Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1625
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: 82356
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:251 original size:18 final size:20
Alignment explanation
Indices: 228--264 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
218 CTTTAAACAC
228 ATTATTT-A-AAAATAAAAA
1 ATTATTTAATAAAATAAAAA
246 ATTATTTAATAAAATAAAA
1 ATTATTTAATAAAATAAAA
265 TTCCTCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTATTTAATAAAATAAAAA
Found at i:6328 original size:19 final size:19
Alignment explanation
Indices: 6304--6343 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
6294 TGTACGTGAT
6304 AAAGAGGTTGGCTAAAAAA
1 AAAGAGGTTGGCTAAAAAA
6323 AAAGAGGTTGGCTAAAAAA
1 AAAGAGGTTGGCTAAAAAA
6342 AA
1 AA
6344 GTATGTCAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.25, T:0.15
Consensus pattern (19 bp):
AAAGAGGTTGGCTAAAAAA
Found at i:7528 original size:35 final size:35
Alignment explanation
Indices: 7482--7548 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
7472 AGCTTAAGAT
7482 TACAATCCCCAACAATTCATTTAAATAAAACCTTA
1 TACAATCCCCAACAATTCATTTAAATAAAACCTTA
* * *
7517 TACAATTCCCAATACTTCATTTAAATAAAACC
1 TACAATCCCCAACAATTCATTTAAATAAAACC
7549 CTACTTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (35 bp):
TACAATCCCCAACAATTCATTTAAATAAAACCTTA
Found at i:12124 original size:93 final size:93
Alignment explanation
Indices: 11965--12142 Score: 347
Period size: 93 Copynumber: 1.9 Consensus size: 93
11955 TGATCTAAGC
11965 ACTAGGATGCTAAATTGAGACTAAAAACCTAAAAATAAAATTGATAAGAAAAAAATGAGCCTATC
1 ACTAGGATGCTAAATTGAGACTAAAAACCTAAAAATAAAATTGATAAGAAAAAAATGAGCCTATC
12030 CTAATACTCACCCTCGACATGAAAACAG
66 CTAATACTCACCCTCGACATGAAAACAG
*
12058 ACTAGGATGCTAAATTGAGACTAAAGACCTAAAAATAAAATTGATAAGAAAAAAATGAGCCTATC
1 ACTAGGATGCTAAATTGAGACTAAAAACCTAAAAATAAAATTGATAAGAAAAAAATGAGCCTATC
12123 CTAATACTCACCCTCGACAT
66 CTAATACTCACCCTCGACAT
12143 TAAAGCGGAC
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 84 1.00
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (93 bp):
ACTAGGATGCTAAATTGAGACTAAAAACCTAAAAATAAAATTGATAAGAAAAAAATGAGCCTATC
CTAATACTCACCCTCGACATGAAAACAG
Found at i:13227 original size:30 final size:30
Alignment explanation
Indices: 13171--13227 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
13161 AAATCAAAAG
**
13171 TTTTCATAATTTGCAATTTGGTCCCTATAC
1 TTTTCATAATTTGCAATTTGACCCCTATAC
*
13201 TTTTCA-ATATTTGCATTTTGACCCCTA
1 TTTTCATA-ATTTGCAATTTGACCCCTA
13228 ATCTATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.04
30 22 0.96
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (30 bp):
TTTTCATAATTTGCAATTTGACCCCTATAC
Found at i:13730 original size:34 final size:34
Alignment explanation
Indices: 13663--13737 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
13653 TTCCTACTGA
* * *
13663 TGGTTGCTGTTTGTGTTTCTTCAATTACTGTTGG
1 TGGTTGCTGTTTGCGTTACTTCAATTACGGTTGG
*
13697 TGGTTGCTGTTTGCGTTACTTC-ATCTGCGGTTGG
1 TGGTTGCTGTTTGCGTTACTTCAAT-TACGGTTGG
13731 T-GTTGCT
1 TGGTTGCT
13738 TGCTGCTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 8 0.22
34 28 0.78
ACGTcount: A:0.07, C:0.15, G:0.29, T:0.49
Consensus pattern (34 bp):
TGGTTGCTGTTTGCGTTACTTCAATTACGGTTGG
Found at i:14233 original size:23 final size:23
Alignment explanation
Indices: 14205--14253 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
14195 TATTTTAATC
14205 TTTTGAGCTGCTGTCCATCCTCT
1 TTTTGAGCTGCTGTCCATCCTCT
* *
14228 TTTTGAGCTGCTGTTCATTCTCT
1 TTTTGAGCTGCTGTCCATCCTCT
14251 TTT
1 TTT
14254 ATATTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.08, C:0.24, G:0.16, T:0.51
Consensus pattern (23 bp):
TTTTGAGCTGCTGTCCATCCTCT
Found at i:26131 original size:12 final size:12
Alignment explanation
Indices: 26082--26135 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
26072 ATTGTCTTCC
26082 TTGCTTGCTGTT
1 TTGCTTGCTGTT
* *
26094 TTGC-TGGTATT
1 TTGCTTGCTGTT
*
26105 TTGGTTGCTGTTT
1 TTGCTTGCTG-TT
*
26118 TTGCTTGTTGTT
1 TTGCTTGCTGTT
26130 TTGCTT
1 TTGCTT
26136 TGATTGCTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
11 8 0.24
12 15 0.45
13 10 0.30
ACGTcount: A:0.02, C:0.11, G:0.26, T:0.61
Consensus pattern (12 bp):
TTGCTTGCTGTT
Found at i:27017 original size:19 final size:19
Alignment explanation
Indices: 26995--27035 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
26985 GCTTTAATGC
26995 ATGAAA-GCAATGCAATGAA
1 ATGAAATGCAATGC-ATGAA
27014 ATGAAATGCAATGCATGAA
1 ATGAAATGCAATGCATGAA
27033 ATG
1 ATG
27036 TTTTTGTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.49, C:0.10, G:0.22, T:0.20
Consensus pattern (19 bp):
ATGAAATGCAATGCATGAA
Found at i:27226 original size:43 final size:41
Alignment explanation
Indices: 27144--27226 Score: 103
Period size: 43 Copynumber: 2.0 Consensus size: 41
27134 CCAATTTCAT
* * * *
27144 GCATGAATGCATGCATTGCCACCTAATTGATTTAAGTGGCA
1 GCATGAATGCATGCAATGCCACCTAAATCAATTAAGTGGCA
*
27185 GCATGTAATGCAATGCAATGCCACCTAAATCAATTAGGTGGC
1 GCATG-AATGC-ATGCAATGCCACCTAAATCAATTAAGTGGC
27227 TAAAATGTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 5 0.14
42 5 0.14
43 25 0.71
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (41 bp):
GCATGAATGCATGCAATGCCACCTAAATCAATTAAGTGGCA
Found at i:30731 original size:20 final size:20
Alignment explanation
Indices: 30661--30741 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
30651 TCCAAAAACC
* * *
30661 AGAATGCATTGATACA-ATG
1 AGAATGTATTGATACATTTA
*
30680 AGAAATGTATTGATAAAATTGTA
1 AG-AATGTATTGAT-ACATT-TA
*
30703 AGCATGTATTGATACATTTA
1 AGAATGTATTGATACATTTA
* *
30723 ATAATGTATCGATACATTT
1 AGAATGTATTGATACATTT
30742 TCTTAGCAGT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.04
20 28 0.57
21 6 0.12
22 10 0.20
23 3 0.06
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (20 bp):
AGAATGTATTGATACATTTA
Found at i:35918 original size:34 final size:34
Alignment explanation
Indices: 35845--35912 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 34
35835 CTGATGTTTG
35845 TGAAAGAATAAGCACAAAGGAATAAAAATGAGCTT
1 TGAAAGAATAAGCACAAAGGAATAAAAA-GAGCTT
*
35880 TGAAAGAATAA-CAACAAA-GAATACAAA-AGCTT
1 TGAAAGAATAAGC-ACAAAGGAATAAAAAGAGCTT
35912 T
1 T
35913 TTGAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 6 0.19
34 9 0.29
35 16 0.52
ACGTcount: A:0.56, C:0.10, G:0.16, T:0.18
Consensus pattern (34 bp):
TGAAAGAATAAGCACAAAGGAATAAAAAGAGCTT
Found at i:36275 original size:20 final size:18
Alignment explanation
Indices: 36223--36275 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
36213 GTAGCTACTT
* *
36223 GAAATGTATCGACACTAT
1 GAAATGTATCGATACTAA
* *
36241 GAAATATATCAATACTAA
1 GAAATGTATCGATACTAA
36259 GCAATATGTATCGATAC
1 G-AA-ATGTATCGATAC
36276 ATCTGGGTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 15 0.56
19 2 0.07
20 10 0.37
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (18 bp):
GAAATGTATCGATACTAA
Found at i:37222 original size:19 final size:19
Alignment explanation
Indices: 37178--37233 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
37168 CTGCCAGTTT
**
37178 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
37198 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
37217 CATGTATCGATACAATG
1 CATGTATCGATACAATG
37234 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:37236 original size:13 final size:13
Alignment explanation
Indices: 37218--37244 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37208 TACAATGAAC
37218 ATGTATCGATACA
1 ATGTATCGATACA
37231 ATGTATCGATACA
1 ATGTATCGATACA
37244 A
1 A
37245 AGCATAATAT
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:37880 original size:16 final size:16
Alignment explanation
Indices: 37859--37890 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37849 CTTAATCAAA
*
37859 GCAAAAAATTTATTTT
1 GCAAAAAAATTATTTT
37875 GCAAAAAAATTATTTT
1 GCAAAAAAATTATTTT
37891 CAATAAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
GCAAAAAAATTATTTT
Found at i:39167 original size:19 final size:20
Alignment explanation
Indices: 39123--39176 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
39113 CTACCAGTTT
* **
39123 CATGCATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
39143 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
39162 CATGTATCGATACAA
1 CATGTATCGATACAA
39177 AGCATAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:40005 original size:31 final size:33
Alignment explanation
Indices: 39970--40034 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
39960 CAAGTGAAAC
* *
39970 ATGAATCAATAAAC-A-TATTGATGTAGAAAAT
1 ATGAATCAATAAACAAGAATTCATGTAGAAAAT
*
40001 ATGAATTAATAAACAAGAATTCATGTAGAAAAT
1 ATGAATCAATAAACAAGAATTCATGTAGAAAAT
40034 A
1 A
40035 CATTGCATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.45
32 1 0.03
33 15 0.52
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (33 bp):
ATGAATCAATAAACAAGAATTCATGTAGAAAAT
Found at i:41647 original size:31 final size:33
Alignment explanation
Indices: 41572--41648 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 33
41562 TTGAAAGACA
** *
41572 AATTTGATAGAATAAAAGAAGTTTTTGTTGATG
1 AATTTGATAGAATAAAAGAAGGATTTGGTGATG
* *
41605 ATTTTGGTAG-A-AAAAGAAAGGATTTGGTG-TG
1 AATTTGATAGAATAAAAG-AAGGATTTGGTGATG
41636 AATTTGATAGAAT
1 AATTTGATAGAAT
41649 TAGGCTTTGA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
31 15 0.44
32 11 0.32
33 8 0.24
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (33 bp):
AATTTGATAGAATAAAAGAAGGATTTGGTGATG
Found at i:46901 original size:8 final size:8
Alignment explanation
Indices: 46880--46939 Score: 54
Period size: 7 Copynumber: 7.8 Consensus size: 8
46870 ATATAATAAT
46880 AAAAATCA
1 AAAAATCA
* *
46888 AGAAATAA
1 AAAAATCA
46896 AAAAATTCA
1 AAAAA-TCA
46905 AAAAA-CA
1 AAAAATCA
* *
46912 TAAAGT-A
1 AAAAATCA
46919 AAAAATCA
1 AAAAATCA
46927 AAAAAT-A
1 AAAAATCA
46934 AAAAAT
1 AAAAAT
46940 GGCCAATTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
7 17 0.41
8 17 0.41
9 7 0.17
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (8 bp):
AAAAATCA
Found at i:46915 original size:33 final size:33
Alignment explanation
Indices: 46813--46898 Score: 129
Period size: 33 Copynumber: 2.6 Consensus size: 33
46803 AAAAATAAAA
*
46813 AAAAATTAA-AAATAATAATATTCAATATAATAAT
1 AAAAATCAAGAAATAA-AA-ATTCAATATAATAAT
*
46847 AAAAATCAAGAAATAAGAATTCAATATAATAAT
1 AAAAATCAAGAAATAAAAATTCAATATAATAAT
46880 AAAAATCAAGAAATAAAAA
1 AAAAATCAAGAAATAAAAA
46899 AATTCAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 33 0.69
34 9 0.19
35 6 0.12
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.24
Consensus pattern (33 bp):
AAAAATCAAGAAATAAAAATTCAATATAATAAT
Found at i:46935 original size:15 final size:16
Alignment explanation
Indices: 46880--46939 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 16
46870 ATATAATAAT
* *
46880 AAAAATCAAGAAATAA
1 AAAAATCAAAAAATCA
46896 AAAAATTCAAAAAA-CA
1 AAAAA-TCAAAAAATCA
* *
46912 TAAAGT-AAAAAATCA
1 AAAAATCAAAAAATCA
46927 AAAAAT-AAAAAAT
1 AAAAATCAAAAAAT
46940 GGCCAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
14 6 0.17
15 14 0.39
16 9 0.25
17 7 0.19
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAAATCAAAAAATCA
Found at i:47955 original size:9 final size:9
Alignment explanation
Indices: 47941--47969 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
47931 AGTGCAAAGC
47941 AAAAAAATA
1 AAAAAAATA
47950 AAAAAAAT-
1 AAAAAAATA
47958 AAAAAAATA
1 AAAAAAATA
47967 AAA
1 AAA
47970 TGAAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:56680 original size:52 final size:50
Alignment explanation
Indices: 56601--57505 Score: 630
Period size: 52 Copynumber: 18.8 Consensus size: 50
56591 AAAAGGATGT
* ** * * * *
56601 CAATGTGCTGATTCACGATCAGTGACATTAGACTTGAAGATGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-GAAG-GTGC
* ** **
56653 CAATGTGCTGATTCAAGGCCAACGACATTTGGTTTTAAAGATGACGAAGACGC
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGATG--GAAGGTGC
* * *
56706 CAATATGCTGATTCAAGGCCAGCGATATTGTACTTAAAGAT-GAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * *
56755 CAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGAT--CATGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * * *
56803 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGGTTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGG--AAGGTGC
** *
56855 TGATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-GAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * *
56904 CAATGTGCTGATTCAAGGCCAGCGGCATTGGACTCAAAGAT-G-ATGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * * * * *
56952 CAATATGCTGATTCAAAGCTAGCGATATTGGGCTTAAAGATGGTTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGG--AAGGTGC
* * * * * * **
57004 CGATGTGCTGATTCAAGGTCAACGACATCGGTCTTAAAGATGACAAAGACGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--GAAGGTGC
* * * * **
57056 TAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGACGAAGCCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--GAAGGTGC
* * *
57108 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGAT-GAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * * *
57157 CAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAAAT-G-ACGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * * *
57205 CAATAT-CTGATTCAAGGCCAGTGATATTGGGC-T-----T---A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * *
57243 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA--CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * * *
57291 CAATATGCTGATTCAAGGCCAGTGATATTGGGC-T-----T---A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * * * *
57330 CAATGTGTTGATTCAAGGCTAACGACATTGGTCTTAAAGA--CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* *
57378 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * *
57417 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA--CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
* * *
57465 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAGAAGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
57506 AGATGCCACC
Statistics
Matches: 683, Mismatches: 124, Indels: 95
0.76 0.14 0.11
Matches are distributed among these distances:
38 8 0.01
39 83 0.12
40 4 0.01
41 3 0.00
46 4 0.01
47 23 0.03
48 186 0.27
49 133 0.19
51 1 0.00
52 196 0.29
53 38 0.06
54 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (50 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAGGTGC
Found at i:56881 original size:149 final size:147
Alignment explanation
Indices: 56650--57505 Score: 715
Period size: 149 Copynumber: 6.0 Consensus size: 147
56640 ATGAGAAGAA
* * * ** * ** *
56650 TGCCAATGTGCTGATTCAAGGCCAACGACATTTGGTTTTAAAGATGACGAAGACGCCAATATGCT
1 TGCCAATATGCTGATTCAAGGCCAGCGATA-TTGGACTTAAAGATG--TAAGGTGCCAATGTGCT
*
56715 GATTCAAGGCCAGCGATATTGTACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGA
63 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGA
56780 CATTGGACTTAAAGATCATG
128 CATTGGACTTAAAGATCATG
* * **
56800 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGGTTGAGGTGCTGATGTGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G-TAAGGTGCCAATGTGCTG
* *
56865 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGGC
64 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGAC
* *
56930 ATTGGACTCAAAGATGATG
129 ATTGGACTTAAAGATCATG
* * * * *
56949 TGCCAATATGCTGATTCAAAGCTAGCGATATTGGGCTTAAAGATGGTTGAGGTGCCGATGTGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G-TAAGGTGCCAATGTGCTG
* * * * * ** * *
57014 ATTCAAGGTCAACGACATCGGTCTTAAAGATGACAAAGACGCTAATATGCTGATTCAAGGCTAGC
64 ATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCTAGC
* *
57079 GATATTGGACTTAAAGATGACGAAG
126 GACATTGGACTTAAAGAT--C-ATG
* *
57104 CCGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG-AAGGTGCCAATGTGCTGA
1 -TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGTAAGGTGCCAATGTGCTGA
* * * * * * * * *
57168 TTCAAGGCCAACGACATTAGACTTAAAAATG-ACGTGCCAATAT-CTGATTCAAGGCCAGTGATA
65 TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACA
*
57231 TTGGGC-T-----T-A--
130 TTGGACTTAAAGATCATG
* * * * * *
57240 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA--CAAGGTGCCAATATGCTGAT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGTAAGGTGCCAATGTGCTGAT
* * * *
57303 TCAAGGCCAGTGATATTGGGC-T-----T--A--TGCCAATGTGTTGATTCAAGGCTAACGACAT
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACAT
* *
57358 TGGTCTTAAAGA-CAAGG
131 TGGACTTAAAGATC-ATG
57375 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-------T-T-A--TGCCAATGTGCTGAT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGTAAGGTGCCAATGTGCTGAT
* * * * * * * *
57429 TCAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAACGATAT
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACAT
57493 TGGACTTAGAAGA
131 TGGACTTA-AAGA
57506 AGATGCCACC
Statistics
Matches: 585, Mismatches: 89, Indels: 78
0.78 0.12 0.10
Matches are distributed among these distances:
125 8 0.01
126 51 0.09
127 3 0.01
128 2 0.00
133 3 0.01
134 34 0.06
135 103 0.18
136 4 0.01
138 1 0.00
142 1 0.00
147 1 0.00
148 23 0.04
149 199 0.34
150 28 0.05
152 40 0.07
153 42 0.07
155 3 0.01
156 39 0.07
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (147 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGTAAGGTGCCAATGTGCTGAT
TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACAT
TGGACTTAAAGATCATG
Found at i:57119 original size:253 final size:246
Alignment explanation
Indices: 56650--57505 Score: 780
Period size: 253 Copynumber: 3.6 Consensus size: 246
56640 ATGAGAAGAA
** *
56650 TGCCAATGTGCTGATTCAAGGCCAACGACATTTGGTTTTAAAGATGACGAAGACGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAACGACA-TTGGACTTAAAGAT---GAAG-TGCCAATATGCT
** *
56715 GATTCAAGGCCAGCGATATTGTACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGA
61 GATTCAAGGCCAGCGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAACGA
* * * *
56780 CATTGGACTTAAAGATCATGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATG
126 CATCGGACTTAAAGATCAAGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
** ** ** *
56845 GTTGAGGTGCTGATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
191 GACGAGCCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
56901 TGCCAATGTGCTGATTCAAGGCCAGCGGCATTGGACTCAAAGATGATGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGTGCCAATATGCTGATTC
* * * *
56966 AAAGCTAGCGATATTGGGCTTAAAGATGGTTGAGGTGCCGATGTGCTGATTCAAGG-TCAACGAC
66 AAGGCCAGCGATATTGGGCTTAAAGAT-G--AAGGTGCCAATGTGCTGATTCAAGGCT-AACGAC
* * *
57030 ATCGGTCTTAAAGATGACAAAGACGCTAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAG
127 ATCGGACTTAAAGAT--C-AAG-CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
*
57095 AT-GACGAAGCCGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGG
188 ATGGACG-AGCCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
57154 TGCCAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAAATGACGTGCCAATAT-CTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGTGCCAATATGCTGATTC
* * *
57218 AAGGCCAGTGATATTGGGC-T-----T--A--TGCCAATGTGCTGATTCAAGGCCAACGACATTG
66 AAGGCCAGCGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAACGACATCG
* * * *
57273 GTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTT----AT-----
131 GACTTAAAGATCAA-GCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGGACG
* * * * * * *
57328 ----GCCAATGTGTTGATTCAAGGCTAACGACATTGGTCTTAAAGA-CAAGG
195 AGCCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
57375 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--A-TGCCAATGTGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGTGCCAATATGCTGATTC
* * * * * * * *
57431 AAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTG
66 AAGGCCAGCGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAACGACATCG
57495 GACTTAGAAGA
131 GACTTA-AAGA
57506 AGATGCCACC
Statistics
Matches: 515, Mismatches: 67, Indels: 74
0.79 0.10 0.11
Matches are distributed among these distances:
212 8 0.02
213 22 0.04
214 1 0.00
215 1 0.00
220 2 0.00
221 36 0.07
222 71 0.14
223 4 0.01
231 2 0.00
235 35 0.07
236 2 0.00
239 39 0.08
241 1 0.00
246 40 0.08
247 4 0.01
248 1 0.00
249 41 0.08
250 11 0.02
251 30 0.06
252 27 0.05
253 137 0.27
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (246 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAACGACATCG
GACTTAAAGATCAAGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGGACGA
GCCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:57256 original size:39 final size:39
Alignment explanation
Indices: 57202--57452 Score: 180
Period size: 39 Copynumber: 6.0 Consensus size: 39
57192 AAAAATGACG
*
57202 TGCCAATAT-CTGATTCAAGGCCAGTGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * * *
57240 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A
*
57286 GGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTA
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * * * * *
57327 TGCCAATGTGTTGATTCAAGGCTAACGACATTGGTCTTAAAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A
*
57373 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * * *
57414 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
57453 AAGACAAGGT
Statistics
Matches: 167, Mismatches: 27, Indels: 37
0.72 0.12 0.16
Matches are distributed among these distances:
38 8 0.05
39 90 0.54
41 2 0.01
46 2 0.01
48 65 0.39
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
Found at i:57346 original size:87 final size:87
Alignment explanation
Indices: 57154--57500 Score: 552
Period size: 87 Copynumber: 4.0 Consensus size: 87
57144 AAGATGAAGG
* * * ** *
57154 TGCCAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAAATGACGTGCCAATAT-CTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* *
57218 AAGGCCAGTGATATTGGGCTTA
66 AAGGCCAGCGATATTGGACTTA
57240 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* *
57305 AAGGCCAGTGATATTGGGCTTA
66 AAGGCCAGCGATATTGGACTTA
* *
57327 TGCCAATGTGTTGATTCAAGGCTAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
57392 AAGGCCAGCGATATTGGACTTA
66 AAGGCCAGCGATATTGGACTTA
* *
57414 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
57479 AAGGCCAACGATATTGGACTTA
66 AAGGCCAGCGATATTGGACTTA
57501 GAAGAAGATG
Statistics
Matches: 247, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
86 51 0.21
87 196 0.79
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTA
Found at i:57593 original size:27 final size:27
Alignment explanation
Indices: 57534--57593 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
57524 TGAGCTTTTG
*
57534 AAAAGGTTGCACCAACTTGTGTGCTCT
1 AAAAGGTTGCACCAACTTGTGGGCTCT
** *
57561 TGAAGGTTGCCACTAACTTGTGGGCT-T
1 AAAAGGTTG-CACCAACTTGTGGGCTCT
57588 AAAAGG
1 AAAAGG
57594 AAAAAGATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (27 bp):
AAAAGGTTGCACCAACTTGTGGGCTCT
Found at i:57637 original size:27 final size:27
Alignment explanation
Indices: 57607--57680 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
57597 AAGATTCCAT
57607 GGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGGTGCCAC
* *
57634 GGAGTTGTGGATTTAAAAGGGTGCCAT
1 GGAGTTGTGGACTTAAAAGGGTGCCAC
*
57661 AGAGTTGTGGACTTAAAAGG
1 GGAGTTGTGGACTTAAAAGG
57681 AAAAAGAGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.28, C:0.09, G:0.36, T:0.26
Consensus pattern (27 bp):
GGAGTTGTGGACTTAAAAGGGTGCCAC
Found at i:57692 original size:34 final size:34
Alignment explanation
Indices: 57648--57748 Score: 132
Period size: 34 Copynumber: 3.0 Consensus size: 34
57638 TTGTGGATTT
* *
57648 AAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGA
* *
57682 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGA
* *
57716 AAAAGAGTGCCAC-GAAGTTATGGGCTTAAAAGG
1 AAAAGAGTGCCACAG-AGTTGTGGACTTAAAAGG
57749 GTGCCACGGA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 1 0.02
34 60 0.98
ACGTcount: A:0.38, C:0.11, G:0.33, T:0.19
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGA
Found at i:57795 original size:34 final size:32
Alignment explanation
Indices: 57750--57996 Score: 285
Period size: 34 Copynumber: 7.8 Consensus size: 32
57740 CTTAAAAGGG
* *
57750 TGCCACGGAGTCATGGACTTTGAAGAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG--AAAAAGA
* * *
57784 TGCTACTGAGTCATGGACTTGGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG-AAAAAGA
57817 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG--AAAAAGA
*
57851 TGCCACTAAGTCGTGGACTTTGAAG-AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
* * *
57882 TGCCACTGAGTCATGAACTTTG--GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
*
57912 TGCCACTGAGTCGTGGACTCTG--GAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
*
57942 TGCCACTGAGTCGTGGAC-TT--AGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
*
57971 TGCCACTAAGTCGTGGACTTTGAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGA
57997 GAAATTTGAA
Statistics
Matches: 189, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
29 26 0.14
30 51 0.27
31 25 0.13
32 3 0.02
33 30 0.16
34 54 0.29
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (32 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
Found at i:57834 original size:67 final size:65
Alignment explanation
Indices: 57750--57996 Score: 275
Period size: 67 Copynumber: 3.9 Consensus size: 65
57740 CTTAAAAGGG
* * *
57750 TGCCACGGAGTCATGGACTTTGAAGAAAAAAAGATGCTACTGAGTCATGGACTTGGAAGAAAAAA
1 TGCCACTGAGTCATGGACTTTGAAGAAAAAAAGATGCCACTGAGTCGTGGACTT-GAAG-AAAAA
57815 GA
64 GA
* *
57817 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGATGCCACTAAGTCGTGGACTTTGAAG-AAAAG
1 TGCCACTGAGTCATGGACTTTGAAGAAAAAAAGATGCCACTGAGTCGTGGAC-TTGAAGAAAAAG
57881 A
65 A
* *
57882 TGCCACTGAGTCATGAACTTTG--G--AAAGAGATGCCACTGAGTCGTGGACTCTG--GAAAAAG
1 TGCCACTGAGTCATGGACTTTGAAGAAAAAAAGATGCCACTGAGTCGTGGACT-TGAAGAAAAAG
57941 A
65 A
* * *
57942 TGCCACTGAGTCGTGGAC-TT--AG--AAAAGGATGCCACTAAGTCGTGGACTTTGAAGA
1 TGCCACTGAGTCATGGACTTTGAAGAAAAAAAGATGCCACTGAGTCGTGGAC-TTGAAGA
57997 GAAATTTGAA
Statistics
Matches: 159, Mismatches: 14, Indels: 20
0.82 0.07 0.10
Matches are distributed among these distances:
59 28 0.18
60 24 0.15
61 27 0.17
63 1 0.01
65 26 0.16
67 51 0.32
68 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (65 bp):
TGCCACTGAGTCATGGACTTTGAAGAAAAAAAGATGCCACTGAGTCGTGGACTTGAAGAAAAAGA
Found at i:57847 original size:128 final size:124
Alignment explanation
Indices: 57679--57962 Score: 281
Period size: 128 Copynumber: 2.2 Consensus size: 124
57669 GGACTTAAAA
* * * * * *
57679 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG-GAAAAAGAGTGCCACGAAGTTATGGGC-T
1 GGAAAAAGA-TGCCACTGAGTCGTGGACTTAAAAGAAAAAAAGA-TGCCACGAAGTCATGGACTT
* * * *
57742 T-A-AAAGGGTGCCACGGAGTCATGGACTTTGAAGAAAAAAAGATGCTACTGAGTCATGGACT-T
64 TAAGAAAAGATGCCACGGAGTCATGAACTTTG--G--AAAAAGATGCCACTGAGTCATGGACTCT
** * *
57804 GGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGATGCCACTAAGTCGTGGAC
1 -G--G-AAAAAGATGCCACTGAGTCGTGGACTTAAAAGAAAAAAAGATGCCACGAAGTCATGGAC
* * *
57869 TTTGAAGAAAAGATGCCACTGAGTCATGAACTTTGGAAAGAGATGCCACTGAGTCGTGGACTCT
62 TTT-AAGAAAAGATGCCACGGAGTCATGAACTTTGGAAAAAGATGCCACTGAGTCATGGACTCT
57933 GGAAAAAGATGCCACTGAGTCGTGGACTTA
1 GGAAAAAGATGCCACTGAGTCGTGGACTTA
57963 GAAAAGGATG
Statistics
Matches: 131, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
125 27 0.21
126 2 0.02
128 59 0.45
129 17 0.13
130 1 0.01
131 1 0.01
132 24 0.18
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.20
Consensus pattern (124 bp):
GGAAAAAGATGCCACTGAGTCGTGGACTTAAAAGAAAAAAAGATGCCACGAAGTCATGGACTTTA
AGAAAAGATGCCACGGAGTCATGAACTTTGGAAAAAGATGCCACTGAGTCATGGACTCT
Found at i:57915 original size:30 final size:31
Alignment explanation
Indices: 57750--57993 Score: 264
Period size: 30 Copynumber: 7.7 Consensus size: 31
57740 CTTAAAAGGG
* *
57750 TGCCACGGAGTCATGGACTTTGAAGAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG--AAAAAGA
* * *
57784 TGCTACTGAGTCATGGACTTGGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG-AAAAAGA
57817 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG--AAAAAGA
*
57851 TGCCACTAAGTCGTGGACTTTGA-AGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAAGA
* * *
57882 TGCCACTGAGTCATGAACTTTG-GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
*
57912 TGCCACTGAGTCGTGGACTCTG-GAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
*
57942 TGCCACTGAGTCGTGGAC-TT-AGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
*
57971 TGCCACTAAGTCGTGGACTTTGA
1 TGCCACTGAGTCGTGGACTTTGA
57994 AGAGAAATTT
Statistics
Matches: 186, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
29 25 0.13
30 52 0.28
31 27 0.15
33 31 0.17
34 51 0.27
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.22
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
Found at i:66143 original size:13 final size:13
Alignment explanation
Indices: 66125--66150 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66115 ATACAAAGAT
66125 CAATGTATCGATA
1 CAATGTATCGATA
66138 CAATGTATCGATA
1 CAATGTATCGATA
66151 TATTACCTTG
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):
CAATGTATCGATA
Found at i:69742 original size:51 final size:51
Alignment explanation
Indices: 69663--69831 Score: 178
Period size: 51 Copynumber: 3.3 Consensus size: 51
69653 ATTTTTCATC
* * * * **
69663 TCGGGGATACTCCAA-TCCCGGTTCTATTTCCAAAACGTCAATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTATCACAA
* * * * * *
69714 TCGGGGATACTCCAACTCCAATTTTATTTCTAAAGCATCGATTTACCGCAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTATCACAA
* * * *
69765 TCAGGGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTCTCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTATCACAA
69816 TCGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
69832 CCCGTTATTT
Statistics
Matches: 95, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
51 94 0.99
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTATCACAA
Found at i:69976 original size:121 final size:121
Alignment explanation
Indices: 69762--69979 Score: 278
Period size: 121 Copynumber: 1.8 Consensus size: 121
69752 CGATTTACCG
*
69762 CAATCAGGGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACT
1 CAATCAGGGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTCTCACAATCAGGGATACT
* *
69827 CCAACCCCGTTATTTCTGAGGGGATACTCCAATTCGACTTTATTACCAATTTTCCA
66 CCAACCCCATTATTTCTGAGAGGATACTCCAATTCGACTTTATTACCAATTTTCCA
* * * ** * * * *
69883 CAATCGGGGATACTCTAACTCTGATTTTAGTTT-CAAAATACCGGTTTTTTATAATTAGGGATAC
1 CAATCAGGGATACTCCAACTCTGATTTTA-TTTCCAAAACACCAATTTCTCACAATCAGGGATAC
**
69947 TCCAACCTTATTATTT-TCGAGAGGATACTCCAA
65 TCCAACCCCATTATTTCT-GAGAGGATACTCCAA
69980 CCCCGATTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
120 1 0.01
121 77 0.95
122 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (121 bp):
CAATCAGGGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTCTCACAATCAGGGATACT
CCAACCCCATTATTTCTGAGAGGATACTCCAATTCGACTTTATTACCAATTTTCCA
Found at i:77728 original size:42 final size:42
Alignment explanation
Indices: 77565--79496 Score: 1224
Period size: 42 Copynumber: 45.8 Consensus size: 42
77555 TCTTCATCTT
* * *
77565 TTTTGCTTCCCCTTAGTCT-ACTAGTCGGCTTTGATCGTGGAGAC
1 TTTT-CTT-CCCTTAGTCTGCCT-GTCGGCTTTGACCCTGGAGAC
* * *
77609 TTTCCTACCCTTTAGTCTGCCTATCGGCTTTGACCCTGGAGAC
1 TTTTCTTCCC-TTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * * *
77652 TTTCCTACCCTTTATTATGCCTGTCGACTTTGACCCTGGAGAC
1 TTTTCTTCCC-TTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
*
77695 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * * *
77737 TTTCCTACCCTTTAGTTTGCCTGTCGGCTTCGTCCCTGGAGAC
1 TTTTCTTCCC-TTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
** * * * ** * *
77780 --CGCCTCATCTAAAGTCTGTTTGTCGGCTTTAACCTTGGAGAC
1 TTTTCTTC-CCT-TAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * *
77822 TTTTCATCCCTTAGTCTGCCTATCGG-TTTGACCCTAGAAAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * *
77863 -TTTCTTACCCTTCAGTCTGCC--TCGGCTTCGTCCCTAGAAAC
1 TTTTCTT-CCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGAC
** ** * *
77904 -TGCCTTATCTAAAGTCTACCTGTCGGCTTTGACCCTGGAGAC
1 TTTTCTTCCCT-TAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * * *
77946 TTTCCTT-CCTTCAGTCTACCTGTCGGCTTTAACCTTTGAGAC
1 TTTTCTTCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * ** * *
77988 --TGCCTCATTTAAAGTCTGCCTGTCGGCTTTGACCTTGAAGAC
1 TTTTCTTCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* ** * * *
78030 TTTCCCACCTTTTAGTCTGCCTATTGGCTTTGACCCTGGAGAC
1 TTTTCTTCC-CTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* *
78073 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGAT
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * *
78115 TTTTCTACCCTTCAGTCTGCCTATCGG-TTTCGTCCCTGAAGAC
1 TTTTCTTCCCTT-AGTCTGCCTGTCGGCTTT-GACCCTGGAGAC
* * * * * *
78158 --TACCTCATCTAAAGTCTACTTGTCGGCTTTGACCCTGGAGAC
1 TTTTCTTC-CCT-TAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* ** * *
78200 TTTTCATCCCTTTCTCTACCTGTCAGCTTTGACCCTGGAGA-
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * *
78241 TTTTCCTACCCTTCAATCTGCCTGTCGGCTTTGTCCCTGGAGAC
1 TTTT-CTTCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * * * *
78285 --TGCCTCATCTAAAGTCTACCTGTCGGCTTTGACCCTAGAGAC
1 TTTTCTTC-CCT-TAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * * *
78327 TTTCCTTCCTTTAGTGTGCCTATCGGCTTTGACCTTGGAGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * ** * *
78369 --TGCCTCATTTAAAGTCTGCCTATCGGCTTTGACCTTGGAGAC
1 TTTTCTTCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * ** * *
78411 GTTCCCACCTTTTAGTCTGCCTGTCGGCTTTGACCCTAGAGAC
1 TTTTCTTCC-CTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* ** * * * *
78454 TTTCCTTCTTTTTGTGTGCCTATCGGCTTTGACCTTGGAGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * ** * * * *
78496 --TGCCTCATTTAAAGTCTACCTATCAGCTTTGACCTTGGAGAC
1 TTTTCTTCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * ** *
78538 GTTCCCACCTTTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
1 TTTTCTTCC-CTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * *
78581 TTTTCTTCCTTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGA-
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* **** * * *
78622 TTGTCTGATATAAATTCTGCCTGTCGGCTTTGACTCTGGAGAC
1 TTTTCTTCCCT-TAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * **
78665 TTTTCATCCCTTAGTCTGCCAGTAGG-TTTGA-CCTTAAGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * * *
78705 TTTCCTACCCTTCAGTCTGCCTGTCGG-GTTCATCCTTGGAGAC
1 TTTTCTTCCCTT-AGTCTGCCTGTCGGCTTTGA-CCCTGGAGAC
* * * * *
78748 --TACCTCATCTAAAGTCTGCCTGTCGACTTTGACCCTGGAGAC
1 TTTTCTTC-CCT-TAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * *
78790 TTTTCATCCCCTAGTCTGCCTGTCGG-TTTGACCTTGGAGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * *
78831 TTTCCTACCCTTCAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC
1 TTTTCTTCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * * * *
78874 --TACCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTAGAGAG
1 TTTTCTTC-CCT-TAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* *
78916 TTTCCTT-CCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGAC
1 TTTTCTTCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * *
78958 TTTTCTTCCCTTAGTCTACCTGTCGCCTTTGACCTTGGAGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
** * * * * *
79000 TTTTCAACCCTCAATCTGCCTATCGG-TTTCATCCCTAGAGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGA-CCCTGGAGAC
* * * *
79042 --TGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
1 TTTTCTTC-CCT-TAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * ***
79084 -TTTCTTTCCCTCAATCTACCTGTCGGCTTTGACCCCAAAGAC
1 TTTTC-TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
** * * * * * *
79126 TTTTCAACCCTCAGTCTTCCTATTGGCTTTGACCTTGGTGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
*
79168 TTTTCAT-CCTTGAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
1 TTTTCTTCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGAC
** * *
79210 TTTTCAACCCTCAGTCTGCCTGTCGGCTTTGTCCCTGGAGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* *
79252 TTTCCTTCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * *
79294 -TTTCTTTCCCTTAGTTTGCCTGTCGGCTTTGACCCCGAAGAC
1 TTTTC-TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * * *
79336 TTTTCATCCCTTAGTTTGCCTATCGG-TTTAACCCTAGAGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * *
79377 TTTCCTTTCCTCAGTCTGCTTGTCGGCTTTGACCCTGGAGAC
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * * * * *
79419 TTTTCATCCCTTAGTTTGCTTGTCGGCTTTGTCCTTGGAGAT
1 TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
* * *
79461 TTTTCTTTCCC-TATGTCTGCCCGTTGGTTTTGACCC
1 TTTTC-TTCCCTTA-GTCTGCCTGTCGGCTTTGACCC
79497 GGTAGAAATT
Statistics
Matches: 1469, Mismatches: 343, Indels: 153
0.75 0.17 0.08
Matches are distributed among these distances:
40 53 0.04
41 143 0.10
42 903 0.61
43 324 0.22
44 37 0.03
45 9 0.01
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.36
Consensus pattern (42 bp):
TTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC
Found at i:78075 original size:127 final size:126
Alignment explanation
Indices: 77622--79459 Score: 1164
Period size: 127 Copynumber: 14.6 Consensus size: 126
77612 CCTACCCTTT
* * * * *
77622 AGTCTGCCTATCGGCTTTGACCCTGGAGACTTTCCTACCCTTTATTATGCCTGTCGACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCCA-CCTTTAGTCTGCCTGTCGGCTTTGACC
* * *
77687 CTGGAGACTTTTCTTCCCTT-AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTACCCTTT-
65 CTGGAGACTTTCCTT-CCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TGCCT--CATTTA
77750 -
126 A
* * * ** * ** ** *
77750 AGTTTGCCTGTCGGCTTCGTCCCTGGAGAC-CGCCTCATCTAAAGTCTGTTTGTCGGCTTTAACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC-CACCTTTAGTCTGCCTGTCGGCTTTGACC
* * * * * * * * * ** *
77814 TTGGAGACTTTTCATCCCTT-AGTCTGCCTATCGG-TTTGACCCTAGAAACTTTCTTACCCTT-C
65 CTGGAGAC-TTTCCTTCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TGCCT-CATTTAA
* * * * * * * ** *
77876 AGTCTGCC--TCGGCTTCGTCCCTAGAAAC-TGCCTTATCTAAAGTCTACCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC-CACCTTTAGTCTGCCTGTCGGCTTTGACC
* * *
77938 CTGGAGACTTTCCTTCCTTCAGTCTACCTGTCGGCTTTAACCTTTGAGACTGCCTCATTTAA
65 CTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATTTAA
* * * *
78000 AGTCTGCCTGTCGGCTTTGACCTTGAAGACTTTCCCACCTTTTAGTCTGCCTATTGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCCACC-TTTAGTCTGCCTGTCGGCTTTGACC
* * ** ** *
78065 CTGGAGACTTTTCTTCCCTT-AGTCTGCCTGTCGGCTTTGACCTTGGAGATTTTTCTACCCTT-C
65 CTGGAGACTTTCCTT-CCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGA-CTGCCT-CATTTAA
* * * * * ** * *
78128 AGTCTGCCTATCGG-TTTCGTCCCTGAAGAC-TACCTCATCTAAAGTCTACTTGTCGGCTTTGAC
1 AGTCTGCCTGTCGGCTTT-GACCCTGGAGACTTTCC-CACCTTTAGTCTGCCTGTCGGCTTTGAC
* * * * * * * **
78191 CCTGGAGACTTTTCATCCCTTTC--TCTACCTGTCAGCTTTGACCCTGGAGATTTTCCTACCCTT
64 CCTGGAGAC-TTTCCTTCC-TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGA-CTGCCT-CATTT
*
78254 CA
125 AA
* * * ** *
78256 A-TCTGCCTGTCGGCTTTGTCCCTGGAGAC-TGCCTCATCTAAAGTCTACCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC-CACCTTTAGTCTGCCTGTCGGCTTTGACC
* * * *
78319 CTAGAGACTTTCCTTCCTTTAGTGTGCCTATCGGCTTTGACCTTGGAGACTGCCTCATTTAA
65 CTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATTTAA
* * *
78381 AGTCTGCCTATCGGCTTTGACCTTGGAGACGTTCCCACCTTTTAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCCACC-TTTAGTCTGCCTGTCGGCTTTGACC
* * ** * *
78446 CTAGAGACTTTCCTTCTTTTTGTGTGCCTATCGGCTTTGACCTTGGAGACTGCCTCATTTAA
65 CTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATTTAA
* * * * *
78508 AGTCTACCTATCAGCTTTGACCTTGGAGACGTTCCCACCTTTTAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCCACC-TTTAGTCTGCCTGTCGGCTTTGACC
* * * * * * * * *
78573 CTGGAGACTTTTCTTCCTTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGATTGTCTGATATAA
65 CTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATTTAA
* * * * * *
78635 ATTCTGCCTGTCGGCTTTGACTCTGGAGACTTT-TCATCCCTTAGTCTGCCAGTAGG-TTTGA-C
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCCA-CCTTTAGTCTGCCTGTCGGCTTTGACC
** * * * * *
78697 CTTAAGACTTTCCTACCCTTCAGTCTGCCTGTCGG-GTTCATCCTTGGAGACTACCTCATCTAA
65 CTGGAGACTTTCCT-TCCTTCAGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTGCCTCATTTAA
* * **
78760 AGTCTGCCTGTCGACTTTGACCCTGGAGACTTT-TCATCCCCTAGTCTGCCTGTCGG-TTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCCA-CCTTTAGTCTGCCTGTCGGCTTTGACC
* * * * * * *
78823 TTGGAGACTTTCCTACCCTTCAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTACCTCATCTAA
65 CTGGAGACTTTCCT-TCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATTTAA
* * ** * *
78886 AGTCTGCCTGTCGGCTTTGACCCTAGAGAGTTTCCTTCCTTCAGTCTGCCTGTCGGCTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCCACCTTTAGTCTGCCTGTCGGCTTTGACCC
* * * ** ** *
78951 TGGAGACTTTTCTTCCCTT-AGTCTACCTGTCGCCTTTGACCTTGGAGACT-TTTCAACCCTCA
66 TGGAGACTTTCCTT-CCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTC-A-TTTAA
* * * * * **
79013 A-TCTGCCTATCGG-TTTCATCCCTAGAGAC-TGCCTCATCTAAAGTCTGCCTGTCGGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGA-CCCTGGAGACTTTCC-CACCTTTAGTCTGCCTGTCGGCTTTGAC
* * * * **** ** ** *
79075 CCTGGAGACTTTCTTTCCCTCAATCTACCTGTCGGCTTTGACCCCAAAGACT-TTTCAACCCT-C
64 CCTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTC-A-TTTAA
* * * * * * *
79138 AGTCTTCCTATTGGCTTTGACCTTGGTGACTTT-TCATCCTTGAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCCA-CCTTTAGTCTGCCTGTCGGCTTTGACC
* ** * * * * ** *
79202 CTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCCTTC-CCT-C
65 CTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TGCC-TCATTTAA
*** * *
79264 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCTTTCCCTTAGTTTGCCTGTCGGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCCACCTTTAGTCTGCCTGTCGGCTTTGACCC
* * * * * * * * * * *
79329 CGAAGACTTTTCATCCCTT-AGTTTGCCTATCGG-TTTAACCCTAGAGACTTTCCT--TTCCT-C
66 TGGAGAC-TTTCCTTCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGAC-TGCCTCATT--TAA
* * * * * *
79389 AGTCTGCTTGTCGGCTTTGACCCTGGAGACTTT-TCATCCCTTAGTTTGCTTGTCGGCTTTGTCC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCCA-CCTTTAGTCTGCCTGTCGGCTTTGACC
*
79453 TTGGAGA
65 CTGGAGA
79460 TTTTTCTTTC
Statistics
Matches: 1389, Mismatches: 271, Indels: 103
0.79 0.15 0.06
Matches are distributed among these distances:
123 12 0.01
124 91 0.07
125 211 0.15
126 468 0.34
127 528 0.38
128 74 0.05
129 5 0.00
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.36
Consensus pattern (126 bp):
AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCCACCTTTAGTCTGCCTGTCGGCTTTGACCC
TGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTCATTTAA
Found at i:79958 original size:15 final size:15
Alignment explanation
Indices: 79940--80073 Score: 67
Period size: 15 Copynumber: 8.4 Consensus size: 15
79930 TATAAAATAA
79940 AAAAATAAAAAAATT
1 AAAAATAAAAAAATT
* *
79955 AAAAATAATAATATT
1 AAAAATAAAAAAATT
* *
79970 CAATATAATATAAAAATC
1 -AA-A-AATAAAAAAATT
79988 AAGAAAT--AAAAATT
1 AA-AAATAAAAAAATT
*
80002 CAATATAATAATAAAAATC
1 -AA-A-AATAA-AAAAATT
*
80021 AAGAAACAAAAAAATT
1 AA-AAATAAAAAAATT
*
80037 CAAAAA-AAAATAAAGT
1 -AAAAATAAAA-AAATT
* *
80053 AAAAATCAAAAAATA
1 AAAAATAAAAAAATT
80068 AAAAAT
1 AAAAAT
80074 GGCCAAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
14 6 0.07
15 34 0.37
16 24 0.26
17 10 0.11
18 11 0.12
19 6 0.07
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAAATAAAAAAATT
Found at i:80016 original size:33 final size:33
Alignment explanation
Indices: 79943--80032 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 33
79933 AAAATAAAAA
*
79943 AATAA-AAAAATTAA-AAATAATAATATTCAATAT
1 AATAATAAAAATCAAGAAATAA-AA-ATTCAATAT
79976 AAT-ATAAAAATCAAGAAATAAAAATTCAATAT
1 AATAATAAAAATCAAGAAATAAAAATTCAATAT
*
80008 AATAATAAAAATCAAGAAACAAAAA
1 AATAATAAAAATCAAGAAATAAAAA
80033 AATTCAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
32 13 0.25
33 33 0.63
34 6 0.12
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (33 bp):
AATAATAAAAATCAAGAAATAAAAATTCAATAT
Found at i:80034 original size:35 final size:32
Alignment explanation
Indices: 79967--80039 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 32
79957 AAATAATAAT
*
79967 ATTCAATATAATATAAAAATCAAGAAATAAAA
1 ATTCAATATAATATAAAAATCAAGAAAAAAAA
79999 ATTCAATATAATAATAAAAATCAAGAAACAAAAAA
1 ATTCAATATAAT-ATAAAAATCAAG-AA-AAAAAA
80034 ATTCAA
1 ATTCAA
80040 AAAAAAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
32 12 0.32
33 12 0.32
34 2 0.05
35 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.23
Consensus pattern (32 bp):
ATTCAATATAATATAAAAATCAAGAAAAAAAA
Found at i:80039 original size:17 final size:19
Alignment explanation
Indices: 79992--80039 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
79982 AAAATCAAGA
* *
79992 AATAAAAATTCAATATAAT
1 AATAAAAATTCAAGATAAC
80011 AATAAAAA-TCAAGA-AAC
1 AATAAAAATTCAAGATAAC
80028 AA-AAAAATTCAA
1 AATAAAAATTCAA
80040 AAAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 8 0.31
18 5 0.19
19 8 0.31
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATTCAAGATAAC
Found at i:81659 original size:12 final size:12
Alignment explanation
Indices: 81642--81671 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
81632 AAAATTTTCG
81642 AAAATAAAATAA
1 AAAATAAAATAA
81654 AAAATAAAATAA
1 AAAATAAAATAA
*
81666 TAAATA
1 AAAATA
81672 GATTCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAATAAAATAA
Done.