Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold108
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: 1249174
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.18
Warning! 531763 characters in sequence are not A, C, G, or T
File 5 of 5
Found at i:1178772 original size:49 final size:49
Alignment explanation
Indices: 1178697--1178965 Score: 199
Period size: 49 Copynumber: 5.6 Consensus size: 49
1178687 CATCTTCTTC
* *
1178697 TAAGTCCAATATCGCTAGCCCTGAATCAGCATATTAGCACCTTCACCATT
1 TAAGTCCAATATCGCTTGCCTTGAATCAGCATATTAGCACCTTCACC-TT
* * * *
1178747 T-AGTCCAATGTTGCTTGCCTTGAATCAGCACATT-G-ATGCCTTCATCTT
1 TAAGTCCAATATCGCTTGCCTTGAATCAGCATATTAGCA--CCTTCACCTT
* * * *
1178795 TAAGTCTAATATCACTGGCCTTGAATCAACATATTAGCACCTTCACCTT
1 TAAGTCCAATATCGCTTGCCTTGAATCAGCATATTAGCACCTTCACCTT
* * *
1178844 TAAGTCCAATGTTG-TTGGCCTTG-A--AG-------GCACCTTCATCTT
1 TAAGTCCAATATCGCTT-GCCTTGAATCAGCATATTAGCACCTTCACCTT
* * *
1178883 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTTGCCTTGAATCAGCATATTAGCACC--T-TCACCTT
* *
1178935 TAAGTCCAATGTC-CTTGGCCTTGAATTAGCA
1 TAAGTCCAATATCGCTT-GCCTTGAATCAGCA
1178966 CATCGAGATT
Statistics
Matches: 170, Mismatches: 28, Indels: 40
0.71 0.12 0.17
Matches are distributed among these distances:
39 30 0.18
40 2 0.01
42 2 0.01
46 1 0.01
47 1 0.01
48 6 0.04
49 90 0.53
50 2 0.01
51 4 0.02
52 32 0.19
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATCGCTTGCCTTGAATCAGCATATTAGCACCTTCACCTT
Found at i:1178866 original size:98 final size:93
Alignment explanation
Indices: 1178692--1178968 Score: 307
Period size: 98 Copynumber: 2.9 Consensus size: 93
1178682 GGTGGCATCT
* *
1178692 TCTTCTAAGTCCAATATCGCTAGCCCTGAATCAGCATATTAGCACCTTCACCATTT-AGTCCAAT
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCACC-TTTAAGTCCAAT
1178756 GTTGCTT-GCCTTGAATCAGCACATTGATGCCTTCA
64 GTTG-TTGGCCTTGAAT-AGCACA-T-A--CCTTCA
* * *
1178791 TCTTTAAGTCTAATATCACTGGCCTTGAATCAACATATTAGCACCTTCACCTTTAAGTCCAATGT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAGTCCAATGT
*
1178856 TGTTGGCCTTG-A-AG-GC--ACCTTCA
66 TGTTGGCCTTGAATAGCACATACCTTCA
* *
1178879 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTAAGTCCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACC--T-TCACCTTTAAGTCCAA
**
1178944 TGTCCTTGGCCTTGAATTAGCACAT
63 TGTTGTTGGCCTTGAA-TAGCACAT
1178969 CGAGATTCTT
Statistics
Matches: 153, Mismatches: 14, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
88 47 0.31
90 2 0.01
91 27 0.18
92 1 0.01
94 3 0.02
95 3 0.02
97 6 0.04
98 60 0.39
99 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (93 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAGTCCAATGT
TGTTGGCCTTGAATAGCACATACCTTCA
Found at i:1178885 original size:39 final size:39
Alignment explanation
Indices: 1178831--1178907 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
1178821 CAACATATTA
* * *
1178831 GCACCTTCACCTTTAAGTCCAATGTTGTTGGCCTTGAAG
1 GCACCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAAG
*
1178870 GCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAA
1 GCACCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAA
1178908 TCAGCATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.32
Consensus pattern (39 bp):
GCACCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAAG
Found at i:1178984 original size:52 final size:51
Alignment explanation
Indices: 1178875--1179017 Score: 146
Period size: 52 Copynumber: 2.8 Consensus size: 51
1178865 TGAAGGCACC
* * * *
1178875 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTT
1 TTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATGAGAGCCTT
* **
1178926 TGTCATCTTTAAGTCCAATGTC-CTTGGCCTTGAATTAGCACATCGAGATTCTT
1 T-TCATCTTTAAGTCCAATGTCGC-TGGCCTTGAATCAGCACAT-GAGAGCCTT
* * *
1178979 TTCATCTTCAAGTCTAATGTCGCT-GACTGTGAATCAGCA
1 TTCATCTTTAAGTCCAATGTCGCTGGCCT-TGAATCAGCA
1179018 TATTGACATT
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
51 5 0.07
52 64 0.84
53 7 0.09
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (51 bp):
TTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATGAGAGCCTT
Found at i:1194841 original size:38 final size:38
Alignment explanation
Indices: 1194799--1194897 Score: 137
Period size: 37 Copynumber: 2.6 Consensus size: 38
1194789 CGTATTAGAC
1194799 TTCATGCCACAATCATGCATTTGTGACATTCATAACAT
1 TTCATGCCACAATCATGCATTTGTGACATTCATAACAT
**** *
1194837 TTCATTTTGC-ATGATGCATTTGTGACATTCATAACAT
1 TTCATGCCACAATCATGCATTTGTGACATTCATAACAT
*
1194874 CTCATGCCACAATCATGCATTTGT
1 TTCATGCCACAATCATGCATTTGT
1194898 CCCCGGTAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
37 31 0.63
38 18 0.37
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (38 bp):
TTCATGCCACAATCATGCATTTGTGACATTCATAACAT
Found at i:1195230 original size:28 final size:28
Alignment explanation
Indices: 1195190--1195384 Score: 214
Period size: 28 Copynumber: 6.9 Consensus size: 28
1195180 CCTCACCTTC
* *
1195190 CAAAGCCCACAAGTCAGTGTCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCAACTTTT
*
1195218 CAAAGCCCACAAGTCAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGCAACTTTT
* * *
1195245 CAAAAGCCCATACGTCAGTGGCAAC-CTT
1 C-AAAGCCCACAAGTCAGTGGCAACTTTT
* * *
1195273 CAAAAGCCCATAAGTTAGTGGCATCTTTT
1 C-AAAGCCCACAAGTCAGTGGCAACTTTT
* *
1195302 CAAAAGCCCACAAGTTAGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCAACTTTT
*
1195331 CAAAGCCCACAAGTCAGTGGCACCCCTTTT
1 CAAAGCCCACAAGTCAGTGGCA--ACTTTT
*
1195361 CAAAGCCCACAAGGCAGTGGCAAC
1 CAAAGCCCACAAGTCAGTGGCAAC
1195385 CTCCAAAAGC
Statistics
Matches: 149, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
27 3 0.02
28 89 0.60
29 30 0.20
30 27 0.18
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCAACTTTT
Found at i:1195322 original size:57 final size:56
Alignment explanation
Indices: 1195191--1195428 Score: 225
Period size: 57 Copynumber: 4.2 Consensus size: 56
1195181 CTCACCTTCC
* * *
1195191 AAAGCCCACAAGTCAGTGTCATCTTTTCAAAGCCCACAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* * * * *
1195247 AAAGCCCATACGTCAGTGGCAACCTTCAAAAGCCCATAAGTTAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGTCAGTGGCACCTTTTCA
*
1195304 AAAGCCCACAAGTTAGTGGC-ACCTTTTCAAAGCCCACAAGTCAGTGGCACCCCTTTTC-
1 AAAGCCCACAAGTCAGTGGCAACC--TTCAAAGCCCACAAGTCAGTGGCA--CCTTTTCA
* * * ** *
1195362 AAAGCCCACAAGGCAGTGGCAACCTCCAAAAGCACACAAGTTGGT-GCAACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
1195419 AAAGCCCACA
1 AAAGCCCACA
1195429 CAAGTTGGTG
Statistics
Matches: 150, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
55 5 0.03
56 46 0.31
57 54 0.36
58 36 0.24
59 9 0.06
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (56 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCTTTTCA
Found at i:1195525 original size:49 final size:49
Alignment explanation
Indices: 1195450--1195893 Score: 442
Period size: 49 Copynumber: 8.9 Consensus size: 49
1195440 CATCTTCTTC
*
1195450 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTT
* * * * *
1195499 TATGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTT
* * *
1195548 TAAGTCTAATATCACTGGCCTTGAATCAGCATATTAGCACCTTCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTT
* *
1195597 TAAGTCCAATGTTGCTGGCCTTGAATCAGCATATGAGCACCTTCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTT
* * * * *
1195646 TATGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTT
* * * * *
1195695 TAAGTCTAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACC--T-TCACCTT
* * * *
1195747 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCA-CCTTC--ACCTT
* * * * * * * *
1195799 CAAGTCTAATGTCGCTGACCGTGAATTAGCACATT-GACATTCTTTACATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAG-CA--CCTT-CACCTT
* * * *
1195851 TAAGCCCAATATCACTAGTCC-TGAATCAGCATATTAGCACCTT
1 TAAGTCCAATGTCGCT-GGCCTTGAATCAGCATATTAGCACCTT
1195894 TATCACTCTT
Statistics
Matches: 333, Mismatches: 51, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
49 207 0.62
50 5 0.02
51 3 0.01
52 109 0.33
53 8 0.02
54 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTT
Found at i:1195619 original size:98 final size:98
Alignment explanation
Indices: 1195445--1195893 Score: 488
Period size: 98 Copynumber: 4.5 Consensus size: 98
1195435 GGTGGCATCT
*
1195445 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTTTATGTCCAATG
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAGTCCAATG
*
1195510 TTGCTGGCCTTGAATCAGCACATTGGCACCTTCA
65 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
1195544 TCTTTAAGTCTAATATCACTGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAGTCCAATGT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAGTCCAATGT
* *
1195609 TGCTGGCCTTGAATCAGCATA-TGAGCACCTTCA
66 CGCTGGCCTTGAATCAGCACATTG-GCACCTTCA
* * * * * * * * *
1195642 CCTTTATGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATAT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAGTCCAATGT
* *
1195707 CACTGGCCTTGAATCAGCATATTGGCACCTTTGTCA
66 CGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
* * * * * * *
1195743 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCTAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCA-CCTTC--ACCTTTAAGTCCAA
* * * * *
1195808 TGTCGCTGACCGTGAATTAGCACATTGACATTCTTTACA
63 TGTCGCTGGCCTTGAATCAGCACATTGGCA--CCTT-CA
* * *
1195847 TCTTTAAGCCCAATATCACTAGTCC-TGAATCAGCATATTAGCACCTT
1 TCTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTAGCACCTT
1195894 TATCACTCTT
Statistics
Matches: 301, Mismatches: 37, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
97 2 0.01
98 165 0.55
99 6 0.02
100 1 0.00
101 43 0.14
102 4 0.01
103 4 0.01
104 72 0.24
105 3 0.01
106 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (98 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAGTCCAATGT
CGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:1195717 original size:147 final size:147
Alignment explanation
Indices: 1195450--1195893 Score: 595
Period size: 147 Copynumber: 3.0 Consensus size: 147
1195440 CATCTTCTTC
* *
1195450 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCACCTTTATGTCCAATGTTGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATGAGCACCTTCACCTTTATGTCCAATGTTGCT
1195515 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCACTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCACTGGCCTTGAATCAGCAT
1195580 ATTAGCACCTTCACCTT
131 ATTAGCACCTTCACCTT
*
1195597 TAAGTCCAATGTTGCTGGCCTTGAATCAGCATATGAGCACCTTCACCTTTATGTCCAATGTTGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATGAGCACCTTCACCTTTATGTCCAATGTTGCT
1195662 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCACTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCACTGGCCTTGAATCAGCAT
* *
1195727 ATTGGCACCTTTGTCATCTT
131 ATTAGCACC--T-TCACCTT
* * * * * *
1195747 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG-GCATTCTTCTTATCTTCAAGTCTAATGT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATA-TGAGCA-CCTTC--ACCTTTATGTCCAATGT
* * * * * * * * *
1195811 CGCTGACCGTGAATTAGCACATTGACATTCTTTACATCTTTAAGCCCAATATCACTAGTCC-TGA
62 TGCTGGCCTTGAATCAGCACATTGGCA--CCTT-CATCTTTAAGTCTAATATCACT-GGCCTTGA
1195875 ATCAGCATATTAGCACCTT
123 ATCAGCATATTAGCACCTT
1195894 TATCACTCTT
Statistics
Matches: 264, Mismatches: 22, Indels: 16
0.87 0.07 0.05
Matches are distributed among these distances:
147 135 0.51
149 1 0.00
150 40 0.15
151 6 0.02
153 36 0.14
154 1 0.00
155 3 0.01
156 39 0.15
157 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (147 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATGAGCACCTTCACCTTTATGTCCAATGTTGCT
GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCACTGGCCTTGAATCAGCAT
ATTAGCACCTTCACCTT
Found at i:1199831 original size:42 final size:42
Alignment explanation
Indices: 1199766--1200083 Score: 270
Period size: 42 Copynumber: 7.5 Consensus size: 42
1199756 TGTTGCTACA
* * *
1199766 AGGACAAAGG-AAAAAGGAGAATAAAATGGGTCCTTCTCCTTG
1 AGGACAAAGGAAAAAAGGA-AATAAAATGCGTCCTGCTCTTTG
* * *
1199808 AGGACAAAGGAAAAAAGGAAATAAAATGCATCATGCCCTTTG
1 AGGACAAAGGAAAAAAGGAAATAAAATGCGTCCTGCTCTTTG
* * * ** *
1199850 AAGATAAAGG-AAAAAGGAAATTAAATATGTCCTGCTTTTTG
1 AGGACAAAGGAAAAAAGGAAATAAAATGCGTCCTGCTCTTTG
* * * * *
1199891 AGGACAAAGG-AAAAAGAAGAACAAAGTGCGTCTTGCTGTTTG
1 AGGACAAAGGAAAAAAGGA-AATAAAATGCGTCCTGCTCTTTG
** * *
1199933 AAAACTAGAAGGGAAAAGAAGGAAATAAAGTGTGTCCTGCTCTTTG
1 AGGAC-A-AA-GGAAAA-AAGGAAATAAAATGCGTCCTGCTCTTTG
*
1199979 AGGACAAAGGAAAAAA-GAAA-AAAA-GCATCCTGCTCTTTG
1 AGGACAAAGGAAAAAAGGAAATAAAATGCGTCCTGCTCTTTG
* * *
1200018 AGGACAAAAGGGAAAAGATGGAAATGAAATGTGTCCTGCTCTTTG
1 AGGAC-AAA-GGAAAA-AAGGAAATAAAATGCGTCCTGCTCTTTG
* *
1200063 AGGGCAAAGGAGAAAAGGAAA
1 AGGACAAAGGAAAAAAGGAAA
1200084 AGGCGTCATG
Statistics
Matches: 219, Mismatches: 44, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
39 18 0.08
40 6 0.03
41 49 0.22
42 63 0.29
43 24 0.11
44 10 0.05
45 20 0.09
46 25 0.11
47 4 0.02
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (42 bp):
AGGACAAAGGAAAAAAGGAAATAAAATGCGTCCTGCTCTTTG
Found at i:1200057 original size:84 final size:81
Alignment explanation
Indices: 1199766--1200110 Score: 306
Period size: 83 Copynumber: 4.1 Consensus size: 81
1199756 TGTTGCTACA
* * *
1199766 AGGAC-AAAGGAAAAAGGAGAATAAAATGGGTCCTTCTCCTTGAGGACAAAGGAAAAAAGGAAAT
1 AGGACAAAAGGAAAAAGGA-AAT-AAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAA-GAAA-
*
1199830 AAAATGCATCATGCCCTTTG
62 AAAATGCATCATGCTCTTTG
* * * *
1199850 AAGA-TAAAGGAAAAAGGAAATTAAATATGTCCTGCTTTTTGAGGACAAAGG-AAAAAGAAGAAC
1 AGGACAAAAGGAAAAAGGAAA-TAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAA-AA-
* * *
1199913 AAAGTGCGTCTTGCTGTTTG
63 AAA-TGCATCATGCTCTTTG
** *
1199933 AAAACTAGAAGGGAAAAGAAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAA
1 AGGAC-A-AAAGG-AAA-AAGGAAATAAA-TGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAA
*
1199998 AAAAA-GCATCCTGCTCTTTG
61 AAAAATGCATCATGCTCTTTG
* * *
1200018 AGGACAAAAGGGAAAAGATGGAAATGAAATGTGTCCTGCTCTTTGAGGGCAAAGGAGAAAAG--G
1 AGGACAAAA-GGAAAA-A-GGAAAT-AAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAAA
* *
1200081 AAAAGGCGTCATGCTCTTTG
62 AAAATGCATCATGCTCTTTG
1200101 AGGACTAAAA
1 AGGAC-AAAA
1200111 AGTGCCACCA
Statistics
Matches: 217, Mismatches: 26, Indels: 36
0.78 0.09 0.13
Matches are distributed among these distances:
81 4 0.02
82 14 0.06
83 65 0.30
84 61 0.28
85 18 0.08
86 4 0.02
87 10 0.05
88 33 0.15
89 8 0.04
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.20
Consensus pattern (81 bp):
AGGACAAAAGGAAAAAGGAAATAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAA
TGCATCATGCTCTTTG
Found at i:1200221 original size:123 final size:121
Alignment explanation
Indices: 1200075--1200771 Score: 834
Period size: 123 Copynumber: 5.8 Consensus size: 121
1200065 GGCAAAGGAG
* * * *
1200075 AAAAGGAAAAGGCGTCATGCTCTTTGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTTGAAA
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGAGCTTT-AAA
* *
1200140 AGAAAAGGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTCGTGTGGGTTTT
65 AGAAAAGGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
1200197 CAAAAGAAAAAGGCATCTTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGAGCTTTGAA
1 -AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGAGCTTT-AA
* *
1200262 AAGAAAAAGGTGTCCTGCTCTTTGAGGACT-AGAAAGGTGCCACCAACTTGTGTAGGCTTT
64 AAG-AAAAGGCGTCCTGCTCTTTGAGGACTAAG-AA-GTGCCACCAACTTGTGTGGGCTTT
* * * *
1200322 AAAAGGAGAAGGCATCCTGCTCCTTGAGGACTGAAAACTGCCACCAACTTGTGTG-GTCTTTAAA
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGAG-CTTT-AA
* * * * *
1200386 AAGAGAAA-GCATCCTACTCTTTGAAGACTGAA-AGGTGCCACCAACTTATGTGGGCTTT
64 AAGA-AAAGGCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTT
* *
1200444 AAAAGGAAAAGGCATCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAA
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGAGCTTTAAA
* * * *
1200509 AGGAAAAGGCGTCCTGCTCTTTAAAGACT--GAAGGTGCCACCAGCTTGTATGGGCTTT
65 A-GAAAAGGCGTCCTGCTCTTTGAGGACTAAGAA-GTGCCACCAACTTGTGTGGGCTTT
* *
1200566 -----G-AAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGAGCTTTAAAA
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGAGCTTTAAAA
* *
1200625 GGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT
66 -GAAAAGGCGTCCTGCTCTTTGAGGACTA-AGAAGTGCCACCAACTTGTGTGGGCTTT
* * *
1200683 AAAAGGGAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGAGCTTT----
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGAGCTTTAAAA
1200744 G-AAAGGCGTCCTGCTCTTTGAGGACTAA
66 GAAAAGGCGTCCTGCTCTTTGAGGACTAA
1200772 AGGGTGAAAT
Statistics
Matches: 503, Mismatches: 49, Indels: 51
0.83 0.08 0.08
Matches are distributed among these distances:
115 55 0.11
116 26 0.05
117 48 0.10
118 3 0.01
121 1 0.00
122 80 0.16
123 181 0.36
124 87 0.17
125 22 0.04
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (121 bp):
AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGAGCTTTAAAA
GAAAAGGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:1200239 original size:62 final size:61
Alignment explanation
Indices: 1200075--1200777 Score: 828
Period size: 62 Copynumber: 11.7 Consensus size: 61
1200065 GGCAAAGGAG
* * * *
1200075 AAAAGGAAAAGGCGTCATGCTCTTTGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
1200136 GAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAAGAA-GTGCCACCAACTCGTGTGGGTTTT
1 -AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAA-AAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
1200197 CAAAAGAAAAAGGCATCTTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGAGCTTT
1 -AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* ** *
1200259 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTT
1 -AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
1200322 AAAAGGAGAAGGCATCCTGCTCCTTGAGGACTGAAAA-CTGCCACCAACTTGTGTGGTCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
1200383 AAAAAGAGAAA-GCATCCTACTCTTTGAAGACTGAAAGGTGCCACCAACTTATGTGGGCTTT
1 AAAAGGA-AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
1200444 AAAAGGAAAAGGCATCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
1200506 AAAAGGAAAAGGCGTCCTGCTCTTTAAAGACT-GAAGGTGCCACCAGCTTGTATGGGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
1200566 -----G-AAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGAGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* **
1200621 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
1200683 AAAAGGGAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGAGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
1200744 -----G-AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTG
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
1200778 AAATGAGAGA
Statistics
Matches: 555, Mismatches: 69, Indels: 41
0.83 0.10 0.06
Matches are distributed among these distances:
54 22 0.04
55 56 0.10
56 1 0.00
60 31 0.06
61 195 0.35
62 224 0.40
63 26 0.05
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (61 bp):
AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:1214343 original size:79 final size:78
Alignment explanation
Indices: 1214132--1214585 Score: 356
Period size: 79 Copynumber: 5.8 Consensus size: 78
1214122 ACGGGGCTGC
* ** * * * * *
1214132 AGTATCCCCGATTATGAAAAATCGGTGTTCTGGAAATAAAATC-GAGGTTGGAGTATCCCCTCGA
1 AGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGTCAG-GGTTGGAGTATCCCCTTGA
* * *
1214196 AAATAATGGGTTGG
65 AAATAACGGGGTAG
* * **** * * * *
1214210 AGTATCCCTGATTAT-AGAAAATTGGCATTTT-GAAGATAAAATCGGGGTTGGAGTATTCCCTTA
1 AGTATCCCCGATTGTGA-AAAATCAATATTTTAGAA-ATAAAGTCAGGGTTGGAGTATCCCCTTG
1214273 AAAATAACGGGGTAGG
64 AAAATAACGGGGTA-G
* ** * * * *** *
1214289 AGTATCCCCGATTGTGAAAAATCGATGCTTTAGAATTAAGGTCAGGTTTGGAGTATCCCCACCAG
1 AGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTATCCCCTTGAA
*
1214354 AATAACGAGGTTAG
66 AATAACG-GGGTAG
* * * *
1214368 AGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTATCCCTTTGGA
1 AGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTATCCCCTTGAA
*
1214433 AATAATGGGGTTAG
66 AATAACGGGG-TAG
** * * * *
1214447 AGTATCCTTGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTTGGA
1 AGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTATCCCCTTGAA
* *
1214512 AATAACGGGATTGG
66 AATAACGGG-GTAG
* ** * * * *
1214526 AGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCC
1 AGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTATCCCC
1214586 GAGATGAAAA
Statistics
Matches: 305, Mismatches: 62, Indels: 17
0.79 0.16 0.04
Matches are distributed among these distances:
77 4 0.01
78 60 0.20
79 233 0.76
80 8 0.03
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (78 bp):
AGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTATCCCCTTGAA
AATAACGGGGTAG
Found at i:1214443 original size:158 final size:152
Alignment explanation
Indices: 1214132--1214584 Score: 433
Period size: 158 Copynumber: 2.9 Consensus size: 152
1214122 ACGGGGCTGC
* * * * * *
1214132 AGTATCCCCGATTATGAAAAATCGGTGTTCTGGAAATAAAATCGAGGTTGGAGTATCCCCTCGAA
1 AGTATCCCCGATTGTGAAAAATCGATGTT-TAGAAATAAAGTC-AGGTTGGAGTATCCCC-CCAG
* **
1214197 AATAATGGGTTGGAGTATCCCTGATTAT-AGAAAATTGGCATTTTGAAGATAAAATCGGGGTTGG
63 AATAACGGGTTGGAGTATCCCTGATTATGAG-AAATTGATATTTTGAA-ATAAAATCGGGGTTGG
1214261 AGTATTCCCTTAAAAATAACGGGG-TAGG
126 AGTA-TCCCTTAAAAATAACGGGGTTA-G
* *
1214289 AGTATCCCCGATTGTGAAAAATCGATGCTTTAGAATTAAGGTCAGGTTTGGAGTATCCCCACCAG
1 AGTATCCCCGATTGTGAAAAATCGATG-TTTAGAAATAAAGTCAGG-TTGGAGTATCCCC-CCAG
* * ** * *
1214354 AATAACGAGGTTAGAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGTCAGGGTTGG
63 AATAACG-GGTTGGAGTATCCCTGATTATGAGAAATTGATATTTT-GAAATAAAATCGGGGTTGG
** *
1214419 AGTATCCCTTTGGAAATAATGGGGTTAG
126 AGTATCCC-TTAAAAATAACGGGGTTAG
** * * * * * ***
1214447 AGTATCCTTGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTTGGA
1 AGTATCCCCGATTGTGAAAAATCGAT-GTTTAGAAATAAAGTC-AGGTTGGAGTATCCCCCCAG-
* * *
1214512 AATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGG
63 AATAACGGG-TTGGAGTATCCCTGATTATGAGAAATTGATATTTT-GAAATAAAATCGGGGTTGG
1214577 AGTATCCC
126 AGTATCCC
1214585 CGAGATGAAA
Statistics
Matches: 242, Mismatches: 43, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
156 3 0.01
157 62 0.26
158 168 0.69
159 9 0.04
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (152 bp):
AGTATCCCCGATTGTGAAAAATCGATGTTTAGAAATAAAGTCAGGTTGGAGTATCCCCCCAGAAT
AACGGGTTGGAGTATCCCTGATTATGAGAAATTGATATTTTGAAATAAAATCGGGGTTGGAGTAT
CCCTTAAAAATAACGGGGTTAG
Found at i:1214613 original size:50 final size:50
Alignment explanation
Indices: 1214517--1214648 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 50
1214507 TTGGAAATAA
* * ** * * *
1214517 CGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAAC
*
1214568 CGGGGTTGGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAAC
**
1214618 CGGGGTTGGCA-TATATCCGAGATGAAAAATC
1 CGGGGTTGG-AGTATCCCCGAGATGAAAAATC
1214649 TAGAAATTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 50 0.71
51 20 0.29
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.27
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAAC
Found at i:1217724 original size:42 final size:41
Alignment explanation
Indices: 1217556--1217732 Score: 148
Period size: 41 Copynumber: 4.4 Consensus size: 41
1217546 CTGCTTTTTA
* * *
1217556 AGGACAAAGG-AAAAGGAGAATGAAATGGGTCTTGCTCCTTA
1 AGGACAAAGGAAAAAGGA-AATGAAATGGGTCCTACTCCTTG
* * ** *
1217597 AGGACGAAGG-AAAA--AAATAAAATGCATCTTAC-CCTTTG
1 AGGACAAAGGAAAAAGGAAATGAAATGGGTCCTACTCC-TTG
* * * * **
1217635 AAGACAAAGGAAAAAGGAAATTAAATGTGTCCTGCTTTTTG
1 AGGACAAAGGAAAAAGGAAATGAAATGGGTCCTACTCCTTG
* *
1217676 AAGACAAAGGAAAAAGGAGAATGAAATGGGTCCTACTTCTTG
1 AGGACAAAGGAAAAAGGA-AATGAAATGGGTCCTACTCCTTG
1217718 AGGACAAAGGAAAAA
1 AGGACAAAGGAAAAA
1217733 ACAAAACAAA
Statistics
Matches: 110, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
37 2 0.02
38 23 0.21
39 5 0.05
41 47 0.43
42 33 0.30
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (41 bp):
AGGACAAAGGAAAAAGGAAATGAAATGGGTCCTACTCCTTG
Found at i:1217745 original size:42 final size:42
Alignment explanation
Indices: 1217632--1217745 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 42
1217622 ATCTTACCCT
** ** * * *
1217632 TTGAAGACAAAGG-AAAAAGGAAATTAAATGTGTCCTGCTTT
1 TTGAAGACAAAGGAAAAAACAAAACAAAATGGGTCCTACTTC
** * **
1217673 TTGAAGACAAAGGAAAAAGGAGAATGAAATGGGTCCTACTTC
1 TTGAAGACAAAGGAAAAAACAAAACAAAATGGGTCCTACTTC
*
1217715 TTGAGGACAAAGGAAAAAACAAAACAAAATG
1 TTGAAGACAAAGGAAAAAACAAAACAAAATG
1217746 CATCTGCCCT
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
41 13 0.22
42 46 0.78
ACGTcount: A:0.47, C:0.11, G:0.23, T:0.19
Consensus pattern (42 bp):
TTGAAGACAAAGGAAAAAACAAAACAAAATGGGTCCTACTTC
Found at i:1217788 original size:124 final size:121
Alignment explanation
Indices: 1217541--1217821 Score: 379
Period size: 124 Copynumber: 2.3 Consensus size: 121
1217531 AAGGAAGAGG
* * *
1217541 GTGTCCTGCTTTTT-AAGGACAAAGG-AAAAGGAGAATGAAATGGGTCTTGCTCCTTAAGGACGA
1 GTGTCCTGCTTTTTGAA-GACAAAGGAAAAAGGAGAATGAAATGGGTCCTACTCCTTAAGGACAA
*
1217604 AGGAAAAAAATAAAATGCATCTTACCCTTTGAAGACAAAGGAAAAAGGAAATTAAAT
65 AGGAAAAAAACAAAATGCATCTTACCCTTTGAAGACAAAGGAAAAAGGAAATTAAAT
* *
1217661 GTGTCCTGCTTTTTGAAGACAAAGGAAAAAGGAGAATGAAATGGGTCCTACTTCTTGAGGACAAA
1 GTGTCCTGCTTTTTGAAGACAAAGGAAAAAGGAGAATGAAATGGGTCCTACTCCTTAAGGACAAA
* *
1217726 GGAAAAAACAAAACAAAATGCATC-TGCCCTTTGAAGACAAAGGAAAAATGAAATTAAAT
66 GG---AAA-AAAACAAAATGCATCTTACCCTTTGAAGACAAAGGAAAAAGGAAATTAAAT
* * * * *
1217785 GTGTCTTACTTTTTGAGGATAAAGGAAAAAGAAGAAT
1 GTGTCCTGCTTTTTGAAGACAAAGGAAAAAGGAGAAT
1217822 AAGGTGCGTC
Statistics
Matches: 142, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
120 22 0.15
121 38 0.27
124 68 0.48
125 14 0.10
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (121 bp):
GTGTCCTGCTTTTTGAAGACAAAGGAAAAAGGAGAATGAAATGGGTCCTACTCCTTAAGGACAAA
GGAAAAAAACAAAATGCATCTTACCCTTTGAAGACAAAGGAAAAAGGAAATTAAAT
Found at i:1217800 original size:41 final size:41
Alignment explanation
Indices: 1217631--1217973 Score: 185
Period size: 41 Copynumber: 8.1 Consensus size: 41
1217621 CATCTTACCC
*
1217631 TTTGAAGACAAAGGAAAAAGGAAATTAAATGTGTCCTGCTT
1 TTTGAAGACAAAGGAAAAAGGAAATTAAATGTGTCCTACTT
* *
1217672 TTTGAAGACAAAGGAAAAAGGAGAATGAAATGGGTCCTACTT
1 TTTGAAGACAAAGGAAAAAGGA-AATTAAATGTGTCCTACTT
* * ** ** ** * **
1217714 CTTGAGGACAAAGGAAAAAACAAAACAAAATGCAT-CTGCCC
1 TTTGAAGACAAAGG-AAAAAGGAAATTAAATGTGTCCTACTT
* *
1217755 TTTGAAGACAAAGGAAAAATGAAATTAAATGTGTCTTACTT
1 TTTGAAGACAAAGGAAAAAGGAAATTAAATGTGTCCTACTT
* * * * * * *
1217796 TTTGAGGATAAAGGAAAAA-GAAGAATAAGGTGCGTCCTGCTG
1 TTTGAAGACAAAGGAAAAAGGAA-ATTAA-ATGTGTCCTACTT
* *
1217838 TTTG-AGAACTAGAAGGGAAAAGAAGGAAA-TAAA-GTACGTCCTGCTC
1 TTTGAAG-AC-A-AA-GG-AAA-AAGGAAATTAAATGT--GTCCTACTT
* * ** * * *
1217884 TTTGAAGACAAAGGAAAAAAGAAA-AAAAACTATCATACTC
1 TTTGAAGACAAAGGAAAAAGGAAATTAAATGTGTCCTACTT
* * *
1217924 TTTGAAGACAAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTC
1 TTTGAAGAC-AAA-GG-AAA-AAGGAAATTAAATGTGTCCTACTT
1217969 TTTGA
1 TTTGA
1217974 GGGCAAAAGA
Statistics
Matches: 229, Mismatches: 52, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
40 32 0.14
41 73 0.32
42 55 0.24
43 12 0.05
44 11 0.05
45 18 0.08
46 20 0.09
47 5 0.02
48 3 0.01
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (41 bp):
TTTGAAGACAAAGGAAAAAGGAAATTAAATGTGTCCTACTT
Found at i:1218066 original size:61 final size:61
Alignment explanation
Indices: 1217985--1218773 Score: 830
Period size: 61 Copynumber: 13.1 Consensus size: 61
1217975 GGCAAAAGAG
* ** * * *
1217985 AAAAGAAAAAGGTGTCCTGCTCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * **
1218046 GAAAA-GAAAAGGCATTCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTCATGTGGGCTTT
1 -AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
1218107 GAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAAGAGGCGCCACCAACTCGGGTGGGCTTT
1 -AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
*
1218168 GAAAA-GAAAATGGCATCCTGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGGAAAA-GGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
1218230 GAAAAGAAAAAGGTGA-CCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTT
1 -AAAAGGAAAAGG-CATCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
1218293 AAAAGGAGAAGGCGTCCTGCTCCTTGAGGACTGAAAA-GTGCCACCAACTTGTATAGTCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
1218354 AAAAGGAGAAA-GCATCCTGCTCTTTGAGGATTGGAAA-GTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGA-AAAGGCATCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
1218415 AAAAGGAAAAGGCATCCTACTCTTTGAGGACTAGAAAAGTACCACAAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
1218477 AAAAGGGAAAGGCGTCCTGCTTTTTGAGGACT-GAAGGTACCACTAGCTTGTGTGGGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
1218537 -----G-AAAGGCATCTTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
1218592 AAAAGGAAAAGGCATCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAA-TTTTATGGGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
1218653 AAAAGGAAAAGGCATCATGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
1218714 -----G-AAAGGCGTCTTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
*
1218769 GAAAG
1 AAAAG
1218774 ACGTCCTGCT
Statistics
Matches: 626, Mismatches: 76, Indels: 52
0.83 0.10 0.07
Matches are distributed among these distances:
54 21 0.03
55 70 0.11
56 3 0.00
60 40 0.06
61 292 0.47
62 168 0.27
63 32 0.05
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (61 bp):
AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:1220473 original size:43 final size:43
Alignment explanation
Indices: 1220383--1220475 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 43
1220373 ATTGGCACCT
* * * *
1220383 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATCGA
*
1220426 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATCGA
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATCGA
1220469 CACCTTT
1 CACCTTT
1220476 TCCATCTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATCGA
Found at i:1220507 original size:52 final size:55
Alignment explanation
Indices: 1220429--1220573 Score: 179
Period size: 52 Copynumber: 2.7 Consensus size: 55
1220419 ACATTGGCAC
1220429 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATCGACA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATCGACATCCTTTTTCACAT
* * * * *
1220481 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATCGACATCCTTTTTCA-CAT
* * * *
1220537 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATAT
1220574 TGGCATCTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
52 37 0.49
53 2 0.03
54 5 0.07
56 32 0.42
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATCGACATCCTTTTTCACAT
Found at i:1220641 original size:67 final size:68
Alignment explanation
Indices: 1220533--1220659 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
1220523 TCCTTTTTCA
* * *
1220533 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
1220597 TCT
66 TCT
* * * *
1220600 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
1220660 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:1221448 original size:20 final size:20
Alignment explanation
Indices: 1221404--1221461 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1221394 ATTTCAACGA
***
1221404 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATATTTT
*
1221424 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
1221444 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
1221462 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:1221565 original size:52 final size:50
Alignment explanation
Indices: 1221502--1221647 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 50
1221492 CATTACTCAC
*
1221502 ATGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAG
* *
1221554 ATGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAG
*
1221606 ATGTATCGATACACTATTAAATGTATCGATACATGCAAGCAA
1 ATGTATCGATACACTATT--ATGTATCGATACATGCAGGCAA
1221648 CTTTTCATAT
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (50 bp):
ATGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:1228082 original size:31 final size:31
Alignment explanation
Indices: 1228045--1228234 Score: 204
Period size: 31 Copynumber: 5.9 Consensus size: 31
1228035 ATCTTTCTTC
1228045 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
1228076 TCAAAGTCCACGACTCAGTGGCATTTTTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
1228106 TCTAAAGTCCACGACTCAATGGCAATCTCTT-T
1 TC-AAAGTCCACGACTCAGTGGC-ATCTTTTCT
1228138 TCAAAGTCCACGACTCAGTGGCATCTTTTCTCT
1 TCAAAGTCCACGACTCAGTGGCATC-TTT-TCT
* * * *
1228171 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 TCAAAGTCCACGACTCAGTGGCATC-TTTTC--T
* * *
1228205 TCAAAGCCCACAACTCCGTGGCATCCTTTT
1 TCAAAGTCCACGACTCAGTGGCAT-CTTTT
1228235 AAGTCCACAA
Statistics
Matches: 139, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
30 5 0.04
31 69 0.50
32 10 0.07
33 26 0.19
34 28 0.20
35 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:1228202 original size:34 final size:34
Alignment explanation
Indices: 1228137--1228234 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 34
1228127 GCAATCTCTT
* * * *
1228137 TTCAAAGTCCACGACTCAGTGGCATC-TTTTCTC
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTC
*
1228170 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTC
1228204 TTCAAAGCCCACAACTCCGTGGCATCCTTTT
1 TTCAAAGCCCACAACTCCGTGGCA-CCTTTT
1228235 AAGTCCACAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 22 0.38
34 30 0.52
35 6 0.10
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (34 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTC
Found at i:1228243 original size:27 final size:27
Alignment explanation
Indices: 1228212--1228316 Score: 129
Period size: 27 Copynumber: 3.7 Consensus size: 27
1228202 TTTTCAAAGC
1228212 CCACAACTCCGTGGCATCCTTTTAAGT
1 CCACAACTCCGTGGCATCCTTTTAAGT
* *
1228239 CCACAACTCTGTGGTATCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGG---C---ATCCTTTTAAGT
*
1228272 CCACAACTCCGTGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCATCCTTTTAAGT
1228299 CCACAACTCCGTGGCATC
1 CCACAACTCCGTGGCATC
1228317 TTTCTCCTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
27 40 0.61
30 2 0.03
33 24 0.36
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.31
Consensus pattern (27 bp):
CCACAACTCCGTGGCATCCTTTTAAGT
Found at i:1228266 original size:33 final size:32
Alignment explanation
Indices: 1228048--1228327 Score: 183
Period size: 31 Copynumber: 9.0 Consensus size: 32
1228038 TTTCTTCTCA
* * **
1228048 AAGTCCACGACTCAGTGGCATCTTTT-CTTCA
1 AAGTCCACAACTCCGTGGCATCTTTTCCTTTT
* * * * *
1228079 AAGTCCACGACTCAGTGGCAT-TTTTTCTCTA
1 AAGTCCACAACTCCGTGGCATCTTTTCCTTTT
* ** * **
1228110 AAGTCCACGACTCAATGGCAATCTCTT--TTCA
1 AAGTCCACAACTCCGTGGC-ATCTTTTCCTTTT
* * **
1228141 AAGTCCACGACTCAGTGGCATCTTTTCTCTTCA
1 AAGTCCACAACTCCGTGGCATCTTTTC-CTTTT
* * *
1228174 AAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTCCTTTT
*
1228206 CAAAGCCCACAACTCCGTGGCA-----TCCTTTT
1 --AAGTCCACAACTCCGTGGCATCTTTTCCTTTT
* *
1228235 AAGTCCACAACTCTGTGGTATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATC-TTTTCCTTTT
1228268 AAGTCCACAACTCCGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTCCTTTT
1228295 AAGTCCACAACTCCGTGGCATCTTTCTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTT-TCCTTTT
1228328 CAAAAGCCCA
Statistics
Matches: 208, Mismatches: 21, Indels: 38
0.78 0.08 0.14
Matches are distributed among these distances:
27 43 0.21
28 1 0.00
29 6 0.03
30 10 0.05
31 62 0.30
32 6 0.03
33 60 0.29
34 20 0.10
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCATCTTTTCCTTTT
Found at i:1228287 original size:60 final size:61
Alignment explanation
Indices: 1228178--1228339 Score: 229
Period size: 60 Copynumber: 2.6 Consensus size: 61
1228168 TCTTCAAAGC
* *
1228178 CCACAACTCCGTGGCACCTTTTT-CTTTTCAAAGCCCACAACTCCGTGGCATCCTTTTAAGT
1 CCACAACTCCGTGGCATCTTTTTCCTTTT-AAAGCCCACAACTCCGTGGCACCCTTTTAAGT
* * *
1228239 CCACAACTCTGTGGTATCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGT
*
1228299 CCACAACTCCGTGGCATCTTTCTCCTTTTCAAAAGCCCACA
1 CCACAACTCCGTGGCATCTTTTTCCTTTT--AAAGCCCACA
1228340 CAAGTCGGTG
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
60 55 0.62
61 20 0.23
62 5 0.06
63 8 0.09
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (61 bp):
CCACAACTCCGTGGCATCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGT
Found at i:1228427 original size:49 final size:49
Alignment explanation
Indices: 1228359--1229517 Score: 877
Period size: 49 Copynumber: 25.0 Consensus size: 49
1228349 GGCATCTTCT
* *
1228359 TTTAAG-CCTAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTATC
1 TTTAAGACC-AATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * *
1228408 TTTAAGACCAATGTGGCTGGCTTTGAATCAGCACATTGGCAGC-TTA--
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
1228454 ---AAGTCCAA-ATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-ATC
*
1228502 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
1228545 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * * *
1228594 CTTAAAACCAATGTCGCTAGCCTTGAATCAGCACATTGG-A-----ACC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * * *
1228637 TTTAAGTCCAATATTGCTGGCCTTAAATCAGCATATTGGCACCTTTGTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
1228686 TTTAAGACCAATGTCACT-GCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * *
1228728 TTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
1228777 TTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
1228820 TTTAAGTCCAATATCGCT-G----G---CAGCATATTGGCACCTTTTTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
1228861 TTTAAGACCAATTTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
1228910 TTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * *
1228959 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * *
1229008 TTGAAGTCC-A-ATCGCTGGCCTTGAATTAGCATATTGGCACCTTTGA--
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-ATC
* * **
1229054 GTT-----CAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TCGTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * * *
1229097 CTTAAGACCAATGTTGCGGGTCTTGAATCAGCACATTGG---C---A--
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * *
1229138 --TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCACC-TTGTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
*
1229184 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------TA-C
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * * **
1229226 ---AAGCCCAGTATCGCTGGCCTTGAATCAGCATATTAGTGCCTTCGTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT--T-ATC
* * * * *
1229275 TTTAAAACCCAATGTCGTTGGCCTTGAATCAACACATTGGCA--TTCATC
1 TTTAAGA-CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * * *
1229323 TTTAAGTCCAATATCACTGGCCTTGAATCAACACAATGGCA--TTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
1229370 TTTAAGTCCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTAACCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT---TATC
* *
1229422 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * * * *
1229471 TTTAAGTCTAATATTGTTGGCCTTGAATCAGCATATTGGCATCTTTA
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1229518 ACATTTCTAA
Statistics
Matches: 898, Mismatches: 130, Indels: 164
0.75 0.11 0.14
Matches are distributed among these distances:
35 12 0.01
36 1 0.00
38 1 0.00
39 61 0.07
41 18 0.02
42 48 0.05
43 148 0.16
44 4 0.00
45 2 0.00
46 3 0.00
47 107 0.12
48 95 0.11
49 286 0.32
50 2 0.00
51 10 0.01
52 74 0.08
53 26 0.03
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
Found at i:1228638 original size:92 final size:92
Alignment explanation
Indices: 1228359--1229516 Score: 949
Period size: 92 Copynumber: 12.5 Consensus size: 92
1228349 GGCATCTTCT
* * *
1228359 TTTAAG-CCTAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTATCTTTAAGACCAATGTG
1 TTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTC
* *
1228423 GCTGGCTTTGAATCAGCACATTGGCAGC
65 GCTGGCCTTGAATCAGCACATTGGCACC
* *
1228451 TTAAAGTCCAA-ATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATCTTTAAGACCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGACCAATG
1228515 TCGCTGGCCTTGAATCAGCACATTGGCACC
63 TCGCTGGCCTTGAATCAGCACATTGGCACC
* *
1228545 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCCTTAAAACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* *
1228610 CTAGCCTTGAATCAGCACATTGGAACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
1228637 TTTAAGTCCAATATTGCTGGCCTTAAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1228702 CT-GCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
1228728 TTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1228793 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
1228820 TTTAAGTCCAATATCGCT-G----G---CAGCATATTGGCACCTTTTTCTTTAAGACCAATTTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
*
1228877 CTGGCCTTGAATCAGCATATTGGCACCTTTGTC
66 CTGGCCTTGAATCAGCACATTGGCA-C-----C
* * * * ** *
1228910 TTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1228975 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* **
1229002 TTCAACTTGAAGTCC-A-ATCGCTGGCCTTGAATTAGCATATTGGCACCTTTG------AGTTCA
1 -T----TT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCA
* *
1229059 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTC
60 ATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-C
* * * * * * * *
1229094 GTCCTTAAGACCAATGTTGCGGGTCTTGAATCAGCACATTGGCA----------TAAGCCCAATA
1 -T--TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATG
* *
1229149 TCGCTGGCCTTGAATCAGCATATTAGCACCTTGTC
63 TCGCTGGCCTTGAATCAGCACATTGGCA-C----C
* * * * * * *
1229184 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------T-AC---AAGCCCAGTATCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* *
1229239 CTGGCCTTGAATCAGCATATTAGTGCCTTCGTCATC
66 CTGGCCTTGAATCAGCACA-T--TG-----G-CACC
** * * * * ** * *
1229275 TTTAAAACCCAATGTCGTTGGCCTTGAATCAACACATTGGCA--TTCATCTTTAAGTCCAATATC
1 TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTC
* * *
1229338 ACTGGCCTTGAATCAACACAATGGCATTCATC
65 GCTGGCCTTGAATCAGCACATTGGCA--C--C
* * **
1229370 TTTAAGTCCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTAACCATCTTTAAGACCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT---TGTCTTTAAGACCAATG
1229435 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
63 TCGCTGGCCTTGAATCAGCACATTGGCA----C--C
* * * *
1229471 TTTAAGTCTAATATTGTTGGCCTTGAATCAGCATATTGGCATCTTT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
1229517 AACATTTCTA
Statistics
Matches: 906, Mismatches: 93, Indels: 128
0.80 0.08 0.11
Matches are distributed among these distances:
84 58 0.06
85 1 0.00
87 103 0.11
88 1 0.00
89 6 0.01
90 57 0.06
91 151 0.17
92 187 0.21
93 3 0.00
94 86 0.09
95 40 0.04
96 33 0.04
97 7 0.01
98 61 0.07
99 40 0.04
100 27 0.03
101 45 0.05
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:1229161 original size:39 final size:39
Alignment explanation
Indices: 1229118--1229255 Score: 132
Period size: 39 Copynumber: 3.3 Consensus size: 39
1229108 TGTTGCGGGT
1229118 CTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGC
1 CTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGC
* * * *
1229157 CTTGAATCAGCATATTAGCACCTTGTCTTTAAGACCAATGTCGCTGGC
1 CTTGAATCAGC-----A-CA--TTGGC-ATAAGCCCAATATCGCTGGC
* * *
1229205 CTTGAATCAGCACATTGGTACAAGCCCAGTATCGCTGGC
1 CTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGC
1229244 CTTGAATCAGCA
1 CTTGAATCAGCA
1229256 TATTAGTGCC
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
39 38 0.48
40 3 0.04
42 2 0.03
43 1 0.01
44 1 0.01
45 2 0.03
47 4 0.05
48 28 0.35
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
CTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGC
Found at i:1229171 original size:87 final size:87
Alignment explanation
Indices: 1228966--1229316 Score: 341
Period size: 87 Copynumber: 3.9 Consensus size: 87
1228956 ATCTTTAAGT
* * * * *
1228966 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT--TCAACTTGAAGTCCAA--TCGCTGGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTCGTC--CTT-AAGACCAATGTCGCGGGC
* * * *
1229027 CTTGAATTAGCATATTGGCACCTTTGAGT
63 CTTGAATCAGCACATTGGCA-C---AAGC
* * * *
1229056 TCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCGTCCTTAAGACCAATGTTGCGGGTCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTCGTCCTTAAGACCAATGTCGCGGGCCTT
*
1229121 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCACAAGC
* * *
1229143 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTCGTCCTTAAGACCAATGTCGCGGGCCTT
*
1229208 GAATCAGCACATTGGTACAAGC
66 GAATCAGCACATTGGCACAAGC
* ** * **
1229230 CCAGTATCGCTGGCCTTGAATCAGCATATTAGTGCCTTCGTCATCTTTAAAACCCAATGTCGTTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACC-TCGTC--C-TTAAGA-CCAATGTCGCGG
*
1229295 GCCTTGAATCAACACATTGGCA
61 GCCTTGAATCAGCACATTGGCA
1229317 TTCATCTTTA
Statistics
Matches: 222, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
87 113 0.51
88 4 0.02
89 7 0.03
90 37 0.17
91 28 0.13
92 33 0.15
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTCGTCCTTAAGACCAATGTCGCGGGCCTT
GAATCAGCACATTGGCACAAGC
Found at i:1229443 original size:52 final size:47
Alignment explanation
Indices: 1229283--1229512 Score: 289
Period size: 47 Copynumber: 4.7 Consensus size: 47
1229273 TCTTTAAAAC
* *
1229283 CCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAACACATTGGCATTCATCTTTAAGT
* *
1229330 CCAATATCACTGGCCTTGAATCAACACAATGGCATTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAACACATTGGCATTCATCTTTAAGT
*
1229377 CCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTAACCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAACACATTGGCA--TT---CATCTTTAAGT
* *
1229429 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAACACATTGGCA--TTCATCTTTAAGT
* * * * *
1229478 CTAATATTGTTGGCCTTGAATCAGCATATTGGCAT
1 CCAATATCGCTGGCCTTGAATCAACACATTGGCAT
1229513 CTTTAACATT
Statistics
Matches: 163, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
47 76 0.47
49 41 0.25
52 46 0.28
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (47 bp):
CCAATATCGCTGGCCTTGAATCAACACATTGGCATTCATCTTTAAGT
Found at i:1229642 original size:99 final size:100
Alignment explanation
Indices: 1229354--1229607 Score: 257
Period size: 101 Copynumber: 2.5 Consensus size: 100
1229344 CTTGAATCAA
* * * *** * * *
1229354 CACAATGGCA-TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAACACATTGGCA-CCTTAA
1 CACATTGGCACTTCATCTTCAAGTCTAATATTATTGGCCATGAATCAGCACATTGGCATCTTTAA
* * * **
1229417 CCATCTT-TAAGACCAATG-TCGCTGGCCTTGAATCAG
66 -CAT-TTCTAAGCCCAATGAT-GCTAGCTTTGTCTCAG
* * * *
1229453 CACATTGGCACCTTCATCTTTAAGTCTAATATTGTTGGCCTTGAATCAGCATATTGGCATCTTTA
1 CACATTGGCA-CTTCATCTTCAAGTCTAATATTATTGGCCATGAATCAGCACATTGGCATCTTTA
1229518 ACATTTCTAAGCCCAATGATGCTAGCTTTGTCTCAG
65 ACATTTCTAAGCCCAATGATGCTAGCTTTGTCTCAG
* *
1229554 CACATTGGCA-TTCTTCTTCAAGTCTAATGTTATTGGCCATGAATCAGCACATTG
1 CACATTGGCACTTCATCTTCAAGTCTAATATTATTGGCCATGAATCAGCACATTG
1229608 TCATTCTTCG
Statistics
Matches: 132, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
99 47 0.36
100 2 0.02
101 77 0.58
102 6 0.05
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (100 bp):
CACATTGGCACTTCATCTTCAAGTCTAATATTATTGGCCATGAATCAGCACATTGGCATCTTTAA
CATTTCTAAGCCCAATGATGCTAGCTTTGTCTCAG
Found at i:1230484 original size:13 final size:13
Alignment explanation
Indices: 1230466--1230490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1230456 ATTACTCAAA
1230466 TGTATCGATACAT
1 TGTATCGATACAT
1230479 TGTATCGATACA
1 TGTATCGATACA
1230491 CTGATCTTTG
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:1240249 original size:13 final size:13
Alignment explanation
Indices: 1240231--1240255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1240221 CATTTTATGG
1240231 TGTATCGATACAA
1 TGTATCGATACAA
1240244 TGTATCGATACA
1 TGTATCGATACA
1240256 TACTTTGTGT
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:1240271 original size:32 final size:33
Alignment explanation
Indices: 1240208--1240275 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1240198 CGTTACAAGC
*
1240208 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
1240241 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
1240273 CAA
1 CAA
1240276 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:1240365 original size:13 final size:13
Alignment explanation
Indices: 1240347--1240371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1240337 ACAATGCAAC
1240347 ATGTATCGATACA
1 ATGTATCGATACA
1240360 ATGTATCGATAC
1 ATGTATCGATAC
1240372 TGTGCAACAT
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):
ATGTATCGATACA
Found at i:1240366 original size:33 final size:33
Alignment explanation
Indices: 1240329--1240394 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1240319 TCATTTTCAA
1240329 GTATCGATACAATGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
**
1240362 GTATCGATACTGTGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
1240395 TAAATGTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (33 bp):
GTATCGATACAATGCAACATGTATCGATACAAT
Found at i:1243930 original size:79 final size:78
Alignment explanation
Indices: 1243835--1244220 Score: 386
Period size: 79 Copynumber: 4.9 Consensus size: 78
1243825 TGAGGATAAC
* *
1243835 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAATAAAATTGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGT
1243900 ATCACCTCGAAAAT
66 ATC-CCTCGAAAAT
* * **
1243914 AACGGGGTTGGAGTATCCCTGATTAT-AGAAAATTGACATTTT-GAAAATAAAATCGGGGTTGGA
1 AACGGGGTTGGAGTATCCCCGATTATGA-AAAATCGATGTTTTAG-AAATAAAATCGGGGTTGGA
*
1243977 GTATCCCCTCAAAAAT
64 GTAT-CCCTCGAAAAT
* * * * **
1243993 AACGGGGTAGGAATATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGTCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGT
*
1244058 AT-CCTCGCTAGAAT
66 ATCCCTCG--AAAAT
* * * * * * ** *
1244072 AAACGGGATTGGAGTATCTCCGATTGTGAGAAATCAAT-ATTTAGAAATAAAGCCGAGGTTGGAG
1 -AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAG
* * *
1244136 TATCTCTTTGGAAAT
65 TATC-CCTCGAAAAT
* * * *
1244151 AACGGGATTGGAATATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA-CTGGGGTTAGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATC-GGGGTTGGAG
1244215 TATCCC
65 TATCCC
1244221 CGAGATGAAA
Statistics
Matches: 252, Mismatches: 43, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
77 4 0.02
78 35 0.14
79 176 0.70
80 34 0.13
81 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGT
ATCCCTCGAAAAT
Found at i:1244218 original size:158 final size:156
Alignment explanation
Indices: 1243835--1244219 Score: 436
Period size: 158 Copynumber: 2.4 Consensus size: 156
1243825 TGAGGATAAC
* * *
1243835 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAATAAAATTGGGGTTGGAGT
1 AACGGGGTTGGAATATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACTGGGGTTGGAGT
* ** *
1243900 ATCACCTCGAAAATAACGGGGTTGGAGTATCCCTGATTATAGAAAATTGACATTTTGAAAATAAA
66 AT--CCTCGAAAATAACGGGATTGGAGTATCCCTGATTATAGAAAATCAACATTTAGAAAATAAA
* *
1243965 ATCGGGGTTGGAGTATCCCCTCAAAAAT
129 ACCGAGGTTGGAGTATCCCCTCAAAAAT
* * * **
1243993 AACGGGGTAGGAATATCCCCGATTGTGAAAAATCGATGCTTTAGAAAT-AAGGTCGGGGTTGGAG
1 AACGGGGTTGGAATATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACT-GGGGTTGGAG
* * *
1244057 TATCCTCGCTAGAATAAACGGGATTGGAGTATCTCC-GATTGT-GAGAAATCAATATTTAG-AAA
65 TATCCTCG--AAAAT-AACGGGATTGGAGTATC-CCTGATTATAGA-AAATCAACATTTAGAAAA
* * * ***
1244119 TAAAGCCGAGGTTGGAGTATCTCTTTGGAAAT
125 TAAAACCGAGGTTGGAGTATCCCCTCAAAAAT
* * *
1244151 AACGGGATTGGAATATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTAGAGT
1 AACGGGGTTGGAATATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACTGGGGTTGGAGT
1244216 ATCC
66 ATCC
1244220 CCGAGATGAA
Statistics
Matches: 190, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
156 5 0.03
157 3 0.02
158 146 0.77
159 34 0.18
160 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (156 bp):
AACGGGGTTGGAATATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACTGGGGTTGGAGT
ATCCTCGAAAATAACGGGATTGGAGTATCCCTGATTATAGAAAATCAACATTTAGAAAATAAAAC
CGAGGTTGGAGTATCCCCTCAAAAAT
Found at i:1244233 original size:50 final size:50
Alignment explanation
Indices: 1244164--1244284 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 50
1244154 GGGATTGGAA
* ** * *
1244164 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTAGAG
1 TATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAG
* *
1244215 TATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTCGAG
1 TATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAG
** *
1244265 TATCCTTGAGAAGAAAAATC
1 TATCCCCGAGATGAAAAATC
1244285 TAGAAATTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 51 0.85
51 9 0.15
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (50 bp):
TATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAG
Found at i:1247543 original size:13 final size:13
Alignment explanation
Indices: 1247525--1247550 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1247515 TACACAAAGT
1247525 ATGTATCGATACA
1 ATGTATCGATACA
1247538 ATGTATCGATACA
1 ATGTATCGATACA
1247551 CAAAAAAATT
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
Done.