAGATAAGAACCCCACGGAAATAGGTTCC
390 AAAGGCAGACGACAACTTATTCCAGGTAGCTTTCCATAGATAAGAACCCCACAGAAATAGGTTCC
*
145065 ATGCATTTAGGT-TCTCTACCAATAATATTAGGTCATTAGGAATAGGTTGTCTGGCCTCTCTGCC
455 ATGCATTTAGGTCT-TCTACCAATAATATTAGGTCATTAGGAATAGGTTGTCTAGCCTCTCTGCC
*
145129 TAAAAAACCGGCATGCAAAAGTACTAAAAGGCATACTCGGACAACATCGACGTCATCCATCCGAG
519 TAAAAAACCGGCATGCAAAAGTACTAAAAAGCATACTCGGACAACATCGACGTCATCCATCCGAG
145194 TAAAACCATATTTCTTATTCAATAATCTCGTCAAGTCGTCGACGTGTAAATTCGACTTCTCCATT
584 TAAAACCATATTTCTTATTCAATAATCTCGTCAAGTCGTCGACGTGTAAATTCGACTTCTCCATT
* *
145259 GACAGCTCAGGAAAAACCCGGGATAACCATGATGGGCGGGTAATATGACTAGTGTATCGACCTAC
649 GACAGCTCAGGAAAAACCCGGGATAACCATGATGAGCGGATAATATGACTAGTGTATCGACCTAC
145324 ATCATCGTTTCCGAAGCGTAGACCAGTGATTAAGCAAAACTCCTCCCGCCCAAAACACGTATACG
714 ATCATCGTTTCCGAAGCGTAGACCAGTGATTAAGCAAAACTCCTCCCGCCCAAAACACGTATACG
145389 CCGATGGAAAATGAAACCATATCTCTTCATT
779 CCGATGGAAAATGAAACCATATCTCTTCATT
145420 A
1 A
145421 CCACGTTTTA
Statistics
Matches: 781, Mismatches: 28, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
809 37 0.05
810 744 0.95
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (809 bp):
ATGGAGTGTTGGCCTCCTAAAAATATAAAAGCTCAAAAAAGTTAAACGTGTACTAGTAATAACTT
GTTTATATATGGTAGTATATGTGTTAACTTACATCATTTATTGTCGTATACCGTAGTAACTCTTC
CCAAATCAACAGTCGTCGTTTCCTCTTCCAGGAAATAGCTCTAGGAATATCATTTGAAGTTTTTA
ATGCATATGTATGCATGTCGGGAAAAGCCTCAAATATCCAAATCTACAAACAATATAATACACAA
ACATTAGTAATTATTAAATAATTAATTATAATTTTGGAAACATTATATAGAAATTCTTACCTTAA
AGGCCCAAATAAAGCCTGACAAAGTGTATTTGGAACCATCGACACGCAAACTTTTGCGGTCATCA
AAGGCAGACGACAACTTATTCCAGGTAGCTTTCCATAGATAAGAACCCCACAGAAATAGGTTCCA
TGCATTTAGGTCTTCTACCAATAATATTAGGTCATTAGGAATAGGTTGTCTAGCCTCTCTGCCTA
AAAAACCGGCATGCAAAAGTACTAAAAAGCATACTCGGACAACATCGACGTCATCCATCCGAGTA
AAACCATATTTCTTATTCAATAATCTCGTCAAGTCGTCGACGTGTAAATTCGACTTCTCCATTGA
CAGCTCAGGAAAAACCCGGGATAACCATGATGAGCGGATAATATGACTAGTGTATCGACCTACAT
CATCGTTTCCGAAGCGTAGACCAGTGATTAAGCAAAACTCCTCCCGCCCAAAACACGTATACGCC
GATGGAAAATGAAACCATATCTCTTCATT
Found at i:145870 original size:20 final size:20
Alignment explanation
Indices: 145847--145902 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
145837 TCTGAAACTT
145847 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
145867 AAAATCGTAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
145887 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
145903 TTTGACTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:145947 original size:19 final size:19
Alignment explanation
Indices: 145923--145966 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
145913 GCAACGAGAT
*
145923 AATCGCAACTCGAAA-TAAA
1 AATCGCAACGCGAAACT-AA
145942 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
145961 AATCGC
1 AATCGC
145967 GTTGCGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.48, C:0.25, G:0.14, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:146383 original size:22 final size:22
Alignment explanation
Indices: 146356--146428 Score: 128
Period size: 22 Copynumber: 3.3 Consensus size: 22
146346 GATGGAGATA
*
146356 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
146378 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
*
146400 GACGGATTTCGTCGAAGATGGG
1 GACGGATTTCGTCGGAGATGGG
146422 GACGGAT
1 GACGGAT
146429 GTCACCGTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.21, C:0.15, G:0.44, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:146627 original size:20 final size:20
Alignment explanation
Indices: 146604--146667 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
146594 TATCGCAACA
*
146604 CGATAGTCAGAATCGCGTTG
1 CGATAGTCAAAATCGCGTTG
**
146624 CGATTATGT-ATTATCGCGTTG
1 CGA-TA-GTCAAAATCGCGTTG
*
146645 CGATAGTCAAAATCGTGTTG
1 CGATAGTCAAAATCGCGTTG
146665 CGA
1 CGA
146668 ATCTGGAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 2 0.06
20 17 0.47
21 15 0.42
22 2 0.06
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (20 bp):
CGATAGTCAAAATCGCGTTG
Found at i:146634 original size:41 final size:41
Alignment explanation
Indices: 146571--146667 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 41
146561 TGGCGCTTTG
* *
146571 AAAATCGCATTGCGATTTTGTATTATCGCAACACGATAGTC
1 AAAATCGCGTTGCGATTATGTATTATCGCAACACGATAGTC
* ****
146612 AGAATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTC
1 AAAATCGCGTTGCGATTATGTATTATCGCAACACGATAGTC
*
146653 AAAATCGTGTTGCGA
1 AAAATCGCGTTGCGA
146668 ATCTGGAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (41 bp):
AAAATCGCGTTGCGATTATGTATTATCGCAACACGATAGTC
Found at i:146705 original size:20 final size:19
Alignment explanation
Indices: 146682--146727 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
146672 GGAAACTGAT
* *
146682 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
146702 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
146721 TTGCGAT
1 TTGCGAT
146728 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:146717 original size:19 final size:19
Alignment explanation
Indices: 146693--146729 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
146683 TGCGATACTG
*
146693 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
146712 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
146730 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:147454 original size:21 final size:22
Alignment explanation
Indices: 147421--147469 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
147411 ATATGCTCAC
147421 TAAT-TTTCTAAATTGACCATT
1 TAATATTTCTAAATTGACCATT
* *
147442 TAATATTTC-AAATTGTCCTTT
1 TAATATTTCTAAATTGACCATT
147463 TAA-ATTT
1 TAATATTT
147470 TTTAATTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (22 bp):
TAATATTTCTAAATTGACCATT
Found at i:148515 original size:16 final size:17
Alignment explanation
Indices: 148475--148517 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
148465 AAATTTAATG
148475 TGTTATTGTGACTAAAT
1 TGTTATTGTGACTAAAT
* *
148492 TGTT-TTGTTAC-AATT
1 TGTTATTGTGACTAAAT
148507 TGTTATTGTGA
1 TGTTATTGTGA
148518 AAGAATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 7 0.32
16 11 0.50
17 4 0.18
ACGTcount: A:0.23, C:0.05, G:0.19, T:0.53
Consensus pattern (17 bp):
TGTTATTGTGACTAAAT
Found at i:148709 original size:198 final size:194
Alignment explanation
Indices: 148287--148952 Score: 757
Period size: 198 Copynumber: 3.4 Consensus size: 194
148277 CTTTTTACTT
* * *
148287 TGACTAAATAATTTTGTTACAATTTGTTATTGTGAAAGAATATTATTT-TCACGATTTTTTATAA
1 TGACTAAATAAATTTGTTACAATTTGTTATTGTGAAAGAATATTATTTGTCAC-AATTTTTATAT
* *
148351 TGAGAAATTAATA-TTGTTATAAATTGTTATTTTTATTAAATAAATTTATCACAATTTTTTATTT
65 TGAGAAATTAATATTTGTTATAAA-TATTA-TTTTATTAAATAAATTTATCAAAATTTTTTATTT
* * * * * *
148415 TGACAAAATATTATGACGAAATAAATTTGACATAACTTTTTACTTTGGCTAAATTTAATGTGTTA
128 TGAAAAAATATTGTGACAAAATAAATTTGACATAAATTTTTA-TTTGACTAAATTTAATATGTTA
148480 TTG
192 TTG
*** *
148483 TGACTAAATTGTTTTGTTACAATTTGTTATTGTGAAAGAATATTATCTGTCACAATTTTTATATT
1 TGACTAAATAAATTTGTTACAATTTGTTATTGTGAAAGAATATTATTTGTCACAATTTTTATATT
* * * * *
148548 GAGGAATTAATATTTTTTATAAAGTATTATTTTGATTAAATAAATTTGTTATAATTTTTTATTTT
66 GAGAAATTAATATTTGTTATAAA-TATTATTTT-ATTAAATAAATTTATCAAAATTTTTTATTTT
* *
148613 GAAAAAAATATTGTAACAAAATAAATTTGACATAAATTTTTATTTTGACTAAATTTACTATGTTA
129 G-AAAAAATATTGTGACAAAATAAATTTGACATAAATTTTTA-TTTGACTAAATTTAATATGTTA
148678 TTG
192 TTG
* ** * **
148681 TAAAAAAATAAATTTGTTACACTTTGTTATTGTGAAAGAATATTATTTGTCGTAATTTTTTATAT
1 TGACTAAATAAATTTGTTACAATTTGTTATTGTGAAAGAATATTATTTGTCACAA-TTTTTATAT
* * * * * * *
148746 TGAGGAATTAATATTTGCTAT-AA-A-T-TGTTATT--AT-CA---CTCAAAAGTTGTTATTTTG
65 TGAGAAATTAATATTTGTTATAAATATTATTTTATTAAATAAATTTATCAAAATTTTTTATTTTG
* * *
148801 AGAAAATATTGTGACAAAATAAATTTAACATAAATTTTTATTTGAC-AAAATTAATATGTTATTG
130 AAAAAATATTGTGACAAAATAAATTTGACATAAATTTTTATTTGACTAAATTTAATATGTTATTG
* * *
148865 TGACTAAATAAATTTGTTATAA-TTGATTATTGTGAAAAAATATTATTTGTCATAAATTTTTATA
1 TGACTAAATAAATTTGTTACAATTTG-TTATTGTGAAAGAATATTATTTGTCA-CAATTTTTATA
*
148929 TTGAGAAATTAATATTTATTATAA
64 TTGAGAAATTAATATTTGTTATAA
148953 TTTGTTAATG
Statistics
Matches: 406, Mismatches: 56, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
183 3 0.01
184 84 0.21
185 9 0.02
186 37 0.09
187 14 0.03
190 1 0.00
191 2 0.00
193 3 0.01
194 3 0.01
195 1 0.00
196 71 0.17
197 46 0.11
198 104 0.26
199 28 0.07
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (194 bp):
TGACTAAATAAATTTGTTACAATTTGTTATTGTGAAAGAATATTATTTGTCACAATTTTTATATT
GAGAAATTAATATTTGTTATAAATATTATTTTATTAAATAAATTTATCAAAATTTTTTATTTTGA
AAAAATATTGTGACAAAATAAATTTGACATAAATTTTTATTTGACTAAATTTAATATGTTATTG
Found at i:148873 original size:22 final size:21
Alignment explanation
Indices: 148830--148884 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
148820 TAAATTTAAC
*
148830 ATAAAT-TTTTATTTGACAAA
1 ATAAATATGTTATTTGACAAA
* *
148850 ATTAATATGTTATTGTGACTAA
1 ATAAATATGTTATT-TGACAAA
*
148872 ATAAATTTGTTAT
1 ATAAATATGTTAT
148885 AATTGATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 5 0.18
21 6 0.21
22 17 0.61
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (21 bp):
ATAAATATGTTATTTGACAAA
Found at i:148928 original size:184 final size:187
Alignment explanation
Indices: 148606--148959 Score: 518
Period size: 184 Copynumber: 1.9 Consensus size: 187
148596 TTATAATTTT
* * *
148606 TTATTTTGAAAAAAATATTGTAACAAAATAAATTTGACATAAATTTTTATTTTGACTAAATTTAC
1 TTATTTTGAAAAAAATATTGTAACAAAATAAATTTAACATAAATTTTTATTTTGACTAAAATTAA
* * *
148671 TATGTTATTGTAAAAAAATAAATTTGTTACACTTTGTTATTGTGAAAGAATATTATTTGTCGTAA
66 TATGTTATTGTAAAAAAATAAATTTGTTACACATTGTTATTGTGAAAAAATATTATTTGTCATAA
* * *
148736 TTTTTTATATTGAGGAATTAATATTTGCTATAAATTGTTATTATCACTCAAAAGTTG
131 ATTTTTATATTGAGAAATTAATATTTACTATAAATTGTTATTATCACTCAAAAGTTG
* *
148793 TTATTTTG-AGAAAATATTGTGACAAAATAAATTTAACATAAATTTTTA-TTTGAC-AAAATTAA
1 TTATTTTGAAAAAAATATTGTAACAAAATAAATTTAACATAAATTTTTATTTTGACTAAAATTAA
* ** *
148855 TATGTTATTGTGACTAAATAAATTTGTTATA-ATTGATTATTGTGAAAAAATATTATTTGTCATA
66 TATGTTATTGTAAAAAAATAAATTTGTTACACATTG-TTATTGTGAAAAAATATTATTTGTCATA
* *
148919 AATTTTTATATTGAGAAATTAATATTTATTATAATTTGTTA
130 AATTTTTATATTGAGAAATTAATATTTACTATAAATTGTTA
148960 ATGTAACTAT
Statistics
Matches: 149, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
183 3 0.02
184 95 0.64
185 6 0.04
186 37 0.25
187 8 0.05
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (187 bp):
TTATTTTGAAAAAAATATTGTAACAAAATAAATTTAACATAAATTTTTATTTTGACTAAAATTAA
TATGTTATTGTAAAAAAATAAATTTGTTACACATTGTTATTGTGAAAAAATATTATTTGTCATAA
ATTTTTATATTGAGAAATTAATATTTACTATAAATTGTTATTATCACTCAAAAGTTG
Found at i:150069 original size:10 final size:10
Alignment explanation
Indices: 150054--150090 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
150044 TTAATTTTAC
150054 TTTAATCTAA
1 TTTAATCTAA
*
150064 TTTAATCTAC
1 TTTAATCTAA
150074 TTTAATCTAA
1 TTTAATCTAA
150084 TTTAATC
1 TTTAATC
150091 ATTAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (10 bp):
TTTAATCTAA
Found at i:150076 original size:20 final size:20
Alignment explanation
Indices: 150051--150090 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
150041 ATTTTAATTT
150051 TACTTTAATCTAATTTAATC
1 TACTTTAATCTAATTTAATC
150071 TACTTTAATCTAATTTAATC
1 TACTTTAATCTAATTTAATC
150091 ATTAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (20 bp):
TACTTTAATCTAATTTAATC
Found at i:151746 original size:15 final size:17
Alignment explanation
Indices: 151728--151769 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
151718 TTTAAAGTCA
151728 TTTATTAT-TTAAA-AT
1 TTTATTATATTAAATAT
151743 TTTATT-TATTAAATAT
1 TTTATTATATTAAATAT
*
151759 TTAATTATATT
1 TTTATTATATT
151770 TATGGATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 1 0.04
15 11 0.48
16 7 0.30
17 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATTATATTAAATAT
Found at i:153717 original size:17 final size:17
Alignment explanation
Indices: 153680--153721 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
153670 TCTGTCACAG
* *
153680 TTACTAAAAACTTTTAG
1 TTACTAAAAACTTGTAA
153697 TTACTAAAAACTTGTAA
1 TTACTAAAAACTTGTAA
153714 TTAC-AAAA
1 TTACTAAAA
153722 TTTGTCACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (17 bp):
TTACTAAAAACTTGTAA
Found at i:155980 original size:62 final size:62
Alignment explanation
Indices: 155877--155997 Score: 208
Period size: 62 Copynumber: 2.0 Consensus size: 62
155867 ATGGTGCAAA
* *
155877 TTATTCCTATTGGAAGAATATGATGATGTTGTCTATTCAATCCATCGATCTTGATGTTTAGG
1 TTATTCATATTGGAAGAATATGATGATGTTGTCTATCCAATCCATCGATCTTGATGTTTAGG
155939 TTATTCATATTGGAAGAATATGATGATGTTGT-TCATCCAATCCATCGATCTTGATGTTT
1 TTATTCATATTGGAAGAATATGATGATGTTGTCT-ATCCAATCCATCGATCTTGATGTTT
155998 GGGATGCTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
61 1 0.02
62 55 0.98
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (62 bp):
TTATTCATATTGGAAGAATATGATGATGTTGTCTATCCAATCCATCGATCTTGATGTTTAGG
Found at i:167823 original size:6 final size:5
Alignment explanation
Indices: 167719--167823 Score: 51
Period size: 5 Copynumber: 20.8 Consensus size: 5
167709 ACCCTTTTTA
* * *
167719 TTATT TTATT TTATT TTATT TT-GT GT-TT TTATT TT-TA TTATT ATT-TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT -TTATT
* **
167766 TTACT CAATT TTA-T TTATCT TTATT AATCTATT TTA-T TTATT TTATT
1 TTATT TTATT TTATT TTAT-T TTATT --T-TATT TTATT TTATT TTATT
167813 ATTATT CTTAT
1 -TTATT -TTAT
167824 ATTAATATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
4 17 0.22
5 37 0.49
6 17 0.22
7 1 0.01
8 4 0.05
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (5 bp):
TTATT
Found at i:170154 original size:22 final size:21
Alignment explanation
Indices: 170112--170151 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
170102 GAGTTTGTTT
*
170112 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
170133 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
170152 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:174795 original size:21 final size:21
Alignment explanation
Indices: 174769--174850 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
174759 CAGAACCCCA
* *
174769 GGGGGGTATCGATTCCCTTGT
1 GGGGGGAATCGATTCCCTTAT
* *
174790 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGATT-CCCTT-AT
* * *
174813 AGGGGGAATCGGTTCCCTCAT
1 GGGGGGAATCGATTCCCTTAT
174834 GGGGGG-ATCGATTCCCT
1 GGGGGGAATCGATTCCCT
174851 CTGCACCAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 10 0.20
21 18 0.36
22 9 0.18
23 13 0.26
ACGTcount: A:0.15, C:0.23, G:0.37, T:0.26
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTTAT
Found at i:175680 original size:31 final size:30
Alignment explanation
Indices: 175581--175684 Score: 104
Period size: 31 Copynumber: 3.3 Consensus size: 30
175571 GGCATGCAAG
175581 CTAAAGCTAGAGTCTCTAGGATACCAAAGTC
1 CTAAA-CTAGAGTCTCTAGGATACCAAAGTC
* * *
175612 CTAAACTAGGAGTGTCCTTAAGG-TATCTAAAG-G
1 CTAAACTA-GAGTCT-C-T-AGGATA-CCAAAGTC
175645 CTAAAGCTAGAGTCTCTAGGATACCAAAGTC
1 CTAAA-CTAGAGTCTCTAGGATACCAAAGTC
175676 CTAAACTAG
1 CTAAACTAG
175685 GAGTGTCCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
30 15 0.25
31 18 0.31
32 2 0.03
33 13 0.22
34 11 0.19
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (30 bp):
CTAAACTAGAGTCTCTAGGATACCAAAGTC
Found at i:175681 original size:64 final size:64
Alignment explanation
Indices: 175580--175707 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
175570 AGGCATGCAA
175580 GCTAAAGCTAGAGTCTCTAGGATACCAAAGTCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAG
1 GCTAAAGCTAGAGTCTCTAGGATACCAAAGTCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAG
175644 GCTAAAGCTAGAGTCTCTAGGATACCAAAGTCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAG
1 GCTAAAGCTAGAGTCTCTAGGATACCAAAGTCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAG
175708 ATTCTCTTAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (64 bp):
GCTAAAGCTAGAGTCTCTAGGATACCAAAGTCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAG
Found at i:178768 original size:22 final size:21
Alignment explanation
Indices: 178726--178765 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
178716 GAGTTTGTTT
*
178726 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
178747 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
178766 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:189165 original size:18 final size:18
Alignment explanation
Indices: 189131--189165 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
189121 ATTTTGATGC
* *
189131 CCAAAGAACAACTTACAA
1 CCAAAGAAAAACATACAA
189149 CCAAAGAAAAACATACA
1 CCAAAGAAAAACATACA
189166 CTTTTTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.26, G:0.06, T:0.09
Consensus pattern (18 bp):
CCAAAGAAAAACATACAA
Found at i:192510 original size:21 final size:21
Alignment explanation
Indices: 192477--192521 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
192467 CGTAACGCGA
*
192477 TTTTGAATATCGCATTGTGATT
1 TTTTAAATATCGCATT-TGATT
*
192499 TTTTAAAT-TCGCGTTTGATT
1 TTTTAAATATCGCATTTGATT
192519 TTT
1 TTT
192522 CGACTATCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.56
Consensus pattern (21 bp):
TTTTAAATATCGCATTTGATT
Found at i:193374 original size:24 final size:24
Alignment explanation
Indices: 193317--193376 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
193307 TAGTCGGTAA
193317 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* * *
193341 CCGGACTTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
*
193365 TCGAATTTTGAT
1 TCGAAATTTGAT
193377 GATGTTTCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:193584 original size:15 final size:15
Alignment explanation
Indices: 193566--193602 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
193556 AGAAAAAGAA
193566 GAAGAAAAAATCCCC
1 GAAGAAAAAATCCCC
*
193581 GAAG-AAAAGTCCCC
1 GAAGAAAAAATCCCC
193595 GAAGAAAA
1 GAAGAAAA
193603 TGCTACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.54, C:0.22, G:0.19, T:0.05
Consensus pattern (15 bp):
GAAGAAAAAATCCCC
Found at i:195649 original size:18 final size:18
Alignment explanation
Indices: 195626--195660 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
195616 AGCAAAAGGC
*
195626 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
195644 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
195661 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:195920 original size:34 final size:34
Alignment explanation
Indices: 195863--196072 Score: 181
Period size: 34 Copynumber: 5.9 Consensus size: 34
195853 GAATATGACT
* ** *
195863 ATCGCAACGTGAATTTGAATATCGCAACGGGATA
1 ATCGCAACGCGAAAATGACTATCGCAACGGGATA
*
195897 ATCGCAATGCGAAAATGACTATCGCAACGGGATA
1 ATCGCAACGCGAAAATGACTATCGCAACGGGATA
* *
195931 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGA
1 ATCGCAACGCGAAAATGACTATCGCAACG-G--GAT-A
* *
195969 CTATCGCAACGCGAATATGACTATCGCAACGCGAATTTAA
1 --ATCGCAACGCGAAAATGACTATCGCAACG-GGA--T-A
* * *
196009 CTATCGTAACGC-AAATTTGACTATCGCAACGAGATA
1 --ATCGCAACGCGAAA-ATGACTATCGCAACGGGATA
196045 ATCGCAACGC-AAAATGACTATCGCAACG
1 ATCGCAACGCGAAAATGACTATCGCAACG
196073 CAAAATGAAT
Statistics
Matches: 151, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
33 14 0.09
34 70 0.46
35 1 0.01
36 1 0.01
37 3 0.02
38 3 0.02
39 3 0.02
40 56 0.37
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (34 bp):
ATCGCAACGCGAAAATGACTATCGCAACGGGATA
Found at i:196106 original size:92 final size:94
Alignment explanation
Indices: 195951--196139 Score: 294
Period size: 92 Copynumber: 2.0 Consensus size: 94
195941 GAAAATGACT
* * *
195951 ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTTAACTATCGT
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGAATATCGCAACGCGAATTTAACTATCGC
*
196016 AACGCA-AATTTGACTATCGCAACGAGATA
66 AACG-AGAATTTGACTATCGCAACGAGAAA
* *
196045 ATCGCAACGC-AAAATGACTATCGCAACGC-AAAATGAATATCGCAACGCGAATTTGATTATCGC
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGAATATCGCAACGCGAATTTAACTATCGC
196108 AACGAGAATTTGACTATCGCAACGAGAAA
66 AACGAGAATTTGACTATCGCAACGAGAAA
196137 ATC
1 ATC
196140 ACAAAGTGTA
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
91 1 0.01
92 58 0.66
93 19 0.22
94 10 0.11
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (94 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGAATATCGCAACGCGAATTTAACTATCGC
AACGAGAATTTGACTATCGCAACGAGAAA
Found at i:196135 original size:20 final size:20
Alignment explanation
Indices: 195838--196131 Score: 241
Period size: 20 Copynumber: 15.7 Consensus size: 20
195828 CACATTCATT
195838 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* *
195858 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
195878 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
195895 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
195912 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
195929 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
195946 TGACTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAATA
195966 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
*
195986 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * * *
196006 TAACTATCGTAACGCAAATT
1 TGACTATCGCAACGCGAATA
*
196026 TGACTATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
*
196043 T-A--ATCGCAACGC-AAAA
1 TGACTATCGCAACGCGAATA
*
196059 TGACTATCGCAACGC-AAAA
1 TGACTATCGCAACGCGAATA
* *
196078 TGAATATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
196098 TGATTATCGCAACGAGAATT
1 TGACTATCGCAACGCGAATA
196118 TGACTATCGCAACG
1 TGACTATCGCAACG
196132 AGAAAATCAC
Statistics
Matches: 226, Mismatches: 29, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
14 23 0.10
15 2 0.01
16 7 0.03
17 10 0.04
18 3 0.01
19 30 0.13
20 151 0.67
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:196254 original size:54 final size:55
Alignment explanation
Indices: 196190--196300 Score: 197
Period size: 54 Copynumber: 2.0 Consensus size: 55
196180 CAACTTTTAC
*
196190 ATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAA-TAATCAA
1 ATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAACAA
*
196244 ATTTTAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAACAA
1 ATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAACAA
196299 AT
1 AT
196301 AAGAATTATT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 46 0.85
55 8 0.15
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.29
Consensus pattern (55 bp):
ATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAACAA
Found at i:196290 original size:36 final size:34
Alignment explanation
Indices: 196250--196329 Score: 114
Period size: 30 Copynumber: 2.4 Consensus size: 34
196240 TCAAATTTTA
196250 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
196286 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
196316 ATCAATTAAACAAA
1 ATCAATTAAACAAA
196330 TAAACTCTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
30 28 0.70
32 2 0.05
34 3 0.08
36 7 0.17
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:196299 original size:30 final size:30
Alignment explanation
Indices: 196265--196332 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
196255 TTAAACAAGC
196265 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
196295 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
196325 ACAAATAA
1 ACAAATAA
196333 ACTCTTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:197803 original size:42 final size:42
Alignment explanation
Indices: 197724--197816 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
197714 CCTCTTCAAC
* * *
197724 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
197766 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAT
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
197808 GATGACAGG
1 GATGACAGG
197817 TGAGTTGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.16, G:0.40, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:198338 original size:20 final size:20
Alignment explanation
Indices: 198302--198367 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
198292 AAAACTTAAA
198302 ATCGCAACACG--AATGACT
1 ATCGCAACACGAAAATGACT
198320 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
198340 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
198360 ATCGCAAC
1 ATCGCAAC
198368 GAGAGAATCG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
18 11 0.26
20 32 0.74
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.18
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:198436 original size:20 final size:20
Alignment explanation
Indices: 198411--198476 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
198401 GCGATTCTTT
**
198411 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
198431 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
198451 CGTTACGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
198471 CGTTGC
1 CGTTGC
198477 AAAAGTAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:200453 original size:20 final size:20
Alignment explanation
Indices: 200395--200468 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
200385 GAAACTTAAA
* **
200395 ATCGCTACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
200415 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
**
200435 ATCGCAACACGAATTTGACT
1 ATCGCAACACGAAAATGACT
*
200455 ATCGCAACGCGAAA
1 ATCGCAACACGAAA
200469 CTAAAATCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.16
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:201041 original size:20 final size:20
Alignment explanation
Indices: 201016--201169 Score: 123
Period size: 20 Copynumber: 7.7 Consensus size: 20
201006 ACGCTTTGAA
*
201016 AATCGCATTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAG
*
201036 AATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
*
201056 AATCGCATTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAG
* * *
201076 AATCGCATTACGAT-TTACAT
1 AATCGCATTGCGATAGT-CAG
* * * *
201096 ATTCGCGTTGTGATAGTCAT
1 AATCGCATTGCGATAGTCAG
* * *
201116 ACTCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAG
* * *
201136 ATTCGCGTTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAG
*
201156 ACTCGCATTGCGAT
1 AATCGCATTGCGAT
201170 TTATATATTC
Statistics
Matches: 110, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.02
20 106 0.96
21 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAG
Found at i:201111 original size:40 final size:40
Alignment explanation
Indices: 201018--201193 Score: 219
Period size: 40 Copynumber: 4.4 Consensus size: 40
201008 GCTTTGAAAA
* * * * * * *
201018 TCGCATTGCGACAGTCAGAATCGCGTTGCGATAGT-CAGAA
1 TCGCATTGCGATAGTCATACTCGCATTGCGAT-TTACATAT
* *
201058 TCGCATTGCGATAGTCATAATCGCATTACGATTTACATAT
1 TCGCATTGCGATAGTCATACTCGCATTGCGATTTACATAT
* *
201098 TCGCGTTGTGATAGTCATACTCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCATACTCGCATTGCGATTTACATAT
* *
201138 TCGCGTTGCGATAGTCATACTCGCATTGCGATTTATATAT
1 TCGCATTGCGATAGTCATACTCGCATTGCGATTTACATAT
201178 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
201194 GGAAAATCGC
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
39 1 0.01
40 120 0.99
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (40 bp):
TCGCATTGCGATAGTCATACTCGCATTGCGATTTACATAT
Found at i:201181 original size:20 final size:20
Alignment explanation
Indices: 201078--201189 Score: 88
Period size: 20 Copynumber: 5.6 Consensus size: 20
201068 ATAGTCATAA
* *
201078 TCGCATTACGATTTACATAT
1 TCGCATTGCGATTTATATAT
* * *
201098 TCGCGTTGTGA--TAGTCATAC
1 TCGCATTGCGATTTA-T-ATAT
*
201118 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTATATAT
* *
201138 TCGCGTTGCGA--TAGTCATAC
1 TCGCATTGCGATTTA-T-ATAT
201158 TCGCATTGCGATTTATATAT
1 TCGCATTGCGATTTATATAT
201178 TCGCATTGCGAT
1 TCGCATTGCGAT
201190 AGTCGGAAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
18 4 0.06
20 61 0.87
21 1 0.01
22 4 0.06
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTATATAT
Found at i:205981 original size:4 final size:4
Alignment explanation
Indices: 205941--206049 Score: 57
Period size: 4 Copynumber: 26.5 Consensus size: 4
205931 AATTAACGAT
* * *
205941 AATA AGTA AATTA AAT- AA-A AATA AAGA AACAA AATA AATA AATA AATAA
1 AATA AATA AA-TA AATA AATA AATA AATA AA-TA AATA AATA AATA AAT-A
* * *
205990 AATAA AATA AGTCA TAA-A AATA AATA AATA AAGTC TAT- AA-A AATA
1 AAT-A AATA AAT-A -AATA AATA AATA AATA AA-TA AATA AATA AATA
206035 AATGA AATA AATA AA
1 AAT-A AATA AATA AA
206050 ACACTAGAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 24
0.71 0.09 0.21
Matches are distributed among these distances:
3 9 0.11
4 50 0.60
5 23 0.28
6 1 0.01
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:205981 original size:17 final size:17
Alignment explanation
Indices: 205959--205995 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
205949 AATTAAATAA
205959 AAATAAAGAAACAAAAT
1 AAATAAAGAAACAAAAT
* *
205976 AAATAAATAAATAAAAT
1 AAATAAAGAAACAAAAT
205993 AAA
1 AAA
205996 ATAAGTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (17 bp):
AAATAAAGAAACAAAAT
Found at i:205990 original size:31 final size:32
Alignment explanation
Indices: 205941--206021 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
205931 AATTAACGAT
*
205941 AATAAGTAAATTAAATAAAAATAAAGA-AA-CAA
1 AATAAATAAA-TAAATAAAAATAAA-ATAAGCAA
*
205973 AATAAATAAATAAAT-AAAATAAAATAAGTCAT
1 AATAAATAAATAAATAAAAATAAAATAAG-CAA
206005 AA-AAATAAATAAATAAA
1 AATAAATAAATAAATAAA
206022 GTCTATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 1 0.02
30 10 0.23
31 17 0.40
32 15 0.35
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (32 bp):
AATAAATAAATAAATAAAAATAAAATAAGCAA
Found at i:205992 original size:13 final size:13
Alignment explanation
Indices: 205947--206050 Score: 56
Period size: 13 Copynumber: 8.0 Consensus size: 13
205937 CGATAATAAG
205947 TAAATTAAATAAAAA
1 TAAA-TAAAT-AAAA
* *
205962 TAAAGAAACAAAA
1 TAAATAAATAAAA
205975 TAAATAAAT-AAA
1 TAAATAAATAAAA
205987 T--A-AAATAAAA
1 TAAATAAATAAAA
* *
205997 TAAGT-CATAAAAA
1 TAAATAAAT-AAAA
*
206010 TAAATAAATAAAG
1 TAAATAAATAAAA
** *
206023 TCTATAAAAATAAA
1 TAAATAAATA-AAA
206037 TGAAATAAATAAAA
1 T-AAATAAATAAAA
206051 CACTAGAAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 17
0.66 0.16 0.17
Matches are distributed among these distances:
9 4 0.06
10 5 0.08
12 6 0.09
13 29 0.45
14 11 0.17
15 10 0.15
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:206029 original size:23 final size:22
Alignment explanation
Indices: 205984--206045 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 22
205974 ATAAATAAAT
205984 AAATAAAATAAA-ATAAGTCATAA
1 AAAT-AAATAAATA-AAGTCATAA
206007 AAATAAATAAATAAAGTCTATAA
1 AAATAAATAAATAAAGTC-ATAA
206030 AAATAAATGAAATAAA
1 AAATAAAT-AAATAAA
206046 TAAAACACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.33
23 17 0.47
24 7 0.19
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (22 bp):
AAATAAATAAATAAAGTCATAA
Found at i:213032 original size:18 final size:18
Alignment explanation
Indices: 213006--213098 Score: 105
Period size: 18 Copynumber: 4.9 Consensus size: 18
212996 ACTGAATATT
213006 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
213024 TGTCTCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
213043 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
*
213062 TGTCCCGAAGGACCACTGTT
1 TGTCCCGAAGGACCAC--TA
*
213082 TGTCCCAAAGGACCACT
1 TGTCCCGAAGGACCACT
213099 GATAATCCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
18 31 0.49
19 2 0.03
20 30 0.48
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:213053 original size:38 final size:38
Alignment explanation
Indices: 213005--213098 Score: 143
Period size: 38 Copynumber: 2.5 Consensus size: 38
212995 CACTGAATAT
*
213005 TTGTCCCGAAGGACCACTATGTCTCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGA
* * *
213043 TTGTTCCGAAGAACCACTATGTCCCGAAGGACCACTGT
1 TTGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGA
*
213081 TTGTCCCAAAGGACCACT
1 TTGTCCCGAAGGACCACT
213099 GATAATCCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (38 bp):
TTGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGA
Found at i:213058 original size:20 final size:20
Alignment explanation
Indices: 213005--213101 Score: 121
Period size: 20 Copynumber: 5.0 Consensus size: 20
212995 CACTGAATAT
213005 TTGTCCCGAAGGACCACT-A
1 TTGTCCCGAAGGACCACTGA
*
213024 -TGTCTCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
* *
213043 TTGTTCCGAAGAACCACT-A
1 TTGTCCCGAAGGACCACTGA
*
213062 -TGTCCCGAAGGACCACTGT
1 TTGTCCCGAAGGACCACTGA
*
213081 TTGTCCCAAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
213101 T
1 T
213102 AATCCCTCGA
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
18 31 0.48
19 2 0.03
20 32 0.49
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (20 bp):
TTGTCCCGAAGGACCACTGA
Found at i:213107 original size:20 final size:20
Alignment explanation
Indices: 213064--213107 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
213054 AACCACTATG
* * **
213064 TCCCGAAGGACCACTGTTTG
1 TCCCAAAGGACCACTGATAA
213084 TCCCAAAGGACCACTGATAA
1 TCCCAAAGGACCACTGATAA
213104 TCCC
1 TCCC
213108 TCGACTCTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.20
Consensus pattern (20 bp):
TCCCAAAGGACCACTGATAA
Found at i:220461 original size:30 final size:31
Alignment explanation
Indices: 220414--220473 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
220404 CTTCAACATT
220414 CAAAAATTATCAATTTCAAC-CCAAACTTTC
1 CAAAAATTATCAATTTCAACACCAAACTTTC
* *
220444 CAAAACTT-TCAATTTTCATCACCAAACTTT
1 CAAAAATTATCAA-TTTCAACACCAAACTTT
220474 ATAAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 13 0.50
31 9 0.35
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (31 bp):
CAAAAATTATCAATTTCAACACCAAACTTTC
Found at i:228767 original size:60 final size:60
Alignment explanation
Indices: 228699--228816 Score: 236
Period size: 60 Copynumber: 2.0 Consensus size: 60
228689 AGCCTAAGGA
228699 AGGCTTAAGTTAACTTCAAAAATAAAGAATGAAAGAGTTATGAGAGATTAAAGTTAAGTT
1 AGGCTTAAGTTAACTTCAAAAATAAAGAATGAAAGAGTTATGAGAGATTAAAGTTAAGTT
228759 AGGCTTAAGTTAACTTCAAAAATAAAGAATGAAAGAGTTATGAGAGATTAAAGTTAAG
1 AGGCTTAAGTTAACTTCAAAAATAAAGAATGAAAGAGTTATGAGAGATTAAAGTTAAG
228817 GAGTTTTTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.27
Consensus pattern (60 bp):
AGGCTTAAGTTAACTTCAAAAATAAAGAATGAAAGAGTTATGAGAGATTAAAGTTAAGTT
Found at i:230533 original size:6 final size:6
Alignment explanation
Indices: 230517--230546 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
230507 TTAATCATAT
*
230517 GAATAA TAATAA GAATAA GAATAA GAATAA
1 GAATAA GAATAA GAATAA GAATAA GAATAA
230547 TGAAATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (6 bp):
GAATAA
Found at i:232094 original size:22 final size:21
Alignment explanation
Indices: 232066--232124 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
232056 AGTCGAGGGT
*
232066 TACATAGGTCGTTCAGGACATA
1 TACATAGGTCCTTC-GGACATA
* *
232088 TACATAGGTCTTTCGG-GATA
1 TACATAGGTCCTTCGGACATA
232108 TACATGAGGTCCTTCGG
1 TACAT-AGGTCCTTCGG
232125 GACAAATTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.24
21 12 0.36
22 13 0.39
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (21 bp):
TACATAGGTCCTTCGGACATA
Found at i:232123 original size:21 final size:20
Alignment explanation
Indices: 232066--232126 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
232056 AGTCGAGGGT
* *
232066 TACATAGGTCGTTCAGGACATA
1 TACATAGGTCCTTC-GG-GATA
*
232088 TACATAGGTCTTTCGGGATA
1 TACATAGGTCCTTCGGGATA
232108 TACATGAGGTCCTTCGGGA
1 TACAT-AGGTCCTTCGGGA
232127 CAAATTTCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.23
21 14 0.40
22 13 0.37
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (20 bp):
TACATAGGTCCTTCGGGATA
Found at i:235501 original size:70 final size:70
Alignment explanation
Indices: 235388--235528 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
235378 CTCCATTTCT
* *
235388 AAGGTGAGACTTGGTAAACTGGTTATTTCTTAATTTTTAAGCTTAGTTTTGATTCTTAGAGTGTT
1 AAGGTGAGACTTGGTAAACTGATTATTTCTTAATTTTTAAGCTTAGCTTTGATTCTTAGAGTGTT
235453 AAAAA
66 AAAAA
235458 AAGGTGAGACTTGGTAAACTGATTATTTCTTAATTTTTAAGCTTAGCTTTGATTCTTAGAGTGTT
1 AAGGTGAGACTTGGTAAACTGATTATTTCTTAATTTTTAAGCTTAGCTTTGATTCTTAGAGTGTT
235523 AAAAA
66 AAAAA
235528 A
1 A
235529 GCTTAATAAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (70 bp):
AAGGTGAGACTTGGTAAACTGATTATTTCTTAATTTTTAAGCTTAGCTTTGATTCTTAGAGTGTT
AAAAA
Found at i:237451 original size:22 final size:22
Alignment explanation
Indices: 237407--237452 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
237397 AGTCGAGGGT
**
237407 TACATAGGTCCTTCAGGTCATA
1 TACATAGGTCCTTCAGGAAATA
*
237429 TACATAGGTCCTTCGGGAAATA
1 TACATAGGTCCTTCAGGAAATA
237451 TA
1 TA
237453 TGAGGTCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (22 bp):
TACATAGGTCCTTCAGGAAATA
Found at i:240416 original size:33 final size:33
Alignment explanation
Indices: 240379--240445 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
240369 ATCCAATCTC
240379 ATCACACAATCATCTTCACCATGAAATTGTGGT
1 ATCACACAATCATCTTCACCATGAAATTGTGGT
240412 ATCACACAATCATCTTCACCATGAAATTGTGGT
1 ATCACACAATCATCTTCACCATGAAATTGTGGT
240445 A
1 A
240446 CCAAATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (33 bp):
ATCACACAATCATCTTCACCATGAAATTGTGGT
Done.