Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 13 of 316
Found at i:4032656 original size:92 final size:91
Alignment explanation
Indices: 4032332--4032660 Score: 273
Period size: 92 Copynumber: 3.6 Consensus size: 91
4032322 ATGAAATGTG
* * * * * ***
4032332 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACCATGGCAGCATGACA-GAAATAAATAAGACCATGGTTGAAAGA
* * * ** ****
4032397 TACCATGGCAGCCTGATATGAAACGTG
65 TACCATGGCAACATGACAAAAAATAAA
* * * * ***
4032424 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACCATGGCAGCATGACA-GAAATAAATAAGACCATGGTTGAAAGA
***
4032489 TACCATGGCAACATGACGGGAAATAAA
65 TACCATGGCAACATGACAAAAAATAAA
* * * *
4032516 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACCATGGCAGCATGACA-GAAATAAATAAGACCATGGTTGAAAGA
* *
4032581 TACCATGGCAACATGACAAAAAAATGAG
65 TACCATGGCAACATGAC-AAAAAATAAA
** * *
4032609 TAAGACCATAGTTGAAAGACACTGTGGCATCATGTCA-AAGATAAATAAGACC
1 TAAGACCATAGTTGAAAGACACCATGGCAGCATGACAGAA-ATAAATAAGACC
4032661 GTGGATGGGA
Statistics
Matches: 208, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
91 2 0.01
92 171 0.82
93 35 0.17
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (91 bp):
TAAGACCATAGTTGAAAGACACCATGGCAGCATGACAGAAATAAATAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACAAAAAATAAA
Found at i:4042465 original size:45 final size:45
Alignment explanation
Indices: 4042396--4042483 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
4042386 AAAAGAGAAG
* *
4042396 GAATTAAGATGAAAACCCGGAAAGGGCGTCTTGATAAACAAAAAA
1 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAAAA
4042441 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAA
1 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAA
4042484 GGGTTAGGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.49, C:0.15, G:0.22, T:0.15
Consensus pattern (45 bp):
GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAAAA
Found at i:4042498 original size:43 final size:44
Alignment explanation
Indices: 4042396--4042505 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 44
4042386 AAAAGAGAAG
* *
4042396 GAATTAAGATGAAAACCCGGAAAGGGCGTCTTGATAAACAAAAAA
1 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAAC-AAAAA
4042441 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAAC-AAAA
1 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAAA
** * *
4042484 GGGTTAGGATGAAAACCCGAAA
1 GAATCAAGATGAAAACCCGAAA
4042506 GGGGTGTCCC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 22 0.37
45 37 0.63
ACGTcount: A:0.47, C:0.15, G:0.24, T:0.15
Consensus pattern (44 bp):
GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAAA
Found at i:4043363 original size:76 final size:77
Alignment explanation
Indices: 4043282--4043429 Score: 253
Period size: 77 Copynumber: 1.9 Consensus size: 77
4043272 TCTGTTTTAA
*
4043282 AAAAAAATCAACTCATATTGC-GGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATCTTTAG
1 AAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCATCAGGTCACACGCTGAGGTATCTTTAG
4043346 TTCCTATTTTTC
66 TTCCTATTTTTC
* *
4043358 AAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCATCGGGTCACACGCTGAGGTATTTTTAG
1 AAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCATCAGGTCACACGCTGAGGTATCTTTAG
*
4043423 TTTCTAT
66 TTCCTAT
4043430 CAACTCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 21 0.31
77 46 0.69
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCATCAGGTCACACGCTGAGGTATCTTTAG
TTCCTATTTTTC
Found at i:4043451 original size:64 final size:64
Alignment explanation
Indices: 4043364--4043483 Score: 204
Period size: 64 Copynumber: 1.9 Consensus size: 64
4043354 TTTCAAAAAA
* * *
4043364 ATCAACTCATATTGCGGGAGGTGAGTTGAGCATCGGGTCACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCATCGGGACACACGCTGAGGTATTTTTAGTTTCT
*
4043428 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCATCGGGACACACGCTGAGGTATTTT
4043484 CAATTTATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (64 bp):
ATCAACTCATATTACGAGAGGTGAGTTGAGCATCGGGACACACGCTGAGGTATTTTTAGTTTCT
Found at i:4043650 original size:64 final size:64
Alignment explanation
Indices: 4043561--4043820 Score: 333
Period size: 64 Copynumber: 3.9 Consensus size: 64
4043551 TTTCAAAAAA
* *
4043561 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTTAGTTTCT
4043625 ATCAACTCATATTAG-GAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTCAATTTAT
1 ATCAACTCATATT-GCGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTA--TT---TTTA-
*
4043689 GTTTTTCAAAAA
59 G--TTTC----T
*
4043701 ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTTAGTTTCT
* * *
4043765 ATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTT
1 ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTT
4043821 CAATTTATGT
Statistics
Matches: 173, Mismatches: 9, Indels: 28
0.82 0.04 0.13
Matches are distributed among these distances:
64 100 0.58
65 1 0.01
66 2 0.01
68 4 0.02
69 4 0.02
70 2 0.01
71 4 0.02
72 4 0.02
74 2 0.01
75 1 0.01
76 49 0.28
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (64 bp):
ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTTAGTTTCT
Found at i:4043687 original size:197 final size:196
Alignment explanation
Indices: 4043352--4043727 Score: 689
Period size: 197 Copynumber: 1.9 Consensus size: 196
4043342 TTAGTTCCTA
*
4043352 TTTTTCAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCATCGGGTCACACGCTGAGGTAT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACACGCTGAGGTAT
*
4043417 TTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATT
66 TTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATT
*
4043482 TTCAATTTATGTTTTTCAAAAAAATCGACTCATATTGCGAGAAGTGAGTTGAACCTTTTAGTCTC
131 TTCAATTTATGTTTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTTTAGTCTC
4043547 TG
195 TG
*
4043549 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACACGCTGAGGTAT
*
4043614 TTTTAGTTTCTATCAACTCATATTAGGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATT
66 TTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATT
*
4043679 TTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTT
131 TTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTT
4043728 AAGCCTCGGG
Statistics
Matches: 173, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
196 30 0.17
197 143 0.83
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (196 bp):
TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACACGCTGAGGTAT
TTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATT
TTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTTTAGTCTCT
G
Found at i:4043733 original size:140 final size:140
Alignment explanation
Indices: 4043547--4043874 Score: 566
Period size: 140 Copynumber: 2.3 Consensus size: 140
4043537 TTTTAGTCTC
4043547 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
1 TGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
*
4043612 ATTTTTAGTTTCTATCAACTCATATTAGGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTA
65 ATTTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTA
4043677 TTTTCAATTTA
130 TTTTCAATTTA
*
4043688 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGTA
1 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA
* *
4043753 TTTTTAGTTTCTATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTAT
66 TTTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTAT
4043818 TTTCAATTTA
131 TTTCAATTTA
* * * *
4043828 TGTTTTCCAAAAATATCGACTCATATTGCGAGAAGTAAGTTGAGCCT
1 TGTTTTTCAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4043875 TTTAGTCTCT
Statistics
Matches: 177, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
140 140 0.79
141 37 0.21
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (140 bp):
TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA
TTTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTAT
TTTCAATTTA
Found at i:4043751 original size:76 final size:76
Alignment explanation
Indices: 4043625--4043874 Score: 301
Period size: 76 Copynumber: 3.4 Consensus size: 76
4043615 TTTAGTTTCT
4043625 ATCAACTCATATTAG-GAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTCAATTTAT
1 ATCAACTCATATT-GCGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTCAATTTAT
4043689 GTTTTTCAAAAA
65 GTTTTTCAAAAA
*
4043701 ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGTA--TT---TTTA-G
1 ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTCAATTTATG
*
4043760 --TTTC----T
66 TTTTTCAAAAA
* * *
4043765 ATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTTCAATTTATG
1 ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTCAATTTATG
*
4043830 TTTTCCAAAAA
66 TTTTTCAAAAA
* * * *
4043841 TATCGACTCATATTGCGAGAAGTAAGTTGAGCCT
1 -ATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
4043875 TTTAGTCTCT
Statistics
Matches: 147, Mismatches: 13, Indels: 27
0.79 0.07 0.14
Matches are distributed among these distances:
64 48 0.33
66 2 0.01
68 4 0.03
69 4 0.03
70 2 0.01
71 4 0.03
72 3 0.02
74 2 0.01
75 1 0.01
76 49 0.33
77 28 0.19
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (76 bp):
ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTCAATTTATG
TTTTTCAAAAA
Found at i:4043903 original size:337 final size:337
Alignment explanation
Indices: 4043288--4043953 Score: 1104
Period size: 337 Copynumber: 2.0 Consensus size: 337
4043278 TTAAAAAAAA
* * * *
4043288 ATCAACTCATATTGCGGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATCTTTAGTTCCTAT
1 ATCAACTCATATTGCGGAGGTGAGTTAAGCCTCAGGACACACGCTGAGGTATCTTTAATTCATAT
* *
4043353 TTTTCAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCATCGGGTCACACGCTGAGGTATT
66 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCATCGGGTCACACGCTGAGGTATT
4043418 TTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTT
131 TTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTT
* *
4043483 TCAATTTATGTTTTTCAAAAAAATCGACTCATATTGCGAGAAGTGAGTTGAACCTTTTAGTCTCT
196 TCAATTTATGTTTTCCAAAAAAATCGACTCATATTGCGAGAAGTAAGTTGAACCTTTTAGTCTCT
** *
4043548 GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA
261 GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACACTGAGGTA
4043613 TTTTTAGTTTCT
326 TTTTTAGTTTCT
* *
4043625 ATCAACTCATATTAG-GAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTAT-TTTCAATTTA
1 ATCAACTCATATT-GCG-GAGGTGAGTTAAGCCTCAGGACACACGCTGAGGTATCTTT-AATTCA
* *
4043688 TGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGT
63 TATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCATCGGGTCACACGCTGAGGT
*
4043752 ATTTTTAGTTTCTATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTA
128 ATTTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTA
* *
4043817 TTTTCAATTTATGTTTTCCAAAAATATCGACTCATATTGCGAGAAGTAAGTTGAGCCTTTTAGTC
193 TTTTCAATTTATGTTTTCCAAAAAAATCGACTCATATTGCGAGAAGTAAGTTGAACCTTTTAGTC
* *
4043882 TCTGTTTTTCAAAAAAATCAACTTATATTGCGATAGGTGAGTTGAGCCTCAAGTCACACACTGAG
258 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACACTGAG
4043947 GTATTTT
323 GTATTTT
4043954 CAATTTTTTA
Statistics
Matches: 306, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
337 262 0.86
338 44 0.14
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (337 bp):
ATCAACTCATATTGCGGAGGTGAGTTAAGCCTCAGGACACACGCTGAGGTATCTTTAATTCATAT
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCATCGGGTCACACGCTGAGGTATT
TTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTT
TCAATTTATGTTTTCCAAAAAAATCGACTCATATTGCGAGAAGTAAGTTGAACCTTTTAGTCTCT
GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACACTGAGGTA
TTTTTAGTTTCT
Found at i:4046000 original size:130 final size:136
Alignment explanation
Indices: 4045647--4046217 Score: 741
Period size: 130 Copynumber: 4.1 Consensus size: 136
4045637 TTCTTTATTA
* * *
4045647 ATTATTATTATTATTATTATTATATTTAGTGTATA-CTTT-TTAT-TAGATACATATATGTATAT
1 ATTATTACTATTATTATTATTATA-TTAGTGTATATTTTTATTATATAG-TACGTATATGTATAT
* *
4045709 ATATTTATGTATAGTATTATTTTTTATTACTTTATTTTAATA-TTTTATTATATTTACTTTTTGT
64 ATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTTCTTTTTGT
4045773 ATTTCAAT
129 ATTTCAAT
* * *
4045781 ATTATTACTATTATCATTATTATTGTTAGTGTATATTTTTATTATATATGTATGTATATGTACAT
1 ATTATTACTATTATTATTATTA-TATTAGTGTATATTTTTATTATATA-GTACGTATATG----T
* *
4045846 ATATATATTTGTATATAGTTTTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTTCTTT
60 ATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTTCTTT
4045911 TTGTATTTC-A-
125 TTGTATTTCAAT
4045921 A-TATTACTATTATTATTA-TATATTAGTGTATACTTTTTA-T-TATA-TACGTATATGTATATA
1 ATTATTACTATTATTATTATTATATTAGTGTATA-TTTTTATTATATAGTACGTATATGTATATA
4045981 TATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTTCTTTTTGTA
65 TATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTTCTTTTTGTA
4046046 TTTCAAT
130 TTTCAAT
*
4046053 ATTATTACTATTATCATTATTATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATAT
1 ATTATTAC-----T-ATTATTATTATT-ATATTAGTGTATATTTTTATTATATA-GTACGTATAT
* * * *
4046118 GTATATATATTTATATATAGTATTATTCTTTTATTACTTTGTTCTAATATTATTATTATATTTGC
58 GTATATATATTTATATATAGTATTATT-TTTTATTACTTTATTTTAATATTTTTATTATATTTTC
*
4046183 TTTTTGTATTTCATT
122 TTTTTGTATTTCAAT
* *
4046198 ATTATTGCTAGTATTATTAT
1 ATTATTACTATTATTATTAT
4046218 CATTATCATC
Statistics
Matches: 387, Mismatches: 23, Indels: 49
0.84 0.05 0.11
Matches are distributed among these distances:
130 73 0.19
131 1 0.00
132 1 0.00
133 6 0.02
134 39 0.10
135 4 0.01
136 8 0.02
137 22 0.06
138 10 0.03
139 36 0.09
140 9 0.02
141 59 0.15
142 30 0.08
144 35 0.09
145 54 0.14
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (136 bp):
ATTATTACTATTATTATTATTATATTAGTGTATATTTTTATTATATAGTACGTATATGTATATAT
ATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTTCTTTTTGTAT
TTCAAT
Found at i:4046031 original size:32 final size:31
Alignment explanation
Indices: 4045866--4046085 Score: 83
Period size: 32 Copynumber: 6.9 Consensus size: 31
4045856 GTATATAGTT
4045866 TTATTTTTTATTACTTTATTTTAATATTTTTA
1 TTATTTTTTATTA-TTTATTTTAATATTTTTA
* * * * **
4045898 TTATATTTTCTTTTTGTATTTCAATATTACTA
1 TTATTTTTTATTATT-TATTTTAATATTTTTA
* * *
4045930 TTA-TTATTA-TATATTAGTGT-ATACTTTTTA
1 TTATTTTTTATTAT-TTATTTTAATA-TTTTTA
* * * **
4045960 TTATATACGTATATGTATATATATTT-ATATATAGTA
1 TTAT-T--TTTTAT-TATTTAT-TTTAATAT-TTTTA
4045996 TTATTTTTTATTACTTTATTTTAATATTTTTA
1 TTATTTTTTATTA-TTTATTTTAATATTTTTA
* * * * *
4046028 TTATATTTTCTTTTTGTATTTCAATATTATTA
1 TTATTTTTTATTATT-TATTTTAATATTTTTA
* * *
4046060 CTA-TTATCATTA-TTATTATTAATATT
1 TTATTTTTTATTATTTATT-TTAATATT
4046086 AGTGTATATT
Statistics
Matches: 133, Mismatches: 40, Indels: 32
0.65 0.20 0.16
Matches are distributed among these distances:
29 7 0.05
30 20 0.15
31 12 0.09
32 61 0.46
33 12 0.09
34 2 0.02
35 4 0.03
36 15 0.11
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (31 bp):
TTATTTTTTATTATTTATTTTAATATTTTTA
Found at i:4046118 original size:10 final size:10
Alignment explanation
Indices: 4046101--4046140 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
4046091 ATATTTTTAT
4046101 TATATATGTA
1 TATATATGTA
*
4046111 TGTATATGTA
1 TATATATGTA
*
4046121 TATATATTTA
1 TATATATGTA
4046131 TATATA-GTA
1 TATATATGTA
4046140 T
1 T
4046141 TATTCTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 3 0.12
10 23 0.88
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TATATATGTA
Found at i:4046144 original size:16 final size:16
Alignment explanation
Indices: 4046090--4046136 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
4046080 AATATTAGTG
*
4046090 TATATTTTTAT-TATA
1 TATATATTTATATATA
* * *
4046105 TATGTATGTATATGTA
1 TATATATTTATATATA
4046121 TATATATTTATATATA
1 TATATATTTATATATA
4046137 GTATTATTCT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (16 bp):
TATATATTTATATATA
Found at i:4046256 original size:145 final size:144
Alignment explanation
Indices: 4045698--4046252 Score: 568
Period size: 145 Copynumber: 4.0 Consensus size: 144
4045688 ATTAGATACA
* *
4045698 TATATGTATATATATTTATGTATAGTATTATTTTTTATTACTTTATTTTAATATT-TTATTATAT
1 TATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTCTAATATTATTATTATAT
* * * * * **
4045762 TTACTTTTTGTATTTCAATATTATTAC-----T-ATTATCATTATTATTGTTAGTGTATATTTTT
66 TTGCTTTTTGTATTTCAATATTATTACTAGTATCATTATCATTATTAATATTAGTGTACATATAC
4045821 ATTATATATGTATG
131 ATTATATATGTATG
* * * *
4045835 TATATGTACATATATATATTTGTATATAGTTTTATTTTTTATTACTTTATTTTAATATTTTTATT
1 TATATG----TATATATATTTATATATAGTATTATTTTTTATTACTTTATTCTAATATTATTATT
*
4045900 ATATTTTCTTTTTGTATTTC-A-A-TATTACTA-T-T-A-T-T-ATTA-T-ATATTAGTG----T
62 ATATTTGCTTTTTGTATTTCAATATTATTACTAGTATCATTATCATTATTAATATTAGTGTACAT
* * * *
4045950 ATACTTTTTATTATATACG
127 ATACATTATA-TATGTATG
* *
4045969 TATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
1 TATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTCTAATATTATTATTATAT
* * * * * **
4046034 TTTCTTTTTGTATTTCAATATTATTACTATTATCATTATTATTATTAATATTAGTGTATATTTTT
66 TTGCTTTTTGTATTTCAATATTATTACTAGTATCATTATCATTATTAATATTAGTGTACATATAC
4046099 ATTATATATGTATG
131 ATTATATATGTATG
*
4046113 TATATGTATATATATTTATATATAGTATTATTCTTTTATTACTTTGTTCTAATATTATTATTATA
1 TATATGTATATATATTTATATATAGTATTATT-TTTTATTACTTTATTCTAATATTATTATTATA
* * * *
4046178 TTTGCTTTTTGTATTTCATTATTATTGCTAGTATTATTATCATTA-TCATCATTA-T-TAACATA
65 TTTGCTTTTTGTATTTCAATATTATTACTAGTATCATTATCATTATTAAT-ATTAGTGT-ACATA
4046240 TACA-TATATATGT
128 TACATTATATATGT
4046253 GTATCTTTCA
Statistics
Matches: 355, Mismatches: 36, Indels: 48
0.81 0.08 0.11
Matches are distributed among these distances:
130 73 0.21
131 1 0.00
132 1 0.00
133 14 0.04
134 13 0.04
135 1 0.00
136 1 0.00
137 14 0.04
138 2 0.01
139 14 0.04
140 3 0.01
141 57 0.16
142 26 0.07
143 10 0.03
144 47 0.13
145 78 0.22
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (144 bp):
TATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTCTAATATTATTATTATAT
TTGCTTTTTGTATTTCAATATTATTACTAGTATCATTATCATTATTAATATTAGTGTACATATAC
ATTATATATGTATG
Found at i:4046331 original size:275 final size:275
Alignment explanation
Indices: 4045652--4046345 Score: 670
Period size: 275 Copynumber: 2.5 Consensus size: 275
4045642 TATTAATTAT
* * * * * ** * *
4045652 TATTATTATTATTATTATA-TTTAGTGTATACTTTTTATTAGATACATATATGTATATATATTTA
1 TATTACTAGTATTATTATACATTAGTGCATACTTATTAACATATACATATATATATATATATTTA
* * * * ** * *
4045716 TGTATAGTATTATTTTTTATTACTTTATTTTAATATT-TTATTATA-TTTACTTTTTGTATTTCA
66 TATACAGTATTATATTTTACTACTTTATTCAAATATTATTATTATATTTTA-TTTATGTATTACA
*
4045779 ATATTATTACTATTATCA-T-T-ATTA-T--TGTTAGTGTATATTTTTATTATATATGTATGTAT
130 ATATTATTACTATTATCATTATCATTATTAATATTAGTGTATATTTTTATTATATATGTATGTAT
* * * *
4045838 ATGTACATATATATATTTGTATATAGTTTTATTTTTTATTACTTTATTTTAATATTTTTATTATA
195 ATG---ATATATATATTTATATATAGTATTATTTTTTATTACTTTATTCTAATATTATTATTATA
*
4045903 TTTTCTTTTTGTATTTCAA
257 TTTGCTTTTTGTATTTCAA
* * * * ** * *
4045922 TATTACTATTATTATTATATATTAGTGTATACTTTTTATTATATACGTATATGTATATATATTTA
1 TATTACTAGTATTATTATACATTAGTGCATACTTATTAACATATACATATATATATATATATTTA
* * * ** * * * *
4045987 TATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTTCTTTTTGTATTTCAA
66 TATACAGTATTATATTTTACTACTTTATTCAAATATTATTATTATATTTTATTTATGTATTACAA
*
4046052 TATTATTACTATTATCATTATTATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATA
131 TATTATTACTATTATCATTATCATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATA
*
4046117 TG-TATATATATTTATATATAGTATTATTCTTTTATTACTTTGTTCTAATATTATTATTATATTT
196 TGATATATATATTTATATATAGTATTATT-TTTTATTACTTTATTCTAATATTATTATTATATTT
4046181 GCTTTTTGTATTTCATTA
260 GCTTTTTGTATTTCA--A
* * * *
4046199 TTATTGCTAGTATTATTAT-CATTA-T-CAT-CATTATTAACATATACATATATATGTGTATCTT
1 -TATTACTAGTATTATTATACATTAGTGCATAC-TTATTAACATATACATATATATATATATATT
* *
4046260 TCATGTACA-TATTAATATTTT-CTACTATTATTACAAATA-TATTATT-TCTTTTATTATAT-T
64 T-ATATACAGTATT-ATATTTTACTACT-TTATT-CAAATATTATTATTATATTTTATT-TATGT
* **
4046320 ATTAGAATATTATTTTTATTATCATT
124 ATTACAATATTATTACTATTATCATT
4046346 TTCTATATTG
Statistics
Matches: 366, Mismatches: 39, Indels: 33
0.84 0.09 0.08
Matches are distributed among these distances:
270 18 0.05
271 78 0.21
272 39 0.11
273 4 0.01
274 26 0.07
275 114 0.31
276 26 0.07
277 9 0.02
278 52 0.14
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (275 bp):
TATTACTAGTATTATTATACATTAGTGCATACTTATTAACATATACATATATATATATATATTTA
TATACAGTATTATATTTTACTACTTTATTCAAATATTATTATTATATTTTATTTATGTATTACAA
TATTATTACTATTATCATTATCATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATA
TGATATATATATTTATATATAGTATTATTTTTTATTACTTTATTCTAATATTATTATTATATTTG
CTTTTTGTATTTCAA
Found at i:4050388 original size:27 final size:26
Alignment explanation
Indices: 4050357--4050418 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
4050347 TTTCCTTTAA
*
4050357 TAATATTTTTATCAATTTTGAAAA-TTC
1 TAATATTTTCAT-AATTTT-AAAATTTC
*
4050384 TAATAATTTTCATTATTTTAAAATTTC
1 TAAT-ATTTTCATAATTTTAAAATTTC
4050411 TAAT-TTTT
1 TAATATTTT
4050419 AAAATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 4 0.13
26 4 0.13
27 16 0.52
28 7 0.23
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (26 bp):
TAATATTTTCATAATTTTAAAATTTC
Found at i:4050429 original size:20 final size:21
Alignment explanation
Indices: 4050404--4050443 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
4050394 CATTATTTTA
4050404 AAATTTCTA-ATTTTTAAAAT
1 AAATTTCTATATTTTTAAAAT
4050424 AAATTTCTATTATTTTTAAA
1 AAATTTCTA-TATTTTTAAA
4050444 TTTTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATTTCTATATTTTTAAAAT
Found at i:4050445 original size:17 final size:18
Alignment explanation
Indices: 4050423--4050461 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4050413 ATTTTTAAAA
*
4050423 TAAA-TTTCTATTATTTT
1 TAAATTTTCTATAATTTT
*
4050440 TAAATTTTTTATAATTTT
1 TAAATTTTCTATAATTTT
4050458 TAAA
1 TAAA
4050462 AACTTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TAAATTTTCTATAATTTT
Found at i:4051277 original size:10 final size:11
Alignment explanation
Indices: 4051255--4051279 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4051245 AAATTTTTTA
4051255 TTTTAGAATTT
1 TTTTAGAATTT
4051266 TTTTAGAATTT
1 TTTTAGAATTT
4051277 TTT
1 TTT
4051280 GTATATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTAGAATTT
Found at i:4051320 original size:18 final size:19
Alignment explanation
Indices: 4051299--4051341 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
4051289 AAAAAAAATA
*
4051299 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTATTTTG
4051317 AATTTTAAAAATTATTTTG
1 AATTTTAAAAATTATTTTG
4051336 AATTTT
1 AATTTT
4051342 TTTTTGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTG
Found at i:4051440 original size:9 final size:9
Alignment explanation
Indices: 4051426--4051455 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4051416 ATACTAATAT
4051426 ATTATTCGA
1 ATTATTCGA
4051435 ATTATTCGA
1 ATTATTCGA
*
4051444 GTTATTCGA
1 ATTATTCGA
4051453 ATT
1 ATT
4051456 GTGAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (9 bp):
ATTATTCGA
Found at i:4063037 original size:27 final size:28
Alignment explanation
Indices: 4063015--4063071 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
4063005 TTATTTTGTA
4063015 TTTAAATATTTTTT-TAGAAATTTATGAT
1 TTTAAAT-TTTTTTATAGAAATTTATGAT
*
4063043 TTTTAATTTTTTTATAGAAATTTATGAT
1 TTTAAATTTTTTTATAGAAATTTATGAT
4063071 T
1 T
4063072 CTTTTTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (28 bp):
TTTAAATTTTTTTATAGAAATTTATGAT
Found at i:4065765 original size:31 final size:32
Alignment explanation
Indices: 4065730--4065803 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
4065720 TTAATAAAAT
**
4065730 ATTTGGTAAC-TGAATTTGA-TAATTTTTCTTA
1 ATTTGGTAACTTGAACCTGACT-ATTTTTCTTA
4065761 ATTTGGT-ACTTGAACCTGACTATTTTTCTTA
1 ATTTGGTAACTTGAACCTGACTATTTTTCTTA
4065792 ATTTGGT-ACTTG
1 ATTTGGTAACTTG
4065804 TCAAACGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 2 0.05
31 36 0.92
32 1 0.03
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (32 bp):
ATTTGGTAACTTGAACCTGACTATTTTTCTTA
Found at i:4066986 original size:18 final size:18
Alignment explanation
Indices: 4066963--4067005 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4066953 GAATAAGTTT
4066963 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
4066981 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
4066999 TTAATTA
1 TTAATTA
4067006 TGCTTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:4068686 original size:26 final size:26
Alignment explanation
Indices: 4068646--4068703 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
4068636 TGATACAAAT
4068646 TGATAATAGGCTAGGTAAATGTTCCA
1 TGATAATAGGCTAGGTAAATGTTCCA
* * *
4068672 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGCTAGGTAAATGTTCCA
4068698 TGATAA
1 TGATAA
4068704 GAATTTCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (26 bp):
TGATAATAGGCTAGGTAAATGTTCCA
Found at i:4074436 original size:18 final size:18
Alignment explanation
Indices: 4074413--4074502 Score: 64
Period size: 18 Copynumber: 5.2 Consensus size: 18
4074403 AGTATAAATG
4074413 ATATACAAAAT-AATATAT
1 ATATACAAAATAAATA-AT
4074431 ATATAC-AAATAAATAAT
1 ATATACAAAATAAATAAT
* *
4074448 ATACACAAAATACA-AAT
1 ATATACAAAATAAATAAT
** * *
4074465 AGCT-TAATATAAATAAT
1 ATATACAAAATAAATAAT
*
4074482 ATATATAAAA-ATAATAAT
1 ATATACAAAATA-AATAAT
4074500 ATA
1 ATA
4074503 ATATTTAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
16 6 0.11
17 21 0.38
18 29 0.52
ACGTcount: A:0.62, C:0.07, G:0.01, T:0.30
Consensus pattern (18 bp):
ATATACAAAATAAATAAT
Found at i:4074455 original size:17 final size:17
Alignment explanation
Indices: 4074406--4074456 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
4074396 ACGAAACAGT
*
4074406 ATAAATGATATACA-AA
1 ATAAATAATATACACAA
*
4074422 AT-AATATATATATACAA
1 ATAAATA-ATATACACAA
4074439 ATAAATAATATACACAA
1 ATAAATAATATACACAA
4074456 A
1 A
4074457 ATACAAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.10
16 8 0.28
17 14 0.48
18 4 0.14
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (17 bp):
ATAAATAATATACACAA
Found at i:4074503 original size:23 final size:21
Alignment explanation
Indices: 4074473--4074515 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4074463 ATAGCTTAAT
4074473 ATAAATAATATATATAAAAATA
1 ATAAATAATATATA-AAAAATA
*
4074495 ATAATATAATATTTAAAAAAT
1 ATAA-ATAATATATAAAAAAT
4074516 GTTCATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAATAATATATAAAAAATA
Found at i:4075062 original size:13 final size:13
Alignment explanation
Indices: 4075044--4075069 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4075034 GGTAATGGGG
4075044 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
4075057 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
4075070 GGAATTAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:4075109 original size:17 final size:17
Alignment explanation
Indices: 4075087--4075121 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4075077 GTGGCAAGTA
4075087 GGGTGATGGAGTTAGTG
1 GGGTGATGGAGTTAGTG
4075104 GGGTGATGGAGTTAGTG
1 GGGTGATGGAGTTAGTG
4075121 G
1 G
4075122 TCGGTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.54, T:0.29
Consensus pattern (17 bp):
GGGTGATGGAGTTAGTG
Found at i:4075724 original size:134 final size:134
Alignment explanation
Indices: 4075570--4075835 Score: 408
Period size: 134 Copynumber: 2.0 Consensus size: 134
4075560 GATAAGGCCG
* * * *
4075570 GTGGTTAAAATCTGCTCCATAGCCGATACATGGAGATAAAACCCGCCATTTTTTATCTACTCTAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAAACCCGCCATTTCTGATCTACTCCAT
* **
4075635 AGCCAATACATGGAGATAAGATCTGTAA-TTCTTCAGTCTGCTTCCTGTAACTTCAGGAAGATAA
66 AGCCAATACATGGAGATAAGATCTATAACTT-TTCAGTCTGCTTCCTACAACTTCAGGAAGATAA
4075699 GACTA
130 GACTA
* * *
4075704 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAAACCCGCCATTTCTGATCTACTCCAT
* *
4075769 AGCCAATACATGGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTACAACTTTAGGAATATAAG
66 AGCCAATACATGGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAG
4075834 AC
131 AC
4075836 CTGTATTTTC
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
134 117 0.98
135 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (134 bp):
GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAAACCCGCCATTTCTGATCTACTCCAT
AGCCAATACATGGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAG
ACTA
Found at i:4075908 original size:178 final size:178
Alignment explanation
Indices: 4075693--4076367 Score: 1050
Period size: 178 Copynumber: 3.8 Consensus size: 178
4075683 AACTTCAGGA
* *
4075693 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA-TTTCT
1 AGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTC-
* *
4075757 GATCTGCTCCATAGCCAATACATGGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTACAACTT
65 GATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTGCAACTT
* * * *
4075822 TAGGAATATAAGACCTGTATTTTCAACCTGCTCTCTTGCTACCTCAGAG
130 CAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAG
* * *
4075871 AGATGAGGCTGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAGACCCGCCATTTTCG
1 AGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCG
* *
4075936 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTC
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTGCAACTTC
* *
4076001 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGTTACATCAGAG
131 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAG
* * *
4076049 AGATAAGGCTGGTGGCTAAAATTTGCTCCATAGCCAATACATGGAGATAAGACTCACCA-TTTCT
1 AGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTC-
*
4076113 GATCTGCTCCATAGCCGATACATAGAGATAAGATCTATAA-TTTTCAGTCTGCTTCCTGCAACTT
65 GATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTGCAACTT
* * *
4076177 CAGGAAGATAAGGCTTTTATCTTCAACCTGCTCTCTTTCTACCTCAGAG
130 CAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAG
* * *
4076226 AGATAAGGGTGGTGGCTAAAATCTACTCCATAGCCCATACATGGAGATAAGACTCGCCATTTTCG
1 AGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCG
* * *
4076291 ATCTGTTCCATAGCTGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTC
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTGCAACTTC
*
4076356 AGGAATATAAGA
131 AGGAAGATAAGA
4076368 TTAGTGGCTA
Statistics
Matches: 454, Mismatches: 39, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
177 162 0.36
178 288 0.63
179 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (178 bp):
AGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCG
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTGCAACTTC
AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAG
Found at i:4075958 original size:312 final size:311
Alignment explanation
Indices: 4075368--4076014 Score: 956
Period size: 312 Copynumber: 2.1 Consensus size: 311
4075358 ACCTGTTCCA
* * ** * *
4075368 CTGCAACTTCAGGGAGATGAGGTTAATGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAG
1 CTGCAACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAG
* ** * *
4075433 ACTTGCCATTTCTGATCTACTCCATAGCTGATATATGGAGATAAGATCCGTAATTTTCAGTCTGC
66 ACTCGCCATTTCTGATCTACTCCATAGCCAATACATGGAGATAAGATCCATAATTTTCAGTCTGC
* * *
4075498 TTCTTGCAACTTCAAGAAGATAAGACTAGTATCTTCAACCTGCTCTCTTGCAACCTTAAAGAGAT
131 TTCCTACAACTTCAAGAAGATAAGACTAGTATCTTCAACCTGCTCTCTTGCAACCTCAAAGAGAT
* * **
4075563 AAGGCCGGTGGTTAAAATCTGCTCCATAGCCGATACATGGAGATAAAACCCGCCATTTTTTATCT
196 AAGGCCGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAAACCCGCCATTTTCGATCT
*
4075628 ACTCTATAGCCAATACATGGAGATAAGATCTGT-AATTCTTCAGTCTGCTTC
261 ACTCCATAGCCAATACATGGAGATAAGATCTGTAAATT-TTCAGTCTGCTTC
*
4075679 CTGTAACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAG
1 CTGCAACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAG
* *
4075744 ACTCGCCATTTCTGATCTGCTCCATAGCCAATACATGGAGATAAGATCTATAACTTTTCAGTCTG
66 ACTCGCCATTTCTGATCTACTCCATAGCCAATACATGGAGATAAGATCCATAA-TTTTCAGTCTG
* * * * * *
4075809 CTTCCTACAACTTTAGGAATATAAGACCT-GTATTTTCAACCTGCTCTCTTGCTACCTCAGAGAG
130 CTTCCTACAACTTCAAGAAGATAAGA-CTAGTATCTTCAACCTGCTCTCTTGCAACCTCAAAGAG
* * *
4075873 ATGAGGCTGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAGACCCGCCATTTTCGAT
194 ATAAGGCCGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAAACCCGCCATTTTCGAT
* *
4075938 CTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTC
259 CTACTCCATAGCCAATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTC
4075991 CTGCAACTTCAGGAAGATAAGACT
1 CTGCAACTTCAGGAAGATAAGACT
4076015 TGTATCTTCA
Statistics
Matches: 299, Mismatches: 34, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
311 104 0.35
312 189 0.63
313 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (311 bp):
CTGCAACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAG
ACTCGCCATTTCTGATCTACTCCATAGCCAATACATGGAGATAAGATCCATAATTTTCAGTCTGC
TTCCTACAACTTCAAGAAGATAAGACTAGTATCTTCAACCTGCTCTCTTGCAACCTCAAAGAGAT
AAGGCCGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAAACCCGCCATTTTCGATCT
ACTCCATAGCCAATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTC
Found at i:4076158 original size:312 final size:310
Alignment explanation
Indices: 4075368--4076100 Score: 782
Period size: 312 Copynumber: 2.4 Consensus size: 310
4075358 ACCTGTTCCA
* * ** * * * *
4075368 CTGCAACTTCAGGGAGATGAGGTTAATGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAG
1 CTGCAACTTCAGGAAGATAAGACTAGTAGCTAAAACCTGCTCCATAGACGATACATGGAGATAAG
* ** * * ** * *** *
4075433 ACTTGCCATTTCTGATCTACTCCATAGCTGATATATGGAGATAAGATCCGTAA-TTTTCAGTCTG
66 ACTCG-CATGGCTAATCTGCTCCATAGCCAATACATGGAGATAAGATCTACAACATTTCAGTCTG
* * * * *
4075497 CTTCTTGCAACT-TCAAGAAGATAAGACTAGTATCTTCAACCTGCTCTCTTGCAACCTTAAAGAG
130 CTTCCTACAACTAT-AGGAAGATAAGACTA-TATTTTCAACCTGCTCTCTTGCAACCTCAAAGAG
* * **
4075561 ATAAGGCCGGTGGTTAAAATCTGCTCCATAGCCGATACATGGAGATAAAACCCGCCATTTTTTAT
193 ATAAGGCCGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAAACCCGCCATTTTCGAT
*
4075626 CTACTCTATAGCCAATACATGGAGATAAGATCTGTAATTCTTCAGTCTGCTTC
258 CTACTCCATAGCCAATACATGGAGATAAGATCTGTAATTCTTCAGTCTGCTTC
* * * *
4075679 CTGTAACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAG
1 CTGCAACTTCAGGAAGATAAGACTAGTAGCTAAAACCTGCTCCATAGACGATACATGGAGATAAG
** * * *
4075744 ACTCGCCATTTCTGATCTGCTCCATAGCCAATACATGGAGATAAGATCTATAACTTTTCAGTCTG
66 ACTCG-CATGGCTAATCTGCTCCATAGCCAATACATGGAGATAAGATCTACAACATTTCAGTCTG
* * * * *
4075809 CTTCCTACAACTTTAGGAATATAAGACCTGTATTTTCAACCTGCTCTCTTGCTACCTCAGAGAGA
130 CTTCCTACAACTATAGGAAGATAAGA-CTATATTTTCAACCTGCTCTCTTGCAACCTCAAAGAGA
* * *
4075874 TGAGGCTGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAGACCCGCCATTTTCGATC
194 TAAGGCCGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAAACCCGCCATTTTCGATC
* *
4075939 TGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATT-TTCAGTCTGCTTC
259 TACTCCATAGCCAATACATGGAGATAAGATCTGT-AATTCTTCAGTCTGCTTC
* * ** *
4075991 CTGCAACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTC-TTGTTAC-AT-CA-GAGAGA
1 CTGCAACTTCAGGAAGATAAGACTAGTAGCTAAAACCTGCTC-CATAG--ACGATACATG-GAGA
* * *
4076052 TAAGGCT-G-GTGGCTAAAATTTGCTCCATAGCCAATACATGGAGATAAGA
62 TAAGACTCGCATGGCT--AATCTGCTCCATAGCCAATACATGGAGATAAGA
4076101 CTCACCATTT
Statistics
Matches: 364, Mismatches: 48, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
309 3 0.01
311 137 0.38
312 213 0.59
313 10 0.03
314 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (310 bp):
CTGCAACTTCAGGAAGATAAGACTAGTAGCTAAAACCTGCTCCATAGACGATACATGGAGATAAG
ACTCGCATGGCTAATCTGCTCCATAGCCAATACATGGAGATAAGATCTACAACATTTCAGTCTGC
TTCCTACAACTATAGGAAGATAAGACTATATTTTCAACCTGCTCTCTTGCAACCTCAAAGAGATA
AGGCCGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAAACCCGCCATTTTCGATCTA
CTCCATAGCCAATACATGGAGATAAGATCTGTAATTCTTCAGTCTGCTTC
Found at i:4076288 original size:355 final size:356
Alignment explanation
Indices: 4075693--4076367 Score: 1118
Period size: 355 Copynumber: 1.9 Consensus size: 356
4075683 AACTTCAGGA
* *
4075693 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCACCATTTCTG
* *
4075758 ATCTGCTCCATAGCCAATACATGGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTACAACTTT
66 ATCTGCTCCATAGCCAATACATAGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTACAACTTC
* * *
4075823 AGGAATATAAGACCTGTATTTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGCT
131 AGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
* *
4075888 AAAATCTGCTCCACAGCCGATACATGGAGATAAGACCCGCCATTTTCGATCTGCTCCATAGCCGA
196 AAAATCTACTCCACAGCCCATACATGGAGATAAGACCCGCCATTTTCGATCTGCTCCATAGCCGA
4075953 TACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGT
261 TACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGT
4076018 ATCTTCAACCTGCTCTCTTGTTACATCAGAG
326 ATCTTCAACCTGCTCTCTTGTTACATCAGAG
* * *
4076049 AGATAAGGCTGGTGGCTAAAATTTGCTCCATAGCCAATACATGGAGATAAGACTCACCATTTCTG
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCACCATTTCTG
* *
4076114 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTATAA-TTTTCAGTCTGCTTCCTGCAACTTC
66 ATCTGCTCCATAGCCAATACATAGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTACAACTTC
* * * * *
4076178 AGGAAGATAAGGCTTTTATCTTCAACCTGCTCTCTTTCTACCTCAGAGAGATAAGGGTGGTGGCT
131 AGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
* * * *
4076243 AAAATCTACTCCATAGCCCATACATGGAGATAAGACTCGCCATTTTCGATCTGTTCCATAGCTGA
196 AAAATCTACTCCACAGCCCATACATGGAGATAAGACCCGCCATTTTCGATCTGCTCCATAGCCGA
* *
4076308 TACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTCAGGAATATAAGA
261 TACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGA
4076368 TTAGTGGCTA
Statistics
Matches: 294, Mismatches: 25, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
355 197 0.67
356 97 0.33
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (356 bp):
AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCACCATTTCTG
ATCTGCTCCATAGCCAATACATAGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTACAACTTC
AGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
AAAATCTACTCCACAGCCCATACATGGAGATAAGACCCGCCATTTTCGATCTGCTCCATAGCCGA
TACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGT
ATCTTCAACCTGCTCTCTTGTTACATCAGAG
Found at i:4076400 original size:89 final size:89
Alignment explanation
Indices: 4076291--4076456 Score: 287
Period size: 89 Copynumber: 1.9 Consensus size: 89
4076281 GCCATTTTCG
* * *
4076291 ATCTGTTCCATAGCTGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTC
* *
4076356 AGGAATATAAGATTAGTGGCTAAA
66 AGAAAGATAAGATTAGTGGCTAAA
4076380 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTC
4076445 AGAAAGATAAGA
66 AGAAAGATAAGA
4076457 CCTGTATCTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (89 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTC
AGAAAGATAAGATTAGTGGCTAAA
Found at i:4076685 original size:267 final size:266
Alignment explanation
Indices: 4076119--4076603 Score: 688
Period size: 267 Copynumber: 1.8 Consensus size: 266
4076109 TTCTGATCTG
* * * *
4076119 CTCCATAGCCGATACATAGAGATAAGATCTATAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAG
1 CTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGAAAG
* * * * * * *
4076184 ATAAGGCTTTTATCTTCAACCTGCTCTCTTTCTACCTCAGAGAGATAAGGGTGGTGGCTAAAATC
66 ATAAGACCTGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATA
* * *
4076249 TACTCCATAGCCCATACATGGAGATAAGACTCGCCATTTTCGATCTGTTCCATAGCTGATACATG
131 TACTCCATAGCCCATACATGGAGATAAGACTCACCATTTTCGATCTGTTCCATAGCCGATACATA
* * * * ***
4076314 GAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTCAGGAATATAAGATTAGTGGCTAA
196 GAGATAAGATCTATAACTTTGCAGTCTGCTTCCTACAACTTCAGGAATATAAGACTAGCAACTAA
* *
4076379 AATCTG
261 AATATA
4076385 CTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTCAGAAA
1 CTCCATAGCCGATACATGGAGATAAGATCTGTAA-TTTTCAGTCTGCTTCCTACAACTTCAGAAA
*
4076450 GATAAGACCTGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGCTAAAAT
65 GATAAGACCTGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAAT
* *
4076515 ATGCTCCATAGCCGATACATGGAGATAAGACTCACCA-TTTCTGATCTGCTT-CATAGCCGATAC
130 ATACTCCATAGCCCATACATGGAGATAAGACTCACCATTTTC-GATCTG-TTCCATAGCCGATAC
4076578 ATAGAGATAAGATCTATAA-TTTGCAG
193 ATAGAGATAAGATCTATAACTTTGCAG
4076604 CTTGTTACCC
Statistics
Matches: 197, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
266 42 0.21
267 153 0.78
268 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (266 bp):
CTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGAAAG
ATAAGACCTGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATA
TACTCCATAGCCCATACATGGAGATAAGACTCACCATTTTCGATCTGTTCCATAGCCGATACATA
GAGATAAGATCTATAACTTTGCAGTCTGCTTCCTACAACTTCAGGAATATAAGACTAGCAACTAA
AATATA
Found at i:4076805 original size:64 final size:64
Alignment explanation
Indices: 4076704--4076828 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 64
4076694 TCATGTATAT
* * *
4076704 ATGCTTATGCCAAACAGTTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAGCTAGATGTG
1 ATGCTTATGCCAAACAATTAGGATGCTATGACCAAAATGAATCAAATGCTCCTAACTAGATGTG
*
4076768 ATGCTTATGCCAAATAATTAGGATGCTATGACCAAAATGAATCAAATGCTCCTAACTAGAT
1 ATGCTTATGCCAAACAATTAGGATGCTATGACCAAAATGAATCAAATGCTCCTAACTAGAT
4076829 ATACTATGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (64 bp):
ATGCTTATGCCAAACAATTAGGATGCTATGACCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:4078441 original size:11 final size:10
Alignment explanation
Indices: 4078425--4078474 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
4078415 CTACAATCTC
*
4078425 TTTTTGTTGT
1 TTTTTTTTGT
4078435 TTTTTTGTTGT
1 TTTTTT-TTGT
*
4078446 TTTTTCTTTCT
1 TTTTT-TTTGT
*
4078457 TTCTTTTTGT
1 TTTTTTTTGT
4078467 TTTTTTTT
1 TTTTTTTT
4078475 TCTTTTTGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 16 0.48
11 16 0.48
12 1 0.03
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:4079709 original size:22 final size:21
Alignment explanation
Indices: 4079660--4079736 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
4079650 GCCCCTTTAT
* *
4079660 ATTAAACCCCAAAACCCATCAT
1 ATTAAA-CCCAAAACCCAACAA
* *
4079682 ACTAAACCCCAAAACCCAACAC
1 ATTAAA-CCCAAAACCCAACAA
* *
4079704 ATTAAA-CTACAACCCAACAA
1 ATTAAACCCAAAACCCAACAA
4079724 ATTAAACCCAAAA
1 ATTAAACCCAAAA
4079737 TTTTACCCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 17 0.38
21 4 0.09
22 24 0.53
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (21 bp):
ATTAAACCCAAAACCCAACAA
Found at i:4080426 original size:11 final size:11
Alignment explanation
Indices: 4080412--4080448 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
4080402 TCCCTCTCCC
4080412 TTCTCTCTTCT
1 TTCTCTCTTCT
4080423 TTCTCTCTTCT
1 TTCTCTCTTCT
4080434 TT-T-T-TTCT
1 TTCTCTCTTCT
4080442 TTCTCTC
1 TTCTCTC
4080449 CTCACCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.26
9 2 0.09
10 2 0.09
11 13 0.57
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (11 bp):
TTCTCTCTTCT
Found at i:4081175 original size:22 final size:20
Alignment explanation
Indices: 4081147--4081194 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
4081137 CTCAACTTTA
*
4081147 ATATATATTACGTATAGTATTT
1 ATATATAGTACGTATA-TA-TT
4081169 ATATATAGTACGTATATATT
1 ATATATAGTACGTATATATT
4081189 ATATAT
1 ATATAT
4081195 GTGTTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 8 0.32
21 2 0.08
22 15 0.60
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (20 bp):
ATATATAGTACGTATATATT
Found at i:4081384 original size:2 final size:2
Alignment explanation
Indices: 4081377--4081404 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4081367 ATCCCATTTC
4081377 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
4081405 CTCCACTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4082200 original size:21 final size:18
Alignment explanation
Indices: 4082176--4082220 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
4082166 ACATTTCTAA
4082176 TATGTATTTCTAATACTATAT
1 TATGTATTTC--ATA-TATAT
4082197 TATGT-TTTCATATATAT
1 TATGTATTTCATATATAT
4082214 TATGTAT
1 TATGTAT
4082221 ACACTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
20 4 0.17
21 5 0.22
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TATGTATTTCATATATAT
Found at i:4082711 original size:24 final size:24
Alignment explanation
Indices: 4082682--4082728 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4082672 GTGTGTATAG
*
4082682 ATATTATGTAAATGTTTTAATATT
1 ATATTATATAAATGTTTTAATATT
* *
4082706 ATATTATATATATGTTTTTATAT
1 ATATTATATAAATGTTTTAATAT
4082729 ATTACGAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (24 bp):
ATATTATATAAATGTTTTAATATT
Found at i:4082990 original size:9 final size:9
Alignment explanation
Indices: 4082976--4083002 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4082966 ATATATCTTT
4082976 CTATTATTA
1 CTATTATTA
4082985 CTATTATTA
1 CTATTATTA
4082994 CTATTATTA
1 CTATTATTA
4083003 TTAGTATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
CTATTATTA
Found at i:4087599 original size:26 final size:26
Alignment explanation
Indices: 4087564--4087673 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
4087554 TGATACAAAT
*
4087564 TGATAATAGGTTAGGTAAATGTTCCT
1 TGATAATAGGTTAGGTAAATGTTCCA
4087590 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
4087616 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
4087642 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
4087668 TGATAA
1 TGATAA
4087674 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:4098295 original size:75 final size:72
Alignment explanation
Indices: 4098218--4098620 Score: 493
Period size: 75 Copynumber: 5.5 Consensus size: 72
4098208 TGTTTTCAAA
*
4098218 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTA
4098283 TGTTTTTC
65 TGTTTTTC
* * ** * *
4098291 AAAAATCAATTCATATTGCTAGAGGTGAACTGAGCCTCGGGTCACATACCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CAC--GCTGAGGTATTTTCAATT
***
4098356 TATGTTTCAAAA
63 TATGTTT--TTC
*
4098368 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGCACGCTGAGGTATTTTCAATTTA
4098433 TGTTTTTC
65 TGTTTTTC
4098441 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTA
4098505 TGTTTTTC
65 TGTTTTTC
* * * * * * *
4098513 AAAAATCAATTCACATTGCTAAAGGTGAATTGAACCTCGGGTCACATGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CAC--GCTGAGGTATTTTCAATT
***
4098578 TATGTTTCAA
63 TATGTTTTTC
* *
4098588 AAAAATCAACTCATATTGCGAGAAGTAAGTTGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
4098621 AGTCTTGGCT
Statistics
Matches: 281, Mismatches: 38, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
72 75 0.27
73 72 0.26
75 95 0.34
77 38 0.14
78 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTAT
GTTTTTC
Found at i:4099233 original size:22 final size:21
Alignment explanation
Indices: 4099208--4099260 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
4099198 CCCTTCATAC
*
4099208 TAAACCCCAAAACCCAACACAT
1 TAAA-CCCAAAACCCAACAAAT
* *
4099230 TAAA-CTACAACCCAACAAAT
1 TAAACCCAAAACCCAACAAAT
4099250 TAAACCCAAAA
1 TAAACCCAAAA
4099261 TTTTCCCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 17 0.68
21 4 0.16
22 4 0.16
ACGTcount: A:0.55, C:0.34, G:0.00, T:0.11
Consensus pattern (21 bp):
TAAACCCAAAACCCAACAAAT
Found at i:4100644 original size:22 final size:21
Alignment explanation
Indices: 4100616--4100657 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
4100606 CTCAACTTTA
*
4100616 ATATATATTACGTATAGTATTT
1 ATATATAGTACGTATA-TATTT
4100638 ATATATAGTACGTATATATT
1 ATATATAGTACGTATATATT
4100658 ATGTATGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (21 bp):
ATATATAGTACGTATATATTT
Found at i:4101645 original size:21 final size:18
Alignment explanation
Indices: 4101621--4101665 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
4101611 ACCTTTCTAA
4101621 TATGTATTTCTAATACTATAT
1 TATGTATTTC--ATA-TATAT
4101642 TATGT-TTTCATATATAT
1 TATGTATTTCATATATAT
4101659 TATGTAT
1 TATGTAT
4101666 ACACTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
20 4 0.17
21 5 0.22
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TATGTATTTCATATATAT
Found at i:4102150 original size:24 final size:24
Alignment explanation
Indices: 4102121--4102167 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4102111 GTGTGTATAG
*
4102121 ATATTATGTAAATGTTTTAATATT
1 ATATTATATAAATGTTTTAATATT
* *
4102145 ATATTATATATATGTTTTTATAT
1 ATATTATATAAATGTTTTAATAT
4102168 ATTACGAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (24 bp):
ATATTATATAAATGTTTTAATATT
Found at i:4102429 original size:9 final size:9
Alignment explanation
Indices: 4102415--4102441 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4102405 ATATATCTTT
4102415 CTATTATTA
1 CTATTATTA
4102424 CTATTATTA
1 CTATTATTA
4102433 CTATTATTA
1 CTATTATTA
4102442 TTAGTATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
CTATTATTA
Found at i:4107024 original size:23 final size:22
Alignment explanation
Indices: 4106994--4107037 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
4106984 ATAGCTTAAT
*
4106994 ATAAATAATATATATAAAAATA
1 ATAAATAATATATAAAAAAATA
*
4107016 ATAATATAATATTTAAAAAAAT
1 ATAA-ATAATATATAAAAAAAT
4107038 GTTCATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAAATAATATATAAAAAAATA
Found at i:4107106 original size:15 final size:14
Alignment explanation
Indices: 4107049--4107106 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
4107039 TTCATAAAAG
*
4107049 AGAAAATAAATAAA
1 AGAAAATAAACAAA
* *
4107063 ATATAATAAAACAAA
1 AGAAAAT-AAACAAA
*
4107078 ATGAAAATATACAAA
1 A-GAAAATAAACAAA
4107093 AGAAAATACAACAA
1 AGAAAATA-AACAA
4107107 GAAAAAATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.35
15 18 0.53
16 4 0.12
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (14 bp):
AGAAAATAAACAAA
Found at i:4107608 original size:24 final size:24
Alignment explanation
Indices: 4107581--4107626 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
4107571 GGGGTGATTT
4107581 AGTAGGGTGATGGAATTAGTGGCA
1 AGTAGGGTGATGGAATTAGTGGCA
*
4107605 AGTAGGGTGATGGAGTTAGTGG
1 AGTAGGGTGATGGAATTAGTGG
4107627 TCGGTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.02, G:0.46, T:0.26
Consensus pattern (24 bp):
AGTAGGGTGATGGAATTAGTGGCA
Found at i:4114033 original size:25 final size:25
Alignment explanation
Indices: 4113999--4114049 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
4113989 CCACAAAAGT
4113999 ATAGTAAAAAGATCATGAACCAACC
1 ATAGTAAAAAGATCATGAACCAACC
4114024 ATAGTAAAAAGATCATGAACCAACC
1 ATAGTAAAAAGATCATGAACCAACC
4114049 A
1 A
4114050 AAAGAAAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.20, G:0.12, T:0.16
Consensus pattern (25 bp):
ATAGTAAAAAGATCATGAACCAACC
Found at i:4121281 original size:21 final size:21
Alignment explanation
Indices: 4121242--4121281 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4121232 ACAAAAACTC
*
4121242 GAAATTCCAATTCTATCTTCT
1 GAAATTCCAATTATATCTTCT
* *
4121263 GAAATTTCAATTATTTCTT
1 GAAATTCCAATTATATCTT
4121282 ACTTGAAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.47
Consensus pattern (21 bp):
GAAATTCCAATTATATCTTCT
Found at i:4123059 original size:15 final size:15
Alignment explanation
Indices: 4123039--4123073 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4123029 TTGTTCTTAT
4123039 TTTTTGATCTTTT-TA
1 TTTTTGAT-TTTTCTA
4123054 TTTTTGATTTTTCTA
1 TTTTTGATTTTTCTA
4123069 TTTTT
1 TTTTT
4123074 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (15 bp):
TTTTTGATTTTTCTA
Found at i:4123082 original size:10 final size:9
Alignment explanation
Indices: 4123061--4123090 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4123051 TTATTTTTGA
*
4123061 TTTTTCTAT
1 TTTTTTTAT
4123070 TTTTTTTAT
1 TTTTTTTAT
4123079 TTTTTTTAT
1 TTTTTTTAT
4123088 TTT
1 TTT
4123091 ACAAATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:4130093 original size:25 final size:27
Alignment explanation
Indices: 4130056--4130108 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
4130046 TCAAACATGC
4130056 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
4130082 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
4130108 A
1 A
4130109 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:4132695 original size:21 final size:21
Alignment explanation
Indices: 4132669--4132722 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
4132659 TATAATATTC
4132669 TTTATTTTAAATTTCTTAATA
1 TTTATTTTAAATTTCTTAATA
* *
4132690 TTTATTTCAAATTTCTTTATA
1 TTTATTTTAAATTTCTTAATA
4132711 TATTATTTTAAA
1 T-TTATTTTAAA
4132723 CTATTTTACC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATTTTAAATTTCTTAATA
Found at i:4132759 original size:21 final size:21
Alignment explanation
Indices: 4132669--4132759 Score: 53
Period size: 21 Copynumber: 4.0 Consensus size: 21
4132659 TATAATATTC
* *
4132669 TTTATTTTAAATTTCTTA-ATA
1 TTTATTTTAAACTT-TTATTTA
*
4132690 TTTATTTCAAA-TTTCT-TTATA
1 TTTATTTTAAACTTT-TATT-TA
4132711 TATTATTTTAAACTATTTTACCTATTA
1 T-TTATTTTAAAC--TTTTA--T-TTA
4132738 TTTATTTTAAACTTTTATTTA
1 TTTATTTTAAACTTTTATTTA
4132759 T
1 T
4132760 ATGCATTACG
Statistics
Matches: 56, Mismatches: 3, Indels: 22
0.69 0.04 0.27
Matches are distributed among these distances:
19 1 0.02
20 3 0.05
21 17 0.30
22 10 0.18
24 6 0.11
25 3 0.05
26 11 0.20
27 4 0.07
28 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTTTAAACTTTTATTTA
Found at i:4132811 original size:23 final size:23
Alignment explanation
Indices: 4132781--4132827 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4132771 AGCTTAAACT
* *
4132781 ATTTTATATATTATTCACTTTAA
1 ATTTTATATAATATCCACTTTAA
*
4132804 ATTTTATATAATATCCATTTTAA
1 ATTTTATATAATATCCACTTTAA
4132827 A
1 A
4132828 ATGTTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTATATAATATCCACTTTAA
Found at i:4133111 original size:25 final size:27
Alignment explanation
Indices: 4133061--4133112 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
4133051 TTTATTCTAT
*
4133061 ACATATTATTTATTTTAAGTTCCTTTTC
1 ACATATTATTTATTTTAAG-TACTTTTC
4133089 ACATATTATTTATTTT-AG-ACTTTT
1 ACATATTATTTATTTTAAGTACTTTT
4133113 TATACACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
27 2 0.09
28 16 0.70
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.58
Consensus pattern (27 bp):
ACATATTATTTATTTTAAGTACTTTTC
Found at i:4133123 original size:28 final size:28
Alignment explanation
Indices: 4133058--4133123 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
4133048 CTTTTTATTC
*
4133058 TATACA-TATTATTTATTTTAAGTTCCTT
1 TATACACTATTATTTATTTTAACTT-CTT
4133086 T-T-CACATATTATTTATTTTAGACTT-TT
1 TATACAC-TATTATTTATTTTA-ACTTCTT
4133113 TATACACTATT
1 TATACACTATT
4133124 TAATCCAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
26 2 0.06
27 4 0.12
28 20 0.62
29 6 0.19
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (28 bp):
TATACACTATTATTTATTTTAACTTCTT
Found at i:4134722 original size:12 final size:12
Alignment explanation
Indices: 4134705--4134729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4134695 TATCATATAA
4134705 ATTTTCTTCTCT
1 ATTTTCTTCTCT
4134717 ATTTTCTTCTCT
1 ATTTTCTTCTCT
4134729 A
1 A
4134730 GAATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTTCTTCTCT
Found at i:4139749 original size:37 final size:37
Alignment explanation
Indices: 4139699--4139777 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
4139689 ATTAGTTGAA
4139699 GATTGAAGAAAAGGGTTTAATTAACGGAAGATTGTTT
1 GATTGAAGAAAAGGGTTTAATTAACGGAAGATTGTTT
*
4139736 GATTGAAGAAAAGGGTTTAATTGACGGAAGATTGTTT
1 GATTGAAGAAAAGGGTTTAATTAACGGAAGATTGTTT
4139773 GATTG
1 GATTG
4139778 GTGAGAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (37 bp):
GATTGAAGAAAAGGGTTTAATTAACGGAAGATTGTTT
Found at i:4139758 original size:18 final size:18
Alignment explanation
Indices: 4139700--4139759 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
4139690 TTAGTTGAAG
4139700 ATTGAAGAAAAGGGTTTA
1 ATTGAAGAAAAGGGTTTA
* ** *
4139718 ATT-AACGGAAGATTGTTTG
1 ATTGAA--GAAAAGGGTTTA
4139737 ATTGAAGAAAAGGGTTTA
1 ATTGAAGAAAAGGGTTTA
4139755 ATTGA
1 ATTGA
4139760 CGGAAGATTG
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 2 0.06
18 16 0.52
19 11 0.35
20 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.27, T:0.32
Consensus pattern (18 bp):
ATTGAAGAAAAGGGTTTA
Found at i:4144363 original size:21 final size:22
Alignment explanation
Indices: 4144337--4144384 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
4144327 AATATCAAAC
*
4144337 ATATTTTATTACTTAA-ATTTA
1 ATATTTTAATACTTAATATTTA
*
4144358 ATA-TTTAATATTTAATATTTA
1 ATATTTTAATACTTAATATTTA
4144379 ATATTT
1 ATATTT
4144385 ATTTTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 10 0.43
21 11 0.48
22 2 0.09
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTTTAATACTTAATATTTA
Found at i:4144403 original size:7 final size:7
Alignment explanation
Indices: 4144349--4144401 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
4144339 ATTTTATTAC
4144349 TTAA-AT
1 TTAATAT
4144355 TTAATAT
1 TTAATAT
4144362 TTAATAT
1 TTAATAT
4144369 TTAATAT
1 TTAATAT
4144376 TTAATAT
1 TTAATAT
* *
4144383 TTATTTT
1 TTAATAT
*
4144390 TTAATTT
1 TTAATAT
4144397 TTAAT
1 TTAAT
4144402 TTATTAGATC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
6 4 0.09
7 39 0.91
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTAATAT
Found at i:4145500 original size:11 final size:11
Alignment explanation
Indices: 4145472--4145508 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
4145462 TTGACCTTTC
4145472 CAAGGTATGGG
1 CAAGGTATGGG
*
4145483 -TAGGTATGGG
1 CAAGGTATGGG
4145493 CAAGGTATGGG
1 CAAGGTATGGG
4145504 CAAGG
1 CAAGG
4145509 AATGTGTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.27, C:0.08, G:0.46, T:0.19
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:4149597 original size:18 final size:18
Alignment explanation
Indices: 4149576--4149611 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4149566 GAACAGTACT
4149576 GTATACGTAAATAGTGCC
1 GTATACGTAAATAGTGCC
4149594 GTATACGTAAATAGTGCC
1 GTATACGTAAATAGTGCC
4149612 ATAAATGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
GTATACGTAAATAGTGCC
Found at i:4150178 original size:11 final size:11
Alignment explanation
Indices: 4150149--4150201 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
4150139 TGACCTTTCC
4150149 AAGGTATGGG-
1 AAGGTATGGGA
*
4150159 TAGGTATGGGA
1 AAGGTATGGGA
* *
4150170 AATGTATGGGC
1 AAGGTATGGGA
*
4150181 AAGGTATGGGC
1 AAGGTATGGGA
*
4150192 AAGGAATGGG
1 AAGGTATGGG
4150202 TATATTCTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
10 9 0.25
11 27 0.75
ACGTcount: A:0.30, C:0.04, G:0.45, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:4156935 original size:12 final size:13
Alignment explanation
Indices: 4156907--4156938 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4156897 AAAACATTAT
4156907 TATTATTTTACCA
1 TATTATTTTACCA
4156920 TATTATTTTA-CA
1 TATTATTTTACCA
4156932 TATTATT
1 TATTATT
4156939 GCTGTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTATTTTACCA
Found at i:4157140 original size:20 final size:21
Alignment explanation
Indices: 4157102--4157140 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4157092 ATATATGTCG
*
4157102 TATATGTTTATGTATATATCA
1 TATATGTTTATGTAGATATCA
4157123 TATATGTTT-TGTAGATAT
1 TATATGTTTATGTAGATAT
4157141 TATGTATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (21 bp):
TATATGTTTATGTAGATATCA
Found at i:4157405 original size:20 final size:19
Alignment explanation
Indices: 4157368--4157410 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
4157358 TATGATGTGT
*
4157368 ATATTATTATTTTATTTTA
1 ATATTATTATATTATTTTA
4157387 CATATTATGTATATT-TTTTA
1 -ATATTAT-TATATTATTTTA
4157407 ATAT
1 ATAT
4157411 CATATTATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
ATATTATTATATTATTTTA
Found at i:4157458 original size:23 final size:22
Alignment explanation
Indices: 4157427--4157482 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
4157417 ATTCATGTAT
4157427 TTTAT-TATATAT-GTATATATC
1 TTTATGTATATATAG-ATATATC
*
4157448 TTTAATGTATATATAGGTATATC
1 TTT-ATGTATATATAGATATATC
4157471 TTTATGTA-ATAT
1 TTTATGTATATAT
4157483 TAGTATTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 7 0.23
22 7 0.23
23 16 0.52
24 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.54
Consensus pattern (22 bp):
TTTATGTATATATAGATATATC
Found at i:4157812 original size:9 final size:9
Alignment explanation
Indices: 4157798--4157829 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
4157788 ATATATCTTT
4157798 CTATTATTA
1 CTATTATTA
4157807 CTATTATTA
1 CTATTATTA
4157816 CTATTATTA
1 CTATTATTA
*
4157825 TTATT
1 CTATT
4157830 GTGTGTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (9 bp):
CTATTATTA
Found at i:4159763 original size:100 final size:100
Alignment explanation
Indices: 4159590--4159790 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
4159580 TTCTTGGTAA
4159590 ACTTGTAATTAGAAATTATATAATTGTGACGACGTTGAGGAATTTTATTCTTAAAATTTTCCAGT
1 ACTTGTAATTAGAAATTATATAATTGTGACGACGTTGAGGAATTTTATTCTTAAAATTTTCCAGT
4159655 AAGACAAGATTCAGGGCGTTTGAAAATCAAAGGAG
66 AAGACAAGATTCAGGGCGTTTGAAAATCAAAGGAG
4159690 ACTTGTAATTAGAAATTATATAATTGTGACGACGTTGAGGAATTTTATTCTTAAAATTTTCCAGT
1 ACTTGTAATTAGAAATTATATAATTGTGACGACGTTGAGGAATTTTATTCTTAAAATTTTCCAGT
4159755 AAGACAAGATTCAGGGCGTTTGAAAATCAAAGGAG
66 AAGACAAGATTCAGGGCGTTTGAAAATCAAAGGAG
4159790 A
1 A
4159791 GGCAAAATTT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (100 bp):
ACTTGTAATTAGAAATTATATAATTGTGACGACGTTGAGGAATTTTATTCTTAAAATTTTCCAGT
AAGACAAGATTCAGGGCGTTTGAAAATCAAAGGAG
Found at i:4160765 original size:16 final size:17
Alignment explanation
Indices: 4160736--4160773 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
4160726 TCTATTTAAC
* *
4160736 ATAAAAATATACAACAA
1 ATAAAAATAAACAAAAA
4160753 ATAAAAA-AAACAAAAA
1 ATAAAAATAAACAAAAA
4160769 ATAAA
1 ATAAA
4160774 TTTTTTACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (17 bp):
ATAAAAATAAACAAAAA
Found at i:4160882 original size:11 final size:11
Alignment explanation
Indices: 4160866--4160899 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
4160856 TTCCCCCCTC
4160866 CCTTCTCTCTT
1 CCTTCTCTCTT
4160877 CCTTCTCTCTT
1 CCTTCTCTCTT
*
4160888 CCCTCTCTCTT
1 CCTTCTCTCTT
4160899 C
1 C
4160900 TTTTTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (11 bp):
CCTTCTCTCTT
Found at i:4161383 original size:6 final size:6
Alignment explanation
Indices: 4161383--4161416 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
4161373 TTATTAGTAT
4161383 TATTAG TATTAG TATTAG TATTATG TATTAG TAT
1 TATTAG TATTAG TATTAG TATTA-G TATTAG TAT
4161417 ATATTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (6 bp):
TATTAG
Found at i:4161547 original size:12 final size:12
Alignment explanation
Indices: 4161530--4161555 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4161520 TATTCCAATG
4161530 TTATCATTATTA
1 TTATCATTATTA
4161542 TTATCATTATTA
1 TTATCATTATTA
4161554 TT
1 TT
4161556 TTTATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATCATTATTA
Found at i:4161846 original size:64 final size:64
Alignment explanation
Indices: 4161772--4161903 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 64
4161762 GTCGTATTAT
*
4161772 TATATTTTAATATTA-TA-TTATATAATTATA-TA-TACATATATCTTTTATATATATTATCATT
1 TATATTTTAATATTATTAGTTATAT-ATTACACTATTACATATAT-TTTTATA-ATATTAT-ATT
4161833 GTA
62 GTA
* * *
4161836 TATATTTTAATATTATTAGTTATATTTTACACTATTATATATATTTTTCTAATATTATATTGTA
1 TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
4161900 TATA
1 TATA
4161904 CTGTCGTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
64 25 0.42
65 13 0.22
66 14 0.23
67 8 0.13
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (64 bp):
TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
Found at i:4161878 original size:19 final size:18
Alignment explanation
Indices: 4161834--4161893 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 18
4161824 ATTATCATTG
4161834 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
4161852 TAGTTATATTTTACACTATTAT
1 TA--TATATTTTA-A-TATTAT
*
4161874 ATATATTTTTCTAATATTAT
1 -TATATATTT-TAATATTAT
4161894 ATTGTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
20 15 0.43
21 8 0.23
22 8 0.23
23 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:4162337 original size:38 final size:37
Alignment explanation
Indices: 4162253--4162347 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
4162243 TATACGTACT
*
4162253 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
4162291 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
4162327 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
4162348 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:4164018 original size:30 final size:30
Alignment explanation
Indices: 4163982--4164038 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4163972 TATAATTTTT
4163982 TTAATTTATTTTGATATT-TGAATTTAACGA
1 TTAATTTATTTTGAT-TTCTGAATTTAACGA
*
4164012 TTAATTTATTTTTATTTCTGAATTTAA
1 TTAATTTATTTTGATTTCTGAATTTAA
4164039 ATTAGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.58
Consensus pattern (30 bp):
TTAATTTATTTTGATTTCTGAATTTAACGA
Found at i:4164462 original size:25 final size:24
Alignment explanation
Indices: 4164403--4164452 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
4164393 TAAGCCCCCC
4164403 AAAA-AAAACCTAACCCAAAAAAA
1 AAAAGAAAACCTAACCCAAAAAAA
**
4164426 AAAAGAAAAACCTAACCCCCAAAAA
1 AAAAG-AAAACCTAACCCAAAAAAA
4164451 AA
1 AA
4164453 TCAAGAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
25 19 0.83
ACGTcount: A:0.70, C:0.24, G:0.02, T:0.04
Consensus pattern (24 bp):
AAAAGAAAACCTAACCCAAAAAAA
Found at i:4164475 original size:8 final size:8
Alignment explanation
Indices: 4164462--4164486 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4164452 ATCAAGAAAC
4164462 CCTAGCCA
1 CCTAGCCA
4164470 CCTAGCCA
1 CCTAGCCA
4164478 CCTAGCCA
1 CCTAGCCA
4164486 C
1 C
4164487 TTGCCCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.52, G:0.12, T:0.12
Consensus pattern (8 bp):
CCTAGCCA
Found at i:4164703 original size:17 final size:17
Alignment explanation
Indices: 4164681--4164717 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
4164671 TTTTATCTTC
4164681 TTTATTTTACTCTTTAT
1 TTTATTTTACTCTTTAT
* *
4164698 TTTATTTTATTTTTTAT
1 TTTATTTTACTCTTTAT
4164715 TTT
1 TTT
4164718 TTCCTTTTTT
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:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTTACTCTTTAT
Found at i:4164775 original size:13 final size:13
Alignment explanation
Indices: 4164757--4164807 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
4164747 TATATACATC
4164757 ATAATAAAAAAAT
1 ATAATAAAAAAAT
*
4164770 ATAATAAAAATAT
1 ATAATAAAAAAAT
*
4164783 ATATACAAAACAAAT
1 ATA-ATAAAA-AAAT
4164798 ATAA-AAAAAA
1 ATAATAAAAAA
4164808 TTACCTTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 2 0.06
13 19 0.58
14 6 0.18
15 6 0.18
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:4165249 original size:11 final size:11
Alignment explanation
Indices: 4165231--4165260 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4165221 GTGTATATTG
4165231 TATATATTATA
1 TATATATTATA
*
4165242 TTTATATTATA
1 TATATATTATA
4165253 TATATATT
1 TATATATT
4165261 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:4165673 original size:16 final size:15
Alignment explanation
Indices: 4165649--4165683 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
4165639 TAATTATTAT
4165649 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
4165665 TATTTTAATATTTTA
1 TATTCTAATATTTTA
4165680 TATT
1 TATT
4165684 ATTCACATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:4169286 original size:12 final size:12
Alignment explanation
Indices: 4169269--4169296 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4169259 AACATTTTGA
4169269 CATTCATGCATT
1 CATTCATGCATT
4169281 CATTCATGCATT
1 CATTCATGCATT
4169293 CATT
1 CATT
4169297 AATACATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.43
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:4190558 original size:18 final size:17
Alignment explanation
Indices: 4190518--4190561 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
4190508 AAATAGACTC
*
4190518 TTTTTTGGTAAACTCTT
1 TTTTTTGGTAAACACTT
4190535 TTTTTTGGTAAACACTT
1 TTTTTTGGTAAACACTT
4190552 TTATTTTGGT
1 TT-TTTTGGT
4190562 CATCAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.18, C:0.09, G:0.14, T:0.59
Consensus pattern (17 bp):
TTTTTTGGTAAACACTT
Found at i:4196544 original size:43 final size:42
Alignment explanation
Indices: 4196480--4196760 Score: 231
Period size: 43 Copynumber: 6.5 Consensus size: 42
4196470 ATTTGTGGCG
* * *
4196480 TTTGTGGGAGAAGCGCCGCTAAAAG-ACGAGATTTTTAGCGGCA
1 TTTGTGGGAAAAGCGCCGCTAAAAGCACG-G-CTGTTAGCGGCA
* * *
4196523 TTTGTAGGAAAAGCGCTGCTAAAAGTCACGGCTGTTAGCGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAAG-CACGGCTGTTAGCGGCA
* * *
4196566 TTTGTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTTAGCGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAAG-CACGGCTGTTAGCGGCA
* * * * * *
4196609 TTTGTGGTATAAGCGTCGCTAAAAGTCACGTCTTTTAGCGACA
1 TTTGTGGGAAAAGCGCCGCTAAAAG-CACGGCTGTTAGCGGCA
* * * * * * *
4196652 TTTTTGGTAAAAGCACCGCTAAAAATCACGTCTTTTAGCGGCG
1 TTTGTGGGAAAAGCGCCGCT-AAAAGCACGGCTGTTAGCGGCA
* * * * * *
4196695 TTTGTAGAAAAAGCGCCGCTAAAAGTCACGTCTTTTGAACGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAAG-CACGGCTGTT-AGCGGCA
4196739 TTTGTGGGAAAAGCGCCGCTAA
1 TTTGTGGGAAAAGCGCCGCTAA
4196761 TTTTGGCAGA
Statistics
Matches: 203, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
42 4 0.02
43 165 0.81
44 31 0.15
45 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (42 bp):
TTTGTGGGAAAAGCGCCGCTAAAAGCACGGCTGTTAGCGGCA
Found at i:4196574 original size:86 final size:86
Alignment explanation
Indices: 4196476--4196760 Score: 355
Period size: 86 Copynumber: 3.3 Consensus size: 86
4196466 AAAAATTTGT
* *
4196476 GGCGTTTGTGGGAGAAGCGCCGCTAAAAGACGA-GAT-TTTTAGCGGCATTTGTAGGAAAAGCGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGAC-ACG-TCTTTTAGCGGCGTTTGTAGGAAAAGCGC
* *
4196539 TGCTAAAAGTCACGGCTGTTAGC
64 TGCTAAAAGTCACGTCTTTTAGC
* *
4196562 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTTAGCGGCGTTTGT-GGTATAAGCG-T
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGACACGTCTTTTAGCGGCGTTTGTAGG-AAAAGCGCT
4196625 CGCTAAAAGTCACGTCTTTTAGC
65 -GCTAAAAGTCACGTCTTTTAGC
* * * * * * *
4196648 GACATTTTTGGTAAAAGCACCGCTAAAA-ATCACGTCTTTTAGCGGCGTTTGTAGAAAAAGCGCC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGA-CACGTCTTTTAGCGGCGTTTGTAGGAAAAGCGCT
*
4196712 GCTAAAAGTCACGTCTTTTGAAC
65 GCTAAAAGTCACGTCTTTT-AGC
4196735 GGCGTTTGTGGGAAAAGCGCCGCTAA
1 GGCGTTTGTGGGAAAAGCGCCGCTAA
4196761 TTTTGGCAGA
Statistics
Matches: 170, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
85 5 0.03
86 141 0.83
87 24 0.14
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (86 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAAGACACGTCTTTTAGCGGCGTTTGTAGGAAAAGCGCTG
CTAAAAGTCACGTCTTTTAGC
Found at i:4196623 original size:129 final size:130
Alignment explanation
Indices: 4196476--4196760 Score: 380
Period size: 129 Copynumber: 2.2 Consensus size: 130
4196466 AAAAATTTGT
* * *
4196476 GGCGTTTGTGGGAGAAGCGCCGCTAAAAGACGA-GAT-TTTTAGCGGCATTTGTAGG-AAAAGCG
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGAC-ACG-TCTTTTAGCGACATTT-TAGGTAAAAGCA
* * * *
4196538 CTGCTAAAAGTCACGGCTGTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTT-
63 CCGCTAAAAATCACGGCTGTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTCACGTCTTTTG
*
4196602 AGC
128 AAC
* * * * *
4196605 GGCGTTTGTGGTATAAGCGTCGCTAAAAGTCACGTCTTTTAGCGACATTTTTGGTAAAAGCACCG
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGACACGTCTTTTAGCGACATTTTAGGTAAAAGCACCG
* *
4196670 CTAAAAATCACGTCTTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTCACGTCTTTTGAAC
66 CTAAAAATCACGGCTGTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTCACGTCTTTTGAAC
4196735 GGCGTTTGTGGGAAAAGCGCCGCTAA
1 GGCGTTTGTGGGAAAAGCGCCGCTAA
4196761 TTTTGGCAGA
Statistics
Matches: 135, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
128 5 0.04
129 105 0.78
130 25 0.19
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (130 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAAGACACGTCTTTTAGCGACATTTTAGGTAAAAGCACCG
CTAAAAATCACGGCTGTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTCACGTCTTTTGAAC
Found at i:4197684 original size:22 final size:22
Alignment explanation
Indices: 4197659--4197702 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
4197649 ATCCATCTTT
4197659 CTTCCTATGCGTAATCTCAAAA
1 CTTCCTATGCGTAATCTCAAAA
4197681 CTTCCTATGCGTAATCTCAAAA
1 CTTCCTATGCGTAATCTCAAAA
4197703 AGCTGAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTCCTATGCGTAATCTCAAAA
Found at i:4202743 original size:9 final size:9
Alignment explanation
Indices: 4202729--4202835 Score: 106
Period size: 9 Copynumber: 11.6 Consensus size: 9
4202719 ATGTATTAGT
4202729 TAAGTTATG
1 TAAGTTATG
4202738 TAAGTTGTTATG
1 TAA---GTTATG
*
4202750 TACGTTATG
1 TAAGTTATG
*
4202759 TGAGTTATG
1 TAAGTTATG
*
4202768 TAAATTATG
1 TAAGTTATG
*
4202777 TGAGTTATG
1 TAAGTTATG
4202786 TAAGTTATG
1 TAAGTTATG
*
4202795 TAAATTATG
1 TAAGTTATG
*
4202804 TAAGTTATA
1 TAAGTTATG
*
4202813 TGAGTTATG
1 TAAGTTATG
* *
4202822 TAATTTATT
1 TAAGTTATG
4202831 TAAGT
1 TAAGT
4202836 AATGATCAAT
Statistics
Matches: 78, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
9 70 0.90
12 8 0.10
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:4202767 original size:18 final size:18
Alignment explanation
Indices: 4202744--4202829 Score: 118
Period size: 18 Copynumber: 4.8 Consensus size: 18
4202734 TATGTAAGTT
*
4202744 GTTATGTACGTTATGTGA
1 GTTATGTAAGTTATGTGA
*
4202762 GTTATGTAAATTATGTGA
1 GTTATGTAAGTTATGTGA
*
4202780 GTTATGTAAGTTATGTAA
1 GTTATGTAAGTTATGTGA
* *
4202798 ATTATGTAAGTTATATGA
1 GTTATGTAAGTTATGTGA
*
4202816 GTTATGTAATTTAT
1 GTTATGTAAGTTAT
4202830 TTAAGTAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (18 bp):
GTTATGTAAGTTATGTGA
Found at i:4202834 original size:27 final size:27
Alignment explanation
Indices: 4202745--4202835 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 27
4202735 ATGTAAGTTG
*
4202745 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
* *
4202772 TTATGTGAGTTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
* *
4202799 TTATGTAAGTTATATGAGTTATGTAAT
1 TTATGTAAGTTATGTGAGTTATGTAAA
*
4202826 TTATTTAAGT
1 TTATGTAAGT
4202836 AATGATCAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:4203513 original size:205 final size:205
Alignment explanation
Indices: 4202950--4203557 Score: 1155
Period size: 204 Copynumber: 3.0 Consensus size: 205
4202940 TAATTTGAAT
* *
4202950 ATAGTAATTTTTTAAGATTCATCATACGTGGCGTTGTTCCACCTAGGGAGGATTCATTATATCTT
1 ATAGTAATTTTTTAAGATTCATCGTACGTGGCGTTGTTCCACCTAGGGAGGATCCATTATATCTT
*
4203015 ACAGTTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
66 ACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
4203080 AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
131 AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
4203145 TAAATATTCA
196 TAAATATTCA
4203155 ATAGTAA-TTTTTAAGATTCATCGTACGTGGCGTTGTTCCACCTAGGGAGGATCCATTATATCTT
1 ATAGTAATTTTTTAAGATTCATCGTACGTGGCGTTGTTCCACCTAGGGAGGATCCATTATATCTT
4203219 ACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
66 ACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
*
4203284 AAATAAGGTTGGAGAGAAGGTCAGCTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
131 AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
4203349 TAAATATTCA
196 TAAATATTCA
*
4203359 ATAGTAATTTTTTAAGATTCATCGTACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTT
1 ATAGTAATTTTTTAAGATTCATCGTACGTGGCGTTGTTCCACCTAGGGAGGATCCATTATATCTT
4203424 ACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
66 ACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
*
4203489 AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGGAAGCTACATGGTAA
131 AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
4203554 TAAA
196 TAAA
4203558 ATTAATTCAT
Statistics
Matches: 395, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
204 200 0.51
205 195 0.49
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (205 bp):
ATAGTAATTTTTTAAGATTCATCGTACGTGGCGTTGTTCCACCTAGGGAGGATCCATTATATCTT
ACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
AAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAA
TAAATATTCA
Found at i:4203716 original size:23 final size:23
Alignment explanation
Indices: 4203690--4203739 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
4203680 GTTCAAGTTT
4203690 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
4203713 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
4203736 ATTT
1 ATTT
4203740 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:4209473 original size:18 final size:17
Alignment explanation
Indices: 4209450--4209483 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4209440 TAAATTATTT
4209450 AATATATAAATAAAAAAC
1 AATATA-AAATAAAAAAC
*
4209468 AATATAAATTAAAAAA
1 AATATAAAATAAAAAA
4209484 ATAAGTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AATATAAAATAAAAAAC
Found at i:4209658 original size:17 final size:17
Alignment explanation
Indices: 4209615--4209658 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
4209605 GAAATCTAGA
* *
4209615 AAATTATTGAAATTTTG
1 AAATTATTTAAAATTTG
*
4209632 AAATCA-TTAAAATTTG
1 AAATTATTTAAAATTTG
4209648 AAATTATTTAA
1 AAATTATTTAA
4209659 GATATATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (17 bp):
AAATTATTTAAAATTTG
Found at i:4209861 original size:21 final size:21
Alignment explanation
Indices: 4209811--4209866 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
4209801 AAACCCTAAT
* *
4209811 TAAACCCTAAACCATTAACCAT
1 TAAACCCTAAA-CATTAAACAC
*
4209833 TAATCCCTAAA-ATTTAAACAC
1 TAAACCCTAAACA-TTAAACAC
4209854 TAAACCCTAAACA
1 TAAACCCTAAACA
4209867 ATGTCCCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 11 0.39
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACATTAAACAC
Found at i:4209922 original size:79 final size:80
Alignment explanation
Indices: 4209813--4209966 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 80
4209803 ACCCTAATTA
* * * *
4209813 AACCCTAAACCATTAACCATTAATCCCTAAAATTTAAACACTAAACCCTAAACAATGTCCCCTTA
1 AACCCTAAACCATAAACCACTAATCCCTAAAATTTAAAAACTAAACCCTAAACAATATCCCCTTA
4209878 ACCCCTTAACCCCTC
66 ACCCCTTAACCCCTC
* * * * * *
4209893 AACCTTAAACCATAAACC-CTAATCTCTAAACTTTAAAAATTAAACCCTAAACCATATCCCCTTG
1 AACCCTAAACCATAAACCACTAATCCCTAAAATTTAAAAACTAAACCCTAAACAATATCCCCTTA
4209957 ACCCCTTAAC
66 ACCCCTTAAC
4209967 TATCAACCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
79 48 0.75
80 16 0.25
ACGTcount: A:0.40, C:0.34, G:0.01, T:0.25
Consensus pattern (80 bp):
AACCCTAAACCATAAACCACTAATCCCTAAAATTTAAAAACTAAACCCTAAACAATATCCCCTTA
ACCCCTTAACCCCTC
Found at i:4210246 original size:16 final size:14
Alignment explanation
Indices: 4210216--4210252 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
4210206 CATAATCAAC
4210216 AAACCATAAACCCT
1 AAACCATAAACCCT
4210230 AAACCATATATACCCT
1 AAACCATA-A-ACCCT
4210246 AAACCAT
1 AAACCAT
4210253 GCATAAACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 12 0.57
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:4211135 original size:41 final size:43
Alignment explanation
Indices: 4211050--4211150 Score: 129
Period size: 41 Copynumber: 2.4 Consensus size: 43
4211040 AATAGTTTAG
* *
4211050 ATCTA-TAGCGGCGTTTTTCCAATAAGCGCCGCTAAAACTTAA
1 ATCTATTAGCGGCGTTTTTCCAATAAGCGCCACTAAAACTCAA
* *
4211092 ATCTATTA-CGGCGTTTTTCTAA-AAGCGCCACTAAATCTCAA
1 ATCTATTAGCGGCGTTTTTCCAATAAGCGCCACTAAAACTCAA
*
4211133 ATCTA-TAGCTGCGTTTTT
1 ATCTATTAGCGGCGTTTTT
4211151 GAGGAAGCGC
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 2 0.04
41 30 0.58
42 18 0.35
43 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (43 bp):
ATCTATTAGCGGCGTTTTTCCAATAAGCGCCACTAAAACTCAA
Found at i:4212292 original size:7 final size:7
Alignment explanation
Indices: 4212280--4212327 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
4212270 TTGTTACTAT
4212280 AATTTTA
1 AATTTTA
4212287 AATTTTA
1 AATTTTA
*
4212294 ATATTTAA
1 A-ATTTTA
4212302 AATTTTA
1 AATTTTA
*
4212309 TATTTTA
1 AATTTTA
* *
4212316 AAATCTA
1 AATTTTA
4212323 AATTT
1 AATTT
4212328 AGAATTTTGG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTTTA
Found at i:4212304 original size:15 final size:14
Alignment explanation
Indices: 4212281--4212319 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
4212271 TGTTACTATA
*
4212281 ATTTTAAATTTTAAT
1 ATTTAAAATTTT-AT
4212296 ATTTAAAATTTTAT
1 ATTTAAAATTTTAT
4212310 ATTTTAAAAT
1 A-TTTAAAAT
4212320 CTAAATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTAAAATTTTAT
Found at i:4212324 original size:22 final size:22
Alignment explanation
Indices: 4212280--4212324 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4212270 TTGTTACTAT
* *
4212280 AATTTTAAATTTTAATATTTAA
1 AATTTTAAATTTTAAAATCTAA
*
4212302 AATTTTATATTTTAAAATCTAA
1 AATTTTAAATTTTAAAATCTAA
4212324 A
1 A
4212325 TTTAGAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTTTAAATTTTAAAATCTAA
Found at i:4237532 original size:42 final size:43
Alignment explanation
Indices: 4237453--4237535 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 43
4237443 TATTTAATCA
* * **
4237453 TTTTAGAAATAATAAAATTATAAGTTAATTTAGTGTAAAATAT
1 TTTTAAAAATAATAAAATTATAAATTAATACAGTGTAAAATAT
* *
4237496 TTTTAAAAATAAT-GAATTATAAATTAATACATTGTAAAAT
1 TTTTAAAAATAATAAAATTATAAATTAATACAGTGTAAAAT
4237536 CACATTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 22 0.65
43 12 0.35
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (43 bp):
TTTTAAAAATAATAAAATTATAAATTAATACAGTGTAAAATAT
Found at i:4246509 original size:14 final size:15
Alignment explanation
Indices: 4246484--4246513 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4246474 GTTTTGTAAA
4246484 TGGACATTTATTATT
1 TGGACATTTATTATT
4246499 TGGAC-TTTATTATT
1 TGGACATTTATTATT
4246513 T
1 T
4246514 ATATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.23, C:0.07, G:0.13, T:0.57
Consensus pattern (15 bp):
TGGACATTTATTATT
Found at i:4249050 original size:10 final size:10
Alignment explanation
Indices: 4249035--4249073 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
4249025 TGCTTTTGTA
4249035 CATGATATGC
1 CATGATATGC
4249045 CATGATATGC
1 CATGATATGC
4249055 ACATGATATGC
1 -CATGATATGC
4249066 CATGATAT
1 CATGATAT
4249074 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:4249059 original size:21 final size:21
Alignment explanation
Indices: 4249034--4249073 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
4249024 CTGCTTTTGT
4249034 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
4249055 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
4249074 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:4254868 original size:3 final size:3
Alignment explanation
Indices: 4254855--4255155 Score: 110
Period size: 3 Copynumber: 99.3 Consensus size: 3
4254845 ACAGGTTAAT
* * * *
4254855 TAA TTA TAA TAA TAGA -AA AAA TAA TAA TAGT TAA -AA TAA TAG TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * * **
4254900 TAG TAA -ATA TAA TGA TAA TAAA TAA TAA TAA TGA TAG TCG TAA TAA
1 TAA TAA TA-A TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * * * * * *
4254946 TGA TAA TGG CAA TAAA TAA TAA TAG TGAA AAA TAA TGA TAG GAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* * * * * * *
4254993 TAA TGA TAA TATA TAA -AA TAA TAA TAA TGA TAG CAA AAA AAA AAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** * * ** **
4255038 GAA -AA TAA AAGA TGA TAA GGA TAA TAG CAA TAA TAA TGG TGC TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
4255083 CGA TAA TAAA TAA TAG TAG TAA TAA -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4255128 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4255156 GCAAATAAGT
Statistics
Matches: 216, Mismatches: 67, Indels: 30
0.69 0.21 0.10
Matches are distributed among these distances:
2 10 0.05
3 188 0.87
4 18 0.08
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.28
Consensus pattern (3 bp):
TAA
Done.