Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 149 of 362
Found at i:49536603 original size:24 final size:24
Alignment explanation
Indices: 49536571--49536616 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
49536561 GGGTTCTTGG
49536571 TGATGTGAGCTTGCCTACGAACAA
1 TGATGTGAGCTTGCCTACGAACAA
49536595 TGATGTGAGCTTGCCTACGAAC
1 TGATGTGAGCTTGCCTACGAAC
49536617 CAAATGGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (24 bp):
TGATGTGAGCTTGCCTACGAACAA
Found at i:49538107 original size:12 final size:12
Alignment explanation
Indices: 49538090--49538121 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
49538080 TTGTAGATTC
49538090 AAAAAAAAATCG
1 AAAAAAAAATCG
49538102 AAAAAAAAATCG
1 AAAAAAAAATCG
49538114 AAAAAAAA
1 AAAAAAAA
49538122 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (12 bp):
AAAAAAAAATCG
Found at i:49538127 original size:10 final size:11
Alignment explanation
Indices: 49538091--49538131 Score: 57
Period size: 12 Copynumber: 3.7 Consensus size: 11
49538081 TGTAGATTCA
49538091 AAAAAAAATCG
1 AAAAAAAATCG
49538102 AAAAAAAAATCG
1 -AAAAAAAATCG
*
49538114 AAAAAAAAT-T
1 AAAAAAAATCG
49538124 AAAAAAAA
1 AAAAAAAA
49538132 CAAATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
10 8 0.29
11 9 0.32
12 11 0.39
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:49546272 original size:30 final size:30
Alignment explanation
Indices: 49546186--49546273 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 30
49546176 CTAACTCACT
* * *
49546186 TTCAACTCAAGAGCTAAACCTTAGCTGAAC
1 TTCAGCTCAAGAGCTAAAGCTTAGCTCAAC
* * **
49546216 TTCAGCTTAGGAG-TTTAGCTTCAGCTCAAC
1 TTCAGCTCAAGAGCTAAAGCTT-AGCTCAAC
* *
49546246 TTTAGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCAAGAGCTAAAGCTTAGCTCA
49546274 TTTTAGTTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
29 5 0.11
30 33 0.75
31 6 0.14
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (30 bp):
TTCAGCTCAAGAGCTAAAGCTTAGCTCAAC
Found at i:49548793 original size:16 final size:14
Alignment explanation
Indices: 49548768--49548832 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 14
49548758 TTTTGTAAAG
*
49548768 AGAAAACAAAGAAA
1 AGAAAAAAAAGAAA
49548782 AGAAAAATCAAAAGCAAA
1 AG-AAAA--AAAAG-AAA
*
49548800 AGAAGAAAAAGAAA
1 AGAAAAAAAAGAAA
49548814 ACGAAATAAAAAGAAA
1 A-GAAA-AAAAAGAAA
49548830 AGA
1 AGA
49548833 GAGGCAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
14 6 0.14
15 14 0.33
16 10 0.24
17 7 0.17
18 5 0.12
ACGTcount: A:0.75, C:0.06, G:0.15, T:0.03
Consensus pattern (14 bp):
AGAAAAAAAAGAAA
Found at i:49548934 original size:18 final size:18
Alignment explanation
Indices: 49548913--49548955 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
49548903 TTCAAAAAGC
49548913 AAAAAGAAAATGAGATTG
1 AAAAAGAAAATGAGATTG
49548931 AAAAAGAAAATGAGATTG
1 AAAAAGAAAATGAGATTG
49548949 AAAAAGA
1 AAAAAGA
49548956 GAACGAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (18 bp):
AAAAAGAAAATGAGATTG
Found at i:49548964 original size:30 final size:31
Alignment explanation
Indices: 49548930--49549000 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
49548920 AAATGAGATT
*
49548930 GAAAAAGAAA-ATGAGATTGAAAAAG-AGAAC
1 GAAAAAGAAATATGAGAGTGAAAAAGAAG-AC
* *
49548960 G-AAAAGAAATTTGAGAGTGAAAAAGAAGAT
1 GAAAAAGAAATATGAGAGTGAAAAAGAAGAC
49548990 GAAAAAGAAAT
1 GAAAAAGAAAT
49549001 TGAAACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 8 0.23
30 16 0.46
31 11 0.31
ACGTcount: A:0.62, C:0.01, G:0.24, T:0.13
Consensus pattern (31 bp):
GAAAAAGAAATATGAGAGTGAAAAAGAAGAC
Found at i:49551126 original size:30 final size:30
Alignment explanation
Indices: 49551092--49551188 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
49551082 AGCTCACTCC
*
49551092 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * *
49551122 TAGCTCAACTTTAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
49551152 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
49551182 TAGCTCA
1 TAGCTCA
49551189 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 47 0.90
31 5 0.10
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:49553042 original size:46 final size:46
Alignment explanation
Indices: 49552990--49553165 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
49552980 TGGTTGAGCA
49552990 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
49553036 TTCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
49553081 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49553129 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49553166 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49553146 original size:93 final size:93
Alignment explanation
Indices: 49552987--49553158 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
49552977 GGATGGTTGA
* **
49552987 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
49553052 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
49553080 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
49553145 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
49553159 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:49566606 original size:30 final size:30
Alignment explanation
Indices: 49566521--49566617 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
49566511 TAAACTAAAA
* *
49566521 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
49566551 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
49566581 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
49566610 ATGAGCTA
1 -TGAGCTA
49566618 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:49569347 original size:30 final size:31
Alignment explanation
Indices: 49569313--49569409 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
49569303 AGCTCACTCC
*
49569313 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
49569343 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
49569373 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
49569403 TAGCTCA
1 TAGCTCA
49569410 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:49571060 original size:12 final size:13
Alignment explanation
Indices: 49571041--49571074 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
49571031 ATACAAGTTT
49571041 GAAAAAAAAACTC
1 GAAAAAAAAACTC
*
49571054 GAAAAAAAAATTC
1 GAAAAAAAAACTC
49571067 GAAAAAAA
1 GAAAAAAA
49571075 TGATTTATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.09
Consensus pattern (13 bp):
GAAAAAAAAACTC
Found at i:49571997 original size:9 final size:10
Alignment explanation
Indices: 49571990--49572037 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 10
49571980 AAGAGAAAAC
49571990 AAAGAAAAGA
1 AAAGAAAAGA
49572000 AAAGAAAAAGAA
1 AAAG-AAAAG-A
49572012 AAAGAAAATGA
1 AAAGAAAA-GA
49572023 AATA-AAAAGA
1 AA-AGAAAAGA
49572033 AAAGA
1 AAAGA
49572038 GAGGCAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
9 1 0.03
10 9 0.27
11 16 0.48
12 7 0.21
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:49572000 original size:5 final size:5
Alignment explanation
Indices: 49571990--49572037 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
49571980 AAGAGAAAAC
49571990 AAAGA AAAGA AAAGAA AAAGAA AAAGA AAATGA AATA-A AAAGA AAAGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAA-GA AA-AGA AAAGA AAAGA
49572038 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 22 0.56
6 15 0.38
7 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:49572017 original size:22 final size:22
Alignment explanation
Indices: 49571990--49572035 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
49571980 AAGAGAAAAC
49571990 AAAGAAAA-GAAAAGAAAAAGAA
1 AAAGAAAATG-AAAGAAAAAGAA
*
49572012 AAAGAAAATGAAATAAAAAGAA
1 AAAGAAAATGAAAGAAAAAGAA
49572034 AA
1 AA
49572036 GAGAGGCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.04
Consensus pattern (22 bp):
AAAGAAAATGAAAGAAAAAGAA
Found at i:49572145 original size:30 final size:31
Alignment explanation
Indices: 49572111--49572181 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
49572101 AAAGCAAAAA
* *
49572111 GAAAAAGAAA-ATGAGATTGCAAAAG-AGAAT
1 GAAAAAGAAATATGAGAGTGAAAAAGAAG-AT
*
49572141 G-AAAAGAAATTTGAGAGTGAAAAAGAAGAT
1 GAAAAAGAAATATGAGAGTGAAAAAGAAGAT
49572171 GAAAAAGAAAT
1 GAAAAAGAAAT
49572182 TGAAACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 8 0.23
30 16 0.46
31 11 0.31
ACGTcount: A:0.61, C:0.01, G:0.24, T:0.14
Consensus pattern (31 bp):
GAAAAAGAAATATGAGAGTGAAAAAGAAGAT
Found at i:49574283 original size:30 final size:31
Alignment explanation
Indices: 49574249--49574345 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
49574239 AGCTCACTCC
*
49574249 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
49574279 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
49574309 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
49574339 TAGCTCA
1 TAGCTCA
49574346 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:49577315 original size:30 final size:30
Alignment explanation
Indices: 49577219--49577315 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
49577209 TAAACTAAAA
* *
49577219 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
49577249 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
*
49577279 TAAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
49577308 ATGAGCTA
1 -TGAGCTA
49577316 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:49579699 original size:5 final size:5
Alignment explanation
Indices: 49579689--49579745 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
49579679 CTCTTGCCTC
*
49579689 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
49579736 TCTTT TCTTT
1 TCTTT TCTTT
49579746 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:49579729 original size:15 final size:14
Alignment explanation
Indices: 49579689--49579745 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
49579679 CTCTTGCCTC
*
49579689 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
49579704 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
49579719 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
49579736 TCTTTTCTTT
1 TCTTTTCTTT
49579746 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:49579746 original size:21 final size:21
Alignment explanation
Indices: 49579689--49579756 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
49579679 CTCTTGCCTC
* *
49579689 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
49579710 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
49579731 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
49579751 CTCTTT
1 -TCTTT
49579757 ACAAAAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:49582243 original size:30 final size:30
Alignment explanation
Indices: 49582209--49582305 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
49582199 TAAACTAAAA
49582209 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
49582239 TGAGCTGAGGC-TAAACT-GCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCG-TGAGCTAAAGT
*
49582269 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
49582298 ATGAGCTA
1 -TGAGCTA
49582306 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
29 4 0.08
30 43 0.84
31 4 0.08
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:49584834 original size:22 final size:21
Alignment explanation
Indices: 49584785--49584838 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
49584775 TTCCGTCTTT
*
49584785 TTCTTTTGTTTCTTTTTCTAA
1 TTCTTTTCTTTCTTTTTCTAA
49584806 -TCATTTTCTCTTCTTTCTTC-AA
1 TTC-TTTTCT-TTCTTT-TTCTAA
49584828 TTCTTTTCTTT
1 TTCTTTTCTTT
49584839 TTCCACATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
20 2 0.07
21 7 0.25
22 14 0.50
23 5 0.18
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.69
Consensus pattern (21 bp):
TTCTTTTCTTTCTTTTTCTAA
Found at i:49589913 original size:11 final size:11
Alignment explanation
Indices: 49589886--49589920 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
49589876 GTTGTAAAGT
49589886 TTTATT-TTTA
1 TTTATTATTTA
49589896 TTT-TTATTTA
1 TTTATTATTTA
49589906 TTTATTATTTA
1 TTTATTATTTA
49589917 TTTA
1 TTTA
49589921 CTTAGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.09
10 10 0.43
11 11 0.48
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:49590366 original size:30 final size:30
Alignment explanation
Indices: 49590332--49590428 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
49590322 TAAACTAAAA
49590332 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
49590362 TGAGCTGAGGC-TAAACT-GCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCG-TGAGCTAAAGT
*
49590392 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
49590421 ATGAGCTA
1 -TGAGCTA
49590429 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
29 4 0.08
30 43 0.84
31 4 0.08
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:49592918 original size:20 final size:20
Alignment explanation
Indices: 49592893--49592934 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
49592883 GAAATTCGAA
*
49592893 AAAAAAAATTTAAAAAATCG
1 AAAAAAAATTAAAAAAATCG
49592913 AAAAAAAATTAAAAAAATCG
1 AAAAAAAATTAAAAAAATCG
49592933 AA
1 AA
49592935 GTATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (20 bp):
AAAAAAAATTAAAAAAATCG
Found at i:49593796 original size:5 final size:5
Alignment explanation
Indices: 49593786--49593834 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
49593776 AAGAGAAAAC
*
49593786 AAAGA AAAGA AAAGA AAA-A GAA-A AAAGA AAATGA AATA-A AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA-GA AA-AGA AAAGA AAAGA
49593835 GAGGCAAGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 7 0.18
5 26 0.68
6 4 0.11
7 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:49593814 original size:23 final size:23
Alignment explanation
Indices: 49593786--49593832 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
49593776 AAGAGAAAAC
49593786 AAAGAAAA-GAAAAGAAAAAGAAA
1 AAAGAAAATG-AAAGAAAAAGAAA
*
49593809 AAAGAAAATGAAATAAAAAGAAA
1 AAAGAAAATGAAAGAAAAAGAAA
49593832 A
1 A
49593833 GAGAGGCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (23 bp):
AAAGAAAATGAAAGAAAAAGAAA
Found at i:49593914 original size:11 final size:12
Alignment explanation
Indices: 49593882--49593912 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
49593872 TTGAGAGAAC
49593882 TTGAAAAAGCCT
1 TTGAAAAAGCCT
49593894 TTGAAAAAGCCT
1 TTGAAAAAGCCT
49593906 TTGAAAA
1 TTGAAAA
49593913 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:49596180 original size:30 final size:29
Alignment explanation
Indices: 49596086--49596181 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
49596076 AGCTCACTCC
*
49596086 TAGCTCATA-TTTAGCTCACGAGCTAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAGCT
* * * * *
49596115 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAG-CT
*
49596145 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCT-AAGCT
49596175 TAGCTCA
1 TAGCTCA
49596182 TTTTAGTTTT
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
28 1 0.02
29 19 0.37
30 29 0.57
31 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (29 bp):
TAGCTCAACTTTAGCTCACGAGCTAAGCT
Found at i:49604037 original size:10 final size:10
Alignment explanation
Indices: 49604022--49604048 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
49604012 TAAGTTGAAG
49604022 TTGAGCTGAT
1 TTGAGCTGAT
49604032 TTGAGCTGAT
1 TTGAGCTGAT
49604042 TTGAGCT
1 TTGAGCT
49604049 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:49608631 original size:21 final size:21
Alignment explanation
Indices: 49608605--49608667 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
49608595 TTGGTATTTG
49608605 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
49608626 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
49608647 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
49608668 ACGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:49610846 original size:30 final size:30
Alignment explanation
Indices: 49610812--49610878 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
49610802 TAAACTAAAA
49610812 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAG
1 TGAGCTAAGCTTTAGCTCGTGAGCTGAAAG
* * *
49610841 TTGAGCTAAGGTTTAGCTTGTGAGTTGAAAG
1 -TGAGCTAAGCTTTAGCTCGTGAGCTGAAAG
49610872 TGAGCTA
1 TGAGCTA
49610879 GGAGTGAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTGAAAG
Found at i:49617922 original size:30 final size:31
Alignment explanation
Indices: 49617852--49617922 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
49617842 TTTTGTTTCA
*
49617852 ATTTCTTTTTCATCTTCTTTTTCACTCTCAG
1 ATTTCTTTTTCATCTTCTTTTTCAATCTCAG
*
49617883 ATTTC-TTTTCGT-TCTCTTTTTCAATCTCA-
1 ATTTCTTTTTCATCT-TCTTTTTCAATCTCAG
*
49617912 TTTTCTTTTTC
1 ATTTCTTTTTC
49617923 TTTTTCATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 5 0.14
30 25 0.71
31 5 0.14
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.62
Consensus pattern (31 bp):
ATTTCTTTTTCATCTTCTTTTTCAATCTCAG
Found at i:49618042 original size:15 final size:14
Alignment explanation
Indices: 49618020--49618058 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
49618010 TTTTATTTAG
49618020 TTTTCTTTTTCTTC
1 TTTTCTTTTTCTTC
49618034 TTTTGCTTTTTCTTTTC
1 TTTT-CTTTTTC--TTC
49618051 TTTTCTTT
1 TTTTCTTT
49618059 ATTTTCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 7 0.32
16 4 0.18
17 7 0.32
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTCTTTTTCTTC
Found at i:49618068 original size:21 final size:20
Alignment explanation
Indices: 49618000--49618069 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
49617990 GCCTCTTGCC
49618000 TCTCTTTTCTTTTTATTTAGTTT
1 TCTCTTTTC-TTTT-TTTA-TTT
**
49618023 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
49618043 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
49618063 TCTCTTT
1 TCTCTTT
49618070 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.17, G:0.03, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:49621991 original size:29 final size:30
Alignment explanation
Indices: 49621921--49622002 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 30
49621911 CTTTTGTTTC
*
49621921 AATTTCTTTTTCA-TCTTCTTTTTCACTCTCA
1 AATTTC-TTTTCATTC-TCTTTTTCAATCTCA
*
49621952 AATTTCTTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTCATTCTCTTTTTCAATCTCA
* * *
49621981 ATTTTTTTTTCATTTTCTTTTT
1 AATTTCTTTTCATTCTCTTTTT
49622003 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
29 18 0.41
30 18 0.41
31 8 0.18
ACGTcount: A:0.13, C:0.21, G:0.01, T:0.65
Consensus pattern (30 bp):
AATTTCTTTTCATTCTCTTTTTCAATCTCA
Found at i:49622110 original size:20 final size:21
Alignment explanation
Indices: 49622087--49622135 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
49622077 TTTTATTTCA
49622087 TTTTCTTTTTCTTCT-TTTGT
1 TTTTCTTTTTCTTCTCTTTGT
*
49622107 TTTTC-TTTTCTTTTCTTTGT
1 TTTTCTTTTTCTTCTCTTTGT
49622127 TTTCTCTTT
1 TTT-TCTTT
49622136 ACAAGAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 13 0.52
21 2 0.08
22 2 0.08
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (21 bp):
TTTTCTTTTTCTTCTCTTTGT
Found at i:49625570 original size:12 final size:12
Alignment explanation
Indices: 49625555--49625593 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
49625545 ATTTTTTTTC
49625555 TTTTCGAAATTT
1 TTTTCGAAATTT
* *
49625567 TTTTTGAATTTT
1 TTTTCGAAATTT
49625579 TTTTC-AAATTT
1 TTTTCGAAATTT
49625590 TTTT
1 TTTT
49625594 TACTTGTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (12 bp):
TTTTCGAAATTT
Found at i:49625594 original size:12 final size:12
Alignment explanation
Indices: 49625550--49625594 Score: 56
Period size: 11 Copynumber: 3.7 Consensus size: 12
49625540 TTTAGATTTT
49625550 TTTTCTTTTCGAAA
1 TTTT-TTTTC-AAA
*
49625564 TTTTTTTT-GAA
1 TTTTTTTTCAAA
49625575 TTTTTTTTCAAA
1 TTTTTTTTCAAA
49625587 TTTTTTTT
1 TTTTTTTT
49625595 ACTTGTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.36
12 10 0.36
13 4 0.14
14 4 0.14
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (12 bp):
TTTTTTTTCAAA
Found at i:49627553 original size:30 final size:30
Alignment explanation
Indices: 49627519--49627615 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
49627509 AGCTTACTCC
49627519 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
49627549 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
49627579 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
49627609 TAGCTCA
1 TAGCTCA
49627616 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:49630326 original size:30 final size:31
Alignment explanation
Indices: 49630292--49630373 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
49630282 TTTGAAAAGC
* *
49630292 AAAAATAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
49630322 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
49630352 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
49630374 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.21, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:49641972 original size:27 final size:27
Alignment explanation
Indices: 49641942--49642227 Score: 326
Period size: 27 Copynumber: 10.6 Consensus size: 27
49641932 ATATTGAGTC
* * * *
49641942 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAATT
* *
49641969 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAGTCAATT
*
49641995 CGCACACTTAGTGCTACATAATCAATCT
1 CGCACACTTAGTGCTACATAGTCAAT-T
* *
49642023 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAATT
** *
49642050 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAATT
* *
49642077 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAATT
*
49642104 CGCACACTTAGTGCTACGTAGTCAATCT
1 CGCACACTTAGTGCTACATAGTCAAT-T
* *
49642132 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAATT
** *
49642159 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAATT
*
49642186 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAATT
49642213 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49642228 GTACAATTTA
Statistics
Matches: 225, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
26 27 0.12
27 148 0.66
28 50 0.22
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAATT
Found at i:49642132 original size:109 final size:109
Alignment explanation
Indices: 49641968--49642227 Score: 468
Period size: 109 Copynumber: 2.4 Consensus size: 109
49641958 TATAATCAAC
* *
49641968 TCGCACACTTAGTGCTACGTAATC-AATCGCACACTTAGTGCTACATAATCAATCTCGCACACTT
1 TCGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCTACATAATCAATCTCGCACACTT
49642032 AGTGCCACATGGTCAATTCGCACACTTAGTGCATCATTTTCATT
66 AGTGCCACATGGTCAATTCGCACACTTAGTGCATCATTTTCATT
* * *
49642076 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTACGTAGTCAATCTCGCACACTT
1 TCGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCTACATAATCAATCTCGCACACTT
49642141 AGTGCCACATGGTCAATTCGCACACTTAGTGCATCATTTTCATT
66 AGTGCCACATGGTCAATTCGCACACTTAGTGCATCATTTTCATT
49642185 TCGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCT
49642228 GTACAATTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
108 21 0.14
109 124 0.86
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (109 bp):
TCGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCTACATAATCAATCTCGCACACTT
AGTGCCACATGGTCAATTCGCACACTTAGTGCATCATTTTCATT
Found at i:49643764 original size:23 final size:24
Alignment explanation
Indices: 49643733--49643779 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
49643723 TCCTCCCTTA
49643733 TTTTATTCA-TCCTTTT-TTTTCT
1 TTTTATTCACTCCTTTTATTTTCT
*
49643755 TTTTAATTCACTTCTTTTATTTTCT
1 TTTT-ATTCACTCCTTTTATTTTCT
49643780 AATCTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 5 0.24
24 6 0.29
25 6 0.29
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATTCACTCCTTTTATTTTCT
Found at i:49648631 original size:30 final size:30
Alignment explanation
Indices: 49648550--49648632 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 30
49648540 TCATATTCAA
**
49648550 CTCACGAGCTAAACCTTAGCTCAGTTTTAG
1 CTCACGAGCTAAACCTTAGCTCAACTTTAG
* * * * * *
49648580 CTTAGGAGTTTAATCTCAGCTCAACTTTAG
1 CTCACGAGCTAAACCTTAGCTCAACTTTAG
*
49648610 CTCACGAGCTAAAGCTTAGCTCA
1 CTCACGAGCTAAACCTTAGCTCA
49648633 TTTTAGTTTA
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (30 bp):
CTCACGAGCTAAACCTTAGCTCAACTTTAG
Found at i:49650962 original size:30 final size:30
Alignment explanation
Indices: 49650867--49650963 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
49650857 AGATCACTCC
** * *
49650867 TAGCTCATTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAGCT
* * * **
49650897 TTGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAG-CT
* *
49650927 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAGCT
49650957 TAGCTCA
1 TAGCTCA
49650964 TTTTAGTTTA
Statistics
Matches: 48, Mismatches: 17, Indels: 4
0.70 0.25 0.06
Matches are distributed among these distances:
29 2 0.04
30 43 0.90
31 3 0.06
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAAGCT
Found at i:49652072 original size:20 final size:20
Alignment explanation
Indices: 49652049--49652114 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
49652039 AGCTCCGTCC
49652049 AGCTCAACTCAGCTTATTTG
1 AGCTCAACTCAGCTTATTTG
*** *
49652069 AGCTCGTTTCAGCTTGTTTG
1 AGCTCAACTCAGCTTATTTG
*
49652089 AGCTCAAC-CGAGCTTACTTTT
1 AGCTCAACTC-AGCTTA-TTTG
49652110 AGCTC
1 AGCTC
49652115 CTTCTTTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
19 1 0.03
20 26 0.74
21 8 0.23
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (20 bp):
AGCTCAACTCAGCTTATTTG
Found at i:49655369 original size:21 final size:19
Alignment explanation
Indices: 49655343--49655382 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
49655333 AAATCACTTC
49655343 TTTTTTTACGAAATTTTTTTA
1 TTTTTTT-CG-AATTTTTTTA
*
49655364 TTTTTTTCGGATTTTTTTA
1 TTTTTTTCGAATTTTTTTA
49655383 ACTTGTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTTTCGAATTTTTTTA
Found at i:49658510 original size:30 final size:30
Alignment explanation
Indices: 49658476--49658572 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
49658466 TAAACTAAAA
* *
49658476 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
49658506 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* *
49658536 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
49658566 TGAGCTA
1 TGAGCTA
49658573 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 47 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:49662294 original size:10 final size:10
Alignment explanation
Indices: 49662278--49662335 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
49662268 CAACTTCGAC
49662278 CAGCTCAATT
1 CAGCTCAATT
* *
49662288 GAGCTCATTT
1 CAGCTCAATT
49662298 CAGCTCAA-T
1 CAGCTCAATT
49662307 CGAGCTCAATT
1 C-AGCTCAATT
*
49662318 TAGCTACAATT
1 CAGCT-CAATT
49662329 CAGCTCA
1 CAGCTCA
49662336 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:49662301 original size:20 final size:20
Alignment explanation
Indices: 49662278--49662338 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
49662268 CAACTTCGAC
49662278 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
49662298 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
49662319 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
49662339 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:49663731 original size:16 final size:14
Alignment explanation
Indices: 49663687--49663775 Score: 66
Period size: 12 Copynumber: 6.6 Consensus size: 14
49663677 TTGGAGTAAC
*
49663687 AAAAAAAA-TC-AA
1 AAAAAAAATTCGAG
49663699 AAAAAAAATTCGAG
1 AAAAAAAATTCGAG
*
49663713 AAAAAAAATTTGATTG
1 AAAAAAAATTCGA--G
49663729 AAAAAAAAATTC-A-
1 -AAAAAAAATTCGAG
*
49663742 AAAAAAAAGT-GA-
1 AAAAAAAATTCGAG
49663754 AAAAAAAA-TCGAG
1 AAAAAAAATTCGAG
49663767 CAAAAAAAA
1 -AAAAAAAA
49663776 AGAAAAGAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
11 1 0.02
12 28 0.44
13 2 0.03
14 21 0.33
16 2 0.03
17 10 0.16
ACGTcount: A:0.72, C:0.06, G:0.09, T:0.13
Consensus pattern (14 bp):
AAAAAAAATTCGAG
Found at i:49664100 original size:4 final size:4
Alignment explanation
Indices: 49664091--49664115 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
49664081 AAGTTTTATT
49664091 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
49664116 ATTCAGTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:49667898 original size:4 final size:4
Alignment explanation
Indices: 49667889--49667913 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
49667879 AAGTTTTATT
49667889 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
49667914 ATTCAGTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:49669664 original size:6 final size:6
Alignment explanation
Indices: 49669632--49669737 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
49669622 AAAGAAATTG
* * ** *
49669632 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** *
49669679 AAAG-A AATCAA AAAGTG AAAGAA AAAGAA AATGAA GAAA-AA AAATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA -AAAGAA AAA--GAA
49669728 AAAGAA AAAG
1 AAAGAA AAAG
49669738 CGAAAAAAGA
Statistics
Matches: 75, Mismatches: 20, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
5 9 0.12
6 59 0.79
7 2 0.03
8 5 0.07
ACGTcount: A:0.74, C:0.04, G:0.16, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:49669742 original size:25 final size:26
Alignment explanation
Indices: 49669618--49669756 Score: 83
Period size: 25 Copynumber: 5.3 Consensus size: 26
49669608 AGAAAGAGAT
**
49669618 TGAAAAAGAAATTGAAAGAAAACAA-AA
1 TGAAAAAGAAAAAG-AAGAAAA-AAGAA
* * * *
49669645 AGAAAACGAAAAAGAA-AAAGAA-AT
1 TGAAAAAGAAAAAGAAGAAAAAAGAA
*
49669669 TGCAAAAGAAAAAGAA-ATCAAAAAGTGAA
1 TGAAAAAGAAAAAGAAGA--AAAAA--GAA
* *
49669698 AGAAAAAGAAAATGAAGAAAAAA-AA
1 TGAAAAAGAAAAAGAAGAAAAAAGAA
*
49669723 TTGAAAAAGAAAAAG-CGAAAAAAGAA
1 -TGAAAAAGAAAAAGAAGAAAAAAGAA
49669749 TGAAAAAG
1 TGAAAAAG
49669757 GAGAAAGTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
24 17 0.20
25 20 0.23
26 20 0.23
27 10 0.11
28 5 0.06
29 14 0.16
30 1 0.01
ACGTcount: A:0.71, C:0.04, G:0.17, T:0.08
Consensus pattern (26 bp):
TGAAAAAGAAAAAGAAGAAAAAAGAA
Found at i:49671409 original size:15 final size:16
Alignment explanation
Indices: 49671370--49671410 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
49671360 AACAACACTC
49671370 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
49671386 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
49671400 CTTTCTTTTTC
1 CTTTCTTTTTC
49671411 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:49671605 original size:17 final size:15
Alignment explanation
Indices: 49671568--49671606 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
49671558 TATCTCCCAC
49671568 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
49671584 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
49671601 TCATTT
1 TCATTT
49671607 TCTCGCTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Found at i:49677998 original size:20 final size:20
Alignment explanation
Indices: 49677975--49678021 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
49677965 GGGTTAAGAT
*
49677975 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
49677995 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
49678015 TGAGCTG
1 TGAGCTG
49678022 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:49679945 original size:22 final size:20
Alignment explanation
Indices: 49679920--49679959 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
49679910 TTATAAACTA
*
49679920 TTTTAATAATTAGTGTGAACG
1 TTTTTATAATT-GTGTGAACG
*
49679941 TTTTTATTATTGTGTGAAC
1 TTTTTATAATTGTGTGAAC
49679960 ACCTAGATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (20 bp):
TTTTTATAATTGTGTGAACG
Found at i:49680082 original size:32 final size:33
Alignment explanation
Indices: 49680017--49680082 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
49680007 GTTTTCTTTC
49680017 ATTTGTAAAGACTTTTGCCAAAATTGTTAATGA
1 ATTTGTAAAGACTTTTGCCAAAATTGTTAATGA
49680050 ATTTGTAAAGACTTTTGCCAAAA-TGTTAATGA
1 ATTTGTAAAGACTTTTGCCAAAATTGTTAATGA
49680082 A
1 A
49680083 CATTGTTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 10 0.30
33 23 0.70
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (33 bp):
ATTTGTAAAGACTTTTGCCAAAATTGTTAATGA
Found at i:49681203 original size:153 final size:153
Alignment explanation
Indices: 49680892--49681199 Score: 561
Period size: 153 Copynumber: 2.0 Consensus size: 153
49680882 CGAAGAGTTC
49680892 ACCTCGGATACCAAATACTTGGTACAAGAAATGTGAAAATGATGGAGTCCAACACTAAGAACATA
1 ACCTCGGATACCAAATACTTGGTACAAGAAATGTGAAAATGATGGAGTCCAACACTAAGAACATA
49680957 CACGAGAGATTAAATCATTTGAAAACAAGATCAAAGTGATAGAGTTTCTTCGAGTTTGAAAATGG
66 CACGAGAGATTAAATCATTTGAAAACAAGATCAAAGTGATAGAGTTTCTTCGAGTTTGAAAATGG
49681022 AGACAAGAACCCCACGGAGATAT
131 AGACAAGAACCCCACGGAGATAT
49681045 ACCTCGGAATACC-AATACTTGGTACAAGAAATGTGAAAATGATGGAGTCCAACACTAAGAACAT
1 ACCTCGG-ATACCAAATACTTGGTACAAGAAATGTGAAAATGATGGAGTCCAACACTAAGAACAT
49681109 ACACGAGAGATTAAATCATTTGGAAAAACAAGATC-AAGTGATAGAGTTTCTTCGAG-TTGAAAA
65 ACACGAGAGATTAAATCATTT-G-AAAACAAGATCAAAGTGATAGAGTTTCTTCGAGTTTGAAAA
49681172 TGGAGAC-AGAACCCCACGGAGATAT
128 TGGAGACAAGAACCCCACGGAGATAT
49681197 ACC
1 ACC
49681200 CTCGACTACT
Statistics
Matches: 152, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
152 21 0.14
153 93 0.61
154 27 0.18
155 11 0.07
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (153 bp):
ACCTCGGATACCAAATACTTGGTACAAGAAATGTGAAAATGATGGAGTCCAACACTAAGAACATA
CACGAGAGATTAAATCATTTGAAAACAAGATCAAAGTGATAGAGTTTCTTCGAGTTTGAAAATGG
AGACAAGAACCCCACGGAGATAT
Found at i:49681540 original size:9 final size:10
Alignment explanation
Indices: 49681533--49681589 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
49681523 AAGAGAAAAC
49681533 AAAGAAAAGA
1 AAAGAAAAGA
49681543 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
49681555 AAAGAAGA-A
1 AAAGAAAAGA
49681564 AAAGAAAATGA
1 AAAGAAAA-GA
49681575 AATA-AAAAGA
1 AA-AGAAAAGA
49681585 AAAGA
1 AAAGA
49681590 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:49681556 original size:21 final size:20
Alignment explanation
Indices: 49681522--49681589 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
49681512 ACATTCTTGT
49681522 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
49681543 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
49681564 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
49681585 AAAGA
1 AAAGA
49681590 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:49681557 original size:6 final size:5
Alignment explanation
Indices: 49681533--49681589 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
49681523 AAGAGAAAAC
*
49681533 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
49681580 AAAGA AAAGA
1 AAAGA AAAGA
49681590 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:49681564 original size:15 final size:14
Alignment explanation
Indices: 49681533--49681589 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
49681523 AAGAGAAAAC
49681533 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
49681549 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
49681564 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
49681580 AAAGAAAAGA
1 AAAGAAAAGA
49681590 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:49681679 original size:6 final size:6
Alignment explanation
Indices: 49681663--49681706 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
49681653 AAAATCCTTT
* * * *
49681663 GAAAAA CAAAAA GAAAAA GAAAAA GAAAAT GAGAAT GAAAAA GA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GA
49681707 GTTTGAGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (6 bp):
GAAAAA
Found at i:49683993 original size:15 final size:15
Alignment explanation
Indices: 49683973--49684019 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
49683963 TCAAAGATGG
49683973 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* *
49683988 GTTTATGTAGATG--
1 GTTTATGGATATGAA
*
49684001 GTTTATGGATATAAA
1 GTTTATGGATATGAA
49684016 GTTT
1 GTTT
49684020 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
13 10 0.40
15 15 0.60
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.45
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:49684008 original size:28 final size:29
Alignment explanation
Indices: 49683967--49684025 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
49683957 AAGGATTCAA
*
49683967 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
49683996 AGAT-GGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
49684024 AG
1 AG
49684026 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:49685484 original size:30 final size:30
Alignment explanation
Indices: 49685448--49685535 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
49685438 TCGCATCATA
49685448 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* * * * * *
49685478 TTCAGCTTAGGAGTTTAGCCTCAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* *
49685508 TTTAGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAACCTTAGCTCA
49685536 TTTTAGTTTA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:49687085 original size:10 final size:10
Alignment explanation
Indices: 49687072--49687107 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
49687062 AGCTCAACTC
49687072 AGCTCATTTG
1 AGCTCATTTG
*
49687082 AGCTCATTTT
1 AGCTCATTTG
*
49687092 AGCTCGTTTG
1 AGCTCATTTG
49687102 AGCTCA
1 AGCTCA
49687108 ACCGAGCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:49687085 original size:20 final size:20
Alignment explanation
Indices: 49687062--49687109 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49687052 AGCTCTGTCC
49687062 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
** * *
49687082 AGCTCATTTTAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
49687102 AGCTCAAC
1 AGCTCAAC
49687110 CGAGCTTACT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:49689883 original size:30 final size:30
Alignment explanation
Indices: 49689798--49689894 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
49689788 TAAACTAAAA
* *
49689798 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
49689828 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
49689858 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
49689887 ATGAGCTA
1 -TGAGCTA
49689895 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:49690682 original size:42 final size:42
Alignment explanation
Indices: 49690567--49690686 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 42
49690557 GTCTGAGACA
* * *
49690567 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTCAGATT
* *
49690609 TACGTATAAGACCATGTCTAGGACATC-GGCATCG-TATCAGATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCGAT-TCAGATT
* * *
49690652 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
49690687 ATTGAATTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
42 28 0.44
43 34 0.54
44 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTCAGATT
Found at i:49692492 original size:49 final size:49
Alignment explanation
Indices: 49692420--49692563 Score: 191
Period size: 49 Copynumber: 2.9 Consensus size: 49
49692410 GCCGAAGCTA
*
49692420 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACC-ACAGT
* * * * *
49692469 TCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGATCACAGTT
1 TCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCACAG-T
*
49692519 TTTGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACC
1 TCT-GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACC
49692564 TCACAATAGA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
48 4 0.05
49 38 0.47
50 2 0.03
51 36 0.45
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCACAGT
Found at i:49694740 original size:64 final size:65
Alignment explanation
Indices: 49694553--49694753 Score: 368
Period size: 65 Copynumber: 3.1 Consensus size: 65
49694543 TGGGCTAAAT
49694553 TCAGTAGCTAGCTAAGTATCACACGGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAAAAAG
1 TCAGTAGCTAGCTAAGTATCACACGGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAAAAAG
* *
49694618 TCAGTAGCTAGCTAACTATCACACGGCCATAGTACACGAGCGTGCCTATTGGCTGTGTGAAAAAG
1 TCAGTAGCTAGCTAAGTATCACACGGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAAAAAG
49694683 TCAGTAGCTAGCTAAGTATCACA-GGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAAAAAA
1 TCAGTAGCTAGCTAAGTATCACACGGCCATAGTACACGAGCGTGCCTATTGGCCGTGTG-AAAAA
49694747 G
65 G
49694748 TCAGTA
1 TCAGTA
49694754 TAGGACCTAT
Statistics
Matches: 131, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
64 34 0.26
65 97 0.74
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (65 bp):
TCAGTAGCTAGCTAAGTATCACACGGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAAAAAG
Found at i:49696394 original size:30 final size:29
Alignment explanation
Indices: 49696299--49696395 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 29
49696289 AGCTCACTCC
*
49696299 TAGCTC-ACTTTCAACTCACGAGCTAAACTT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAC-T
* * * * *
49696329 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAG-CTAAACT
*
49696359 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAA-CT
49696389 TAGCTCA
1 TAGCTCA
49696396 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 40 0.78
31 8 0.16
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACT
Found at i:49698384 original size:21 final size:20
Alignment explanation
Indices: 49698354--49698406 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
49698344 AAAAAGAGTT
*
49698354 TGAAAGAAAGCAAAAA-GAAAG
1 TGAAA-AAAG-AAAAATGAAAC
49698375 TGAGAAAAAGAAAAATGAAAC
1 TGA-AAAAAGAAAAATGAAAC
49698396 TG-AAAAAGAAA
1 TGAAAAAAGAAA
49698407 GTGAAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 9 0.31
20 5 0.17
21 13 0.45
22 2 0.07
ACGTcount: A:0.68, C:0.04, G:0.21, T:0.08
Consensus pattern (20 bp):
TGAAAAAAGAAAAATGAAAC
Found at i:49698388 original size:6 final size:6
Alignment explanation
Indices: 49698377--49698440 Score: 65
Period size: 6 Copynumber: 10.5 Consensus size: 6
49698367 AAAGAAAGTG
* * * * *
49698377 AGAAAA AGAAAA ATGAAAC TGAAAA AGAAAG TGAAAA AGAAAA AGAGAA
1 AGAAAA AGAAAA A-GAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
*
49698426 GGAAAA AGAAAA AGA
1 AGAAAA AGAAAA AGA
49698441 GATCGAGAGT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
6 41 0.91
7 4 0.09
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.05
Consensus pattern (6 bp):
AGAAAA
Found at i:49698411 original size:18 final size:18
Alignment explanation
Indices: 49698360--49698490 Score: 85
Period size: 18 Copynumber: 7.4 Consensus size: 18
49698350 AGTTTGAAAG
*
49698360 AAAGCAAAAAGAAAGTGAG
1 AAAG-AAAAAGAAAGTGAA
*
49698379 AAA-AAGAA-AAA-TGAA
1 AAAGAAAAAGAAAGTGAA
**
49698394 ACTGAAAAAGAAAGTGAA
1 AAAGAAAAAGAAAGTGAA
49698412 AAAGAAAAAGAGAAG-GAA
1 AAAGAAAAAGA-AAGTGAA
* *
49698430 AAAGAAAAAGAGA-TCGAG
1 AAAGAAAAAGAAAGT-GAA
** *
49698448 AGTGAAAAAGAATGTG-A
1 AAAGAAAAAGAAAGTGAA
* *
49698465 GAAGAAAAAGAAAATTGAA
1 AAAGAAAAAG-AAAGTGAA
49698484 AAAGAAA
1 AAAGAAA
49698491 TTGAGTCTGA
Statistics
Matches: 83, Mismatches: 20, Indels: 18
0.69 0.17 0.15
Matches are distributed among these distances:
15 4 0.05
16 7 0.08
17 15 0.18
18 43 0.52
19 14 0.17
ACGTcount: A:0.66, C:0.02, G:0.24, T:0.08
Consensus pattern (18 bp):
AAAGAAAAAGAAAGTGAA
Found at i:49713264 original size:16 final size:16
Alignment explanation
Indices: 49713245--49713291 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
49713235 CGTATGGAGT
49713245 ATACATGAATGGCTGA
1 ATACATGAATGGCTGA
* *
49713261 ATACATGAATGGTTGG
1 ATACATGAATGGCTGA
*
49713277 ATTCATGATATGGCT
1 ATACATGA-ATGGCT
49713292 CATTTTATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (16 bp):
ATACATGAATGGCTGA
Found at i:49714544 original size:20 final size:20
Alignment explanation
Indices: 49714511--49714559 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
49714501 TACATCTTGT
49714511 AAAGAGAAAAC-AAAGAA-AA
1 AAAGA-AAAACAAAAGAAGAA
49714530 GAAAGAAAAAGCAAAAGAAGAA
1 -AAAGAAAAA-CAAAAGAAGAA
49714552 AAAGAAAA
1 AAAGAAAA
49714560 TGAAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.15
20 6 0.23
21 14 0.54
22 2 0.08
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAGAAAAACAAAAGAAGAA
Found at i:49714550 original size:15 final size:15
Alignment explanation
Indices: 49714522--49714577 Score: 78
Period size: 16 Copynumber: 3.7 Consensus size: 15
49714512 AAGAGAAAAC
49714522 AAAGAAAAGAAAGAA
1 AAAGAAAAGAAAGAA
49714537 AAAGCAAAAG-AAGAA
1 AAAG-AAAAGAAAGAA
*
49714552 AAAGAAAATGAAATAA
1 AAAGAAAA-GAAAGAA
49714568 AAAGAAAAGA
1 AAAGAAAAGA
49714578 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
14 4 0.11
15 16 0.43
16 17 0.46
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (15 bp):
AAAGAAAAGAAAGAA
Found at i:49714653 original size:12 final size:12
Alignment explanation
Indices: 49714645--49714669 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49714635 TTTGAAAAGC
49714645 AAAAAGAAAATG
1 AAAAAGAAAATG
49714657 AAAAAGAAAATG
1 AAAAAGAAAATG
49714669 A
1 A
49714670 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:49714666 original size:18 final size:18
Alignment explanation
Indices: 49714639--49714694 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
49714629 AAAGCCTTTG
49714639 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
49714658 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
49714676 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
49714693 AA
1 AA
49714695 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:49714679 original size:30 final size:31
Alignment explanation
Indices: 49714645--49714726 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
49714635 TTTGAAAAGC
*
49714645 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
49714675 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
49714705 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
49714727 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:49717011 original size:14 final size:14
Alignment explanation
Indices: 49716967--49717011 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
49716957 ACCTAAACCG
*
49716967 ACCAATTCGTTCAT
1 ACCATTTCGTTCAT
* *
49716981 ACCATTTCATTCCT
1 ACCATTTCGTTCAT
*
49716995 ACCATTTCGTTCGT
1 ACCATTTCGTTCAT
49717009 ACC
1 ACC
49717012 CTCTTTCTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.38
Consensus pattern (14 bp):
ACCATTTCGTTCAT
Found at i:49717326 original size:30 final size:29
Alignment explanation
Indices: 49717282--49717339 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
49717272 TTGTTCACAT
**
49717282 TCTTTTTCTCTCTCAAACTCTTTTTCATTC
1 TCTTTTTCAATCTC-AACTCTTTTTCATTC
**
49717312 TCTTTTTCAATCTCATTTCTTTTTCATT
1 TCTTTTTCAATCTCAACTCTTTTTCATT
49717340 TTTGTTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (29 bp):
TCTTTTTCAATCTCAACTCTTTTTCATTC
Found at i:49717440 original size:6 final size:5
Alignment explanation
Indices: 49717418--49717473 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
49717408 CTTTTGCCTC
49717418 TCTTT TCTTT T-TATT TCATTT TCTTT TC--T TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
49717464 TCTTT TCTTT
1 TCTTT TCTTT
49717474 GTTTTCTCTC
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
3 3 0.07
4 1 0.02
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:49719227 original size:21 final size:20
Alignment explanation
Indices: 49719193--49719235 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
49719183 GAATAAGCTG
49719193 AAACGAGCTAAATTCGAACTC
1 AAACGAGCTAAATT-GAACTC
* * *
49719214 AAACGATCTGAATTGAGCTC
1 AAACGAGCTAAATTGAACTC
49719234 AA
1 AA
49719236 GTGAGCTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (20 bp):
AAACGAGCTAAATTGAACTC
Found at i:49726877 original size:19 final size:20
Alignment explanation
Indices: 49726853--49726892 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
49726843 TTGTTCACTT
49726853 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTCTTCTC
49726872 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTCTTTGTTTCTTCTC
49726892 T
1 T
49726893 AGATTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (20 bp):
TCTTTTCTTTGTTTCTTCTC
Found at i:49728299 original size:231 final size:228
Alignment explanation
Indices: 49727896--49728350 Score: 544
Period size: 231 Copynumber: 2.0 Consensus size: 228
49727886 TGATACCAAA
* * * * * *
49727896 TGATGTGATCCAGCTCGGGTTGATGAGTCAAATTCACTTAGTTGCCCGATCGTCGTTCGAGAGAG
1 TGATGTGATCCAGCCCGGGTAGATGAGTCAAATCCACGTAGCTGCCCGATCGTAGTTCGAGAGAG
** * ** *
49727961 TCATTCGTGTTTCGAGTTTTAGAATTAGAAGTGAATGAAAAGGGATGGGTCAGCGGAAGGTTTCA
66 TCATTCGTGCCTCGAGTTTTAGAATTAAAAGTGAA-GAAAAGGGATGAATAAGCGGAAGGTTTCA
*
49728026 AGACAGGTAAGTTTAACAATAGGTTCGGTTAAGGGTAGCAAAGATGGATGAAGGATAGAA-GGTT
130 AGACAGGTAAGTTTAACAATAGGTTCGGTTAAGGGTAGCAAAGATGGATGAAGGATA-AATGGGT
*
49728090 TGGTTTGGGTTAACAAGAAAGAAAGTTAAAAGTTGGG
194 CGGTTT-GGTT-ACAAGAAAGAAAGTTAAAAGTTGGG
* *
49728127 TGATGTGATCCGGCCCTGGTAGATGAGTCAAATCCACGTAGCTGCCCGATCGTAGTTCGAGAGAG
1 TGATGTGATCCAGCCCGGGTAGATGAGTCAAATCCACGTAGCTGCCCGATCGTAGTTCGAGAGAG
* *
49728192 TCGTTCGTGCCTCG-GATTTTAGTAA-TAAAAGT-AA-AATAATGGATTAGAATAAGCGGAAGGT
66 TCATTCGTGCCTCGAG-TTTTAG-AATTAAAAGTGAAGAA-AAGGGA-T-GAATAAGCGGAAGGT
** * * * *
49728253 TTCAAGA-AGGGTAAGTTTAGTAATAGGTTCGGTTATGTGTAGCAAAGATGGGTGATGGATAAAT
126 TTCAAGACA-GGTAAGTTTAACAATAGGTTCGGTTAAGGGTAGCAAAGATGGATGAAGGATAAAT
* *
49728317 GGGTCGGTTTGGTTACAAGAAGGAAAGTTGAAAG
190 GGGTCGGTTTGGTTACAAGAAAGAAAGTTAAAAG
49728351 ATGCGGGATG
Statistics
Matches: 191, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
228 2 0.01
229 23 0.12
230 11 0.06
231 153 0.80
232 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (228 bp):
TGATGTGATCCAGCCCGGGTAGATGAGTCAAATCCACGTAGCTGCCCGATCGTAGTTCGAGAGAG
TCATTCGTGCCTCGAGTTTTAGAATTAAAAGTGAAGAAAAGGGATGAATAAGCGGAAGGTTTCAA
GACAGGTAAGTTTAACAATAGGTTCGGTTAAGGGTAGCAAAGATGGATGAAGGATAAATGGGTCG
GTTTGGTTACAAGAAAGAAAGTTAAAAGTTGGG
Found at i:49728670 original size:14 final size:14
Alignment explanation
Indices: 49728636--49728683 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
49728626 GTACGAATGG
* *
49728636 AATGGTAGGAGCGA
1 AATGGTAGGAACAA
*
49728650 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
49728664 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
49728678 ATTGGT
1 AATGGT
49728684 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.42, C:0.06, G:0.33, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:49731184 original size:21 final size:20
Alignment explanation
Indices: 49731158--49731200 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
49731148 GAATGAGCTG
49731158 AAACGAGCTAAATTCGAACTC
1 AAACGAGCTAAATT-GAACTC
* *
49731179 AAACGAGCTGAATTGAGCTC
1 AAACGAGCTAAATTGAACTC
49731199 AA
1 AA
49731201 GTGAGCTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
AAACGAGCTAAATTGAACTC
Found at i:49732672 original size:10 final size:10
Alignment explanation
Indices: 49732657--49732683 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
49732647 TAAGTTGAAG
49732657 TTGAGCTGAT
1 TTGAGCTGAT
49732667 TTGAGCTGAT
1 TTGAGCTGAT
49732677 TTGAGCT
1 TTGAGCT
49732684 TGAAGGAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:49733735 original size:26 final size:26
Alignment explanation
Indices: 49733700--49733766 Score: 102
Period size: 24 Copynumber: 2.6 Consensus size: 26
49733690 CTTCAAATTT
49733700 TTTTCTTTTTTTTTTATAATTTTGTA
1 TTTTCTTTTTTTTTTATAATTTTGTA
49733726 TTTTC--TTTTTTTTATAATTTTGTA
1 TTTTCTTTTTTTTTTATAATTTTGTA
49733750 TTTTCTTCTTCTTTTTT
1 TTTTCTT-TT-TTTTTT
49733767 TTTACAACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
24 24 0.65
26 5 0.14
27 2 0.05
28 6 0.16
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (26 bp):
TTTTCTTTTTTTTTTATAATTTTGTA
Found at i:49737313 original size:21 final size:20
Alignment explanation
Indices: 49737287--49737329 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
49737277 GAATGAGCTG
49737287 AAACGAGCTAAATTCGAACTC
1 AAACGAGCTAAATT-GAACTC
* *
49737308 AAACGAGCTGAATTGAGCTC
1 AAACGAGCTAAATTGAACTC
49737328 AA
1 AA
49737330 GTGAGTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
AAACGAGCTAAATTGAACTC
Found at i:49739335 original size:13 final size:13
Alignment explanation
Indices: 49739317--49739341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49739307 TAACCTACAA
49739317 AATTAAATAACAT
1 AATTAAATAACAT
49739330 AATTAAATAACA
1 AATTAAATAACA
49739342 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:49739623 original size:20 final size:20
Alignment explanation
Indices: 49739566--49739614 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
49739556 AAAAAGGAAT
* * *
49739566 GAGCTGAAACAAGCTAAATTC
1 GAGCTCAAACGAGCTAAA-AC
49739587 GAGCTCAAACGAGCTAAAAC
1 GAGCTCAAACGAGCTAAAAC
49739607 GAGCTCAA
1 GAGCTCAA
49739615 GTGAGCTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.14
Consensus pattern (20 bp):
GAGCTCAAACGAGCTAAAAC
Found at i:49741197 original size:20 final size:20
Alignment explanation
Indices: 49741174--49741219 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
49741164 TAAGCTCGGT
*
49741174 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACAAGCTGAAA
* *
49741194 TGAGCTCAAATAAGCTGAAT
1 TGAGCTCAAACAAGCTGAAA
49741214 TGAGCT
1 TGAGCT
49741220 GGACAAAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (20 bp):
TGAGCTCAAACAAGCTGAAA
Found at i:49744255 original size:30 final size:30
Alignment explanation
Indices: 49744221--49744317 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
49744211 TAAACTAAAA
*
49744221 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
49744251 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
49744281 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
49744311 TGAGCTA
1 TGAGCTA
49744318 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:49745682 original size:20 final size:20
Alignment explanation
Indices: 49745627--49745685 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
49745617 ATGAGCTAGA
* *
49745627 GTTGAGCTGGATGTGAACTT
1 GTTGAGCTAGATGTGAGCTT
*
49745647 GTTGAGCTAGAAGTGAGCTT
1 GTTGAGCTAGATGTGAGCTT
*
49745667 GTTGAGCTAGTTGTGAGCT
1 GTTGAGCTAGATGTGAGCT
49745686 GGACGAGCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.10, G:0.36, T:0.34
Consensus pattern (20 bp):
GTTGAGCTAGATGTGAGCTT
Found at i:49747176 original size:20 final size:20
Alignment explanation
Indices: 49747153--49747200 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49747143 AGCTCCGTCC
49747153 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
49747173 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
49747193 AGCTCAAC
1 AGCTCAAC
49747201 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:49749234 original size:42 final size:42
Alignment explanation
Indices: 49749172--49749260 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
49749162 AGATTATGAG
* * *
49749172 AGAAAATGAGAGGATTTTGAATGAAATCGAGAGAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
*
49749214 AGAAAATGAGAGAATCTTGAATGAAATTGAGAAAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
49749256 AGAAA
1 AGAAA
49749261 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.56, C:0.04, G:0.24, T:0.16
Consensus pattern (42 bp):
AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
Found at i:49749320 original size:18 final size:18
Alignment explanation
Indices: 49749272--49749321 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
49749262 GAAACAAAAA
* *
49749272 GAAAAAGAGATTAAGAGT
1 GAAAAAGAGAATGAGAGT
* *
49749290 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
49749308 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
49749322 AAAAGAGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.26, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:49749375 original size:18 final size:19
Alignment explanation
Indices: 49749339--49749377 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49749329 TTTGAGAGAG
*
49749339 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
49749358 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
49749376 AA
1 AA
49749378 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:49750987 original size:20 final size:20
Alignment explanation
Indices: 49750964--49751011 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49750954 AGCTCTGTCC
49750964 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
49750984 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
49751004 AGCTCAAC
1 AGCTCAAC
49751012 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:49753778 original size:153 final size:154
Alignment explanation
Indices: 49753331--49753791 Score: 879
Period size: 154 Copynumber: 3.0 Consensus size: 154
49753321 TTGCAAAAGA
49753331 ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
1 ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
*
49753396 AGAAATGATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
66 AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
*
49753461 AAAGGCCAACTTAAAACATCATTC
131 AAAGGCAAACTTAAAACATCATTC
49753485 ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
1 ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
49753550 AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
66 AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
49753615 AAAGGCAAACTTAAAACATCATTC
131 AAAGGCAAACTTAAAACATCATTC
49753639 ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATG-AAATAGACAACCATTAATCATCA
1 ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
49753703 AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
66 AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
* *
49753768 AAAGGAAAACTTAAAACATTATTC
131 AAAGGCAAACTTAAAACATCATTC
49753792 TTACAATCAT
Statistics
Matches: 303, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
153 110 0.36
154 193 0.64
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (154 bp):
ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
AAAGGCAAACTTAAAACATCATTC
Found at i:49756633 original size:12 final size:12
Alignment explanation
Indices: 49756618--49756685 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 12
49756608 TTTTGCTCGA
*
49756618 TTTTTTTTCACT
1 TTTTTTTTCAAT
*
49756630 TTTTTTTTGAA-
1 TTTTTTTTCAAT
49756641 TTTTTTTTCAAT
1 TTTTTTTTCAAT
49756653 CAATTTTTTTTCGAAT
1 ---TTTTTTTTC-AAT
*
49756669 TTTTTTTT-GAT
1 TTTTTTTTCAAT
49756680 TTTTTT
1 TTTTTT
49756686 GTTACTCCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
11 18 0.38
12 9 0.19
13 8 0.17
15 9 0.19
16 3 0.06
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (12 bp):
TTTTTTTTCAAT
Found at i:49758744 original size:154 final size:154
Alignment explanation
Indices: 49758464--49758925 Score: 906
Period size: 154 Copynumber: 3.0 Consensus size: 154
49758454 TTGCAAAAGA
49758464 ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
1 ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
*
49758529 AGAAATGATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
66 AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
49758594 AAAGGCAAACTTAAAACATCATTC
131 AAAGGCAAACTTAAAACATCATTC
*
49758618 ACTCACAATATTCGGCACTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
1 ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
49758683 AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
66 AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
49758748 AAAGGCAAACTTAAAACATCATTC
131 AAAGGCAAACTTAAAACATCATTC
49758772 ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
1 ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
49758837 AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
66 AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
49758902 AAAGGCAAACTTAAAACATCATTC
131 AAAGGCAAACTTAAAACATCATTC
49758926 TTACAATCAT
Statistics
Matches: 305, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 305 1.00
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (154 bp):
ACTCACAATATTCGGCATTAGAGATGGCAAATGAATCAATGAAAATAGACAACCATTAATCATCA
AGAAATTATCAGAACAACTATGTGGATCATGCATGGTCATAACAAGACAAGTATGAGTCATGTAA
AAAGGCAAACTTAAAACATCATTC
Found at i:49761767 original size:12 final size:12
Alignment explanation
Indices: 49761738--49761822 Score: 73
Period size: 13 Copynumber: 6.6 Consensus size: 12
49761728 TTTTCTTTTC
49761738 TTTTTTTTGCTCAA
1 TTTTTTTT--TCAA
*
49761752 TTTTTTTTTCAC
1 TTTTTTTTTCAA
*
49761764 TTTTTTTTTGAAA
1 TTTTTTTTT-CAA
49761777 TTTTTTTTCAATCAA
1 TTTTTTTT---TCAA
49761792 TTTTTTTTTCGAA
1 TTTTTTTTTC-AA
*
49761805 TTTTTTTTT-GA
1 TTTTTTTTTCAA
49761816 TTTTTTT
1 TTTTTTT
49761823 GTTACTCCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.13
12 14 0.23
13 20 0.33
14 8 0.13
15 10 0.16
16 1 0.02
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:49761767 original size:31 final size:29
Alignment explanation
Indices: 49761707--49761772 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 29
49761697 TTTAACTTGA
*
49761707 TTTTTTTTGCTCACCCTTTTTTTTTCTTTT
1 TTTTTTTTGCTCA-CATTTTTTTTTCTTTT
**
49761737 CTTTTTTTTGCTCA-ATTTTTTTTTCACTT
1 -TTTTTTTTGCTCACATTTTTTTTTCTTTT
49761766 TTTTTTT
1 TTTTTTT
49761773 GAAATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 7 0.22
29 12 0.38
31 13 0.41
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.74
Consensus pattern (29 bp):
TTTTTTTTGCTCACATTTTTTTTTCTTTT
Found at i:49761783 original size:28 final size:28
Alignment explanation
Indices: 49761752--49761813 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
49761742 TTTTGCTCAA
*
49761752 TTTTTTTT--TCACTTTTTTTTT-GAAAT
1 TTTTTTTTAATCAATTTTTTTTTCG-AAT
*
49761778 TTTTTTTCAATCAATTTTTTTTTCGAAT
1 TTTTTTTTAATCAATTTTTTTTTCGAAT
49761806 TTTTTTTT
1 TTTTTTTT
49761814 GATTTTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 7 0.23
28 22 0.73
29 1 0.03
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (28 bp):
TTTTTTTTAATCAATTTTTTTTTCGAAT
Found at i:49766883 original size:20 final size:21
Alignment explanation
Indices: 49766827--49766885 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
49766817 GAGGAAGGAA
* *
49766827 TGAGCTGAAACGAGCTAAATT
1 TGAGCTCAAACGAGCTGAATT
* *
49766848 TGAACTCAAACAAGCTGAA-T
1 TGAGCTCAAACGAGCTGAATT
*
49766868 TGAGCTCAAATGAGCTGA
1 TGAGCTCAAACGAGCTGA
49766886 TGGGAGCTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (21 bp):
TGAGCTCAAACGAGCTGAATT
Found at i:49769267 original size:30 final size:30
Alignment explanation
Indices: 49769233--49769329 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
49769223 TAAACTAAAA
49769233 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
49769263 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
49769293 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
49769323 TGAGCTA
1 TGAGCTA
49769330 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:49771832 original size:19 final size:18
Alignment explanation
Indices: 49771808--49771851 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
49771798 GATCACACAC
49771808 TTTTTTTTAATTTCGTATA
1 TTTTTTTT-ATTTCGTATA
49771827 TTTTTTTTATTTCGTATA
1 TTTTTTTTATTTCGTATA
49771845 TTTTTTT
1 TTTTTTT
49771852 CTTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTTTTTTATTTCGTATA
Found at i:49775038 original size:21 final size:20
Alignment explanation
Indices: 49775008--49775046 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
49774998 GAGCTGAAAC
*
49775008 GAGCTAAATTCGAACTCAAAA
1 GAGCTGAATT-GAACTCAAAA
*
49775029 GAGCTGAATTGAGCTCAA
1 GAGCTGAATTGAACTCAA
49775047 GTGAGCTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (20 bp):
GAGCTGAATTGAACTCAAAA
Found at i:49777970 original size:21 final size:19
Alignment explanation
Indices: 49777928--49777980 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
49777918 TTTCTTTTTA
49777928 TTTTG-TTTT-TTTTCTTC
1 TTTTGTTTTTCTTTTCTTC
*
49777945 TTTTGCTTTTTCTTTTCTTT
1 TTTTG-TTTTTCTTTTCTTC
49777965 TCTTTGTTTTCTCTTT
1 T-TTTGTTTT-TCTTT
49777981 ACAAGAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.17
19 4 0.13
20 12 0.40
21 9 0.30
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (19 bp):
TTTTGTTTTTCTTTTCTTC
Done.