Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold39
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: 4724573
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 178835 characters in sequence are not A, C, G, or T
File 23 of 27
Found at i:3942423 original size:13 final size:13
Alignment explanation
Indices: 3942405--3942430 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3942395 ACATTTTTCT
3942405 TTGTATCGATACA
1 TTGTATCGATACA
3942418 TTGTATCGATACA
1 TTGTATCGATACA
3942431 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3950616 original size:19 final size:19
Alignment explanation
Indices: 3950556--3950617 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
3950546 AAAGGGGAGA
*
3950556 AGATAATCGTTTAAGGGGG
1 AGATAATTGTTTAAGGGGG
** * *
3950575 AGAATTTTTTTTTAAAGGAGG
1 AG-ATAATTGTTT-AAGGGGG
3950596 AGATAATTGTTTAAGGGGG
1 AGATAATTGTTTAAGGGGG
3950615 AGA
1 AGA
3950618 AAAACGAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 11 0.34
20 13 0.41
21 8 0.25
ACGTcount: A:0.34, C:0.02, G:0.32, T:0.32
Consensus pattern (19 bp):
AGATAATTGTTTAAGGGGG
Found at i:3951173 original size:13 final size:13
Alignment explanation
Indices: 3951155--3951181 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3951145 ACATGCTGCT
3951155 TTGTATCGATACA
1 TTGTATCGATACA
3951168 TTGTATCGATACA
1 TTGTATCGATACA
3951181 T
1 T
3951182 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3951190 original size:19 final size:19
Alignment explanation
Indices: 3951166--3951240 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
3951156 TGTATCGATA
3951166 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
3951185 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
**
3951204 CATTGTATCGATACATGGA
1 CATTGTATCGATACATGTT
3951223 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
3951241 AAATTGGCAG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
19 37 0.70
20 16 0.30
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:3954194 original size:21 final size:22
Alignment explanation
Indices: 3954145--3954221 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
3954135 AGATTTGACA
* * * *
3954145 AAGGGAGAGAAATGCCTTGATT
1 AAGGGGGAGAAATTCTTTAATT
*
3954167 AAGGGGGAGAAATT-TTTTATT
1 AAGGGGGAGAAATTCTTTAATT
*
3954188 AAAGGGGAGAAATTCTTTAATT
1 AAGGGGGAGAAATTCTTTAATT
3954210 AAGGGGGAGAAA
1 AAGGGGGAGAAA
3954222 AATGAAAACT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 18 0.38
22 29 0.62
ACGTcount: A:0.39, C:0.04, G:0.31, T:0.26
Consensus pattern (22 bp):
AAGGGGGAGAAATTCTTTAATT
Found at i:3954770 original size:19 final size:19
Alignment explanation
Indices: 3954746--3954799 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
3954736 CATACCCAGA
* *
3954746 TGTATCGATACATGTTCAT
1 TGTATCGATACATGATAAT
3954765 TGTATCGATACATAGATAAT
1 TGTATCGATACAT-GATAAT
3954785 TGTATCGATACATGA
1 TGTATCGATACATGA
3954800 GATTAGTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATGATAAT
Found at i:3954867 original size:13 final size:13
Alignment explanation
Indices: 3954849--3954896 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
3954839 ATGGTACAAG
3954849 TGTATCGATACAT
1 TGTATCGATACAT
3954862 TGTATCGATACA-
1 TGTATCGATACAT
3954874 TG-AT-G--A-AT
1 TGTATCGATACAT
3954882 TGTATCGATACAT
1 TGTATCGATACAT
3954895 TG
1 TG
3954897 CTTGTAACGG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.07
10 2 0.07
11 2 0.07
12 3 0.10
13 16 0.55
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3956406 original size:13 final size:13
Alignment explanation
Indices: 3956388--3956413 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3956378 TACAGCAAGT
3956388 ATGTATCGATACA
1 ATGTATCGATACA
3956401 ATGTATCGATACA
1 ATGTATCGATACA
3956414 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3958649 original size:21 final size:21
Alignment explanation
Indices: 3958616--3958660 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3958606 TTGCAAGTTG
*
3958616 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3958638 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
3958658 AAA
1 AAA
3958661 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3960483 original size:15 final size:15
Alignment explanation
Indices: 3960463--3960493 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3960453 TAAAAATGTC
*
3960463 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3960478 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3960493 C
1 C
3960494 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3965150 original size:13 final size:13
Alignment explanation
Indices: 3965132--3965157 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3965122 TACAGCAAGT
3965132 ATGTATCGATACA
1 ATGTATCGATACA
3965145 ATGTATCGATACA
1 ATGTATCGATACA
3965158 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3966351 original size:20 final size:20
Alignment explanation
Indices: 3966307--3966364 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
3966297 ATTTCAACAA
***
3966307 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATATTTT
*
3966327 ATTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
3966347 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
3966365 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:3966421 original size:13 final size:13
Alignment explanation
Indices: 3966403--3966427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3966393 ATCACTTAAA
3966403 TGTATCGATACAT
1 TGTATCGATACAT
3966416 TGTATCGATACA
1 TGTATCGATACA
3966428 CTGATATTTG
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):
TGTATCGATACAT
Found at i:3966479 original size:52 final size:51
Alignment explanation
Indices: 3966416--3966564 Score: 203
Period size: 52 Copynumber: 2.9 Consensus size: 51
3966406 ATCGATACAT
*
3966416 TGTATCGATACACTGATATTTGTATCGATACATGTAGGCAAATTTGCCCAGA
1 TGTATCGATACA-TGATATTTGTATCGATACATGCAGGCAAATTTGCCCAGA
* **
3966468 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATGAT-ATTTGTATCGATACATGCAGGCAAATTTGCCCAGA
3966520 TGTATCGATACA-G-TATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGATATT---TGTATCGATACATGCAGGCAAATTT
3966565 TCATATTTCG
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 3 0.03
52 81 0.94
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (51 bp):
TGTATCGATACATGATATTTGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:3975842 original size:28 final size:28
Alignment explanation
Indices: 3975717--3975999 Score: 165
Period size: 28 Copynumber: 9.8 Consensus size: 28
3975707 AACCTTTTCA
*
3975717 AAAGTCCACAACT-TCGTGGTACCTTTTTTCT
1 AAAGTCCACAACTCT-GTGGCA-C-TTTTT-T
* *
3975748 AAAATCCACAACTCAGTGGCACCCCTTTTTT
1 AAAGTCCACAACTCTGTGGCA---CTTTTTT
* *
3975779 AAAGTCCATAACTCTGTGGCACCCTTTGTT
1 AAAGTCCACAACTCTGTGGCA--CTTTTTT
* * *
3975809 AAAGTCTACAACTTTATGGCACTTTTTT
1 AAAGTCCACAACTCTGTGGCACTTTTTT
**
3975837 AAAGTCCACAACTCTGTGGCACCCTTTT
1 AAAGTCCACAACTCTGTGGCACTTTTTT
** *
3975865 AAAGTCCATGAGTCTGTGGCA-TCTTTTT
1 AAAGTCCACAACTCTGTGGCACT-TTTTT
** **
3975893 AAAGTCCATGACTCCATGGCACCTTTTTT
1 AAAGTCCACAACTCTGTGGCA-CTTTTTT
** ** * *
3975922 AAAGTCCATGACTCAATGGAACTCTTTT
1 AAAGTCCACAACTCTGTGGCACTTTTTT
* ** * **
3975950 AAAGTCAACAACTCCATTGCACCCTTTT
1 AAAGTCCACAACTCTGTGGCACTTTTTT
** *
3975978 AAAGTCCATGACTCAGTGGCAC
1 AAAGTCCACAACTCTGTGGCAC
3976000 CCTTTTCATA
Statistics
Matches: 205, Mismatches: 41, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
28 112 0.55
29 24 0.12
30 26 0.13
31 36 0.18
32 5 0.02
33 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (28 bp):
AAAGTCCACAACTCTGTGGCACTTTTTT
Found at i:3975953 original size:113 final size:114
Alignment explanation
Indices: 3975774--3975998 Score: 290
Period size: 113 Copynumber: 2.0 Consensus size: 114
3975764 TGGCACCCCT
** * ** * *
3975774 TTTTTAAAGTCCATAACTCTGTGGCACCCTTTGTTAAAGTCTACAACTTTATGGCACTTTTTTAA
1 TTTTTAAAGTCCATAACTCCATGGCACCCTTTGTTAAAGTCCACAACTCAATGGAACTCTTTTAA
* ** * *
3975839 AGTCCACAACTCTGTGGCACCCTTTTAAAGTCCATGAGTCTGTGGCATC
66 AGTCAACAACTCCATGGCACCCTTTTAAAGTCCATGACTCAGTGGCATC
* * **
3975888 TTTTTAAAGTCCATGACTCCATGGCA-CCTTTTTTAAAGTCCATGACTCAATGGAACTCTTTTAA
1 TTTTTAAAGTCCATAACTCCATGGCACCCTTTGTTAAAGTCCACAACTCAATGGAACTCTTTTAA
*
3975952 AGTCAACAACTCCATTGCACCCTTTTAAAGTCCATGACTCAGTGGCA
66 AGTCAACAACTCCATGGCACCCTTTTAAAGTCCATGACTCAGTGGCA
3975999 CCCTTTTCAT
Statistics
Matches: 94, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
113 71 0.76
114 23 0.24
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (114 bp):
TTTTTAAAGTCCATAACTCCATGGCACCCTTTGTTAAAGTCCACAACTCAATGGAACTCTTTTAA
AGTCAACAACTCCATGGCACCCTTTTAAAGTCCATGACTCAGTGGCATC
Found at i:3976000 original size:28 final size:28
Alignment explanation
Indices: 3975747--3976005 Score: 191
Period size: 28 Copynumber: 9.0 Consensus size: 28
3975737 ACCTTTTTTC
* *
3975747 TAAAATCCACAACTCAGTGGCACCCCTTTTT
1 TAAAGTCCATAACTCAGTGGCA-CCC--TTT
*
3975778 TAAAGTCCATAACTCTGTGGCACCCTTTGT
1 TAAAGTCCATAACTCAGTGGCACCC-TT-T
* * * **
3975808 TAAAGTCTACAACTTTA-TGGCACTTTTT
1 TAAAGTCCATAAC-TCAGTGGCACCCTTT
* *
3975836 TAAAGTCCACAACTCTGTGGCACCCTTT
1 TAAAGTCCATAACTCAGTGGCACCCTTT
* * * * *
3975864 TAAAGTCCATGAGTCTGTGGCATCTTTT
1 TAAAGTCCATAACTCAGTGGCACCCTTT
* *
3975892 TAAAGTCCATGACTCCA-TGGCACCTTTTT
1 TAAAGTCCATAACT-CAGTGGCACC-CTTT
* * * *
3975921 TAAAGTCCATGACTCAATGGAACTCTTT
1 TAAAGTCCATAACTCAGTGGCACCCTTT
* * *
3975949 TAAAGTCAACAACTCCA-TTGCACCCTTT
1 TAAAGTCCATAACT-CAGTGGCACCCTTT
*
3975977 TAAAGTCCATGACTCAGTGGCACCCTTT
1 TAAAGTCCATAACTCAGTGGCACCCTTT
3976005 T
1 T
3976006 CATAGTTCCT
Statistics
Matches: 185, Mismatches: 35, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
27 3 0.02
28 110 0.59
29 31 0.17
30 21 0.11
31 20 0.11
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (28 bp):
TAAAGTCCATAACTCAGTGGCACCCTTT
Found at i:3976005 original size:56 final size:56
Alignment explanation
Indices: 3975758--3976005 Score: 219
Period size: 56 Copynumber: 4.3 Consensus size: 56
3975748 AAAATCCACA
* ** * **
3975758 ACTCAGTGGCACCCCTTTTTTAAAGTCCATAACTCTGTGGCACCCTTTGTTAAAGTCTACA
1 ACTCAGTGGCA-CCC--TTTTAAAGTCCACAACTCCATGGCACCC-TT-TTAAAGTCCATG
* ** **
3975819 ACTTTA-TGGCACTTTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCATG
1 AC-TCAGTGGCACCCTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCATG
* * * * ** *
3975875 AGTCTGTGGCATCTTTTTAAAGTCCATGACTCCATGGCACCTTTTTTAAAGTCCATG
1 ACTCAGTGGCACCCTTTTAAAGTCCACAACTCCATGGCACC-CTTTTAAAGTCCATG
* * * * *
3975932 ACTCAATGGAACTCTTTTAAAGTCAACAACTCCATTGCACCCTTTTAAAGTCCATG
1 ACTCAGTGGCACCCTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCATG
3975988 ACTCAGTGGCACCCTTTT
1 ACTCAGTGGCACCCTTTT
3976006 CATAGTTCCT
Statistics
Matches: 152, Mismatches: 32, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
55 1 0.01
56 68 0.45
57 46 0.30
58 27 0.18
60 1 0.01
61 7 0.05
62 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (56 bp):
ACTCAGTGGCACCCTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCATG
Found at i:3976050 original size:29 final size:29
Alignment explanation
Indices: 3976013--3976084 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
3976003 TTTCATAGTT
* *
3976013 CCTTCTTAAAGTCCACAACTTCATGGCAC
1 CCTTTTTAAAGTCCACAACTACATGGCAC
* * *
3976042 CCTTTTTAAAATCCATAACTACGTGGCAC
1 CCTTTTTAAAGTCCACAACTACATGGCAC
*
3976071 CC-TTTCAAAGTCCA
1 CCTTTTTAAAGTCCA
3976085 TGACTCAGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 10 0.28
29 26 0.72
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.29
Consensus pattern (29 bp):
CCTTTTTAAAGTCCACAACTACATGGCAC
Found at i:3976090 original size:99 final size:99
Alignment explanation
Indices: 3975968--3976173 Score: 274
Period size: 99 Copynumber: 2.1 Consensus size: 99
3975958 CAACTCCATT
* * * * *
3975968 GCACCCTTTTAAAGTCCATGACTCAGTGGCACCCTTTTCATAGTTCCTTCTTAAAGTCCACAACT
1 GCACCCTTTCAAAGTCCATGACTCAGTGCCACCCTTTTCACAATTCATTCTTAAAGTCCACAAC-
*
3976033 TCA-TGGCACCCTTTTT-AAAATCCATAAC-TACGTG
65 TCAGTGGCA-CCTTTTTCAAAATCCACAACTTA-GTG
* *
3976067 GCACCCTTTCAAAGTCCATGACTCAGTGCCAGCCTTTTCACAATTCATTCTTAAAGTCCATAACT
1 GCACCCTTTCAAAGTCCATGACTCAGTGCCACCCTTTTCACAATTCATTCTTAAAGTCCACAACT
* *
3976132 CAGTGGCACCTTTTTCAAAGTCCACGACTTAGTG
66 CAGTGGCACCTTTTTCAAAATCCACAACTTAGTG
3976166 GCACCCTT
1 GCACCCTT
3976174 CTTGAAGTCT
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
98 10 0.11
99 82 0.87
100 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (99 bp):
GCACCCTTTCAAAGTCCATGACTCAGTGCCACCCTTTTCACAATTCATTCTTAAAGTCCACAACT
CAGTGGCACCTTTTTCAAAATCCACAACTTAGTG
Found at i:3976213 original size:31 final size:30
Alignment explanation
Indices: 3976117--3976411 Score: 204
Period size: 29 Copynumber: 10.0 Consensus size: 30
3976107 CAATTCATTC
* *
3976117 TTAAAGTCCATAACTCAGTGGCACCT-TTT
1 TTAAAGTCCACAACTCTGTGGCACCTCTTT
* * *
3976146 TCAAAGTCCACGACT-TAGTGGCACC-CTTC
1 TTAAAGTCCACAACTCT-GTGGCACCTCTTT
* * * * *
3976175 TTGAAGTCTATAACTCTGCGACACCTCTTT
1 TTAAAGTCCACAACTCTGTGGCACCTCTTT
* * *
3976205 TCTAAAGTCTATAACTCGGTGGCA--TCTTT
1 T-TAAAGTCCACAACTCTGTGGCACCTCTTT
*
3976234 TTAAAGTCCATAACT-TCGTGGCACAC-CTTT
1 TTAAAGTCCACAACTCT-GTGGCAC-CTCTTT
*
3976264 TTCCAAAGTCCACAACTCTATGGCACC-CTTT
1 TT--AAAGTCCACAACTCTGTGGCACCTCTTT
*
3976295 TTAAAGTCCACAACTCTGTGGCACC-CCTT
1 TTAAAGTCCACAACTCTGTGGCACCTCTTT
*
3976324 TTAAAGTCTACAACTCTGTGGCATCCT-TTT
1 TTAAAGTCCACAACTCTGTGGCA-CCTCTTT
* * *
3976354 TTAGAGCCCACAAGT-TAGTGGCACC-C-TT
1 TTAAAGTCCACAACTCT-GTGGCACCTCTTT
* * * *
3976382 TCAAAGCCCACAAGTCAGTGGCACC-CTTT
1 TTAAAGTCCACAACTCTGTGGCACCTCTTT
3976411 T
1 T
3976412 CAAAACCAAG
Statistics
Matches: 216, Mismatches: 32, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
28 43 0.20
29 97 0.45
30 32 0.15
31 25 0.12
32 18 0.08
33 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (30 bp):
TTAAAGTCCACAACTCTGTGGCACCTCTTT
Found at i:3976300 original size:89 final size:87
Alignment explanation
Indices: 3976117--3976351 Score: 231
Period size: 89 Copynumber: 2.6 Consensus size: 87
3976107 CAATTCATTC
* *
3976117 TTAAAGTCCATAACTCAGTGGCACCTTTTTCAAAGTCCACGACTTAGTGGCACCCTTCTTGAAGT
1 TTAAAGTCCATAACTCAGTGGCACCTTTTT-AAAGTCCACAACTTAGTGGCACCCTTCTTAAAGT
* * *
3976182 CTATAACTCTGCGACACCTCTTT
65 CCACAACTCTACGACACCTCTTT
* * * * * *
3976205 TCTAAAGTCTATAACTCGGTGGCATCTTTTTAAAGTCCATAACTTCGTGGCACACCTTTTTCCAA
1 T-TAAAGTCCATAACTCAGTGGCACCTTTTTAAAGTCCACAACTTAGTGGCAC-CCTTCTT--AA
* *
3976270 AGTCCACAACTCTATGGCACC-CTTT
62 AGTCCACAACTCTACGACACCTCTTT
* * * * *
3976295 TTAAAGTCCACAACTCTGTGGCACCCCTTTTAAAGTCTACAACTCT-GTGGCATCCTT
1 TTAAAGTCCATAACTCAGTGGCA-CCTTTTTAAAGTCCACAACT-TAGTGGCACCCTT
3976352 TTTTAGAGCC
Statistics
Matches: 120, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
88 20 0.17
89 55 0.46
90 27 0.22
91 18 0.15
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (87 bp):
TTAAAGTCCATAACTCAGTGGCACCTTTTTAAAGTCCACAACTTAGTGGCACCCTTCTTAAAGTC
CACAACTCTACGACACCTCTTT
Found at i:3976396 original size:28 final size:29
Alignment explanation
Indices: 3976251--3976641 Score: 190
Period size: 32 Copynumber: 12.8 Consensus size: 29
3976241 CCATAACTTC
* *
3976251 GTGGCACACCTTTTTCCAAAGTCCACAACTCTA
1 GTGGCAC-CC-TTTT-CAAAGCCCACAAGTC-A
* * * *
3976284 -TGGCACCCTTTTTAAAGTCCACAACTCT
1 GTGGCACCCTTTTCAAAGCCCACAAGTCA
* * * *
3976312 GTGGCACCCCTTTT-AAAGTCTACAACTCT
1 GTGGCA-CCCTTTTCAAAGCCCACAAGTCA
* * * *
3976341 GTGGCATCCTTTTTTAGAGCCCACAAGTTA
1 GTGGCA-CCCTTTTCAAAGCCCACAAGTCA
3976371 GTGGCACCC-TTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTTCAAAGCCCACAAGTCA
* *
3976399 GTGGCACCCTTTTCAAA--AC-CAAGTCG
1 GTGGCACCCTTTTCAAAGCCCACAAGTCA
* *
3976425 GTGGCAACCCTTTTCAATGCCCACACAAGTCG
1 GTGGC-ACCCTTTTCAAAG-CC-CACAAGTCA
* * *
3976457 GTGGCAACCATTTTTAAAGCTCACCTAAGT-A
1 GTGGC-ACCCTTTTCAAAGCCCA-C-AAGTCA
* * *
3976488 GGTGGTAACTCTTTTAAAAAGCCCAAACAAGTC-
1 -GTGG-CACCCTTTT-CAAAGCCC--ACAAGTCA
*
3976521 GATGGCACCCCTTTCAAAGCCCACACAAGTCA
1 G-TGGCACCCTTTTCAAAG-CC-CACAAGTCA
**
3976553 GTGGCAATCCC-TTTCAAAGCCCACACAAGTTG
1 GTGGC-A-CCCTTTTCAAAG-CC-CACAAGTCA
*
3976585 GTGGCAATCCTTTTCAAAGCCCGTACAAGTCCA
1 GTGGC-ACCCTTTTCAAAGCCC--ACAAGT-CA
*
3976618 -TGGCAACCTTTTTCAAAGCCCACA
1 GTGGC-ACCCTTTTCAAAGCCCACA
3976642 CAAATTGGTG
Statistics
Matches: 290, Mismatches: 40, Indels: 59
0.75 0.10 0.15
Matches are distributed among these distances:
26 11 0.04
27 12 0.04
28 25 0.09
29 54 0.19
30 32 0.11
31 24 0.08
32 113 0.39
33 17 0.06
34 1 0.00
35 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (29 bp):
GTGGCACCCTTTTCAAAGCCCACAAGTCA
Found at i:3976459 original size:32 final size:32
Alignment explanation
Indices: 3976362--3976686 Score: 264
Period size: 32 Copynumber: 10.5 Consensus size: 32
3976352 TTTTAGAGCC
**
3976362 CACAAGTTAGTGGC-ACCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
*
3976390 CACAAGTCAGTGGC-ACCCTTTTCAAA----A
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
*
3976417 C-CAAGTCGGTGGCAACCCTTTTCAATGCCCA
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
* * *
3976448 CACAAGTCGGTGGCAACCATTTTTAAAGCTCA
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
* * * *
3976480 C-CTAAGTAGGTGGTAACTCTTTTAAAAAGCCCA
1 CAC-AAGTCGGTGGCAACCCTTTT-CAAAGCCCA
* * *
3976513 AACAAGTCGATGGC-ACCCCTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
*
3976544 CACAAGTCAGTGGCAATCCC-TTTCAAAGCCCA
1 CACAAGTCGGTGGCAA-CCCTTTTCAAAGCCCA
* * *
3976576 CACAAGTTGGTGGCAATCCTTTTCAAAGCCCG
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
* ** *
3976608 TACAAGTCCATGGCAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
* * * * *
3976640 CACAAATTGGTGGTAACCC-TCTCAAAAGCCTA
1 CACAAGTCGGTGGCAACCCTTTTC-AAAGCCCA
*
3976672 AACAAGTCGGTGGCA
1 CACAAGTCGGTGGCA
3976687 TCTCCTTCTA
Statistics
Matches: 235, Mismatches: 47, Indels: 26
0.76 0.15 0.08
Matches are distributed among these distances:
26 11 0.05
27 12 0.05
28 17 0.07
29 7 0.03
31 27 0.11
32 142 0.60
33 18 0.08
34 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
Found at i:3976911 original size:60 final size:58
Alignment explanation
Indices: 3976702--3976898 Score: 241
Period size: 58 Copynumber: 3.4 Consensus size: 58
3976692 TTCTAAGGCT
* * * *
3976702 AATGTCATTGGCCTTGAATCAATACATTGGCACTTGTTAAACCTTCTTTCTCAAGCCC
1 AATGTCACTGGCCTTGAATCAACACATTGGCACTTGTCAAACCTTCTTTCTTAAGCCC
* * * * * *
3976760 AAAGTCAATGGCCTTGAATCAACATATTGGCACTTGTCAAATCTTTTTTCTTAAGCCT
1 AATGTCACTGGCCTTGAATCAACACATTGGCACTTGTCAAACCTTCTTTCTTAAGCCC
* *
3976818 AATGTCACTGGCCTTGAATCAACACATTGGCACTTGTCAAACCTTCTTATCTTTAAGTCG
1 AATGTCACTGGCCTTGAATCAACACATTGGCACTTGTCAAACCTTCTT-TC-TTAAGCCC
** *
3976878 AATGTTGCTAGCCTTGAATCA
1 AATGTCACTGGCCTTGAATCA
3976899 GTACATTAGC
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
58 92 0.78
59 2 0.02
60 24 0.20
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (58 bp):
AATGTCACTGGCCTTGAATCAACACATTGGCACTTGTCAAACCTTCTTTCTTAAGCCC
Found at i:3977053 original size:104 final size:104
Alignment explanation
Indices: 3976937--3977170 Score: 276
Period size: 104 Copynumber: 2.2 Consensus size: 104
3976927 TCCGATATCA
* * * * *
3976937 CTGGTCTTGAATTAGCATATTGGCACCTTTATTATCTTTAAGTTTGATATCGCTGGCCTTA-AAT
1 CTGGCCTTGAATTAGCACATTGGCACCCTTATCATCTTTAAGTTTAATATCGCTGGCC-TAGAAT
* * * ** *
3977001 CAGCATATTGGCACCCTTGTCATTTTTAAGTCGAATGTTG
65 CAGCATATTAGCACCCTTATAATCATTAAGTCCAATGTTG
* * *
3977041 CTGGCCTTGAATTAGTACATTGGCACCCTTATCATCTTTAAGTTTAATGTCGCTGGCCTAGAATT
1 CTGGCCTTGAATTAGCACATTGGCACCCTTATCATCTTTAAGTTTAATATCGCTGGCCTAGAATC
* *
3977106 AGTATATTAGCACCTTTATAATCATTAAGTCCAATGTTG
66 AGCATATTAGCACCCTTATAATCATTAAGTCCAATGTTG
3977145 -TAGGCCTTGAATCTA-CACATTGGCAC
1 CT-GGCCTTGAAT-TAGCACATTGGCAC
3977171 ATTGTGTAAG
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
103 3 0.03
104 105 0.95
105 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (104 bp):
CTGGCCTTGAATTAGCACATTGGCACCCTTATCATCTTTAAGTTTAATATCGCTGGCCTAGAATC
AGCATATTAGCACCCTTATAATCATTAAGTCCAATGTTG
Found at i:3977142 original size:52 final size:52
Alignment explanation
Indices: 3976866--3977156 Score: 235
Period size: 52 Copynumber: 5.6 Consensus size: 52
3976856 AAACCTTCTT
* * * * * * *
3976866 ATCTTTAAGTCGAATGTTGCTAGCCTTGAATCAGTACATTAGCA-CTCTTCTC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGTATATTGGCACCT-TTATC
* * * * * * *
3976918 ATCTTCAAGTCCGATATCACTGGTCTTGAATTAGCATATTGGCACCTTTATT
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGTATATTGGCACCTTTATC
*** * * * * * *
3976970 ATCTTTAAGTTTGATATCGCTGGCCTTAAATCAGCATATTGGCACCCTTGTC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGTATATTGGCACCTTTATC
* * * * *
3977022 ATTTTTAAGTCGAATGTTGCTGGCCTTGAATTAGTACATTGGCACCCTTATC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGTATATTGGCACCTTTATC
** * * *
3977074 ATCTTTAAGTTTAATGTCGCTGGCCTAGAATTAGTATATTAGCACCTTTATA
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGTATATTGGCACCTTTATC
* *
3977126 ATCATTAAGTCCAATGTTG-TAGGCCTTGAAT
1 ATCTTTAAGTCCAATGTCGCT-GGCCTTGAAT
3977157 CTACACATTG
Statistics
Matches: 188, Mismatches: 49, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
51 1 0.01
52 185 0.98
53 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (52 bp):
ATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGTATATTGGCACCTTTATC
Found at i:3977151 original size:156 final size:156
Alignment explanation
Indices: 3976869--3977170 Score: 356
Period size: 156 Copynumber: 1.9 Consensus size: 156
3976859 CCTTCTTATC
* * *
3976869 TTTAAGTCGAATGTTGCTAGCCTTGAATCAGTACATTAGCACTCTTCTCATCTTCAAGTCCGATA
1 TTTAAGTCGAATGTTGCTAGCCTTGAATCAGTACATTAGCACCCTTATCATCTTCAAGTCCAATA
* * * * * ***
3976934 TCACTGGTCTTGAATTAGCATATTGGCACCTTTATTATCTTTAAGTTTGATATCGCTGGCCTTAA
66 TCACTGGCCTAGAATTAGCATATTAGCACCTTTATAATCATTAAGTCCAATATCGCTGGCCTTAA
*
3976999 ATC-AGCATATTGGCACCCTTGTCATT
131 ATCTA-CACATTGGCACCCTTGTCATT
* * * * ** *
3977025 TTTAAGTCGAATGTTGCTGGCCTTGAATTAGTACATTGGCACCCTTATCATCTTTAAGTTTAATG
1 TTTAAGTCGAATGTTGCTAGCCTTGAATCAGTACATTAGCACCCTTATCATCTTCAAGTCCAATA
* * * * *
3977090 TCGCTGGCCTAGAATTAGTATATTAGCACCTTTATAATCATTAAGTCCAATGTTG-TAGGCCTTG
66 TCACTGGCCTAGAATTAGCATATTAGCACCTTTATAATCATTAAGTCCAATATCGCT-GGCCTTA
3977154 AATCTACACATTGGCAC
130 AATCTACACATTGGCAC
3977171 ATTGTGTAAG
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
155 1 0.01
156 118 0.98
157 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (156 bp):
TTTAAGTCGAATGTTGCTAGCCTTGAATCAGTACATTAGCACCCTTATCATCTTCAAGTCCAATA
TCACTGGCCTAGAATTAGCATATTAGCACCTTTATAATCATTAAGTCCAATATCGCTGGCCTTAA
ATCTACACATTGGCACCCTTGTCATT
Found at i:3978016 original size:51 final size:51
Alignment explanation
Indices: 3977948--3978057 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 51
3977938 TTTCATTGCA
* * *
3977948 AATGTATTGATATATTCTGGG-TTTTAACCTAAATGTATCGATACATTCTTC
1 AATGTATCGATAAATTCTGGGTTTTTAACCCAAATGTATCGATACA-TCTTC
* *
3977999 ATTGTATCGATAAATTCTGGGTTTTTAACCCAAATGTATTGATACATCTTC
1 AATGTATCGATAAATTCTGGGTTTTTAACCCAAATGTATCGATACATCTTC
3978050 AATGTATC
1 AATGTATC
3978058 AATACATGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 30 0.58
52 22 0.42
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.42
Consensus pattern (51 bp):
AATGTATCGATAAATTCTGGGTTTTTAACCCAAATGTATCGATACATCTTC
Found at i:3981639 original size:20 final size:20
Alignment explanation
Indices: 3981611--3981659 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
3981601 TCGATACAAC
*
3981611 AAGTTAATGTATCCATACAT
1 AAGTGAATGTATCCATACAT
*
3981631 AAGTGAATGTATCGATACAT
1 AAGTGAATGTATCCATACAT
3981651 AAGTGAATG
1 AAGTGAATG
3981660 GATTGATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
AAGTGAATGTATCCATACAT
Found at i:3981667 original size:20 final size:20
Alignment explanation
Indices: 3981600--3981668 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
3981590 TACAATTTGC
* * *
3981600 ATCGATACAACAAGTTAATGT
1 ATCGATAC-ATAAGTGAATGG
* *
3981621 ATCCATACATAAGTGAATGT
1 ATCGATACATAAGTGAATGG
3981641 ATCGATACATAAGTGAATGG
1 ATCGATACATAAGTGAATGG
*
3981661 ATTGATAC
1 ATCGATAC
3981669 TGGACTATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 35 0.83
21 7 0.17
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (20 bp):
ATCGATACATAAGTGAATGG
Found at i:3984239 original size:40 final size:40
Alignment explanation
Indices: 3984194--3984277 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
3984184 AGTGATACTC
*
3984194 CAACCTCATCTTTCCAAAGGGGTACTCTAACCCTGCCTTT
1 CAACCTCATCTTTCCAAAGGGGTACTCTAACCCCGCCTTT
*** * *
3984234 CAACCTCATCTTTTTGAAGGGGTACTTTAACCCCGCGTTT
1 CAACCTCATCTTTCCAAAGGGGTACTCTAACCCCGCCTTT
3984274 CAAC
1 CAAC
3984278 TGCAATTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.31
Consensus pattern (40 bp):
CAACCTCATCTTTCCAAAGGGGTACTCTAACCCCGCCTTT
Found at i:3988366 original size:149 final size:149
Alignment explanation
Indices: 3988069--3988523 Score: 490
Period size: 149 Copynumber: 3.0 Consensus size: 149
3988059 AAAAAAAGTG
* * * * *
3988069 TAAAACTCATAAAATAAATTGAATCTTCAAAATTTGATTTAATATATGAATTTAATAAAAATATT
1 TAAAACTCATAAAATAAATTGATTTTTCAAAA-CTGATTT-A-ATATGAATTAAACAAAAATATT
* * * *
3988134 T-AATGAATTTTAAAAATTATAAAATCAAAAACAATCCCACT-AAAAATTTACGGAGTGAAAAAC
63 TGAA-GAA-TTT--AAATTATAAACTCAAAAA-AATCCTACTGAAAAATTTACGAAATGAAAAAC
*
3988197 TCTATATTTTGAAAACAAGAAAAATTC
123 TCTATATTTAGAAAACAAGAAAAATTC
*
3988224 TAAAACTCATAAAATAAATTAGATTTTTCAAAACTGATTTAATATGAATTAAACAATAATATTTG
1 TAAAACTCATAAAATAAATT-GATTTTTCAAAACTGATTTAATATGAATTAAACAAAAATATTTG
* *
3988289 AAGAATTT-AATTATAAACTCAAAAAAATCCTACTGAAAAATTTACGAAAT-ATAAAATTTTATA
65 AAGAATTTAAATTATAAACTCAAAAAAATCCTACTGAAAAATTTACGAAATGA-AAAACTCTATA
* *
3988352 TCTTAG-TAATAAGAAAAATTC
129 T-TTAGAAAACAAGAAAAATTC
* * *
3988373 TAAAATTCATAAAGTAAATTGAATTTTTCAAAACTGATTTAATATAAATTAAACAAAAATATTTG
1 TAAAACTCATAAAATAAATTG-ATTTTTCAAAACTGATTTAATATGAATTAAACAAAAATATTTG
* * * *
3988438 AAGAATTTGAAAAATCATAAACTTAGAAAAATCCTACTAGAGAAATTTAC-AAGATGAAAAACTC
65 AAGAATTT---AAATTATAAACTCAAAAAAATCCTACT-GAAAAATTTACGAA-ATGAAAAACTC
* * *
3988502 CATATTTTGAAAATAAGAAAAA
125 TATATTTAGAAAACAAGAAAAA
3988524 CCTAAAAGAA
Statistics
Matches: 258, Mismatches: 28, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
148 10 0.04
149 119 0.46
150 3 0.01
152 3 0.01
153 51 0.20
154 35 0.14
155 27 0.10
156 10 0.04
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (149 bp):
TAAAACTCATAAAATAAATTGATTTTTCAAAACTGATTTAATATGAATTAAACAAAAATATTTGA
AGAATTTAAATTATAAACTCAAAAAAATCCTACTGAAAAATTTACGAAATGAAAAACTCTATATT
TAGAAAACAAGAAAAATTC
Found at i:3989661 original size:43 final size:43
Alignment explanation
Indices: 3989614--3989739 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
3989604 TAGACGAATA
3989614 TTGGTCAGGATGAAACCATATAAACCAATAAGATAGAAAGGAG
1 TTGGTCAGGATGAAACCATATAAACCAATAAGATAGAAAGGAG
* * * * * *
3989657 TTGGTTAGGATGAGACCATACAAACTAATATGATA-AAAGGGTG
1 TTGGTCAGGATGAAACCATATAAACCAATAAGATAGAAA-GGAG
*** *
3989700 TTGGTC-GAGATGAAACCATATGTGCCAATAAGCTAGAAAG
1 TTGGTCAG-GATGAAACCATATAAACCAATAAGATAGAAAG
3989740 ATGTTGGCTA
Statistics
Matches: 65, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 4 0.06
43 58 0.89
44 3 0.05
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (43 bp):
TTGGTCAGGATGAAACCATATAAACCAATAAGATAGAAAGGAG
Found at i:3989884 original size:43 final size:43
Alignment explanation
Indices: 3989832--3989946 Score: 205
Period size: 42 Copynumber: 2.7 Consensus size: 43
3989822 TTGCTAAGAC
3989832 GAAACCATACAAACCAACAAGTTAGAAAGGTGTTGGCCGAGAT
1 GAAACCATACAAACCAACAAGTTAGAAAGGTGTTGGCCGAGAT
3989875 GAAACCATACAAACCAACAAGTTAGAAA-GTGTTGGCCGAGAT
1 GAAACCATACAAACCAACAAGTTAGAAAGGTGTTGGCCGAGAT
*
3989917 GAAACCATACAAATCAACAAGTTACGAAAG
1 GAAACCATACAAACCAACAAGTTA-GAAAG
3989947 ATGAAACCAT
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
42 37 0.54
43 32 0.46
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (43 bp):
GAAACCATACAAACCAACAAGTTAGAAAGGTGTTGGCCGAGAT
Found at i:3989950 original size:32 final size:32
Alignment explanation
Indices: 3989913--3989978 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
3989903 GTGTTGGCCG
3989913 AGATGAAACCATACAAATCAACAAGTTACGAA
1 AGATGAAACCATACAAATCAACAAGTTACGAA
** *
3989945 AGATGAAACCATACGTATCAACAAGTTAGGAA
1 AGATGAAACCATACAAATCAACAAGTTACGAA
3989977 AG
1 AG
3989979 TGTTGGCTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (32 bp):
AGATGAAACCATACAAATCAACAAGTTACGAA
Found at i:3989972 original size:117 final size:117
Alignment explanation
Indices: 3989827--3990042 Score: 289
Period size: 117 Copynumber: 1.8 Consensus size: 117
3989817 AGAGTTTGCT
*
3989827 AAGACGAAACCATACAAACCAACAAGTTA-GAAAGGTGTTGGCCGA-GATGAAACCATACA-AAC
1 AAGACGAAACCATACAAACCAACAAGTTAGGAAA-GTGTTGG-CGAGGACGAAACCATA-AGAAC
3989889 CAACA-AGTTAGAAA-GTGTTGGCCGAGATGAAACCATACAAATCAACAAGTTACGA
63 CAACACA-TTAGAAAGGTGTTGG-CGAGATGAAACCATACAAATCAACAAGTTACGA
* ** * *
3989944 AAGATGAAACCATACGTATCAACAAGTTAGGAAAGTGTTGGCTAGGACGAAACCATAAGAACCAA
1 AAGACGAAACCATACAAACCAACAAGTTAGGAAAGTGTTGGCGAGGACGAAACCATAAGAACCAA
*
3990009 CACATTAGAAAGGTGTTGGCGGGATGAAACCATA
66 CACATTAGAAAGGTGTTGGCGAGATGAAACCATA
3990043 TGAACCAACA
Statistics
Matches: 87, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
116 3 0.03
117 72 0.83
118 12 0.14
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.17
Consensus pattern (117 bp):
AAGACGAAACCATACAAACCAACAAGTTAGGAAAGTGTTGGCGAGGACGAAACCATAAGAACCAA
CACATTAGAAAGGTGTTGGCGAGATGAAACCATACAAATCAACAAGTTACGA
Found at i:3990020 original size:74 final size:74
Alignment explanation
Indices: 3989871--3990010 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 74
3989861 GTGTTGGCCG
* * *
3989871 AGATGAAACCATACAAACCAACAAGTTAGAAAGTGTTGGCCGAGATGAAACCATACAAATCAACA
1 AGATGAAACCATACAAACCAACAAGTTAGAAAGTGTTGGCAGAGACGAAACCATACAAACCAACA
3989936 AGTTACGAA
66 AGTTACGAA
** *
3989945 AGATGAAACCATACGTATCAACAAGTTAGGAAAGTGTTGGCTAG-GACGAAACCATA-AGAACCA
1 AGATGAAACCATACAAACCAACAAGTTA-GAAAGTGTTGGC-AGAGACGAAACCATACA-AACCA
3990008 ACA
63 ACA
3990011 CATTAGAAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
74 26 0.46
75 30 0.53
76 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (74 bp):
AGATGAAACCATACAAACCAACAAGTTAGAAAGTGTTGGCAGAGACGAAACCATACAAACCAACA
AGTTACGAA
Found at i:3990039 original size:42 final size:43
Alignment explanation
Indices: 3989946--3990054 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 43
3989936 AGTTACGAAA
* * *
3989946 GATGAAACCATACGTATCAACAAGTTAGGAAAGTGTTGGCTAG
1 GATGAAACCATAAGAACCAACAAGTTAGGAAAGTGTTGGCTAG
* *
3989989 GACGAAACCATAAGAACCAACACA-TTA-GAAAGGTGTTGGC-GG
1 GATGAAACCATAAGAACCAACA-AGTTAGGAAA-GTGTTGGCTAG
*
3990031 GATGAAACCATATGAACCAACAAG
1 GATGAAACCATAAGAACCAACAAG
3990055 AAAAATTTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 25 0.45
43 29 0.52
44 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (43 bp):
GATGAAACCATAAGAACCAACAAGTTAGGAAAGTGTTGGCTAG
Found at i:3990465 original size:43 final size:42
Alignment explanation
Indices: 3990401--3990608 Score: 265
Period size: 43 Copynumber: 4.9 Consensus size: 42
3990391 AACCAGAATA
* * *
3990401 AAACCATATAAACCAAAAAGTTAGAAAGATGTTGGTCGGTATG
1 AAACCATATGAACCAACAAGTTAGAAAGGTGTTGGTCGG-ATG
* *
3990444 AAACCATATGAACCAACAAGTTAGAAAGGTGTTGGCCGAGACG
1 AAACCATATGAACCAACAAGTTAGAAAGGTGTTGGTCG-GATG
* * *
3990487 AAACCATATAAACCAACAAGTTAGGAAGGTGTTGGCTGGGATG
1 AAACCATATGAACCAACAAGTTAGAAAGGTGTTGG-TCGGATG
* *
3990530 AAACCATATGAACCAATAAGTTAGAAAGGTGTTGGCTAGGATG
1 AAACCATATGAACCAACAAGTTAGAAAGGTGTTGG-TCGGATG
*
3990573 AAATCATATGAACCAACAAGTTA-AGAAGGTGTTGGT
1 AAACCATATGAACCAACAAGTTAGA-AAGGTGTTGGT
3990609 TGGGACAAAA
Statistics
Matches: 146, Mismatches: 16, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
42 2 0.01
43 142 0.97
44 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (42 bp):
AAACCATATGAACCAACAAGTTAGAAAGGTGTTGGTCGGATG
Found at i:3990499 original size:86 final size:87
Alignment explanation
Indices: 3990401--3990623 Score: 294
Period size: 86 Copynumber: 2.6 Consensus size: 87
3990391 AACCAGAATA
* * *
3990401 AAACCATATAAACCAAAAAGTTAGAAAGATGTTGGTC-GGTATGAAACCATATGAACCAACAAGT
1 AAACCATATAAACCAACAAGTTAGAAAGGTGTTGGTCTGGGATGAAACCATATGAACCAACAAGT
3990465 TAGAAAGGTGTTGGCCGA-GACG
66 TAGAAAGGTGTTGG-CGAGGACG
* *
3990487 AAACCATATAAACCAACAAGTTAGGAAGGTGTTGG-CTGGGATGAAACCATATGAACCAATAAGT
1 AAACCATATAAACCAACAAGTTAGAAAGGTGTTGGTCTGGGATGAAACCATATGAACCAACAAGT
* *
3990551 TAGAAAGGTGTTGGCTAGGATG
66 TAGAAAGGTGTTGGCGAGGACG
* * **
3990573 AAATCATATGAACCAACAAGTTA-AGAAGGTGTTGGT-TGGGACAAAACCATA
1 AAACCATATAAACCAACAAGTTAGA-AAGGTGTTGGTCTGGGATGAAACCATA
3990624 CGTAGTAGTA
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
85 3 0.02
86 118 0.98
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (87 bp):
AAACCATATAAACCAACAAGTTAGAAAGGTGTTGGTCTGGGATGAAACCATATGAACCAACAAGT
TAGAAAGGTGTTGGCGAGGACG
Found at i:3991273 original size:121 final size:122
Alignment explanation
Indices: 3990982--3991287 Score: 295
Period size: 121 Copynumber: 2.5 Consensus size: 122
3990972 TTGGCCGAAA
* * * ** *
3990982 CAAAACCATACAAACCAACAAGTTAGAAAGGTATTGGTTGAGGTAAAACCATACATACCAA-TAA
1 CAAAACCATATAAACCAACAAGTTAGAAAGGTGTTGGTCGAGACAAAACCATACATACCAACAAA
* *
3991046 GAAAAAGTTACCAAAACAAAATCATGCAAGTCAACAAAAGAGAAGAGTTGGCCAAGT
66 GAAAAAGTTACCAAAACAAAATCATACAAGTCAACAAAAGAGAAGAGTTAGCCAAGT
** * * *
3991103 CAAAACCATATAAAATAACAAATTAGTAAGGTGTTGG-C-TGACATGAAACCATACATA-CAACA
1 CAAAACCATATAAACCAACAAGTTAGAAAGGTGTTGGTCGAGACA--AAACCATACATACCAACA
* * * * * *
3991165 AAG-AAAAGTTACCCGAGATAAAATCATACGAGTCAAC-AAAGAAGCAA-AGTTAGCTAGGAT
64 AAGAAAAAGTTA-CCAAAACAAAATCATACAAGTCAACAAAAG-AG-AAGAGTTAGCCAAG-T
* * * *
3991225 -GAAACCATATGAACCAACAAGTTAAAAAGGTGTTGGTCGAGACAAAACCATACAAACCAACAA
1 CAAAACCATATAAACCAACAAGTTAGAAAGGTGTTGGTCGAGACAAAACCATACATACCAACAA
3991288 GTTAGGAAGG
Statistics
Matches: 147, Mismatches: 28, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
119 2 0.01
120 15 0.10
121 116 0.79
122 10 0.07
123 4 0.03
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.17
Consensus pattern (122 bp):
CAAAACCATATAAACCAACAAGTTAGAAAGGTGTTGGTCGAGACAAAACCATACATACCAACAAA
GAAAAAGTTACCAAAACAAAATCATACAAGTCAACAAAAGAGAAGAGTTAGCCAAGT
Found at i:3991316 original size:43 final size:43
Alignment explanation
Indices: 3991222--3991316 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
3991212 AGTTAGCTAG
** * *
3991222 GATGAAACCATATGAACCAACAAGTTAAAAAGGTGTTGGTCGA
1 GATGAAACCATACAAACCAACAAGTTAAAAAGGTATTGGTCAA
** **
3991265 GACAAAACCATACAAACCAACAAGTTAGGAAGGTATTGGTCAA
1 GATGAAACCATACAAACCAACAAGTTAAAAAGGTATTGGTCAA
3991308 GATGAAACC
1 GATGAAACC
3991317 TTATGTACTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (43 bp):
GATGAAACCATACAAACCAACAAGTTAAAAAGGTATTGGTCAA
Found at i:3991790 original size:81 final size:80
Alignment explanation
Indices: 3991705--3991856 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 80
3991695 AGTTAAGAAG
* * * *
3991705 GTGTTGGCTAGGATGAAACTATACGTACCAACAA-GAAAAAGTTAACCGAGATGAAACCATATAA
1 GTGTTGGCCAAGATGAAACCATACGTACCAACAAGGAAAAA-ATAA-CGAGATGAAACCATATAA
*
3991769 GTCAACGAGCTAGAAAA
64 GCCAACGAGCTAGAAAA
* * *
3991786 GTGTTGGCCAAGATGAAACCATATGTACCAACAAGGAAAAAATGACTAGATGAAACCATATAAGC
1 GTGTTGGCCAAGATGAAACCATACGTACCAACAAGGAAAAAATAACGAGATGAAACCATATAAGC
3991851 CAACGA
66 CAACGA
3991857 AAGAGAAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 24 0.39
81 32 0.52
82 6 0.10
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (80 bp):
GTGTTGGCCAAGATGAAACCATACGTACCAACAAGGAAAAAATAACGAGATGAAACCATATAAGC
CAACGAGCTAGAAAA
Found at i:3991897 original size:77 final size:81
Alignment explanation
Indices: 3991711--3991897 Score: 213
Period size: 77 Copynumber: 2.4 Consensus size: 81
3991701 GAAGGTGTTG
* * * *
3991711 GCTAGGATGAAACTATACGTACCAACAA-GAAAAAGTTAACCGAGATGAAACCATATAAGTCAAC
1 GCTAGGATGAAACCATATGTACCAACAAGGAAAAAGATAACCGAGATGAAACCATATAAGCCAAC
* * *
3991775 GAGCTAGAAAAGTGTTG
66 GA-CAAGAAAAGTATTA
* * * *
3991792 GCCAAGATGAAACCATATGTACCAACAAGGAAAAA-ATGA-CTAGATGAAACCATATAAGCCAAC
1 GCTAGGATGAAACCATATGTACCAACAAGGAAAAAGATAACCGAGATGAAACCATATAAGCCAAC
*
3991855 GA-AAGAGAAG-ATTA
66 GACAAGAAAAGTATTA
*
3991869 GCTAGGATGAAACCATATGAACCAACAAG
1 GCTAGGATGAAACCATATGTACCAACAAG
3991898 TTAAAAAGGT
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
77 28 0.31
78 6 0.07
80 24 0.27
81 26 0.29
82 6 0.07
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (81 bp):
GCTAGGATGAAACCATATGTACCAACAAGGAAAAAGATAACCGAGATGAAACCATATAAGCCAAC
GACAAGAAAAGTATTA
Found at i:3991926 original size:43 final size:41
Alignment explanation
Indices: 3991705--3991945 Score: 137
Period size: 43 Copynumber: 6.0 Consensus size: 41
3991695 AGTTAAGAAG
* * * * *
3991705 GTGTTGGCTAGGATGAAACTATACGTACCAACAAG-AAAAA
1 GTGTTAGCTAAGATGAAACCATATGAACCAACAAGTAAAAA
* ** * *
3991745 --GTTAACCGAGATGAAACCATAT-AAGTCAACGAGCTAGAAAA
1 GTGTTAGCTAAGATGAAACCATATGAA-CCAACAAG-TA-AAAA
* * * *
3991786 GTGTTGGCCAAGATGAAACCATATGTACCAACAAGGAAAAA
1 GTGTTAGCTAAGATGAAACCATATGAACCAACAAGTAAAAA
* *
3991827 ATG--A-CT-AGATGAAACCATAT-AAGCCAACGAA--AGAGAA
1 GTGTTAGCTAAGATGAAACCATATGAA-CCAAC-AAGTA-AAAA
* *
3991864 G-ATTAGCTAGGATGAAACCATATGAACCAACAAGTTAAAAA
1 GTGTTAGCTAAGATGAAACCATATGAACCAACAAG-TAAAAA
* * *
3991905 GGTGTTAGCTAAGATGAAACCATATGTACTAACAAGGAAAA
1 -GTGTTAGCTAAGATGAAACCATATGAACCAACAAGTAAAA
3991946 GCTGACCAAG
Statistics
Matches: 150, Mismatches: 31, Indels: 38
0.68 0.14 0.17
Matches are distributed among these distances:
36 2 0.01
37 23 0.15
38 25 0.17
39 4 0.03
40 19 0.13
41 15 0.10
42 7 0.05
43 54 0.36
44 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (41 bp):
GTGTTAGCTAAGATGAAACCATATGAACCAACAAGTAAAAA
Found at i:3993626 original size:44 final size:43
Alignment explanation
Indices: 3993494--3993626 Score: 103
Period size: 44 Copynumber: 3.0 Consensus size: 43
3993484 GATGTAGGTA
* *
3993494 AAATGATGC-AATGCAAAAATAAATAAAAAGGCAAATGCATATG
1 AAATGATGCAAATGC-AATATTAATAAAAAGGCAAATGCATATG
* * * * ** *
3993537 AAATGATGTAAATACCAAT-GTCATCCAAAGTGTAGATATGC--ATG
1 AAATGATGCAAAT-GCAATATTAATAAAAAG-GCA-A-ATGCATATG
3993581 AAATGATGCAAATGCAAGTATTAATAAAAAGGCAAATGCATATG
1 AAATGATGCAAATGCAA-TATTAATAAAAAGGCAAATGCATATG
3993625 AA
1 AA
3993627 GTAATGAAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 17
0.66 0.16 0.17
Matches are distributed among these distances:
42 4 0.06
43 18 0.28
44 30 0.46
45 9 0.14
46 4 0.06
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.23
Consensus pattern (43 bp):
AAATGATGCAAATGCAATATTAATAAAAAGGCAAATGCATATG
Found at i:3993638 original size:88 final size:88
Alignment explanation
Indices: 3993402--3993645 Score: 287
Period size: 87 Copynumber: 2.8 Consensus size: 88
3993392 TGTAGACGCA
* * * * * *
3993402 CATGAAATGATGTAAATGCAAGCATTAATAAAATGACAGATGCATATGGAATGATGTAAATACTA
1 CATGAAATGATGCAAATGCAAGAATTAATAAAAAGGCAAATGCATAT-GAATGATGTAAATACCA
* * *
3993467 ATGTTATCTAAAATGTAGATGTAG
65 ATGTCATCCAAAATGTAGATATAG
* * * *
3993491 -GTAAAATGATGC-AATGCAAAAATAAATAAAAAGGCAAATGCATATGAAATGATGTAAATACCA
1 CATGAAATGATGCAAATGCAAGAATTAATAAAAAGGCAAATGCATATG-AATGATGTAAATACCA
*
3993554 ATGTCATCCAAAGTGTAGATAT-G
65 ATGTCATCCAAAATGTAGATATAG
* * *
3993577 CATGAAATGATGCAAATGCAAGTATTAATAAAAAGGCAAATGCATATGAAGTAATGAAAATACCA
1 CATGAAATGATGCAAATGCAAGAATTAATAAAAAGGCAAATGCATATGAA-TGATGTAAATACCA
3993642 ATGT
65 ATGT
3993646 GATCTAAGGG
Statistics
Matches: 130, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
86 2 0.02
87 72 0.55
88 56 0.43
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.25
Consensus pattern (88 bp):
CATGAAATGATGCAAATGCAAGAATTAATAAAAAGGCAAATGCATATGAATGATGTAAATACCAA
TGTCATCCAAAATGTAGATATAG
Found at i:3994327 original size:111 final size:110
Alignment explanation
Indices: 3994178--3994392 Score: 267
Period size: 112 Copynumber: 1.9 Consensus size: 110
3994168 CCTAGGAACG
* * * * *
3994178 AATGGATTAGATTGTATAAAATATGAATATTTTGAAAATC-AAAAAATTTTGATGCTGTTGGCTT
1 AATGGATTAGATTGTATAAAACATGAATATTTTAAAAATCTAAAAAA-GTTGATACTATTGGCTT
*
3994242 -AAAAATTTCAAAACTGATAGGATACATG-CTCTATTTTCCAAGCAC
65 AAAAAAATTCAAAACTGATAGGATACATGCCT-TATTTTCCAAGCAC
* * *
3994287 AATGGATTA-AGTTGTATAAAACATGAATTTCTTTTAAAAATCTAACAAAGTTGATATTATTGGC
1 AATGGATTAGA-TTGTATAAAACATGAA--TATTTTAAAAATCTAAAAAAGTTGATACTATTGGC
*
3994351 TTAAAAAAATTCAAAACTGATGGGATACATGCCTTATTTTCC
63 TTAAAAAAATTCAAAACTGATAGGATACATGCCTTATTTTCC
3994393 TTGGATAAGG
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
108 1 0.01
109 24 0.27
111 24 0.27
112 39 0.43
113 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (110 bp):
AATGGATTAGATTGTATAAAACATGAATATTTTAAAAATCTAAAAAAGTTGATACTATTGGCTTA
AAAAAATTCAAAACTGATAGGATACATGCCTTATTTTCCAAGCAC
Found at i:3995052 original size:7 final size:7
Alignment explanation
Indices: 3995042--3995096 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
3995032 TCATTTCATG
3995042 CTTTTTT
1 CTTTTTT
3995049 CTTTTTT
1 CTTTTTT
*
3995056 CTTTTCT
1 CTTTTTT
3995063 CATTTTTT
1 C-TTTTTT
*
3995071 -TCTCTTT
1 CT-TTTTT
3995078 C-TTTTT
1 CTTTTTT
3995084 CTTTTTT
1 CTTTTTT
*
3995091 GTTTTT
1 CTTTTT
3995097 CTATTTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
6 6 0.15
7 28 0.72
8 5 0.13
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (7 bp):
CTTTTTT
Found at i:3995069 original size:23 final size:20
Alignment explanation
Indices: 3995043--3995090 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
3995033 CATTTCATGC
*
3995043 TTTTTTCTTTTTTCTTTTCTCAT
1 TTTTTTC-TCTTTCTTTT-TC-T
3995066 TTTTTTCTCTTTCTTTTTCT
1 TTTTTTCTCTTTCTTTTTCT
3995086 TTTTT
1 TTTTT
3995091 GTTTTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 2 0.08
22 9 0.38
23 7 0.29
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTCTCTTTCTTTTTCT
Found at i:3996359 original size:73 final size:73
Alignment explanation
Indices: 3996218--3996360 Score: 193
Period size: 73 Copynumber: 2.0 Consensus size: 73
3996208 CGAAATAATA
* * **
3996218 AGGTTGGAGTATCCCCGATGAGTGATATATTAAACAAAATAAGATTTAAATATTGACAATTTTGA
1 AGGTTGGAGTATCCCCGATGACTGATATATTAAACAAAATAAGATTTAAATATTGACAAATTAAA
3996283 AAAAAATG
66 AAAAAATG
*
3996291 AGGTTGGAGTATCCCCGATGACT-ATA-ATTTAAGTA-AAAATGAGATTTAAATATTGACAAATT
1 AGGTTGGAGTATCCCCGATGACTGATATA-TTAA--ACAAAATAAGATTTAAATATTGACAAATT
3996353 AAAAAAAA
63 AAAAAAAA
3996361 GGAAAGAACA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
71 1 0.02
72 7 0.11
73 53 0.85
74 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.29
Consensus pattern (73 bp):
AGGTTGGAGTATCCCCGATGACTGATATATTAAACAAAATAAGATTTAAATATTGACAAATTAAA
AAAAAATG
Found at i:3998171 original size:21 final size:20
Alignment explanation
Indices: 3998099--3998172 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
3998089 CACATTATCC
*
3998099 TGTATCGATACATTTCAGC-CA
1 TGTATCGATACA-TTCA-CTTA
3998120 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
**
3998140 TGTATTAATACATTGC-CTTA
1 TGTATCGATACATT-CACTTA
3998160 TTGTATCGATACA
1 -TGTATCGATACA
3998173 AATTATTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.02
20 21 0.47
21 23 0.51
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:3999650 original size:143 final size:143
Alignment explanation
Indices: 3999391--3999803 Score: 456
Period size: 143 Copynumber: 2.9 Consensus size: 143
3999381 TGGCTGTAAA
* * * * * * * *
3999391 AAAAATGTATGTAATAAATGAATGCCTATATATATTTATATCTACAAATGAGTGCAAAGATGAAA
1 AAAAATGTATGTCATGAGTGAATGCATATATATATTCATATATGCAAATGAGTGCAAAGATAAAA
* * * * *
3999456 TTAATGTAATATTAAAGAAAAGTTATATCAAAGTAATACAAGCAA-ATATATACAAAAGGTTTGG
66 TTAATGTAATATCAAAGAAAAGTTATAACAAAGTAATACAAACAACA-ATATACAAAAGGTCTAG
*
3999520 AAACAAAG-GC-TTT
130 AAAC-AAGTGCATCT
* * *
3999533 CAAAAATGTATGTCATGAGTGAATGCATGTATGTATTCATATATGCAAATGAGTGCAAAGATTAA
1 -AAAAATGTATGTCATGAGTGAATGCATATATATATTCATATATGCAAATGAGTGCAAAGATAAA
**
3999598 ATTAATGTAATATCAAAGAAAAACTATAACAAAGTAATACAAACAACAATATA-AAAAGGTCTAG
65 ATTAATGTAATATCAAAGAAAAGTTATAACAAAGTAATACAAACAACAATATACAAAAGGTCTAG
*
3999662 AGACAAGTGCATCT
130 AAACAAGTGCATCT
* * * * * * *
3999676 AGAAATGCATGTCATGAGTGAATGCATATATATATATATTCATGTATGTAAATAATTGCAAGGAT
1 AAAAATGTATGTCATGAGTGAATGC----ATATATATATTCATATATGCAAATGAGTGCAAAGAT
* * *
3999741 AAAATTAATATAATATCAAAGAAAAGTTATAACAAAATAATACAAACAACTATATACAGAAAG
62 AAAATTAATGTAATATCAAAGAAAAGTTATAACAAAGTAATACAAACAACAATATACA-AAAG
3999804 CTTATCGTCA
Statistics
Matches: 227, Mismatches: 34, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
141 3 0.01
142 37 0.16
143 102 0.45
144 1 0.00
146 79 0.35
147 1 0.00
148 4 0.02
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (143 bp):
AAAAATGTATGTCATGAGTGAATGCATATATATATTCATATATGCAAATGAGTGCAAAGATAAAA
TTAATGTAATATCAAAGAAAAGTTATAACAAAGTAATACAAACAACAATATACAAAAGGTCTAGA
AACAAGTGCATCT
Found at i:4003743 original size:13 final size:13
Alignment explanation
Indices: 4003725--4003749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4003715 AATTTGCTTA
4003725 GTATCGATACATT
1 GTATCGATACATT
4003738 GTATCGATACAT
1 GTATCGATACAT
4003750 AAACTGGCAG
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):
GTATCGATACATT
Found at i:4003868 original size:14 final size:14
Alignment explanation
Indices: 4003845--4003874 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4003835 TCATCAGTGT
*
4003845 TCACTGTTCATGTA
1 TCACTATTCATGTA
4003859 TCACTATTCATGTA
1 TCACTATTCATGTA
4003873 TC
1 TC
4003875 GATAAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (14 bp):
TCACTATTCATGTA
Found at i:4003920 original size:13 final size:13
Alignment explanation
Indices: 4003902--4003926 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4003892 TCACTATTTA
4003902 TGTATCGATACAG
1 TGTATCGATACAG
4003915 TGTATCGATACA
1 TGTATCGATACA
4003927 TTGTGAATAG
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4005082 original size:18 final size:19
Alignment explanation
Indices: 4005059--4005103 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
4005049 TTTCCATATT
*
4005059 TTTATTTTTTATTTTTT-A
1 TTTATTTTTGATTTTTTGA
*
4005077 TTTA-TTTTGATTTTTTGC
1 TTTATTTTTGATTTTTTGA
4005095 TTTATTTTT
1 TTTATTTTT
4005104 CATCATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 11 0.48
18 8 0.35
19 4 0.17
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (19 bp):
TTTATTTTTGATTTTTTGA
Found at i:4005665 original size:151 final size:153
Alignment explanation
Indices: 4005462--4005808 Score: 430
Period size: 153 Copynumber: 2.3 Consensus size: 153
4005452 TTTAATATGA
* *
4005462 ATTTAATGAAATTT-AAAAATTATAAACTCAAAAAAAAATCCTACTAAAAAATTTACAAAGTAAA
1 ATTTAAAG-AATTTAAAAAATTATAAACT--AAAAAAAATCCTACCAAAAAATTTACAAAGTAAA
* * * **
4005526 AAACTCCGTAT-TTTG-AAAATAAAAAATTCTAAAACACATAAAATAAATTGGATTTTTCAAAAA
63 AAACTCCATATCTTAGTAAAAGAAAAAATTCTAAAACACATAAAATAAATTAAATTTTTCAAAAA
*
4005589 TGATTTAATATAAATTAAAGAATAAT
128 TGATTTAATATAAACTAAAGAATAAT
* ** * * *
4005615 ATTTGAAGAATTTTGAAAATTATAAGCTAAAAAAAATCTTACCAAAAAATTTACAGAGTAAAAAA
1 ATTTAAAGAATTTAAAAAATTATAAACTAAAAAAAATCCTACCAAAAAATTTACAAAGTAAAAAA
* * * ** * *
4005680 CTCTATATCTTAGTAAAAGGAAAAATTTTAAAATTCATAAAATAAATTAAATTTTTCGAAATTGA
66 CTCCATATCTTAGTAAAAGAAAAAATTCTAAAACACATAAAATAAATTAAATTTTTCAAAAATGA
* *
4005745 TTTAATATACACTAAATAATAAT
131 TTTAATATAAACTAAAGAATAAT
*
4005768 ATTTAAAGAATTTAAAAAATTATAAACTTAAAAAAATCCTA
1 ATTTAAAGAATTTAAAAAATTATAAACTAAAAAAAATCCTA
4005809 TCGGAGAAAT
Statistics
Matches: 163, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
151 40 0.25
152 8 0.05
153 115 0.71
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (153 bp):
ATTTAAAGAATTTAAAAAATTATAAACTAAAAAAAATCCTACCAAAAAATTTACAAAGTAAAAAA
CTCCATATCTTAGTAAAAGAAAAAATTCTAAAACACATAAAATAAATTAAATTTTTCAAAAATGA
TTTAATATAAACTAAAGAATAAT
Found at i:4005856 original size:153 final size:149
Alignment explanation
Indices: 4005462--4005857 Score: 409
Period size: 153 Copynumber: 2.6 Consensus size: 149
4005452 TTTAATATGA
* *
4005462 ATTTAATGAAATTTAAAAATTATAAACTCAAAAAAAAATCCTACTAAAAAATTTACAAAGTAAAA
1 ATTTAAAG-AATTTAAAAATTATAAACT--AAAAAAAATCCTACCAAAAAATTTACAAA-TAAAA
* * * **
4005527 AACTCCGTATTTTGAAAATA-AAAAATTCTAAAACACATAAAATAAATTGGATTTTTCAAAAATG
62 AACTTCATATTTT-AAAAAAGAAAAATTCTAAAACACATAAAATAAATTAAATTTTTCAAAAATG
*
4005591 ATTTAATATAAATTAAAGAATAAT
126 ATTTAATATAAACTAAAGAATAAT
* * * * *
4005615 ATTTGAAGAATTTTGAAAATTATAAGCTAAAAAAAATCTTACCAAAAAATTTACAGAGTAAAAAA
1 ATTTAAAGAA-TTTAAAAATTATAAACTAAAAAAAATCCTACCAAAAAATTTACA-AATAAAAAA
* * * ** * *
4005680 C-TCTATATCTTAGTAAAAGGAAAAATTTTAAAATTCATAAAATAAATTAAATTTTTCGAAATTG
64 CTTC-ATATTTTA--AAAAAGAAAAATTCTAAAACACATAAAATAAATTAAATTTTTCAAAAATG
* *
4005744 ATTTAATATACACTAAATAATAAT
126 ATTTAATATAAACTAAAGAATAAT
* ** * *
4005768 ATTTAAAGAATTTAAAAAATTATAAACTTAAAAAAATCCTATCGGAGAAATTTACGAAATAGAAA
1 ATTTAAAGAATTT-AAAAATTATAAACTAAAAAAAATCCTA-CCAAAAAATTTAC-AAATAAAAA
4005833 ACTTCATATTTTAAAAACAGAAAAA
63 ACTTCATATTTTAAAAA-AGAAAAA
4005858 ATATAAAAGA
Statistics
Matches: 198, Mismatches: 34, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
150 2 0.01
151 38 0.19
152 13 0.07
153 117 0.59
154 25 0.13
155 3 0.02
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (149 bp):
ATTTAAAGAATTTAAAAATTATAAACTAAAAAAAATCCTACCAAAAAATTTACAAATAAAAAACT
TCATATTTTAAAAAAGAAAAATTCTAAAACACATAAAATAAATTAAATTTTTCAAAAATGATTTA
ATATAAACTAAAGAATAAT
Found at i:4006087 original size:3 final size:3
Alignment explanation
Indices: 4006079--4006108 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4006069 TTATCCAAAA
4006079 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4006109 AAAAAAAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4007242 original size:17 final size:17
Alignment explanation
Indices: 4007222--4007271 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
4007212 TTTTTTGTAT
* *
4007222 TATTTATTTAGGATATA
1 TATTTATTTAAGATAAA
4007239 TATTTAATTTAAG-TAAA
1 TATTT-ATTTAAGATAAA
4007256 TATTTATTTAAGATAA
1 TATTTATTTAAGATAA
4007272 GAATAAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 7 0.24
17 16 0.55
18 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (17 bp):
TATTTATTTAAGATAAA
Found at i:4008098 original size:33 final size:33
Alignment explanation
Indices: 4008027--4008098 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 33
4008017 AAATTCAATT
*
4008027 AAATAATTAACAATTAATTATTTAATTTAACAA
1 AAATAATTAACAATTAATTATTTAATGTAACAA
* * *
4008060 GAATAATTATCAAATT-ATTATTTTA-GTAACCAA
1 AAATAATTAAC-AATTAATTATTTAATGTAA-CAA
4008093 AAATAA
1 AAATAA
4008099 AATTTGACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
32 3 0.09
33 25 0.78
34 4 0.12
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (33 bp):
AAATAATTAACAATTAATTATTTAATGTAACAA
Found at i:4009542 original size:19 final size:19
Alignment explanation
Indices: 4009518--4009574 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
4009508 TGTATCGATA
4009518 CATTGTATTGATACATGAT
1 CATTGTATTGATACATGAT
*
4009537 CATTGTATCGATACATGGAT
1 CATTGTATTGATACAT-GAT
*
4009557 AATTGTATTGATACATGA
1 CATTGTATTGATACATGA
4009575 AACTGGCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (19 bp):
CATTGTATTGATACATGAT
Found at i:4009563 original size:20 final size:20
Alignment explanation
Indices: 4009514--4009573 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
4009504 GCTTTGTATC
4009514 GATACATTGTATTGATACAT-
1 GATA-ATTGTATTGATACATG
* *
4009534 GATCATTGTATCGATACATG
1 GATAATTGTATTGATACATG
4009554 GATAATTGTATTGATACATG
1 GATAATTGTATTGATACATG
4009574 AAACTGGCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 14 0.40
20 21 0.60
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (20 bp):
GATAATTGTATTGATACATG
Found at i:4011257 original size:9 final size:9
Alignment explanation
Indices: 4011240--4011273 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
4011230 GTCAACCATC
4011240 AATGATGAT
1 AATGATGAT
4011249 GAA-GATGAT
1 -AATGATGAT
4011258 AATGATGAT
1 AATGATGAT
4011267 AATGATG
1 AATGATG
4011274 GTGACTCGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.29
Consensus pattern (9 bp):
AATGATGAT
Found at i:4017778 original size:47 final size:48
Alignment explanation
Indices: 4017682--4017818 Score: 258
Period size: 47 Copynumber: 2.9 Consensus size: 48
4017672 TTGCTATAAC
*
4017682 AAAAAAGGGGAGAAATATTGCTTTGAAAATAAAATAAATTTTGCTTTT
1 AAAAAGGGGGAGAAATATTGCTTTGAAAATAAAATAAATTTTGCTTTT
4017730 AAAAAGGGGGAGAAATATTGCTTTGAAAATAAAATAAATTTTGC-TTT
1 AAAAAGGGGGAGAAATATTGCTTTGAAAATAAAATAAATTTTGCTTTT
4017777 AAAAAGGGGGAGAAATATTGCTTTGAAAATAAAATAAATTTT
1 AAAAAGGGGGAGAAATATTGCTTTGAAAATAAAATAAATTTT
4017819 TTATTTAGAG
Statistics
Matches: 88, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
47 45 0.51
48 43 0.49
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.31
Consensus pattern (48 bp):
AAAAAGGGGGAGAAATATTGCTTTGAAAATAAAATAAATTTTGCTTTT
Found at i:4018488 original size:19 final size:19
Alignment explanation
Indices: 4018460--4018515 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
4018450 TTGTATCGAT
* *
4018460 ACATTATATCGGTACAT-G
1 ACATTGTATCGATACATGG
4018478 ATCATTGTATCGATACATGG
1 A-CATTGTATCGATACATGG
4018498 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
4018516 AAAACTAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.03
19 15 0.45
20 17 0.52
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:4018611 original size:33 final size:32
Alignment explanation
Indices: 4018563--4018632 Score: 113
Period size: 33 Copynumber: 2.2 Consensus size: 32
4018553 ATACATGGTC
*
4018563 CATTGTACGCTACATGATGAATTGTATCGATA
1 CATTGTACACTACATGATGAATTGTATCGATA
*
4018595 CATTGTATCACTACATGATGAATTGTATTGATA
1 CATTGTA-CACTACATGATGAATTGTATCGATA
4018628 CATTG
1 CATTG
4018633 CTTCGAACTG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 7 0.20
33 28 0.80
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (32 bp):
CATTGTACACTACATGATGAATTGTATCGATA
Found at i:4020925 original size:20 final size:20
Alignment explanation
Indices: 4020888--4020941 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
4020878 TTCAACAATT
4020888 TGTATCGATACAATAAGTAAA
1 TGTATCGATAC-ATAAGTAAA
* *
4020909 TGTATCAATACATAAGTGAA
1 TGTATCGATACATAAGTAAA
4020929 TGTATCGATACAT
1 TGTATCGATACAT
4020942 GTCTAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTAAA
Found at i:4021060 original size:51 final size:52
Alignment explanation
Indices: 4021001--4021135 Score: 227
Period size: 52 Copynumber: 2.6 Consensus size: 52
4020991 GAATGAAAAG
4021001 GTATCGATACATTTTTCATTGTATCCATACATTCTGGG-TTTTGACCCAAAT
1 GTATCGATACATTTTTCATTGTATCCATACATTCTGGGTTTTTGACCCAAAT
* *
4021052 GTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTTGACCCAAAT
1 GTATCGATACATTTTTCATTGTATCCATACATTCTGGGTTTTTGACCCAAAT
* *
4021104 ATATCGATACATTTTTCAATGTATCCATACAT
1 GTATCGATACATTTTTCATTGTATCCATACAT
4021136 CTAGGCAAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 36 0.47
52 41 0.53
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (52 bp):
GTATCGATACATTTTTCATTGTATCCATACATTCTGGGTTTTTGACCCAAAT
Found at i:4024564 original size:33 final size:33
Alignment explanation
Indices: 4024508--4024572 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
4024498 TACCTAGATG
*
4024508 TATCAATACAAATTGCTAAGTATCGATACATTA
1 TATCAATACAAATTACTAAGTATCGATACATTA
* * *
4024541 TATCGATATAAATTACTACGTATCGATACATT
1 TATCAATACAAATTACTAAGTATCGATACATT
4024573 TGGAATTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (33 bp):
TATCAATACAAATTACTAAGTATCGATACATTA
Found at i:4025198 original size:31 final size:32
Alignment explanation
Indices: 4025121--4025218 Score: 101
Period size: 36 Copynumber: 3.0 Consensus size: 32
4025111 CGAAGTTATT
4025121 GAGAGGTTCTATCTTAGCCTTTAAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCC-TT-AAAAAGATA--GA
* *
4025157 GAAAGGTTCTATCTTAGCCTGTGAAAAGATA-A
1 GAGAGGTTCTATCTTAGCCT-TAAAAAGATAGA
* *
4025189 -AGAGGTTCTATCTTGGCCTTCAAAAGATAG
1 GAGAGGTTCTATCTTAGCCTTAAAAAGATAG
4025219 TGTTGTAAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
30 9 0.16
31 17 0.31
32 1 0.02
35 9 0.16
36 19 0.35
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (32 bp):
GAGAGGTTCTATCTTAGCCTTAAAAAGATAGA
Found at i:4026859 original size:21 final size:22
Alignment explanation
Indices: 4026833--4026882 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
4026823 GAATAAGAGG
*
4026833 AGAAAATAAATGAGTTG-GAAA
1 AGAAAATAAATGAGTTGCAAAA
*
4026854 AGAAAAGAAATGAGTTGCAAAA
1 AGAAAATAAATGAGTTGCAAAA
4026876 AGAAAAT
1 AGAAAAT
4026883 GATGAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.60, C:0.02, G:0.22, T:0.16
Consensus pattern (22 bp):
AGAAAATAAATGAGTTGCAAAA
Found at i:4029075 original size:79 final size:79
Alignment explanation
Indices: 4028992--4029146 Score: 224
Period size: 79 Copynumber: 2.0 Consensus size: 79
4028982 TTTCTCCTCG
* * * * *
4028992 GAAATAATGGGGTTGGAGTGTCCCCGATTGTGGAAAATTGGT-GTCCTGGAAATAAAA-CAGGGG
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGGT-CTGAAAATAAAATC-GGGG
4029055 TTGGAGTATCCCCTTA
64 TTGGAGTATCCCCTTA
*
4029071 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGGTTTGAAAATAAAATCGGGGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGGTCTGAAAATAAAATCGGGGTT
4029136 GGAGTATCCCC
66 GGAGTATCCCC
4029147 GATAGTGAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
79 65 0.96
80 3 0.04
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (79 bp):
GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGGTCTGAAAATAAAATCGGGGTT
GGAGTATCCCCTTA
Found at i:4029174 original size:129 final size:131
Alignment explanation
Indices: 4029000--4029419 Score: 464
Period size: 129 Copynumber: 3.2 Consensus size: 131
4028990 CGGAAATAAT
* * * *
4029000 GGGGTTGGAGTGTCCCCGATTGTGGAAAATTGGTG-TCCTGGAAATAAAA-CAGGGGTTGGAGTA
1 GGGGTTGGAGTATCCCCGATAGTGGAAAATT-GTGCT-TTGGAAATAAAACCAGGGATTGGAGTA
*
4029063 TCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA-TGGTT-T-GAAAATA
64 TCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTCAGT-GTTCTAG-AAATA
4029125 AAATC
127 AAATC
* * *
4029130 GGGGTTGGAGTATCCCCGATAGT-GAAAATTGTTGCTTTGAAAATAAAATC-GAGATTGGAGTAT
1 GGGGTTGGAGTATCCCCGATAGTGGAAAATTG-TGCTTTGGAAATAAAACCAGGGATTGGAGTAT
* *
4029193 CCCC-TCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAA-TCAGTGTTCTAGAAATAAA
65 CCCCTTAG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTCAGTGTTCTAGAAATAAA
4029256 ATC
129 ATC
* * * * * * **
4029259 GGGATTAGAGTATCCCTGATGGTGGAAAATCAGTACTTTGGAAATAAAACCAGGTTTTGGAGTAT
1 GGGGTTGGAGTATCCCCGATAGTGGAAAAT-TGTGCTTTGGAAATAAAACCAGGGATTGGAGTAT
* * *
4029324 CCCCTTAGAAATAACGAGGTTAGAGTATCCCCGACTGTGAAAAA-TCAGTGTTCTAGAAATAAAA
65 CCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTCAGTGTTCTAGAAATAAAA
*
4029388 TA
130 TC
* ** * *
4029390 TGGGTTAAAGTATCCCCAATTGTGGAAAAT
1 GGGGTTGGAGTATCCCCGATAGTGGAAAAT
4029420 CGACTTTTAG
Statistics
Matches: 247, Mismatches: 32, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
128 8 0.03
129 100 0.40
130 45 0.18
131 92 0.37
132 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (131 bp):
GGGGTTGGAGTATCCCCGATAGTGGAAAATTGTGCTTTGGAAATAAAACCAGGGATTGGAGTATC
CCCTTAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTCAGTGTTCTAGAAATAAAAT
C
Found at i:4029179 original size:50 final size:51
Alignment explanation
Indices: 4029078--4029196 Score: 186
Period size: 50 Copynumber: 2.4 Consensus size: 51
4029068 TTAGAAATAA
* *
4029078 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGGTTTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATAGTGAAAAATTGATGCTTTGAAAATAAAAT
*
4029129 CGGGGTTGGAGTATCCCCGATAGTG-AAAATTGTTGCTTTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATAGTGAAAAATTGATGCTTTGAAAATAAAAT
* *
4029179 CGAGATTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
4029197 TCGAAAATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
50 39 0.62
51 24 0.38
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATAGTGAAAAATTGATGCTTTGAAAATAAAAT
Found at i:4029366 original size:131 final size:129
Alignment explanation
Indices: 4029038--4029420 Score: 433
Period size: 131 Copynumber: 2.9 Consensus size: 129
4029028 ATTGGTGTCC
* *
4029038 TGGAAATAAAACAGGGGTTGGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATTGTG
1 TGGAAATAAAACA-GGATTGGAGTATCCCCTTAGAAATAACGAGGTTGGAGTATCCCCGATTGTG
* * *
4029103 AAAAAT-TGATGGTT-T-GAAAATAAAATCGGGGTTGGAGTATCCCCGATAGT-GAAAAT-TGTT
65 AAAAATCAG-T-GTTCTAG-AAATAAAATC-GGGTTAGAGTATCCCCGATAGTGGAAAATCAGTT
*
4029163 GCTT
126 ACTT
* *
4029167 TGAAAATAAAATC-GAGATTGGAGTATCCCC-TCGAAAATAAC-AGGGTTGGAGTATCCCCGATT
1 TGGAAATAAAA-CAG-GATTGGAGTATCCCCTTAG-AAATAACGA-GGTTGGAGTATCCCCGATT
* *
4029229 GTGAAAAATCAGTGTTCTAGAAATAAAATCGGGATTAGAGTATCCCTGATGGTGGAAAATCAG-T
62 GTGAAAAATCAGTGTTCTAGAAATAAAATCGGG-TTAGAGTATCCCCGATAGTGGAAAATCAGTT
4029293 ACTT
126 ACTT
* * *
4029297 TGGAAATAAAACCAGGTTTTGGAGTATCCCCTTAGAAATAACGAGGTTAGAGTATCCCCGACTGT
1 TGGAAATAAAA-CAGG-ATTGGAGTATCCCCTTAGAAATAACGAGGTTGGAGTATCCCCGATTGT
* * * *
4029362 GAAAAATCAGTGTTCTAGAAATAAAATATGGGTTAAAGTATCCCCAATTGTGGAAAATC
64 GAAAAATCAGTGTTCTAGAAATAAAAT-CGGGTTAGAGTATCCCCGATAGTGGAAAATC
4029421 GACTTTTAGA
Statistics
Matches: 218, Mismatches: 21, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
128 9 0.04
129 87 0.40
130 25 0.11
131 91 0.42
132 6 0.03
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (129 bp):
TGGAAATAAAACAGGATTGGAGTATCCCCTTAGAAATAACGAGGTTGGAGTATCCCCGATTGTGA
AAAATCAGTGTTCTAGAAATAAAATCGGGTTAGAGTATCCCCGATAGTGGAAAATCAGTTACTT
Found at i:4033589 original size:122 final size:124
Alignment explanation
Indices: 4033361--4033606 Score: 352
Period size: 122 Copynumber: 2.0 Consensus size: 124
4033351 AGGGGGAGAT
* * * *
4033361 TGTTAGGCTTTTGGTTTTGATATAACAAATTAACTAAAAATATATTTGATCTTGTAAAGAAACTT
1 TGTTAAGCCTTTGGTTTAGATATAACAAATCAACTAAAAATATATTTGATCTTGTAAAGAAACTT
* * * *
4033426 TGAAAATCACAAAATAAGTTTTCATGACTTATATTTCTCTAAAACTATGTTACAAAATG
66 TGAAAATCACAAAATAAGTTTTCATAACTTACATTTCTCTAAAACCATGTGACAAAATG
* *
4033485 TGTTAAGCCTTTGGTTTAGATATAACAAATCAA-TTAAAA-ATATTTGATTTTGTAAAGAAACTT
1 TGTTAAGCCTTTGGTTTAGATATAACAAATCAACTAAAAATATATTTGATCTTGTAAAGAAACTT
** * *
4033548 TGATCATCACAAAATCAGTTTTCATAACTTACATTTTTCTAAAACCATGTGACAAAATG
66 TGAAAATCACAAAATAAGTTTTCATAACTTACATTTCTCTAAAACCATGTGACAAAATG
4033607 ATTTCAAGTA
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
122 74 0.69
123 5 0.05
124 29 0.27
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (124 bp):
TGTTAAGCCTTTGGTTTAGATATAACAAATCAACTAAAAATATATTTGATCTTGTAAAGAAACTT
TGAAAATCACAAAATAAGTTTTCATAACTTACATTTCTCTAAAACCATGTGACAAAATG
Found at i:4034445 original size:36 final size:33
Alignment explanation
Indices: 4034396--4034488 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 33
4034386 CTAAGTGATT
*
4034396 GAGAGGTTTTATCTTAGCCTTTGAAAAAGATAGGG
1 GAGAGGTTCTATCTTAGCC-TTGAAAAAGATA-GG
* *
4034431 AGAGAGGTTCTATCTTAACCCATG-AAAAGATAGG
1 -GAGAGGTTCTATCTT-AGCCTTGAAAAAGATAGG
*
4034465 GAG-GTTTCTATCTTAGCCTTGAAA
1 GAGAGGTTCTATCTTAGCCTTGAAA
4034489 GATAGTGTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
31 5 0.10
32 12 0.24
33 3 0.06
34 2 0.04
35 8 0.16
36 16 0.33
37 3 0.06
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (33 bp):
GAGAGGTTCTATCTTAGCCTTGAAAAAGATAGG
Found at i:4034466 original size:35 final size:36
Alignment explanation
Indices: 4034396--4034467 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
4034386 CTAAGTGATT
* * **
4034396 GAGAGGTTTTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAACCCATGAAAAAGATAGGGA
4034432 GAGAGGTTCTATCTTAACCCATG-AAAAGATAGGGA
1 GAGAGGTTCTATCTTAACCCATGAAAAAGATAGGGA
4034467 G
1 G
4034468 GTTTCTATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 13 0.41
36 19 0.59
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAACCCATGAAAAAGATAGGGA
Found at i:4034479 original size:32 final size:35
Alignment explanation
Indices: 4034396--4034479 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 35
4034386 CTAAGTGATT
* **
4034396 GAGAGGTTT-TATCTTAGCCTTTGAAAAAGATAGG
1 GAGAGGTTTCTATCTTAACCCATGAAAAAGATAGG
*
4034430 GAGAGAGGTTCTATCTTAACCCATG-AAAAGATA-G
1 GAGAG-GTTTCTATCTTAACCCATGAAAAAGATAGG
4034464 G-GAGGTTTCTATCTTA
1 GAGAGGTTTCTATCTTA
4034480 GCCTTGAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
32 11 0.26
33 3 0.07
34 7 0.16
35 11 0.26
36 11 0.26
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (35 bp):
GAGAGGTTTCTATCTTAACCCATGAAAAAGATAGG
Found at i:4034965 original size:33 final size:33
Alignment explanation
Indices: 4034921--4034984 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
4034911 TATACCCAAA
*
4034921 TGTATCGATACAAATTGCTAAATATCGATACAT
1 TGTATCAATACAAATTGCTAAATATCGATACAT
* **
4034954 TGTATCAATACAGATTGCTATGTATCGATAC
1 TGTATCAATACAAATTGCTAAATATCGATAC
4034985 CTATGGAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCAATACAAATTGCTAAATATCGATACAT
Found at i:4035051 original size:13 final size:13
Alignment explanation
Indices: 4035033--4035057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4035023 AACTCCCAAT
4035033 TGTATCGATACAA
1 TGTATCGATACAA
4035046 TGTATCGATACA
1 TGTATCGATACA
4035058 TGATTAAATT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4035089 original size:20 final size:21
Alignment explanation
Indices: 4035046--4035099 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
4035036 ATCGATACAA
* *
4035046 TGTATCGATACATGATTAAAT
1 TGTATCGATACATCAATAAAT
4035067 TGTATCGATACATCAAT-AAT
1 TGTATCGATACATCAATAAAT
*
4035087 TGTATTGATACAT
1 TGTATCGATACAT
4035100 TTGGCCGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATCAATAAAT
Found at i:4035599 original size:36 final size:35
Alignment explanation
Indices: 4035543--4035669 Score: 151
Period size: 34 Copynumber: 3.8 Consensus size: 35
4035533 TGATTGAGAA
4035543 GTTCTATCTTAGCCCT-TGAAAAAGATAGGGAAAAAG
1 GTTCTATCTTAG-CCTGTG-AAAAGATAGGGAAAAAG
* * *
4035579 GTTCCATCTTAGCCTGTGAAAAGATAGGG-TAGAG
1 GTTCTATCTTAGCCTGTGAAAAGATAGGGAAAAAG
4035613 GTTCTATCTTAGCCTGTGAAAAGATAGGG----AG
1 GTTCTATCTTAGCCTGTGAAAAGATAGGGAAAAAG
*
4035644 GTTCTATCTTAGCCT-TCAAAAGATAG
1 GTTCTATCTTAGCCTGTGAAAAGATAG
4035670 TGTTGTCAGG
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
30 10 0.12
31 17 0.20
34 31 0.36
35 14 0.16
36 13 0.15
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (35 bp):
GTTCTATCTTAGCCTGTGAAAAGATAGGGAAAAAG
Found at i:4045883 original size:11 final size:11
Alignment explanation
Indices: 4045869--4045893 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4045859 TAGCATTGAG
4045869 TTGTGCCATTT
1 TTGTGCCATTT
4045880 TTGTGCCATTT
1 TTGTGCCATTT
4045891 TTG
1 TTG
4045894 GATAAACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.20, T:0.56
Consensus pattern (11 bp):
TTGTGCCATTT
Found at i:4046899 original size:13 final size:13
Alignment explanation
Indices: 4046859--4046906 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
4046849 CCGTTACAAG
4046859 CAATGTATCGATA
1 CAATGTATCGATA
4046872 CAA--T-TC-AT-
1 CAATGTATCGATA
4046880 C-ATGTATCGATA
1 CAATGTATCGATA
4046892 CAATGTATCGATA
1 CAATGTATCGATA
4046905 CA
1 CA
4046907 TTTTACCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.14
11 3 0.10
12 1 0.03
13 16 0.55
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:4046899 original size:33 final size:33
Alignment explanation
Indices: 4046859--4046927 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
4046849 CCGTTACAAG
*
4046859 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCACCATGTATCGATA
* *
4046892 CAATGTATCGATACATTTTACCATGTATCGATA
1 CAATGTATCGATACAATTCACCATGTATCGATA
4046925 CAA
1 CAA
4046928 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACAATTCACCATGTATCGATA
Found at i:4046975 original size:13 final size:13
Alignment explanation
Indices: 4046957--4046983 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4046947 TGCCAATCTC
4046957 ATGTATCGATACA
1 ATGTATCGATACA
4046970 ATGTATCGATACA
1 ATGTATCGATACA
4046983 A
1 A
4046984 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4047479 original size:14 final size:15
Alignment explanation
Indices: 4047455--4047484 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4047445 TGGTTTTTTC
4047455 TAAATTTTTAAAATT
1 TAAATTTTTAAAATT
4047470 TAAA-TTTTAAAATT
1 TAAATTTTTAAAATT
4047484 T
1 T
4047485 GATATAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAATTTTTAAAATT
Found at i:4054726 original size:14 final size:14
Alignment explanation
Indices: 4054705--4054742 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
4054695 GCGGAGACCT
4054705 CAAACATGTTGGAC
1 CAAACATGTTGGAC
*
4054719 CGAACATGTTGGAC
1 CAAACATGTTGGAC
4054733 CAAACATGTT
1 CAAACATGTT
4054743 ACGTACATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (14 bp):
CAAACATGTTGGAC
Found at i:4056987 original size:51 final size:44
Alignment explanation
Indices: 4056796--4056988 Score: 242
Period size: 44 Copynumber: 4.2 Consensus size: 44
4056786 TTTCACACTT
* * *
4056796 TGTATAGATACATCCTTCATTGTACATTTTGGGTTTTACTCAAA
1 TGTATCGATACATCCTTCATTGTACATTCTGGGTTTTACCCAAA
*
4056840 TGTATCGATACATCCTTCATTGTACATTCTAGGTTTTACCCAAA
1 TGTATCGATACATCCTTCATTGTACATTCTGGGTTTTACCCAAA
* *
4056884 TGTATCGATATATCCTTCATTGTACATTCTGGCTTTTACCCAAA
1 TGTATCGATACATCCTTCATTGTACATTCTGGGTTTTACCCAAA
* **
4056928 TGCATCGATACATTTTTCATTATATCGATACATTCTGGGTTTTAACCCAAA
1 TGTATCGATACATCCTTC---AT-T-G-TACATTCTGGGTTTT-ACCCAAA
4056979 TGTATCGATA
1 TGTATCGATA
4056989 AATTTCTCAA
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
44 95 0.74
47 2 0.02
48 1 0.01
49 1 0.01
50 14 0.11
51 16 0.12
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (44 bp):
TGTATCGATACATCCTTCATTGTACATTCTGGGTTTTACCCAAA
Found at i:4057005 original size:51 final size:50
Alignment explanation
Indices: 4056906--4057014 Score: 155
Period size: 51 Copynumber: 2.2 Consensus size: 50
4056896 TCCTTCATTG
* * *
4056906 TACATTCTGGCTTTTACCCAAATGCATCGATACATTTTTCATTATATCGA
1 TACATTCTGGCTTTTACCCAAATGCATCGATAAATTTCTCAATATATCGA
* * *
4056956 TACATTCTGGGTTTTAACCCAAATGTATCGATAAATTTCTCAATGTATCGA
1 TACATTCTGGCTTTT-ACCCAAATGCATCGATAAATTTCTCAATATATCGA
4057007 TACATTCT
1 TACATTCT
4057015 AGCATTTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 14 0.27
51 38 0.73
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.39
Consensus pattern (50 bp):
TACATTCTGGCTTTTACCCAAATGCATCGATAAATTTCTCAATATATCGA
Found at i:4065315 original size:13 final size:13
Alignment explanation
Indices: 4065297--4065334 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
4065287 CATCCTTCAA
*
4065297 TATATCGATACAT
1 TATATCAATACAT
4065310 TATATCAATACAT
1 TATATCAATACAT
*
4065323 TGTATCAATACA
1 TATATCAATACA
4065335 AGGGTTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (13 bp):
TATATCAATACAT
Found at i:4065471 original size:22 final size:21
Alignment explanation
Indices: 4065446--4065492 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
4065436 AAATCTTCTT
*
4065446 AAAATTTCTT-ATTTTTCACTTC
1 AAAATTACTTCATTTTTCA--TC
4065468 AAAA-TACTTCATTTTTCATC
1 AAAATTACTTCATTTTTCATC
4065488 AAAAT
1 AAAAT
4065493 CATCAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 6 0.27
21 4 0.18
22 12 0.55
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (21 bp):
AAAATTACTTCATTTTTCATC
Found at i:4068820 original size:20 final size:20
Alignment explanation
Indices: 4068797--4068843 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4068787 ATTTGTTTTA
*
4068797 ATACATTGT-TCATTGTATCG
1 ATACATT-TCTCAATGTATCG
*
4068817 ATACATTTCTTAATGTATCG
1 ATACATTTCTCAATGTATCG
4068837 ATACATT
1 ATACATT
4068844 CAGGCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.45
Consensus pattern (20 bp):
ATACATTTCTCAATGTATCG
Found at i:4070208 original size:61 final size:61
Alignment explanation
Indices: 4070107--4071087 Score: 1052
Period size: 61 Copynumber: 16.3 Consensus size: 61
4070097 TTATCCTTTC
*
4070107 AGTCCTCAAAGAGCAGGAC-AC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
4070166 AGTCCTCAAAGAGAAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTT-T
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * *
4070226 CAGTCCTTAAAGAGCATGAC-AC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTACT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * *
4070286 AGTCCTCAAAGAGCAGGATGCATTTTCCGTTTAAAGCCCACACAAATTGGTGGCA-CTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * * ** *
4070346 CAGTCCCCAAAGAGCAAGAC-AC-TTTCCCTTCAAAGCTGACA-AA-TTGGTGGCAACTTCT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * * * *
4070404 AGTCCTCAAAGAGTAGGATGCTTTTTCCTCTTAAAGCCCACACAAGGTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
4070465 AGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * ** * *
4070525 CAATCCTCAAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCATGCAAGTTGGTGGCACATTCC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
*
4070587 AGTCCTCAAAGAGCAGGACG-C-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
4070646 ACTCCACAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-T
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * *
4070706 CAGTCCTCAAAGAGCAGGAC-AC-TTTCCTTTCAAAGCCCACAAAAGTTGGTGGCATCTTCT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * *
4070766 AGTACTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGCGGCACTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* ** * * * *
4070827 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCGTATACGTTGGTGACA-CTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
*** * * *
4070887 CAGTCCTCAAAGAGCAGGACATTTTTTCCTTTTAAAGCCTACATAAATTGGTGGCACCTTCT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * *
4070949 AGTCCTCAAAGAGCAGGACG-C-TTTCCTTTCAAGGCCCACCCAA-ATGGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
** * * *
4071007 AGTCCTCAAAGAGCATGG-CG-CTTTCTCCTTGCAAAGCCTATATAAGTTGGTGGCACCTTCT
1 AGTCCTCAAAGAGCA-GGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* *
4071068 AGTCCCCATAGAGCAGGACG
1 AGTCCTCAAAGAGCAGGACG
4071088 TATTTAATTT
Statistics
Matches: 771, Mismatches: 124, Indels: 52
0.81 0.13 0.05
Matches are distributed among these distances:
57 24 0.03
58 38 0.05
59 216 0.28
60 37 0.05
61 450 0.58
62 6 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
Found at i:4070319 original size:120 final size:120
Alignment explanation
Indices: 4070101--4071086 Score: 1139
Period size: 120 Copynumber: 8.2 Consensus size: 120
4070091 AACCTTTTAT
*
4070101 CCTTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
1 CCTTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* ** *
4070166 AGTCCTCAAAGAGAAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCA
66 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
4070221 CCTTTCAGTCCTTAAAGAGCATGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTACT
1 CCTTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
4070286 AGTCCTCAAAGAGCAGGATGCATTTTCCGTTTAAAGCCCACACAAATTGGTGGCA
66 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * ** *
4070341 CTTTTCAGTCCCCAAAGAGCAAGACACTTTCCCTTCAAAGCTGACA-AA-TTGGTGGCAACTTCT
1 CCTTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * *
4070404 AGTCCTCAAAGAGTAGGATGCTTTTTCCTCTTAAAGCCCACACAAGGTGGTGGCA
66 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
4070459 CTTTTTAGTCCTCAAAGAGTAGGATGC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CT
1 CCTTTCAGTCCTCAAAGAGCAGGA--CAC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * * * **
4070522 TTTCAATCCTCAAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCATGCAAGTTGGTGGCA
63 TCT-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
4070581 CATTCCAGTCCTCAAAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
1 CCTTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* *
4070646 ACTCCACAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
4070701 CCTTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACAAAAGTTGGTGGCATCTTCT
1 CCTTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * *
4070766 AGTACTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGCGGCA
66 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * ** * * *
4070821 -CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCGTATACGTTGGTGACA-CT
1 CCTTTC-AGTCCTCAAAGAGCAGGAC-AC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* **** * * *
4070884 TTTCAGTCCTCAAAGAGCAGGACATTTTTTCCTTTTAAAGCCTACATAAATTGGTGGCA
63 TCT-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
4070943 CC-TTCTAGTCCTCAAAGAGCAGGACGCTTTCCTTTCAAGGCCCACCCAA-ATGGTGGCACCTTC
1 CCTTTC-AGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
* ** * * *
4071006 TAGTCCTCAAAGAGCATG--GCGCTTTCTCCTTGCAAAGCCTATATAAGTTGGTGGCA
65 TAGTCCTCAAAGAGCAGGATGC-CTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
4071062 CC-TTCTAGTCCCCATAGAGCAGGAC
1 CCTTTC-AGTCCTCAAAGAGCAGGAC
4071087 GTATTTAATT
Statistics
Matches: 745, Mismatches: 105, Indels: 33
0.84 0.12 0.04
Matches are distributed among these distances:
118 85 0.11
119 80 0.11
120 390 0.52
121 17 0.02
122 172 0.23
123 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (120 bp):
CCTTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:4070670 original size:181 final size:179
Alignment explanation
Indices: 4070107--4071086 Score: 1085
Period size: 181 Copynumber: 5.4 Consensus size: 179
4070097 TTATCCTTTC
*
4070107 AGTCCTCAAAGAGCAGGA--CAC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAG
1 AGTCCTCAAAGAGCAGGATGC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AG
* * * *
4070168 TCCTCAAAGAGAAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTT-TCAGTCC
64 TCCTCAAAGAGCAGGACA--TTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACATTCT-AGTCC
* * * *
4070232 TTAAAGAGCATGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTACT
126 TCAAAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
4070286 AGTCCTCAAAGAGCAGGATGCATTTTCCGTTTAAAGCCCACACAAATTGGTGGCACTTTTCAGTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* * * * * *
4070351 CCCAAAGAGCAAGACACTTTCCCTTCAAAG--C-TGACAAATTGGTGGCA-ACTTCTAGTCCTCA
66 CTCAAAGAGCAGGACATTTTCCTTTTAAAGCCCAT-ACAAGTTGGTGGCACA-TTCTAGTCCTCA
* * * * *
4070412 AAGAGTAGGATGCTTTTTCCTCTT-AAAGCCCACACAAGGTGGTGGCACTTTTT
129 AAGAGCAGGACGC--TTTCCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* *
4070465 AGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAATC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* * * *
4070530 CTCAAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCATGCAAGTTGGTGGCACATTCCAGTCCTCA
66 CTCAAAGAGCAGGA--CATTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACATTCTAGTCCTCA
4070595 AAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
129 AAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
4070646 ACTCCACAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* * * * *
4070711 CTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACAAAAGTTGGTGGCATC-TTCTAGTACTCAA
66 CTCAAAGAGCAGGACATTTTCCTTTTAAAGCCCATACAAGTTGGTGGCA-CATTCTAGTCCTCAA
* * * * *
4070775 AGAGTAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGCGGCACTTTCT
130 AGAGCAGGACG-C-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * ** * * *
4070827 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCGTATACGTTGGTGACACTTTTCAGTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
*
4070892 CTCAAAGAGCAGGACATTTTTTCCTTTTAAAGCCTACATA-AA-TTGGTGGCACCTTCTAGTCCT
66 CTCAAAGAGCAGGACA--TTTTCCTTTTAAAGCC--CATACAAGTTGGTGGCACATTCTAGTCCT
* * *
4070955 CAAAGAGCAGGACGCTTTCCTTTCAAGGCCCACCCAA-ATGGTGGCACCTTCT
127 CAAAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* ** * * * *
4071007 AGTCCTCAAAGAGCATG--GCGCTTTCTCCTTGCAAAGCCTATATAAGTTGGTGGCAC-CTTCTA
1 AGTCCTCAAAGAGCAGGATGC-CTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-A
* *
4071069 GTCCCCATAGAGCAGGAC
63 GTCCTCAAAGAGCAGGAC
4071087 GTATTTAATT
Statistics
Matches: 678, Mismatches: 95, Indels: 55
0.82 0.11 0.07
Matches are distributed among these distances:
177 31 0.05
178 3 0.00
179 188 0.28
180 75 0.11
181 289 0.43
182 5 0.01
183 80 0.12
184 4 0.01
185 3 0.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (179 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
CTCAAAGAGCAGGACATTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACATTCTAGTCCTCAAA
GAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
Found at i:4071194 original size:35 final size:35
Alignment explanation
Indices: 4071144--4071420 Score: 119
Period size: 35 Copynumber: 7.4 Consensus size: 35
4071134 TTTATTTCTT
*
4071144 TTTTTCCTTTGTCCTCGAAGAGTACGATGTACTCC
1 TTTTTCCTTTATCCTCGAAGAGTACGATGTACTCC
* * * * * *
4071179 TCTTTCCTTTATCCTCAAGGAGCAGAG-CCCATTTCATTCT
1 TTTTTCCTTTATCCTC---GA--AGAGTACGATGT-ACTCC
* *
4071219 TTTTTCCTTTATCCTCGAGGAGTAGGATGTACTCC
1 TTTTTCCTTTATCCTCGAAGAGTACGATGTACTCC
* * * * *
4071254 TTTTTCCTTTGTCCTCAAAGAGCATGGCGCATTTTATTTCC
1 TTTTTCCTTTATCCTCGAAGAG--T-ACG-A-TGTA-CTCC
* * *
4071295 TTTTTTCCTTTATCCTCAAAAAGTAAGATGTACTCC
1 -TTTTTCCTTTATCCTCGAAGAGTACGATGTACTCC
* * * * *
4071331 TTTTTCCTTTGTCCT-TAAGGAGTAGGACCCAT-TTCATTC
1 TTTTTCCTTTATCCTCGAA-GAGT---A-CGATGTAC-TCC
* * *
4071370 TCTTTTCCTTTGTCCTCGAAGAGTAGGATGTACTCT
1 T-TTTTCCTTTATCCTCGAAGAGTACGATGTACTCC
*
4071406 TTTTTCCTTTGTCCT
1 TTTTTCCTTTATCCT
4071421 TAAAGAGAGG
Statistics
Matches: 178, Mismatches: 41, Indels: 46
0.67 0.15 0.17
Matches are distributed among these distances:
34 2 0.01
35 70 0.39
36 10 0.06
37 9 0.05
38 7 0.04
39 11 0.06
40 44 0.25
41 5 0.03
42 20 0.11
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.43
Consensus pattern (35 bp):
TTTTTCCTTTATCCTCGAAGAGTACGATGTACTCC
Found at i:4071242 original size:75 final size:74
Alignment explanation
Indices: 4071143--4071505 Score: 395
Period size: 75 Copynumber: 4.8 Consensus size: 74
4071133 TTTTATTTCT
* * * *
4071143 TTTTTTCCTTTGTCCTCGAAGAGTACGATGTACTCCTCTTTCCTTTATCCTCAAGGAGCAGAGCC
1 TTTTTTCCTTTATCCTCGAAGAGTAGGATGTACTCCTTTTTCCTTTGTCCTCAAGGAGCAG-GCC
4071208 CATTTCATTC
65 CATTTCATTC
* * *
4071218 TTTTTTCCTTTATCCTCGAGGAGTAGGATGTACTCCTTTTTCCTTTGTCCTCAAAGAGCATGGCG
1 TTTTTTCCTTTATCCTCGAAGAGTAGGATGTACTCCTTTTTCCTTTGTCCTCAAGGAGCA-GGCC
*
4071283 CATTTTATTTCC
65 CATTTCA-TT-C
* * * * *
4071295 TTTTTTCCTTTATCCTCAAAAAGTAAGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGTAGGACC
1 TTTTTTCCTTTATCCTCGAAGAGTAGGATGTACTCCTTTTTCCTTTGTCCTCAAGGAGCAGG-CC
4071360 CATTTCATTC
65 CATTTCATTC
* * * * * *
4071370 TCTTTTCCTTTGTCCTCGAAGAGTAGGATGTACTCTTTTTTCCTTTGTCCTTAAAGAG-AGGACG
1 TTTTTTCCTTTATCCTCGAAGAGTAGGATGTACTCCTTTTTCCTTTGTCCTCAAGGAGCAGG-CC
**
4071434 CATTTTGTTTCC
65 CA-TTTCATT-C
* * * * * * *
4071446 TTTTTTCCATTGTCCTCAAAGAGCAGGATGTACTCTTTTTTCCTTTCTCTTCAAGGAGCA
1 TTTTTTCCTTTATCCTCGAAGAGTAGGATGTACTCCTTTTTCCTTTGTCCTCAAGGAGCA
4071506 AGACCCATGA
Statistics
Matches: 246, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
74 7 0.03
75 119 0.48
76 58 0.24
77 62 0.25
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (74 bp):
TTTTTTCCTTTATCCTCGAAGAGTAGGATGTACTCCTTTTTCCTTTGTCCTCAAGGAGCAGGCCC
ATTTCATTC
Found at i:4071299 original size:152 final size:152
Alignment explanation
Indices: 4071103--4071513 Score: 533
Period size: 152 Copynumber: 2.7 Consensus size: 152
4071093 AATTTCCTTC
* * * ** * *
4071103 TTTTCCTTTGTCTTTAATGAGCAGGACATATTTTATTTCTTTTTTTCCTTTGTCCTCGAAGAGTA
1 TTTTCCTTTGTCCTCAAAGAG-AGGACGCATTTTATTTCCTTTTTTCCTTTGTCCTCAAAGAGTA
* * *
4071168 CGATGTACTCCTCTTTCCTTTATCCTCAAGGAGCAGAG-CCCATTTCATTCTTTTTTCCTTTATC
65 AGATGTACTCCTTTTTCCTTTATCCTCAAGGAGCAGAGACCCATTTCATTCTCTTTTCCTTTATC
*
4071232 CTCGAGGAGTAGGATGTACTCCT
130 CTCGAAGAGTAGGATGTACTCCT
* *
4071255 TTTTCCTTTGTCCTCAAAGAGCATGG-CGCATTTTATTTCCTTTTTTCCTTTATCCTCAAAAAGT
1 TTTTCCTTTGTCCTCAAAGAG-A-GGACGCATTTTATTTCCTTTTTTCCTTTGTCCTCAAAGAGT
* * * *
4071319 AAGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGTAG-GACCCATTTCATTCTCTTTTCCTTTGT
64 AAGATGTACTCCTTTTTCCTTTATCCTCAAGGAGCAGAGACCCATTTCATTCTCTTTTCCTTTAT
*
4071383 CCTCGAAGAGTAGGATGTACTCTT
129 CCTCGAAGAGTAGGATGTACTCCT
* * * * *
4071407 TTTTCCTTTGTCCTTAAAGAGAGGACGCATTTTGTTTCCTTTTTTCCATTGTCCTCAAAGAGCAG
1 TTTTCCTTTGTCCTCAAAGAGAGGACGCATTTTATTTCCTTTTTTCCTTTGTCCTCAAAGAGTAA
* * *
4071472 GATGTACTCTTTTTTCCTTTCTCTTCAAGGAGCA-AGACCCAT
66 GATGTACTCCTTTTTCCTTTATCCTCAAGGAGCAGAGACCCAT
4071514 GAGGAAAAAC
Statistics
Matches: 225, Mismatches: 30, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
150 2 0.01
151 72 0.32
152 149 0.66
153 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (152 bp):
TTTTCCTTTGTCCTCAAAGAGAGGACGCATTTTATTTCCTTTTTTCCTTTGTCCTCAAAGAGTAA
GATGTACTCCTTTTTCCTTTATCCTCAAGGAGCAGAGACCCATTTCATTCTCTTTTCCTTTATCC
TCGAAGAGTAGGATGTACTCCT
Found at i:4071427 original size:35 final size:35
Alignment explanation
Indices: 4071294--4071491 Score: 139
Period size: 35 Copynumber: 5.3 Consensus size: 35
4071284 ATTTTATTTC
* * *
4071294 CTTTTTTCCTTTATCCTCAAAAAGTAAGATGTACT
1 CTTTTTTCCTTTGTCCTCAAAGAGTAGGATGTACT
* * * * *
4071329 CCTTTTTCCTTTGTCCTTAAGGAGTAGGACCCATTTCATT
1 CTTTTTTCCTTTGTCCTCAAAGAGTAGG----ATGT-ACT
* *
4071369 CTCTTTTCCTTTGTCCTCGAAGAGTAGGATGTACT
1 CTTTTTTCCTTTGTCCTCAAAGAGTAGGATGTACT
* *
4071404 CTTTTTTCCTTTGTCCTTAAAGAG-AGGACGCATTTTGT-TT
1 CTTTTTTCCTTTGTCCTCAAAGAGTA-G--G-A---TGTACT
* *
4071444 CCTTTTTTCCATTGTCCTCAAAGAGCAGGATGTACT
1 -CTTTTTTCCTTTGTCCTCAAAGAGTAGGATGTACT
4071480 CTTTTTTCCTTT
1 CTTTTTTCCTTT
4071492 CTCTTCAAGG
Statistics
Matches: 125, Mismatches: 23, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
34 1 0.01
35 60 0.48
36 4 0.03
37 1 0.01
38 2 0.02
39 4 0.03
40 26 0.21
41 26 0.21
42 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (35 bp):
CTTTTTTCCTTTGTCCTCAAAGAGTAGGATGTACT
Found at i:4074866 original size:1 final size:1
Alignment explanation
Indices: 4074862--4074914 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
4074852 CTTTTTACTT
* * * * * *
4074862 AAAAAAATAAAAAACAAAAAAACAAAAAATAAAAAAACAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4074915 GAGAAAAGAA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.06, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:4074913 original size:15 final size:15
Alignment explanation
Indices: 4074862--4074905 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
4074852 CTTTTTACTT
*
4074862 AAAAAAATAAAAAAC
1 AAAAAAACAAAAAAC
*
4074877 AAAAAAACAAAAAAT
1 AAAAAAACAAAAAAC
4074892 AAAAAAACAAAAAA
1 AAAAAAACAAAAAA
4074906 AAAGAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.89, C:0.07, G:0.00, T:0.05
Consensus pattern (15 bp):
AAAAAAACAAAAAAC
Found at i:4074914 original size:8 final size:8
Alignment explanation
Indices: 4074870--4074906 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
4074860 TTAAAAAAAT
4074870 AAAAAACA
1 AAAAAACA
4074878 AAAAAAC-
1 AAAAAACA
*
4074885 AAAAAATA
1 AAAAAACA
4074893 AAAAAACA
1 AAAAAACA
4074901 AAAAAA
1 AAAAAA
4074907 AAGAAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAAAACA
Found at i:4074921 original size:18 final size:18
Alignment explanation
Indices: 4074862--4074929 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
4074852 CTTTTTACTT
*
4074862 AAAAAAATAA-AAAACAAAA
1 AAAAAAA-AAGAAAA-AAAC
*
4074881 AAACAAAAAATAAAAAAAC
1 AAA-AAAAAAGAAAAAAAC
* *
4074900 AAAAAAAAAGAAAAAGAG
1 AAAAAAAAAGAAAAAAAC
*
4074918 AAAAGAAAAGAA
1 AAAAAAAAAGAA
4074930 CCTGCTTAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
18 23 0.55
19 11 0.26
20 8 0.19
ACGTcount: A:0.85, C:0.04, G:0.07, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAC
Found at i:4074921 original size:23 final size:23
Alignment explanation
Indices: 4074863--4074906 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4074853 TTTTTACTTA
4074863 AAAAAAT-AAAAAACAAAAAAAC
1 AAAAAATAAAAAAACAAAAAAAC
4074885 AAAAAATAAAAAAACAAAAAAA
1 AAAAAATAAAAAAACAAAAAAA
4074907 AAGAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.89, C:0.07, G:0.00, T:0.05
Consensus pattern (23 bp):
AAAAAATAAAAAAACAAAAAAAC
Found at i:4076038 original size:59 final size:60
Alignment explanation
Indices: 4075869--4076248 Score: 457
Period size: 61 Copynumber: 6.3 Consensus size: 60
4075859 TTATCCTTTC
* *
4075869 AGTCCTCAAAGAGCAGGAC-ACTTTCCTTTCAAAGCTCACACAAGTTAGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
4075928 AGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTT-T
1 AGTCCTCAAAGAGCAGGACG-ACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
*
4075988 CAGTCCTCAAAGAGCAGGA-GACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
1 -AGTCCTCAAAGAGCAGGACGACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * ** * *
4076048 AGTCCTCAAAGAGTAGGACGCCTTTTCCTCTT-AAAGCCCACACAAGTTGGCAGCACTTTCC
1 AGTCCTCAAAGAGCAGGACGAC-TTTCCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
4076109 AGTCCTCAAAGAGCAGGACG-CTTTCCTTTCAAAGCCCACCCAAGTTGGTGGTATCTTCT
1 AGTCCTCAAAGAGCAGGACGACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * * *
4076168 AGTCCTCAATGAGCATGAC-ACTTTCTCCTTGCAAAGCCTATATAAGTTGGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGAC-TT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* *
4076229 AGTCCCCAAAGAGAAGGACG
1 AGTCCTCAAAGAGCAGGACG
4076249 TATTTAATTT
Statistics
Matches: 275, Mismatches: 34, Indels: 21
0.83 0.10 0.06
Matches are distributed among these distances:
58 2 0.01
59 118 0.43
60 8 0.03
61 145 0.53
62 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACGACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
Found at i:4076076 original size:120 final size:120
Alignment explanation
Indices: 4075863--4076246 Score: 506
Period size: 120 Copynumber: 3.2 Consensus size: 120
4075853 AATCTTTTAT
* * *
4075863 CCTTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCTCACACAAGTTAGTGGCACCTTCT
1 CCTTTCAGTCCTCAAAGAGCAGGAGACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
*
4075928 AGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
66 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
*
4075983 CCTTTCAGTCCTCAAAGAGCAGGAGACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
1 CCTTTCAGTCCTCAAAGAGCAGGAGACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * **
4076048 AGTCCTCAAAGAGTAGGACGCCTTTTCCTCTTAAAGCCCACACAAGTTGGCAGCA
66 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
* * *
4076103 -CTTTCCAGTCCTCAAAGAGCAGGACG-CTTTCCTTTCAAAGCCCACCCAAGTTGGTGGTATCTT
1 CCTTT-CAGTCCTCAAAGAGCAGGA-GACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * ** * *
4076166 CTAGTCCTCAATGAGCATGAC-ACTTTCTCCTTGCAAAGCCTATATAAGTTGGTGGCA
64 CTAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCTACACAAGTTGGTGGCA
* *
4076223 CC-TTCTAGTCCCCAAAGAGAAGGA
1 CCTTTC-AGTCCTCAAAGAGCAGGA
4076247 CGTATTTAAT
Statistics
Matches: 231, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
119 9 0.04
120 220 0.95
121 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (120 bp):
CCTTTCAGTCCTCAAAGAGCAGGAGACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
Found at i:4076302 original size:43 final size:42
Alignment explanation
Indices: 4076236--4076331 Score: 138
Period size: 43 Copynumber: 2.3 Consensus size: 42
4076226 TCTAGTCCCC
*
4076236 AAAGAGAAGGACGTATTTAATTTCCTTCTTTTCCTTTGTCTTT
1 AAAGAGAAGGACGTATTTAATTTCCTT-TTTTCCTTTGTCCTT
* *
4076279 AAAGAGCAGGACGTATTTTATTTCCTTTTTTCCTTTGTCCTT
1 AAAGAGAAGGACGTATTTAATTTCCTTTTTTCCTTTGTCCTT
* *
4076321 GAAGAGTAGGA
1 AAAGAGAAGGA
4076332 TGTACTCCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 23 0.48
43 25 0.52
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.43
Consensus pattern (42 bp):
AAAGAGAAGGACGTATTTAATTTCCTTTTTTCCTTTGTCCTT
Found at i:4076326 original size:42 final size:40
Alignment explanation
Indices: 4076236--4076546 Score: 145
Period size: 35 Copynumber: 8.0 Consensus size: 40
4076226 TCTAGTCCCC
* * *
4076236 AAAGAGAAGGACGTATTTAATTTCCTTCTTTTCCTTTGTCTTT
1 AAAGAGCAGGACG-ATTTTA-TTCCTT-TTTTCCTTTGTCCTT
4076279 AAAGAGCAGGACGTATTTTATTTCCTTTTTTCCTTTGTCCTT
1 AAAGAGCAGGACG-ATTTTA-TTCCTTTTTTCCTTTGTCCTT
* * * *
4076321 GAAGAGTA-G--GA-TGTACTCC-TTTTTCCTTTGTCCTT
1 AAAGAGCAGGACGATTTTATTCCTTTTTTCCTTTGTCCTT
* * * * * *
4076356 AAGGAGCAGGACCCATTTCATT-CTCTTTTCCATTGTCCTC
1 AAAGAGCAGGA-CGATTTTATTCCTTTTTTCCTTTGTCCTT
* * *
4076396 GAAGAGCAGGACG----TACTCC-TTTTTCCTTTGTCCTC
1 AAAGAGCAGGACGATTTTATTCCTTTTTTCCTTTGTCCTT
* * * * *
4076431 AAAGAGCATGATGCATTTTATTTCCTTTTTTCTTTTATCCTCG
1 AAAGAGCAGGACG-ATTTTA-TTCCTTTTTTCCTTTGTCCT-T
* * *
4076474 AAA-AGTA--A-GA-TGTACTCC-TTTTTCCTTTGTCCTT
1 AAAGAGCAGGACGATTTTATTCCTTTTTTCCTTTGTCCTT
* * * * *
4076508 AAGGAGTAGGACCCATTTCATT-CTCTTTTCCTTTGTCCT
1 AAAGAGCAGGA-CGATTTTATTCCTTTTTTCCTTTGTCCT
4076547 CGAAGAGTAA
Statistics
Matches: 203, Mismatches: 43, Indels: 47
0.69 0.15 0.16
Matches are distributed among these distances:
34 2 0.01
35 64 0.32
36 8 0.04
37 7 0.03
38 2 0.01
39 7 0.03
40 45 0.22
41 4 0.02
42 36 0.18
43 28 0.14
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (40 bp):
AAAGAGCAGGACGATTTTATTCCTTTTTTCCTTTGTCCTT
Found at i:4076348 original size:35 final size:35
Alignment explanation
Indices: 4076305--4076617 Score: 166
Period size: 35 Copynumber: 8.5 Consensus size: 35
4076295 TTTATTTCCT
*
4076305 TTTTTCCTTTGTCCTTGAAGAGTAGGATGTACTCC
1 TTTTTCCTTTGTCCTCGAAGAGTAGGATGTACTCC
* * * *
4076340 TTTTTCCTTTGTCCT-TAAGGAGCAGGACCCAT-TTCATTC
1 TTTTTCCTTTGTCCTCGAA-GAGTAGG----ATGTAC-TCC
* * *
4076379 TCTTTTCCATTGTCCTCGAAGAGCAGGACGTACTCC
1 T-TTTTCCTTTGTCCTCGAAGAGTAGGATGTACTCC
* * * *
4076415 TTTTTCCTTTGTCCTCAAAGAGCATGATGCATTTTATTTCC
1 TTTTTCCTTTGTCCTCGAAGAG--T-A-GGA-TGTA-CTCC
* * * *
4076456 TTTTTTCTTTTATCCTCGAAAAGTAAGATGTACTCC
1 -TTTTTCCTTTGTCCTCGAAGAGTAGGATGTACTCC
* * *
4076492 TTTTTCCTTTGTCCT-TAAGGAGTAGGACCCAT-TTCATTC
1 TTTTTCCTTTGTCCTCGAA-GAGTAGG----ATGTAC-TCC
* * **
4076531 TCTTTTCCTTTGTCCTCGAAGAGTAAGACGTACTTA
1 T-TTTTCCTTTGTCCTCGAAGAGTAGGATGTACTCC
* * *
4076567 TTTTTCCTTTGTCCTCGAAAAGTAAGACGTACTCC
1 TTTTTCCTTTGTCCTCGAAGAGTAGGATGTACTCC
*
4076602 TTTTTCCATTGTCCTC
1 TTTTTCCTTTGTCCTC
4076618 AAACAGCAGG
Statistics
Matches: 213, Mismatches: 40, Indels: 50
0.70 0.13 0.17
Matches are distributed among these distances:
34 4 0.02
35 104 0.49
36 11 0.05
37 7 0.03
38 6 0.03
39 13 0.06
40 43 0.20
41 7 0.03
42 18 0.08
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (35 bp):
TTTTTCCTTTGTCCTCGAAGAGTAGGATGTACTCC
Found at i:4076414 original size:75 final size:77
Alignment explanation
Indices: 4076264--4076581 Score: 374
Period size: 75 Copynumber: 4.2 Consensus size: 77
4076254 AATTTCCTTC
* ** * * *
4076264 TTTTCCTTTGTCTTTAAAGAGCAGGACGTATTTTATTTCCTTTTTTCCTTTGTCCTTGAAGAGTA
1 TTTTCCTTTGTCCTTAAAGAGCAGGACCCATTTCATTTCCTCTTTTCCTTTGTCCTCGAAGAGTA
* *
4076329 GGATGTACTCCT
66 AGACGTACTCCT
* * *
4076341 TTTTCCTTTGTCCTTAAGGAGCAGGACCCATTTCA-TT-CTCTTTTCCATTGTCCTCGAAGAGCA
1 TTTTCCTTTGTCCTTAAAGAGCAGGACCCATTTCATTTCCTCTTTTCCTTTGTCCTCGAAGAGTA
*
4076404 GGACGTACTCCT
66 AGACGTACTCCT
* * ** * * * * *
4076416 TTTTCCTTTGTCCTCAAAGAGCATGATGCATTTTATTTCCTTTTTTCTTTTATCCTCGAAAAGTA
1 TTTTCCTTTGTCCTTAAAGAGCAGGACCCATTTCATTTCCTCTTTTCCTTTGTCCTCGAAGAGTA
*
4076481 AGATGTACTCCT
66 AGACGTACTCCT
* *
4076493 TTTTCCTTTGTCCTTAAGGAGTAGGACCCATTTCA-TT-CTCTTTTCCTTTGTCCTCGAAGAGTA
1 TTTTCCTTTGTCCTTAAAGAGCAGGACCCATTTCATTTCCTCTTTTCCTTTGTCCTCGAAGAGTA
**
4076556 AGACGTACTTAT
66 AGACGTACTCCT
4076568 TTTTCCTTTGTCCT
1 TTTTCCTTTGTCCT
4076582 CGAAAAGTAA
Statistics
Matches: 201, Mismatches: 38, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
75 107 0.53
76 6 0.03
77 88 0.44
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (77 bp):
TTTTCCTTTGTCCTTAAAGAGCAGGACCCATTTCATTTCCTCTTTTCCTTTGTCCTCGAAGAGTA
AGACGTACTCCT
Found at i:4076460 original size:152 final size:152
Alignment explanation
Indices: 4076264--4076582 Score: 494
Period size: 152 Copynumber: 2.1 Consensus size: 152
4076254 AATTTCCTTC
* * * * * *
4076264 TTTTCCTTTGTCTTTAAAGAGCAGGACGTATTTTATTTCCTTTTTTCCTTTGTCCTTGAAGAGTA
1 TTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTTTCCTTTATCCTCGAAAAGTA
*
4076329 GGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGCAGGACCCATTTCATTCTCTTTTCCATTGTCC
66 AGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGCAGGACCCATTTCATTCTCTTTTCCATTGTCC
* *
4076394 TCGAAGAGCAGGACGTACTCCT
131 TCGAAGAGCAAGACGTACTCAT
* * *
4076416 TTTTCCTTTGTCCTCAAAGAGCATGATGCATTTTATTTCCTTTTTTCTTTTATCCTCGAAAAGTA
1 TTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTTTCCTTTATCCTCGAAAAGTA
* *
4076481 AGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGTAGGACCCATTTCATTCTCTTTTCCTTTGTCC
66 AGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGCAGGACCCATTTCATTCTCTTTTCCATTGTCC
* *
4076546 TCGAAGAGTAAGACGTACTTAT
131 TCGAAGAGCAAGACGTACTCAT
4076568 TTTTCCTTTGTCCTC
1 TTTTCCTTTGTCCTC
4076583 GAAAAGTAAG
Statistics
Matches: 151, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
152 151 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (152 bp):
TTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTTTCCTTTATCCTCGAAAAGTA
AGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGCAGGACCCATTTCATTCTCTTTTCCATTGTCC
TCGAAGAGCAAGACGTACTCAT
Found at i:4076581 original size:187 final size:187
Alignment explanation
Indices: 4076381--4076739 Score: 504
Period size: 187 Copynumber: 1.9 Consensus size: 187
4076371 TTTCATTCTC
* * * * * *
4076381 TTTTCCATTGTCCTCGAAGAGCAGGACGTACTCCTTTTTCCTTTGTCCTCAAAGAGCATGATGCA
1 TTTTCCATTGTCCTCGAAAAGCAAGACGTACTCCTTTTTCCATTGTCCTCAAACAGCAGGACGCA
** * * * *
4076446 TTTTATTTCCTTTTTTCTTTTATCCTCGAAA-AGTAAGATGTACTCCTTTTTCCTTTGTCCTTAA
66 TTTTATTTCCTTTTTTCCATTATCCTC-AAAGAGCAAGATGTAATCCTTTTTCCTTTCTCCTCAA
* * * *
4076510 GGAGTAGGACCCATTTCATTCTCTTTTCCTTTGTCCTCGAAGAGTAAGACGTACTTAT
130 GGAGCAAGACCCATTTCATTATCTTTTCCTTTGTCCTCAAAGAGTAAGACGTACTTAT
* *
4076568 TTTTCCTTTGTCCTCGAAAAGTAAGACGTACTCCTTTTTCCATTGTCCTCAAACAGCAGGACGCA
1 TTTTCCATTGTCCTCGAAAAGCAAGACGTACTCCTTTTTCCATTGTCCTCAAACAGCAGGACGCA
* * * *
4076633 TTTTGTTTCCTTTTTTCCATTGTCCTCAAAGAGCAGGATGTAATCTTTTTTCCTTTCTCCTCAAG
66 TTTTATTTCCTTTTTTCCATTATCCTCAAAGAGCAAGATGTAATCCTTTTTCCTTTCTCCTCAAG
4076698 GAGCAAGACCCATTTCATTATCTTTTCCTTTGTCCTCAAAGA
131 GAGCAAGACCCATTTCATTATCTTTTCCTTTGTCCTCAAAGA
4076740 CCGGGACACA
Statistics
Matches: 149, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
186 3 0.02
187 146 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (187 bp):
TTTTCCATTGTCCTCGAAAAGCAAGACGTACTCCTTTTTCCATTGTCCTCAAACAGCAGGACGCA
TTTTATTTCCTTTTTTCCATTATCCTCAAAGAGCAAGATGTAATCCTTTTTCCTTTCTCCTCAAG
GAGCAAGACCCATTTCATTATCTTTTCCTTTGTCCTCAAAGAGTAAGACGTACTTAT
Found at i:4076646 original size:110 final size:111
Alignment explanation
Indices: 4076457--4076665 Score: 269
Period size: 110 Copynumber: 1.9 Consensus size: 111
4076447 TTTATTTCCT
* * * * ** *
4076457 TTTTTCTTTTATCCTCGAAAAGTAAGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGTAGGACCC
1 TTTTTCCTTTATCCTCGAAAAGTAAGACGTACTCCTTTTTCCATTGTCCTCAAACAGCAGGACCC
* *
4076522 ATTTCATTCTC-TTTTCCTTTGTCCTCGAAGAGTAAGACGTACTTA
66 ATTTCATTCTCTTTTTCCATTGTCCTCAAAGAGTAAGACGTACTTA
* *
4076567 TTTTTCCTTTGTCCTCGAAAAGTAAGACGTACTCCTTTTTCCATTGTCCTCAAACAGCAGGACGC
1 TTTTTCCTTTATCCTCGAAAAGTAAGACGTACTCCTTTTTCCATTGTCCTCAAACAGCAGGACCC
**
4076632 ATTTTGTT-TCCTTTTTTCCATTGTCCTCAAAGAG
66 ATTTCATTCT-C-TTTTTCCATTGTCCTCAAAGAG
4076666 CAGGATGTAA
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
109 1 0.01
110 63 0.76
112 19 0.23
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (111 bp):
TTTTTCCTTTATCCTCGAAAAGTAAGACGTACTCCTTTTTCCATTGTCCTCAAACAGCAGGACCC
ATTTCATTCTCTTTTTCCATTGTCCTCAAAGAGTAAGACGTACTTA
Found at i:4076658 original size:152 final size:151
Alignment explanation
Indices: 4076301--4076625 Score: 387
Period size: 152 Copynumber: 2.2 Consensus size: 151
4076291 GTATTTTATT
* * * * * *
4076301 TCCTTTTTTCCTTTGTCCTTGAAGAGTAGGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGCAGG
1 TCCTTTTTTCCATTATCCTCGAAAAGCAAGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGCAGG
* *
4076366 ACCCATTTCATTCTCTTTTCCATTGTCCTCGAAGAGCAGGACGTACTCCTTTTTCCTTTGTCCTC
66 ACCCATTTCATTCTCTTTTCCATTGTCCTCGAAGAGCAAGACGTACTCATTTTTCCTTTGTCCTC
* ** *
4076431 AAAGAGCATGATGCATTTTATT
131 AAAGAG-ATGAAGCATCGTATC
** * *
4076453 TCCTTTTTTCTTTTATCCTCGAAAAGTAAGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGTAGG
1 TCCTTTTTTCCATTATCCTCGAAAAGCAAGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGCAGG
* * *
4076518 ACCCATTTCATTCTCTTTTCCTTTGTCCTCGAAGAGTAAGACGTACTTATTTTTCCTTTGTCCTC
66 ACCCATTTCATTCTCTTTTCCATTGTCCTCGAAGAGCAAGACGTACTCATTTTTCCTTTGTCCTC
4076583 GAAA-AG-T-AAG-A-CGTA-C
131 -AAAGAGATGAAGCATCGTATC
*
4076599 TCC-TTTTTCCATTGTCCTC-AAACAGCA
1 TCCTTTTTTCCATTATCCTCGAAA-AGCA
4076626 GGACGCATTT
Statistics
Matches: 152, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
144 3 0.02
145 16 0.11
146 3 0.02
147 2 0.01
148 1 0.01
149 2 0.01
150 1 0.01
152 121 0.80
153 3 0.02
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (151 bp):
TCCTTTTTTCCATTATCCTCGAAAAGCAAGATGTACTCCTTTTTCCTTTGTCCTTAAGGAGCAGG
ACCCATTTCATTCTCTTTTCCATTGTCCTCGAAGAGCAAGACGTACTCATTTTTCCTTTGTCCTC
AAAGAGATGAAGCATCGTATC
Found at i:4076694 original size:77 final size:77
Alignment explanation
Indices: 4076567--4076891 Score: 268
Period size: 77 Copynumber: 4.2 Consensus size: 77
4076557 GACGTACTTA
* * * * * * * * * *
4076567 TTTTTCCTTTGTCCTCGAAA-AGTAAGACGTACTCCTTTTTCCATTGTCCTCAAACAGCAGGACG
1 TTTTTCCTTTGTCCTC-AAAGAGCAGGATGTAATCTTTTTTCCTTTATCCTCAAAGAGCAAGACC
*
4076631 CATTTTGTTTCCT
65 CATTTTATTTCCT
* * *
4076644 TTTTTCCATTGTCCTCAAAGAGCAGGATGTAATCTTTTTTCCTTTCTCCTCAAGGAGCAAGACCC
1 TTTTTCCTTTGTCCTCAAAGAGCAGGATGTAATCTTTTTTCCTTTATCCTCAAAGAGCAAGACCC
*
4076709 ATTTCATTAT-C-
66 ATTTTATT-TCCT
* * *
4076720 -TTTTCCTTTGTCCTCAAAGACCGGGACACATTTAATTTCCTTATTTTCCTTTATCCTCAAAGAG
1 TTTTTCCTTTGTCCTCAAAGAGCAGG----ATGTAA--T-CTT-TTTTCCTTTATCCTCAAAGAG
* *
4076784 TAAGACACATTTTATTTCCT
58 CAAGACCCATTTTATTTCCT
* * * *
4076804 TTTTTCCTTTGTCCTCAAAGAGCAGGATATACT-TCTTTTTCCTTTATCCTCAAGGAGCAGGACC
1 TTTTTCCTTTGTCCTCAAAGAGCAGGATGTAATCT-TTTTTCCTTTATCCTCAAAGAGCAAGACC
*
4076868 CATTTCA-TT-CT
65 CATTTTATTTCCT
*
4076879 CTTTTCCTTTGTC
1 TTTTTCCTTTGTC
4076892 TTTGAAGAGT
Statistics
Matches: 201, Mismatches: 33, Indels: 30
0.76 0.12 0.11
Matches are distributed among these distances:
75 36 0.18
76 5 0.02
77 87 0.43
78 2 0.01
79 6 0.03
81 5 0.02
82 4 0.02
83 33 0.16
85 23 0.11
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (77 bp):
TTTTTCCTTTGTCCTCAAAGAGCAGGATGTAATCTTTTTTCCTTTATCCTCAAAGAGCAAGACCC
ATTTTATTTCCT
Done.