Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 13 of 253
Found at i:3926786 original size:42 final size:42
Alignment explanation
Indices: 3926727--3926815 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
3926717 TACTAATTGG
*
3926727 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
* *
3926769 GAAAATAGTTCTCTTATTCTAATAAATTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
3926811 TAAAA
1 GAAAA
3926816 ATATTCCTAA
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:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:3926862 original size:19 final size:18
Alignment explanation
Indices: 3926840--3926879 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
3926830 TTAATAAAAC
3926840 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
3926859 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
3926877 TTA
1 TTA
3926880 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:3945348 original size:19 final size:20
Alignment explanation
Indices: 3945324--3945361 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3945314 TAATTAGATT
3945324 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
3945343 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
3945362 TGAAAGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:3945600 original size:16 final size:16
Alignment explanation
Indices: 3945531--3945600 Score: 53
Period size: 16 Copynumber: 4.7 Consensus size: 16
3945521 TACTTATTAA
*
3945531 ATAAGAAATAATAATT
1 ATAATAAATAATAATT
*
3945547 ATAAT--TTAA-AA-T
1 ATAATAAATAATAATT
*
3945559 ATAAT-AATAATAATG
1 ATAATAAATAATAATT
*
3945574 AT-ATAACATAATAGTT
1 ATAATAA-ATAATAATT
3945590 ATAATAAATAA
1 ATAATAAATAA
3945601 AAGAAATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
12 6 0.14
13 5 0.12
14 7 0.17
15 3 0.07
16 17 0.40
17 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (16 bp):
ATAATAAATAATAATT
Found at i:3949212 original size:11 final size:11
Alignment explanation
Indices: 3949192--3949282 Score: 64
Period size: 11 Copynumber: 8.2 Consensus size: 11
3949182 TTCAAACGGT
3949192 ATTTTT-AATA
1 ATTTTTAAATA
3949202 ATTTTTAAATA
1 ATTTTTAAATA
*
3949213 TTTTTTATTTTAATA
1 ATTTTTA----AATA
**
3949228 ATTTTTTTATA
1 ATTTTTAAATA
*
3949239 TTTTTTAAATA
1 ATTTTTAAATA
3949250 A-TTTT--ATA
1 ATTTTTAAATA
3949258 ATTTTTATAATA
1 ATTTTTA-AATA
*
3949270 ATTTTTTAATA
1 ATTTTTAAATA
3949281 AT
1 AT
3949283 CATTTAAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
8 4 0.06
9 4 0.06
10 10 0.16
11 27 0.43
12 9 0.14
15 9 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTTTAAATA
Found at i:3949216 original size:20 final size:20
Alignment explanation
Indices: 3949191--3949279 Score: 89
Period size: 20 Copynumber: 4.6 Consensus size: 20
3949181 CTTCAAACGG
3949191 TATTTTTAATAATTTTTA-AA
1 TATTTTT-ATAATTTTTATAA
*
3949211 TATTTTT-T-ATTTTAATAA
1 TATTTTTATAATTTTTATAA
* *
3949229 TTTTTTTATATTTTTTA-AA
1 TATTTTTATAATTTTTATAA
*
3949248 TAATTTTATAATTTTTATAA
1 TATTTTTATAATTTTTATAA
3949268 TAATTTTT-TAAT
1 T-ATTTTTATAAT
3949280 AATCATTTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
17 6 0.11
18 9 0.16
19 17 0.30
20 19 0.34
21 5 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTATAATTTTTATAA
Found at i:3949254 original size:19 final size:20
Alignment explanation
Indices: 3949194--3949279 Score: 81
Period size: 19 Copynumber: 4.5 Consensus size: 20
3949184 CAAACGGTAT
3949194 TTTTAATAATTTTTA-AAT-A
1 TTTT-ATAATTTTTATAATAA
* * **
3949213 TTTT-TTATTTTAATAATTT
1 TTTTATAATTTTTATAATAA
*
3949232 TTTTATATTTTTTA-AATAA
1 TTTTATAATTTTTATAATAA
3949251 TTTTATAATTTTTATAATAA
1 TTTTATAATTTTTATAATAA
*
3949271 TTTTTTAAT
1 TTTTATAAT
3949280 AATCATTTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
17 7 0.13
18 3 0.06
19 24 0.45
20 19 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATAATTTTTATAATAA
Found at i:3949275 original size:31 final size:31
Alignment explanation
Indices: 3949194--3949282 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
3949184 CAAACGGTAT
*
3949194 TTTTAATAATTTTTAAAT-ATTTTT---T-A
1 TTTTAATAATTTTTTAATAATTTTTAAATAA
* *
3949220 TTTTAATAATTTTTTTATATTTTTTAAATAA
1 TTTTAATAATTTTTTAATAATTTTTAAATAA
*
3949251 TTTT-ATAATTTTTATAATAATTTTTTAATAA
1 TTTTAATAATTTTT-TAATAATTTTTAAATAA
3949282 T
1 T
3949283 CATTTAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 16 0.31
27 5 0.10
30 10 0.20
31 20 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (31 bp):
TTTTAATAATTTTTTAATAATTTTTAAATAA
Found at i:3953407 original size:19 final size:18
Alignment explanation
Indices: 3953356--3953411 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
3953346 TGAAAATAAA
3953356 TATAATTG-TAATAATTT
1 TATAATTGTTAATAATTT
*
3953373 T-TAATCAT-TTATTAATTT
1 TATAAT--TGTTAATAATTT
3953391 TATAATTGTTAAATAATTT
1 TATAATTGTT-AATAATTT
3953410 TA
1 TA
3953412 AAAATTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 2 0.06
18 12 0.39
19 13 0.42
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (18 bp):
TATAATTGTTAATAATTT
Found at i:3953549 original size:21 final size:21
Alignment explanation
Indices: 3953525--3953575 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
3953515 CGCTGTTTCT
* *
3953525 AATCTCACTGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
3953546 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
3953567 AATCTCACC
1 AATCTCACC
3953576 ACCACCGCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.37, G:0.08, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:3955020 original size:40 final size:38
Alignment explanation
Indices: 3954951--3955027 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
3954941 TGATGCAGTT
* * *
3954951 ATTAAAATATATATATATATAAAAGATAATACAAAAAC
1 ATTAAAACATATATATACATAAAACATAATACAAAAAC
* *
3954989 ATTAAAACATATATATACATGACATACATAATAGAAAAA
1 ATTAAAACATATATATACAT-A-AAACATAATACAAAAA
3955028 AAGAATCTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 18 0.56
39 1 0.03
40 13 0.41
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (38 bp):
ATTAAAACATATATATACATAAAACATAATACAAAAAC
Found at i:3955066 original size:23 final size:23
Alignment explanation
Indices: 3955040--3955109 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 23
3955030 GAATCTATGT
3955040 AATATAGTATTGAAAATATATAC
1 AATATAGTATTGAAAATATATAC
*
3955063 AATAT-GATATTGAAAGGATAGATATAT
1 AATATAG-TATTGAAA--AT--ATATAC
3955090 AATATAGTA-TGAAAAGTATA
1 AATATAGTATTGAAAA-TATA
3955110 GGTACATAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
22 1 0.03
23 16 0.41
24 1 0.03
25 3 0.08
26 5 0.13
27 12 0.31
28 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.14, T:0.33
Consensus pattern (23 bp):
AATATAGTATTGAAAATATATAC
Found at i:3955780 original size:22 final size:23
Alignment explanation
Indices: 3955754--3955825 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 23
3955744 GTACAAAGGG
3955754 TATATA-ACTAATAATAT-TAAAA
1 TATATACA-TAATAATATATAAAA
*
3955776 TATATACATAATAGTATATAAAA
1 TATATACATAATAATATATAAAA
*
3955799 -A-A-ACATAATACTA-A-AAATA
1 TATATACATAATAATATATAAA-A
3955818 TATATACA
1 TATATACA
3955826 CATAATACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
18 3 0.07
19 2 0.05
20 11 0.26
21 2 0.05
22 18 0.43
23 6 0.14
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.32
Consensus pattern (23 bp):
TATATACATAATAATATATAAAA
Found at i:3955960 original size:3 final size:3
Alignment explanation
Indices: 3955952--3956028 Score: 145
Period size: 3 Copynumber: 25.7 Consensus size: 3
3955942 TTACTAATGT
*
3955952 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3956000 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3956029 TTGGAATGCA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3971807 original size:15 final size:15
Alignment explanation
Indices: 3971783--3971832 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
3971773 TTGGCCTAAC
3971783 ATCAGGAGCTTTGGA
1 ATCAGGAGCTTTGGA
* **
3971798 ATCAGCAGCTTCAGA
1 ATCAGGAGCTTTGGA
* *
3971813 TTCAGGAACTTTGGA
1 ATCAGGAGCTTTGGA
3971828 ATCAG
1 ATCAG
3971833 AAGGGGCTGG
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (15 bp):
ATCAGGAGCTTTGGA
Found at i:3971870 original size:6 final size:6
Alignment explanation
Indices: 3971856--3971926 Score: 79
Period size: 6 Copynumber: 11.8 Consensus size: 6
3971846 CAGATTTGGG
* * * * * *
3971856 GATGAT GATGGT GATGAT GATGGA GATGGA GATGGG GATGAT GATGGT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT
*
3971904 GATGAT GATGGT GATGGT GATGG
1 GATGGT GATGGT GATGGT GATGG
3971927 GCCTAAGTCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.25, C:0.00, G:0.46, T:0.28
Consensus pattern (6 bp):
GATGGT
Found at i:3971871 original size:12 final size:12
Alignment explanation
Indices: 3971856--3971926 Score: 99
Period size: 12 Copynumber: 5.9 Consensus size: 12
3971846 CAGATTTGGG
3971856 GATGATGATGGT
1 GATGATGATGGT
*
3971868 GATGATGATGGA
1 GATGATGATGGT
*
3971880 GATGGA-GATGGG
1 GAT-GATGATGGT
3971892 GATGATGATGGT
1 GATGATGATGGT
3971904 GATGATGATGGT
1 GATGATGATGGT
*
3971916 GATGGTGATGG
1 GATGATGATGG
3971927 GCCTAAGTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
11 2 0.04
12 49 0.92
13 2 0.04
ACGTcount: A:0.25, C:0.00, G:0.46, T:0.28
Consensus pattern (12 bp):
GATGATGATGGT
Found at i:3971899 original size:36 final size:36
Alignment explanation
Indices: 3971852--3971927 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
3971842 GGGCCAGATT
3971852 TGGGGATGATGATGGTGATGATGATGGAGATGGAGA
1 TGGGGATGATGATGGTGATGATGATGGAGATGGAGA
* *
3971888 TGGGGATGATGATGGTGATGATGATGGTGATGGTGA
1 TGGGGATGATGATGGTGATGATGATGGAGATGGAGA
3971924 TGGG
1 TGGG
3971928 CCTAAGTCCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.00, G:0.49, T:0.28
Consensus pattern (36 bp):
TGGGGATGATGATGGTGATGATGATGGAGATGGAGA
Found at i:3976795 original size:30 final size:28
Alignment explanation
Indices: 3976759--3976825 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
3976749 CAATTGGACC
3976759 TTAAATTTTAA-AATCTAAAAATAAAAAAAA
1 TTAAATTTTAAGAA--TAAAAAT-AAAAAAA
* *
3976789 TTAAATTCTTAAGAATAAATATAAAATAA
1 TTAAATT-TTAAGAATAAAAATAAAAAAA
3976818 TTAAATTT
1 TTAAATTT
3976826 CAATTTTGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 1 0.03
29 13 0.39
30 13 0.39
31 4 0.12
32 2 0.06
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (28 bp):
TTAAATTTTAAGAATAAAAATAAAAAAA
Found at i:3983805 original size:23 final size:23
Alignment explanation
Indices: 3983762--3983805 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
3983752 ATTTAATTAT
* *
3983762 ATTTTATTTTTATTTTGAATTTG
1 ATTTGATTTTTATTTTAAATTTG
3983785 ATTTGATTTTT-TTCTTAAATT
1 ATTTGATTTTTATT-TTAAATT
3983806 ATACATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (23 bp):
ATTTGATTTTTATTTTAAATTTG
Found at i:3993965 original size:24 final size:24
Alignment explanation
Indices: 3993932--3993990 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
3993922 ATCTCTTAAG
*
3993932 ATTTAGTAGAACAATATA-TTTAGC
1 ATTTATTAGAACAATATATTTTA-C
*
3993956 ATTTATTAGAATAATATATTTTAC
1 ATTTATTAGAACAATATATTTTAC
*
3993980 ATTAATTAGAA
1 ATTTATTAGAA
3993991 TTAGGCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.42
Consensus pattern (24 bp):
ATTTATTAGAACAATATATTTTAC
Found at i:3994396 original size:20 final size:20
Alignment explanation
Indices: 3994356--3994395 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
3994346 TGTCACTAAA
*
3994356 TAATCAAATTAAATTTATTT
1 TAATCAAATTAAATTAATTT
3994376 TAATCAAA-TAAATTAATTT
1 TAATCAAATTAAATTAATTT
3994395 T
1 T
3994396 TTGACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATCAAATTAAATTAATTT
Found at i:3999457 original size:32 final size:32
Alignment explanation
Indices: 3999421--3999485 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
3999411 TGTATGCATT
3999421 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
3999453 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
3999485 T
1 T
3999486 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:4000997 original size:26 final size:26
Alignment explanation
Indices: 4000968--4001020 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
4000958 TTTACAGTTT
4000968 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
4000994 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
4001020 T
1 T
4001021 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:4004771 original size:13 final size:13
Alignment explanation
Indices: 4004755--4004779 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4004745 GAAATTTTTG
4004755 GCTTTTCAAAAGT
1 GCTTTTCAAAAGT
4004768 GCTTTTCAAAAG
1 GCTTTTCAAAAG
4004780 CAATTCTGAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GCTTTTCAAAAGT
Found at i:4006388 original size:9 final size:9
Alignment explanation
Indices: 4006368--4006400 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4006358 ATAATGTATA
4006368 ATATAA-AT
1 ATATAAGAT
4006376 ATATAAGAT
1 ATATAAGAT
*
4006385 ATATGAGAT
1 ATATAAGAT
4006394 ATATAAG
1 ATATAAG
4006401 TTAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (9 bp):
ATATAAGAT
Found at i:4006742 original size:3 final size:3
Alignment explanation
Indices: 4006736--4006910 Score: 62
Period size: 3 Copynumber: 56.3 Consensus size: 3
4006726 AAAAATGACT
* * **
4006736 TAA TAA TATA TAA -AA TAA TTA CAA TATA TAA T-A TAA -AA GCA TATA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A
4006781 TATA TAA TAA TATA TAA TAAA TAA TAA -ACA T-A TAA T-A TAA TAA TATA
1 TA-A TAA TAA TA-A TAA T-AA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A
* * ** *
4006828 TAAA TAA TGA TGA TAA -AA TAA TAA TAA CTTG TGAA AAA TAA TATA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA -TAA T-AA TAA TAA TA-A TAA
*
4006876 TAAA TAA TAA T-A TAAA TAA TGTA TAA TAA -AA TAA T
1 T-AA TAA TAA TAA T-AA TAA T-AA TAA TAA TAA TAA T
4006911 TTTATGATAT
Statistics
Matches: 132, Mismatches: 17, Indels: 46
0.68 0.09 0.24
Matches are distributed among these distances:
2 17 0.13
3 80 0.61
4 34 0.26
5 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4006796 original size:33 final size:33
Alignment explanation
Indices: 4006759--4006833 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
4006749 AATAATTACA
*
4006759 ATATATAATATAA-AAGCATATATATATAATAAT
1 ATATATAATATAATAAACATATA-ATATAATAAT
4006792 ATATAATAA-ATAATAAACATATAATATAATAAT
1 ATAT-ATAATATAATAAACATATAATATAATAAT
4006825 ATATA-AATA
1 ATATATAATA
4006834 ATGATGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
31 2 0.05
32 2 0.05
33 22 0.58
34 12 0.32
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (33 bp):
ATATATAATATAATAAACATATAATATAATAAT
Found at i:4006827 original size:47 final size:45
Alignment explanation
Indices: 4006736--4006895 Score: 127
Period size: 49 Copynumber: 3.4 Consensus size: 45
4006726 AAAAATGACT
* *
4006736 TAATAATATATA-AAATAATTACAATATATAATATAAAAGCATATATATA
1 TAATAATATATATAAATAA-TA-AACATATAATATAATA--ATATATA-A
4006785 TAATAATATATAATAAATAATAAACATATAATATAATAATATAT-A
1 TAATAATATAT-ATAAATAATAAACATATAATATAATAATATATAA
* *
4006830 -AATAATGATGATA-AAATAATAATAACTTGTGAA-A-AATAATATATAA
1 TAATAAT-AT-ATATAAATAAT-A-AACATAT-AATATAATAATATATAA
4006876 TAAATAATA-ATATAAATAAT
1 T-AATAATATATATAAATAAT
4006896 GTATAATAAA
Statistics
Matches: 96, Mismatches: 4, Indels: 25
0.77 0.03 0.20
Matches are distributed among these distances:
44 13 0.14
45 18 0.19
46 16 0.17
47 9 0.09
48 6 0.06
49 25 0.26
50 3 0.03
51 6 0.06
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (45 bp):
TAATAATATATATAAATAATAAACATATAATATAATAATATATAA
Found at i:4006834 original size:19 final size:19
Alignment explanation
Indices: 4006717--4006835 Score: 64
Period size: 19 Copynumber: 5.9 Consensus size: 19
4006707 TGAAAATGCG
* *
4006717 TAATAATATAAAAATGACT-
1 TAATAATATATAAAT-AATA
4006736 TAATAATATATAAAATAATTA
1 TAATAATATAT-AAATAA-TA
* *
4006757 CAATATATAATATAAAAGCATATA
1 TAATA-AT-ATAT-AAA-TA-ATA
*
4006781 TATATAATA-ATATATAATA
1 TA-ATAATATATAAATAATA
* * *
4006800 -AATAATAAACATATAATA
1 TAATAATATATAAATAATA
4006818 TAATAATATATAAATAAT
1 TAATAATATATAAATAAT
4006836 GATGATAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
17 6 0.08
18 10 0.13
19 28 0.35
20 6 0.08
21 6 0.08
22 4 0.05
23 9 0.11
24 6 0.08
25 4 0.05
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (19 bp):
TAATAATATATAAATAATA
Found at i:4006909 original size:31 final size:29
Alignment explanation
Indices: 4006786--4006909 Score: 83
Period size: 31 Copynumber: 4.0 Consensus size: 29
4006776 ATATATATAT
* * *
4006786 AATAATATATAATAAATAATAAACATATAATA
1 AATAATA-AT-ATAAATAAT-GATATAAAATA
4006818 TAATAAT-ATATAAATAATGATGATAAAAT-
1 -AATAATAATATAAATAATGAT-ATAAAATA
* * *
4006847 AATAATAACTTGTGAAA-AATAATATATAATA
1 AATAATAA--TAT-AAATAATGATATAAAATA
4006878 AATAATAATATAAATAATGTATAATAAAATA
1 AATAATAATATAAATAATG-AT-ATAAAATA
4006909 A
1 A
4006910 TTTTATGATA
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
28 9 0.12
29 7 0.10
30 23 0.32
31 25 0.34
32 3 0.04
33 6 0.08
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (29 bp):
AATAATAATATAAATAATGATATAAAATA
Found at i:4009335 original size:411 final size:410
Alignment explanation
Indices: 4008569--4009690 Score: 1631
Period size: 411 Copynumber: 2.7 Consensus size: 410
4008559 AAATCTGCTT
*
4008569 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATTATCTTAGATTTGCTTCATA-GTAAGCA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA-ACGTAAGCA
*
4008633 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * * * * * * *
4008698 TGGATCTTGCTTCAGTCTAATCGTCTGAAGATCAGATCTGCCATGTTTATGCTCTCCGTCGAAGT
130 TGGATC-TGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGT
* *
4008763 GGAGATGCTAGACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTT
194 GGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTT
* *
4008828 CAACGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCATAAGGATG
259 CAACGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATG
* * * *
4008893 CCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGTTTGGATCTTCTATGTGTCTGCCCT
324 CCAAACCATCTTGGATCTACTTCAGTATAAACATATGAAGGTTGAATCTGCTATGTGTCTGCCCT
*
4008958 CCGTCGAAGTGGAGATTCCAGA
389 CCGTCGAAGTGGAGATGCCAGA
* * * *
4008980 CTTTGATTTGTTCTCTGACAATAAAGAGATGCCAAATCATCTTAGACTTGTTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
4009045 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
4009110 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCTGTCGAAGTGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
* *
4009175 AGATGCCAGACTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGTTTCA
196 AGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA
4009240 ACGTAAGCACGTGAAAGCCAAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATGC
261 ACGTAAGCACGTGAAAGCC-AAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATGC
4009305 CAAACCATCTTGGATCTACTTCAGTATAAACATATGAAGGTTGAATCTGCTATGTGTCTGCCCTC
325 CAAACCATCTTGGATCTACTTCAGTATAAACATATGAAGGTTGAATCTGCTATGTGTCTGCCCTC
4009370 CGTCGAAGTGGAGATGCCAGA
390 CGTCGAAGTGGAGATGCCAGA
* *
4009391 CTTCGATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * ** * **
4009456 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCAAATACAGAGAGAT---AAGATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTG-TAAGCACA-AG-GATGCCAA-A-C-
** * * * *
4009518 GTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCAT
125 --CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCGT
* * * * * *
4009583 CAAAGTGGAAATGCCAGAGTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAC
188 CGAAGTGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGAT
* * * * *
4009648 TTGCTTCATCGTAAACATGTGAAAGCCAAATCAGTTATTTCTT
253 TTGCTTCAACGTAAGCACGTGAAAGCCAAATCAGCTATGTCTT
4009691 TGATCTGCTC
Statistics
Matches: 639, Mismatches: 62, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
410 130 0.20
411 347 0.54
412 6 0.01
413 3 0.00
414 3 0.00
415 14 0.02
416 136 0.21
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (410 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
AGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA
ACGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATGCC
AAACCATCTTGGATCTACTTCAGTATAAACATATGAAGGTTGAATCTGCTATGTGTCTGCCCTCC
GTCGAAGTGGAGATGCCAGA
Found at i:4009368 original size:206 final size:206
Alignment explanation
Indices: 4008569--4009706 Score: 1610
Period size: 205 Copynumber: 5.5 Consensus size: 206
4008559 AAATCTGCTT
*
4008569 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATTATCTTAGATTTGCTTCATA-GTAAGCA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA-ACGTAAGCA
*
4008633 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * * * * * * * * *
4008698 TGGATCTTGCTTCAGTCTAATCGTCTGAA-GATCAGATCTGCCATGTTTATGCTCTCCGTCGAAG
130 TGGATC-TACTTCAGTATAAACATCTGAAGGTTGAGATCTGCTATGTGTCTGCCCTCCGTCGAAG
*
4008762 TGGAGATGCTAGA
194 TGGAGATGCCAGA
*
4008775 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
4008840 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
4008905 GGATCTACTTCAGTATAAACATCTGAAGTTTG-GATCTTCTATGTGTCTGCCCTCCGTCGAAGTG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTG
*
4008969 GAGATTCCAGA
196 GAGATGCCAGA
* * * *
4008980 CTTTGATTTGTTCTCTGACAATAAAGAGATGCCAAATCATCTTAGACTTGTTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
4009045 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
4009110 GGATCTACTTCAGTATAAACATCTGAAGGTT-AGATCTGCTATGTGTCTGCCCTCTGTCGAAGTG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTG
4009174 GAGATGCCAGA
196 GAGATGCCAGA
* *
4009185 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGTTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
4009250 GTGAAAGCCAAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATGCCAAACCATCT
66 GTGAAAGCC-AAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
4009315 TGGATCTACTTCAGTATAAACATATGAAGGTTGA-ATCTGCTATGTGTCTGCCCTCCGTCGAAGT
130 TGGATCTACTTCAGTATAAACATCTGAAGGTTGAGATCTGCTATGTGTCTGCCCTCCGTCGAAGT
4009379 GGAGATGCCAGA
195 GGAGATGCCAGA
* *
4009391 CTTCGATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * ** * **
4009456 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCAAATACAGAGAGAT---AAGATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTG-TAAGCACA-AG-GATGCCAA-A-C-
* ** * * *
4009518 GTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGG-TGAGATCTGCTATGCGTCTGCCTTCCA
125 --CATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGAGATCTGCTATGTGTCTGCCCTCCG
* *
4009582 TCAAAGTGGAAATGCCAGA
188 TCGAAGTGGAGATGCCAGA
* * * * * * *
4009601 GTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGACTTGCTTCATCGTAAACAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * * * *
4009666 GTGAAAGCCAAATCAGTTATTTCTTTGATCTGCTCCCTGTA
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTA
4009707 GAATACAGAG
Statistics
Matches: 850, Mismatches: 68, Indels: 25
0.90 0.07 0.03
Matches are distributed among these distances:
205 346 0.41
206 332 0.39
207 4 0.00
208 3 0.00
209 4 0.00
210 161 0.19
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTGAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTG
GAGATGCCAGA
Found at i:4018359 original size:26 final size:26
Alignment explanation
Indices: 4018327--4018434 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
4018317 TGGTACAAAT
*
4018327 TGATAATGGGTTAGGTAAATGTTACA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
4018353 CGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4018379 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4018405 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4018431 TGAT
1 TGAT
4018435 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4020027 original size:25 final size:24
Alignment explanation
Indices: 4019973--4020029 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
4019963 ATTGACCTAA
* *
4019973 ATGCATGTTTGATTGTTGTTATTT
1 ATGCATGTTTGATTGTTATTATTG
4019997 ACTGCATGCTTTG-TTGTTATTATCTG
1 A-TGCATG-TTTGATTGTTATTAT-TG
4020023 ATGCATG
1 ATGCATG
4020030 GGACTGGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.04
25 21 0.75
26 6 0.21
ACGTcount: A:0.18, C:0.11, G:0.21, T:0.51
Consensus pattern (24 bp):
ATGCATGTTTGATTGTTATTATTG
Found at i:4024812 original size:9 final size:9
Alignment explanation
Indices: 4024792--4024824 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4024782 ATAATGTATA
4024792 ATATAA-AT
1 ATATAAGAT
4024800 ATATAAGAT
1 ATATAAGAT
*
4024809 ATATGAGAT
1 ATATAAGAT
4024818 ATATAAG
1 ATATAAG
4024825 TTAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (9 bp):
ATATAAGAT
Found at i:4025144 original size:21 final size:20
Alignment explanation
Indices: 4025120--4025174 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
4025110 TTAATGATAA
4025120 TAATATATAGATAAAAATG-CG
1 TAATA-ATA-ATAAAAATGACG
*
4025141 TAATAAT-ATAAAAATGACT
1 TAATAATAATAAAAATGACG
4025160 TAATAATATATAAAA
1 TAATAATA-ATAAAA
4025175 TAATTACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 9 0.30
19 8 0.27
20 2 0.07
21 11 0.37
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATAATAATAAAAATGACG
Found at i:4025153 original size:18 final size:19
Alignment explanation
Indices: 4025130--4025175 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
4025120 TAATATATAG
4025130 ATAAAAATG-CGTAATAAT
1 ATAAAAATGACGTAATAAT
*
4025148 ATAAAAATGACTTAATAAT
1 ATAAAAATGACGTAATAAT
4025167 ATATAAAAT
1 ATA-AAAAT
4025176 AATTACAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.36
19 11 0.44
20 5 0.20
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (19 bp):
ATAAAAATGACGTAATAAT
Found at i:4025166 original size:3 final size:3
Alignment explanation
Indices: 4025160--4025338 Score: 61
Period size: 3 Copynumber: 57.3 Consensus size: 3
4025150 AAAAATGACT
* * **
4025160 TAA TAA TATA TAA -AA TAA TTA CAA TATA TAA T-A TAA -AA GCA TATA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A
4025205 TATA TAAA TAA TATA TAA TAAA TAA TAA -ACA T-A TAA T-A TAA TAA
1 TA-A TA-A TAA TA-A TAA T-AA TAA TAA TA-A TAA TAA TAA TAA TAA
* * ** *
4025249 TATA TAAA TAA TGA TGA TAA -AA TAA TAA TAA CTTG TGAA AAA TAA TATA
1 TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA -TAA T-AA TAA TAA TA-A
*
4025298 TAA TAAA TAA TAA TAA T-A TAAA TAA TGTA TAA TAA -AA TAA T
1 TAA T-AA TAA TAA TAA TAA T-AA TAA T-AA TAA TAA TAA TAA T
4025339 TTTATGATAT
Statistics
Matches: 135, Mismatches: 18, Indels: 46
0.68 0.09 0.23
Matches are distributed among these distances:
2 17 0.13
3 80 0.59
4 37 0.27
5 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4025252 original size:48 final size:47
Alignment explanation
Indices: 4025161--4025315 Score: 128
Period size: 50 Copynumber: 3.3 Consensus size: 47
4025151 AAAATGACTT
* *
4025161 AATAATATAT-A-AAATAATTACAATATATAATATAAAAGCATATATATATA
1 AATAATATATAATAAATAA-TA-AACATATAATATAATA--ATATATA-ATA
4025211 AATAATATATAATAAATAATAAACATATAATATAATAATATATAA-A
1 AATAATATATAATAAATAATAAACATATAATATAATAATATATAATA
* * * *
4025257 TAATGATGATAAAAT-AATAAT-AACTTGTGAA-A-AATAATATATAATA
1 -AATAAT-ATATAATAAATAATAAACATAT-AATATAATAATATATAATA
4025303 AATAATA-ATAATA
1 AATAATATATAATA
4025316 TAAATAATGT
Statistics
Matches: 90, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 17 0.19
46 8 0.09
47 14 0.16
48 13 0.14
50 24 0.27
51 3 0.03
52 6 0.07
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (47 bp):
AATAATATATAATAAATAATAAACATATAATATAATAATATATAATA
Found at i:4025278 original size:20 final size:20
Alignment explanation
Indices: 4025237--4025338 Score: 61
Period size: 20 Copynumber: 5.0 Consensus size: 20
4025227 TAATAAACAT
*
4025237 ATAAT-ATAATAATAT-ATAA
1 ATAATGATAATAAAATAAT-A
*
4025256 ATAATGATGATAAAATAATA
1 ATAATGATAATAAAATAATA
*
4025276 ATAACTTG-TGA-AAAATAATA
1 ATAA--TGATAATAAAATAATA
*
4025296 TATAATAAATAATAATAAT-ATAA
1 -ATAAT-GATAATAA-AATAAT-A
4025319 ATAATGTATAATAAAATAAT
1 ATAATG-ATAATAAAATAAT
4025339 TTTATGATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 21
0.72 0.05 0.23
Matches are distributed among these distances:
19 6 0.09
20 22 0.33
21 14 0.21
22 20 0.30
23 4 0.06
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATGATAATAAAATAATA
Found at i:4025337 original size:34 final size:31
Alignment explanation
Indices: 4025161--4025337 Score: 102
Period size: 31 Copynumber: 5.6 Consensus size: 31
4025151 AAAATGACTT
* *
4025161 AATAAT-ATATAAAAT-AATTACAATATATA
1 AATAATGATATAAAATAAATAATAATATATA
* *
4025190 ATATAAAAGCATATATATATAAATAAT-ATATAATA
1 A-AT-AATG-ATATA-AAATAAATAATAATAT-ATA
*
4025225 AATAAT-A-A-ACATATAATATAATAATATATA
1 AATAATGATATA-AAATAA-ATAATAATATATA
*
4025255 AATAATGATGATAAAAT-AATAATAACT-TGTGA
1 AATAATGAT-ATAAAATAAATAATAA-TATAT-A
* *
4025287 AA-AATAATATATAATAAATAATAATAATATA
1 AATAATGATATAAAATAAATAATAAT-ATATA
4025318 AATAATGTATAATAAAATAA
1 AATAATG-AT-ATAAAATAA
4025338 TTTTATGATA
Statistics
Matches: 114, Mismatches: 13, Indels: 37
0.70 0.08 0.23
Matches are distributed among these distances:
29 8 0.07
30 24 0.21
31 33 0.29
32 10 0.09
33 13 0.11
34 18 0.16
35 8 0.07
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (31 bp):
AATAATGATATAAAATAAATAATAATATATA
Found at i:4040518 original size:131 final size:131
Alignment explanation
Indices: 4040284--4040541 Score: 419
Period size: 131 Copynumber: 2.0 Consensus size: 131
4040274 CTATTCATTC
* * ** *
4040284 AAAAATTCTTTAAAACGAAGGCAATGTTCATTGTTTGGCAATTCGGGGAATCGTGCCCTATTGTG
1 AAAAATTCTTCAAAACAAAGGCAATGTTCATTGTTTGAAAATTCGGGGAATCGTGCCCTATCGTG
* *
4040349 CCGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATTCCTTTGGAATTTCACTCATGTCTT
66 CCGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGTCTT
4040414 T
131 T
*
4040415 AAAAATTCTTCAAAACAAAGGTAATGTTCGA-TGTTTGAAAATTCGGGGAATCGTGCCCTATCGT
1 AAAAATTCTTCAAAACAAAGGCAATGTTC-ATTGTTTGAAAATTCGGGGAATCGTGCCCTATCGT
*
4040479 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGT
65 GCCGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGT
4040542 TCTCCAAATC
Statistics
Matches: 117, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
131 116 0.99
132 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (131 bp):
AAAAATTCTTCAAAACAAAGGCAATGTTCATTGTTTGAAAATTCGGGGAATCGTGCCCTATCGTG
CCGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGTCTT
T
Found at i:4042236 original size:130 final size:129
Alignment explanation
Indices: 4041997--4042328 Score: 451
Period size: 130 Copynumber: 2.6 Consensus size: 129
4041987 ATAATTATTC
*
4041997 GTTTAAAAAA-TCTTTAAAACGAAGGCAATATTCGATGTTTGGAAATTCGG-GCAATCGTGCCCT
1 GTTTAAAAAATTCTTTAAAA-GAAGGCAATGTTCGATGTTTGGAAATTCGGAG-AATCGTGCCCT
* *
4042060 ATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCA
64 ATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCA
4042125 T
129 T
* *
4042126 GTTTAAAAAATTCTTTAAAATGAAGGCAACGTTCGATGTTTGGGAATTCGGAGAATCGTGCCCTA
1 GTTTAAAAAATTCTTTAAAA-GAAGGCAATGTTCGATGTTTGGAAATTCGGAGAATCGTGCCCTA
* *
4042191 TCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGGATATTCCTTTAGAATTTCACTCTT
65 TCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCAT
*** * * * * *
4042256 GTTTTCTAAATTC--TAAAACAAGGCAATGTTCAATGTCTAGAAATTC-GAGGATCGTGCCCTA-
1 GTTTAAAAAATTCTTTAAAAGAAGGCAATGTTCGATGTTTGGAAATTCGGAGAATCGTGCCCTAT
4042317 CTGTGCTGGGTT
66 C-GTGCTGGGTT
4042329 TCGGTTTTTT
Statistics
Matches: 182, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
125 1 0.01
126 24 0.13
127 22 0.12
128 5 0.03
129 10 0.05
130 119 0.65
131 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (129 bp):
GTTTAAAAAATTCTTTAAAAGAAGGCAATGTTCGATGTTTGGAAATTCGGAGAATCGTGCCCTAT
CGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCAT
Found at i:4043930 original size:21 final size:21
Alignment explanation
Indices: 4043904--4043948 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4043894 TTTATGAGAA
*
4043904 TTAAAATATAAAAATAAAATT
1 TTAAAAGATAAAAATAAAATT
* * *
4043925 TTAAAAGATTAAATTATAATT
1 TTAAAAGATAAAAATAAAATT
4043946 TTA
1 TTA
4043949 TTAATTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAAAGATAAAAATAAAATT
Found at i:4044343 original size:19 final size:19
Alignment explanation
Indices: 4044318--4044408 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
4044308 ATAATCTTCA
4044318 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
4044337 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
4044356 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
4044373 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
4044391 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
4044409 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:4044358 original size:14 final size:15
Alignment explanation
Indices: 4044339--4044394 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
4044329 TCTTAGATGT
4044339 GATATG-CAATCTTA
1 GATATGACAATCTTA
4044353 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
4044370 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
4044388 GATATGA
1 GATATGA
4044395 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:4044388 original size:35 final size:37
Alignment explanation
Indices: 4044326--4044415 Score: 134
Period size: 35 Copynumber: 2.5 Consensus size: 37
4044316 CAATGATATG
*
4044326 CAATCTTAGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
4044362 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
4044399 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
4044416 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
35 19 0.38
36 18 0.36
37 13 0.26
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:4050142 original size:8 final size:8
Alignment explanation
Indices: 4050129--4050181 Score: 65
Period size: 8 Copynumber: 6.6 Consensus size: 8
4050119 TCTATTTCAA
4050129 AAAAAAAG
1 AAAAAAAG
4050137 AAAAAAA-
1 AAAAAAAG
4050144 AAAGAAAAG
1 AAA-AAAAG
*
4050153 AAAAAGAG
1 AAAAAAAG
4050161 AAAAAGAA-
1 AAAAA-AAG
4050169 AAAAAAAG
1 AAAAAAAG
4050177 AAAAA
1 AAAAA
4050182 TGGAGAGGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 5 0.13
8 30 0.77
9 4 0.10
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:4050162 original size:24 final size:24
Alignment explanation
Indices: 4050129--4050181 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4050119 TCTATTTCAA
4050129 AAAAAAAGAAAAA-AAAAAGAAAAG
1 AAAAAAAGAAAAAGAAAAA-AAAAG
*
4050153 AAAAAGAGAAAAAGAAAAAAAAAG
1 AAAAAAAGAAAAAGAAAAAAAAAG
4050177 AAAAA
1 AAAAA
4050182 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (24 bp):
AAAAAAAGAAAAAGAAAAAAAAAG
Found at i:4050578 original size:30 final size:30
Alignment explanation
Indices: 4050538--4050639 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
4050528 TTTAAAATAA
* *
4050538 AAATTACATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
4050568 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
4050598 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
4050628 AAATTTCATTTT
1 AAATTTCATTTT
4050640 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.06
30 58 0.94
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:4050602 original size:60 final size:59
Alignment explanation
Indices: 4050535--4050673 Score: 165
Period size: 60 Copynumber: 2.4 Consensus size: 59
4050525 TTTTTTAAAA
* *
4050535 TAAAAATTACATTTTGACCCCTAAACTTTTC-CTAAATTTCATTTTGACCCTTAAACTTTC
1 TAAAAATTACATTTAGACCCCTAAAC-TTTCACTAAATTTCATTTTAACCC-TAAACTTTC
** * * * * *
4050595 TTTAAATTTCACTTAGACCCCTAAACTTTCATTAAATTTCATTTTAATCCTAAATTTTC
1 TAAAAATTACATTTAGACCCCTAAACTTTCACTAAATTTCATTTTAACCCTAAACTTTC
4050654 TAAAAATTACATTTAG-CCCC
1 TAAAAATTACATTTAGACCCC
4050674 AGAAGTTTTG
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
58 4 0.06
59 24 0.37
60 37 0.57
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (59 bp):
TAAAAATTACATTTAGACCCCTAAACTTTCACTAAATTTCATTTTAACCCTAAACTTTC
Found at i:4051165 original size:18 final size:18
Alignment explanation
Indices: 4051144--4051204 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 18
4051134 GGGAAGAAGG
4051144 AAGAAGAAGGAAAAGAAA
1 AAGAAGAAGGAAAAGAAA
4051162 AAG-AG-AGGAACAA-AGAA
1 AAGAAGAAGGAA-AAGA-AA
*
4051179 AAGAAGAAAGGGAAAGAAA
1 AAGAAG-AAGGAAAAGAAA
4051198 AA-AAGAA
1 AAGAAGAA
4051205 AAAAAATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 13
0.72 0.02 0.26
Matches are distributed among these distances:
16 6 0.17
17 11 0.31
18 8 0.22
19 6 0.17
20 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGGAAAAGAAA
Found at i:4051527 original size:20 final size:19
Alignment explanation
Indices: 4051502--4051561 Score: 81
Period size: 16 Copynumber: 3.3 Consensus size: 19
4051492 CAGCAGAGAG
4051502 AAAAAAAGAAAGAAAGAAGA
1 AAAAAAAGAAA-AAAGAAGA
4051522 AAAAAAAG-AAAAAG-AG-
1 AAAAAAAGAAAAAAGAAGA
*
4051538 AAAAAAAGAAAAAACAAGA
1 AAAAAAAGAAAAAAGAAGA
4051557 AAAAA
1 AAAAA
4051562 GGGGTTCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
16 8 0.22
17 7 0.19
18 6 0.17
19 7 0.19
20 8 0.22
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAAAAGAAGA
Found at i:4051549 original size:8 final size:8
Alignment explanation
Indices: 4051500--4051561 Score: 61
Period size: 8 Copynumber: 7.0 Consensus size: 8
4051490 CCCAGCAGAG
4051500 AGAAAAAA
1 AGAAAAAA
4051508 AGAAAGAAAGA
1 AG-AA-AAA-A
4051519 AGAAAAAAA
1 AG-AAAAAA
*
4051528 AGAAAAAG
1 AGAAAAAA
4051536 AGAAAAAA
1 AGAAAAAA
4051544 AGAAAAAACA
1 AG-AAAAA-A
4051554 AGAAAAAA
1 AGAAAAAA
4051562 GGGGTTCAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
8 17 0.36
9 15 0.32
10 9 0.19
11 6 0.13
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:4051562 original size:17 final size:16
Alignment explanation
Indices: 4051504--4051562 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
4051494 GCAGAGAGAA
*
4051504 AAAAAGAAAGAAAGAAG
1 AAAAA-AAAGAAAAAAG
4051521 AAAAAAAAG-AAAAAG
1 AAAAAAAAGAAAAAAG
*
4051536 AGAAAAAAAGAAAAAAC
1 A-AAAAAAAGAAAAAAG
4051553 AAGAAAAAAG
1 AA-AAAAAAG
4051563 GGGTTCAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
15 6 0.16
16 13 0.35
17 18 0.49
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAG
Found at i:4051787 original size:5 final size:5
Alignment explanation
Indices: 4051712--4051759 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
4051702 CATTTATATT
4051712 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
4051760 TTATTTTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:4051787 original size:15 final size:15
Alignment explanation
Indices: 4051711--4051785 Score: 87
Period size: 15 Copynumber: 4.9 Consensus size: 15
4051701 GCATTTATAT
4051711 TTTTAATTTAATTTAA
1 TTTT-ATTTAATTTAA
*
4051727 TTTAATTTAATTTAA
1 TTTTATTTAATTTAA
*
4051742 TTTAATTTAATTTAA
1 TTTTATTTAATTTAA
* *
4051757 TTTTTATTTTATTTTA
1 -TTTTATTTAATTTAA
*
4051773 TTTTATTTTATTT
1 TTTTATTTAATTT
4051786 TAAATACTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
15 39 0.72
16 15 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATTTAATTTAA
Found at i:4052132 original size:18 final size:18
Alignment explanation
Indices: 4052111--4052522 Score: 149
Period size: 17 Copynumber: 22.8 Consensus size: 18
4052101 AGAAAATTTT
4052111 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
4052129 TCGTGTTTTCAAAAAAATT-
1 TCGTGTTTTC--AAAAATTC
** * *
4052148 TTAT-TTTTCAAAATTTT
1 TCGTGTTTTCAAAAATTC
4052165 TCGTGTTTTCTAAAAATT-
1 TCGTGTTTTC-AAAAATTC
* * * *
4052183 TCCAT-ATTTCTAAAATTT
1 T-CGTGTTTTCAAAAATTC
**
4052201 TCGTGTTTAAAAAAATT-
1 TCGTGTTTTCAAAAATTC
* * *
4052218 TCGTATTTTCAAAATTTTTT
1 TCGTGTTTTCAAAA--ATTC
** * *
4052238 TATTTTTTTTCAACAATTC
1 T-CGTGTTTTCAAAAATTC
* *
4052257 TCGAG-TTTCACAAATTC
1 TCGTGTTTTCAAAAATTC
* *
4052274 TCGTGTTTT-AAAATTTT
1 TCGTGTTTTCAAAAATTC
** *
4052291 TTATGTTTTAAAAAATAAATTTC
1 TCGTGTTTT---CAA-AAA-TTC
*
4052314 TCGTG-TTTCAAAAAAATTG
1 TCGTGTTTTC--AAAAATTC
* *
4052333 TCATGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTC
* *
4052350 TCATG-TTTCTAAAATGT-
1 TCGTGTTTTCAAAAAT-TC
*
4052367 T--TGTATTTCAAAAAATCC
1 TCGTGT-TTTC-AAAAATTC
4052385 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
* *
4052403 TCATG-TTT-AAAAAATC
1 TCGTGTTTTCAAAAATTC
4052419 TTCGTGTTTTC-AAAATTC
1 -TCGTGTTTTCAAAAATTC
* *
4052437 TAGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTC
*
4052454 TCATGTTTTCAAAAATTTC
1 TCGTGTTTTCAAAAA-TTC
* * *
4052473 CCCTATTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
* * *
4052491 TCGTATTTT-GAAAATTT
1 TCGTGTTTTCAAAAATTC
*
4052508 TCTTGTTTTCAAAAA
1 TCGTGTTTTCAAAAA
4052523 AAAAACTTTC
Statistics
Matches: 290, Mismatches: 67, Indels: 74
0.67 0.16 0.17
Matches are distributed among these distances:
15 2 0.01
16 20 0.07
17 102 0.35
18 87 0.30
19 39 0.13
20 17 0.06
21 13 0.04
22 5 0.02
23 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTC
Found at i:4052159 original size:36 final size:37
Alignment explanation
Indices: 4052116--4052236 Score: 135
Period size: 36 Copynumber: 3.4 Consensus size: 37
4052106 ATTTTTCGTG
*
4052116 TTTTCAAAAATTCTCGTGTTTTCAAAAAAATTT-TAT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAAATTTCTAT
* * *
4052152 TTTTCAAAATTTTTCGTGTTTTC-TAAAAATTTCCAT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAAATTTCTAT
* *
4052188 ATTTCTAAAATTTTCGTG-TTT-AAAAAAATTTCGTA-
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAAATTTC-TAT
*
4052223 TTTTCAAAATTTTT
1 TTTTCAAAAATTTT
4052237 TTATTTTTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
35 31 0.44
36 39 0.56
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (37 bp):
TTTTCAAAAATTTTCGTGTTTTCAAAAAAATTTCTAT
Found at i:4052667 original size:22 final size:22
Alignment explanation
Indices: 4052625--4052666 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
4052615 ATAATTTATC
*
4052625 AAAATTTTTGTGTTTTCAAAAT
1 AAAATTTTTGTGTTTTAAAAAT
4052647 AAAA-TTTTGTGTTTTAAAAA
1 AAAATTTTTGTGTTTTAAAAA
4052667 AATTCTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (22 bp):
AAAATTTTTGTGTTTTAAAAAT
Found at i:4052684 original size:17 final size:18
Alignment explanation
Indices: 4052664--4052706 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
4052654 TGTGTTTTAA
4052664 AAAAATTCTCATG-TTTC
1 AAAAATTCTCATGTTTTC
* * *
4052681 AAAAACTGTCGTGTTTTC
1 AAAAATTCTCATGTTTTC
4052699 AAAAATTC
1 AAAAATTC
4052707 CCGTGTTAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (18 bp):
AAAAATTCTCATGTTTTC
Found at i:4052760 original size:18 final size:19
Alignment explanation
Indices: 4052728--4052781 Score: 85
Period size: 17 Copynumber: 2.9 Consensus size: 19
4052718 AAATTTTGTG
4052728 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTCAAAAAA
4052747 TTTTCGTG-TTTC-AAAAA
1 TTTTCGTGTTTTCAAAAAA
*
4052764 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
4052782 TTATTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 12 0.38
18 8 0.25
19 12 0.38
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTTCGTGTTTTCAAAAAA
Found at i:4052764 original size:17 final size:18
Alignment explanation
Indices: 4052728--4052783 Score: 87
Period size: 18 Copynumber: 3.1 Consensus size: 18
4052718 AAATTTTGTG
4052728 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
4052747 TTTTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
4052764 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
4052782 TT
1 TT
4052784 ATTATTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 12 0.35
18 14 0.41
19 8 0.24
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:4053325 original size:45 final size:45
Alignment explanation
Indices: 4053271--4053363 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
4053261 ATTTTCAAAA
4053271 TTTCTTGTTCAAATTAACATTTAGTCGTGATCCTTAAATTTTTTG
1 TTTCTTGTTCAAATTAACATTTAGTCGTGATCCTTAAATTTTTTG
4053316 TTTCTTGTTCAAATTAACATTTAGTCGTGATCCTTAAATTTTTTG
1 TTTCTTGTTCAAATTAACATTTAGTCGTGATCCTTAAATTTTTTG
4053361 TTT
1 TTT
4053364 TCAAAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.53
Consensus pattern (45 bp):
TTTCTTGTTCAAATTAACATTTAGTCGTGATCCTTAAATTTTTTG
Found at i:4057259 original size:43 final size:41
Alignment explanation
Indices: 4057211--4057343 Score: 110
Period size: 43 Copynumber: 3.1 Consensus size: 41
4057201 TTGAAAATTA
4057211 CAAAATTTAACGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
1 CAAAATTT--CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
* * * *
4057254 CAAAATTGTGGATCTT-ATCTCCCTAAGCAGTAGTGG-AGCAGAT
1 CAAAATT-TCG-CCTTAATC-CCCTAAGCAGTAG-GGTAACAGGT
* * *
4057297 CCAAGA-TGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGT
1 -CAAAATTTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
*
4057338 TAAAAT
1 CAAAAT
4057344 ATAGCAGATC
Statistics
Matches: 69, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
40 5 0.07
41 21 0.30
42 7 0.10
43 29 0.42
44 7 0.10
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (41 bp):
CAAAATTTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
Found at i:4057818 original size:207 final size:207
Alignment explanation
Indices: 4057463--4058178 Score: 1202
Period size: 207 Copynumber: 3.5 Consensus size: 207
4057453 CGATGGAGAG
* *
4057463 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
4057528 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
* *
4057593 CATAGCAGATTTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTAGCATCCTTGT
131 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
4057658 GCTTACAAGGAA
196 GCTTACAAGGAA
* * *
4057670 CAAATCGAAGGCATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
4057735 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
*
4057800 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATTGTTTGGCATCCTTGT
131 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
4057865 GCTTACAAGGAA
196 GCTTACAAGGAA
*
4057877 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
* **
4057942 GCATCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGATAGACA
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
* ** * * * *
4058007 TATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC-AGATCTAAGATGGTTTGGTATCCTTGT
131 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
*
4058071 GCTTACAA-GAG
196 GCTTACAAGGAA
* *
4058082 CAAATCGAAGACATAGCTGATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
* *
4058147 GCATCTCTGTATTGTCAGGGAACAAATTGAAG
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAG
4058179 AAGCAGATTT
Statistics
Matches: 481, Mismatches: 28, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
205 93 0.19
206 32 0.07
207 356 0.74
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (207 bp):
CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
GCTTACAAGGAA
Found at i:4058597 original size:19 final size:19
Alignment explanation
Indices: 4058572--4058662 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
4058562 ATAATCTTCA
4058572 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
4058591 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
4058610 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
4058627 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
4058645 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
4058663 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:4058612 original size:14 final size:15
Alignment explanation
Indices: 4058593--4058648 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
4058583 TCTTAGATGT
4058593 GATATG-CAATCTTA
1 GATATGACAATCTTA
4058607 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
4058624 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
4058642 GATATGA
1 GATATGA
4058649 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:4058642 original size:35 final size:37
Alignment explanation
Indices: 4058580--4058669 Score: 134
Period size: 35 Copynumber: 2.5 Consensus size: 37
4058570 CAATGATATG
*
4058580 CAATCTTAGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
4058616 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
4058653 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
4058670 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
35 19 0.38
36 18 0.36
37 13 0.26
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:4060706 original size:29 final size:29
Alignment explanation
Indices: 4060615--4060707 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 29
4060605 AGTTAATTTT
*
4060615 TTTTAAAAGTATTAAAATTA-AATTGTATAA
1 TTTTAAAAG-ATT-AAATTATAATTTTATAA
* * * *
4060645 TTTTATGAAA-AATAAAATATAAATTTAAAA
1 TTTTA--AAAGATTAAATTATAATTTTATAA
*
4060675 TTTTAAAAGATTAAATTATAATTTTATTA
1 TTTTAAAAGATTAAATTATAATTTTATAA
4060704 TTTT
1 TTTT
4060708 TAGGAGTCAA
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
28 3 0.06
29 24 0.49
30 19 0.39
32 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (29 bp):
TTTTAAAAGATTAAATTATAATTTTATAA
Found at i:4064907 original size:20 final size:20
Alignment explanation
Indices: 4064882--4064924 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4064872 ATCAATATTC
4064882 TTATCCTGAATTTCAGGATT
1 TTATCCTGAATTTCAGGATT
* *
4064902 TTATCCTGAATTTTAGTATT
1 TTATCCTGAATTTCAGGATT
4064922 TTA
1 TTA
4064925 ATTTGGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (20 bp):
TTATCCTGAATTTCAGGATT
Found at i:4066170 original size:85 final size:85
Alignment explanation
Indices: 4066027--4066196 Score: 286
Period size: 85 Copynumber: 2.0 Consensus size: 85
4066017 TAGCAAGTTT
*
4066027 CATTGGAATCAGAGTTGTGCAGCGATAGCGTGGTAATCAGTGCGAATGAGAAAATTTTAAATTTG
1 CATTGGAATCAGAGTTGTGCAGCGATAGCGTGGTAATCAGTGCGAATGAGAAAATTTTAAATTAG
4066092 GTGTTTAAGTATATGGTGTG
66 GTGTTTAAGTATATGGTGTG
* * * * *
4066112 CATTGTAATTAGAGTTGTGCAGCGATAGCGTGGTGATCAGTGTGAATGAGGAAATTTTAAATTAG
1 CATTGGAATCAGAGTTGTGCAGCGATAGCGTGGTAATCAGTGCGAATGAGAAAATTTTAAATTAG
4066177 GTGTTTAAGTATATGGTGTG
66 GTGTTTAAGTATATGGTGTG
4066197 ACAACGTGAA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.29, C:0.07, G:0.30, T:0.34
Consensus pattern (85 bp):
CATTGGAATCAGAGTTGTGCAGCGATAGCGTGGTAATCAGTGCGAATGAGAAAATTTTAAATTAG
GTGTTTAAGTATATGGTGTG
Found at i:4067457 original size:20 final size:20
Alignment explanation
Indices: 4067424--4067473 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4067414 TAAAATAATT
* *
4067424 AATATATAAAGTAAT-TTAA
1 AATAAATAATGTAATCTTAA
4067443 AATAAAATAATGTAATCTTAA
1 AAT-AAATAATGTAATCTTAA
4067464 AATAAATAAT
1 AATAAATAAT
4067474 ATATGTAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 17 0.63
21 7 0.26
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
AATAAATAATGTAATCTTAA
Found at i:4067762 original size:27 final size:26
Alignment explanation
Indices: 4067715--4067803 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 26
4067705 ATATATGATA
*
4067715 ATTTAAAATAAAT-ATCGTGTAAAAAT
1 ATTTAAAATAAATAAT-ATGTAAAAAT
* *
4067741 ATTTCAAAATAAATAATATGT-ATAGT
1 ATTT-AAAATAAATAATATGTAAAAAT
* *
4067767 AGTTAAAATAAATAATATATATAAAAT
1 ATTTAAAATAAATAATATGTA-AAAAT
*
4067794 ATTTCAAATA
1 ATTTAAAATA
4067804 GATAGTAATT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
25 15 0.30
26 10 0.20
27 23 0.46
28 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (26 bp):
ATTTAAAATAAATAATATGTAAAAAT
Found at i:4069330 original size:16 final size:16
Alignment explanation
Indices: 4069309--4069368 Score: 84
Period size: 16 Copynumber: 3.8 Consensus size: 16
4069299 TTTGGTTCAG
*
4069309 TGTAATGGAATAGGGT
1 TGTAATGGAATAGAGT
**
4069325 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAGT
4069341 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
*
4069357 TGTAATAGAATA
1 TGTAATGGAATA
4069369 AAACTGTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.40, C:0.02, G:0.28, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:4069345 original size:32 final size:32
Alignment explanation
Indices: 4069309--4069378 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
4069299 TTTGGTTCAG
* * *
4069309 TGTAATGGAATAGGGTTGTAATGGAATAGAAC
1 TGTAATGGAATAGAGTTGTAATAGAATAAAAC
4069341 TGTAATGGAATAGAGTTGTAATAGAATAAAAC
1 TGTAATGGAATAGAGTTGTAATAGAATAAAAC
4069373 TGTAAT
1 TGTAAT
4069379 AGCAATTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.30
Consensus pattern (32 bp):
TGTAATGGAATAGAGTTGTAATAGAATAAAAC
Found at i:4069376 original size:16 final size:16
Alignment explanation
Indices: 4069325--4069380 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
4069315 GGAATAGGGT
*
4069325 TGTAATGGAATAGAAC
1 TGTAATAGAATAGAAC
* **
4069341 TGTAATGGAATAGAGT
1 TGTAATAGAATAGAAC
*
4069357 TGTAATAGAATAAAAC
1 TGTAATAGAATAGAAC
4069373 TGTAATAG
1 TGTAATAG
4069381 CAATTCAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.45, C:0.04, G:0.23, T:0.29
Consensus pattern (16 bp):
TGTAATAGAATAGAAC
Found at i:4069646 original size:21 final size:20
Alignment explanation
Indices: 4069618--4069657 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
4069608 AATTTATTAT
4069618 TAATTATAATTTAACAATAA
1 TAATTATAATTTAACAATAA
*
4069638 TAATATATAATTTAATAATA
1 TAAT-TATAATTTAACAATA
4069658 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTATAATTTAACAATAA
Found at i:4069859 original size:12 final size:12
Alignment explanation
Indices: 4069829--4069863 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
4069819 TCTATGTTAC
4069829 TTAAAGAATAAT
1 TTAAAGAATAAT
4069841 TTAAAAGAATAAT
1 TT-AAAGAATAAT
4069854 TTAAAGAATA
1 TTAAAGAATA
4069864 TATTGTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:4073427 original size:16 final size:16
Alignment explanation
Indices: 4073390--4073431 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4073380 TTAATCATAT
*
4073390 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4073406 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4073421 TTAAAATATAT
1 TTAAAATATAT
4073432 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4073438 original size:14 final size:15
Alignment explanation
Indices: 4073399--4073440 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4073389 TTTAAACATA
*
4073399 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4073414 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4073428 A-TATAATTTAATA
1 ATTATAATTAAATA
4073441 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4073613 original size:47 final size:46
Alignment explanation
Indices: 4073547--4073714 Score: 148
Period size: 47 Copynumber: 3.7 Consensus size: 46
4073537 TTAATTAAAA
*
4073547 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT
* * * * *
4073594 TATATGAATTTATATAATTTAAAATAATTATTATTACATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
* * * * *
4073639 TA-AT-AATAATATATAATTTCATAA-AATTATTGATAATAATTTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTA-TAATAATAAATTATCT
*
4073685 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
4073715 ATATTAAATA
Statistics
Matches: 95, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
43 3 0.03
44 17 0.18
45 13 0.14
46 13 0.14
47 42 0.44
48 7 0.07
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
Found at i:4073638 original size:26 final size:28
Alignment explanation
Indices: 4073605--4073666 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
4073595 ATATGAATTT
*
4073605 ATATAATTTAA-AATAAT-TATTATTAC
1 ATATAATTTAATAATAATATATAATTAC
*
4073631 ATATAATTTAATAATAATATATAATTTC
1 ATATAATTTAATAATAATATATAATTAC
*
4073659 ATAAAATT
1 ATATAATT
4073667 ATTGATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.35
27 6 0.19
28 14 0.45
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
ATATAATTTAATAATAATATATAATTAC
Found at i:4073667 original size:44 final size:42
Alignment explanation
Indices: 4073562--4073748 Score: 126
Period size: 47 Copynumber: 4.1 Consensus size: 42
4073552 GATTTAATAA
* * * *
4073562 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTATAT
1 AATTTAAAATAATTATTATTAAT--ATAAT-TTA-AT-AATATATAT
4073609 AATTTAAAATAATTATTATTACATATAATTTAATAATAATATAT
1 AATTTAAAATAATTATTATTA-ATATAATTTAATAAT-ATATAT
* ** * *
4073653 AATTTCATAA-AATTATTGA-TAATAATTTTTCTTATATGAATTTATAC
1 AATTT-AAAATAATTATT-ATTAAT-A-TAAT-TTA-AT-AATATATAT
*
4073700 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTATTATT-AATATAATTTAATAAT-ATATAT
4073744 AATTT
1 AATTT
4073749 CATAACATTC
Statistics
Matches: 112, Mismatches: 15, Indels: 29
0.72 0.10 0.19
Matches are distributed among these distances:
43 8 0.07
44 33 0.29
45 12 0.11
46 13 0.12
47 38 0.34
48 8 0.07
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (42 bp):
AATTTAAAATAATTATTATTAATATAATTTAATAATATATAT
Found at i:4073668 original size:91 final size:89
Alignment explanation
Indices: 4073572--4073788 Score: 299
Period size: 91 Copynumber: 2.4 Consensus size: 89
4073562 AATTTAAAAT
* * *
4073572 AATTATAACTAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
4073637 TTTAATAATAATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
4073663 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAA-ATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
4073728 TTTAATAATGATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
* *
4073754 CATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAAT-TTCTTATATGAATTTA
4073789 CTAAAATCAA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 89 0.80
92 22 0.20
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (89 bp):
AATTATAATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATT
TAATAATAATATATAATTTCATAA
Found at i:4076919 original size:37 final size:36
Alignment explanation
Indices: 4076878--4076975 Score: 101
Period size: 36 Copynumber: 2.7 Consensus size: 36
4076868 TCTGAAAACC
* *
4076878 GAAAAGAAACGGGGGAGCAAATCGGTAGAAAAGAAAA
1 GAAAAGAAAC-AGGGAGCAAATCGGCAGAAAAGAAAA
* *
4076915 GAAAATAAACTA-GGAGCAAATCGACAGAAAAGAAAA
1 GAAAAGAAAC-AGGGAGCAAATCGGCAGAAAAGAAAA
*
4076951 -ACAAAGAAACAAGGAAGCAAATCGG
1 GA-AAAGAAAC-AGGGAGCAAATCGG
4076976 ATGAAGGTAG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
35 1 0.02
36 30 0.60
37 19 0.38
ACGTcount: A:0.57, C:0.11, G:0.26, T:0.06
Consensus pattern (36 bp):
GAAAAGAAACAGGGAGCAAATCGGCAGAAAAGAAAA
Found at i:4076935 original size:36 final size:36
Alignment explanation
Indices: 4076891--4076975 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 36
4076881 AAGAAACGGG
* * *
4076891 GGAGCAAATCGGTAGAAAAGAAAAGA-AAATAAACTA
1 GGAGCAAATCGGCAGAAAAGAAAA-ACAAAGAAACAA
*
4076927 GGAGCAAATCGACAGAAAAGAAAAACAAAGAAACAA
1 GGAGCAAATCGGCAGAAAAGAAAAACAAAGAAACAA
4076963 GGAAGCAAATCGG
1 GG-AGCAAATCGG
4076976 ATGAAGGTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 1 0.02
36 32 0.76
37 9 0.21
ACGTcount: A:0.58, C:0.12, G:0.24, T:0.07
Consensus pattern (36 bp):
GGAGCAAATCGGCAGAAAAGAAAAACAAAGAAACAA
Found at i:4079333 original size:36 final size:34
Alignment explanation
Indices: 4079279--4079352 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
4079269 CTGGTCTAAT
*
4079279 ATGACATTCTTATATGATATATATGTTTCTGAAAAC
1 ATGACATTCTTATATG--ATATATGTTTATGAAAAC
* *
4079315 ATGACATTC-TAGTTTGATATATGTTTATGAAAAT
1 ATGACATTCTTA-TATGATATATGTTTATGAAAAC
4079349 ATGA
1 ATGA
4079353 TCTCTGATCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 20 0.59
35 2 0.06
36 12 0.35
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (34 bp):
ATGACATTCTTATATGATATATGTTTATGAAAAC
Found at i:4079402 original size:32 final size:33
Alignment explanation
Indices: 4079329--4079405 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 33
4079319 CATTCTAGTT
*
4079329 TGATATATGTTTATGAAAATATGATCTCTGATC
1 TGATATATGTTTATGAAAATATGATCTATGATC
** * *
4079362 CAAAATATGTTTA-G-AAATATGACTTTATGATC
1 TGATATATGTTTATGAAAATATGA-TCTATGATC
4079394 TGATATATGTTT
1 TGATATATGTTT
4079406 CTGGTAATAC
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
31 8 0.23
32 17 0.49
33 10 0.29
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (33 bp):
TGATATATGTTTATGAAAATATGATCTATGATC
Found at i:4081701 original size:13 final size:13
Alignment explanation
Indices: 4081683--4081725 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4081673 AATAAAAAAT
4081683 ATAAAGCAAATAC
1 ATAAAGCAAATAC
* *
4081696 ATAAAGAAAATGAA
1 ATAAAGCAAAT-AC
4081710 AT-AAGCAAATAC
1 ATAAAGCAAATAC
4081722 ATAA
1 ATAA
4081726 GTATACATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 3 0.12
13 18 0.75
14 3 0.12
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.16
Consensus pattern (13 bp):
ATAAAGCAAATAC
Found at i:4081798 original size:3 final size:3
Alignment explanation
Indices: 4081790--4081920 Score: 51
Period size: 3 Copynumber: 43.7 Consensus size: 3
4081780 AAAACGATAG
* * * *
4081790 TAA TAA TAA TAA AAA GGT-A TAA TAA T-A TAT TAGA TAG TAA -AA AAA
1 TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* *
4081835 TAA TAAA TAAA TAA -AA TAA TAA TAA TAG TAA TAA -AA -AA TGA TAA
1 TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
4081879 TAG TGA TAT TAG TAG TAA TAA TAA TAA T-A TGGAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T--AA TAA TAA TA
4081921 TATACCAATA
Statistics
Matches: 98, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
2 13 0.13
3 73 0.74
4 10 0.10
5 2 0.02
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:4081829 original size:37 final size:36
Alignment explanation
Indices: 4081785--4081923 Score: 105
Period size: 37 Copynumber: 3.9 Consensus size: 36
4081775 TAACGAAAAC
4081785 GATAGTAATAATAATAAAAAGGTATAATAATATATTA
1 GATAGTAATAATAATAAAAA-GTATAATAATATATTA
*
4081822 GATAGTAA-AAAAATAATAAA-TA-AATAA-A-A-TA
1 GATAGTAATAATAATAA-AAAGTATAATAATATATTA
* * * *
4081853 -ATAATAATAGTAATAAAAAATGATAATAGTGATATTA
1 GATAGTAATAATAATAAAAAGT-ATAATAAT-ATATTA
** *
4081890 G-TAGTAATAATAATAATATGGAATAATAATATAT
1 GATAGTAATAATAATAA-AAAGTATAATAATATAT
4081924 ACCAATAACA
Statistics
Matches: 79, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
30 9 0.11
31 9 0.11
32 2 0.03
33 5 0.06
34 5 0.06
35 3 0.04
36 12 0.15
37 33 0.42
38 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (36 bp):
GATAGTAATAATAATAAAAAGTATAATAATATATTA
Found at i:4081852 original size:16 final size:15
Alignment explanation
Indices: 4081827--4081856 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4081817 TATTAGATAG
4081827 TAAAAAAATAATAAA
1 TAAAAAAATAATAAA
4081842 TAAATAAAATAATAA
1 TAAA-AAAATAATAA
4081857 TAATAGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAAAAATAATAAA
Found at i:4081872 original size:22 final size:19
Alignment explanation
Indices: 4081828--4081880 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 19
4081818 ATTAGATAGT
4081828 AAAAA-AATAATAAATAAA
1 AAAAATAATAATAAATAAA
*
4081846 TAAAATAATAATAATAGTAATA
1 AAAAATAATAATAA-A-TAA-A
*
4081868 AAAAATGATAATA
1 AAAAATAATAATA
4081881 GTGATATTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.14
19 8 0.29
20 1 0.04
21 3 0.11
22 12 0.43
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAAATAATAATAAATAAA
Found at i:4081878 original size:19 final size:20
Alignment explanation
Indices: 4081823--4081882 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
4081813 AATATATTAG
*
4081823 ATAGTAAAAAAATAAT-A-A
1 ATAGTAATAAAATAATAATA
4081841 ATA--AATAAAATAATAATA
1 ATAGTAATAAAATAATAATA
*
4081859 ATAGTAATAAAA-AATGATA
1 ATAGTAATAAAATAATAATA
4081878 ATAGT
1 ATAGT
4081883 GATATTAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 10 0.28
17 1 0.03
18 7 0.19
19 11 0.31
20 7 0.19
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
ATAGTAATAAAATAATAATA
Found at i:4082040 original size:3 final size:3
Alignment explanation
Indices: 4082032--4082057 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4082022 ACTAAGGGTA
4082032 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
4082058 AATAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:4082062 original size:3 final size:3
Alignment explanation
Indices: 4082056--4082095 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
4082046 GATGATGATG
* *
4082056 ATA ATA ATA ATA ATA ATA ATA ATA AGA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4082096 CTTATATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:4083242 original size:2 final size:2
Alignment explanation
Indices: 4083235--4083260 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4083225 TCAAGTTGAA
4083235 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
4083261 TTTTCTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4083624 original size:11 final size:10
Alignment explanation
Indices: 4083598--4083636 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
4083588 TTATGTCTAA
4083598 AAAAGAATGGT
1 AAAA-AATGGT
4083609 AAAAAATTGGCT
1 AAAAAA-TGG-T
4083621 AAAAAATGGT
1 AAAAAATGGT
4083631 AAAAAA
1 AAAAAA
4083637 AAAAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.62, C:0.03, G:0.18, T:0.18
Consensus pattern (10 bp):
AAAAAATGGT
Found at i:4086161 original size:18 final size:17
Alignment explanation
Indices: 4086124--4086166 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
4086114 AATCTGGGCG
*
4086124 TGTGGGCCACACGGGAA
1 TGTGGGCCACACAGGAA
*
4086141 TGTGGGCTCACACAGGCA
1 TGTGGGC-CACACAGGAA
4086159 TGTGGGCC
1 TGTGGGCC
4086167 CATATTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.16
Consensus pattern (17 bp):
TGTGGGCCACACAGGAA
Found at i:4086508 original size:30 final size:30
Alignment explanation
Indices: 4086474--4086636 Score: 238
Period size: 30 Copynumber: 5.4 Consensus size: 30
4086464 AATCTTAACT
*
4086474 TTTTCCACCACTAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACACC
*
4086504 TTTTCCACCACCAACTCCACTAGCCACTCC
1 TTTTCCACCACCAACTCCACTAGCCACACC
*
4086534 TTTTCCACCACCAACTCCACTAGCCACACA
1 TTTTCCACCACCAACTCCACTAGCCACACC
* *
4086564 TTTTCCACCACCAAATCCACTAGCCACACT
1 TTTTCCACCACCAACTCCACTAGCCACACC
* *
4086594 TTTTCCACCACCTACTCCACTAACCACA-C
1 TTTTCCACCACCAACTCCACTAGCCACACC
*
4086623 TTGCTCCACCACCA
1 TT-TTCCACCACCA
4086637 CTTGTACCTA
Statistics
Matches: 120, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
29 2 0.02
30 118 0.98
ACGTcount: A:0.27, C:0.47, G:0.03, T:0.23
Consensus pattern (30 bp):
TTTTCCACCACCAACTCCACTAGCCACACC
Found at i:4087246 original size:16 final size:17
Alignment explanation
Indices: 4087206--4087260 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
4087196 TATTACGTAT
4087206 ATATATATATACTATTT-
1 ATATATATATA-TATTTA
*
4087223 -TATGTATATATATTTA
1 ATATATATATATATTTA
4087239 ATAT-TATAT-TATTT-
1 ATATATATATATATTTA
4087253 ATATATAT
1 ATATATAT
4087261 TTTTTTACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 4 0.12
15 13 0.38
16 14 0.41
17 3 0.09
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
ATATATATATATATTTA
Found at i:4087305 original size:22 final size:24
Alignment explanation
Indices: 4087277--4087335 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
4087267 ACATGTTATC
4087277 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
4087299 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
4087324 TTATGTACATAT
1 TTATGTATATAT
4087336 TGATGTAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:4087478 original size:16 final size:15
Alignment explanation
Indices: 4087454--4087501 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
4087444 TAATTATTAT
*
4087454 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
4087470 TATTTTAATATTTTA
1 TATTTTAATATTTTA
4087485 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
4087501 T
1 T
4087502 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:4087489 original size:7 final size:8
Alignment explanation
Indices: 4087454--4087505 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
4087444 TAATTATTAT
*
4087454 TATTCTAA
1 TATTTTAA
*
4087462 TATTTTGA
1 TATTTTAA
4087470 TATTTTAA
1 TATTTTAA
4087478 TATTTT-A
1 TATTTTAA
4087485 TATTTTATA
1 TATTTTA-A
*
4087494 TATTTTAT
1 TATTTTAA
4087502 TATT
1 TATT
4087506 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:4095902 original size:74 final size:73
Alignment explanation
Indices: 4095822--4096582 Score: 671
Period size: 74 Copynumber: 10.0 Consensus size: 73
4095812 CTTTTCAAGG
* * * *
4095822 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTAATGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTCAATTTC
4095887 TGTTTTTCA
65 TGTTTTTCA
* *
4095896 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTCAATTTC
4095961 TGTTTTTCA
65 TGTTTTTCA
* * * *
4095970 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA--TTT
*
4096035 GTGTTTTAATTTATTTTTCA
64 CTG----------TTTTTCA
* * ** *
4096055 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
** ***
4096120 -CATCAAA
66 GTTTTTCA
* *
4096127 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GTTTCACACGTTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG---GACACGCTGAGGTATTTTCAATT
*
4096191 TCTGTCTTTTAAAA
63 TCTGT-TTTT--CA
* * * *
4096205 AAAATCAGCTCATATTGCAAGAGGTGAGTTGA-CCTCA--AGACGCTGAGGTAATTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* *
4096266 -ATTGTCA
66 GTTTTTCA
* * * **
4096273 AAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
4096338 GTCTTTCAAAA
66 GTTTTTC---A
* * *
4096349 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTGTTTCCATTTTGT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA-G-G--T--A-----T
4096412 TCTTCAATTT-TGTTTTTCAA
55 T-TTCAATTTCTGTTTTTC-A
*
4096432 AAACATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAAATTC
1 AAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
4096496 TATTTTTATCAAA
65 T-GTTTT-TC--A
* * *
4096509 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
4096574 GCTTTTCA
66 GTTTTTCA
4096582 A
1 A
4096583 TTTCTACTTT
Statistics
Matches: 569, Mismatches: 70, Indels: 97
0.77 0.10 0.13
Matches are distributed among these distances:
68 29 0.05
69 5 0.01
70 3 0.01
71 19 0.03
72 41 0.07
73 37 0.07
74 150 0.26
75 12 0.02
76 75 0.13
77 34 0.06
78 33 0.06
79 1 0.00
80 1 0.00
81 1 0.00
83 10 0.02
84 33 0.06
85 77 0.14
86 8 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTCA
Found at i:4096078 original size:159 final size:147
Alignment explanation
Indices: 4095822--4096819 Score: 867
Period size: 159 Copynumber: 6.5 Consensus size: 147
4095812 CTTTTCAAGG
* * * * *
4095822 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTAATGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTCAATTTC
* *
4095887 TGT-TTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTA
65 TGTCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAGGTA
* *
4095949 TTTTTAAATTTCTGTTTTTCA
129 -TTTTCAATTT-TGCTTTTCA
* * * *
4095970 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
* * *
4096035 GTGTTTTAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACA
66 GTCTTTTAA---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACG
* * ***
4096100 TTGAGGTATTTTCAATTTAT-CATCAAA
121 CTGAGGTATTTTCAATTT-TGCTTTTCA
** *
4096127 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTTTCACACGTTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG--GGACACGCTGAGGTATTTTCAATTT
* * *
4096192 CTGTCTTTTAAAAAAAATCAGCTCATATTGCAAGAGGTGAGTTGA-CCTCA-AGACGCTGAGGTA
64 CTGTCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTA
* * *
4096255 ATTTCAATTTT-ATTGTCA
129 TTTTCAATTTTGCTTTTCA
* * ** **
4096273 AAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
* * * *
4096338 GTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA-AGACGCTGAGGTGTT
66 GTCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGA-G-G--
*
4096402 TCCATTTTGTTCTTCAATTTTGTTTTTCAA
127 T--A-----TT-TTCAATTTTGCTTTTC-A
*
4096432 AAACATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAAATTC
1 AAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
* * * *
4096496 TAT-TTTTATCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGG
65 TGTCTTTTA--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGG
4096560 TATTTTCAATTTCTGCTTTTCAATTTCTACTTTTCAA
127 TATTTTCAATTT-TG--------------CTTTTC-A
**
4096597 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGCGTTTTCAATT
1 AA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCTGAGGTATTTTCAATT
* * *
4096662 TCTG-CTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACACGCTGAG
63 TCTGTCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--ACACGCTGAG
*
4096726 GCATTTTCAATTTCTGCTTTTC-
126 GTATTTTCAATTT-TGCTTTTCA
* * *
4096748 AAAATCAACT-ATATTGCGAGAGGTGAGTTGAG--TCGGGCCACACACTGAGGTCTTTTCAAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCTGAGGTATTTTCAATTT
4096810 CTGT-TTTTAA
64 CTGTCTTTTAA
4096820 TTTCTGCTTT
Statistics
Matches: 710, Mismatches: 82, Indels: 117
0.78 0.09 0.13
Matches are distributed among these distances:
144 65 0.09
145 14 0.02
146 39 0.05
147 63 0.09
148 52 0.07
149 27 0.04
150 47 0.07
151 7 0.01
153 6 0.01
156 3 0.00
157 48 0.07
158 19 0.03
159 105 0.15
160 71 0.10
161 1 0.00
162 7 0.01
165 45 0.06
166 41 0.06
167 24 0.03
168 26 0.04
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (147 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
GTCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTATT
TTCAATTTTGCTTTTCA
Found at i:4096359 original size:144 final size:145
Alignment explanation
Indices: 4096054--4096398 Score: 487
Period size: 144 Copynumber: 2.3 Consensus size: 145
4096044 TTTATTTTTC
* ** *
4096054 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTTCAATTTA
1 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGA-CCTCAAG--ACGCTGAGGTAATTTCAATTTA
* * ** *
4096119 TCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTTTCACACGTTGAGGTATT
63 TCATC-AAAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCG-AACACACATTGAGGTATT
*
4096184 TTCAATTTCTGTCTTTTAAA
126 TTCAATTTCTGTCTTTCAAA
* *
4096204 AAAAATCAGCTCATATTGCAAGAGGTGAGTTGACCTCAAGACGCTGAGGTAATTTCAATTTTATT
1 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGACCTCAAGACGCTGAGGTAATTTCAA-TTTATC
* *
4096269 GTC-AAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTC-AAGACACATTGAGGTATTTTCA
65 ATCAAAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCGAACACACATTGAGGTATTTTCA
4096332 ATTTCTGTCTTTCAAA
130 ATTTCTGTCTTTCAAA
4096348 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGT
1 AAAAATCAGCTCATATTGCGAGAGGTGAGTTG-ACCTCAAGACGCTGAGGT
4096399 GTTTCCATTT
Statistics
Matches: 178, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
144 64 0.36
145 18 0.10
146 36 0.20
147 15 0.08
148 7 0.04
149 7 0.04
150 31 0.17
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (145 bp):
AAAAATCAGCTCATATTGCGAGAGGTGAGTTGACCTCAAGACGCTGAGGTAATTTCAATTTATCA
TCAAAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCGAACACACATTGAGGTATTTTCAA
TTTCTGTCTTTCAAA
Found at i:4096369 original size:76 final size:75
Alignment explanation
Indices: 4096054--4096578 Score: 504
Period size: 76 Copynumber: 7.0 Consensus size: 75
4096044 TTTATTTTTC
*
4096054 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTTCAA-TT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
* *
4096117 TATC-ATCAA
66 TGTCTTTCAA
*** *
4096126 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTTTCACACGTTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--AAGACACATTGAGGTATTTTCAATT
*
4096191 TCTGTCTTTTAAA
64 TCTGTC-TTTCAA
* * * *
4096204 AAAAATCAGCTCATATTGCAAGAGGTGAGTTGA-CCTCAAGACGC--TGAGGTAATTTCAATTT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
* *
4096265 TAT-TGTC--
66 TGTCTTTCAA
* *
4096272 AAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
4096337 TGTCTTTCAAA
66 TGTCTTTC-AA
* * *
4096348 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGC--TGAGGTGTTTCCATTTTG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGA-G-G--T--A-----
*
4096411 TTCTTCAATTT-TGTTTTTCAA
55 TT-TTCAATTTCTGTCTTTCAA
* * ** *
4096432 AAACATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
* *
4096496 TATTTTTATCAA
66 T-GTCTT-TCAA
* ** *
4096508 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
4096573 TG-CTTT
66 TGTCTTT
4096579 TCAATTTCTA
Statistics
Matches: 376, Mismatches: 45, Indels: 62
0.78 0.09 0.13
Matches are distributed among these distances:
68 29 0.08
69 10 0.03
70 2 0.01
71 16 0.04
72 42 0.11
73 26 0.07
74 25 0.07
75 12 0.03
76 84 0.22
77 29 0.08
78 35 0.09
79 1 0.00
80 1 0.00
81 1 0.00
83 5 0.01
84 38 0.10
85 12 0.03
86 8 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
TGTCTTTCAA
Found at i:4096465 original size:160 final size:162
Alignment explanation
Indices: 4096256--4096749 Score: 560
Period size: 160 Copynumber: 3.0 Consensus size: 162
4096246 GCTGAGGTAA
* * * * *
4096256 TTTCAATTT-TA-TTGTC-AAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCAAGACACA
1 TTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACG
* * *
4096318 TTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAAC
65 CTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
4096383 CTC-AAGACGCTGAGGT-GTTTCCATTT-TG-T
130 CTCGAACACACTGAGGTAGTTTCAATTTCTGCT
**
4096412 TCTTCAATTT-TGTTTTTCAAAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
1 T-TTCAATTTCTACTTTTCAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
* * * *
4096476 GCTGAGGTATTTTCAAATTCTAT-TTTTATCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTG
64 GCTGAGGTATTTTCAATTTCTGTCTTTCA--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
4096540 AGCCTCGGGACACACTGAGGTATTTTCAATTTCTGCT
127 AGCCTC-GAACACACTGAGGTAGTTTCAATTTCTGCT
4096577 TTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTCAATTTCTACTTTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG--AC
** *
4096642 ACGCTGAGGCGTTTTCAATTTCTG-CTTTTC-AAAAGAATCAACTCATATTGCGAGAGGTGAGTT
62 ACGCTGAGGTATTTTCAATTTCTGTC-TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * *
4096705 GAGCCTCGGTCACACGCTGAGGCATTTTCAATTTCTGCT
126 GAGCCTC-G-AACACACTGAGGTAGTTTCAATTTCTGCT
4096744 TTTCAA
1 TTTCAA
4096750 AATCAACTAT
Statistics
Matches: 289, Mismatches: 30, Indels: 27
0.84 0.09 0.08
Matches are distributed among these distances:
156 1 0.00
157 9 0.03
158 8 0.03
159 28 0.10
160 69 0.24
162 10 0.03
163 8 0.03
164 10 0.03
165 46 0.16
166 43 0.15
167 32 0.11
168 22 0.08
169 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (162 bp):
TTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGC
TGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCGAACACACTGAGGTAGTTTCAATTTCTGCT
Found at i:4096551 original size:77 final size:75
Alignment explanation
Indices: 4096414--4096817 Score: 401
Period size: 76 Copynumber: 5.2 Consensus size: 75
4096404 CATTTTGTTC
* *
4096414 TTCAATTT-TGTTTTTCAAAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACG
1 TTCAATTTCTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
4096477 CTGAGGTATT
66 CTGAGGTATT
* *
4096487 TTCAAATTCTATTTTTATCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTCAATTTCT-TTTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
*
4096552 CACTGAGGTATT
64 CGCTGAGGTATT
4096564 TTCAATTTCTGCTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTCAA-TT-T-CTTTT---TTTC-A------AAAA-AATCAACTCATATTGCGAGAGGTGAGTTG
**
4096629 AGCCTCGGGTCACACGCTGAGGCGTT
52 AGCCTCGGG--ACACGCTGAGGTATT
** * *
4096655 TTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACAC
1 TTCAATTTCTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GACAC
*
4096720 GCTGAGGCATT
65 GCTGAGGTATT
**
4096731 TTCAATTTCTGCTTTTC---AAAATCAACT-ATATTGCGAGAGGTGAGTTGAG--TCGGGCCACA
1 TTCAATTTCTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACA
* *
4096790 CACTGAGGTCTT
64 CGCTGAGGTATT
* *
4096802 TTCAAATTCTGTTTTT
1 TTCAATTTCTTTTTTT
4096818 AATTTCTGCT
Statistics
Matches: 286, Mismatches: 22, Indels: 48
0.80 0.06 0.13
Matches are distributed among these distances:
70 4 0.01
71 26 0.09
72 22 0.08
73 16 0.06
74 1 0.00
75 4 0.01
76 71 0.25
77 58 0.20
78 4 0.01
79 4 0.01
80 2 0.01
81 2 0.01
82 3 0.01
84 1 0.00
85 4 0.01
88 7 0.02
89 38 0.13
90 2 0.01
91 17 0.06
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (75 bp):
TTCAATTTCTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
CTGAGGTATT
Found at i:4096581 original size:14 final size:14
Alignment explanation
Indices: 4096562--4096596 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4096552 CACTGAGGTA
*
4096562 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
4096576 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
4096590 TTTTCAA
1 TTTTCAA
4096597 AAGAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:4096643 original size:89 final size:92
Alignment explanation
Indices: 4096485--4096674 Score: 287
Period size: 89 Copynumber: 2.1 Consensus size: 92
4096475 CGCTGAGGTA
*
4096485 TTTTCAAATTCTATTTTTATCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGA
1 TTTTCAAATTCTATCTTTATCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGA
*
4096550 CACA-CTGAGGTATTTTCAATTTCTGC
66 CACACCTGAGGCATTTTCAATTTCTGC
* * * *
4096576 TTTTCAATTTCTA-CTTT-TCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TTTTCAAATTCTATCTTTATCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGA
*
4096639 CACACGCTGAGGCGTTTTCAATTTCTGC
66 CACAC-CTGAGGCATTTTCAATTTCTGC
4096667 TTTTCAAA
1 TTTTCAAA
4096675 AGAATCAACT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 47 0.53
90 3 0.03
91 39 0.44
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (92 bp):
TTTTCAAATTCTATCTTTATCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGA
CACACCTGAGGCATTTTCAATTTCTGC
Found at i:4096830 original size:14 final size:13
Alignment explanation
Indices: 4096800--4096843 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4096790 CACTGAGGTC
*
4096800 TTTTCAAATTCTG
1 TTTTCAATTTCTG
*
4096813 TTTTTAATTTCTG
1 TTTTCAATTTCTG
*
4096826 CTTTTCAATTTCTA
1 -TTTTCAATTTCTG
4096840 TTTT
1 TTTT
4096844 TTCAATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.18, C:0.14, G:0.05, T:0.64
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:4096844 original size:14 final size:14
Alignment explanation
Indices: 4096800--4096862 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
4096790 CACTGAGGTC
* *
4096800 TTTTCAAATTCTGT
1 TTTTCAATTTCTAT
**
4096814 TTTT-AATTTCTGC
1 TTTTCAATTTCTAT
4096827 TTTTCAATTTCTATT
1 TTTTCAATTTCTA-T
*
4096842 TTTTCAATTTATAT
1 TTTTCAATTTCTAT
4096856 TTTTCAA
1 TTTTCAA
4096863 AAATCAACTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 19 0.45
15 12 0.29
ACGTcount: A:0.22, C:0.13, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTTCAATTTCTAT
Found at i:4096847 original size:15 final size:15
Alignment explanation
Indices: 4096827--4096859 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4096817 TAATTTCTGC
*
4096827 TTTTCAATTTCTATT
1 TTTTCAATTTATATT
4096842 TTTTCAATTTATATT
1 TTTTCAATTTATATT
4096857 TTT
1 TTT
4096860 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:4097046 original size:14 final size:14
Alignment explanation
Indices: 4097023--4097057 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4097013 CGCTGTGGTG
* *
4097023 TTTTCCATTTCTGT
1 TTTTCAATTTCTGC
4097037 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
4097051 TTTTCAA
1 TTTTCAA
4097058 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.20, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:4097157 original size:14 final size:14
Alignment explanation
Indices: 4097112--4097174 Score: 74
Period size: 14 Copynumber: 4.5 Consensus size: 14
4097102 CGCTGAGGTC
*
4097112 TTTTCAAATTCTGT
1 TTTTCAATTTCTGT
*
4097126 TTTT-AATTTCTGC
1 TTTTCAATTTCTGT
4097139 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
* *
4097153 TTTTCCAATTTATAT
1 TTTT-CAATTTCTGT
4097168 TTTTCAA
1 TTTTCAA
4097175 AAATCAACTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 19 0.45
15 12 0.29
ACGTcount: A:0.21, C:0.14, G:0.05, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:4097261 original size:117 final size:115
Alignment explanation
Indices: 4097024--4097262 Score: 266
Period size: 117 Copynumber: 2.1 Consensus size: 115
4097014 GCTGTGGTGT
* * * * *
4097024 TTTCCATTTCTGTTTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTCAATTTCTGTTTTTCAATTTATACTTTTCAAAAATCAACTCATATCGCGAGAGATGAGTTGA
* * * * **
4097089 GTATCGGGCCACACGCTGAGGTCTTTTCAAATTCTGTTTTTAATTTCTGC
66 GCATCGGGCCACACGCTGAGGTATTTTCAAAATCTGTTTTTAAATTAAGC
* *
4097139 TTTTCAATTTCTGTTTTTCCAATTTATATTTTTCAAAAATCAACTCATATCGCGAGATATGAGTT
1 -TTTCAATTTCTGTTTTT-CAATTTATACTTTTCAAAAATCAACTCATATCGCGAGAGATGAGTT
* * * *
4097204 GAGCCTTGGGTTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAAATTAAG-
64 GAGCATCGGG-CCACACGCT-GAGGTATTTTCAAAATCTGTTTTT-AAATTAAGC
4097257 TTTCAA
1 TTTCAA
4097263 AAAATCCAAC
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
116 16 0.16
117 54 0.53
118 27 0.26
119 5 0.05
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (115 bp):
TTTCAATTTCTGTTTTTCAATTTATACTTTTCAAAAATCAACTCATATCGCGAGAGATGAGTTGA
GCATCGGGCCACACGCTGAGGTATTTTCAAAATCTGTTTTTAAATTAAGC
Done.