Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold267
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: 2306539
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 12 of 15
Found at i:1825968 original size:52 final size:52
Alignment explanation
Indices: 1825912--1826040 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1825902 CACTGATCTT
* *
1825912 TGTATCGATACATGGAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1825964 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1826016 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1826041 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1839884 original size:1 final size:1
Alignment explanation
Indices: 1839878--1839952 Score: 78
Period size: 1 Copynumber: 75.0 Consensus size: 1
1839868 CGTCCTCCAC
* * * * * * *
1839878 AAAAAAACAAAAAAACAAAAAAAAAACAAAAACAAAAAAAAAACAAAAAAAAACAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
1839943 ACAAAAAAAA
1 AAAAAAAAAA
1839953 GGTCCGGATG
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1839898 original size:17 final size:17
Alignment explanation
Indices: 1839876--1839952 Score: 106
Period size: 17 Copynumber: 4.6 Consensus size: 17
1839866 GGCGTCCTCC
*
1839876 ACAAAAAAACAA-AAAA
1 ACAAAAAAAAAACAAAA
1839892 ACAAAAAAAAAACAAAA
1 ACAAAAAAAAAACAAAA
1839909 ACAAAAAAAAAACAAAA
1 ACAAAAAAAAAACAAAA
1839926 A-AAAACAAACAAA-AAAA
1 ACAAAA-AAA-AAACAAAA
1839943 ACAAAAAAAA
1 ACAAAAAAAA
1839953 GGTCCGGATG
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
16 16 0.29
17 33 0.59
18 7 0.12
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
ACAAAAAAAAAACAAAA
Found at i:1839900 original size:11 final size:11
Alignment explanation
Indices: 1839878--1839952 Score: 89
Period size: 12 Copynumber: 6.5 Consensus size: 11
1839868 CGTCCTCCAC
1839878 AAAAAAACAAAA
1 AAAAAAAC-AAA
*
1839890 AAACAAAAAAAA
1 AAA-AAAACAAA
1839902 AACAAAAACAAA
1 AA-AAAAACAAA
1839914 AAAAAAAC-AA
1 AAAAAAACAAA
1839924 AAAAAAACAAACA
1 AAAAAAAC-AA-A
1839937 AAAAAAACAAA
1 AAAAAAACAAA
1839948 AAAAA
1 AAAAA
1839953 GGTCCGGATG
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
10 10 0.18
11 12 0.21
12 20 0.36
13 14 0.25
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:1839908 original size:25 final size:24
Alignment explanation
Indices: 1839878--1839952 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 24
1839868 CGTCCTCCAC
1839878 AAAAAAACAAAAAAACAAAAAAAA
1 AAAAAAACAAAAAAACAAAAAAAA
1839902 AACAAAAACAAAAAAA-AAACAAAAA
1 AA-AAAAACAAAAAAACAAA-AAAAA
1839927 AAAACAAACAAAAAAAACAAAAAAAA
1 AAAA-AAAC-AAAAAAACAAAAAAAA
1839953 GGTCCGGATG
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
24 7 0.15
25 24 0.52
26 12 0.26
27 3 0.07
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAAAAACAAAAAAACAAAAAAAA
Found at i:1841429 original size:29 final size:29
Alignment explanation
Indices: 1841390--1841769 Score: 383
Period size: 29 Copynumber: 13.0 Consensus size: 29
1841380 TCACTCTTCA
* *
1841390 AAAGTCCACAAGTCAGTGGCATATTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
1841419 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * * *
1841449 GAAGCCCACAAGTTAGTGGCAAC-CTTTA
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1841477 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
1841506 AAAGCCCACAAGTCAGTGGCATTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* *
1841536 AAAAGCCCACAAGTCAGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
1841564 AAAGCCCACAAATTAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
*
1841594 GAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
1841623 AAAGCCCACAAGTCAGTGGCATTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* *
1841653 AAAAGCCCACAAGTCAGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
1841681 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * ** *
1841711 GAAGCCCACAACTTGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
1841740 AAAGTCGACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
1841770 TTTTGTAAGC
Statistics
Matches: 291, Mismatches: 47, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
27 39 0.13
28 31 0.11
29 93 0.32
30 86 0.30
31 42 0.14
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:1841769 original size:117 final size:117
Alignment explanation
Indices: 1841390--1841743 Score: 527
Period size: 117 Copynumber: 3.0 Consensus size: 117
1841380 TCACTCTTCA
* * * * *
1841390 AAAGTCCACAAGTCAGTGGCA-TATTTTTC-AAAGCCCACAAATCAGTGGCACCCTTTTTCGAAG
1 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACC---TTCAAAG
* * **
1841453 CCCACAAGTTAGTGGCAACC--TTTAAAAGCCCACAAGTCAGTGGCATCTTTTTC
63 CCCACAAATTAGTGGCACCCTTTTTCGAAGCCCACAAGTCAGTGGCATCTTTTTC
1841506 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCC
1841571 ACAAATTAGTGGCACCCTTTTTCGAAGCCCACAAGTCAGTGGCATCTTTTTC
66 ACAAATTAGTGGCACCCTTTTTCGAAGCCCACAAGTCAGTGGCATCTTTTTC
1841623 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCC
* * ** *
1841688 ACAAATCAGTGGCACCCTTTTTCGAAGCCCACAACTTGGTGGCATCTTTTCC
66 ACAAATTAGTGGCACCCTTTTTCGAAGCCCACAAGTCAGTGGCATCTTTTTC
1841740 AAAG
1 AAAG
1841744 TCGACAACTC
Statistics
Matches: 220, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
115 24 0.11
116 20 0.09
117 154 0.70
118 22 0.10
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (117 bp):
AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCC
ACAAATTAGTGGCACCCTTTTTCGAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:1841847 original size:32 final size:31
Alignment explanation
Indices: 1841806--1841910 Score: 140
Period size: 32 Copynumber: 3.4 Consensus size: 31
1841796 CTCTTTTTCT
* *
1841806 TCTAAAGCCCATACAAGTTGGTGGCAATCCCC
1 TCTAAAGCCCACACAAGTCGGTGGCAA-CCCC
*
1841838 TCTAAAGCCCAGACAAGTCGGTGGCAACCCTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCC-C
* *
1841870 TCTAAAGCCCACACAAGTCAGTGGCAACCCT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCC
1841901 TCT-AAGCCCA
1 TCTAAAGCCCA
1841911 ATATCGCTGG
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
30 7 0.10
31 6 0.09
32 54 0.81
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (31 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCCC
Found at i:1841994 original size:21 final size:21
Alignment explanation
Indices: 1841970--1842080 Score: 68
Period size: 21 Copynumber: 5.2 Consensus size: 21
1841960 ATGTAGCTGG
1841970 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
* * * *
1841991 CCTTTAAGTC--CAATATAGCCGG
1 CCTTGAA-TCAGC-ATATTGGC-A
*
1842013 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCATATTGGCA
* **
1842034 CCTTTAAGTCCAATATAGTTGG--
1 CCTTGAA-T-CAGCATA-TTGGCA
1842056 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
1842077 CCTT
1 CCTT
1842081 CATCTTTAAG
Statistics
Matches: 64, Mismatches: 16, Indels: 20
0.64 0.16 0.20
Matches are distributed among these distances:
19 4 0.06
20 6 0.09
21 25 0.39
22 20 0.31
23 5 0.08
24 4 0.06
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:1842015 original size:43 final size:43
Alignment explanation
Indices: 1841898--1842265 Score: 448
Period size: 43 Copynumber: 8.1 Consensus size: 43
1841888 CAGTGGCAAC
* *
1841898 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
*
1841942 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* *
1841991 CCTTTAAGTCCAATATAGCCGGCCTTGAATCAGCACATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
*
1842034 CCTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* *
1842077 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
1842126 CCTTCAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC-A
* *
1842170 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ---C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1842218 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1842261 CCTTT
1 CCTTT
1842266 TCCATCTTTA
Statistics
Matches: 282, Mismatches: 24, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
43 160 0.57
44 1 0.00
45 3 0.01
47 2 0.01
48 2 0.01
49 111 0.39
50 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
Found at i:1842088 original size:92 final size:92
Alignment explanation
Indices: 1841949--1842318 Score: 563
Period size: 92 Copynumber: 4.0 Consensus size: 92
1841939 GCACCTTCAT
* *
1841949 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
1842008 GCCGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
1842035 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1842100 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * * *
1842127 CTTCAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCAACTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1842192 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
1842219 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAAT
*
1842284 GTAGCTGGCCTTGAATCAGCACATTGACATC
63 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
1842315 CTTT
1 CTTT
1842319 TTCTCATCTT
Statistics
Matches: 257, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
86 40 0.16
90 1 0.00
92 167 0.65
94 2 0.01
95 42 0.16
96 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1842151 original size:135 final size:137
Alignment explanation
Indices: 1841891--1842264 Score: 530
Period size: 135 Copynumber: 2.8 Consensus size: 137
1841881 CACAAGTCAG
* * *
1841891 TGGCAACCCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAG
1 TGGCAATCCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAG
* *
1841956 TCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATAGCCGGCCTTGAAT
65 TCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCAAGTCCAATATAGCCAGCCTTGAAT
1842021 CAGCACAT
130 CAGCACAT
*
1842029 TGGC-A-CCTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 TGGCAATCCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
* * *
1842092 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCAAGTCCAATATCGCTAGCCTTGAATC
66 CCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCAAGTCCAATATAGCCAGCCTTGAATC
*
1842157 AGCATAT
131 AGCACAT
* *
1842164 TGGCAACTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTT
1 TGGCAA--TC--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
*
1842223 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
62 AAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTT
1842265 TTCCATCTTT
Statistics
Matches: 216, Mismatches: 14, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
135 165 0.76
136 5 0.02
137 2 0.01
138 4 0.02
139 1 0.00
141 39 0.18
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (137 bp):
TGGCAATCCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
CCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCAAGTCCAATATAGCCAGCCTTGAATC
AGCACAT
Found at i:1842297 original size:52 final size:53
Alignment explanation
Indices: 1842219--1842372 Score: 193
Period size: 52 Copynumber: 2.9 Consensus size: 53
1842209 ACATTGGCAC
1842219 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
1842271 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
1842326 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1842373 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 36 0.42
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:1842525 original size:169 final size:174
Alignment explanation
Indices: 1842219--1842592 Score: 449
Period size: 169 Copynumber: 2.2 Consensus size: 174
1842209 ACATTGGCAC
* * *
1842219 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGACACCTTTT-CATCTTTAAGTCCAAT
* * *
1842284 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
65 ATAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCC
* *
1842349 GTGAATCAACATATTGG-CATCTTTATCACT-TTTCTCATCTTCAT
130 GTGAATCAACATATTGGTCAT-TTTATCACTCTTTATCATCATCAT
*
1842393 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGACACC-TTT-ATCTTTAAGTCCAATA
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGACACCTTTTCATCTTTAAGTCCAATA
* ** * ** *
1842456 TCGCTAG-C-TGCATATTGGC-TATT-TTATCCTTTTTCTCATCTTTAAACCCAATATTGTTGGC
66 TAGCTAGCCTTG-A-ATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGC
* * *
1842517 CGTGAATCAACGTATTGGTCCTTTTATCACTCTTTATCCTCATCAT
129 CGTGAATCAACATATTGGTCATTTTATCACTCTTTATCATCATCAT
* * * *
1842563 CTTTAAGACCAGTGTTGCAGGCCTTGAATC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATC
1842593 TGCACAGTGG
Statistics
Matches: 173, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
169 62 0.36
170 44 0.25
171 23 0.13
173 3 0.02
174 41 0.24
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (174 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGACACCTTTTCATCTTTAAGTCCAATA
TAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCG
TGAATCAACATATTGGTCATTTTATCACTCTTTATCATCATCAT
Found at i:1843219 original size:13 final size:13
Alignment explanation
Indices: 1843201--1843225 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1843191 CATAAAGTGT
1843201 TGTATCGATACAA
1 TGTATCGATACAA
1843214 TGTATCGATACA
1 TGTATCGATACA
1843226 TTTTTTTTGT
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:1843305 original size:13 final size:13
Alignment explanation
Indices: 1843287--1843311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1843277 ATCACTTAAA
1843287 TGTATCGATACAT
1 TGTATCGATACAT
1843300 TGTATCGATACA
1 TGTATCGATACA
1843312 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:1843324 original size:20 final size:21
Alignment explanation
Indices: 1843298--1843352 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
1843288 GTATCGATAC
1843298 ATTGTATCGATACACTGATCT
1 ATTGTATCGATACACTGATCT
* *
1843319 -TTGTATCGATACATTGTTCT
1 ATTGTATCGATACACTGATCT
*
1843339 AATGTATCGATACA
1 ATTGTATCGATACA
1843353 AGGTCCCAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (21 bp):
ATTGTATCGATACACTGATCT
Found at i:1843428 original size:13 final size:13
Alignment explanation
Indices: 1843410--1843434 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1843400 CATAAAGTGT
1843410 TGTATCGATACAA
1 TGTATCGATACAA
1843423 TGTATCGATACA
1 TGTATCGATACA
1843435 TTTTTTTTGT
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:1843429 original size:103 final size:101
Alignment explanation
Indices: 1843109--1843454 Score: 333
Period size: 103 Copynumber: 3.3 Consensus size: 101
1843099 TTTTGGTCCA
1843109 AATGTATCGATACATTGTTCTAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTC
1 AATGTATCGATACATT-TT-TAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTC
1843174 AGCGATTTGTATCGATACATAAAGTGTTGTATCGATAC
64 AGCGATTTGTATCGATACATAAAGTGTTGTATCGATAC
** * * * *** *
1843212 AATGTATCGATACATTTTTTTTGTATCGATACAA-TTCAAGCTACTACCAAAAAATGTATCGATA
1 AATGTATCGATACATTTTTAATGTATCGATACAAGGTC--CCAACGGTC-AAAAAT-T-TTGA-A
** * ** * * * *
1843276 CATCA-CTTAAATGTATCGATACAT--TGTATCGATACACTGAT-C
60 TTTCAGC-GATTTGTATCGATACATAAAGTGTTG-TA-TC-GATAC
**
1843318 TTTGTATCGATACATTGTTCTAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTC
1 AATGTATCGATACATT-TT-TAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTC
1843383 AGCGATTTGTATCGATACATAAAGTGTTGTATCGATAC
64 AGCGATTTGTATCGATACATAAAGTGTTGTATCGATAC
**
1843421 AATGTATCGATACATTTTTTTTGTATCGATACAA
1 AATGTATCGATACATTTTTAATGTATCGATACAA
1843455 TTCAAGCTAC
Statistics
Matches: 184, Mismatches: 42, Indels: 36
0.70 0.16 0.14
Matches are distributed among these distances:
100 2 0.01
101 28 0.15
102 11 0.06
103 56 0.30
104 11 0.06
105 11 0.06
106 40 0.22
107 9 0.05
108 14 0.08
109 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (101 bp):
AATGTATCGATACATTTTTAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAG
CGATTTGTATCGATACATAAAGTGTTGTATCGATAC
Found at i:1843473 original size:209 final size:209
Alignment explanation
Indices: 1843111--1843541 Score: 853
Period size: 209 Copynumber: 2.1 Consensus size: 209
1843101 TTGGTCCAAA
1843111 TGTATCGATACATTGTTCTAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAG
1 TGTATCGATACATTGTTCTAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAG
1843176 CGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATTTTTTTTGTATCGA
66 CGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATTTTTTTTGTATCGA
1843241 TACAATTCAAGCTACTACCAAAAAATGTATCGATACATCACTTAAATGTATCGATACATTGTATC
131 TACAATTCAAGCTACTACCAAAAAATGTATCGATACATCACTTAAATGTATCGATACATTGTATC
1843306 GATACACTGATCTT
196 GATACACTGATCTT
1843320 TGTATCGATACATTGTTCTAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAG
1 TGTATCGATACATTGTTCTAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAG
1843385 CGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATTTTTTTTGTATCGA
66 CGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATTTTTTTTGTATCGA
*
1843450 TACAATTCAAGCTACTGCCAAAAAATGTATCGATACATCACTTAAATGTATCGATACATTGTATC
131 TACAATTCAAGCTACTACCAAAAAATGTATCGATACATCACTTAAATGTATCGATACATTGTATC
1843515 GATACACTGATCTT
196 GATACACTGATCTT
1843529 TGTATCGATACAT
1 TGTATCGATACAT
1843542 GAAGGCAAAT
Statistics
Matches: 221, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
209 221 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (209 bp):
TGTATCGATACATTGTTCTAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAG
CGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATTTTTTTTGTATCGA
TACAATTCAAGCTACTACCAAAAAATGTATCGATACATCACTTAAATGTATCGATACATTGTATC
GATACACTGATCTT
Found at i:1843514 original size:13 final size:13
Alignment explanation
Indices: 1843496--1843520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1843486 ATCACTTAAA
1843496 TGTATCGATACAT
1 TGTATCGATACAT
1843509 TGTATCGATACA
1 TGTATCGATACA
1843521 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:1843585 original size:52 final size:52
Alignment explanation
Indices: 1843529--1843657 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1843519 CACTGATCTT
* *
1843529 TGTATCGATACATGAAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1843581 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1843633 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1843658 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1849583 original size:155 final size:154
Alignment explanation
Indices: 1849297--1849595 Score: 343
Period size: 155 Copynumber: 1.9 Consensus size: 154
1849287 TAAAAGACCT
* * * * *
1849297 AAAAATAATCATAGAAAGGTGAGCCTATCCTAAATGCACACCTTTGCCATAAAAGCATCCTAGTG
1 AAAAATAATCATAAAAAGGTGAACCTATCCTAAATACACACCTTTGCCATAAAAGCATCCGAGTA
** * *
1849362 ACTACATTAGACTTTGTTTAGATGAAATTACTAAAATGCCTTTAGGAAATACTTTCATCTTAAAA
66 ACTACATTAGACTCAGTTTAGA-GAAATTACCAAAATGCCTTTAGGAAATACGTTCATCTTAAAA
1849427 GCATCCCGGTGACCCTAATGAACTC
130 GCATCCCGGTGACCCTAATGAACTC
* * * * *
1849452 AAAAATAATCATAAAAATGTGAACCTATCCTAAATACACATCTTTGGCATAAGATCATCTCGA-T
1 AAAAATAATCATAAAAAGGTGAACCTATCCTAAATACACACCTTTGCCATAAAAGCATC-CGAGT
* * * * *
1849516 AACTACATTAGGCTCAGATCTATAGA-AAATTACCAAAATGCCTTTAGGGACTACGTT-GTCTTG
65 AACTACATTAGACTCAG-T-T-TAGAGAAATTACCAAAATGCCTTTAGGAAATACGTTCATCTTA
**
1849579 AAAGCATCTTGGTGACC
127 AAAGCATCCCGGTGACC
1849596 TTAAAGGACT
Statistics
Matches: 119, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
155 84 0.71
156 30 0.25
157 1 0.01
158 4 0.03
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.28
Consensus pattern (154 bp):
AAAAATAATCATAAAAAGGTGAACCTATCCTAAATACACACCTTTGCCATAAAAGCATCCGAGTA
ACTACATTAGACTCAGTTTAGAGAAATTACCAAAATGCCTTTAGGAAATACGTTCATCTTAAAAG
CATCCCGGTGACCCTAATGAACTC
Found at i:1851546 original size:33 final size:33
Alignment explanation
Indices: 1851504--1851570 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
1851494 TAGATTGAGG
*
1851504 AAACATCCATAGTGCCCTTTAGGTTACATACTT
1 AAACATCCATAGTGCCCTTTAGGTCACATACTT
* *
1851537 AAACATCCATGGTGCCCTTTAGGTCACATTCTT
1 AAACATCCATAGTGCCCTTTAGGTCACATACTT
1851570 A
1 A
1851571 CTCTTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (33 bp):
AAACATCCATAGTGCCCTTTAGGTCACATACTT
Found at i:1853004 original size:20 final size:19
Alignment explanation
Indices: 1852975--1853013 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1852965 AGGTCAAAAC
*
1852975 CCTTAAATGTATTGATACA
1 CCTTAAATGTATCGATACA
1852994 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
1853014 GAATGCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:1853041 original size:13 final size:13
Alignment explanation
Indices: 1853023--1853047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1853013 AGAATGCATA
1853023 GTATCGATACATT
1 GTATCGATACATT
1853036 GTATCGATACAT
1 GTATCGATACAT
1853048 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1853060 original size:20 final size:21
Alignment explanation
Indices: 1853035--1853087 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
1853025 ATCGATACAT
*
1853035 TGTATCGATACAT-GACCA-AA
1 TGTATCGATACATGGA-AAGAA
* *
1853055 TGTATCCATACTTGGAAAGAA
1 TGTATCGATACATGGAAAGAA
1853076 TGTATCGATACA
1 TGTATCGATACA
1853088 GGTGATTGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGGAAAGAA
Found at i:1853165 original size:13 final size:13
Alignment explanation
Indices: 1853147--1853172 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1853137 TACACACAAG
1853147 ATGTATCGATACA
1 ATGTATCGATACA
1853160 ATGTATCGATACA
1 ATGTATCGATACA
1853173 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1853189 original size:33 final size:32
Alignment explanation
Indices: 1853129--1853192 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1853119 CTTAACTATT
*
1853129 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
1853161 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
1853193 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:1862127 original size:13 final size:13
Alignment explanation
Indices: 1862109--1862134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1862099 CAATTTTTTG
1862109 TGTATCGATACAT
1 TGTATCGATACAT
1862122 TGTATCGATACAT
1 TGTATCGATACAT
1862135 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1862146 original size:32 final size:33
Alignment explanation
Indices: 1862089--1862152 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1862079 TACAAGCCAA
**
1862089 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1862122 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1862153 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1864700 original size:13 final size:13
Alignment explanation
Indices: 1864682--1864719 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1864672 ATAATCCCCC
1864682 TGTATCGATACAG
1 TGTATCGATACAG
*
1864695 TGTATCGATACAT
1 TGTATCGATACAG
1864708 TGTATCGATACA
1 TGTATCGATACA
1864720 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1866799 original size:15 final size:15
Alignment explanation
Indices: 1866779--1866809 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1866769 ATTTCGTTTG
*
1866779 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1866794 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1866809 G
1 G
1866810 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1868639 original size:21 final size:21
Alignment explanation
Indices: 1868610--1868654 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1868600 AAGTTTTTAT
*
1868610 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1868630 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1868652 TTT
1 TTT
1868655 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1870880 original size:21 final size:20
Alignment explanation
Indices: 1870855--1870907 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
1870845 TACAAGCCAA
**
1870855 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA-TACTTTG
1870876 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
1870895 TGTATCGATACAA
1 TGTATCGATACAA
1870908 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 2 0.07
21 11 0.38
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:1871732 original size:20 final size:19
Alignment explanation
Indices: 1871703--1871741 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1871693 AGGTCAAAAC
1871703 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
1871722 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
1871742 GAATGCACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:1871769 original size:13 final size:13
Alignment explanation
Indices: 1871751--1871775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1871741 AGAATGCACG
1871751 GTATCGATACATT
1 GTATCGATACATT
1871764 GTATCGATACAT
1 GTATCGATACAT
1871776 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1871917 original size:33 final size:32
Alignment explanation
Indices: 1871859--1871920 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
1871849 TAACTGTTTG
*
1871859 TATCGATACACACAAGATGTATCGATACAATA
1 TATCGATACACACAAAATGTATCGATACAATA
*
1871891 TATCGATACATCCCAAAATGTATCGATACA
1 TATCGATACA-CACAAAATGTATCGATACA
1871921 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (32 bp):
TATCGATACACACAAAATGTATCGATACAATA
Found at i:1874924 original size:19 final size:18
Alignment explanation
Indices: 1874889--1874935 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
1874879 AATAGCAAGA
1874889 CAAACAAATTTAATTCAT
1 CAAACAAATTTAATTCAT
**
1874907 CAAACATAATTTCCTTCAT
1 CAAACA-AATTTAATTCAT
*
1874926 CAAAGAAATT
1 CAAACAAATT
1874936 CAAGTACAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (18 bp):
CAAACAAATTTAATTCAT
Found at i:1875007 original size:12 final size:12
Alignment explanation
Indices: 1874990--1875024 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
1874980 ACAAGTAGCA
*
1874990 TATGACTACTCC
1 TATGACTAATCC
1875002 TATGACTAATCC
1 TATGACTAATCC
1875014 TATGACTAATC
1 TATGACTAATC
1875025 ATCACATGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (12 bp):
TATGACTAATCC
Found at i:1876620 original size:13 final size:13
Alignment explanation
Indices: 1876601--1876635 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1876591 AATAGTGCCC
1876601 ATGTATCGATACA
1 ATGTATCGATACA
*
1876614 GTGTATCGATACA
1 ATGTATCGATACA
1876627 ATGTATCGA
1 ATGTATCGA
1876636 CAGTAAGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1881350 original size:142 final size:142
Alignment explanation
Indices: 1881172--1881465 Score: 525
Period size: 142 Copynumber: 2.1 Consensus size: 142
1881162 TGCCCTATGC
* **
1881172 AGTTGCTGTTTTATTGTTTTATTCTTTTTTTCTTTTGCTCGTCACCTTGTTGCTAGTTTTTTCTT
1 AGTTGCTGTTTTATTCTTTTATTCTTTTTTTCTTTTGCTCGTCACCTTACTGCTAGTTTTTTCTT
*
1881237 TGCTATCTTCTGCTGCTCGTCACCTTGCTACTAGCAAATCATGCTAGTTGCTCATGCTAGCTTCT
66 TGCTATCTTCTGCTGCTCGTCACCTTGCTACTAGCAAATCATGCTAGCTGCTCATGCTAGCTTCT
* * *
1881302 GCTGTGGCAGCT
131 GATGTGGAAACT
1881314 AGTTGCTGTTTTATTCTTTTATTCTTTTTTTCTTTTGCTCGTCACCTTACTGCTAGTTTTTTCTT
1 AGTTGCTGTTTTATTCTTTTATTCTTTTTTTCTTTTGCTCGTCACCTTACTGCTAGTTTTTTCTT
1881379 TGCTATCTTCTGCTGCTCGTCACCTTGCTACTAGCAAATCATGCTAGCTGCTCATGCTAGCTTCT
66 TGCTATCTTCTGCTGCTCGTCACCTTGCTACTAGCAAATCATGCTAGCTGCTCATGCTAGCTTCT
1881444 GATGTGGAAACT
131 GATGTGGAAACT
1881456 AGTTGCTGTT
1 AGTTGCTGTT
1881466 GTCCTTACTT
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 145 1.00
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.47
Consensus pattern (142 bp):
AGTTGCTGTTTTATTCTTTTATTCTTTTTTTCTTTTGCTCGTCACCTTACTGCTAGTTTTTTCTT
TGCTATCTTCTGCTGCTCGTCACCTTGCTACTAGCAAATCATGCTAGCTGCTCATGCTAGCTTCT
GATGTGGAAACT
Found at i:1883526 original size:174 final size:174
Alignment explanation
Indices: 1883232--1883586 Score: 516
Period size: 174 Copynumber: 2.0 Consensus size: 174
1883222 TATTGTGCAG
*
1883232 ATTCAAGGCTTGGACTTAAAGATGATAAAGATGAGAATAATGCTAATGTGCTAATTCAAGGTCAG
1 ATTCAAGGCTTGGACTTAAAGATGATAAAGATGAGAATAATGCCAATGTGCTAATTCAAGGTCAG
* * * * **
1883297 CGACATTGTACTTAAAGATGTGAAGAATGATAAAGGTGCTAATATGCTAATTCAAGGCTTACGAT
66 CGACATTGGACTTAAAGATGAGAAGAACGATAAAGGTGCTAATATGCGAATTCAAGGCCAACGAT
*
1883362 ATTGGGCTTCAAAGAAAAAAGATTTGACAAGTTCCAATGTGTTA
131 ATTGGGCTTCAAAGAAAAAAGATTTGACAAGTGCCAATGTGTTA
* * *
1883406 ATTCAAGGTTTGGACTTAAAGATGAT-AAGAATGAGAA-AAGTGCCAATGTGCTAATTTATGGTC
1 ATTCAAGGCTTGGACTTAAAGATGATAAAG-ATGAGAATAA-TGCCAATGTGCTAATTCAAGGTC
* *
1883469 AGCGACGTTGGACTTAAAGATGAGAAGAACGATAAAGGTGCTAATATGCGGATTCAAGGCCAACG
64 AGCGACATTGGACTTAAAGATGAGAAGAACGATAAAGGTGCTAATATGCGAATTCAAGGCCAACG
* * * * *
1883534 ATATTGGGCTTGAAAGAAAGATGATTTGATAAGTGCCAATGTGTTG
129 ATATTGGGCTTCAAAGAAAAAAGATTTGACAAGTGCCAATGTGTTA
1883580 ATTCAAG
1 ATTCAAG
1883587 ACCAACGAAA
Statistics
Matches: 161, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
173 5 0.03
174 156 0.97
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (174 bp):
ATTCAAGGCTTGGACTTAAAGATGATAAAGATGAGAATAATGCCAATGTGCTAATTCAAGGTCAG
CGACATTGGACTTAAAGATGAGAAGAACGATAAAGGTGCTAATATGCGAATTCAAGGCCAACGAT
ATTGGGCTTCAAAGAAAAAAGATTTGACAAGTGCCAATGTGTTA
Found at i:1883687 original size:62 final size:63
Alignment explanation
Indices: 1883621--1883787 Score: 221
Period size: 63 Copynumber: 2.7 Consensus size: 63
1883611 GTTGCCACTG
* * * * *
1883621 ACTTGTGTGGGCTTTAGAAGAGGTTGCCACCAACTTATGTGGGCT-TTAGAAGGTTGCTATCA
1 ACTTGTGTGGGCTTTAGAAGAGGTTGCCACCAGCTTATGTGGGCTCTGAGAAGGTTACCACCA
* *
1883683 ACTTGTGTGGGCTTTAGAGGAGGTTGCCACCAGCTTATGTAGGCTCTGAGAAGGTTACCACCA
1 ACTTGTGTGGGCTTTAGAAGAGGTTGCCACCAGCTTATGTGGGCTCTGAGAAGGTTACCACCA
* * *
1883746 ACTTGAGTGGGCTTTGAGAA-AGGTGGCCACCAGCTTGTGTGG
1 ACTTGTGTGGGCTTT-AGAAGAGGTTGCCACCAGCTTATGTGG
1883788 ATTATAAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
62 42 0.46
63 46 0.51
64 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.29
Consensus pattern (63 bp):
ACTTGTGTGGGCTTTAGAAGAGGTTGCCACCAGCTTATGTGGGCTCTGAGAAGGTTACCACCA
Found at i:1883965 original size:29 final size:28
Alignment explanation
Indices: 1883913--1884013 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
1883903 CTAACTTGTG
*
1883913 GGCTTTAAAAGGGTGCCACCAACTCATA
1 GGCTTTAAAAGGGTGCCACTAACTCATA
** *
1883941 GGCTTTTGAAAA-GGTGCCACTAACTTGTG
1 GGC-TTT-AAAAGGGTGCCACTAACTCATA
* ** *
1883970 GGCTTTAAAAGGGTGCCACTAGCTTGTG
1 GGCTTTAAAAGGGTGCCACTAACTCATA
1883998 GGCTTTAAAAAGGGTG
1 GGCTTT-AAAAGGGTG
1884014 TCATTAGCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
27 4 0.06
28 28 0.44
29 28 0.44
30 4 0.06
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (28 bp):
GGCTTTAAAAGGGTGCCACTAACTCATA
Found at i:1883971 original size:57 final size:57
Alignment explanation
Indices: 1883902--1884047 Score: 177
Period size: 57 Copynumber: 2.5 Consensus size: 57
1883892 GAGGATTGCT
*
1883902 ACTAACTTGTGGGCTTTAAAAGGGTGCCACCAACTCATAGGCTTTTGAAAA-GGTGCC
1 ACTAACTTGTGGGCTTTAAAAGGGTGCCACCAACTCATAGGC-TTTAAAAAGGGTGCC
* * ** * *
1883959 ACTAACTTGTGGGCTTTAAAAGGGTGCCACTAGCTTGTGGGCTTTAAAAAGGGTGTC
1 ACTAACTTGTGGGCTTTAAAAGGGTGCCACCAACTCATAGGCTTTAAAAAGGGTGCC
* * *
1884016 ATTAGCTTGTGGGCTTTGAAAAAGGTGCCACC
1 ACTAACTTGTGGGCTTT-AAAAGGGTGCCACC
1884048 GACTTGTGTG
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
56 7 0.09
57 57 0.75
58 12 0.16
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (57 bp):
ACTAACTTGTGGGCTTTAAAAGGGTGCCACCAACTCATAGGCTTTAAAAAGGGTGCC
Found at i:1884021 original size:29 final size:29
Alignment explanation
Indices: 1883902--1884123 Score: 166
Period size: 29 Copynumber: 7.6 Consensus size: 29
1883892 GAGGATTGCT
*
1883902 ACTAACTTGTGGGCTTT-AAAAGGGTGCC
1 ACTAGCTTGTGGGCTTTAAAAAGGGTGCC
* * ** * *
1883930 ACCAACTCATAGGCTTTTGAAAA-GGTGCC
1 ACTAGCTTGTGGGC-TTTAAAAAGGGTGCC
*
1883959 ACTAACTTGTGGGCTTT-AAAAGGGTGCC
1 ACTAGCTTGTGGGCTTTAAAAAGGGTGCC
*
1883987 ACTAGCTTGTGGGCTTTAAAAAGGGTGTC
1 ACTAGCTTGTGGGCTTTAAAAAGGGTGCC
*
1884016 ATTAGCTTGTGGGCTTTGAAAAA-GGTGCC
1 ACTAGCTTGTGGGCTTT-AAAAAGGGTGCC
* * * *
1884045 AC-CGACTTGTGTGGGTTTTAAGAGGGTTGCC
1 ACTAG-CTTGTG-GGCTTTAAAAAGGG-TGCC
* * * *
1884076 ACCAACTTGTGTGGGCTTTGAAATGGGTGCC
1 ACTAGC-T-TGTGGGCTTTAAAAAGGGTGCC
* *
1884107 ACTAACTTGTGAGCTTT
1 ACTAGCTTGTGGGCTTT
1884124 TGAAAGGATT
Statistics
Matches: 157, Mismatches: 25, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
27 4 0.03
28 36 0.23
29 69 0.44
30 17 0.11
31 16 0.10
32 11 0.07
33 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (29 bp):
ACTAGCTTGTGGGCTTTAAAAAGGGTGCC
Found at i:1884107 original size:31 final size:30
Alignment explanation
Indices: 1883598--1884117 Score: 208
Period size: 32 Copynumber: 17.0 Consensus size: 30
1883588 CCAACGAAAT
* **
1883598 TGGGCTTAG-AAGGGTTGCCACTGACTTGTG
1 TGGGCTTTGAAAGGG-TGCCACCAACTTGTG
* *
1883628 TGGGCTTTAGAAGAGGTTGCCACCAACTTATG
1 TGGGCTTT-GAA-AGGGTGCCACCAACTTGTG
* * *
1883660 TGGGCTTT-AGAAGGTTGCTATCAACTTGTG
1 TGGGCTTTGA-AAGGGTGCCACCAACTTGTG
* * * *
1883690 TGGGCTTTAGAGGAGGTTGCCACCAGCTTATG
1 TGGGCTTT-GA-AAGGGTGCCACCAACTTGTG
* * * * *
1883722 TAGGCTCTGAGAAGGTTACCACCAACTTGAG
1 TGGGCTTTGA-AAGGGTGCCACCAACTTGTG
* *
1883753 TGGGCTTTGAGAAAGGTGGCCACCAGCTTGTG
1 TGGGCTTTGA-AAGGGT-GCCACCAACTTGTG
* * * *
1883785 T-GGATTATAAAAAATAGTTGCCACCAACTTGTG
1 TGGGCTT-T--GAAA-GGGTGCCACCAACTTGTG
* * * * *
1883818 TGGGCTTTAGGGAATGCTGCCAACGA-TATGTG
1 TGGGCTTT--GAAAGGGTGCCACCAACT-TGTG
* * * *
1883850 TAGGCTTTAAAAGGGGTTGCCATCAACTTGGG
1 TGGGCTTTGAAA-GGG-TGCCACCAACTTGTG
* * * *
1883882 TGGGCTCT-AAGAGGATTGCTACTAAC-T-TG
1 TGGGCTTTGAA-AGG-GTGCCACCAACTTGTG
* **
1883911 TGGGCTTTAAAAGGGTGCCACCAAC-T-CA
1 TGGGCTTTGAAAGGGTGCCACCAACTTGTG
* * *
1883939 TAGGCTTTTGAAAAGGTGCCACTAAC-T-TG
1 TGGGC-TTTGAAAGGGTGCCACCAACTTGTG
* * *
1883968 TGGGCTTTAAAAGGGTGCCACTAGC-T-TG
1 TGGGCTTTGAAAGGGTGCCACCAACTTGTG
* * ** *
1883996 TGGGCTTTAAAAAGGGTGTCATTAGC-T-TG
1 TGGGCTTT-GAAAGGGTGCCACCAACTTGTG
* *
1884025 TGGGCTTTGAAAAAGGTGCCACCGACTTGTG
1 TGGGCTTTG-AAAGGGTGCCACCAACTTGTG
*
1884056 TGGG-TTTTAAGAGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAA-AGGG-TGCCACCAACTTGTG
*
1884087 TGGGCTTTGAAATGGGTGCCACTAACTTGTG
1 TGGGCTTTGAAA-GGGTGCCACCAACTTGTG
1884118 AGCTTTTGAA
Statistics
Matches: 378, Mismatches: 84, Indels: 55
0.73 0.16 0.11
Matches are distributed among these distances:
28 41 0.11
29 71 0.19
30 44 0.12
31 89 0.24
32 101 0.27
33 24 0.06
34 8 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (30 bp):
TGGGCTTTGAAAGGGTGCCACCAACTTGTG
Found at i:1884264 original size:29 final size:28
Alignment explanation
Indices: 1884226--1884590 Score: 204
Period size: 29 Copynumber: 12.2 Consensus size: 28
1884216 GTTTTTGGAA
* *
1884226 AAAAGGTGCCAATGACTCGTGGGCTTTTG
1 AAAAGGTGCCACTGACTTGTGGGC-TTTG
*
1884255 AAAAGGTGCCACTGACTTAG-GGGCTTTA
1 AAAAGGTGCCACTGACTT-GTGGGCTTTG
* *
1884283 AAATAGGTTACCACCGACTTGTGTGAGCTTTG
1 AAA-AGG-TGCCACTGACTTGTG-G-GCTTTG
1884315 AAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAGG
1 AAAA-GGTGCCACTGACTTGTGGGC-TTT-----G
1884350 ATTGAAAGGGTGCCACTGACTTGTGGGCTTCTG
1 A---AAA-GGTGCCACTGACTTGTGGGCTT-TG
* ** *
1884383 -AGAGGTTATCACCGACTTGTGTGGGCTTT-
1 AAAAGG-TGCCACTGAC-T-TGTGGGCTTTG
* * **
1884412 AAGAGGGTTGCCATTGACTCATGGGCTTTTG
1 AA-AAGG-TGCCACTGACTTGTGGGC-TTTG
1884443 AAAAGGGTGCCACTGACTTGTGGGCTTTTG
1 AAAA-GGTGCCACTGACTTGTGGGC-TTTG
*
1884473 AAAATGTGCCACTGACTTGTGGGCTTT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* **
1884500 AAAAGAGTGCTACTGGA-TCATGGGCTTTTG
1 AAAAG-GTGCCACT-GACTTGTGGGC-TTTG
* *
1884530 -AAAGGATG-CAATGACTTATGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* * *
1884557 AAAGGGTGCCACTAACTTGTGGTCTTTTG
1 AAAAGGTGCCACTGACTTGTGGGC-TTTG
1884586 AAAAG
1 AAAAG
1884591 AAAAAAGATT
Statistics
Matches: 264, Mismatches: 38, Indels: 68
0.71 0.10 0.18
Matches are distributed among these distances:
27 12 0.05
28 49 0.19
29 78 0.30
30 48 0.18
31 37 0.14
32 10 0.04
33 1 0.00
35 2 0.01
37 2 0.01
38 25 0.09
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (28 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:1884313 original size:32 final size:31
Alignment explanation
Indices: 1884277--1884336 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
1884267 TGACTTAGGG
*
1884277 GCTTTAAAATAGGTTACCACCGACTTGTGTGA
1 GCTTTAAAA-AGGGTACCACCGACTTGTGTGA
* * *
1884309 GCTTTGAAAAGGGTGCCACTGACTTGTG
1 GCTTTAAAAAGGGTACCACCGACTTGTG
1884337 GGCTTTTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 16 0.67
32 8 0.33
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (31 bp):
GCTTTAAAAAGGGTACCACCGACTTGTGTGA
Found at i:1884328 original size:219 final size:217
Alignment explanation
Indices: 1884024--1884503 Score: 644
Period size: 219 Copynumber: 2.2 Consensus size: 217
1884014 TCATTAGCTT
* * * * *
1884024 GTGGGC-TTTGAAAAAGGTGCCACCGACTTGTGTGGGTTTTAAGAGGGTTGCCACCAACTTGTGT
1 GTGGGCTTTTG-AAAAGGTGCCACTGAC-T-TGTGGGCTTTAAAAAGGTTACCACCAACTTGTGT
* *
1884088 GGGCTTTGAAATGGGTGCCACTAACTTGTGAGCTTTTGAAAGGATTGAAAGGGTGCCACTAACCT
63 GAGCTTTGAAAAGGGTGCCACTAACTTGTGAGCTTTTGAAAGGATTGAAAGGGTGCCACTAACCT
* * *
1884153 GTGGGCTTTTGAGAGGTTACCAATGACTTGTGTGGGCTTTAAGAGGGTTGCCACT-AAT-TTGTG
128 GTGGGCTTCTGAGAGGTTACCAACGACTTGTGTGGGCTTTAAGAGGGTTGCCACTGAATCATG-G
*
1884216 GTTTTTGGAAAAAAGGTGCCAATGACTC
192 GCTTTT-G-AAAAAGGTGCCAATGACTC
*
1884244 GTGGGCTTTTGAAAAGGTGCCACTGACTTAG-GGGCTTTAAAATAGGTTACCACCGACTTGTGTG
1 GTGGGCTTTTGAAAAGGTGCCACTGACTT-GTGGGCTTTAAAA-AGGTTACCACCAACTTGTGTG
* * * *
1884308 AGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAGGATTGAAAGGGTGCCACTGACTTG
64 AGCTTTGAAAAGGGTGCCACTAACTTGTGAGCTTTTGAAAGGATTGAAAGGGTGCCACTAACCTG
* * * *
1884373 TGGGCTTCTGAGAGGTTATCACCGACTTGTGTGGGCTTTAAGAGGGTTGCCATTGACTCATGGGC
129 TGGGCTTCTGAGAGGTTACCAACGACTTGTGTGGGCTTTAAGAGGGTTGCCACTGAATCATGGGC
* * *
1884438 TTTTGAAAAGGGTGCCACTGACTT
194 TTTTGAAAAAGGTGCCAATGACTC
*
1884462 GTGGGCTTTTGAAAATGTGCCACTGACTTGTGGGCTTTAAAA
1 GTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCTTTAAAA
1884504 GAGTGCTACT
Statistics
Matches: 230, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
217 1 0.00
218 65 0.28
219 129 0.56
220 29 0.13
221 6 0.03
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (217 bp):
GTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCTTTAAAAAGGTTACCACCAACTTGTGTGAG
CTTTGAAAAGGGTGCCACTAACTTGTGAGCTTTTGAAAGGATTGAAAGGGTGCCACTAACCTGTG
GGCTTCTGAGAGGTTACCAACGACTTGTGTGGGCTTTAAGAGGGTTGCCACTGAATCATGGGCTT
TTGAAAAAGGTGCCAATGACTC
Found at i:1884424 original size:98 final size:98
Alignment explanation
Indices: 1884252--1884445 Score: 250
Period size: 98 Copynumber: 2.0 Consensus size: 98
1884242 TCGTGGGCTT
*
1884252 TTGAAAAGGTGCCACTGACTTAGGGGCTTTAAAATAGGTTACCACCGACTTGTGTGAGCTTTGAA
1 TTGAAAAGGTGCCACTGACTTAGGGGCTTT-AAAGAGGTTACCACCGACTTGTGTGAGCTTTGAA
**
1884317 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAGGA
65 AAGGGTGCCACTGACTCATGGGCTTTTGAAAGGA
* * * *
1884351 TTGAAAGGGTGCCACTGACTT-GTGGGCTTCT-GAGAGGTTATCACCGACTTGTGTGGGCTTT-A
1 TTGAAAAGGTGCCACTGACTTAG-GGGCTT-TAAAGAGGTTACCACCGACTTGTGTGAGCTTTGA
* *
1884413 AGAGGGTTGCCATTGACTCATGGGCTTTTGAAA
64 AAAGGG-TGCCACTGACTCATGGGCTTTTGAAA
1884446 AGGGTGCCAC
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
97 6 0.07
98 50 0.60
99 26 0.31
100 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (98 bp):
TTGAAAAGGTGCCACTGACTTAGGGGCTTTAAAGAGGTTACCACCGACTTGTGTGAGCTTTGAAA
AGGGTGCCACTGACTCATGGGCTTTTGAAAGGA
Found at i:1884550 original size:28 final size:29
Alignment explanation
Indices: 1884420--1884588 Score: 134
Period size: 28 Copynumber: 5.9 Consensus size: 29
1884410 TTAAGAGGGT
* * *
1884420 TGCCATTGACTCATGGGCTTTTGAAAAGGG
1 TGCCACTGACTTATGGGCTTTTG-AAAGGA
* *
1884450 TGCCACTGACTTGTGGGCTTTTGAAAATG-
1 TGCCACTGACTTATGGGCTTTTG-AAAGGA
* *
1884479 TGCCACTGACTTGTGGGC-TTT-AAAAGA
1 TGCCACTGACTTATGGGCTTTTGAAAGGA
* *
1884506 GTGCTACTGGA-TCATGGGCTTTTGAAAGGA
1 -TGCCACT-GACTTATGGGCTTTTGAAAGGA
* *
1884536 TG-CAATGACTTATGGGC-TTTGAAAGGG
1 TGCCACTGACTTATGGGCTTTTGAAAGGA
* * *
1884563 TGCCACTAACTTGTGGTCTTTTGAAA
1 TGCCACTGACTTATGGGCTTTTGAAA
1884589 AGAAAAAAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
26 4 0.04
27 13 0.11
28 35 0.31
29 32 0.28
30 30 0.26
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (29 bp):
TGCCACTGACTTATGGGCTTTTGAAAGGA
Found at i:1884584 original size:56 final size:55
Alignment explanation
Indices: 1884420--1884588 Score: 153
Period size: 56 Copynumber: 3.0 Consensus size: 55
1884410 TTAAGAGGGT
* * * *
1884420 TGCCATTGACTCATGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAATG
1 TGCCAATGACTTATGGGC-TTTG-AAAGGGTGCCACTAACTTGT-GGCTTTTG-AAAGG
* * * * * * *
1884479 TGCCACTGACTTGTGGGCTTTAAAAGAGTGCTACTGGATCATG-GGCTTTTGAAAGG
1 TGCCAATGACTTATGGGCTTTGAAAGGGTGCCACT--AACTTGTGGCTTTTGAAAGG
1884535 ATG-CAATGACTTATGGGCTTTGAAAGGGTGCCACTAACTTGTGGTCTTTTGAAA
1 -TGCCAATGACTTATGGGCTTTGAAAGGGTGCCACTAACTTGTGG-CTTTTGAAA
1884589 AGAAAAAAGA
Statistics
Matches: 88, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
54 4 0.05
55 2 0.02
56 40 0.45
57 21 0.24
58 3 0.03
59 18 0.20
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (55 bp):
TGCCAATGACTTATGGGCTTTGAAAGGGTGCCACTAACTTGTGGCTTTTGAAAGG
Found at i:1885502 original size:17 final size:17
Alignment explanation
Indices: 1885482--1885523 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1885472 GAATTTTTCT
*
1885482 CTTCTTTTTTTTTTTTG
1 CTTCTTTTTTTTTTATG
*
1885499 CTTCTCTTTTTTTTATG
1 CTTCTTTTTTTTTTATG
1885516 CTT-TTTTT
1 CTTCTTTTT
1885524 AGTGACCAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (17 bp):
CTTCTTTTTTTTTTATG
Found at i:1885880 original size:23 final size:22
Alignment explanation
Indices: 1885808--1885881 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
1885798 TTTTTCTCTT
* *
1885808 ATTTTGCTTTCGCACTTTTTTTC
1 ATTTTGCTTTTG-ACTTTTTGTC
* * *
1885831 ATTTTTCTTTTCATTTTTTGTGC
1 ATTTTGCTTTTGACTTTTTGT-C
1885854 -TTTTGCTTTTGACTTTTTCGTC
1 ATTTTGCTTTTGACTTTTT-GTC
1885876 ATTTTG
1 ATTTTG
1885882 AAAGGAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 23 0.57
23 17 0.43
ACGTcount: A:0.08, C:0.16, G:0.11, T:0.65
Consensus pattern (22 bp):
ATTTTGCTTTTGACTTTTTGTC
Found at i:1888487 original size:20 final size:19
Alignment explanation
Indices: 1888464--1888517 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
1888454 ACAATTCAAA
1888464 GTATCGATACATGT-TGCAAT
1 GTATCGATACATGTATG--AT
*
1888484 GTATCGATACAATTTATGAT
1 GTATCGATAC-ATGTATGAT
1888504 GTATCGATACATGT
1 GTATCGATACATGT
1888518 CATTGGGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 3 0.10
20 22 0.73
21 3 0.10
22 2 0.07
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (19 bp):
GTATCGATACATGTATGAT
Found at i:1888590 original size:20 final size:19
Alignment explanation
Indices: 1888547--1888597 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
1888537 TAACCAAACT
*
1888547 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGAA
1888566 TGTATCGATACACCCAAA-AA
1 TGTATCGATACA--CAAAGAA
1888586 TGTATCGATACA
1 TGTATCGATACA
1888598 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.41
20 13 0.45
21 4 0.14
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (19 bp):
TGTATCGATACACAAAGAA
Found at i:1894776 original size:13 final size:13
Alignment explanation
Indices: 1894753--1894791 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1894743 ACATCATTCT
1894753 CTGTATCGATACA
1 CTGTATCGATACA
* *
1894766 TTGTATGGATACA
1 CTGTATCGATACA
1894779 CTGTATCGATACA
1 CTGTATCGATACA
1894792 GGAGGATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:1895271 original size:21 final size:20
Alignment explanation
Indices: 1895234--1895276 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1895224 GCAGCACCCA
* *
1895234 CCAGGTCGCGACTGGCACTC
1 CCAGGTCGCAACGGGCACTC
*
1895254 CCAGGTCGCAACCGGGCAGTC
1 CCAGGTCGCAA-CGGGCACTC
1895275 CC
1 CC
1895277 CACACTAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.16, C:0.42, G:0.30, T:0.12
Consensus pattern (20 bp):
CCAGGTCGCAACGGGCACTC
Found at i:1896704 original size:22 final size:22
Alignment explanation
Indices: 1896658--1896698 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
1896648 AAATTTGTTA
1896658 AAATTATCTTATTAAGGGGGAG
1 AAATTATCTTATTAAGGGGGAG
1896680 AAATTAT-TT-TTAAGGGGGA
1 AAATTATCTTATTAAGGGGGA
1896699 AAGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (22 bp):
AAATTATCTTATTAAGGGGGAG
Found at i:1897261 original size:20 final size:21
Alignment explanation
Indices: 1897238--1897294 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
1897228 ACAATTCAAA
**
1897238 GTATCGATACATGTTGCA-AT
1 GTATCGATACATGTTAAAGAT
**
1897258 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTAAAGAT
1897279 GTATCGATACATGTTA
1 GTATCGATACATGTTA
1897295 TTGGGATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (21 bp):
GTATCGATACATGTTAAAGAT
Found at i:1897358 original size:13 final size:13
Alignment explanation
Indices: 1897340--1897365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1897330 TACACAAAGT
1897340 ATGTATCGATACA
1 ATGTATCGATACA
1897353 ATGTATCGATACA
1 ATGTATCGATACA
1897366 CCAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1899158 original size:67 final size:67
Alignment explanation
Indices: 1898986--1899161 Score: 167
Period size: 69 Copynumber: 2.5 Consensus size: 67
1898976 CTCTCGGAGG
* * *
1898986 AATGGGGTTGGAGTGTCCCTGATGATGACAATTTAAACAAGAATAAGATTTAAACTTTTATGAGT
1 AATGAGGTTGGAGTGTCCC-GATGATGATAATTTAAAC---AATAAGATTTAAACTTTGATGAGT
1899051 TTAAAA
62 TTAAAA
** * ** * *
1899057 AAAAAGGGTTTGGAGTATCCCCGAAAATGATAATTTAGAC-ATATGATTTAAA-TTTCGATGAGT
1 AATGA-GG-TTGGAGTGT-CCCGATGATGATAATTTAAACAATAAGATTTAAACTTT-GATGAGT
1899120 TTAAAA
62 TTAAAA
1899126 AATGAGGTTGGAGTGTCCTCGATGATGATAATTTAA
1 AATGAGGTTGGAGTGTCC-CGATGATGATAATTTAA
1899162 TCGAAAATAA
Statistics
Matches: 84, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
66 2 0.02
67 22 0.26
68 5 0.06
69 26 0.31
71 2 0.02
72 2 0.02
73 22 0.26
74 3 0.04
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.32
Consensus pattern (67 bp):
AATGAGGTTGGAGTGTCCCGATGATGATAATTTAAACAATAAGATTTAAACTTTGATGAGTTTAA
AA
Found at i:1900866 original size:35 final size:36
Alignment explanation
Indices: 1900819--1900901 Score: 125
Period size: 35 Copynumber: 2.4 Consensus size: 36
1900809 GGCTGCTGTC
**
1900819 TCTTTTGC-TGCTATCCCTTGCTGCTTGTATATGCT
1 TCTTTTGCTTGCTATCCCTTGCTGCTCATATATGCT
*
1900854 T-TTTTGGTTGCTATCCCTTGCTGCTCATATATGCT
1 TCTTTTGCTTGCTATCCCTTGCTGCTCATATATGCT
1900889 TCTTTTGCTTGCT
1 TCTTTTGCTTGCT
1900902 TGATGATCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 5 0.12
35 27 0.64
36 10 0.24
ACGTcount: A:0.08, C:0.24, G:0.17, T:0.51
Consensus pattern (36 bp):
TCTTTTGCTTGCTATCCCTTGCTGCTCATATATGCT
Found at i:1901172 original size:21 final size:22
Alignment explanation
Indices: 1901143--1901187 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1901133 TTTTTTTTTC
1901143 TTTTGTGTT-GCTTTCCCCCTT
1 TTTTGTGTTCGCTTTCCCCCTT
* *
1901164 TTTTTTGTTCGTTTTCCCCCTT
1 TTTTGTGTTCGCTTTCCCCCTT
1901186 TT
1 TT
1901188 ATCTTGCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.00, C:0.27, G:0.11, T:0.62
Consensus pattern (22 bp):
TTTTGTGTTCGCTTTCCCCCTT
Found at i:1901215 original size:23 final size:23
Alignment explanation
Indices: 1901154--1901215 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
1901144 TTTGTGTTGC
*
1901154 TTTCCCCCTTTTTT-TTGTTCGT
1 TTTCCCCCTTTTTTCTTGCTCGT
*
1901176 TTTCCCCCTTTTATCTTGCT-GT
1 TTTCCCCCTTTTTTCTTGCTCGT
*
1901198 TTTCCTTCCTTTTTTCTT
1 TTTCC-CCCTTTTTTCTT
1901216 CACTCCAGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 20 0.59
23 14 0.41
ACGTcount: A:0.02, C:0.29, G:0.06, T:0.63
Consensus pattern (23 bp):
TTTCCCCCTTTTTTCTTGCTCGT
Found at i:1901711 original size:19 final size:20
Alignment explanation
Indices: 1901689--1901726 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1901679 TTTTAGATAT
*
1901689 TTGAT-TTTTTTATTTTTTA
1 TTGATCTTTTTCATTTTTTA
1901708 TTGATCTTTTTCATTTTTT
1 TTGATCTTTTTCATTTTTT
1901727 TCATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.76
Consensus pattern (20 bp):
TTGATCTTTTTCATTTTTTA
Found at i:1903863 original size:33 final size:33
Alignment explanation
Indices: 1903825--1903935 Score: 84
Period size: 33 Copynumber: 3.2 Consensus size: 33
1903815 TTCATTATTT
1903825 TCATTTGTTAAGATTTTATTTTTATCTTGTGTC
1 TCATTTGTTAAGATTTTATTTTTATCTTGTGTC
* * * *
1903858 TCATTTAATT--GTTTCTCTATTTTGATTAATTCATTAT-TT
1 TCATTT-GTTAAGATT-T-TA-TTT--TT-A-TC-TTGTGTC
1903897 TCATTTGTTAAGATTTTATTTTTATCTTGTGTC
1 TCATTTGTTAAGATTTTATTTTTATCTTGTGTC
1903930 TCATTT
1 TCATTT
1903936 AATTGTTTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 24
0.64 0.09 0.27
Matches are distributed among these distances:
32 6 0.10
33 16 0.28
34 5 0.09
35 5 0.09
37 5 0.09
38 5 0.09
39 10 0.17
40 6 0.10
ACGTcount: A:0.20, C:0.10, G:0.09, T:0.61
Consensus pattern (33 bp):
TCATTTGTTAAGATTTTATTTTTATCTTGTGTC
Found at i:1903897 original size:72 final size:72
Alignment explanation
Indices: 1903812--1903960 Score: 280
Period size: 72 Copynumber: 2.1 Consensus size: 72
1903802 TTGTCCTCAC
1903812 TAATTCATTATTTTCATTTGTTAAGATTTTATTTTTATCTTGTGTCTCATTTAATTGTTTCTCTA
1 TAATTCATTATTTTCATTTGTTAAGATTTTATTTTTATCTTGTGTCTCATTTAATTGTTTCTCTA
* *
1903877 TTTTGAT
66 GTTCGAT
1903884 TAATTCATTATTTTCATTTGTTAAGATTTTATTTTTATCTTGTGTCTCATTTAATTGTTTCTCTA
1 TAATTCATTATTTTCATTTGTTAAGATTTTATTTTTATCTTGTGTCTCATTTAATTGTTTCTCTA
1903949 GTTCGAT
66 GTTCGAT
1903956 TAATT
1 TAATT
1903961 TCTTTTTAAC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.21, C:0.10, G:0.09, T:0.60
Consensus pattern (72 bp):
TAATTCATTATTTTCATTTGTTAAGATTTTATTTTTATCTTGTGTCTCATTTAATTGTTTCTCTA
GTTCGAT
Found at i:1908250 original size:21 final size:20
Alignment explanation
Indices: 1908211--1908256 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1908201 AAGGTGCTGG
1908211 ACATGCTGTAAAAGCATGAA
1 ACATGCTGTAAAAGCATGAA
1908231 ACATAGCT-TAAAATGCATGAA
1 ACAT-GCTGTAAAA-GCATGAA
*
1908252 TCATG
1 ACATG
1908257 GGTTGTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.24
Consensus pattern (20 bp):
ACATGCTGTAAAAGCATGAA
Found at i:1909210 original size:32 final size:32
Alignment explanation
Indices: 1909169--1909241 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
1909159 AGCTTTGTAG
* *
1909169 CGATACATTGTATCGATACAACACTTCTATAT
1 CGATACATTGTATCAATACAACACTTATATAT
*
1909201 CGATACATTGTATCAATACAACACTTATGTAT
1 CGATACATTGTATCAATACAACACTTATATAT
1909233 CGATACATT
1 CGATACATT
1909242 TAGTGTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCAATACAACACTTATATAT
Found at i:1909578 original size:13 final size:13
Alignment explanation
Indices: 1909557--1909591 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1909547 TTTCCCCATA
1909557 TATCGATACAATG
1 TATCGATACAATG
* *
1909570 TATCAATACACTG
1 TATCGATACAATG
1909583 TATCGATAC
1 TATCGATAC
1909592 TAAGTGAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:1909683 original size:32 final size:33
Alignment explanation
Indices: 1909641--1909704 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
1909631 CAATTGAGTG
1909641 TGTATCGATACTAAG-AACATGTATCGATACAA
1 TGTATCGATACTAAGCAACATGTATCGATACAA
* *
1909673 TGTATTGATACTAAGCAATATGTATCGATACA
1 TGTATCGATACTAAGCAACATGTATCGATACA
1909705 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (33 bp):
TGTATCGATACTAAGCAACATGTATCGATACAA
Found at i:1913683 original size:42 final size:42
Alignment explanation
Indices: 1913624--1913767 Score: 252
Period size: 42 Copynumber: 3.4 Consensus size: 42
1913614 GAAGAAAGAT
* * *
1913624 GAGGGATGATAGGAGGAGAGACAGGAGAGATAGTAGAGATAG
1 GAGGGATGATAGGAGGAGAGACAAGAGAGATAATAGAGAGAG
1913666 GAGGGATGATAGGAGGAGAGACAAGAGAGATAATAGAGAGAG
1 GAGGGATGATAGGAGGAGAGACAAGAGAGATAATAGAGAGAG
1913708 GAGGGATGATAGGAGGAGAGACAAGAGAGATAATAGAGAGAG
1 GAGGGATGATAGGAGGAGAGACAAGAGAGATAATAGAGAGAG
*
1913750 GAGGGATGACAGGAGGAG
1 GAGGGATGATAGGAGGAG
1913768 GAGAGAAAAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 98 1.00
ACGTcount: A:0.42, C:0.03, G:0.45, T:0.10
Consensus pattern (42 bp):
GAGGGATGATAGGAGGAGAGACAAGAGAGATAATAGAGAGAG
Found at i:1913743 original size:24 final size:24
Alignment explanation
Indices: 1913674--1913743 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
1913664 AGGAGGGATG
1913674 ATAGGAGGAGAGACAAGAGAGATA
1 ATAGGAGGAGAGACAAGAGAGATA
* *
1913698 ATA-GA-GAGAG----GAGGGATG
1 ATAGGAGGAGAGACAAGAGAGATA
1913716 ATAGGAGGAGAGACAAGAGAGATA
1 ATAGGAGGAGAGACAAGAGAGATA
1913740 ATAG
1 ATAG
1913744 AGAGAGGAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
18 9 0.25
19 2 0.06
20 5 0.14
22 5 0.14
23 2 0.06
24 13 0.36
ACGTcount: A:0.47, C:0.03, G:0.40, T:0.10
Consensus pattern (24 bp):
ATAGGAGGAGAGACAAGAGAGATA
Found at i:1914604 original size:13 final size:13
Alignment explanation
Indices: 1914586--1914610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1914576 CATAAAGTGT
1914586 TGTATCGATACAA
1 TGTATCGATACAA
1914599 TGTATCGATACA
1 TGTATCGATACA
1914611 TATTTTTTTG
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:1914608 original size:33 final size:33
Alignment explanation
Indices: 1914566--1914632 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1914556 GTCAACGATT
1914566 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1914599 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1914632 T
1 T
1914633 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1914691 original size:13 final size:13
Alignment explanation
Indices: 1914673--1914697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1914663 ATCACTTAAA
1914673 TGTATCGATACAT
1 TGTATCGATACAT
1914686 TGTATCGATACA
1 TGTATCGATACA
1914698 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:1914762 original size:52 final size:52
Alignment explanation
Indices: 1914706--1914834 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1914696 CACTGATCTT
*
1914706 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1914758 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1914810 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1914835 TCATTTTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1922734 original size:13 final size:13
Alignment explanation
Indices: 1922716--1922741 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1922706 TACAGCAAGT
1922716 ATGTATCGATACA
1 ATGTATCGATACA
1922729 ATGTATCGATACA
1 ATGTATCGATACA
1922742 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1926118 original size:52 final size:52
Alignment explanation
Indices: 1926040--1926188 Score: 221
Period size: 52 Copynumber: 2.9 Consensus size: 52
1926030 CGAAATATGA
*
1926040 AAATTTGCCTGCATGTATCGATACATTGAAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATCAGTGTATCGATACATCTAGGC
*
1926092 AAATTTGCCTGCATGTATCGATACATTTTATCA-TGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATCAGTGTATCGATACATCTAGGC
* **
1926144 AAATTTGCTTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGATCAGTGTATCGATACA
1926189 ATGTATTGAT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.05
52 81 0.92
53 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGATCAGTGTATCGATACATCTAGGC
Found at i:1926269 original size:20 final size:20
Alignment explanation
Indices: 1926240--1926297 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1926230 GCAGTAGCTT
1926240 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
1926259 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
1926279 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
1926298 TCGTTGAAAT
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:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:1927243 original size:52 final size:54
Alignment explanation
Indices: 1927148--1927261 Score: 169
Period size: 52 Copynumber: 2.1 Consensus size: 54
1927138 CGATAATAGG
* *
1927148 CTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGAT-AGAAAAAGGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
* *
1927203 CTTAAAGAT-GAAAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATAGAAAAAGGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
1927255 CTTAAAG
1 CTTAAAG
1927262 GTGATGAGGA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
52 38 0.69
53 8 0.15
55 9 0.16
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (54 bp):
CTTAAAGATAGAAAAAGGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
Found at i:1927506 original size:169 final size:170
Alignment explanation
Indices: 1926875--1927512 Score: 716
Period size: 169 Copynumber: 3.7 Consensus size: 170
1926865 GTCTTGCAAT
* * * * * *
1926875 GTGCCACTGTG-TAGATTCAAGGCCTATC-ACACTGGACTTAAAGGTGATGAGGATGAAGAGTGA
1 GTGCCAATGTGCT-GATTCAAGGCC-AGCGACATTGGACTTAAAGATGAAGAGGATGAAAAGTGA
* * * *
1926938 TAAAAGGACCAATACGTTGATTCTCGGCCAACGATATTGGGTTTAGAGATGAGAAAAGGGATAAA
64 TAAAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATAAA
**
1927003 GGAGCCAATATGCGGCTAGCAATATTAGGCTCGAAGATAAAG
129 GGAGCCAATATGAAGCTAGCAATATTAGGCTCGAAGATAAAG
*
1927045 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGATA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAGGATGAAAAGTGATA
* * * * *
1927109 AAGATG-CCAATATGTTGATTCACGGCCAACGATAATAGGCTTAAAGATGAGAAAAAGGATGTCA
66 AA-AGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA--TAA
* * ** * * * * * **
1927173 ATGTGCTGAT-TCAAGGCCAGCTACATT-GAACTTAAAGATGAAAAAG
128 AGGAGCCAATATGAA-GCTAGCAATATTAG-GCTCGAAGAT---AAAG
* * * * * *
1927219 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGATGAGGATGAAGAGTGATA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAGGATGAAAAGTGATA
* * * * *
1927284 AAAGGACCAATACATTGATTCACGACCAACGATATTGGGTTTAGAGATGAGAAAAGGGATAAAGG
66 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATAAAGG
* *
1927349 AGCCAATATGTAGCTAGCGATATTAGGCTCGAAGATAAAG
131 AGCCAATATGAAGCTAGCAATATTAGGCTCGAAGATAAAG
*
1927389 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGATA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAGGATGAAAAGTGATA
* *
1927453 AAGATG-CCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAT
66 AA-AGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAT
1927513 GTCAATGTGC
Statistics
Matches: 381, Mismatches: 72, Indels: 31
0.79 0.15 0.06
Matches are distributed among these distances:
169 120 0.31
170 99 0.26
171 25 0.07
173 24 0.06
174 56 0.15
175 57 0.15
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.23
Consensus pattern (170 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAGGATGAAAAGTGATA
AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATAAAGG
AGCCAATATGAAGCTAGCAATATTAGGCTCGAAGATAAAG
Found at i:1927515 original size:344 final size:344
Alignment explanation
Indices: 1926907--1927608 Score: 1323
Period size: 344 Copynumber: 2.0 Consensus size: 344
1926897 CCTATCACAC
* * *
1926907 TGGACTTAAAGGTGATGAGGATGAAGAGTGATAAAAGGACCAATACGTTGATTCTCGGCCAACGA
1 TGGACTTAAAGGTGATGAGGATGAAGAGTGATAAAAGGACCAATACATTGATTCACGACCAACGA
*
1926972 TATTGGGTTTAGAGATGAGAAAAGGGATAAAGGAGCCAATATGCGGCTAGCAATATTAGGCTCGA
66 TATTGGGTTTAGAGATGAGAAAAGGGATAAAGGAGCCAATATGCAGCTAGCAATATTAGGCTCGA
1927037 AGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAA
131 AGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAA
1927102 AGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATAATAGGCTTAAAGATGAGAAAAAGG
196 AGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATAATAGGCTTAAAGATGAGAAAAAGG
1927167 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAAGGTGCCAATATGCT
261 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAAGGTGCCAATATGCT
1927232 GATTCAAGGCCAGCTATAT
326 GATTCAAGGCCAGCTATAT
1927251 TGGACTTAAAGGTGATGAGGATGAAGAGTGATAAAAGGACCAATACATTGATTCACGACCAACGA
1 TGGACTTAAAGGTGATGAGGATGAAGAGTGATAAAAGGACCAATACATTGATTCACGACCAACGA
* *
1927316 TATTGGGTTTAGAGATGAGAAAAGGGATAAAGGAGCCAATATGTAGCTAGCGATATTAGGCTCGA
66 TATTGGGTTTAGAGATGAGAAAAGGGATAAAGGAGCCAATATGCAGCTAGCAATATTAGGCTCGA
1927381 AGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAA
131 AGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAA
* *
1927446 AGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
196 AGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATAATAGGCTTAAAGATGAGAAAAAGG
*
1927511 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCT
261 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAAGGTGCCAATATGCT
1927576 GATTCAAGGCCAGCTATAT
326 GATTCAAGGCCAGCTATAT
1927595 TGGACTTAAAGGTG
1 TGGACTTAAAGGTG
1927609 GCAATGTGCT
Statistics
Matches: 349, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
344 349 1.00
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.23
Consensus pattern (344 bp):
TGGACTTAAAGGTGATGAGGATGAAGAGTGATAAAAGGACCAATACATTGATTCACGACCAACGA
TATTGGGTTTAGAGATGAGAAAAGGGATAAAGGAGCCAATATGCAGCTAGCAATATTAGGCTCGA
AGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAA
AGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATAATAGGCTTAAAGATGAGAAAAAGG
ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAAGGTGCCAATATGCT
GATTCAAGGCCAGCTATAT
Found at i:1927543 original size:122 final size:122
Alignment explanation
Indices: 1927041--1927556 Score: 353
Period size: 122 Copynumber: 4.4 Consensus size: 122
1927031 GCTCGAAGAT
*
1927041 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGT
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGT
*
1927105 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATAATAGGCTTAAAGATGAGAA
66 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTAGGCTTAAAGATGAGAA
* *
1927162 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTT----A--AAGATGA-AAAA--
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGT
* * * * *
1927218 G-----G-TGCCAATATGCTGATTCAAGGCCAGCTATATT-GGACTTAAAGGTGATG--
66 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTAGG-CTTAAAGATGA-GAA
* ** *
1927268 --AGGATG--AA-GAG-TGATAAAAGGACCA-ATACATT-GA-TTCACGACCAACGATATTGGGT
1 AAAGGATGCCAATGTGCTGATTCAAGG-CCAGCTACATTGGACTT----A--AA-G--A-T--G-
* * *
1927324 TTAGAGATGAGAAAAGGGATAAAGGA-GCCAATA---TG--T-A--GCTAGCGATATTAGGC-T-
52 --A-AGATGAGAAAAGTGATAAA-GATGCCAATATGTTGATTCACGGCCAACGATATTAGGCTTA
* *
1927378 -CGA--AGAT
113 AAGATGAGAA
*
1927385 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGT
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGT
*
1927449 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
66 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTAGGCTTAAAGATGAGAA
* *
1927506 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1927557 GAAAAGGTGC
Statistics
Matches: 300, Mismatches: 32, Indels: 125
0.66 0.07 0.27
Matches are distributed among these distances:
98 2 0.01
99 1 0.00
100 14 0.05
101 5 0.02
102 2 0.01
104 6 0.02
106 2 0.01
107 39 0.13
108 27 0.09
109 1 0.00
111 3 0.01
112 1 0.00
113 2 0.01
114 2 0.01
115 6 0.02
116 21 0.07
117 2 0.01
118 6 0.02
119 6 0.02
120 10 0.03
121 33 0.11
122 92 0.31
123 4 0.01
124 3 0.01
126 2 0.01
129 8 0.03
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (122 bp):
AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGAGAAAAGT
GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTAGGCTTAAAGATGAGAA
Found at i:1927552 original size:55 final size:52
Alignment explanation
Indices: 1927452--1927736 Score: 215
Period size: 43 Copynumber: 5.7 Consensus size: 52
1927442 GAAAAGTGAT
* * * * * * **
1927452 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
1927506 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1927559 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * *
1927602 AAAGGTGGCAATGTGCTAATTCAAGGTCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
1927652 -AAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT--A-ATGG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1927699 CAAGGTGCCAATATGCTGATTTAAGGCCAGCTATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
1927737 GGCTTAAAAG
Statistics
Matches: 194, Mismatches: 27, Indels: 26
0.79 0.11 0.11
Matches are distributed among these distances:
43 36 0.19
44 1 0.01
46 3 0.02
47 2 0.01
48 36 0.19
49 36 0.19
51 1 0.01
52 32 0.16
53 6 0.03
54 5 0.03
55 36 0.19
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:1927624 original size:43 final size:44
Alignment explanation
Indices: 1927558--1927747 Score: 211
Period size: 48 Copynumber: 4.1 Consensus size: 44
1927548 TTAAAGATGG
1927558 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * *
1927602 -AAAGGTGGCAATGTGCTAATTCAAGGTCAGCTACATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1927645 AAAGATGAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1927694 AATGGCAAGGTGCCAATATGCTGATTTAAGGCCAGCTATATTGGGCTT
1 AA----AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1927742 AAAAGG
1 AAAAGG
1927748 AGACGCCACC
Statistics
Matches: 122, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
43 38 0.31
44 4 0.03
46 1 0.01
47 2 0.02
48 42 0.34
49 35 0.29
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (44 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:1927692 original size:92 final size:95
Alignment explanation
Indices: 1927506--1927695 Score: 296
Period size: 92 Copynumber: 2.0 Consensus size: 95
1927496 AAGATGAGAA
* *
1927506 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGGATGGCAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGG-AAAGGTGCCAAT
*
1927571 ATGCTGATTCAAGGCCAGCTATATTGGACTT
65 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1927602 AAAGG-TGGCAATGTGCTAATTCAAGGTCAGCTACATTGGACTTAAAGAT-G-AAGGTGCCAATA
1 AAAGGATGGCAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATA
*
1927664 TGCTGATTTAAGGCCAGCGATATTGGACTT
66 TGCTGATTCAAGGCCAGCGATATTGGACTT
1927694 AA
1 AA
1927696 TGGCAAGGTG
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
92 42 0.48
94 1 0.01
95 40 0.45
96 5 0.06
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (95 bp):
AAAGGATGGCAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATA
TGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:1927821 original size:28 final size:28
Alignment explanation
Indices: 1927764--1927887 Score: 126
Period size: 28 Copynumber: 4.3 Consensus size: 28
1927754 CACCAACTTG
*
1927764 TGTGGGCTTTTGAAAGGTTTG-CA-TCAACT
1 TGTGGGCTTTTG-AAGG-TTGCCACT-GACT
* *
1927793 TGTGTGCTTTTGAAGGTTGCTACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
1927821 TGTGGGCTTTTAAAGGTTGCCATTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
1927849 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
1927879 TGTGGGCTT
1 TGTGGGCTT
1927888 AAAAAGAAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
27 3 0.04
28 43 0.54
29 12 0.15
30 22 0.28
ACGTcount: A:0.18, C:0.15, G:0.30, T:0.38
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:1927850 original size:56 final size:58
Alignment explanation
Indices: 1927764--1927887 Score: 155
Period size: 56 Copynumber: 2.2 Consensus size: 58
1927754 CACCAACTTG
* * * *
1927764 TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGTGCTTTTG-AAGGTTGCTACTGACT
1 TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGGGCTTTTGAAAGGGTGCCACTAACT
**
1927821 TGTGGGCTTTT-AAAGG-TTGCCATTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAGGTTTG-CATCAACTTGTGGGCTTTTG-AAAGGGTGCCACTAACT
1927879 TGTGGGCTT
1 TGTGGGCTT
1927888 AAAAAGAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
55 3 0.05
56 22 0.38
57 11 0.19
58 22 0.38
ACGTcount: A:0.18, C:0.15, G:0.30, T:0.38
Consensus pattern (58 bp):
TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGGGCTTTTGAAAGGGTGCCACTAACT
Found at i:1927916 original size:34 final size:35
Alignment explanation
Indices: 1927861--1927952 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
1927851 TGGGCTTTTG
* *
1927861 AAAAGGGTGCCACTA-ACTTGTGGGCTTA-AAAAGA
1 AAAAGAGTGCCA-TAGAGTTGTGGGCTTACAAAAGA
* *
1927895 AAAAGAGTGCTATAGAGTTGTGAGCTTACAAAAGA
1 AAAAGAGTGCCATAGAGTTGTGGGCTTACAAAAGA
*
1927930 AAAAGAGTGCCATGGAGTTGTGG
1 AAAAGAGTGCCATAGAGTTGTGG
1927953 ACTTTGGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 2 0.04
34 21 0.43
35 26 0.53
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (35 bp):
AAAAGAGTGCCATAGAGTTGTGGGCTTACAAAAGA
Found at i:1929212 original size:79 final size:79
Alignment explanation
Indices: 1929096--1929693 Score: 554
Period size: 79 Copynumber: 7.6 Consensus size: 79
1929086 TCATTGACGT
** * * * * * *
1929096 TTTTATTTCTAAATTATTGATTTTCCACCCTTGGGGATACTCCAATCTCGTTATTTTTGAGAGGA
1 TTTTATTTCTAAAACACTAATTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGA
*
1929161 TACTCAAACCCTAG
66 TACTCCAACCCTAG
* * * *
1929175 TTTTA-TTCTTAAAACACTAATTTTTTCTCTATC-GGGATATTCCAACCTCGTTATTTTTGAGGG
1 TTTTATTTC-TAAAACACTAA-TTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGG
*
1929238 GATACTCCAACCCGA-
64 GATACTCCAACCCTAG
* * * * * * * *
1929253 TTTTATTCCTAAAACACCAATTTTTCTACTATTGGGGATACTCCAGCTTTGTTATTTTTGA-GGG
1 TTTTATTTCTAAAACACTAA-TTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGG
*
1929317 ATACTCCAA-CCTCG
65 ATACTCCAACCCTAG
* * * * * * * *
1929331 ATTTTATTTCTAAAACGCTGATTTTCCACCATTGCGAATATTCCAACC-CTGTTATTTCTAAGGG
1 -TTTTATTTCTAAAACACTAATTTTCCACCATCGGGGATACTCCAACCTC-GTTATTTTTGAGGG
1929395 GATACTCCAACCCT-G
64 GATACTCCAACCCTAG
* * *
1929410 ATTTTA-TTCATAAAACACTAATTTTTTCACTATCGGGGATACTCCAACCTCGTTATTTTTAAGG
1 -TTTTATTTC-TAAAACACTAA-TTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGG
* *
1929474 GGATACTCTAACCCCAG
63 GGATACTCCAACCCTAG
* * *
1929491 TTTTATTTCTAAAACA-TCAA-TTTCCACCATCGGGGATACTCTAACCCCGTTATTTCCT-AGGG
1 TTTTATTTCTAAAACACT-AATTTTCCACCATCGGGGATACTCCAACCTCGTTATTT-TTGAGGG
* * * * *
1929553 GACAGTCTAACCTTGG
64 GATACTCCAACCCTAG
*
1929569 TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACTAATTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGA
* *
1929634 TACTCTAACCCTAA
66 TACTCCAACCCTAG
* * * * *
1929648 TTTTATTTCTAAAATACTGATTTT-CACAATCAGGGATACTCTAACC
1 TTTTATTTCTAAAACACTAATTTTCCACCATCGGGGATACTCCAACC
1929694 CTGATTTTAT
Statistics
Matches: 426, Mismatches: 74, Indels: 39
0.79 0.14 0.07
Matches are distributed among these distances:
77 2 0.00
78 154 0.36
79 195 0.46
80 70 0.16
81 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (79 bp):
TTTTATTTCTAAAACACTAATTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGA
TACTCCAACCCTAG
Found at i:1929684 original size:157 final size:156
Alignment explanation
Indices: 1929116--1929694 Score: 587
Period size: 157 Copynumber: 3.7 Consensus size: 156
1929106 AAATTATTGA
* * * * * *
1929116 TTTTCCACCCTTGGGGATACTCCAATCTCGTTATTTTTGAGAGGATACTCAAACCCTAGTTTTA-
1 TTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGATACTCTAACCCTAATTTTAT
* * * * * *
1929180 TTCTTAAAACACTAATTTTTTCTCTATCGGGATATTCCAACCTCGTTATTTTTGAGGGGATACTC
66 TTC-TAAAACACTAA--TTTTCACCATCGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTC
* * *
1929245 CAACCCGATTTTATTCCTAAAACACCAAT
128 CAACCTGATTTTATTTCTAAAACACTAAT
* * * * * * * *
1929274 TTTTCTACTATTGGGGATACTCCAGCTTTGTTATTTTTGA-GGGATACTCCAA-CCTCGATTTTA
1 TTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGATACTCTAACCCT-AATTTTA
* * * * * *
1929337 TTTCTAAAACGCTGATTTTCCACCATTGCGAATATTCCAACCCTGTTATTTCTAAGGGGATACTC
65 TTTCTAAAACACTAATTTT-CACCATCG-GGATACTCCAACCCCGTTATTTCTAAGGGGATACTC
1929402 CAACCCTGATTTTA-TTCATAAAACACTAAT
128 CAA-CCTGATTTTATTTC-TAAAACACTAAT
* * * * *
1929432 TTTTTCACTATCGGGGATACTCCAACCTCGTTATTTTTAAGGGGATACTCTAACCCCAGTTTTAT
1 TTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGATACTCTAACCCTAATTTTAT
* * * *
1929497 TTCTAAAACA-TCAATTTCCACCATCGGGGATACTCTAACCCCGTTATTTCCT-AGGGGACAGTC
66 TTCTAAAACACT-AATTTTCACCATC-GGGATACTCCAACCCCGTTATTT-CTAAGGGGATACTC
* * *
1929560 TAACCTTGGTTTTATTTCTAAAACACTGA-
128 CAACC-TGATTTTATTTCTAAAACACTAAT
1929589 TTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGATACTCTAACCCTAATTTTAT
1 TTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGATACTCTAACCCTAATTTTAT
* * * *
1929654 TTCTAAAATACTGATTTTCACAATCAGGGATACTCTAACCC
66 TTCTAAAACACTAATTTTCACCATC-GGGATACTCCAACCC
1929695 TGATTTTATT
Statistics
Matches: 349, Mismatches: 58, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
155 4 0.01
156 8 0.02
157 156 0.45
158 143 0.41
159 36 0.10
160 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.36
Consensus pattern (156 bp):
TTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGATACTCTAACCCTAATTTTAT
TTCTAAAACACTAATTTTCACCATCGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAA
CCTGATTTTATTTCTAAAACACTAAT
Found at i:1929692 original size:50 final size:51
Alignment explanation
Indices: 1929630--1929747 Score: 168
Period size: 50 Copynumber: 2.3 Consensus size: 51
1929620 TATTTTTGAG
* *
1929630 GGGATACTCTAACCCTAATTTTATTTCTAAAATA-CTGATTTT-CACAATCA
1 GGGATACTCTAACCCTAATTTTATTTATAAAACATC-GATTTTCCACAATCA
* *
1929680 GGGATACTCTAACCCTGATTTTATTTATAAAACATCGATTTTCCACCATCA
1 GGGATACTCTAACCCTAATTTTATTTATAAAACATCGATTTTCCACAATCA
*
1929731 GGGATACTCCAACCCTA
1 GGGATACTCTAACCCTA
1929748 TTATTTTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 37 0.62
51 23 0.38
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (51 bp):
GGGATACTCTAACCCTAATTTTATTTATAAAACATCGATTTTCCACAATCA
Found at i:1929720 original size:129 final size:130
Alignment explanation
Indices: 1929558--1929876 Score: 373
Period size: 129 Copynumber: 2.5 Consensus size: 130
1929548 TAGGGGACAG
* * *
1929558 TCTAACCTTGGTTTTATTTCTAAAACA-CTGATTTTCCACCATCGGGGATACTCCAA-CCTCGTT
1 TCTAACCCTGATTTTATTTCTAAAACATC-GATTTTCCACCATCGGGGATACTCCAACCCT-ATT
* ** * *
1929621 ATTTTTGAGGGGATACTCTAACC-CTAATTTTATTTCTAAAATA-CTGA-TTTTCACAATCAGGG
64 ATTTTCGACAGGATACTCTAACCTC-AATTTTATTTCCAAAATATC-AACTTTTCACAATCAGGG
1929683 ATAC
127 ATAC
* *
1929687 TCTAACCCTGATTTTATTTATAAAACATCGATTTTCCACCATCAGGGATACTCCAACCCTATTAT
1 TCTAACCCTGATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCTATTAT
* *
1929752 TTTCGACAGGATGCTCTAACCTCAATTTTATTTCCAAAATATCAACTTTTCACCATCAGGGATAC
66 TTTCGACAGGATACTCTAACCTCAATTTTATTTCCAAAATATCAACTTTTCACAATCAGGGATAC
* * * * * *
1929817 TCCAACCC-CATTTTTATTTCCAAAATATCGA-TTTCTTACCATTGGGGATACTCCAACCCT
1 TCTAACCCTGA-TTTTATTTCTAAAACATCGATTTTC-CACCATCGGGGATACTCCAACCCT
1929877 GTTGCTTTCG
Statistics
Matches: 163, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
129 94 0.58
130 69 0.42
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.36
Consensus pattern (130 bp):
TCTAACCCTGATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCTATTAT
TTTCGACAGGATACTCTAACCTCAATTTTATTTCCAAAATATCAACTTTTCACAATCAGGGATAC
Found at i:1929832 original size:51 final size:51
Alignment explanation
Indices: 1929777--1929875 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
1929767 CTAACCTCAA
1929777 TTTTATTTCCAAAATATCAACTTT-TCACCATCAGGGATACTCCAACCCCAT
1 TTTTATTTCCAAAATATCAA-TTTCTCACCATCAGGGATACTCCAACCCCAT
* * **
1929828 TTTTATTTCCAAAATATCGATTTCTTACCATTGGGGATACTCCAACCC
1 TTTTATTTCCAAAATATCAATTTCTCACCATCAGGGATACTCCAACCC
1929876 TGTTGCTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 3 0.07
51 40 0.93
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.35
Consensus pattern (51 bp):
TTTTATTTCCAAAATATCAATTTCTCACCATCAGGGATACTCCAACCCCAT
Found at i:1929921 original size:130 final size:129
Alignment explanation
Indices: 1929569--1929923 Score: 303
Period size: 130 Copynumber: 2.7 Consensus size: 129
1929559 CTAACCTTGG
* * * * **
1929569 TTTTATTT-CTAAAACA-CTGATTTTCCACCATCGGGGATACTCCAA-CCTCGTTATTTTTGAGG
1 TTTTATTTAC-AAAACATC-GATTTTCCACCATCAGGGATACTCCAACCCT-ATTACTTTCGACA
* * * * *
1929631 GGATACTCTAACCCTAATTTTATTTCTAAAATA-CTGA-TTTTCACAATCAGGGATACTCTAACC
63 GGATACTCCAA-CCTAATTTTATCTCAAAAATATC-AACTTTTCACAATCAGGGATACTCCAACC
*
1929694 CTGA
126 CTCA
* *
1929698 TTTTATTTATAAAACATCGATTTTCCACCATCAGGGATACTCCAACCCTATTATTTTCGACAGGA
1 TTTTATTTACAAAACATCGATTTTCCACCATCAGGGATACTCCAACCCTATTACTTTCGACAGGA
* * * * *
1929763 TGCTCTAACCTCAATTTTATTTCCAAAATATCAACTTTTCACCATCAGGGATACTCCAACCC-CA
66 TACTCCAACCT-AATTTTATCTCAAAAATATCAACTTTTCACAATCAGGGATACTCCAACCCTCA
* * * ** * * * *
1929827 TTTTTATTTCCAAAATATCGA-TTTCTTACCATTGGGGATACTCCAACCCTGTTGCTTTCGGCGG
1 -TTTTATTTACAAAACATCGATTTTC-CACCATCAGGGATACTCCAACCCTATTACTTTCGACAG
*
1929891 GATACTCCAACACT-GTTTCTATCTCAAAAATAT
64 GATACTCCAAC-CTAATTT-TATCTCAAAAATAT
1929924 TAAATTTTTC
Statistics
Matches: 188, Mismatches: 28, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
128 3 0.02
129 85 0.45
130 98 0.52
131 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (129 bp):
TTTTATTTACAAAACATCGATTTTCCACCATCAGGGATACTCCAACCCTATTACTTTCGACAGGA
TACTCCAACCTAATTTTATCTCAAAAATATCAACTTTTCACAATCAGGGATACTCCAACCCTCA
Found at i:1938095 original size:166 final size:164
Alignment explanation
Indices: 1937921--1938642 Score: 599
Period size: 165 Copynumber: 4.3 Consensus size: 164
1937911 TATTAGATGC
* * * *
1937921 ATTTTAAAAATTTTAGACCAAAGAAAATTCCCCCAAAAATATTTACGAAATA-AAAACTTAGTTT
1 ATTTTAAAAATTTAAAACC-AAGAAAA-TCCCCCAAAAATAATTACGAAGTAGAAAACTTAGTTT
* **
1937985 TTCAGGAAAATAGGGATTTCAAAGAAAAAAATCCAAAACTCATGAAAATGAATAAATTTTTGAAA
64 TT-AGGAAAATAGGAATTTCAAAGAAAAAAATAAAAAACTCATGAAAATGAATAAATTTTTGAAA
* *
1938050 ACAAATTTAATAGGAAATAAATAATAATATTTTATGG
128 ACTAATTTAATATGAAATAAATAATAATATTTTATGG
*** * **
1938087 ATTTTAAAAA-TTAAAACCTAAGAAAATCCCCTTGAAATAAATTACGGAGTAGAAAACTCCGTTT
1 ATTTTAAAAATTTAAAACC-AAGAAAATCCCCCAAAAAT-AATTACGAAGTAGAAAACTTAG-TT
* * *
1938151 TTTA-G-AAATAGGAAAATTTC-AAGGAAAAAATAAAAAACTAATGAAAAT-AAGTAAATTTTTT
63 TTTAGGAAAATAGG--AATTTCAAAGAAAAAAATAAAAAACTCATGAAAATGAA-TAAATTTTTG
* * * *
1938212 AAAA-TGATTTATTATGAAATAATTAATAATATTTTATGA
125 AAAACTAATTTAATATGAAATAAATAATAATATTTTATGG
* * *
1938251 ATTTTAAAAATTAAAAACCAAGAAAAATCCTTTCCAAAAAAAATTACGAAGTAGAAAACTCTA-T
1 ATTTTAAAAATTTAAAACCAAG-AAAATCC--CCCAAAAATAATTACGAAGTAGAAAACT-TAGT
* * * * * * * *
1938315 TTTTTGGAAACAAAGGAATTTCAAGGAGAAAATTTAAAAACCCATGAAAATGAATGAATTTTTGA
62 TTTTAGGAAA-ATAGGAATTTCAAAGAAAAAAATAAAAAACTCATGAAAATGAATAAATTTTTGA
* * *
1938380 AAACTAATTTAATATAAAATAAATAATAAAATTTGATGG
126 AAACTAATTTAATATGAAATAAATAATAATATTTTATGG
* * ** *
1938419 ATTTTAAAAATTAAAAACTAAGAAAAGTCCCCCCGAAATAAATTACGGAGTAGAAAACTCT-GTT
1 ATTTTAAAAATTTAAAACCAAGAAAA-TCCCCCAAAAAT-AATTACGAAGTAGAAAACT-TAGTT
* ** * * * * ** *
1938483 TTTCA-GAAATAAAAAAATTTC-AGGGAAAAAATCAAAAACTCGTGAAAATGAATCCATTTTTTA
63 TTT-AGGAAA-ATAGGAATTTCAAAGAAAAAAATAAAAAACTCATGAAAATGAATAAATTTTTGA
* * * * * *
1938546 AGAA-TGATTTATTATGAGAT-AATAGTCATATTTTATGA
126 A-AACTAATTTAATATGAAATAAATAATAATATTTTATGG
* **
1938584 ATTTTAAAAATTAAAAACCAAGAAAAATCGCCCTGAAAA-AATATACGAAGTAGAAAACT
1 ATTTTAAAAATTTAAAACCAAG-AAAATC-CCCCAAAAATAAT-TACGAAGTAGAAAACT
1938643 CCGTAATTTG
Statistics
Matches: 448, Mismatches: 83, Indels: 51
0.77 0.14 0.09
Matches are distributed among these distances:
164 63 0.14
165 130 0.29
166 109 0.24
167 88 0.20
168 58 0.13
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (164 bp):
ATTTTAAAAATTTAAAACCAAGAAAATCCCCCAAAAATAATTACGAAGTAGAAAACTTAGTTTTT
AGGAAAATAGGAATTTCAAAGAAAAAAATAAAAAACTCATGAAAATGAATAAATTTTTGAAAACT
AATTTAATATGAAATAAATAATAATATTTTATGG
Found at i:1938197 original size:165 final size:163
Alignment explanation
Indices: 1938000--1938646 Score: 696
Period size: 165 Copynumber: 3.9 Consensus size: 163
1937990 GAAAATAGGG
* * * *
1938000 ATTTCAAAGAAAAAAATCCAAAACTCATGAAAATGAATAAATTTTTGAAAACAAATTTAATAGGA
1 ATTTC-AAGGAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAA-TAATTTAATATGA
*
1938065 AATAAATAATAATATTTTATGGATTTTAAAAATT-AAAACCTAAG-AAAATCCCCTTGAAATAAA
64 AATAAATAATAATATTTTATGAATTTTAAAAATTAAAAACC-AAGAAAAATCCCCTTGAAATAAA
*
1938128 TTACGGAGTAGAAAACTCCGTTTTTTAGAAATAGGAAA
128 TTACGAAGTAGAAAACTCCGTTTTTTAGAAATA--AAA
* * * * *
1938166 ATTTCAAGGAAAAAATAAAAAACTAATGAAAAT-AAGTAAATTTTTTAAAATGATTTATTATGAA
1 ATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAA-TAAATTTTTGAAAATAATTTAATATGAA
* * * *
1938230 ATAATTAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAAT-CCTTTCCAAAAAAAA
65 ATAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTT--GAAATAAA
** * *
1938294 TTACGAAGTAGAAAACTCTATTTTTTGGAAACAAAGGA
128 TTACGAAGTAGAAAACTCCGTTTTTTAGAAATAAA--A
* * * * *
1938332 ATTTCAAGGAGAAAATTTAAAAACCCATGAAAATGAATGAATTTTTGAAAACTAATTTAATATAA
1 ATTTCAAGGA-AAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAA-TAATTTAATATGA
* * * * * **
1938397 AATAAATAATAAAATTTGATGGATTTTAAAAATTAAAAACTAAGAAAAGTCCCCCCGAAATAAAT
64 AATAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTTGAAATAAAT
* * *
1938462 TACGGAGTAGAAAACTCTGTTTTTCAGAAATAAAAAA
129 TACGAAGTAGAAAACTCCGTTTTTTAGAAAT--AAAA
* * ** * * * *
1938499 ATTTCAGGGAAAAAATCAAAAACTCGTGAAAATGAATCCATTTTTTAAGAATGATTTATTATGAG
1 ATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAA-AATAATTTAATATGAA
* *
1938564 AT-AATAGTCATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCGCCC-TGAAA-AAAT
65 ATAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATC-CCCTTGAAATAAAT
1938626 ATACGAAGTAGAAAACTCCGT
129 -TACGAAGTAGAAAACTCCGT
1938647 AATTTGAAAA
Statistics
Matches: 399, Mismatches: 66, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
164 56 0.14
165 110 0.28
166 96 0.24
167 76 0.19
168 56 0.14
169 5 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.29
Consensus pattern (163 bp):
ATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATAAATTTTTGAAAATAATTTAATATGAAA
TAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTTGAAATAAATTA
CGAAGTAGAAAACTCCGTTTTTTAGAAATAAAA
Found at i:1938605 original size:333 final size:331
Alignment explanation
Indices: 1938019--1938643 Score: 943
Period size: 333 Copynumber: 1.9 Consensus size: 331
1938009 AAAAAAATCC
* * * *
1938019 AAAACTCATGAAAATGAATAAATTTTTGAAAACAAATTTAATAGGAAATAAATAATAATATTTTA
1 AAAACCCATGAAAATGAATAAATTTTTGAAAACAAATTTAATAGAAAATAAATAATAAAATTTGA
* **
1938084 TGGATTTTAAAAATTAAAACCTAAGAAAATCCCCTTGAAATAAATTACGGAGTAGAAAACTCCGT
66 TGGATTTTAAAAATTAAAAACTAAGAAAATCCCCCCGAAATAAATTACGGAGTAGAAAACTCCGT
* **
1938149 TTTTTAGAAATAGGAAAATTTCAAGGAAAAAATAAAAAACTAATGAAAATAAGTAAATTTTTTAA
131 TTTTCAGAAATAAAAAAATTTCAAGGAAAAAATAAAAAACTAATGAAAATAAGTAAATTTTTTAA
1938214 AATGATTTATTATGAAATAATTAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAAT
196 AATGATTTATTATGAAATAATTAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAAT
1938279 C-CTTTCCAAAAAAAAT-TACGAAGTAGAAAACTCTATTTTTTGGAAACAAAGGAATTTCAAGGA
261 CGC---CCAAAAAAAATATACGAAGTAGAAAACTCTATTTTTTGGAAACAAAGGAATTTCAAGGA
1938342 GAAAATTTA
323 GAAAATTTA
* * *
1938351 AAAACCCATGAAAATGAATGAATTTTTGAAAACTAATTTAATATAAAATAAATAATAAAATTTGA
1 AAAACCCATGAAAATGAATAAATTTTTGAAAACAAATTTAATAGAAAATAAATAATAAAATTTGA
*
1938416 TGGATTTTAAAAATTAAAAACTAAGAAAAGTCCCCCCGAAATAAATTACGGAGTAGAAAACTCTG
66 TGGATTTTAAAAATTAAAAACTAAGAAAA-TCCCCCCGAAATAAATTACGGAGTAGAAAACTCCG
* * ** **
1938481 TTTTTCAGAAATAAAAAAATTTCAGGGAAAAAATCAAAAACTCGTGAAAATGAA-TCCATTTTTT
130 TTTTTCAGAAATAAAAAAATTTCAAGGAAAAAATAAAAAACTAATGAAAAT-AAGTAAATTTTTT
* * *
1938545 AAGAATGATTTATTATGAGATAA-TAGTCATATTTTATGAATTTTAAAAATTAAAAACCAAGAAA
194 AA-AATGATTTATTATGAAATAATTAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAA
**
1938609 AATCGCCCTGAAAAAATATACGAAGTAGAAAACTC
258 AATCGCCCAAAAAAAATATACGAAGTAGAAAACTC
1938644 CGTAATTTGA
Statistics
Matches: 263, Mismatches: 25, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
331 9 0.03
332 103 0.39
333 129 0.49
334 22 0.08
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (331 bp):
AAAACCCATGAAAATGAATAAATTTTTGAAAACAAATTTAATAGAAAATAAATAATAAAATTTGA
TGGATTTTAAAAATTAAAAACTAAGAAAATCCCCCCGAAATAAATTACGGAGTAGAAAACTCCGT
TTTTCAGAAATAAAAAAATTTCAAGGAAAAAATAAAAAACTAATGAAAATAAGTAAATTTTTTAA
AATGATTTATTATGAAATAATTAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAAT
CGCCCAAAAAAAATATACGAAGTAGAAAACTCTATTTTTTGGAAACAAAGGAATTTCAAGGAGAA
AATTTA
Found at i:1940123 original size:13 final size:13
Alignment explanation
Indices: 1940105--1940130 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1940095 CAATTTTTTG
1940105 TGTATCGATACAT
1 TGTATCGATACAT
1940118 TGTATCGATACAT
1 TGTATCGATACAT
1940131 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1942533 original size:21 final size:21
Alignment explanation
Indices: 1942509--1942555 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1942499 TTTGATGCTG
1942509 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
1942529 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
1942550 ATTTTG
1 ATTTTG
1942556 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:1942697 original size:13 final size:13
Alignment explanation
Indices: 1942679--1942717 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1942669 ATAATCACCC
*
1942679 TGTATCGATACAG
1 TGTATCGATACAA
1942692 TGTATCGATACAA
1 TGTATCGATACAA
1942705 TGTATCGATACAA
1 TGTATCGATACAA
1942718 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1942728 original size:20 final size:20
Alignment explanation
Indices: 1942703--1942781 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1942693 GTATCGATAC
1942703 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1942723 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
1942748 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1942768 CATGTATCGATACA
1 AATGTATCGATACA
1942782 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1944816 original size:15 final size:15
Alignment explanation
Indices: 1944796--1944826 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1944786 ATTTCGTTTG
*
1944796 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1944811 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1944826 G
1 G
1944827 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1946659 original size:21 final size:21
Alignment explanation
Indices: 1946630--1946674 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1946620 AAGTTTTCAT
*
1946630 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1946650 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1946672 TTT
1 TTT
1946675 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1948910 original size:13 final size:13
Alignment explanation
Indices: 1948892--1948917 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1948882 CAATTTTTTG
1948892 TGTATCGATACAT
1 TGTATCGATACAT
1948905 TGTATCGATACAT
1 TGTATCGATACAT
1948918 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1950492 original size:79 final size:79
Alignment explanation
Indices: 1950388--1950590 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 79
1950378 TAATAACGGG
* * * * * * *
1950388 GTTGGAGTGTTCCCTTGAAAATAACGGGGCTCGAGTATCCCCGATTGTGAGAAATCGATGA-TTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTA
*
1950452 GAAAACAAAATCGAGA
65 GAAAACAAAACCG-GA
* *
1950468 G-TGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTG
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAG
** * * *
1950532 GGAATAAAGCCGGG
66 AAAACAAAACCGGA
*
1950546 GTTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1950591 GAAATAACGA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
78 3 0.03
79 100 0.96
80 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (79 bp):
GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAG
AAAACAAAACCGGA
Found at i:1950575 original size:28 final size:27
Alignment explanation
Indices: 1950542--1950613 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 27
1950532 GGAATAAAGC
1950542 CGGGGTTGGAGTATCCCC-TCGAAAGTAA
1 CGGGGTTGGAGTATCCCCAT-GAAA-TAA
1950570 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCC-ATGAAATAA
*
1950598 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1950614 TCGATTGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCATGAAATAA
Found at i:1950734 original size:52 final size:52
Alignment explanation
Indices: 1950602--1950992 Score: 250
Period size: 51 Copynumber: 7.4 Consensus size: 52
1950592 AAATAACGAG
* * *
1950602 GTTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAAATTGG--TGTTTTGAAAATAAAATCGGA
* * ** * *
1950655 GTTGGAGCATCCCTGATTAAAGG-AAAATTGGCGTTTTGAAAATAAAA-CCGA
1 GTTGGAGTATCCCCGATT-GTGGAAAAATTGGTGTTTTGAAAATAAAATCGGA
* * * *
1950706 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGGG
1 -GTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGA-AAATAAAATCGGA
* * * * ** ** * *
1950759 GTTGAAATATCCCC---T-CGGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGGAAA-AA-----TTGGTGT-T--TTGAAAATAAAATCGGA
*
1950814 GTTGGAGTATCCCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAA-AAATTGGTG--TTTTGAAAATAAAATCGGA
* * *
1950868 GTTGGAGTATCCCCGATTATAG-AAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGAAAATAAAATCGGA
* * * *
1950919 GTTGGAATATCCCCGATTATAG-AAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGAAAATAAAATCGGA
*
1950970 GTTGGAATATCCCCGATTGTGGA
1 GTTGGAGTATCCCCGATTGTGGA
1950993 GAATTTAGAA
Statistics
Matches: 266, Mismatches: 45, Indels: 55
0.73 0.12 0.15
Matches are distributed among these distances:
48 5 0.02
49 3 0.01
51 94 0.35
52 63 0.24
53 32 0.12
54 37 0.14
55 20 0.08
56 2 0.01
57 2 0.01
58 7 0.03
59 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:1950786 original size:213 final size:209
Alignment explanation
Indices: 1950493--1950983 Score: 655
Period size: 213 Copynumber: 2.3 Consensus size: 209
1950483 GAAAATAACG
* * * * * * * *
1950493 GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTT-GAAATAAAACCGGGGTTGGAATATCC
*
1950558 CCTCGAAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTG
65 CCTCGAAAGTAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATTGTG
* *
1950623 AA-AAATTGGTATTTTTTGGAAATAAAATCGGAGTTGGAGCATCCCTGATTAAAGGAAAATTGGC
129 AAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTGGAGCATCCCCGATTAAA-GAAAATTAGC
1950687 GTTTTGAAAATAAAACC
193 GTTTTGAAAATAAAACC
* * *
1950704 GAGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGAAATAT
1 G-GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTT-GAAATAAAACCGGGGTTGGAATAT
* *
1950769 CCCCTCGGAAA-TAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTG
63 CCCCTC-GAAAGTAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTG
* * *
1950833 TGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAG
127 TGAAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTGGAGCATCCCCGATTAAAGAAAATTAG
* *
1950898 TGTTTTGAAAATAAAATC
192 CGTTTTGAAAATAAAACC
* * *
1950916 GGAGTTGGAATATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATAT
1 GG-GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTG-AAATAAAACCGGGGTTGGAATAT
1950980 CCCC
63 CCCC
1950984 GATTGTGGAG
Statistics
Matches: 246, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
210 2 0.01
211 39 0.16
212 91 0.37
213 110 0.45
214 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (209 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAATAAAACCGGGGTTGGAATATCCC
CTCGAAAGTAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGTGAA
GAAATTGGTATTTTTTGGAAATAAAATCGGAGTTGGAGCATCCCCGATTAAAGAAAATTAGCGTT
TTGAAAATAAAACC
Found at i:1950918 original size:51 final size:51
Alignment explanation
Indices: 1950814--1950987 Score: 260
Period size: 51 Copynumber: 3.4 Consensus size: 51
1950804 GATTAACGGG
* * * *
1950814 GTTGGAGTATCCCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAATATCCCCGATTATAG-A-AAATTAGTG--TTTTGAAAATAAAATCGGA
*
1950868 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAATATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1950919 GTTGGAATATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAATATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1950970 GTTGGAATATCCCCGATT
1 GTTGGAATATCCCCGATT
1950988 GTGGAGAATT
Statistics
Matches: 115, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
51 86 0.75
53 8 0.07
54 20 0.17
55 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (51 bp):
GTTGGAATATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:1952815 original size:17 final size:17
Alignment explanation
Indices: 1952793--1952826 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1952783 ATGGAATAGT
1952793 GTTTTTCTTTGTTTTTG
1 GTTTTTCTTTGTTTTTG
* *
1952810 GTTTTTTTTTTTTTTTG
1 GTTTTTCTTTGTTTTTG
1952827 CTAAAGAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (17 bp):
GTTTTTCTTTGTTTTTG
Found at i:1953376 original size:13 final size:13
Alignment explanation
Indices: 1953358--1953383 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1953348 ACAAAGATCC
1953358 ATGTATCGATACA
1 ATGTATCGATACA
1953371 ATGTATCGATACA
1 ATGTATCGATACA
1953384 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1953447 original size:19 final size:18
Alignment explanation
Indices: 1953423--1953494 Score: 84
Period size: 19 Copynumber: 4.2 Consensus size: 18
1953413 CAGTAGCTAA
1953423 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1953442 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1953457 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1953474 TTATGTATCGATACAAA-
1 TTATGTATCGATACAAAC
1953491 TTAT
1 TTAT
1953495 TGAATTTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.23
14 1 0.02
16 2 0.04
17 4 0.09
18 4 0.09
19 25 0.53
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1953463 original size:13 final size:13
Alignment explanation
Indices: 1953445--1953469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1953435 ACAATACTTA
1953445 TGTATCGATACAT
1 TGTATCGATACAT
1953458 TGTATCGATACA
1 TGTATCGATACA
1953470 AAACTTATGT
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:1953467 original size:32 final size:32
Alignment explanation
Indices: 1953426--1953488 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1953416 TAGCTAATTA
*
1953426 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1953458 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1953489 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1954409 original size:55 final size:54
Alignment explanation
Indices: 1954334--1954870 Score: 675
Period size: 55 Copynumber: 9.6 Consensus size: 54
1954324 TGAGGAGTAA
* *
1954334 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTCGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
*
1954388 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGATTGG
1 AAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT-G
* *
1954444 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
1954498 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGG
1 AAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT-G
*
1954554 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
*
1954609 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
* * ** *
1954663 AAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGACTG
*
1954722 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGG-GTCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGACTG
* * ** *
1954780 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAGGCATCCCGCTCTTTGAGGACTG
1 AAAGTGCCACCAACTTGTGTGGGCTTT---GAAAGGTGTCCTGCTCTTTGAGGACTG
* * *
1954837 AAAAATGCCACCAACTCGTGTGGGCTTTAAAAGG
1 -AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1954871 AAAAGGCATC
Statistics
Matches: 444, Mismatches: 24, Indels: 29
0.89 0.05 0.06
Matches are distributed among these distances:
54 36 0.08
55 240 0.54
56 17 0.04
57 22 0.05
58 70 0.16
59 59 0.13
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (54 bp):
AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
Done.