Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 15 of 410
Found at i:3875598 original size:11 final size:11
Alignment explanation
Indices: 3875584--3875628 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
3875574 AGATAAATAT
3875584 TATTTTATTAA
1 TATTTTATTAA
*
3875595 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
3875608 TATTTTATTAT
1 TATTTTATTAA
3875619 TATTTTATTA
1 TATTTTATTA
3875629 GTATAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:3876899 original size:51 final size:51
Alignment explanation
Indices: 3876837--3876999 Score: 254
Period size: 51 Copynumber: 3.1 Consensus size: 51
3876827 AAGTTATTCG
*
3876837 GATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTTATAATTCCA
1 GATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCA
3876888 GATGAAATATGAAGCTCTTGTTGAAGCTTGAAGCTAGAGCAACAAAGTAATAATTCCA
1 GATGAAATATGAAGCTC---TT---G-TTGAAGCTAGAGCAACAAAGTAATAATTCCA
3876946 GATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCA
1 GATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCA
3876997 GAT
1 GAT
3877000 CGATGAAGTA
Statistics
Matches: 104, Mismatches: 1, Indels: 14
0.87 0.01 0.12
Matches are distributed among these distances:
51 51 0.49
52 1 0.01
54 2 0.02
55 2 0.02
57 1 0.01
58 47 0.45
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.26
Consensus pattern (51 bp):
GATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCA
Found at i:3876928 original size:58 final size:58
Alignment explanation
Indices: 3876857--3876999 Score: 228
Period size: 58 Copynumber: 2.6 Consensus size: 58
3876847 GAAGCTCTTG
*
3876857 TTGAAGCTAGAGCAACAAAGTTATAATTCCAGATGAAATATGAAGCTCTTGTTGAAGC
1 TTGAAGCTAGAGCAACAAAGTAATAATTCCAGATGAAATATGAAGCTCTTGTTGAAGC
3876915 TTGAAGCTAGAGCAACAAAGTAATAATTCCAGATGAAATATGAAGCTC---TT---G-
1 TTGAAGCTAGAGCAACAAAGTAATAATTCCAGATGAAATATGAAGCTCTTGTTGAAGC
3876966 TTGAAGCTAGAGCAACAAAGTAATAATTCCAGAT
1 TTGAAGCTAGAGCAACAAAGTAATAATTCCAGAT
3877000 CGATGAAGTA
Statistics
Matches: 84, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
51 34 0.40
52 1 0.01
55 2 0.02
58 47 0.56
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (58 bp):
TTGAAGCTAGAGCAACAAAGTAATAATTCCAGATGAAATATGAAGCTCTTGTTGAAGC
Found at i:3877845 original size:46 final size:46
Alignment explanation
Indices: 3877793--3878067 Score: 329
Period size: 46 Copynumber: 6.0 Consensus size: 46
3877783 GCTTTCTGAA
* * *
3877793 ATGAAATGTGTAAGACCATGGTTGAGAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
3877839 ATGAAAT-ATGTAAAACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
3877885 ATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
3877931 ATGAAATGAATAAGACTATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
3877977 GGGGAAATGAATAAGATCGTGGTTGAAAGATACCATAGCAACATGAC
1 -ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
3878024 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
3878068 TCGAAGATAA
Statistics
Matches: 199, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 158 0.79
47 40 0.20
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:3878031 original size:93 final size:92
Alignment explanation
Indices: 3877807--3878067 Score: 303
Period size: 93 Copynumber: 2.8 Consensus size: 92
3877797 AATGTGTAAG
* * *
3877807 ACCATGGTTGAGAGATACCATGGCAACATGATATGAAATATG-TAAAACCATGGTTGAAAGATAC
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAA-ATGATAAGACCATGGTTGAAAGATAC
* * **
3877871 CATGGCAACATGATATGAAATGTGTAAA
65 CATGGCAACATGAGAGGAAATGAATAAA
* *
3877899 ACCATGGTTGAAAGATACCATGGCAACGTGACATG-AAATGAATAAGACTATGGTTGAAAGATAC
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATG-ATAAGACCATGGTTGAAAGATAC
* *
3877963 CATGGCAACATGACGGGGAAATGAATAAG
65 CATGGCAACATGA-GAGGAAATGAATAAA
* * * * *
3877992 ATCGTGGTTGAAAGATACCATAGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGA-TAAGACCATGGTTGAAAGATAC
* *
3878056 TATGGCATCATG
65 CATGGCAACATG
3878068 TCGAAGATAA
Statistics
Matches: 144, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
90 3 0.02
91 2 0.01
92 67 0.47
93 72 0.50
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (92 bp):
ACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGATAAGACCATGGTTGAAAGATACC
ATGGCAACATGAGAGGAAATGAATAAA
Found at i:3879356 original size:24 final size:24
Alignment explanation
Indices: 3879328--3879379 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
3879318 TTAGTAGGTC
* *
3879328 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
3879352 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
3879376 AAAT
1 AAAT
3879380 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:3883155 original size:30 final size:30
Alignment explanation
Indices: 3883116--3883172 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
3883106 TTTTATAAGT
3883116 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
3883146 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
3883173 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:3883370 original size:12 final size:13
Alignment explanation
Indices: 3883345--3883379 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
3883335 ATTTTAAACT
3883345 AAACTTTTTAAAA
1 AAACTTTTTAAAA
3883358 AAACTTTTTAAAA
1 AAACTTTTTAAAA
*
3883371 ACACTTTTT
1 AAACTTTTT
3883380 CACCTCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (13 bp):
AAACTTTTTAAAA
Found at i:3887210 original size:27 final size:27
Alignment explanation
Indices: 3887158--3887211 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
3887148 TACATGAATC
3887158 AATTATTTAATTAGTAAACAAGTATAA
1 AATTATTTAATTAGTAAACAAGTATAA
3887185 AATTATTTAACTATA-TAAACAA-TATAA
1 AATTATTTAA-T-TAGTAAACAAGTATAA
3887212 TGGTTTTGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 15 0.60
28 8 0.32
29 2 0.08
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (27 bp):
AATTATTTAATTAGTAAACAAGTATAA
Found at i:3887601 original size:29 final size:27
Alignment explanation
Indices: 3887569--3887633 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
3887559 AGATAATTAT
3887569 ATATAAAATTATATTATAATAAAT-AATAA
1 ATATAAAATTA-ATTAT--TAAATAAATAA
*
3887598 ATATAATTATTAATTATTAAATAAAATAA
1 ATATAA-AATTAATTATTAAAT-AAATAA
3887627 ATATAAA
1 ATATAAA
3887634 TATATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
27 5 0.16
29 22 0.71
30 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
ATATAAAATTAATTATTAAATAAATAA
Found at i:3893315 original size:2 final size:2
Alignment explanation
Indices: 3893310--3893341 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3893300 AAAAATGGTA
3893310 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3893342 GTTGTTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3893571 original size:19 final size:19
Alignment explanation
Indices: 3893547--3893587 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
3893537 AATAGTAAGC
3893547 TTGGTTATTAAATGCTAAT
1 TTGGTTATTAAATGCTAAT
3893566 TTGGTTATTAAATGCTAAT
1 TTGGTTATTAAATGCTAAT
3893585 TTG
1 TTG
3893588 AATCTAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.49
Consensus pattern (19 bp):
TTGGTTATTAAATGCTAAT
Found at i:3895296 original size:13 final size:13
Alignment explanation
Indices: 3895278--3895304 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3895268 CATTACGATG
3895278 TTATTTTTTTATT
1 TTATTTTTTTATT
3895291 TTATTTTTTTATT
1 TTATTTTTTTATT
3895304 T
1 T
3895305 CAAGCGTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTATTTTTTTATT
Found at i:3895701 original size:17 final size:18
Alignment explanation
Indices: 3895675--3895708 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3895665 TTAATTATAT
3895675 AAAAATTAAATAAATTTC
1 AAAAATTAAATAAATTTC
*
3895693 AAAAA-TAAATATATTT
1 AAAAATTAAATAAATTT
3895709 AATTATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATTAAATAAATTTC
Found at i:3897132 original size:2 final size:2
Alignment explanation
Indices: 3897083--3897117 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
3897073 AGCCAAGGGT
3897083 TA TA TA TA TA TA TA TA TA TA TA TA TGA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA T
3897118 GTTATTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3897207 original size:16 final size:17
Alignment explanation
Indices: 3897171--3897208 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
3897161 CAACTTATAA
3897171 ATAAAAATTAATCGAGT
1 ATAAAAATTAATCGAGT
*
3897188 -TAAAATTTAATCG-GT
1 ATAAAAATTAATCGAGT
3897203 ATAAAA
1 ATAAAA
3897209 GAACTACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (17 bp):
ATAAAAATTAATCGAGT
Found at i:3899217 original size:28 final size:28
Alignment explanation
Indices: 3899164--3899218 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
3899154 TTTGGGGTTC
* *
3899164 AAGATTCGGTGTTTGAGGTTTAAGATTT
1 AAGATTCAGTGTTTGAGGTTCAAGATTT
*
3899192 AAGATTCAGTGTTTGAGGTTCGAGATT
1 AAGATTCAGTGTTTGAGGTTCAAGATT
3899219 CTAGTTACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.05, G:0.29, T:0.40
Consensus pattern (28 bp):
AAGATTCAGTGTTTGAGGTTCAAGATTT
Found at i:3904527 original size:218 final size:211
Alignment explanation
Indices: 3904175--3904585 Score: 497
Period size: 218 Copynumber: 1.9 Consensus size: 211
3904165 AGGGGAGAGT
* * *
3904175 CCAAAAGATTTATGGAGTTTATAGTGAGCGACTAAAGTCCACCAAGAAAATGTTTTATCATTTTG
1 CCAAAAGATTCATGGAGCTTATAGGGAGCGACTAAAGTCCACCAAGAAAATGTTTTATCATTTTG
* * * * * *
3904240 GTCTTAAGAACCAACTTCTTAAGAAGTTTTAATGGGTAAAAACACTACTCTTTAAAGATAAATTG
66 GCCTTAAGAACCAACTCCTTAAGAAGTTTTAATGGGTAAAAACACTACCCATAAAAGAGAAATTG
* *
3904305 TCTTTCTTACTGAGAGAAGCCTTTGAAGTG-TGTCTTTTAAGTAAG-TAATTCAAACCTCAAACT
131 TCTTTCTTACTGAAAGAAACCTTTGAAGTGTTGTCTTTTAAGT-AGTTAATTCAAACCTCAAACT
3904368 GTTGGTATGAGGATAGC
195 GTTGGTATGAGGATAGC
* * *
3904385 CCAAAGGATTCATGGAGCTTATCGGGAGC-ATCTAAGGTCCACCAAGAAAATGTTTTATCATTTT
1 CCAAAAGATTCATGGAGCTTATAGGGAGCGA-CTAAAGTCCACCAAGAAAATGTTTTATCATTTT
* ** *
3904449 GGCCTTGATGGGGTTCGAACCAACTCCTTAAGCGGTTTTAATGGGTAAGAACACTACCCCATAAA
65 GGCCTT-A-------AGAACCAACTCCTTAAGAAGTTTTAATGGGTAAAAACACTA-CCCATAAA
* * *
3904514 AG-GGAATTGTCTTTCTTATTGAAAGAAACCTTTGAAGTGTTGTCTTTTGAGTAGTTAATTCAAA
121 AGAGAAATTGTCTTTCTTACTGAAAGAAACCTTTGAAGTGTTGTCTTTTAAGTAGTTAATTCAAA
*
3904578 TCTCAAAC
186 CCTCAAAC
3904586 AATTGATATT
Statistics
Matches: 167, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
209 1 0.01
210 61 0.37
211 1 0.01
218 70 0.42
219 34 0.20
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (211 bp):
CCAAAAGATTCATGGAGCTTATAGGGAGCGACTAAAGTCCACCAAGAAAATGTTTTATCATTTTG
GCCTTAAGAACCAACTCCTTAAGAAGTTTTAATGGGTAAAAACACTACCCATAAAAGAGAAATTG
TCTTTCTTACTGAAAGAAACCTTTGAAGTGTTGTCTTTTAAGTAGTTAATTCAAACCTCAAACTG
TTGGTATGAGGATAGC
Found at i:3905637 original size:20 final size:22
Alignment explanation
Indices: 3905612--3905668 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
3905602 TAAATAAAAA
3905612 AAATTAAAAT-AT-TAAATATT
1 AAATTAAAATAATATAAATATT
3905632 AAATTAAAATAATATAAATATT
1 AAATTAAAATAATATAAATATT
*
3905654 --TTTAAAA-AATATAAA
1 AAATTAAAATAATATAAA
3905669 GATAATATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 8 0.24
20 16 0.47
21 2 0.06
22 8 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATTAAAATAATATAAATATT
Found at i:3906129 original size:20 final size:21
Alignment explanation
Indices: 3906104--3906144 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3906094 AACCTAACAC
*
3906104 AAAA-TTTAAAAAGGATAATT
1 AAAATTTTAAAAAGAATAATT
*
3906124 AAAATTTTCAAAAGAATAATT
1 AAAATTTTAAAAAGAATAATT
3906145 GATTAAAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAATTTTAAAAAGAATAATT
Found at i:3912384 original size:17 final size:18
Alignment explanation
Indices: 3912356--3912389 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3912346 GGATTCTGAT
3912356 ATATTGTAAATTAAGATG
1 ATATTGTAAATTAAGATG
*
3912374 ATATT-TAAATTCAGAT
1 ATATTGTAAATTAAGAT
3912390 ATTATAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (18 bp):
ATATTGTAAATTAAGATG
Found at i:3912779 original size:241 final size:239
Alignment explanation
Indices: 3912333--3913020 Score: 806
Period size: 241 Copynumber: 2.9 Consensus size: 239
3912323 TGGATATTTG
* * * *
3912333 ACTTGTATTTTGAGGATTCTGATATATTGTAAATTAAGATGATATTTAAATTC-AGATATTATAA
1 ACTTGCATTTTGAGGA-T-T-AGATATTGTAGATT-AGATGATATTTAAATTCGA-ATATTCTAA
* * **
3912397 TTACTATCCCTAGCAAATTTAAAGTGAATATTAGTTCTTGAATATCCAAAATGGCTTGAACTAGC
61 TTACTATTCCTAGCAAATTTAAAGTGAATATTAGTTCTAGAATATCCAAAATGGCTTGAACTATA
* * * *
3912462 ATCGGCCCACCTAAAAATCCTAGACTCAAACTACTTGATCCCAAAACAACTCGAACACAAAATTG
126 AT-GACCCACTTAAAAATCCTAGACTCAAACCACTTGAACCCAAAACAACTCGAACACAAAATTG
* *
3912527 ATTCAAACCCTTCTCCAAGTAGTGCAGATTTGAATATCTGCAAATATCTA
190 ATCCAAACCCTTCTCCAAGTAGTGCAAATTTGAATATCTGCAAATATCTA
* *
3912577 ACTTGC-TTTTTAGGATTCAGATATTGTAGATTCAGATGATATTTAAATTCGAATTTTCTAATTA
1 ACTTGCATTTTGAGGATT-AGATATTGTAGATT-AGATGATATTTAAATTCGAATATTCTAATTA
* * *
3912641 CTATTCCTAGCAAATTCAAAGTGAATATTAGTTCTCGCATATCCAAAATGGCTTGAACTAATAAT
64 CTATTCCTAGCAAATTTAAAGTGAATATTAGTTCTAGAATATCCAAAATGGCTTGAACT-ATAAT
*
3912706 GACCCACTTAAAAATCCTTGACTCAAACCA-TATGAACCCAAAACAACTCGAACACAAAATTGAT
128 GACCCACTTAAAAATCCTAGACTCAAACCACT-TGAACCCAAAACAACTCGAACACAAAATTGAT
* * * *
3912770 CCAAACCCTTCTTCAAGTAGTGCAAATTTGAATATTTGCAAATTTTTA
192 CCAAACCCTTCTCCAAGTAGTGCAAATTTGAATATCTGCAAATATCTA
* * *
3912818 ACTTGCATTTTGAGGATTGGTTATTG--GA-T-G--G-TATTTAAATTTGAATATTCTAATTACT
1 ACTTGCATTTTGAGGATTAGATATTGTAGATTAGATGATATTTAAATTCGAATATTCTAATTACT
* * * * * * ** *
3912876 ATTTCTAGCATATTTGAAGTGGATATTAG-CCTTAGAATATCAAAAATAACTTGAATTTATAAT-
66 ATTCCTAGCAAATTTAAAGTGAATATTAGTTC-TAGAATATCCAAAATGGCTTGAA-CTATAATG
* * * * *
3912939 ATCCCACTTAAAAATTCAAGACTCAAGCCACTTGAACCTAAAACAACTTGAACACAAAATTGATC
129 A-CCCACTTAAAAATCCTAGACTCAAACCACTTGAACCCAAAACAACTCGAACACAAAATTGATC
3913004 CAAACCCTTCTCCAAGT
193 CAAACCCTTCTCCAAGT
3913021 TTGCTTCTTA
Statistics
Matches: 387, Mismatches: 49, Indels: 27
0.84 0.11 0.06
Matches are distributed among these distances:
232 2 0.01
233 143 0.37
234 3 0.01
236 1 0.00
238 1 0.00
239 2 0.01
240 1 0.00
241 206 0.53
242 15 0.04
243 8 0.02
244 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (239 bp):
ACTTGCATTTTGAGGATTAGATATTGTAGATTAGATGATATTTAAATTCGAATATTCTAATTACT
ATTCCTAGCAAATTTAAAGTGAATATTAGTTCTAGAATATCCAAAATGGCTTGAACTATAATGAC
CCACTTAAAAATCCTAGACTCAAACCACTTGAACCCAAAACAACTCGAACACAAAATTGATCCAA
ACCCTTCTCCAAGTAGTGCAAATTTGAATATCTGCAAATATCTA
Found at i:3918156 original size:37 final size:36
Alignment explanation
Indices: 3918085--3918174 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 36
3918075 ACATTATCAC
* *
3918085 TTTCATAGATGATT-T-TTGGATGACATGGAGCTAT
1 TTTCATAGATGATTGTATCGGAAGACATGGAGCTAT
*
3918119 TTTCATAGATGATTGTAGTCGGAAGACATGGATCTAT
1 TTTCATAGATGATTGTA-TCGGAAGACATGGAGCTAT
*
3918156 TTTCATAGATAATTGTATC
1 TTTCATAGATGATTGTATC
3918175 AACCCTATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
34 14 0.29
35 1 0.02
36 2 0.04
37 32 0.65
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (36 bp):
TTTCATAGATGATTGTATCGGAAGACATGGAGCTAT
Found at i:3918512 original size:21 final size:21
Alignment explanation
Indices: 3918486--3918528 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3918476 TTTAAGTTTG
*
3918486 TTTAAAAATGGATTACATGTA
1 TTTAAAAATAGATTACATGTA
3918507 TTTAAAAATAGATTACATGTA
1 TTTAAAAATAGATTACATGTA
3918528 T
1 T
3918529 GATTACTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTAAAAATAGATTACATGTA
Found at i:3921957 original size:3 final size:3
Alignment explanation
Indices: 3921949--3922398 Score: 312
Period size: 3 Copynumber: 152.0 Consensus size: 3
3921939 TTAATTTTAA
* * * * *
3921949 TAT TAT TAT TCT TAT TAT TAG TAT TAT TAT TAA TAT TAT TTT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
3921997 TAT TAT TTT CTAT TTT TAC TAT TGT TAT TAT TAG CA- TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
3922042 TCAT ATAT TAT TAT TTT CTATT TAT TGT TAT TAT TAT TAT TTT TAA CA-
1 T-AT -TAT TAT TAT TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
3922090 TAT CAT TAT TAT TAT T-T TAT TAT CT-T CTA- TAT TTT TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT
* * * *
3922134 TGT TAT T-T CAT TAT TAT TAT ATGT TAC TAT TACGT TCAT CT-T T-T
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA--T T-AT -TAT TAT
* * *
3922178 TAT T-T T-T TAT TAT TCT TTT TAT TAA TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
3922224 TAT TAT TAT TAT TAT TAT TTT TAC TAT TAT T-T T-T TA- TAC TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
3922269 TA- TAT T-T TCT T-T TAT GT-T TAT CAT TAT TCT TAT TCT TAT T-T
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
3922310 CT-T TA- TAT TAT T-T TCAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3922354 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3922399 ACTTTCCTTT
Statistics
Matches: 354, Mismatches: 62, Indels: 62
0.74 0.13 0.13
Matches are distributed among these distances:
2 33 0.09
3 299 0.84
4 16 0.05
5 5 0.01
6 1 0.00
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:3922665 original size:6 final size:6
Alignment explanation
Indices: 3922649--3922683 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
3922639 CTATTTAATA
3922649 TATTATT TATTTT TATTTT TATTTCT TATTTT TAT
1 TATT-TT TATTTT TATTTT TATTT-T TATTTT TAT
3922684 CTATTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 17 0.63
7 10 0.37
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:3922677 original size:13 final size:12
Alignment explanation
Indices: 3922649--3922683 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
3922639 CTATTTAATA
3922649 TATTATTTATTTT
1 TATT-TTTATTTT
3922662 TATTTTTATTTCT
1 TATTTTTATTT-T
3922675 TATTTTTAT
1 TATTTTTAT
3922684 CTATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (12 bp):
TATTTTTATTTT
Found at i:3931136 original size:47 final size:47
Alignment explanation
Indices: 3931072--3931182 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
3931062 GACATTGAGT
* *
3931072 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCAGATTTGTTC
* * *
3931119 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCAGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCAGATTTGTTC
3931166 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
3931183 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCAGATTTGTTC
Found at i:3937508 original size:4 final size:4
Alignment explanation
Indices: 3937499--3937527 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
3937489 AGCAAACGTG
3937499 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
3937528 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:3939903 original size:75 final size:74
Alignment explanation
Indices: 3939782--3939953 Score: 216
Period size: 75 Copynumber: 2.4 Consensus size: 74
3939772 TCCATGGCAA
** *
3939782 AGTGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTA
1 AGTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-
*
3939842 T-CCATACTG
65 TCCCATACCG
3939851 AGCTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT
1 AG-TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT
3939916 TCCCATACCG
65 TCCCATACCG
*
3939926 AGT-TAAAAATGTAGGTATGGTATT-TCAA
1 AGTGT-GAAATGTAGGTATGGTATTATCAA
3939954 TGAGGAAAAC
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
69 2 0.02
70 18 0.20
73 9 0.10
74 20 0.22
75 41 0.46
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (74 bp):
AGTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTT
CCCATACCG
Found at i:3939922 original size:35 final size:35
Alignment explanation
Indices: 3939787--3939951 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
3939777 GGCAAAGTGT
* **
3939787 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
3939822 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
3939857 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
3939897 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
3939932 -AAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
3939952 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
34 19 0.16
35 66 0.57
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:3947384 original size:75 final size:75
Alignment explanation
Indices: 3947265--3947435 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
3947255 CATGGCAAAG
** *
3947265 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
3947324 CCATACTGAGC
65 CCATACCGAGC
3947335 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
3947400 CATACCGAGT
66 CATACCGAGC
***
3947410 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
3947436 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:3947403 original size:35 final size:35
Alignment explanation
Indices: 3947268--3947433 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
3947258 GGCAAAGTGT
* **
3947268 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
3947303 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
3947338 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
3947378 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
3947413 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
3947434 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:3954871 original size:75 final size:75
Alignment explanation
Indices: 3954752--3954923 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
3954742 CATGGCAAAG
** *
3954752 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
3954811 CCATACTGAGC
65 CCATACCGAGC
3954822 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
3954887 CATACCGAGT
66 CATACCGAGC
***
3954897 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
3954924 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:3954890 original size:35 final size:35
Alignment explanation
Indices: 3954755--3954921 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
3954745 GGCAAAGTGT
* **
3954755 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
3954790 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
3954825 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
3954865 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
3954901 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
3954922 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:3954913 original size:36 final size:35
Alignment explanation
Indices: 3954851--3954921 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
3954841 ATTATCAAAT
* *
3954851 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
3954886 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
3954922 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:3956113 original size:26 final size:26
Alignment explanation
Indices: 3956057--3956122 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 26
3956047 GGCGTTACAA
* *
3956057 TTATTATTATTTTTTGTTTTAAAAAT
1 TTATTATTATATTATGTTTTAAAAAT
*
3956083 TTATTATTATATTAT-TTTT-AATAT
1 TTATTATTATATTATGTTTTAAAAAT
3956107 TTA-TATTAATATTATG
1 TTATTATT-ATATTATG
3956123 GATAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 4 0.11
24 14 0.40
25 4 0.11
26 13 0.37
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (26 bp):
TTATTATTATATTATGTTTTAAAAAT
Found at i:3956730 original size:107 final size:108
Alignment explanation
Indices: 3956560--3956775 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 108
3956550 AAAAAACACG
3956560 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
3956625 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
* *
3956668 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATACAATTTTGTTTGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
*
3956732 AAAACTTATTCTAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
3956775 T
1 T
3956776 TTTTTGTTTA
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 92 0.88
108 13 0.12
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (108 bp):
TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAAGACAATTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:3965826 original size:18 final size:18
Alignment explanation
Indices: 3965799--3965833 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3965789 GATAAATCCT
3965799 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
3965817 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
3965834 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:3967499 original size:16 final size:17
Alignment explanation
Indices: 3967468--3967501 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3967458 GTATCCTCTC
3967468 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
3967485 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
3967501 T
1 T
3967502 TACTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:3967651 original size:18 final size:18
Alignment explanation
Indices: 3967628--3967680 Score: 106
Period size: 18 Copynumber: 2.9 Consensus size: 18
3967618 GATAAATCCT
3967628 AATCAGGGATTTACTCCC
1 AATCAGGGATTTACTCCC
3967646 AATCAGGGATTTACTCCC
1 AATCAGGGATTTACTCCC
3967664 AATCAGGGATTTACTCC
1 AATCAGGGATTTACTCC
3967681 TATATTAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (18 bp):
AATCAGGGATTTACTCCC
Found at i:3970319 original size:35 final size:35
Alignment explanation
Indices: 3970273--3970345 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
3970263 TCATCAAATA
3970273 ATAAGTATAAAAATAACATTTAACACACATGATAC
1 ATAAGTATAAAAATAACATTTAACACACATGATAC
3970308 ATAAGTATAAAAATAACATTTAACACACATGATAC
1 ATAAGTATAAAAATAACATTTAACACACATGATAC
3970343 ATA
1 ATA
3970346 CATAAAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (35 bp):
ATAAGTATAAAAATAACATTTAACACACATGATAC
Found at i:3970448 original size:12 final size:13
Alignment explanation
Indices: 3970430--3970496 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 13
3970420 TAAAAATATG
3970430 ATATTTAATAATA
1 ATATTTAATAATA
3970443 AT-TTTAA-AATA
1 ATATTTAATAATA
* *
3970454 GTATTTAATATACA
1 ATATTTAATA-ATA
* *
3970468 ATATAT-ATAAAA
1 ATATTTAATAATA
*
3970480 ATATTTATAAAATA
1 ATATTTA-ATAATA
3970494 ATA
1 ATA
3970497 ATAATTATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
11 5 0.12
12 17 0.41
13 6 0.15
14 13 0.32
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:3970493 original size:23 final size:24
Alignment explanation
Indices: 3970461--3970519 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
3970451 ATAGTATTTA
*
3970461 ATATACAATATAT-ATAAAAATAT
1 ATATAAAATATATAATAAAAATAT
* **
3970484 TTATAAAATA-ATAATAATTATAT
1 ATATAAAATATATAATAAAAATAT
3970507 ATATAAAATATAT
1 ATATAAAATATAT
3970520 TGGTTTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.07
23 25 0.86
24 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAAAATATATAATAAAAATAT
Found at i:3970518 original size:11 final size:11
Alignment explanation
Indices: 3970461--3970519 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
3970451 ATAGTATTTA
*
3970461 ATATACAATAT
1 ATATAAAATAT
3970472 ATATAAAAATAT
1 ATAT-AAAATAT
*
3970484 TTATAAAATA-
1 ATATAAAATAT
*
3970494 ATAATAATTATAT
1 AT-ATAA-AATAT
3970507 ATATAAAATAT
1 ATATAAAATAT
3970518 AT
1 AT
3970520 TGGTTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
10 1 0.03
11 20 0.51
12 16 0.41
13 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
ATATAAAATAT
Found at i:3972717 original size:206 final size:205
Alignment explanation
Indices: 3972363--3972864 Score: 765
Period size: 206 Copynumber: 2.4 Consensus size: 205
3972353 TTACTTCTTT
* *
3972363 GATTTGTTCTCTGACAATACAGAGAT-AACAAATCATCTTAGATTTGCTTCAGTATAAACATGTG
1 GATTTGTTCTCTGACAATACAGAGATGAA-AAATCATCTTAGATTTGCTTCA-TGTAAACACGTG
** * *
3972427 AAAGCCAAATCAGCTACATATTTGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGA
64 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGA
* * *
3972492 TCTTGCTTCAGTCTAATCGTTTGAAGGTCAAATCTACTATGTATCTGCTCTCTATTGAAGTAG-A
129 TCTTGCTTCAGTCTAATCGTCTGAAGGTCAAATCTACTACGTATCTGCTCTCCATTGAAGT-GCA
3972556 GATGCCAGACTTC
193 GATGCCAGACTTC
*
3972569 GATTTGTTCTCTGACAATACAGAGATGAAAAATCATCTTAGATTTGCTTCATCGTAAACACGTAA
1 GATTTGTTCTCTGACAATACAGAGATGAAAAATCATCTTAGATTTGCTTCAT-GTAAACACGTGA
* * *
3972634 AAGCCAAATCAGTTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGAT
65 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGAT
* * * *
3972699 CTTGCTTCAGTCTAATCGTCTGAAGGTCAGATTTGCTGCGTATCTGCTCTCCATTGAAGTGCAGA
130 CTTGCTTCAGTCTAATCGTCTGAAGGTCAAATCTACTACGTATCTGCTCTCCATTGAAGTGCAGA
3972764 TGCCAGACTTC
195 TGCCAGACTTC
* *
3972775 GATTTGTTCTATGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGAAAAATCATCTTAGATTTGCTTCA-TGTAAACACGTGA
*
3972840 AAGCCAAACCAGCTATGTCTTCGAT
65 AAGCCAAATCAGCTATGTCTTCGAT
3972865 CTGCTCTCTG
Statistics
Matches: 270, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
205 2 0.01
206 265 0.98
207 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (205 bp):
GATTTGTTCTCTGACAATACAGAGATGAAAAATCATCTTAGATTTGCTTCATGTAAACACGTGAA
AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATC
TTGCTTCAGTCTAATCGTCTGAAGGTCAAATCTACTACGTATCTGCTCTCCATTGAAGTGCAGAT
GCCAGACTTC
Found at i:3972907 original size:44 final size:44
Alignment explanation
Indices: 3972857--3972949 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
3972847 ACCAGCTATG
* * *
3972857 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGGTA
1 TCTTCGATCTGCTCTCTGACAACACAGAGATGCCAAATCTGCTA
* *
3972901 TCTTCGATCTGCTCTCTGACAACATAGAGATGCCGAATCTGCTA
1 TCTTCGATCTGCTCTCTGACAACACAGAGATGCCAAATCTGCTA
3972945 TCTTC
1 TCTTC
3972950 AACTTGTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGACAACACAGAGATGCCAAATCTGCTA
Found at i:3973204 original size:29 final size:29
Alignment explanation
Indices: 3973162--3973218 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
3973152 GGATGTCATC
3973162 ACTCCTTCTTTCATCGAAGTTTATCCTTT
1 ACTCCTTCTTTCATCGAAGTTTATCCTTT
3973191 ACTCCTTCTTTCATCGAAGTTTATCCTT
1 ACTCCTTCTTTCATCGAAGTTTATCCTT
3973219 ACTTCTCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.18, C:0.28, G:0.07, T:0.47
Consensus pattern (29 bp):
ACTCCTTCTTTCATCGAAGTTTATCCTTT
Found at i:3984720 original size:2 final size:2
Alignment explanation
Indices: 3984713--3984746 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
3984703 AAAAGAATTA
3984713 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3984747 AAGTGAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3984814 original size:12 final size:13
Alignment explanation
Indices: 3984796--3984855 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 13
3984786 TAAAAATATG
3984796 ATATTTAATAATA
1 ATATTTAATAATA
3984809 AT-TTTAA-AATA
1 ATATTTAATAATA
* *
3984820 GTATTTAATATACA
1 ATATTTAATA-ATA
*
3984834 ATATATATATATATA
1 ATATTTA-ATA-ATA
3984849 ATATTTA
1 ATATTTA
3984856 TAAAAGAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 5 0.14
12 10 0.27
13 3 0.08
14 7 0.19
15 12 0.32
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:3985015 original size:38 final size:37
Alignment explanation
Indices: 3984985--3985060 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 37
3984975 AAATATGAGT
3984985 TAAAAATATAATTTAATTTACAAAATTTAAAATTATAA
1 TAAAAATATAATTTAATTTACAAAATTT-AAATTATAA
3985023 TAAAAATATAATTTAATTTACAAAATTTAAAATTATAA
1 TAAAAATATAATTTAATTTACAAAATTT-AAATTATAA
3985061 ATAATATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (37 bp):
TAAAAATATAATTTAATTTACAAAATTTAAATTATAA
Found at i:3985028 original size:19 final size:21
Alignment explanation
Indices: 3984994--3985060 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
3984984 TTAAAAATAT
3984994 AATT-TAATTTACAAAATTTAA
1 AATTATAA-TTACAAAATTTAA
*
3985015 AATTATAA-TA-AAAA--TAT
1 AATTATAATTACAAAATTTAA
3985032 AATT-TAATTTACAAAATTTAA
1 AATTATAA-TTACAAAATTTAA
3985053 AATTATAA
1 AATTATAA
3985061 ATAATATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
16 3 0.08
17 6 0.16
18 2 0.05
19 8 0.22
20 2 0.05
21 10 0.27
22 6 0.16
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTATAATTACAAAATTTAA
Found at i:3987320 original size:206 final size:206
Alignment explanation
Indices: 3986788--3987295 Score: 829
Period size: 206 Copynumber: 2.5 Consensus size: 206
3986778 CTGCTTCTTT
* * *
3986788 GATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCAGT-ATAAACACGTG
1 GATTTGTTCTATGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCA-TCGTAAACACGTG
* ** *
3986852 AAAGCCAAATTAGCTACATCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATTTTGGA
65 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGA
* * *
3986917 TCTTGCTTCAGTCTAATCGTTTGAAGGTCAGATCTGCTATGTATCTGCTCTCTATTGAAGTAGAG
130 TCTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTAAAGTAGAG
*
3986982 ATGCAAGACTTC
195 ATGCAAGACTTA
3986994 GATTTGTTCTATGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
1 GATTTGTTCTATGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
*
3987059 AAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
* * *
3987124 CTTGCTTCAGTCTAATCGTCTGAAGGTCAGATTTGCTGTGTATCTGCTCTCCATTAAAGTGGAGA
131 CTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTAAAGTAGAGA
*
3987189 TGCCAGACTTA
196 TGCAAGACTTA
*
3987200 GATTTGATCTATGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
1 GATTTGTTCTATGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
* *
3987265 AAACCAAATCAGCTATGTCTTCGATCTGTTC
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTC
3987296 TCTGCCAATA
Statistics
Matches: 281, Mismatches: 20, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
205 1 0.00
206 280 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (206 bp):
GATTTGTTCTATGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
CTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTAAAGTAGAGA
TGCAAGACTTA
Found at i:3987333 original size:44 final size:44
Alignment explanation
Indices: 3987268--3987374 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
3987258 CACGTGAAAA
* * * *
3987268 CCAAATCAGCTATGTCTTCGATCTGTTCTCTGCCAATATAGAGATG
1 CCAAATCTGCTA--TCTTCGATCTGCTCTCTGACAATACAGAGATG
*
3987314 CCAAATCTGGTATCTTCGATCTGCTCTCTGACAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATG
*
3987358 CCGAATCTGCTATCTTC
1 CCAAATCTGCTATCTTC
3987375 AACTTGTTCC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 44 0.81
46 10 0.19
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATG
Found at i:4005494 original size:93 final size:92
Alignment explanation
Indices: 4005370--4005556 Score: 356
Period size: 93 Copynumber: 2.0 Consensus size: 92
4005360 CAATTTAGAG
*
4005370 TCCAAATAAGATAAAGAGTGTATCGTCTAGACAACACATCAGCCACTATATTTTTCTTACCTTTC
1 TCCAAATAAGATAAAGAGTGTATCGTCTAGACAACACATCAGCCACTATATTTTCCTTACCTTTC
4005435 TTGTACTTTATAATATAAGGAAAATAT
66 TTGTACTTTATAATATAAGGAAAATAT
4005462 TCCAAATAAGATAAAAGAGTGTATCGTCTAGACAACACATCAGCCACTATATTTTCCTTACCTTT
1 TCCAAATAAGAT-AAAGAGTGTATCGTCTAGACAACACATCAGCCACTATATTTTCCTTACCTTT
4005527 CTTGTACTTTATAATATAAGGAAAATAT
65 CTTGTACTTTATAATATAAGGAAAATAT
4005555 TC
1 TC
4005557 TAATAATTCT
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
92 12 0.13
93 81 0.87
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (92 bp):
TCCAAATAAGATAAAGAGTGTATCGTCTAGACAACACATCAGCCACTATATTTTCCTTACCTTTC
TTGTACTTTATAATATAAGGAAAATAT
Found at i:4007180 original size:30 final size:31
Alignment explanation
Indices: 4007144--4007212 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
4007134 GGTTTCATAT
*
4007144 CAGTCACTCAAC-TT-TTAAAAAATAACAAAA
1 CAGTCAC-CAACGTTATAAAAAAATAACAAAA
* *
4007174 CAGTCACGAACGTTATAAAAAAATGACAAAA
1 CAGTCACCAACGTTATAAAAAAATAACAAAA
4007205 CAGTCACC
1 CAGTCACC
4007213 GATTAACAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 9 0.27
31 21 0.64
ACGTcount: A:0.51, C:0.22, G:0.09, T:0.19
Consensus pattern (31 bp):
CAGTCACCAACGTTATAAAAAAATAACAAAA
Found at i:4007273 original size:21 final size:21
Alignment explanation
Indices: 4007247--4007286 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4007237 TAACGGGACC
4007247 GCTGATATGGCAAGTTAACCA
1 GCTGATATGGCAAGTTAACCA
*
4007268 GCTGATGTGGCAAGTTAAC
1 GCTGATATGGCAAGTTAAC
4007287 TTGCCACGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (21 bp):
GCTGATATGGCAAGTTAACCA
Found at i:4007365 original size:3 final size:3
Alignment explanation
Indices: 4007359--4007388 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4007349 TTAATAACAG
4007359 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
4007389 GACTGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:4008667 original size:20 final size:20
Alignment explanation
Indices: 4008642--4008700 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
4008632 ACATCTCTAT
4008642 TTTTTCTCTTCTTCTTCTTA
1 TTTTTCTCTTCTTCTTCTTA
* * * *
4008662 TTTTTCTCCTCCTCCTCTTC
1 TTTTTCTCTTCTTCTTCTTA
*
4008682 TTTTTCTTCTTCTTTTTCT
1 TTTTTC-TCTTCTTCTTCT
4008701 CTTTTTAAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTCTCTTCTTCTTCTTA
Found at i:4013562 original size:30 final size:31
Alignment explanation
Indices: 4013493--4013562 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 31
4013483 TTGTTCATGA
* * * **
4013493 GGTGTGAACAAGCTAAGTTGAATGGCCATTT
1 GGTGTGAACAAGCAAAATAGAACAGCCATTT
4013524 GAGTGTGAACAAGCAAAATAGAACAGCC-TTT
1 G-GTGTGAACAAGCAAAATAGAACAGCCATTT
4013555 GGTGTGAA
1 GGTGTGAA
4013563 AGGAATAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 7 0.21
31 5 0.15
32 21 0.64
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (31 bp):
GGTGTGAACAAGCAAAATAGAACAGCCATTT
Found at i:4014625 original size:10 final size:10
Alignment explanation
Indices: 4014610--4014639 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
4014600 CATGTGTTTT
4014610 AATTGTAATA
1 AATTGTAATA
4014620 AATTGTAATA
1 AATTGTAATA
4014630 AATTGATAAT
1 AATTG-TAAT
4014640 TTCATTGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (10 bp):
AATTGTAATA
Found at i:4015750 original size:18 final size:18
Alignment explanation
Indices: 4015729--4015775 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
4015719 CAGTCAGGAA
* *
4015729 CAGATACAGTTTCAGATT
1 CAGATACAGATCCAGATT
4015747 CAGA-ATCAGATCCAGATT
1 CAGATA-CAGATCCAGATT
4015765 CAGATTACAGA
1 CAGA-TACAGA
4015776 AGCAAATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 1 0.04
18 18 0.75
19 4 0.17
20 1 0.04
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (18 bp):
CAGATACAGATCCAGATT
Found at i:4016227 original size:17 final size:17
Alignment explanation
Indices: 4016205--4016249 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
4016195 CTTCATTGAT
* *
4016205 CACACGACCTTGTCTTG
1 CACACGACCATGTCTCG
4016222 CACACGACCATGTCTCG
1 CACACGACCATGTCTCG
*
4016239 CACACGGCCAT
1 CACACGACCAT
4016250 CCGTACGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.22, C:0.40, G:0.18, T:0.20
Consensus pattern (17 bp):
CACACGACCATGTCTCG
Found at i:4020190 original size:19 final size:20
Alignment explanation
Indices: 4020163--4020205 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
4020153 TCTTTTTGCA
* *
4020163 TTCATTCATTTGCATTACAT
1 TTCATTCATATGCATTAAAT
*
4020183 TTCA-TCATATGTATTAAAT
1 TTCATTCATATGCATTAAAT
4020202 TTCA
1 TTCA
4020206 CGAAAAGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCATTCATATGCATTAAAT
Found at i:4026030 original size:17 final size:18
Alignment explanation
Indices: 4025998--4026031 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4025988 TAGTTTGATT
4025998 TGAAGAAATAAGAAGAAG
1 TGAAGAAATAAGAAGAAG
*
4026016 TGAAGAAGT-AGAAGAA
1 TGAAGAAATAAGAAGAA
4026032 CAAAGGCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.29, T:0.12
Consensus pattern (18 bp):
TGAAGAAATAAGAAGAAG
Found at i:4028949 original size:28 final size:27
Alignment explanation
Indices: 4028899--4028951 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
4028889 CTATTCAGAA
* *
4028899 ATCAGTGTTAACTGGGCCTTAGCCCAT
1 ATCAGTATTAACTGGGCCATAGCCCAT
4028926 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTGGGCCATAGCCC
4028952 TATTACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTGGGCCATAGCCCAT
Found at i:4028954 original size:62 final size:60
Alignment explanation
Indices: 4028876--4029020 Score: 168
Period size: 61 Copynumber: 2.4 Consensus size: 60
4028866 TCAAGCTTTA
* * *
4028876 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
* *
4028938 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
*
4028999 GTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
4029021 GTCGAGATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
61 38 0.52
62 31 0.42
63 4 0.05
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:4029084 original size:19 final size:20
Alignment explanation
Indices: 4029042--4029096 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
4029032 TTGGGTCTTT
4029042 CCCATATTAACACAGTTGGG
1 CCCATATTAACACAGTTGGG
* *
4029062 CCCATTTTAATACAGTT-GG
1 CCCATATTAACACAGTTGGG
* *
4029081 CCCATAATAAAACAGT
1 CCCATATTAACACAGT
4029097 CTCATATGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.27
Consensus pattern (20 bp):
CCCATATTAACACAGTTGGG
Found at i:4030732 original size:3 final size:3
Alignment explanation
Indices: 4030724--4030759 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
4030714 TAAAAACTAA
* *
4030724 AAT AAT AAT AAT AAT AAT AAT AAT AAC CAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4030760 GAAAATTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4033574 original size:18 final size:18
Alignment explanation
Indices: 4033543--4033577 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4033533 GCCATACCAG
*
4033543 CCTCAAATGCATCCTCCT
1 CCTCAAATACATCCTCCT
*
4033561 CCTCAAATATATCCTCC
1 CCTCAAATACATCCTCC
4033578 ACATCAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.43, G:0.03, T:0.29
Consensus pattern (18 bp):
CCTCAAATACATCCTCCT
Found at i:4037743 original size:45 final size:44
Alignment explanation
Indices: 4037495--4037746 Score: 139
Period size: 44 Copynumber: 5.7 Consensus size: 44
4037485 ATCACCATGG
* * * *
4037495 CAAATCTTGTCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG-TCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTAAAGAT-A
* * * ** * * * * * *
4037539 CGAATCTCATCTCCTTGAAGTTATAGAGGAGTAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTAAAGATA
* * *** * * *
4037583 CAGATCTTATCTCCCTGAAGTTACAGTGGAATATA-TCGAAGAACA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACT-AAAG-ATA
* * * ** *
4037628 GCAAACCTTATCCCCCTGAGGTTGCAGTGGGGCAGGTTAAAGTTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTAAAGATA
* * * *
4037673 CAAGTCTTATCTCCCAGAAATTGCAGTGGGGCAGACTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTAAAGATA
*
4037717 TCAAATCTTATTTCCCTGAAGTTGCAGTGG
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGG
4037747 AACAGGTTAC
Statistics
Matches: 157, Mismatches: 45, Indels: 11
0.74 0.21 0.05
Matches are distributed among these distances:
43 1 0.01
44 99 0.63
45 28 0.18
46 28 0.18
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTAAAGATA
Found at i:4043743 original size:26 final size:26
Alignment explanation
Indices: 4043714--4043821 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
4043704 TGGTACAAAT
*
4043714 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* ***
4043740 TGATAATGGATTAGGTAAATATTTTG
1 TGATAATGGGTTAGGTAAATATTCCA
4043766 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
4043792 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
4043818 TGAT
1 TGAT
4043822 GGGCATTTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:4045299 original size:28 final size:26
Alignment explanation
Indices: 4045257--4045330 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
4045247 AAAAGCAGCT
* * *
4045257 AAATTACTATAATACCTCTATGTATGGA
1 AAATTACTGTTATACCTCTA-G-ATGCA
* *
4045285 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCTCTAGATGCA
*
4045311 AAATTACCGTTATACCTCTA
1 AAATTACTGTTATACCTCTA
4045331 AGGTTAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 21 0.54
27 1 0.03
28 17 0.44
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (26 bp):
AAATTACTGTTATACCTCTAGATGCA
Found at i:4045476 original size:27 final size:27
Alignment explanation
Indices: 4045436--4045554 Score: 161
Period size: 27 Copynumber: 4.4 Consensus size: 27
4045426 AGGAAGTGTC
*
4045436 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
4045463 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
4045490 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
* *
4045517 TTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
4045544 CTGGTGGCTCT
1 CTGGTGGCTCT
4045555 ATCTGTATCT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
26 2 0.02
27 76 0.94
28 3 0.04
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:4045522 original size:54 final size:54
Alignment explanation
Indices: 4045436--4045552 Score: 216
Period size: 54 Copynumber: 2.2 Consensus size: 54
4045426 AGGAAGTGTC
4045436 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
4045490 CTGGTGGCTATGCCACGATTATCTGATTTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
4045544 CTGGTGGCT
1 CTGGTGGCT
4045553 CTATCTGTAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:4046793 original size:19 final size:19
Alignment explanation
Indices: 4046752--4046794 Score: 79
Period size: 18 Copynumber: 2.3 Consensus size: 19
4046742 ATGTTTTTTT
4046752 TTTTCTTTTTTGGGTTGTA
1 TTTTCTTTTTTGGGTTGTA
4046771 -TTTCTTTTTTGGGTTGTA
1 TTTTCTTTTTTGGGTTGTA
4046789 TTTTCT
1 TTTTCT
4046795 GATTAACCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.05, C:0.07, G:0.19, T:0.70
Consensus pattern (19 bp):
TTTTCTTTTTTGGGTTGTA
Found at i:4051104 original size:3 final size:3
Alignment explanation
Indices: 4051096--4051129 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
4051086 GCATTTTAAA
4051096 TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4051130 GTAGTAGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4051283 original size:29 final size:29
Alignment explanation
Indices: 4051246--4051309 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
4051236 TTTGTATTTC
4051246 TATAT-TATTATT-ATTAT-TAT-TATATA
1 TATATGTATT-TTCATTATATATGTATATA
4051272 GTAGTATGTATTTTCATTATATATGTATATA
1 -TA-TATGTATTTTCATTATATATGTATATA
4051303 TATATGT
1 TATATGT
4051310 TATACAGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
27 2 0.06
28 5 0.16
29 14 0.44
30 5 0.16
31 6 0.19
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (29 bp):
TATATGTATTTTCATTATATATGTATATA
Found at i:4051537 original size:22 final size:22
Alignment explanation
Indices: 4051446--4051538 Score: 55
Period size: 23 Copynumber: 4.0 Consensus size: 22
4051436 CGTACATTTG
* * *
4051446 TTTTTTTTACATACATATATATA
1 TTTTTTATATATA-ATATGTATA
* *
4051469 TTTGTTTATGTAT-ATCATGTCTA
1 TTT-TTTATATATAAT-ATGTATA
* *
4051492 TATTTTTA-ATATATTACGCATATA
1 T-TTTTTATATATAATATG--TATA
4051516 TTTTTTATATATAATATGTATA
1 TTTTTTATATATAATATGTATA
4051538 T
1 T
4051539 ATTATGTATG
Statistics
Matches: 52, Mismatches: 11, Indels: 15
0.67 0.14 0.19
Matches are distributed among these distances:
22 12 0.23
23 20 0.38
24 20 0.38
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTTTTATATATAATATGTATA
Found at i:4051572 original size:2 final size:2
Alignment explanation
Indices: 4051565--4051594 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4051555 TAATATTATC
4051565 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4051595 GTAATATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4051867 original size:2 final size:2
Alignment explanation
Indices: 4051860--4051891 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4051850 ATTGCTTCTA
4051860 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4051892 TTATTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4052126 original size:18 final size:18
Alignment explanation
Indices: 4052100--4052142 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4052090 CGTTTTATAC
4052100 TATTATTATCTG-TATTGT
1 TATTATTAT-TGTTATTGT
* *
4052118 TATTTTTATTGTTTTTGT
1 TATTATTATTGTTATTGT
4052136 TATTATT
1 TATTATT
4052143 GTCATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (18 bp):
TATTATTATTGTTATTGT
Found at i:4052749 original size:52 final size:52
Alignment explanation
Indices: 4052691--4052794 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
4052681 AACTAACCGA
4052691 ATATCCTTTAAAAAAAAGAAGAAGTTAAAATACATTAATTTTTAACTAAAAG
1 ATATCCTTTAAAAAAAAGAAGAAGTTAAAATACATTAATTTTTAACTAAAAG
*
4052743 ATATCCTTTAAAAAAAAGAAGAAGTTAAAATACATTAATTTTTAAGTAAAAG
1 ATATCCTTTAAAAAAAAGAAGAAGTTAAAATACATTAATTTTTAACTAAAAG
4052795 GCAAGCTCAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.31
Consensus pattern (52 bp):
ATATCCTTTAAAAAAAAGAAGAAGTTAAAATACATTAATTTTTAACTAAAAG
Found at i:4055158 original size:17 final size:17
Alignment explanation
Indices: 4055099--4055158 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
4055089 TAATAAATTT
4055099 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
4055118 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
4055132 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
4055150 AAAATATAA
1 AAAATATAA
4055159 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:4055679 original size:18 final size:19
Alignment explanation
Indices: 4055643--4055749 Score: 163
Period size: 17 Copynumber: 5.9 Consensus size: 19
4055633 AATCATATCT
*
4055643 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
4055662 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
4055680 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
4055697 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
4055715 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
4055732 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
4055750 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 1, Indels: 12
0.86 0.01 0.13
Matches are distributed among these distances:
16 1 0.01
17 31 0.38
18 31 0.38
19 18 0.22
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4055696 original size:17 final size:17
Alignment explanation
Indices: 4055643--4055761 Score: 120
Period size: 17 Copynumber: 6.8 Consensus size: 17
4055633 AATCATATCT
4055643 TCTAAGATTGTATATCATA
1 TCTAAGA-T-TATATCATA
4055662 TCTAAGATTGCA-ATCATA
1 TCTAAGATT--ATATCATA
4055680 TCTAAGATTATATCATA
1 TCTAAGATTATATCATA
4055697 TCTAAGATTGCA-ATCATA
1 TCTAAGATT--ATATCATA
*
4055715 TCTAAGATTGTATCATA
1 TCTAAGATTATATCATA
4055732 TCTAAGATTGCATATCAT-
1 TCTAAGATT--ATATCATA
*
4055750 T-GAAGATTATAT
1 TCTAAGATTATAT
4055762 TTCCATATGA
Statistics
Matches: 89, Mismatches: 3, Indels: 20
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.04
16 1 0.01
17 37 0.42
18 32 0.36
19 15 0.17
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (17 bp):
TCTAAGATTATATCATA
Found at i:4055696 original size:35 final size:35
Alignment explanation
Indices: 4055643--4055761 Score: 179
Period size: 35 Copynumber: 3.4 Consensus size: 35
4055633 AATCATATCT
4055643 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGA-T-TATATCATATCTAAGATTGCAATCATA
4055680 TCTAAGATTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTATATCATATCTAAGATTGCAATCATA
*
4055715 TCTAAGATTGTATCATATCTAAGATTGCATATCAT-
1 TCTAAGATTATATCATATCTAAGATTGCA-ATCATA
*
4055750 T-GAAGATTATAT
1 TCTAAGATTATAT
4055762 TTCCATATGA
Statistics
Matches: 78, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
34 9 0.12
35 56 0.72
36 6 0.08
37 7 0.09
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (35 bp):
TCTAAGATTATATCATATCTAAGATTGCAATCATA
Found at i:4056626 original size:83 final size:83
Alignment explanation
Indices: 4056518--4057068 Score: 883
Period size: 83 Copynumber: 6.7 Consensus size: 83
4056508 GTGAAAGCCA
* * * *
4056518 AATCAGCTATGT-CTCGATTTGTTTCTTGTAAGCATAAGGATGCCAAATCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
*
4056582 GAGAACATCTGAGAGTCA
66 GAGAACATCTGAGAGTCT
* * * *
4056600 AATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
*
4056665 GAGAACATCTGAGAGTCA
66 GAGAACATCTGAGAGTCT
* *
4056683 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTTGAGTCTATTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
4056748 GAGAACATCTGAGAGTCT
66 GAGAACATCTGAGAGTCT
* * * **
4056766 AATTTGCTATGTCCTCGATTTGTTTCTTGTAAGCACAAGAACACCAAACCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
4056831 GAGAACATCT--GAGTCT
66 GAGAACATCTGAGAGTCT
*
4056847 AATCTGCTATATCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
4056912 GAGAACATCTGAGAGTCT
66 GAGAACATCTGAGAGTCT
* *
4056930 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGACGCCAAACCATCTTGAGTCTGTTG
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
*
4056995 GAGAACATCCGAGAGTCT
66 GAGAACATCTGAGAGTCT
*
4057013 AATCTGCTATGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
4057069 GATCTACTTC
Statistics
Matches: 436, Mismatches: 30, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
81 75 0.17
82 11 0.03
83 350 0.80
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (83 bp):
AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
GAGAACATCTGAGAGTCT
Found at i:4056978 original size:247 final size:248
Alignment explanation
Indices: 4056518--4057068 Score: 890
Period size: 247 Copynumber: 2.2 Consensus size: 248
4056508 GTGAAAGCCA
* * *
4056518 AATCAGCTATGT-CTCGATTTGTTTCTTGTAAGCATAAGGATGCCAAATCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTTCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
* *
4056582 GAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAA
66 GAGAACATCT-AGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAA
*
4056647 ATCATCTTGAGTCTGTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTG
130 ACCATCTTGAGTCTGTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTG
* * * *
4056712 TAAGCATAAGGATGCCAAACCATCTTGAGTCTATTTGAGAACATCTGAGAGTCT
195 TAAGCACAAGGACGCCAAACCATCTTGAGTCTATTGGAGAACATCCGAGAGTCT
* * **
4056766 AATTTGCTATGTCCTCGATTTGTTTCTTGTAAGCACAAGAACACCAAACCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTTCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
* * *
4056831 GAGAACATCT-GAGTCTAATCTGCTATATCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA
66 GAGAACATCTAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
*
4056895 CCATCTTGAGTCTGTTTGAGAACATCTGAGAGTCTAATCTGCTATGTCCTCGATTTGTTCCTTGT
131 CCATCTTGAGTCTGTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGT
*
4056960 AAGCACAAGGACGCCAAACCATCTTGAGTCTGTTGGAGAACATCCGAGAGTCT
196 AAGCACAAGGACGCCAAACCATCTTGAGTCTATTGGAGAACATCCGAGAGTCT
* *
4057013 AATCTGCTATGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
1 AATCTGCTATGTCCTCGATTTGTTTCTTGTAAGCACAAGGATGCCAAACCATCTTG
4057069 GATCTACTTC
Statistics
Matches: 277, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
247 210 0.76
248 10 0.04
249 57 0.21
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (248 bp):
AATCTGCTATGTCCTCGATTTGTTTCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
GAGAACATCTAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
CCATCTTGAGTCTGTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGT
AAGCACAAGGACGCCAAACCATCTTGAGTCTATTGGAGAACATCCGAGAGTCT
Found at i:4057345 original size:34 final size:34
Alignment explanation
Indices: 4057307--4057385 Score: 158
Period size: 34 Copynumber: 2.3 Consensus size: 34
4057297 TGAAGGTTAG
4057307 ATCTGCTATGTGTCTAAGAACATCTGAGAGTCAA
1 ATCTGCTATGTGTCTAAGAACATCTGAGAGTCAA
4057341 ATCTGCTATGTGTCTAAGAACATCTGAGAGTCAA
1 ATCTGCTATGTGTCTAAGAACATCTGAGAGTCAA
4057375 ATCTGCTATGT
1 ATCTGCTATGT
4057386 CCTCGATTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (34 bp):
ATCTGCTATGTGTCTAAGAACATCTGAGAGTCAA
Found at i:4057515 original size:44 final size:44
Alignment explanation
Indices: 4057462--4057649 Score: 179
Period size: 44 Copynumber: 4.3 Consensus size: 44
4057452 TGAAGGTTAG
*
4057462 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTTCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
* *
4057506 ATCTTCTATCTTC-AACTCGTTCCCTATGAACACAGGGATGCC--
1 ATCTTCTATCTTCGATCT-GTTCCCTATAAACACAGGGATGCCAA
* ** * * * * * *
4057548 ATGTTGAAATCTTCAATCTGCTTCGCTGTAAGCACA-GGAGTGTCAG
1 ATCTT-CTATCTTCGATCTG-TTCCCTATAAACACAGGGA-TGCCAA
4057594 ATCTGT-TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCT-TCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
*
4057638 ATCTGCTATCTT
1 ATCTTCTATCTT
4057650 TAATCTACAT
Statistics
Matches: 113, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
42 4 0.04
43 13 0.12
44 78 0.69
45 14 0.12
46 3 0.03
47 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (44 bp):
ATCTTCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:4058562 original size:1 final size:1
Alignment explanation
Indices: 4058556--4058614 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
4058546 GGCCTCTCCA
* * * * * * *
4058556 TTTTTTTTTTTCTCTTTTTTTTTTCTTTTTATTTTATTTTTCTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4058615 GAAATAGAAG
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.03, C:0.08, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:4058575 original size:11 final size:11
Alignment explanation
Indices: 4058558--4058614 Score: 71
Period size: 12 Copynumber: 4.9 Consensus size: 11
4058548 CCTCTCCATT
4058558 TTTTTTTTTCTC
1 TTTTTTTTT-TC
4058570 TTTTTTTTTTC
1 TTTTTTTTTTC
4058581 TTTTTATTTTAT-
1 TTTTT-TTTT-TC
4058593 TTTTCTTTTTTC
1 TTTT-TTTTTTC
4058605 TTTTTTTTTT
1 TTTTTTTTTT
4058615 GAAATAGAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
11 14 0.34
12 25 0.61
13 2 0.05
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:4064641 original size:17 final size:17
Alignment explanation
Indices: 4064582--4064641 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
4064572 TAATAAATTT
4064582 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
4064601 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
4064615 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
4064633 AAAATATAA
1 AAAATATAA
4064642 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:4065162 original size:18 final size:17
Alignment explanation
Indices: 4065138--4065191 Score: 90
Period size: 17 Copynumber: 3.1 Consensus size: 17
4065128 AATATTGTAT
4065138 ATCATATCTAAGATTGC
1 ATCATATCTAAGATTGC
*
4065155 AGTCATATCTAAGATTGT
1 A-TCATATCTAAGATTGC
4065173 ATCATATCTAAGATTGC
1 ATCATATCTAAGATTGC
4065190 AT
1 AT
4065192 ATCATTGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 18 0.53
18 16 0.47
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (17 bp):
ATCATATCTAAGATTGC
Found at i:4068398 original size:27 final size:27
Alignment explanation
Indices: 4068355--4068417 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
4068345 CATATTTTTA
4068355 ATTTT-TAAAAATAAAAAATA-AAAATT
1 ATTTTCTAAAAATAAAAAATAGAAAA-T
*
4068381 ATTTTCTAAAAATGAAAAATAGAAAAT
1 ATTTTCTAAAAATAAAAAATAGAAAAT
4068408 ATTTTC-AAAA
1 ATTTTCTAAAA
4068418 GTCAAAAGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.26
27 21 0.62
28 4 0.12
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (27 bp):
ATTTTCTAAAAATAAAAAATAGAAAAT
Found at i:4073212 original size:17 final size:17
Alignment explanation
Indices: 4073190--4073238 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
4073180 CTTACTTTCA
4073190 TTCTGCTAATTTGTGTC
1 TTCTGCTAATTTGTGTC
*
4073207 TTCTGCTAAATTTTATGTC
1 TTCTGCT-AA-TTTGTGTC
* *
4073226 TTTTGCTCATTTG
1 TTCTGCTAATTTG
4073239 GTTTTCGGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 10 0.38
18 3 0.12
19 13 0.50
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.55
Consensus pattern (17 bp):
TTCTGCTAATTTGTGTC
Found at i:4073475 original size:17 final size:17
Alignment explanation
Indices: 4073453--4073488 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4073443 ATAAAATAAT
* *
4073453 AATATTTTATTTTAAAA
1 AATATTTTAATATAAAA
4073470 AATATTTTAATATAAAA
1 AATATTTTAATATAAAA
4073487 AA
1 AA
4073489 GGTGTTGCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTTTAATATAAAA
Found at i:4074257 original size:53 final size:53
Alignment explanation
Indices: 4074199--4074300 Score: 204
Period size: 53 Copynumber: 1.9 Consensus size: 53
4074189 TTTCCTCCAG
4074199 CTAGACTCTCATTATTCCAGGAATATTTTAGTATGATTAGAACTCTAAATTAT
1 CTAGACTCTCATTATTCCAGGAATATTTTAGTATGATTAGAACTCTAAATTAT
4074252 CTAGACTCTCATTATTCCAGGAATATTTTAGTATGATTAGAACTCTAAA
1 CTAGACTCTCATTATTCCAGGAATATTTTAGTATGATTAGAACTCTAAA
4074301 CTAAGTCTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (53 bp):
CTAGACTCTCATTATTCCAGGAATATTTTAGTATGATTAGAACTCTAAATTAT
Found at i:4074982 original size:19 final size:18
Alignment explanation
Indices: 4074960--4075010 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 18
4074950 TTAAAATATA
4074960 TTTTTAATTTTTATACTTTT
1 TTTTTAATTTTTA-A-TTTT
4074980 TTTTCTAATTTTTAATTTT
1 TTTT-TAATTTTTAATTTT
*
4074999 TTTTGAATTTTT
1 TTTTTAATTTTT
4075011 TATATTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 7 0.24
19 8 0.28
20 5 0.17
21 9 0.31
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTTAATTTTTAATTTT
Found at i:4075011 original size:19 final size:18
Alignment explanation
Indices: 4074960--4075017 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 18
4074950 TTAAAATATA
*
4074960 TTTTTAATTTTTATACTTTT
1 TTTTTAATTTTT-TA-ATTT
4074980 TTTTCTAA-TTTTTAATTT
1 TTTT-TAATTTTTTAATTT
4074998 TTTTTGAATTTTTTATATTT
1 TTTTT-AATTTTTTA-ATTT
4075018 AAGAAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 1 0.03
18 9 0.27
19 8 0.24
20 12 0.36
21 3 0.09
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTAATTTTTTAATTT
Found at i:4078900 original size:143 final size:143
Alignment explanation
Indices: 4078642--4078924 Score: 566
Period size: 143 Copynumber: 2.0 Consensus size: 143
4078632 CATCTTTTCC
4078642 TTGCAACATAGGTCGCACGTGAGGTAAGTGAATAGCATTAGAATCATTCTTAGATGCTGATATCT
1 TTGCAACATAGGTCGCACGTGAGGTAAGTGAATAGCATTAGAATCATTCTTAGATGCTGATATCT
4078707 TGTCGTTGAACTATTTTTTGGGTTTTGACAACAGCAAATCATGCGGTTTAAGGCTCTCCTCGTAC
66 TGTCGTTGAACTATTTTTTGGGTTTTGACAACAGCAAATCATGCGGTTTAAGGCTCTCCTCGTAC
4078772 TGTTCCGTAGTGA
131 TGTTCCGTAGTGA
4078785 TTGCAACATAGGTCGCACGTGAGGTAAGTGAATAGCATTAGAATCATTCTTAGATGCTGATATCT
1 TTGCAACATAGGTCGCACGTGAGGTAAGTGAATAGCATTAGAATCATTCTTAGATGCTGATATCT
4078850 TGTCGTTGAACTATTTTTTGGGTTTTGACAACAGCAAATCATGCGGTTTAAGGCTCTCCTCGTAC
66 TGTCGTTGAACTATTTTTTGGGTTTTGACAACAGCAAATCATGCGGTTTAAGGCTCTCCTCGTAC
4078915 TGTTCCGTAG
131 TGTTCCGTAG
4078925 CGAATCGATT
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 140 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (143 bp):
TTGCAACATAGGTCGCACGTGAGGTAAGTGAATAGCATTAGAATCATTCTTAGATGCTGATATCT
TGTCGTTGAACTATTTTTTGGGTTTTGACAACAGCAAATCATGCGGTTTAAGGCTCTCCTCGTAC
TGTTCCGTAGTGA
Found at i:4083071 original size:27 final size:27
Alignment explanation
Indices: 4083041--4083131 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
4083031 GAAAAAACTG
* *
4083041 TAAATTAAAATGGGAAGAAAGAT-AATT
1 TAAATTAAAATGAGAA-AAAAATAAATT
*
4083068 TAAATGAAAA-GAGAAAAAAAATTAAATT
1 TAAATTAAAATGAG-AAAAAAA-TAAATT
*
4083096 TAAA-TGAAATGAGAAAAAAATAAATT
1 TAAATTAAAATGAGAAAAAAATAAATT
4083122 TAAATTAAAA
1 TAAATTAAAA
4083132 GAAAGATAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
26 16 0.30
27 26 0.49
28 11 0.21
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (27 bp):
TAAATTAAAATGAGAAAAAAATAAATT
Found at i:4083099 original size:28 final size:26
Alignment explanation
Indices: 4083064--4083180 Score: 109
Period size: 28 Copynumber: 4.5 Consensus size: 26
4083054 GAAGAAAGAT
4083064 AATTTAAATGAAAAGAGAAAAAAAATTA
1 AATTTAAATGAAAAGAG-AAAAAAA-TA
*
4083092 AATTTAAATGAAATGAGAAAAAAATA
1 AATTTAAATGAAAAGAGAAAAAAATA
* *
4083118 AATTTAAAT-TAAA-AG--AAAGAT-
1 AATTTAAATGAAAAGAGAAAAAAATA
* * *
4083139 AATTTAAATGAAATGAGGAAAATATTA
1 AATTTAAATGAAAAGA-GAAAAAAATA
4083166 AATTTAAATGGAAAA
1 AATTTAAAT-GAAAA
4083181 AATAATATAA
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
21 9 0.12
22 7 0.10
23 1 0.01
24 3 0.04
25 2 0.03
26 14 0.19
27 16 0.22
28 20 0.28
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (26 bp):
AATTTAAATGAAAAGAGAAAAAAATA
Found at i:4083233 original size:94 final size:91
Alignment explanation
Indices: 4083096--4083273 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 91
4083086 AAATTAAATT
* * * *
4083096 TAAATGAAATGAGAAAAAAATAAATTTAAATTAAAAGAAAGATAATTTAAATGAAATGAGGAAAA
1 TAAATGAAATGAGAAAAAAATAAATTAAAATGAAAAGAAAGATAAATTAAATGAAATGAGAAAAA
*
4083161 TATTAAATTTAAATGGAAAAAATAATA
66 AATTAAATTTAAAT-GAAAAAATAATA
*
4083188 TAAATGAAATGAGAAAAAAAATTAAATTAAAATGAAATA-AGAGATAAATTAAATGAAATGAGAA
1 TAAATGAAATGAG-AAAAAAA-TAAATTAAAATGAAA-AGAAAGATAAATTAAATGAAATGAGAA
4083252 AAAAATTAAATTTAAATGAAAA
63 AAAAATTAAATTTAAATGAAAA
4083274 GAGAAAAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
92 13 0.17
93 12 0.16
94 51 0.66
95 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (91 bp):
TAAATGAAATGAGAAAAAAATAAATTAAAATGAAAAGAAAGATAAATTAAATGAAATGAGAAAAA
AATTAAATTTAAATGAAAAAATAATA
Found at i:4083300 original size:27 final size:25
Alignment explanation
Indices: 4083064--4083411 Score: 185
Period size: 21 Copynumber: 14.5 Consensus size: 25
4083054 GAAGAAAGAT
4083064 AATTTAAATGAAAAGAGAAAAAAAATTA
1 AATTTAAATGAAAAGAG---AAAAATTA
* *
4083092 AATTTAAATGAAATGAGAAAAAAATA
1 AATTTAAATGAAAAGAG-AAAAATTA
* *
4083118 AATTTAAAT-TAAA-AGAAAGA-T-
1 AATTTAAATGAAAAGAGAAAAATTA
*
4083139 AATTTAAATGAAATGAGGAAAATATTA
1 AATTTAAATGAAAAGA-GAAAA-ATTA
* *
4083166 AATTTAAATGGAAA-A-AATAATATA
1 AATTTAAATGAAAAGAGAAAAAT-TA
* *
4083190 AA-TGAAATGAGAA-A-AAAAATTA
1 AATTTAAATGAAAAGAGAAAAATTA
* *
4083212 AATTAAAATGAAATAAGAGATAAATTA
1 AATTTAAATG-AA-AAGAGAAAAATTA
* *
4083239 AA-TGAAATG---AGAAAAAAATTA
1 AATTTAAATGAAAAGAGAAAAATTA
4083260 AATTTAAATGAAAAGAGAAAAATTA
1 AATTTAAATGAAAAGAGAAAAATTA
4083285 AATTTAAATG----GA-AAAAA-T-
1 AATTTAAATGAAAAGAGAAAAATTA
* *
4083303 AATATAAATGAAATGAGAAAAAAATTA
1 AATTTAAATGAAA--AGAGAAAAATTA
* * *
4083330 AATTAAAATGAGAATATAGATAAATTA
1 AATTTAAATGA-AA-AGAGAAAAATTA
* *
4083357 AA-TGAAATG--AGGA-AAAAATTA
1 AATTTAAATGAAAAGAGAAAAATTA
* *
4083378 AATTTAAATGGAAA-A-AAATA-T-
1 AATTTAAATGAAAAGAGAAAAATTA
4083399 AATTTAAATGAAA
1 AATTTAAATGAAA
4083412 TGAAAATAGA
Statistics
Matches: 253, Mismatches: 38, Indels: 65
0.71 0.11 0.18
Matches are distributed among these distances:
18 9 0.04
19 1 0.00
20 5 0.02
21 44 0.17
22 21 0.08
23 33 0.13
24 17 0.07
25 31 0.12
26 33 0.13
27 41 0.16
28 18 0.07
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (25 bp):
AATTTAAATGAAAAGAGAAAAATTA
Found at i:4083362 original size:48 final size:46
Alignment explanation
Indices: 4083031--4083414 Score: 227
Period size: 48 Copynumber: 8.0 Consensus size: 46
4083021 AAATTAATAT
* * * * *
4083031 GAAAAAACTGTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAAAGA
1 GAAAAAAAT-TAAATTTAAAT-GGAA-AAAAATAAATTAAATGAAATGA
*
4083080 GAAAAAAAATTAAATTTAAATGAAATGAGAAAAAAATAAATTTAAATTAAA--A
1 G-AAAAAAATTAAA-TT---T-AAATG-GAAAAAAATAAA-TTAAATGAAATGA
* * ** *
4083132 GAAAGATAATTTAAA-TGAAAT-GAGGAAAAT--ATTAAATTTAAATG-
1 GAAA-A-AAATTAAATTTAAATGGAAAAAAATAAATTAAA-TGAAATGA
* *
4083176 GAAAAAATAATATAAA-TGAAATGAGAAAAAAAATTAAATTAAAATGAAATAA
1 G-AAAAA-AAT-TAAATTTAAATG-G-AAAAAAA-TAAATT-AAATGAAATGA
* * *
4083228 GAGATAAATTAAA-TGAAATGAGAAAAAAATTAAATTTAAATGAAA--A
1 GAAAAAAATTAAATTTAAATG-GAAAAAAA-TAAA-TTAAATGAAATGA
*
4083274 GAGAAAAATTAAATTTAAATGG-AAAAAAT-AATATAAATGAAATGA
1 GAAAAAAATTAAATTTAAATGGAAAAAAATAAAT-TAAATGAAATGA
* * *
4083319 GAAAAAAATTAAATTAAAATGAGAATATAGATAAATTAAATGAAATGA
1 GAAAAAAATTAAATTTAAATG-GAA-AAAAATAAATTAAATGAAATGA
*
4083367 GGAAAAAATTAAATTTAAATGGAAAAAAATATAATTTAAATGAAATGA
1 GAAAAAAATTAAATTTAAATGGAAAAAAATA-AA-TTAAATGAAATGA
4083415 AAATAGAAAT
Statistics
Matches: 274, Mismatches: 26, Indels: 71
0.74 0.07 0.19
Matches are distributed among these distances:
42 6 0.02
43 18 0.07
44 5 0.02
45 46 0.17
46 20 0.07
47 17 0.06
48 73 0.27
49 24 0.09
50 12 0.04
51 15 0.05
52 7 0.03
53 15 0.05
54 16 0.06
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.24
Consensus pattern (46 bp):
GAAAAAAATTAAATTTAAATGGAAAAAAATAAATTAAATGAAATGA
Found at i:4083411 original size:20 final size:20
Alignment explanation
Indices: 4083164--4083408 Score: 87
Period size: 22 Copynumber: 10.6 Consensus size: 20
4083154 AGGAAAATAT
4083164 TAAATTTAAATGGAAAAAATAA
1 TAAATTTAAATGG-AAAAA-AA
* *
4083186 TATAAATGAAATGAGAAAAAAAA
1 TA-AATTTAAATG-G-AAAAAAA
*
4083209 TTAAATTAAAAT-GAAATAAGAGA
1 -TAAATTTAAATGGAAA-AA-A-A
4083232 TAAATTAAATGAAATGAGAAAAAAA
1 TAAATT---T-AAATG-GAAAAAAA
*
4083257 TTAAATTTAAATGAAAAGAGAAAAAT
1 -TAAATTTAAATG----GA-AAAAAA
4083283 TAAATTTAAATGGAAAAAATAA
1 TAAATTTAAATGG-AAAAA-AA
* *
4083305 TATAAATGAAATGAGAAAAAAA
1 TA-AATTTAAATG-GAAAAAAA
* * *
4083327 TTAAATTAAAATGAGAATATAGA
1 -TAAATTTAAATG-GAA-AAAAA
*
4083350 TAAATTAAATGAAATGAGGAAAAAAT
1 TAAATT---T-AAAT--GGAAAAAAA
4083376 TAAATTTAAATGGAAAAAAA
1 TAAATTTAAATGGAAAAAAA
4083396 TATAATTTAAATG
1 TA-AATTTAAATG
4083409 AAATGAAAAT
Statistics
Matches: 175, Mismatches: 18, Indels: 61
0.69 0.07 0.24
Matches are distributed among these distances:
20 13 0.07
21 18 0.10
22 42 0.24
23 38 0.22
24 10 0.06
25 16 0.09
26 28 0.16
27 5 0.03
28 5 0.03
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (20 bp):
TAAATTTAAATGGAAAAAAA
Found at i:4083414 original size:5 final size:5
Alignment explanation
Indices: 4083404--4083471 Score: 64
Period size: 5 Copynumber: 12.6 Consensus size: 5
4083394 AATATAATTT
* * *
4083404 AAATG AAATG AAAATAG AAATAG AAATG AAATG GAATG GAATGG AATTG
1 AAATG AAATG -AAAT-G AAAT-G AAATG AAATG AAATG AAAT-G AAATG
4083453 AAAATG AAATG AAATG AAA
1 -AAATG AAATG AAATG AAA
4083472 AAAAAAAGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
5 33 0.60
6 21 0.38
7 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:4083417 original size:118 final size:119
Alignment explanation
Indices: 4083041--4083392 Score: 446
Period size: 118 Copynumber: 2.9 Consensus size: 119
4083031 GAAAAAACTG
* * * *
4083041 TAAATTAAAATGGGAAGAAAGATAATTTAAATGAAAAGAGAAAAAAAATTAAATTTAAATGAAAT
1 TAAATTGAAAT-GGAA-AAA-ATAATATAAATGAAATGAGAAAAAAAATTAAATTAAAATGAAAT
* * * * * *
4083106 GAGA-AAAAAATAAATTTAAATTA-AAAGAAAGA-T-AATTTAAATGAAATGAGGAAAATAT
63 AAGAGATAAATTAAA-TGAAATGAGAAA-AAA-ATTAAATTTAAATGAAAAGA-GAAAA-AT
*
4083164 TAAATTTAAATGGAAAAAATAATATAAATGAAATGAGAAAAAAAATTAAATTAAAATGAAATAAG
1 TAAATTGAAATGGAAAAAATAATATAAATGAAATGAGAAAAAAAATTAAATTAAAATGAAATAAG
4083229 AGATAAATTAAATGAAATGAGAAAAAAATTAAATTTAAATGAAAAGAGAAAAAT
66 AGATAAATTAAATGAAATGAGAAAAAAATTAAATTTAAATGAAAAGAGAAAAAT
*
4083283 TAAATTTAAATGGAAAAAATAATATAAATGAAATGAG-AAAAAAATTAAATTAAAATGAGAAT-A
1 TAAATTGAAATGGAAAAAATAATATAAATGAAATGAGAAAAAAAATTAAATTAAAATGA-AATAA
* *
4083346 TAGATAAATTAAATGAAATGAGGAAAAAATTAAATTTAAATGGAAAA
65 GAGATAAATTAAATGAAATGAGAAAAAAATTAAATTTAAAT-GAAAA
4083393 AAATATAATT
Statistics
Matches: 211, Mismatches: 12, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
118 61 0.29
119 48 0.23
120 59 0.28
121 29 0.14
122 4 0.02
123 10 0.05
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (119 bp):
TAAATTGAAATGGAAAAAATAATATAAATGAAATGAGAAAAAAAATTAAATTAAAATGAAATAAG
AGATAAATTAAATGAAATGAGAAAAAAATTAAATTTAAATGAAAAGAGAAAAAT
Found at i:4083418 original size:11 final size:11
Alignment explanation
Indices: 4083404--4083472 Score: 54
Period size: 11 Copynumber: 6.3 Consensus size: 11
4083394 AATATAATTT
4083404 AAATGAAATGA
1 AAATGAAATGA
4083415 AAATAGAAAT-A
1 AAAT-GAAATGA
4083426 GAAATGAAATG-
1 -AAATGAAATGA
* * *
4083437 GAATGGAATGG
1 AAATGAAATGA
*
4083448 AATTGAAAATG-
1 AAATG-AAATGA
4083459 AAATGAAATGA
1 AAATGAAATGA
4083470 AAA
1 AAA
4083473 AAAAAAGGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
10 13 0.28
11 20 0.43
12 13 0.28
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (11 bp):
AAATGAAATGA
Found at i:4083463 original size:17 final size:16
Alignment explanation
Indices: 4083404--4083472 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
4083394 AATATAATTT
4083404 AAATGAAATGAAAAT-A
1 AAATGAAATG-AAATGA
4083420 GAAATAGAAATGAAATG-
1 -AAAT-GAAATGAAATGA
* * *
4083437 GAATGGAATGGAATTGA
1 AAATGAAAT-GAAATGA
4083454 AAATGAAATGAAATGA
1 AAATGAAATGAAATGA
4083470 AAA
1 AAA
4083473 AAAAAAGGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
15 4 0.10
16 17 0.40
17 15 0.36
18 6 0.14
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (16 bp):
AAATGAAATGAAATGA
Found at i:4083765 original size:16 final size:15
Alignment explanation
Indices: 4083740--4083784 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
4083730 GAAAAAATAT
4083740 AAAATGAATTGAAAA
1 AAAATGAATTGAAAA
4083755 AAAATTGAATTGAAAA
1 AAAA-TGAATTGAAAA
*
4083771 AAGATGAATTGAAA
1 AAAATGAATTGAAA
4083785 TGAGACTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.62, C:0.00, G:0.16, T:0.22
Consensus pattern (15 bp):
AAAATGAATTGAAAA
Found at i:4083782 original size:20 final size:18
Alignment explanation
Indices: 4083729--4083783 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 18
4083719 CTAATTAAAA
*
4083729 TGAAAAAATATAAAATGAAT
1 TGAAAAAA-AT-AATTGAAT
4083749 TG-AAAAAA-AATTGAAT
1 TGAAAAAAATAATTGAAT
4083765 TGAAAAAAGATGAATTGAA
1 TGAAAAAA-AT-AATTGAA
4083784 ATGAGACTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 2 0.07
19 5 0.17
20 9 0.30
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (18 bp):
TGAAAAAAATAATTGAAT
Found at i:4083849 original size:16 final size:16
Alignment explanation
Indices: 4083830--4083879 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
4083820 TATGTTAAAA
4083830 AAAATAAATTTAAATG
1 AAAATAAATTTAAATG
*
4083846 AAAA-AAAATT-AATG
1 AAAATAAATTTAAATG
4083860 -AAATGAAATGTTAAATG
1 AAAAT-AAAT-TTAAATG
4083877 AAA
1 AAA
4083880 TATGAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 3 0.11
14 4 0.15
15 8 0.30
16 6 0.22
17 4 0.15
18 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (16 bp):
AAAATAAATTTAAATG
Found at i:4083863 original size:19 final size:20
Alignment explanation
Indices: 4083826--4083867 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4083816 ATTGTATGTT
*
4083826 AAAAAAAATAAATTTAAATG
1 AAAAAAAATAAATTGAAATG
*
4083846 AAAAAAAATTAA-TGAAATG
1 AAAAAAAATAAATTGAAATG
4083865 AAA
1 AAA
4083868 TGTTAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (20 bp):
AAAAAAAATAAATTGAAATG
Found at i:4083866 original size:5 final size:5
Alignment explanation
Indices: 4083856--4083931 Score: 62
Period size: 5 Copynumber: 13.6 Consensus size: 5
4083846 AAAAAAAATT
* *
4083856 AATGA AATGA AATGTTA AATGAA ATATGA ATATGA AATGA AATGTA ATTTGT
1 AATGA AATGA AATG--A AATG-A A-ATGA A-ATGA AATGA AATG-A A-ATGA
4083908 AATGA ATATGA AATGA AATGA AAT
1 AATGA A-ATGA AATGA AATGA AAT
4083932 AGTAATTATG
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
5 32 0.53
6 18 0.30
7 10 0.17
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (5 bp):
AATGA
Found at i:4083877 original size:12 final size:12
Alignment explanation
Indices: 4083858--4083927 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 12
4083848 AAAAAATTAA
4083858 TGAAATGAAATG
1 TGAAATGAAATG
* *
4083870 TTAAATGAAATA
1 TGAAATGAAATG
4083882 TGAATATGAAA--
1 TGAA-ATGAAATG
* *
4083893 TGAAATGTAATT
1 TGAAATGAAATG
* *
4083905 TGTAATG-AATA
1 TGAAATGAAATG
4083916 TGAAATGAAATG
1 TGAAATGAAATG
4083928 AAATAGTAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
10 5 0.11
11 13 0.28
12 22 0.48
13 6 0.13
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (12 bp):
TGAAATGAAATG
Found at i:4083880 original size:17 final size:15
Alignment explanation
Indices: 4083856--4083931 Score: 62
Period size: 17 Copynumber: 4.5 Consensus size: 15
4083846 AAAAAAAATT
4083856 AATGAAATGAAATGTTA
1 AATGAAATGAAATG--A
4083873 AATGAAATATGAATATGA
1 AATG-AA-ATGAA-ATGA
* *
4083891 AATGAAATGTAATTTGT
1 AATGAAATG-AA-ATGA
4083908 AATGAATATGAAATGA
1 AATGAA-ATGAAATGA
4083924 AATGAAAT
1 AATGAAAT
4083932 AGTAATTATG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
15 2 0.04
16 11 0.22
17 19 0.38
18 10 0.20
19 5 0.10
20 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (15 bp):
AATGAAATGAAATGA
Found at i:4083893 original size:30 final size:28
Alignment explanation
Indices: 4083857--4083932 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
4083847 AAAAAAATTA
4083857 ATGAAATGAAATGTTAA-ATGAAATATGAAT
1 ATGAAATGAAATG-TAATATG-AA-ATGAAT
* *
4083887 ATGAAATGAAATGTAATTTGTAATGAAT
1 ATGAAATGAAATGTAATATGAAATGAAT
*
4083915 ATGAAATGAAATGAAATA
1 ATGAAATGAAATGTAATA
4083933 GTAATTATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 22 0.54
29 4 0.10
30 15 0.37
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (28 bp):
ATGAAATGAAATGTAATATGAAATGAAT
Done.