Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold315
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: 271854
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
File 1 of 2
Found at i:96 original size:26 final size:26
Alignment explanation
Indices: 67--152 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
57 TTAAGATGGA
*
67 GTGCCACCGATTTTGGGCTTTAAAGG
1 GTGCCACTGATTTTGGGCTTTAAAGG
*
93 GTGCCACTGATTTGTGGGCTTTGAAGG
1 GTGCCACTGATTT-TGGGCTTTAAAGG
* *
120 TTGCCACTGACTTGTGGGCTTTTAAAGG
1 GTGCCACTGA-TTTTGGGC-TTTAAAGG
*
148 TTGCC
1 GTGCC
153 TGAGTGTGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 12 0.23
27 26 0.50
28 14 0.27
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (26 bp):
GTGCCACTGATTTTGGGCTTTAAAGG
Found at i:119 original size:27 final size:29
Alignment explanation
Indices: 67--520 Score: 256
Period size: 29 Copynumber: 16.1 Consensus size: 29
57 TTAAGATGGA
* *
67 GTGCCACCGA-TTTTGGGC-TTT-AAAGG
1 GTGCCACTGACTTGTGGGCTTTTGAAAGG
*
93 GTGCCACTGATTTGTGGGC-TTTG-AAGG
1 GTGCCACTGACTTGTGGGCTTTTGAAAGG
*
120 TTGCCACTGACTTGTGGGCTTTT-AAAGG
1 GTGCCACTGACTTGTGGGCTTTTGAAAGG
* * **
148 TTG-C-CTGA-GTGTGGGCTTTTGAAAAT
1 GTGCCACTGACTTGTGGGCTTTTGAAAGG
*
174 ATGCCACTGACTTGTGGGCTTTTGAACAGG
1 GTGCCACTGACTTGTGGGCTTTTGAA-AGG
*
204 GTGCCACTAACTTGT-GGCTTTT-AAAGG
1 GTGCCACTGACTTGTGGGCTTTTGAAAGG
* **
231 TTGCCACT-ACTTGTGGGCTTTTGAAAAAT
1 GTGCCACTGACTTGTGGGCTTTTG-AAAGG
*
260 ATGCCACTGACTTGTGGGC-TTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTTG-AAAGG
* *
289 GTGCCACTAACTTGTGGGC---TGAAA-A
1 GTGCCACTGACTTGTGGGCTTTTGAAAGG
* * * ** *
314 GTG-C-TTAGAGTTGTGAGCTTACAAAAGAAAAAGA
1 GTGCCACT-GACTTGTGGGCTT----TTG--AAAGG
* * * * *
348 GTGCCACGGAGTTGTGGACTTTGGAAA-A
1 GTGCCACTGACTTGTGGGCTTTTGAAAGG
* * **
376 G-ACCACCGACTTGTGGGCTTCGGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTTG-AAAGG
*
405 GTGCCACTGATTTGTGGGC-TTTG-AAGG
1 GTGCCACTGACTTGTGGGCTTTTGAAAGG
* * **
432 TTGCCACTGACTTGTGGGCTTTCGAAAAA
1 GTGCCACTGACTTGTGGGCTTTTGAAAGG
* **
461 ATGCCACTGACTTGTGGGC-TTTGAAAAAA
1 GTGCCACTGACTTGTGGGCTTTTG-AAAGG
* *
490 ATGCCACTGACTTGTGGACTTTTG-AAGG
1 GTGCCACTGACTTGTGGGCTTTTGAAAGG
518 GTG
1 GTG
521 AGGAATGTCT
Statistics
Matches: 340, Mismatches: 55, Indels: 64
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.00
24 9 0.03
25 14 0.04
26 27 0.08
27 90 0.26
28 31 0.09
29 105 0.31
30 42 0.12
31 2 0.01
33 3 0.01
34 4 0.01
35 12 0.04
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (29 bp):
GTGCCACTGACTTGTGGGCTTTTGAAAGG
Found at i:166 original size:25 final size:28
Alignment explanation
Indices: 80--308 Score: 177
Period size: 27 Copynumber: 8.2 Consensus size: 28
70 CCACCGATTT
* **
80 TGGGC-TTTAAAGGGTGCCACTGATTTG
1 TGGGCTTTTAAAGGTTGCCACTGACGTG
* *
107 TGGGC-TTTGAAGGTTGCCACTGACTTG
1 TGGGCTTTTAAAGGTTGCCACTGACGTG
134 TGGGCTTTTAAAGGTTG-C-CTGA-GTG
1 TGGGCTTTTAAAGGTTGCCACTGACGTG
* *
159 TGGGCTTTTGAAA-ATATGCCACTGACTTG
1 TGGGCTTTT-AAAGGT-TGCCACTGACGTG
* * *
188 TGGGCTTTTGAACAGGGTGCCACTAACTTG
1 TGGGCTTTT-AA-AGGTTGCCACTGACGTG
*
218 T-GGCTTTTAAAGGTTGCCACT-ACTTG
1 TGGGCTTTTAAAGGTTGCCACTGACGTG
** *
244 TGGGCTTTTGAAAAATATGCCACTGACTTG
1 TGGGCTTTT-AAAGGT-TGCCACTGACGTG
* * * *
274 TGGGCTTTGAAAAGGGTGCCACTAACTTG
1 TGGGCTTT-TAAAGGTTGCCACTGACGTG
303 TGGGCT
1 TGGGCT
309 GAAAAGTGCT
Statistics
Matches: 171, Mismatches: 18, Indels: 24
0.80 0.08 0.11
Matches are distributed among these distances:
25 12 0.07
26 15 0.09
27 48 0.28
28 20 0.12
29 46 0.27
30 30 0.18
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (28 bp):
TGGGCTTTTAAAGGTTGCCACTGACGTG
Found at i:290 original size:85 final size:82
Alignment explanation
Indices: 94--305 Score: 304
Period size: 85 Copynumber: 2.5 Consensus size: 82
84 CTTTAAAGGG
* * *
94 TGCCACTGATTTGTGGGCTTTG--AAGGTTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCTGAG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGT-GGCTTTTAAAGGTTGCCTGAG
157 TGTGGGCTTTTGAAAATA
65 TGTGGGCTTTTGAAAATA
*
175 TGCCACTGACTTGTGGGCTTTTGAACAGGGTGCCACTAACTTGTGGCTTTTAAAGGTTGCCACT-
1 TGCCACTGACTTGTGGGC-TTTGAAAAGGGTGCCACTAACTTGTGGCTTTTAAAGGTTG-C-CTG
*
239 ACTTGTGGGCTTTTGAAAAATA
63 A-GTGTGGGCTTTTG-AAAATA
261 TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGG
306 GCTGAAAAGT
Statistics
Matches: 118, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
81 17 0.14
82 4 0.03
83 15 0.13
84 18 0.15
85 40 0.34
86 24 0.20
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.33
Consensus pattern (82 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGCTTTTAAAGGTTGCCTGAGT
GTGGGCTTTTGAAAATA
Found at i:312 original size:56 final size:54
Alignment explanation
Indices: 205--313 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 54
195 TTGAACAGGG
* *
205 TGCCACTAACTTGTGGCTTTTAAAGGTTGCCACTACTTGTGGGCTTTTGAAAAATA
1 TGCCACTAACTTGTGGCTTTAAAAGGGTGCCACTACTTGTGGGC--TTGAAAAATA
*
261 TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGC-TGAAAA
1 TGCCACTAACTTGT-GGCTTT-AAAAGGGTGCCACT-ACTTGTGGGCTTGAAAA
314 GTGCTTAGAG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
56 19 0.40
57 6 0.13
58 12 0.26
59 10 0.21
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (54 bp):
TGCCACTAACTTGTGGCTTTAAAAGGGTGCCACTACTTGTGGGCTTGAAAAATA
Found at i:1951 original size:1 final size:1
Alignment explanation
Indices: 1947--2046 Score: 119
Period size: 1 Copynumber: 100.0 Consensus size: 1
1937 CCGGACCCCC
* * * * * *
1947 TTTTTTTGTTTTGTTTGTTTTTTTTGTTTTTGTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
2012 TTTTTTGTTTTTTTTTTGTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2047 GGAGGACGCC
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 81 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:1969 original size:19 final size:18
Alignment explanation
Indices: 1947--2045 Score: 134
Period size: 18 Copynumber: 5.7 Consensus size: 18
1937 CCGGACCCCC
*
1947 TTTTTTTGTTTTGTTTGT
1 TTTTTTTTTTTTGTTTGT
1965 TTTTTTTGTTTTTGTTT-T
1 TTTTTTT-TTTTTGTTTGT
*
1983 TTTTTTTTTTTTTTTTGT
1 TTTTTTTTTTTTGTTTGT
2001 TTTTTTTTTTTT-TTT-T
1 TTTTTTTTTTTTGTTTGT
*
2017 TGTTTTTTTTTTG-TTGT
1 TTTTTTTTTTTTGTTTGT
2034 TTTTTTTTTTTT
1 TTTTTTTTTTTT
2046 TGGAGGACGC
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
16 14 0.19
17 23 0.32
18 28 0.38
19 8 0.11
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (18 bp):
TTTTTTTTTTTTGTTTGT
Found at i:1978 original size:15 final size:14
Alignment explanation
Indices: 1948--2045 Score: 137
Period size: 14 Copynumber: 6.9 Consensus size: 14
1938 CGGACCCCCT
1948 TTTTTTGTTTTGTTTG
1 TTTTTT-TTTT-TTTG
1964 TTTTTTTTGTTTTTG
1 TTTTTTTT-TTTTTG
1979 TTTTTTTTTTTTT-
1 TTTTTTTTTTTTTG
*
1992 TTTTTTTGTTTTT-
1 TTTTTTTTTTTTTG
2005 TTTTTTTTTTTTTG
1 TTTTTTTTTTTTTG
*
2019 TTTTTTTTTTGTTG
1 TTTTTTTTTTTTTG
2033 TTTTTTTTTTTTT
1 TTTTTTTTTTTTT
2046 TGGAGGACGC
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
13 24 0.32
14 30 0.39
15 14 0.18
16 8 0.11
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:1993 original size:40 final size:38
Alignment explanation
Indices: 1947--2046 Score: 141
Period size: 38 Copynumber: 2.6 Consensus size: 38
1937 CCGGACCCCC
1947 TTTTTTTGTTTTGTTTGTTTTTTTTGTTTTTGTT-TTTTTT
1 TTTTTTTGTTTTGTTT-TTTTTTTT-TTTTT-TTGTTTTTT
*
1987 TTTTTTTTTTTTGTTTTTTTTTTTTTTTTTTGTTTTTT
1 TTTTTTTGTTTTGTTTTTTTTTTTTTTTTTTGTTTTTT
*
2025 TTTTGTTGTTTT-TTTTTTTTTT
1 TTTTTTTGTTTTGTTTTTTTTTT
2047 GGAGGACGCC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
37 12 0.21
38 21 0.38
39 8 0.14
40 15 0.27
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (38 bp):
TTTTTTTGTTTTGTTTTTTTTTTTTTTTTTTGTTTTTT
Found at i:26041 original size:1 final size:1
Alignment explanation
Indices: 26030--26177 Score: 116
Period size: 1 Copynumber: 148.0 Consensus size: 1
26020 GGCGTCCTCC
* ** ** ** ** * **
26030 AAAACAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAAATGAAAAAAAGAAAAACCAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * *
26095 AAAAAAAAAAAAACAAAAAAAAAGCAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAACAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
26160 AAAACAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAA
26178 GGGGGTCCGG
Statistics
Matches: 115, Mismatches: 32, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 115 1.00
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:26067 original size:29 final size:27
Alignment explanation
Indices: 26030--26175 Score: 159
Period size: 28 Copynumber: 5.1 Consensus size: 27
26020 GGCGTCCTCC
**
26030 AAAA-CAAAAAAAAAAACGAAAAAAATGA
1 AAAACCAAAAAAAAAAA--AAAAAAAAAA
* *
26058 AAAACCAAAAAAAAAAATGAAAAAAAGA
1 AAAACCAAAAAAAAAAA-AAAAAAAAAA
26086 AAAACCAAAAAAAAAAAAAAAACAAAAA
1 AAAACCAAAAAAAAAAAAAAAA-AAAAA
*
26114 AAAAGCAAAAAAAAAAAAAAAAAAAAA
1 AAAACCAAAAAAAAAAAAAAAAAAAAA
*
26141 AAAAACAAAAAACAATAAAAAAACAAACAAA
1 AAAACCAAAAAA-AA-AAAAAAA-AAA-AAA
26172 AAAA
1 AAAA
26176 AAGGGGGTCC
Statistics
Matches: 105, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
27 20 0.19
28 56 0.53
29 19 0.18
30 3 0.03
31 7 0.07
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.02
Consensus pattern (27 bp):
AAAACCAAAAAAAAAAAAAAAAAAAAA
Found at i:26117 original size:56 final size:54
Alignment explanation
Indices: 26030--26174 Score: 148
Period size: 55 Copynumber: 2.6 Consensus size: 54
26020 GGCGTCCTCC
* * * * *
26030 AAAACAAAAAAAAAAACGAAAAA-AATGAAAAACCAAAAAAAAAAATGAAAAAAAGAA
1 AAAACAAAAAAAAAAA--AAAAACAA-AAAAAAACCAAAAAAAAAA-AAAAAAAAAAA
* *
26087 AAACCAAAAAAAAAAAAAAAACAAAAAAAAAGCAAAAAAAAAAAAAAAAAAAAAA
1 AAAACAAAAAAAAAAAAAAAACAAAAAAAAA-CCAAAAAAAAAAAAAAAAAAAAA
*
26142 AAAACAAAAAACAATAAAAAAACAAACAAAAAA
1 AAAACAAAAAA-AAAAAAAAAACAAA-AAAAAA
26175 AAAGGGGGTC
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
55 29 0.38
56 27 0.35
57 21 0.27
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.02
Consensus pattern (54 bp):
AAAACAAAAAAAAAAAAAAAACAAAAAAAAACCAAAAAAAAAAAAAAAAAAAAA
Found at i:27674 original size:30 final size:29
Alignment explanation
Indices: 27619--28087 Score: 353
Period size: 30 Copynumber: 15.9 Consensus size: 29
27609 TCACCCTTCA
* *
27619 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
27648 AAAGCCCACAAGTCAGTGGCATTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* *
27678 GAAAGCCCACAAGTCAGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
27706 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * *
27736 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
27765 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * *
27795 TTTTGTAAGCTCACAACTCTA-TAGCA-CTCTTTTC
1 -----AAAGCCCACAAGTC-AGTGGCATCT-TTTTC
* * *
27829 --AGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
27856 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
27886 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
27915 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
27944 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * **
27974 AAAAGCCCACAAGTCAGTGGCAACCTTTAA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
28004 AAAGCCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
28031 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * *
28061 GAAGCCCACAAATCGGTGGCACCTTTT
1 AAAGCCCACAAGTCAGTGGCATCTTTT
28088 CCATCTTTAA
Statistics
Matches: 359, Mismatches: 58, Indels: 46
0.78 0.13 0.10
Matches are distributed among these distances:
26 1 0.00
27 59 0.16
28 27 0.08
29 78 0.22
30 151 0.42
31 21 0.06
33 2 0.01
34 5 0.01
35 15 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:27721 original size:27 final size:27
Alignment explanation
Indices: 27679--27731 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
27669 TTTTTTTTCG
*
27679 AAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCAACCTTC
*
27706 AAAGCCCACAAATCAGTGGCACCCTT
1 AAAGCCCACAAATCAGTGGCAACCTT
27732 TTCCGAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (27 bp):
AAAGCCCACAAATCAGTGGCAACCTTC
Found at i:27722 original size:58 final size:57
Alignment explanation
Indices: 27615--28056 Score: 277
Period size: 58 Copynumber: 7.5 Consensus size: 57
27605 TTCATCACCC
* *** *
27615 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA--ACCTTCAAAGCCCACAAGTCAGTGGCA-TATTT
* * ***
27675 TTCGAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCATATTT
** * * * * * * *
27732 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTT-CAAAGCCCACAAGTCAGTGGCA-TATTT
** * * * *** * ***
27792 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTTTCAGCCCACAAGTTAGTGGCACCCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-CTTCAAAGCCCACAAGTCAGTGGCATATTT
** **
27853 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
1 TTCAAAAGCCCACAAGTCAGTGGCA-A-CCTTC-AAAGCCCACAAGTCAGTGGCATATTT
* *
27912 TT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAGTCAGTGGCATATTT
* **
27971 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAAGCCCACAAGTCAGTGGCA-A-CC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-TT-CAAAGCCCACAAGTCAGTGGCATATTT
* *
28028 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
28057 TTTCGAAGCC
Statistics
Matches: 301, Mismatches: 63, Indels: 41
0.74 0.16 0.10
Matches are distributed among these distances:
55 2 0.01
56 23 0.08
57 42 0.14
58 72 0.24
59 53 0.18
60 70 0.23
61 6 0.02
62 15 0.05
63 4 0.01
64 14 0.05
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (57 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCATATTT
Found at i:27934 original size:88 final size:88
Alignment explanation
Indices: 27615--28086 Score: 392
Period size: 88 Copynumber: 5.4 Consensus size: 88
27605 TTCATCACCC
* *** * *** *
27615 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTTCGA
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTAAAAGCCCACAAGTCAGTGGCA-CCCTTTTCAA
**
27680 AAGCCCACAAGTCAGTGGCA-A-CC
64 AAGCCCACAAGTCAGTGGCATATTT
* * ** * * *
27703 TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCA-TCTTTTCCA
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCACCCTTTTCAA
* * * *
27766 AAGTCCACAACTCCGTGGCACTCTTT
64 AAGCCCACAAGTCAGTGGCA-TATTT
** * * * ** *
27792 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTT-TCAGCCCACAAGTTAGTGGCACCCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-CTTTAAAAGCCCACAAGTCAGTGGCACCCTTT
27854 TCAAAAGCCCACAAGTCAGTGGCATATTT
60 TCAAAAGCCCACAAGTCAGTGGCATATTT
* *
27883 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
27948 GCCCACAAGTCAGTGGCATATTT
66 GCCCACAAGTCAGTGGCATATTT
*
27971 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAAGCCCACAAGTCAGTGGCAACC--TTC-AA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* **
28033 AGCCCACAAATCAGTGGCACCCTTT
65 AGCCCACAAGTCAGTGGCA-TATTT
* * *
28058 TTC-GAAGCCCACAAATCGGTGGC-ACCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTT
28087 TCCATCTTTA
Statistics
Matches: 320, Mismatches: 46, Indels: 39
0.79 0.11 0.10
Matches are distributed among these distances:
85 6 0.02
86 62 0.19
87 49 0.15
88 109 0.34
89 26 0.08
91 24 0.08
92 24 0.08
93 4 0.01
94 15 0.05
95 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (88 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
GCCCACAAGTCAGTGGCATATTT
Found at i:28160 original size:43 final size:43
Alignment explanation
Indices: 28092--28181 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
28082 CCTTTTCCAT
*
28092 CTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
* * *
28135 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
28178 CTTT
1 CTTT
28182 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
Found at i:28213 original size:52 final size:53
Alignment explanation
Indices: 28135--28272 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 53
28125 ACATTGGCAC
* *
28135 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
* * *
28187 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCC-TTTTC-CAT
* * * * *
28242 CTTTAAGCCCCATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
28273 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 38 0.54
53 2 0.03
54 5 0.07
55 26 0.37
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
Found at i:29138 original size:13 final size:13
Alignment explanation
Indices: 29120--29144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29110 CATAAAGTGT
29120 TGTATCGATACAA
1 TGTATCGATACAA
29133 TGTATCGATACA
1 TGTATCGATACA
29145 TGTTTTTTTG
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:29225 original size:13 final size:13
Alignment explanation
Indices: 29207--29231 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29197 ATCACTTAAA
29207 TGTATCGATACAT
1 TGTATCGATACAT
29220 TGTATCGATACA
1 TGTATCGATACA
29232 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:29284 original size:52 final size:52
Alignment explanation
Indices: 29240--29420 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
29230 CACTGATCTT
29240 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
29292 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
29344 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
29396 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
29421 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:32748 original size:20 final size:19
Alignment explanation
Indices: 32725--32815 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
32715 CACACCCAAA
*
32725 TGTATCGATATATATTGCTT
1 TGTATCGATACATATT-CTT
32745 TGTATCGATACATATTCTT
1 TGTATCGATACATATTCTT
* * *
32764 GGTATTGATGCATATTCTT
1 TGTATCGATACATATTCTT
* ***
32783 GGTATCGATACATAGTGAAT
1 TGTATCGATACATA-TTCTT
32803 TGTATCGATACAT
1 TGTATCGATACAT
32816 GAAACTGGCA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 31 0.52
20 29 0.48
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATATTCTT
Found at i:32777 original size:19 final size:19
Alignment explanation
Indices: 32726--32796 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
32716 ACACCCAAAT
* *
32726 GTATCGATATATATTGCTTT
1 GTATCGATACATATT-CTTG
32746 GTATCGATACATATTCTTG
1 GTATCGATACATATTCTTG
* *
32765 GTATTGATGCATATTCTTG
1 GTATCGATACATATTCTTG
32784 GTATCGATACATA
1 GTATCGATACATA
32797 GTGAATTGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
19 31 0.69
20 14 0.31
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.44
Consensus pattern (19 bp):
GTATCGATACATATTCTTG
Found at i:33954 original size:10 final size:9
Alignment explanation
Indices: 33934--33984 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
33924 TTAATTTTCC
33934 TTTTCTCTTT
1 TTTTCT-TTT
*
33944 GTTTCTTTT
1 TTTTCTTTT
*
33953 TGCTTCTTTT
1 T-TTTCTTTT
33963 TTTT-TGTTT
1 TTTTCT-TTT
33972 TTTTCTTTT
1 TTTTCTTTT
33981 TTTT
1 TTTT
33985 TTGAAAATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.56
10 14 0.41
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:34838 original size:12 final size:12
Alignment explanation
Indices: 34821--34854 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34811 GATGAAAGTA
*
34821 ATGTATGTATGT
1 ATGTATGCATGT
34833 ATGTATGCATGT
1 ATGTATGCATGT
34845 ATGTAATGCA
1 ATGT-ATGCA
34855 GACAACTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (12 bp):
ATGTATGCATGT
Found at i:37689 original size:22 final size:23
Alignment explanation
Indices: 37649--37703 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
37639 GCACGCACAT
37649 GATGAAAAAATCCATTTTTCTCG
1 GATGAAAAAATCCATTTTTCTCG
37672 GATGAAAAAATCCATTTTTCTCG
1 GATGAAAAAATCCATTTTTCTCG
*
37695 AATGAAAAA
1 GATGAAAAA
37704 GATAAATTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (23 bp):
GATGAAAAAATCCATTTTTCTCG
Found at i:37712 original size:24 final size:23
Alignment explanation
Indices: 37650--37712 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
37640 CACGCACATG
** *
37650 ATGAAAAAATCCATTTTTCTCGG
1 ATGAAAAAATAAATTTTTCTCGA
**
37673 ATGAAAAAATCCATTTTTCTCGA
1 ATGAAAAAATAAATTTTTCTCGA
37696 ATGAAAAAGATAAATTT
1 ATGAAAAA-ATAAATTT
37713 GTAAAGGGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 30 0.83
24 6 0.17
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (23 bp):
ATGAAAAAATAAATTTTTCTCGA
Found at i:38596 original size:166 final size:167
Alignment explanation
Indices: 38219--38698 Score: 536
Period size: 166 Copynumber: 2.9 Consensus size: 167
38209 CCTTTTTTCG
* * **
38219 AAATACGAAATTTTTTACTCTATAAATATTTTC-GAGGGGATTTTTCTTGGTAGTTAA-TTTT--
1 AAATACGAAATTTTTTACTCCATAAATATTTTCGGA-GGGATTTTTCTTAGTTTTTAATTTTTAA
* * * *
38280 --TCATC-AA-ACTATCATTTGATCCACATTAAATCATTTTTTCAAAAATTCATTCATTTTCATG
65 AATCATCAAATATTATCATTTGATTCACATTAAATCA-GTTTTAAAAAATTCATTCATTTTCATG
* * * * * *
38341 AGTTTTTGAATTTTTTTCTTGAAATTCACTTTTTTTTTA
129 AGTTTTTGAATATTTTCCTTAAAATTCACCTTATTTCTA
*** ** *** *
38380 AAATACGTTGTTTTTCGCTTGGTAAAT-TTTTCGGTGGGATTTTTCTTAGTTTTTAATTTTTAAA
1 AAATACGAAATTTTTTACTCCATAAATATTTTCGGAGGGATTTTTCTTAGTTTTTAATTTTTAAA
* * *
38444 AGTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTAAAAAATTCATTCATTTTCATGA
66 A-TCATCAAATATTATCATTTGATTCACATTAAATCAGTTTTAAAAAATTCATTCATTTTCATGA
38509 GTTTTTGAA-ATTTTCCTTAAAATTC-CCTTATTTCTA
130 GTTTTTGAATATTTTCCTTAAAATTCACCTTATTTCTA
38545 AAATACGAAATTTTTTACTCCATAAATATTTTCGGAGGGATTTTTCTTAGTTTTTAATTTTTAAA
1 AAATACGAAATTTTTTACTCCATAAATATTTTCGGAGGGATTTTTCTTAGTTTTTAATTTTTAAA
* * *
38610 ATTCATCAAATATCATCATTTGATTCACATTAAATCAGTTTTAAAAAATTAACTT-AGTTTCATG
66 A-TCATCAAATATTATCATTTGATTCACATTAAATCAGTTTTAAAAAATTCA-TTCATTTTCATG
* * *
38674 AG-TTTTGATTTTTTTCTTTAAAATT
129 AGTTTTTGAATATTTTCCTTAAAATT
38699 TTTCTTTTTT
Statistics
Matches: 263, Mismatches: 44, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
160 23 0.09
161 24 0.09
165 33 0.13
166 123 0.47
167 39 0.15
168 21 0.08
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (167 bp):
AAATACGAAATTTTTTACTCCATAAATATTTTCGGAGGGATTTTTCTTAGTTTTTAATTTTTAAA
ATCATCAAATATTATCATTTGATTCACATTAAATCAGTTTTAAAAAATTCATTCATTTTCATGAG
TTTTTGAATATTTTCCTTAAAATTCACCTTATTTCTA
Found at i:38846 original size:12 final size:12
Alignment explanation
Indices: 38829--38855 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38819 CAAAACTTAA
38829 TTTATTTTTTAT
1 TTTATTTTTTAT
38841 TTTATTTTTTAT
1 TTTATTTTTTAT
38853 TTT
1 TTT
38856 TTGATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:38862 original size:8 final size:7
Alignment explanation
Indices: 38829--38865 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
38819 CAAAACTTAA
38829 TTTATTT
1 TTTATTT
38836 TTTA--T
1 TTTATTT
38841 TTTATTT
1 TTTATTT
38848 TTTATTT
1 TTTATTT
38855 TTTGATTT
1 TTT-ATTT
38863 TTT
1 TTT
38866 TATGTGTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.19
7 15 0.56
8 7 0.26
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:39021 original size:14 final size:14
Alignment explanation
Indices: 39002--39052 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
38992 AAATTTTATC
39002 TTAATTTTTAAATT
1 TTAATTTTTAAATT
39016 TTAATTTTTACAA-T
1 TTAATTTTTA-AATT
*
39030 TTAATTATT--ATT
1 TTAATTTTTAAATT
39042 ATTAATTTTTA
1 -TTAATTTTTA
39053 TGGTATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 1 0.03
12 1 0.03
13 8 0.26
14 19 0.61
15 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TTAATTTTTAAATT
Found at i:39184 original size:17 final size:17
Alignment explanation
Indices: 39156--39190 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
39146 CATTTAATGC
39156 AAATCAAATCAAGAAAAA
1 AAATCAAATCAA-AAAAA
39174 AAATC-AATCAAAAAAA
1 AAATCAAATCAAAAAAA
39190 A
1 A
39191 GAAAGAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 6 0.35
18 5 0.29
ACGTcount: A:0.74, C:0.11, G:0.03, T:0.11
Consensus pattern (17 bp):
AAATCAAATCAAAAAAA
Found at i:39815 original size:128 final size:130
Alignment explanation
Indices: 39611--39873 Score: 458
Period size: 129 Copynumber: 2.0 Consensus size: 130
39601 CAGGCAACGG
* *
39611 CAGCAGCTGAAGAAGCAAGCAATGGCAACAGATAAAAAAAAAAGGAATGGTAGAAGCAAATAGTA
1 CAGCAGCTGAAGAAGCAAGCAATGGCAACAGATAAAAAAAAAAGGAATGGCAAAAGCAAATAGTA
*
39676 AAGAAGGAAGAAAGAAAAAAAG-AAAAAAAACAATAGCAGGAGCAGCTAGCACGAATAGCAAAGA
66 AAGAAGGAAGAAAGAAAAAAAGCAAAAAAAAAAATAGCAGGAGCAGCTAGCACGAATAGCAAAGA
* * *
39740 TAGCAGCTGAAGAAGCAAGCAATGGCAACAGAT-AAAAAAGAAGGAATGGCAAAAGCAAATATTA
1 CAGCAGCTGAAGAAGCAAGCAATGGCAACAGATAAAAAAAAAAGGAATGGCAAAAGCAAATAGTA
39804 AAGAAGGAAGAAAGAAAAAAAGCAAAAAAAAAAATAGCAGGAGCAGCTAGCACGAATAGCAAAGA
66 AAGAAGGAAGAAAGAAAAAAAGCAAAAAAAAAAATAGCAGGAGCAGCTAGCACGAATAGCAAAGA
39869 CAGCA
1 CAGCA
39874 ACATCAATAG
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
128 49 0.39
129 77 0.61
ACGTcount: A:0.56, C:0.12, G:0.24, T:0.08
Consensus pattern (130 bp):
CAGCAGCTGAAGAAGCAAGCAATGGCAACAGATAAAAAAAAAAGGAATGGCAAAAGCAAATAGTA
AAGAAGGAAGAAAGAAAAAAAGCAAAAAAAAAAATAGCAGGAGCAGCTAGCACGAATAGCAAAGA
Found at i:39972 original size:23 final size:23
Alignment explanation
Indices: 39946--40025 Score: 58
Period size: 23 Copynumber: 3.4 Consensus size: 23
39936 TTAGCAAGTC
39946 AGCAAGCAAACAAGCAAGGAAAT
1 AGCAAGCAAACAAGCAAGGAAAT
* * *
39969 AGCAAGTAAA-AAGTAGCAGGAAAC
1 AGCAAGCAAACAAGCA--AGGAAAT
* *
39993 AGCAAACAAGAGC-AGCAA-CAAAT
1 AGCAAGCAA-A-CAAGCAAGGAAAT
40016 AGCAAGCAAA
1 AGCAAGCAAA
40026 AGCAACAGCA
Statistics
Matches: 43, Mismatches: 9, Indels: 11
0.68 0.14 0.17
Matches are distributed among these distances:
22 5 0.12
23 20 0.47
24 14 0.33
25 1 0.02
26 3 0.07
ACGTcount: A:0.56, C:0.17, G:0.21, T:0.05
Consensus pattern (23 bp):
AGCAAGCAAACAAGCAAGGAAAT
Found at i:42189 original size:154 final size:152
Alignment explanation
Indices: 41711--42879 Score: 723
Period size: 156 Copynumber: 7.5 Consensus size: 152
41701 CCCATCTCTG
* * * * *
41711 AATCCTTTTTAAAGTCTTTTAGGGGTATCAGATACTTTTACGTCGAAGGTATCCCTGAGGGACAT
1 AATCCTTTTT-AAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAAGTATCCCT-AGGGGCAT
* * ** * * * * ** ** **
41776 TTTGGTAATTTCTTAGAA-CCGATTCCTAGGTTGCCATCGAGTCTGCTACTATGCC-AACGGTAT
64 TTTCGTAATTTTTTAGAATCTAAGTCCTAAGTTGTCA-CGGGTCCACTTTTATGCCGAA-GGTGG
* * * *
41839 GTATTTAAGATAGGTTTGACCCCTTTT
127 GTATTTAGGATAGG-TTCATCCCATTT
** * * * * * * *
41866 AGCTATATTTTTTTAAGTCCTTTAGGGTTACCGGGATACCTTCACGT-TAAAGGTGTCCTTTAGG
1 A---AT-CCTTTTTAAGTCCTTTAGGGGTATCGGG-TACTTTTACGTCGAAA-GTATCC-CTAGG
* * * * * * * * *
41930 GGTATTTTTGTAATTTTTTAAAATC-GAGTCTTAGGTTGTCACTAGGTCCACTTTTATGCCAAAA
59 GGCATTTTCGTAATTTTTTAGAATCTAAGTCCTAAGTTGTCAC-GGGTCCACTTTTATGCCGAAG
* *
41994 GTGGGAAGTTAGGATAGGTTCATCCCATTT
123 GTGGGTATTTAGGATAGGTTCATCCCATTT
* * * **
42024 CAAACCTTTTTAAGTTCTTGAGGGGTATCGGGTACTTTTACGTCGAAAGTATCCTCTAGGGATAT
1 -AATCCTTTTTAAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAAGTATCC-CTAGGGGCAT
* * * *
42089 TTTGGTAATTTTTTAGAA-C-AAGTCCTAGGTTGTCATCGGGTCCACTTTAATG-CGAAGGTTGG
64 TTTCGTAATTTTTTAGAATCTAAGTCCTAAGTTGTCA-CGGGTCCACTTTTATGCCGAAGGTGGG
* *
42151 TTTTTAGGATAGGTTCATCCTATTGTGT
128 TATTTAGGATAGGTTCATCCCA-T-T-T
* * * * * * *
42179 TATCCTTTTTAAGTCCTATATGGGTATCAGGTATTTTTACGTCGAAGGTATCCCCTAGAGGCATT
1 AATCCTTTTTAAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAAGTAT-CCCTAGGGGCATT
* * * * *** * *
42244 TTCGTAATTTTCTA-AAACTAACTCTTAAGTTGTCACCGGGTTTGCTTTTATGCCAAAGGTGGGC
65 TTCGTAATTTTTTAGAATCTAAGTCCTAAGTTGTCA-CGGGTCCACTTTTATGCCGAAGGTGGGT
* *
42308 AGTTATGATAGGTTCATCCCATTTT
129 ATTTAGGATAGGTTCATCCCA-TTT
* * *
42333 AGA-CCTTTTTAAGTCCTTTAGGGGTACCGAGTACTTGTACGTCG-AAGATATCCCTTAGGGGCA
1 A-ATCCTTTTTAAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAAG-TATCCC-TAGGGGCA
* * * * *
42396 TTTTCATAATTTTTCTA-AAGCTAAGTCCTAGGTTGTCACTGGGTCCACTTTTATGTCGAAGGTT
63 TTTTCGTAATTTTT-TAGAATCTAAGTCCTAAGTTGTCAC-GGGTCCACTTTTATGCCGAAGGTG
* * * *
42460 GATATTTAGGGTAGCG-TCATCCTAGTTAA
126 GGTATTTAGGATAG-GTTCATCCCA-TT-T
* * * *
42489 AATTCTTTTTAAGTCCTTTAGGGTTGTCGGGATACTTTTACGTCGAAAGTATACCCGTTGGGGCA
1 AATCCTTTTTAAGTCCTTTAGGGGTATCGGG-TACTTTTACGTCGAAAGTAT-CCC-TAGGGGCA
* * * ** **
42554 TTTTCATAATTTTTGAGAATCGAA-TCCTAAGTTGTCACCGGGTCTGCTTTTATGCC-AAAATGG
63 TTTTCGTAATTTTTTAGAATCTAAGTCCTAAGTTGTCA-CGGGTCCACTTTTATGCCGAAGGT-G
*
42617 GGCATTTAGGATAGGTTCATCCCATCTCT
126 GGTATTTAGGATAGGTTCATCCCAT-T-T
* * * ** * * *
42646 AGT-CTTTTTAAGTTCTTTAGGGTTGCCAGGGTACTTTTACGTCGAAGGTATACCCACAAGGGCA
1 AATCCTTTTTAAGTCCTTTAGGGGTATC-GGGTACTTTTACGTCGAAAGTAT-CCC-TAGGGGCA
* * * * ** * *
42710 TTTTCGTAATTTTTTGGAA-CCAAGTCCTAAGTTATAATCGGGTCTGCTTTCATGCCGAAGATGG
63 TTTTCGTAATTTTTTAGAATCTAAGTCCTAAGTTGTCA-CGGGTCCACTTTTATGCCGAAGGTGG
* *
42774 GTATTTAGGATAGTTTCACCCCCATCTGT
127 GTATTTAGGATAGGTTCA-TCCCAT-T-T
* ** * * * *
42803 AATCTTTTTTAAGTCCTTTAGGGGTATCAAGCACTTTTACATTGAAAGTATCCCTTAGGGGCAGT
1 AATCCTTTTTAAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAAGTATCCC-TAGGGGCATT
*
42868 TTCATAATTTTT
65 TTCGTAATTTTT
42880 CTCAAACTTA
Statistics
Matches: 790, Mismatches: 183, Indels: 81
0.75 0.17 0.08
Matches are distributed among these distances:
152 25 0.03
153 36 0.05
154 162 0.21
155 115 0.15
156 191 0.24
157 97 0.12
158 82 0.10
159 78 0.10
160 4 0.01
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (152 bp):
AATCCTTTTTAAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAAGTATCCCTAGGGGCATTT
TCGTAATTTTTTAGAATCTAAGTCCTAAGTTGTCACGGGTCCACTTTTATGCCGAAGGTGGGTAT
TTAGGATAGGTTCATCCCATTT
Found at i:42873 original size:312 final size:305
Alignment explanation
Indices: 41874--42879 Score: 925
Period size: 308 Copynumber: 3.2 Consensus size: 305
41864 TTAGCTATAT
* * * * * * * * *
41874 TTTTTTAAGTCCTTTAGGGTTACCGGGATACCTTCACGT-TAAAGGTGTCCTTTAGGGGTATTTT
1 TTTTTTAAGTCCTTTAGGGGTATCAGG-TACTTTTACGTCGAAA-GTATCCCTTAGGGGCATTTT
** * * * ** ** *
41938 TGTAATTTTTTAAAATCG-AGTCTTAGGTTGTCACTAGGTCCACTTTTATGCCAAAAGTGGGAAG
64 CATAA-TTTTTAAAA-CGAACTCCTAAGTTGTCACCGGGTCTGCTTTTATGCCAAAAGTGGGCAG
* * * *
42002 TTAGGATAGGTTCATCCCATTTCAAACCTTTTTAAGTTCTTGAGGGGTATCGGGTACTTTTACGT
127 TTAGGATAGGTTCATCCCA-TTCTAGCCTTTTTAAGTTCTTTAGGGGTACCGGGTACTTTTACGT
* * * *
42067 CGAAAGTAT-CCTCTAGGGATATTTTGGTAATTTTTTAGAA-CAAGTCCTAGGTTGTCATCGGGT
191 CGAAGGTATCCCTCAAGGG-CATTTTCGTAATTTTTT-GAACCAAGTCCTAGGTTGTCATCGGGT
* * * *
42130 CCACTTTAATGCGAAGGTTGGTTTTTAGGATAGGTTCATCCTATTGTGTTATC
254 CCACTTTAATGCGAAGGTTGGTATTTAGGATAGCTTCATCCTAGT-TGTAATC
* * * * * * * *
42183 CTTTTTAAGTCCTATATGGGTATCAGGTATTTTTACGTCGAAGGTATCCCCTAGAGGCATTTTCG
1 TTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAAGTATCCCTTAGGGGCATTTTCA
* * * *
42248 TAATTTTCTAAAACTAACTCTTAAGTTGTCACCGGGTTTGCTTTTATGCCAAAGGTGGGCAGTTA
66 TAATTTT-TAAAACGAACTCCTAAGTTGTCACCGGGTCTGCTTTTATGCCAAAAGTGGGCAGTTA
* * * * *
42313 TGATAGGTTCATCCCATTTTAGACCTTTTTAAGTCCTTTAGGGGTACCGAGTACTTGTACGTCGA
130 GGATAGGTTCATCCCATTCTAG-CCTTTTTAAGTTCTTTAGGGGTACCGGGTACTTTTACGTCGA
* * * * * *
42378 AGATATCCCTTAGGGGCATTTTCATAATTTTTCTAAAGCTAAGTCCTAGGTTGTCA-CTGGGTCC
194 AGGTATCCCTCAAGGGCATTTTCGTAATTTTT-TGAA-CCAAGTCCTAGGTTGTCATC-GGGTCC
* * * * **
42442 ACTTTTATGTCGAAGGTTGATATTTAGGGTAGCGTCATCCTAGTTAAAAT-
256 ACTTTAATG-CGAAGGTTGGTATTTAGGATAGCTTCATCCTAGTTGTAATC
* * *
42492 TCTTTTTAAGTCCTTTAGGGTTGTCGGGATACTTTTACGTCGAAAGTATACCCGTT-GGGGCATT
1 T-TTTTTAAGTCCTTTAGGGGTATCAGG-TACTTTTACGTCGAAAGTAT-CCC-TTAGGGGCATT
*
42556 TTCATAATTTTTGAGAATCGAA-TCCTAAGTTGTCACCGGGTCTGCTTTTATGCCAAAA-TGGGG
62 TTCATAATTTTT-A-AAACGAACTCCTAAGTTGTCACCGGGTCTGCTTTTATGCCAAAAGT-GGG
* * * *
42619 CATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAAGTTCTTTAGGGTTGCCAGGGTACTTTT
124 CAGTTAGGATAGGTTCATCCCAT-TCTAGCCTTTTTAAGTTCTTTAGGGGTACC-GGGTACTTTT
* * * *
42684 ACGTCGAAGGTATACCCACAAGGGCATTTTCGTAATTTTTTGGAACCAAGTCCTAAGTTATAATC
187 ACGTCGAAGGTAT-CCCTCAAGGGCATTTTCGTAATTTTTT-GAACCAAGTCCTAGGTTGTCATC
** * * * * * *
42749 GGGTCTGCTTTCATGCCGAAGATGGGTATTTAGGATAGTTTCACCCCCA-TCTGTAATC
250 GGGTCCACTTTAATG-CGAAGGTTGGTATTTAGGATAGCTTCA-TCCTAGT-TGTAATC
* * * * *
42807 TTTTTTAAGTCCTTTAGGGGTATCAAGCACTTTTACATTGAAAGTATCCCTTAGGGGCAGTTTCA
1 TTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAAGTATCCCTTAGGGGCATTTTCA
42872 TAATTTTT
66 TAATTTTT
42880 CTCAAACTTA
Statistics
Matches: 558, Mismatches: 113, Indels: 49
0.77 0.16 0.07
Matches are distributed among these distances:
307 8 0.01
308 143 0.26
309 31 0.06
310 54 0.10
311 50 0.09
312 121 0.22
313 96 0.17
314 54 0.10
315 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (305 bp):
TTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAAGTATCCCTTAGGGGCATTTTCA
TAATTTTTAAAACGAACTCCTAAGTTGTCACCGGGTCTGCTTTTATGCCAAAAGTGGGCAGTTAG
GATAGGTTCATCCCATTCTAGCCTTTTTAAGTTCTTTAGGGGTACCGGGTACTTTTACGTCGAAG
GTATCCCTCAAGGGCATTTTCGTAATTTTTTGAACCAAGTCCTAGGTTGTCATCGGGTCCACTTT
AATGCGAAGGTTGGTATTTAGGATAGCTTCATCCTAGTTGTAATC
Found at i:47469 original size:44 final size:44
Alignment explanation
Indices: 47421--47561 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 44
47411 AATGACAATG
** *
47421 GTATTTGCATCATTGCATATGCATTTGCCTCTTTGTTGATGCTT
1 GTATTTGCATCATTTAATATGCATTTGCCTCTTTGATGATGCTT
* * * * **
47465 GTATTTGTATCATTTTACATGCATTTGCAT-TCAGATGA--CATT
1 GTATTTGCATCATTTAATATGCATTTGCCTCTTTGATGATGC-TT
* * *
47507 GGCATTTGCATCATTTAATATGCATTTGCCACTTT-ACTGATGCCT
1 -GTATTTGCATCATTTAATATGCATTTGCCTCTTTGA-TGATGCTT
47552 GTATTTGCAT
1 GTATTTGCAT
47562 TGTTTCATGC
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
41 1 0.01
42 2 0.03
43 30 0.41
44 38 0.52
45 1 0.01
46 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (44 bp):
GTATTTGCATCATTTAATATGCATTTGCCTCTTTGATGATGCTT
Found at i:47528 original size:87 final size:88
Alignment explanation
Indices: 47398--47558 Score: 225
Period size: 87 Copynumber: 1.8 Consensus size: 88
47388 ATCTCACCTA
* * * * **
47398 CATTTGCATTTTAAATGACAATGGTATTTGCATCATTGCATATGCATTTGCCTCTTTGTTGATGC
1 CATTTGCATTTCAAATGACAATGGCATTTGCATCATTGAATATGCATTTGCCACTTTACTGATGC
*
47463 TTGTATTTGTATCATTTTACATG
66 CTGTATTTGTATCATTTTACATG
* * *
47486 CATTTGCA-TTCAGATGACATTGGCATTTGCATCATTTAATATGCATTTGCCACTTTACTGATGC
1 CATTTGCATTTCAAATGACAATGGCATTTGCATCATTGAATATGCATTTGCCACTTTACTGATGC
47550 CTGTATTTG
66 CTGTATTTG
47559 CATTGTTTCA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 55 0.87
88 8 0.13
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (88 bp):
CATTTGCATTTCAAATGACAATGGCATTTGCATCATTGAATATGCATTTGCCACTTTACTGATGC
CTGTATTTGTATCATTTTACATG
Found at i:48217 original size:89 final size:89
Alignment explanation
Indices: 48056--48469 Score: 532
Period size: 89 Copynumber: 4.6 Consensus size: 89
48046 AGGAAAACAT
*
48056 ATTCCCCAATTATATCCTCTTCATCCAACCACTAGATGGTATTGATGCATCAAAGCCTGATTTCC
1 ATTCCCCAATCATATCCTCTTCATCCAACCACTAGATGGTATTGATGCATCAAAGCCTGATTTCC
* *
48121 TTTGGGGCAAGGTGCAGCCTACAC
66 TTAGGGGCAAGGTGCAGCCCACAC
*
48145 ATTCTCCAATCATATCCTCTTCATCCAACCACTAGATGGTATTGATGCATCAAAGCCTGATTTCC
1 ATTCCCCAATCATATCCTCTTCATCCAACCACTAGATGGTATTGATGCATCAAAGCCTGATTTCC
*
48210 TTAGGGGCAAGGTGTAGCCCACAC
66 TTAGGGGCAAGGTGCAGCCCACAC
* * * *
48234 ATTCCCCAATCATATCTTTTTCATCTAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTT
1 ATTCCCCAATCATATCCTCTTCATCCAACCACTAGATGGTATTGATGCAT--CAAAGCCTGATTT
* *
48299 CTTTAGGGGCAAGGTGCAGCCTACAC
64 CCTTAGGGGCAAGGTGCAGCCCACAC
* * *
48325 ATTCCTCAATCATATCTTCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTT
1 ATTCCCCAATCATATCCTCTTCATCCAACCACTAGATGGTATTGATGCAT--CAAAGCCTGA-TT
* *
48390 TAC-TA-GGGCAAGGAT--ATCCCA-ACC
63 TCCTTAGGGGCAAGG-TGCAGCCCACA-C
* *
48414 ATTCATTCCCAATCATACCCCTCTTTATCCAACCACTAGATGGTATTGATGCATCA
1 ATTC---CCCAATCATA-TCCTCTTCATCCAACCACTAGATGGTATTGATGCATCA
48470 CAAAGCCTAA
Statistics
Matches: 291, Mismatches: 25, Indels: 16
0.88 0.08 0.05
Matches are distributed among these distances:
88 1 0.00
89 139 0.48
90 8 0.03
91 97 0.33
92 12 0.04
93 34 0.12
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (89 bp):
ATTCCCCAATCATATCCTCTTCATCCAACCACTAGATGGTATTGATGCATCAAAGCCTGATTTCC
TTAGGGGCAAGGTGCAGCCCACAC
Found at i:48356 original size:180 final size:179
Alignment explanation
Indices: 48056--48482 Score: 573
Period size: 180 Copynumber: 2.4 Consensus size: 179
48046 AGGAAAACAT
* * *
48056 ATTCCCCAATTATATCCTCTTCATCCAACCACTAGATGGTATTGATGCAT--CAAAGCCTGATTT
1 ATTCCCCAATCATATCTTTTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTT
48119 CCTTTGGGGCAAGGTGCAGCCTACACATTCTCCAATCATATCCTCTTCATCCAACCACTAGATGG
66 CCTTTGGGGCAAGGTGCAGCCTACACATTCTCCAATCATATCCTCTTCATCCAACCACTAGATGG
* *
48184 TATTGATGCAT-CAAAGCCTGA-TTTCCTTAGGGGCAAGGTGTAGCCC-ACAC
131 TATTGATGCATACAAAGCCTGATTTTAC-TA-GGGCAAGG-ATAGCCCAAC-C
* *
48234 ATTCCCCAATCATATCTTTTTCATCTAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTT
1 ATTCCCCAATCATATCTTTTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTT
* *
48299 -CTTTAGGGGCAAGGTGCAGCCTACACATTC-CTCAATCATATCTTCTTTATCCAACCACTAGAT
66 CCTTT-GGGGCAAGGTGCAGCCTACACATTCTC-CAATCATATCCTCTTCATCCAACCACTAGAT
*
48362 GGTATTGATGCATCACAAAGCCTGATTTTACTAGGGCAAGGATATCCCAACC
129 GGTATTGATGCAT-ACAAAGCCTGATTTTACTAGGGCAAGGATAGCCCAACC
* *
48414 ATTCATTCCCAATCATACCCCTCTTT-ATCCAACCACTAGATGGTATTGATGCATCACAAAGCCT
1 ATTC---CCCAATCATA--TCTTTTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCT
*
48478 AATTT
61 GATTT
48483 TACTAGGGCA
Statistics
Matches: 221, Mismatches: 15, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
178 46 0.21
179 5 0.02
180 89 0.40
181 10 0.05
182 12 0.05
183 14 0.06
184 40 0.18
185 5 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (179 bp):
ATTCCCCAATCATATCTTTTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTT
CCTTTGGGGCAAGGTGCAGCCTACACATTCTCCAATCATATCCTCTTCATCCAACCACTAGATGG
TATTGATGCATACAAAGCCTGATTTTACTAGGGCAAGGATAGCCCAACC
Found at i:48471 original size:93 final size:86
Alignment explanation
Indices: 48051--48532 Score: 445
Period size: 89 Copynumber: 5.3 Consensus size: 86
48041 CTTCTAGGAA
* * * *
48051 AACATATTCCCCAATTATATCCTCTTCATCCAACCACTAGATGGTATTGATGCAT--CAAAGCCT
1 AACACATT-CCCAATCATACCCTCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGCCT
* * *
48114 GATTTCCTTTGGGGCAAGGTGCAGCC
65 GATTT--TCTAGGGCAAGGT--ACCC
* * *
48140 TACACATTCTCCAATCATATCCTCTTCATCCAACCACTAGATGGTATTGATGCAT--CAAAGCCT
1 AACACATTC-CCAATCATACCCTCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGCCT
*
48203 GATTTCCTTAGGGGCAAGGTGTAGCCC
65 GATTTTC-TA-GGGCAA-G-GTA-CCC
* * * *
48230 -ACACATTCCCCAATCATA-TCTTTTTCATCTAACCACTAGATGGTATTGATGCATCACAAAGCT
1 AACACATT-CCCAATCATACCCTCTTT-ATCCAACCACTAGATGGTATTGATGCATCACAAAGCC
* *
48293 TGATTTCTTTAGGGGCAAGGTGCAGCC
64 TGATTT-TCTA-GGGCAAGGT--ACCC
* * *
48320 TACACATTCCTCAATCATATCTTCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGCCT
1 AACACATTCC-CAATCATACCCTCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGCCT
48385 GATTTTACTAGGGCAAGGATATCCC
65 GATTTT-CTAGGGCAAGG-TA-CCC
48410 AACCATTCATTCCCAATCATACCCCTCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAG
1 AA-CA--CATTCCCAATCATA-CCCTCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAG
*
48475 CCTAATTTTACTAGGGCAAGGATATCCC
62 CCTGATTTT-CTAGGGCAAGG-TA-CCC
48503 AACCATTCATTCCCAATCATACCCCTCTTT
1 AA-CA--CATTCCCAATCATA-CCCTCTTT
48533 TTAGGCTACT
Statistics
Matches: 344, Mismatches: 26, Indels: 42
0.83 0.06 0.10
Matches are distributed among these distances:
88 6 0.02
89 116 0.34
90 21 0.06
91 85 0.25
92 12 0.03
93 104 0.30
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (86 bp):
AACACATTCCCAATCATACCCTCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTG
ATTTTCTAGGGCAAGGTACCC
Found at i:48846 original size:36 final size:36
Alignment explanation
Indices: 48799--48869 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
48789 GTTAGGGCCT
***
48799 GGTCAAACTCTTTCCATCCCTTGTTTGACTGTATTC
1 GGTCAAACTCTTTCCATCCCCCATTTGACTGTATTC
*
48835 GGTCAAACTCTTTTCATCCCCCATTTGACTGTATT
1 GGTCAAACTCTTTCCATCCCCCATTTGACTGTATT
48870 GGTGCTAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (36 bp):
GGTCAAACTCTTTCCATCCCCCATTTGACTGTATTC
Found at i:49013 original size:44 final size:45
Alignment explanation
Indices: 48949--49375 Score: 204
Period size: 44 Copynumber: 9.7 Consensus size: 45
48939 TTTCATTTCA
* *
48949 GTTTGATGTATGGTTACCACCCTGGTCAAATTTGCCTCTC-TCTT
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTTGCCTTTCATCTT
* * * * **
48993 GTCTGACGTATGGTTACCACCTTGGTCATA-TT-CTTTTCATTCCA
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTTGCCTTTCA-TCTT
* * * * * *
49037 ATTTGACATATGGTTACCACCTTGCTCAAATCTGCCTCTT--TCCT
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTTGCCT-TTCATCTT
* * * * * *
49081 ATCTGACGTATAGTTACCACCTTGGTCAGA-TT-CTTTTCAT-TT
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTTGCCTTTCATCTT
* *
49123 CGATTTGACATATGGTTACCACCCTGGTCAAATTTGCCTTTC-TCCT
1 -G-TTTGACGTATGGTTACCACCCTGGTCAAATTTGCCTTTCATCTT
* * * ** * *
49169 ATCTGACATATGGTTACCACCCTATTCAGA-TT-CTTTTCAT-TT
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTTGCCTTTCATCTT
* * ** * * * *
49211 CAATTTGATGTATGGTTACCTTCTTGGTCAAATCTGCC-TCCTTCTT
1 --GTTTGACGTATGGTTACCACCCTGGTCAAATTTGCCTTTCATCTT
* * * * * *
49257 GTCTAACATATGGTTACCACCCTGGTTAGA-TT-CTTTTCAT-TCT
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTTGCCTTTCATCT-T
* * * * * **
49300 GATTTGACGTATGGTTACAACCCTAGTTAAATTTGCC-TCCTTCCC
1 G-TTTGACGTATGGTTACCACCCTGGTCAAATTTGCCTTTCATCTT
*
49345 GTTTGACGTATGGTTACCACCATGGTCAAAT
1 GTTTGACGTATGGTTACCACCCTGGTCAAAT
49376 GATTTGCATT
Statistics
Matches: 278, Mismatches: 81, Indels: 48
0.68 0.20 0.12
Matches are distributed among these distances:
41 2 0.01
42 15 0.05
43 13 0.05
44 220 0.79
45 14 0.05
46 12 0.04
47 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (45 bp):
GTTTGACGTATGGTTACCACCCTGGTCAAATTTGCCTTTCATCTT
Found at i:49066 original size:88 final size:88
Alignment explanation
Indices: 48912--49372 Score: 496
Period size: 88 Copynumber: 5.2 Consensus size: 88
48902 CTATTTGGCA
** * * * *
48912 TATGGTTACCACCCCTACTCAGATTTTTTTCATTTCAGTTTGATGTATGGTTACCACCCTGGTCA
1 TATGGTTACCA-CCCTGGTCAGATTCTTTTCATTTCAATTTGACGTATGGTTACCACCTTGGTCA
*
48977 AATTTGCCTCTCTCTTGTCTGACG
65 AATTTGCCTCTCTCCTGTCTGACG
* * * * *
49001 TATGGTTACCACCTTGGTCATATTCTTTTCATTCCAATTTGACATATGGTTACCACCTTGCTCAA
1 TATGGTTACCACCCTGGTCAGATTCTTTTCATTTCAATTTGACGTATGGTTACCACCTTGGTCAA
* * *
49066 ATCTGCCTCTTTCCTATCTGACG
66 ATTTGCCTCTCTCCTGTCTGACG
* * * * *
49089 TATAGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTGGTCAA
1 TATGGTTACCACCCTGGTCAGATTCTTTTCATTTCAATTTGACGTATGGTTACCACCTTGGTCAA
* * *
49154 ATTTGCCTTTCTCCTATCTGACA
66 ATTTGCCTCTCTCCTGTCTGACG
** * **
49177 TATGGTTACCACCCTATTCAGATTCTTTTCATTTCAATTTGATGTATGGTTACCTTCTTGGTCAA
1 TATGGTTACCACCCTGGTCAGATTCTTTTCATTTCAATTTGACGTATGGTTACCACCTTGGTCAA
* * * *
49242 ATCTGCCTC-CTTCTTGTCTAACA
66 ATTTGCCTCTC-TCCTGTCTGACG
* * * * * *
49265 TATGGTTACCACCCTGGTTAGATTCTTTTCA-TTCTGATTTGACGTATGGTTACAACCCTAGTTA
1 TATGGTTACCACCCTGGTCAGATTCTTTTCATTTC-AATTTGACGTATGGTTACCACCTTGGTCA
* *
49329 AATTTGCCTC-CTTCCCGTTTGACG
65 AATTTGCCTCTC-TCCTGTCTGACG
*
49353 TATGGTTACCACCATGGTCA
1 TATGGTTACCACCCTGGTCA
49373 AATGATTTGC
Statistics
Matches: 311, Mismatches: 59, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
87 4 0.01
88 296 0.95
89 11 0.04
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (88 bp):
TATGGTTACCACCCTGGTCAGATTCTTTTCATTTCAATTTGACGTATGGTTACCACCTTGGTCAA
ATTTGCCTCTCTCCTGTCTGACG
Found at i:49120 original size:176 final size:176
Alignment explanation
Indices: 48885--49372 Score: 588
Period size: 176 Copynumber: 2.8 Consensus size: 176
48875 TAGGGCCTGG
* * ** *
48885 TCAAACTCT-CCTCTTTCCTATTTGGCATATGGTTACCACCCCTACTCAGATTTTTTTCATTTC-
1 TCAAA-TCTGCCTCTTTCCTATCTGACATATGGTTACCA-CCCTGGTCAGATTCTTTTCATTTCG
* *
48948 AGTTTGATGTATGGTTACCACCCTGGTCAAATTTGCCTCTCTCTTGTCTGACGTATGGTTACCAC
64 A-TTTGACGTATGGTTACCACCCTGGTCAAATTTGCCTCTCTCCTGTCTGACGTATGGTTACCAC
* *
49013 CTTGGTCATATTCTTTTCATTCCAATTTGACATATGGTTACCACCTTGC
128 CATGGTCAGATTCTTTTCATTCCAATTTGACATATGGTTACCACCTTGC
* * *
49062 TCAAATCTGCCTCTTTCCTATCTGACGTATAGTTACCACCTTGGTCAGATTCTTTTCATTTCGAT
1 TCAAATCTGCCTCTTTCCTATCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTCGAT
* * * * *
49127 TTGACATATGGTTACCACCCTGGTCAAATTTGCCTTTCTCCTATCTGACATATGGTTACCACCCT
66 TTGACGTATGGTTACCACCCTGGTCAAATTTGCCTCTCTCCTGTCTGACGTATGGTTACCACCAT
** * ** ** *
49192 ATTCAGATTCTTTTCATTTCAATTTGATGTATGGTTACCTTCTTGG
131 GGTCAGATTCTTTTCATTCCAATTTGACATATGGTTACCACCTTGC
* * * * *
49238 TCAAATCTGCCTCCTTCTTGTCTAACATATGGTTACCACCCTGGTTAGATTCTTTTCA-TTCTGA
1 TCAAATCTGCCTCTTTCCTATCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTC-GA
* * * * *
49302 TTTGACGTATGGTTACAACCCTAGTTAAATTTGCCTC-CTTCCCGTTTGACGTATGGTTACCACC
65 TTTGACGTATGGTTACCACCCTGGTCAAATTTGCCTCTC-TCCTGTCTGACGTATGGTTACCACC
49366 ATGGTCA
129 ATGGTCA
49373 AATGATTTGC
Statistics
Matches: 263, Mismatches: 44, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
175 4 0.02
176 228 0.87
177 31 0.12
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (176 bp):
TCAAATCTGCCTCTTTCCTATCTGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTTCGAT
TTGACGTATGGTTACCACCCTGGTCAAATTTGCCTCTCTCCTGTCTGACGTATGGTTACCACCAT
GGTCAGATTCTTTTCATTCCAATTTGACATATGGTTACCACCTTGC
Found at i:49585 original size:42 final size:42
Alignment explanation
Indices: 49539--49630 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
49529 TTCTCTATCT
* ** * *
49539 TTTGTTTGCCCATCAGCTTACACCT-AGGAGAGTCCTTCACCC
1 TTTGTTTGCCCATCAACACAAACCTGA-GAGACTCCTTCACCC
* *
49581 TTTGTCTGCCGATCAACACAAACCTGAGAGACTCCTTCACCC
1 TTTGTTTGCCCATCAACACAAACCTGAGAGACTCCTTCACCC
49623 TTTGTTTG
1 TTTGTTTG
49631 TTTGTCAGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 40 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.32, G:0.16, T:0.32
Consensus pattern (42 bp):
TTTGTTTGCCCATCAACACAAACCTGAGAGACTCCTTCACCC
Found at i:49785 original size:84 final size:83
Alignment explanation
Indices: 49634--49803 Score: 189
Period size: 84 Copynumber: 2.0 Consensus size: 83
49624 TTGTTTGTTT
* * * *** **
49634 GTCAGCTTTGACGCGTGAGACTCTTTCACCCTTTATCTAACCTTTGGCTTTGACTCGGGAGGCTC
1 GTCAGCTTTGACCCGAGAGACTCTTTCACCCTTTATCTAACCATTGGCTCAAACTCAAGAGGCTC
* *
49699 TTCTTGCTTTTGTCTGCTC
66 TTCAT-CTTTTGTCTGCCC
* **
49718 GTCAGCTTTGACCCGAGAGACTCTTTCACCCTTTATCTACCCATTGGCTCAAAC-CAAGAGATTT
1 GTCAGCTTTGACCCGAGAGACTCTTTCACCCTTTATCTAACCATTGGCTCAAACTCAAGAG-GCT
*
49782 CTTCATCTTTTGTTTGCCC
65 CTTCATCTTTTGTCTGCCC
49801 GTC
1 GTC
49804 GGCTCAAACC
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
83 18 0.25
84 53 0.75
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.37
Consensus pattern (83 bp):
GTCAGCTTTGACCCGAGAGACTCTTTCACCCTTTATCTAACCATTGGCTCAAACTCAAGAGGCTC
TTCATCTTTTGTCTGCCC
Found at i:49808 original size:41 final size:42
Alignment explanation
Indices: 49749--49849 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
49739 TCTTTCACCC
* * * *
49749 TTTATCTACCCATTGGCTCAAA-CCAAGAGATTTCT-TCATCT
1 TTTATCTGCCCATCGGCTCAAACCCAAGAAACTTCTCT-ATCT
* * *
49790 TTTGTTTGCCCGTCGGCTCAAACCCAAGAAACTTCTCTATCT
1 TTTATCTGCCCATCGGCTCAAACCCAAGAAACTTCTCTATCT
49832 TTTATCTGCCCATCGGCT
1 TTTATCTGCCCATCGGCT
49850 TTGACCCAAG
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 17 0.35
42 30 0.62
43 1 0.02
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.36
Consensus pattern (42 bp):
TTTATCTGCCCATCGGCTCAAACCCAAGAAACTTCTCTATCT
Found at i:49857 original size:42 final size:42
Alignment explanation
Indices: 49811--49897 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
49801 GTCGGCTCAA
* * * *
49811 ACCCAAGAAACTTCTCTATCTTTTATCTGCCCATCGGCTTTG
1 ACCCAAGAAACTCCTCTACCCTTTATCTGCCCATCGACTTTG
* * *
49853 ACCCAAGAGACTCCTTTACCCTTTGTCTGCCCATCGACTTTG
1 ACCCAAGAAACTCCTCTACCCTTTATCTGCCCATCGACTTTG
49895 ACC
1 ACC
49898 TAGAAGACAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (42 bp):
ACCCAAGAAACTCCTCTACCCTTTATCTGCCCATCGACTTTG
Found at i:49989 original size:42 final size:42
Alignment explanation
Indices: 49836--50009 Score: 156
Period size: 42 Copynumber: 4.1 Consensus size: 42
49826 CTATCTTTTA
* ** *
49836 TCTGCCCATCGGCTTTGACCCAAGAGACTCCTTTACCCTTTG
1 TCTGCCCATCAGCTTTGACCTGAGAGACTCTTTTACCCTTTG
* * *
49878 TCTGCCCATC-GACTTTGACCT-AGAAGACACTTTCACCCTTTC
1 TCTGCCCATCAG-CTTTGACCTGAG-AGACTCTTTTACCCTTTG
** * *
49920 TCTGCCTGTCAGCTTTGACTTGGGAGACTCTTTTACCCTTTG
1 TCTGCCCATCAGCTTTGACCTGAGAGACTCTTTTACCCTTTG
*** *
49962 TCTGCCCATCAGCTCAAACCTGAGAGACT-TCTTTATCCTTTG
1 TCTGCCCATCAGCTTTGACCTGAGAGACTCT-TTTACCCTTTG
*
50004 TTTGCC
1 TCTGCC
50010 TGTCGGCTCA
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
41 4 0.04
42 100 0.94
43 2 0.02
ACGTcount: A:0.17, C:0.32, G:0.16, T:0.34
Consensus pattern (42 bp):
TCTGCCCATCAGCTTTGACCTGAGAGACTCTTTTACCCTTTG
Found at i:50236 original size:42 final size:41
Alignment explanation
Indices: 50184--50387 Score: 131
Period size: 41 Copynumber: 4.9 Consensus size: 41
50174 TCGGTGACCT
* * *
50184 ATCGGCTTAGTCCTAGGTAAATTTTTTATCGTTTGTTGACTC
1 ATCGGTTTAGTCCTA-GTAAATTTTTTATCCTTTGTTAACTC
* * * * *
50226 ATCGGTTTAGTCCTAGTTAACTTTTTATCCCTTGTTTACTT
1 ATCGGTTTAGTCCTAGTAAATTTTTTATCCTTTGTTAACTC
* * * * *
50267 GTCAGTTTAGTCATAAGTAAATCTTTTATCCTTTGTTAATTC
1 ATCGGTTTAGTCCT-AGTAAATTTTTTATCCTTTGTTAACTC
* ** * * * * * *
50309 ATCGGTTCAACCCCAATCAATTTTTCATCCCTTGTTTAC-C
1 ATCGGTTTAGTCCTAGTAAATTTTTTATCCTTTGTTAACTC
* * *
50349 TATTGGCTTAGTCCCGAGTAAATCTTTTTATCCTTTGTT
1 -ATCGGTTTAGT-CCTAGTAAAT-TTTTTATCCTTTGTT
50388 GGCTTGTCAG
Statistics
Matches: 117, Mismatches: 41, Indels: 7
0.71 0.25 0.04
Matches are distributed among these distances:
40 1 0.01
41 55 0.47
42 48 0.41
43 13 0.11
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (41 bp):
ATCGGTTTAGTCCTAGTAAATTTTTTATCCTTTGTTAACTC
Found at i:50360 original size:83 final size:83
Alignment explanation
Indices: 50166--50387 Score: 221
Period size: 83 Copynumber: 2.7 Consensus size: 83
50156 GTTAAACCCC
* * * * * *
50166 TTATCCCTTCGGTGACCTATCGGCTTAGTCCTAGGTAAATTTTTTATCGTTTGTTGACTCATCGG
1 TTATCCCTT-GTTTACCTATCGGCTTAGTCCTAAGTAAATCTTTTATCCTTTGTTAACTCATCGG
* ** * * *
50231 TTTAGTCCTAGTTAACTTT
65 TTCAACCCCAATCAACTTT
* * * * * *
50250 TTATCCCTTGTTTACTTGTCAGTTTAGTCATAAGTAAATCTTTTATCCTTTGTTAATTCATCGGT
1 TTATCCCTTGTTTACCTATCGGCTTAGTCCTAAGTAAATCTTTTATCCTTTGTTAACTCATCGGT
50315 TCAACCCCAATCAA-TTT
66 TCAACCCCAATCAACTTT
* **
50332 TTCATCCCTTGTTTACCTATTGGCTTAGTCCCGAGTAAATCTTTTTATCCTTTGTT
1 TT-ATCCCTTGTTTACCTATCGGCTTAGTCCTAAGTAAATC-TTTTATCCTTTGTT
50388 GGCTTGTCAG
Statistics
Matches: 110, Mismatches: 26, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
82 5 0.05
83 82 0.75
84 23 0.21
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (83 bp):
TTATCCCTTGTTTACCTATCGGCTTAGTCCTAAGTAAATCTTTTATCCTTTGTTAACTCATCGGT
TCAACCCCAATCAACTTT
Found at i:51803 original size:167 final size:166
Alignment explanation
Indices: 51476--52072 Score: 651
Period size: 167 Copynumber: 3.6 Consensus size: 166
51466 TTCAAACGTC
* * * * * * ** *
51476 AAAATTCTTAAAATATTATCATTTAAATC-CTATTAATTCAGTTTTGAAAAATTCTTTTATTTT-
1 AAAATTCATCAAATATTATCATTTGATTCAC-ATTAAATCAGTTTTCAAAAATTAATTCATTTTC
* * * * *
51539 ATGA-TTTATT-AAATTTTT-ATT-AAA--CTCTTCTTTTTTGAAATACAGAGTTTTCTACTCCA
65 ATGAGTTT-TTGAATTTTTTCCTTGAAATTCTCTT-TTTTTTGAAATACAAAATTTTCTACTTCA
*
51598 TAAATATTTTTGAGGGGATATTTTTTGGTTTTTAATTTTT
128 TAAATATTTTTGAGAGGAT-TTTTTTGGTTTTTAATTTTT
* * *
51638 AAAATTCATCAAATATTATTATTTGATCCACATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATCATTTGATTCACATTAAATCAGTTTTCAAAAATTAATTCATTTTCA
* * **
51703 TGAGTTTTTGAATTTTTTCCTTGAAATTTTCTTTTTTTTTAAATA-AATTTTTTTCTACTTCATA
66 TGAGTTTTTGAATTTTTTCCTTGAAATTCTCTTTTTTTTGAAATACAA-AATTTTCTACTTCATA
* * *
51767 ATTTTTTTTGAGAGAATTTTTCTTGGTTTTTAATTTTT
130 AATATTTTTGAGAGGATTTTT-TTGGTTTTTAATTTTT
* * * **
51805 AAAAGTCATCAAATATTATCATTTAATTCACATTAAATCAGTTTTCAAAATTTTTTTCATTTTCA
1 AAAATTCATCAAATATTATCATTTGATTCACATTAAATCAGTTTTCAAAAATTAATTCATTTTCA
* * * **
51870 TGAGTTTTTGAATTTTTTCCTTAAAATTCTCATATTTTTGAAATACAAAATTTTCTACTTTGTAA
66 TGAGTTTTTGAATTTTTTCCTTGAAATTCTCTTTTTTTTGAAATACAAAATTTTCTACTTCATAA
* *
51935 ATATTTTCGAGAGGATTTTTTTTGGTTTTCAATTTTT
131 ATATTTTTGAGAGGA-TTTTTTTGGTTTTTAATTTTT
* * * *
51972 AAAATTCATCAAATATCATCATTTGATTCATATTAAATCCA-TTTTAAAAAATTAATTCATTGTC
1 AAAATTCATCAAATATTATCATTTGATTCACATTAAAT-CAGTTTTCAAAAATTAATTCATTTTC
* *
52036 ATGAG-TTTTGAA-TTTTTCTTTGAAATTCCCTTTTTTT
65 ATGAGTTTTTGAATTTTTTCCTTGAAATTCTCTTTTTTT
52073 CGAGAAATTA
Statistics
Matches: 365, Mismatches: 57, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
162 51 0.14
163 7 0.02
164 10 0.03
165 22 0.06
166 15 0.04
167 247 0.68
168 13 0.04
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.51
Consensus pattern (166 bp):
AAAATTCATCAAATATTATCATTTGATTCACATTAAATCAGTTTTCAAAAATTAATTCATTTTCA
TGAGTTTTTGAATTTTTTCCTTGAAATTCTCTTTTTTTTGAAATACAAAATTTTCTACTTCATAA
ATATTTTTGAGAGGATTTTTTTGGTTTTTAATTTTT
Found at i:52223 original size:16 final size:17
Alignment explanation
Indices: 52192--52224 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
52182 GCAAAACTCA
*
52192 ATTTTATTTTATTTTTT
1 ATTTTATTTGATTTTTT
52209 ATTTT-TTTGATTTTTT
1 ATTTTATTTGATTTTTT
52225 TACATGTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
ATTTTATTTGATTTTTT
Found at i:52692 original size:18 final size:18
Alignment explanation
Indices: 52666--52708 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
52656 AAAAAAAGAG
52666 AGAAAAAAAACATTAGC-AA
1 AGAAAAAAAA-A-TAGCAAA
52685 AGAAAAAAAAATAGCAAA
1 AGAAAAAAAAATAGCAAA
52703 AGAAAA
1 AGAAAA
52709 CCAACAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 9 0.39
19 10 0.43
ACGTcount: A:0.74, C:0.07, G:0.12, T:0.07
Consensus pattern (18 bp):
AGAAAAAAAAATAGCAAA
Found at i:52928 original size:22 final size:21
Alignment explanation
Indices: 52900--52947 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 21
52890 CAAAACCAAC
*
52900 AGCAATGGTAGCAGCTGAAGCA
1 AGCAATGGCAGCAGCTGAAG-A
52922 AGCAATGGCAGCAGCTGAAGA
1 AGCAATGGCAGCAGCTGAAGA
52943 AGCAA
1 AGCAA
52948 GAAATGGCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.40, C:0.19, G:0.31, T:0.10
Consensus pattern (21 bp):
AGCAATGGCAGCAGCTGAAGA
Found at i:53120 original size:31 final size:31
Alignment explanation
Indices: 53085--53151 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
53075 ACAACAATGG
* * *
53085 GAGCAATAAAGACAGCAACAAACAGCAGCAC
1 GAGCAACAAAGACAGCAACAAACAACAACAC
* * *
53116 GAGCAGCAAAGATAGTAACAAACAACAACAC
1 GAGCAACAAAGACAGCAACAAACAACAACAC
53147 GAGCA
1 GAGCA
53152 GCAAGCACGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.52, C:0.24, G:0.19, T:0.04
Consensus pattern (31 bp):
GAGCAACAAAGACAGCAACAAACAACAACAC
Found at i:53152 original size:31 final size:31
Alignment explanation
Indices: 53092--53155 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
53082 TGGGAGCAAT
* *
53092 AAAGACAGCAACAAACAGCAGCACGAGCAGC
1 AAAGACAGCAACAAACAACAACACGAGCAGC
* *
53123 AAAGATAGTAACAAACAACAACACGAGCAGC
1 AAAGACAGCAACAAACAACAACACGAGCAGC
53154 AA
1 AA
53156 GCACGAACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.53, C:0.25, G:0.19, T:0.03
Consensus pattern (31 bp):
AAAGACAGCAACAAACAACAACACGAGCAGC
Found at i:53263 original size:23 final size:23
Alignment explanation
Indices: 53228--53296 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
53218 GCAAGTAAAA
*
53228 AGCAGCAGGAAACAGCAAGCAAT
1 AGCAGCAGCAAACAGCAAGCAAT
* * * *
53251 AGCAGTAGTAAACAACAAGCAAA
1 AGCAGCAGCAAACAGCAAGCAAT
* *
53274 AGCAACAGCAAACAGCAAACAAT
1 AGCAGCAGCAAACAGCAAGCAAT
53297 CAAACACAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.54, C:0.22, G:0.19, T:0.06
Consensus pattern (23 bp):
AGCAGCAGCAAACAGCAAGCAAT
Found at i:55369 original size:155 final size:150
Alignment explanation
Indices: 54838--56022 Score: 659
Period size: 155 Copynumber: 7.6 Consensus size: 150
54828 CGATATTCCT
* * ** *
54838 TCCCATCTCTAAATCTTTTTTAAAGTCTTTTAGGGGTATTAGGTACTTTTACGTCAAAGGTATCC
1 TCCCAT-T-TAAATC-TTTTT-AAGTCCTTTAGGGGCATCGGGTACTTTTACGTCGAAGGTATCC
* * ** * * * * *
54903 CCTAGAGACATTTT-GATAATTTCCTAGAA-TCGATTCCTAAGTTGCCA-TCGGGTCCGCTATTA
62 CTTAG-GGCATTTTCG-TAATTTTTTAAAACT-AAGTCCTAAGTTGTCACT-GGGTCCG-TTTTA
* *
54965 TGCCAAAGGTAGGTATTTAGCATAGGTTCGA
122 TGCCGAAGGT-GGTATTTAGGATAGGTTC-A
** * * * * * *
54996 CCTCTCTCAGCTATATCCTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCAAAGGT-G
1 --TC-C-CATTTAAAT-CTTTTTAAGTCCTTTAGGGGCATCGGG-TACTTTTACGTCGAAGGTAT
* * * * * * *
55060 CCCCTAGGGGTATTTTCGTAATTTTTTACAA-TCAAGTCTTAGGTTGTCACTAGGTCCACTTTTA
60 CCCTTA-GGGCATTTTCGTAATTTTTTAAAACT-AAGTCCTAAGTTGTCACTGGGTCC-GTTTTA
* * * * *
55124 TGCCAAAGATGGGAAGTTAGGACAGGTTCA
122 TGCCGAAGGT-GGTATTTAGGATAGGTTCA
* * ** * * * * **
55154 TCCCATTACAAACCTTTTTAAGTTATTGAGGGGTATTGAGTACTTTTATATCGAAGGTATCCCTT
1 TCCCATT-TAAATCTTTTTAAGTCCTTTAGGGGCATCGGGTACTTTTACGTCGAAGGTATCCCTT
* * *
55219 AGGGACATTTTGGT-ATTTTTCTAGAACTAAGTCCTAAGTTGTCACTGGGTCCGTTTTAATGCTG
65 AGGG-CATTTTCGTAATTTTT-TAAAACTAAGTCCTAAGTTGTCACTGGGTCCGTTTT-ATGCCG
55283 AAGGTGGTATTTAGGATAGGTTCA
127 AAGGTGGTATTTAGGATAGGTTCA
** * * *
55307 TCCCATTGTTTTATCCTTTTTAAGTCCTATAGGGGCATCGGGTACTTTCACGTCGAAAGTATCCC
1 TCCCA-T-TTAAAT-CTTTTTAAGTCCTTTAGGGGCATCGGGTACTTTTACGTCGAAGGTATCCC
* * * * * ** *
55372 TTGGGGGCATTTTTGTAATTTTTTAAAACTAACTCCTAGGTTGTTACCAGGTCTGTTTTTATGCC
63 TT-AGGGCATTTTCGTAATTTTTTAAAACTAAGTCCTAAGTTGTCACTGGGTCCG-TTTTATGCC
* * *
55437 AAAGGTGGGCAGTTAGGATAGGTTCA
126 GAAGGT-GGTATTTAGGATAGGTTCA
* * * * * * * *
55463 TCTCATTTCAAATGTTTTTAAGTCCTTTAAGGGTAACAGGTACTTGTATGTCGAAGGTATCCCCT
1 TCCCATTT-AAATCTTTTTAAGTCCTTTAGGGGCATCGGGTACTTTTACGTCGAAGGTAT-CCCT
* * * * * * *
55528 AAGGGTATTTTCGTAATTTTTTTATAGTCGAGTCCT-AGATTGTCACTGGGTCCGCTTTTTTGCC
64 TAGGGCATTTTCGTAATTTTTTAAAACT-AAGTCCTAAG-TTGTCACTGGGTCCG-TTTTATGCC
* * *
55592 AAAGGTTGATATTTAGGGTAGGTTCA
126 GAAGG-TGGTATTTAGGATAGGTTCA
* * * *
55618 TCCCAGTTAAAATTCTTTTTAAGTCCTTTAGGGTTGC-TAGGATACTTTTACGTCGAAGGTATAC
1 TCCCA-TTTAAA-TCTTTTTAAGTCCTTTAGGG--GCATCGGGTACTTTTACGTCGAAGGTATCC
* * * * *
55682 CTATAAGGGCATTGTCGTAATTTTTTAAAATCT-ATTCCTAGGTTATCACTGGGCCCAGTTTTAT
62 CT-T-AGGGCATTTTCGTAATTTTTTAAAA-CTAAGTCCTAAGTTGTCACTGGGTCC-GTTTTAT
* * *
55746 GCTGAAGGGGGGCATTTAGGATAGGTTCA
123 GCCGAA-GGTGGTATTTAGGATAGGTTCA
* * * * ****
55775 TCACATCTATAGTCTTTTTAAGTCTTTTAGGATTGTCAGGGTACTTTTACGTCGAAGGTATATCC
1 TCCCATTTA-AATCTTTTTAAGTCCTTTAGGGGCATC-GGGTACTTTTACGTCGAAGG--TATCC
* * * ** * * * * *
55840 ATAAGGGCATTTTTGTAA-TTTTTGGAACCAAGTCCTAAGTTGTCACTAGATCTGCTTTCATGCC
62 CTTAGGGCATTTTCGTAATTTTTTAAAACTAAGTCCTAAGTTGTCACTGGGTCCG-TTTTATGCC
55904 GAAGGTGGGTATTTAGGATA-GTATCA
126 GAAGGT-GGTATTTAGGATAGGT-TCA
* * ** * *
55930 CCCCATCTATAATAT-TTTTTAAGTCCTTTAGGGGTATCAAGCACTTTTACATCGAAGGTATCTC
1 TCCCAT-T-TAA-ATCTTTTTAAGTCCTTTAGGGGCATCGGGTACTTTTACGTCGAAGGTATC-C
*
55994 C-TAGAGGCATTTTTGTAAGTTTTCTTAAA
62 CTTAG-GGCATTTTCGTAA-TTTT-TTAAA
56023 CTTAGCCTTT
Statistics
Matches: 779, Mismatches: 193, Indels: 109
0.72 0.18 0.10
Matches are distributed among these distances:
153 54 0.07
154 151 0.19
155 215 0.28
156 135 0.17
157 72 0.09
158 32 0.04
159 85 0.11
160 31 0.04
161 2 0.00
162 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (150 bp):
TCCCATTTAAATCTTTTTAAGTCCTTTAGGGGCATCGGGTACTTTTACGTCGAAGGTATCCCTTA
GGGCATTTTCGTAATTTTTTAAAACTAAGTCCTAAGTTGTCACTGGGTCCGTTTTATGCCGAAGG
TGGTATTTAGGATAGGTTCA
Found at i:55876 original size:312 final size:309
Alignment explanation
Indices: 54841--55963 Score: 786
Period size: 312 Copynumber: 3.6 Consensus size: 309
54831 TATTCCTTCC
* * ** * * *
54841 CATCTCTAAATCTTTTTTAAAGTCTTTTAGGGGTATTAGGTACTTTTACGTCAAAGGTAT-CCCC
1 CATCTC-AAATC-TTTTT-AAGTCCTTTAAGGGTAACAGGTACTTTTATGTCGAAGGTATATCCC
* * * * * * *
54905 T-AGAGACATTTT-GATAATTTCCTAGAATCGATTCCTAAGTTGCCA-TCGGGTCCGCTATTATG
63 TAAG-GGCATTTTCG-TAATTT-TTAGAACCAAGTCCTAAGTTGTCACT-GGGTCCGCTTTTATG
* * * * *
54967 CCAAAGGTAGGTATTTAGCATAGGTTCGACCTCTCTCAGCTAT-ATCCTTTTTAAGTCCTTTAGG
124 CCGAAGGTTGGTATTTAGGATAGGTTC-A--TC-C-CAGTTATAATTCTTTTTAAGTCCTTTAGG
* ** ** * * * * *
55031 GGTACCGGGATACTTTCACGTC-AAAGGT-GCCCCTAGGGGTATTTTCGTAATTTTTTACAA-TC
184 GGCA-TAGGATACTTTCACGTCGAAA-GTATACCTTAAGGGCATTGTCGTAATTTTTTAAAACT-
* * * * * ** * * *
55093 AAGTCTTAGGTTGTCACTAGGTCCA-CTTTTATGCCAAAGATGGGAAGTTAGGACAGGTTCATCC
246 AACTCCTAGGTTATCACCAGG-CCAGTTTTTATGCCAAAGGGGGGCAGTTAGGATAGGTTCATCA
* ** * * ** *
55157 CAT-TACAAACCTTTTTAAGTTATTGAGGGGT-ATTGAGTACTTTTATATCGAAGG--TATCCCT
1 CATCT-CAAATCTTTTTAAGTCCTTTAAGGGTAACAG-GTACTTTTATGTCGAAGGTATATCCCT
* * * * *
55218 TAGGGACATTTTGGTATTTTTCTAGAACTAAGTCCTAAGTTGTCACTGGGTCCG-TTTTAATGCT
64 AAGGG-CATTTTCGTAATTTT-TAGAACCAAGTCCTAAGTTGTCACTGGGTCCGCTTTT-ATGCC
* * *
55282 GAAGG-TGGTATTTAGGATAGGTTCATCCCATTGTT-TTATCCTTTTTAAGTCCTATAGGGGCAT
126 GAAGGTTGGTATTTAGGATAGGTTCATCCCA--GTTATAATTCTTTTTAAGTCCTTTAGGGGCAT
* * * ** * *
55345 CGGGTACTTTCACGTCGAAAGTATCCCTTGGGGGCATTTTTGTAATTTTTTAAAACTAACTCCTA
189 AGGATACTTTCACGTCGAAAGTATACCTTAAGGGCATTGTCGTAATTTTTTAAAACTAACTCCTA
* * * * * *
55410 GGTTGTTACCAGGTCTGTTTTTATGCCAAAGGTGGGCAGTTAGGATAGGTTCATCT
254 GGTTATCACCAGGCCAGTTTTTATGCCAAAGGGGGGCAGTTAGGATAGGTTCATCA
* * * *
55466 CATTTCAAATGTTTTTAAGTCCTTTAAGGGTAACAGGTACTTGTATGTCGAAGGTAT-CCCCTAA
1 CATCTCAAATCTTTTTAAGTCCTTTAAGGGTAACAGGTACTTTTATGTCGAAGGTATATCCCTAA
* * ** * * *
55530 GGGTATTTTCGTAATTTTTTTATAGTCGAGTCCT-AGATTGTCACTGGGTCCGCTTTTTTGCCAA
66 GGGCATTTTCGTAA--TTTTTAGAACCAAGTCCTAAG-TTGTCACTGGGTCCGCTTTTATGCCGA
* * *
55594 AGGTTGATATTTAGGGTAGGTTCATCCCAGTTAAAATTCTTTTTAAGTCCTTTAGGGTTGC-TAG
128 AGGTTGGTATTTAGGATAGGTTCATCCCAGTTATAATTCTTTTTAAGTCCTTTAGGG--GCATAG
* * *
55658 GATACTTTTACGTCGAAGGTATACCTATAAGGGCATTGTCGTAATTTTTTAAAATCT-ATTCCTA
191 GATACTTTCACGTCGAAAGTATACCT-TAAGGGCATTGTCGTAATTTTTTAAAA-CTAACTCCTA
** ** *
55722 GGTTATCACTGGGCCCAG-TTTTATGCTGAAGGGGGGCATTTAGGATAGGTTCATCA
254 GGTTATCACCAGG-CCAGTTTTTATGCCAAAGGGGGGCAGTTAGGATAGGTTCATCA
* * * ** * *
55778 CATCT-ATAGTCTTTTTAAGT-CTTTTAGGATTGTCAGGGTACTTTTACGTCGAAGGTATATCCA
1 CATCTCA-AATCTTTTTAAGTCCTTTAAGG-GTAACA-GGTACTTTTATGTCGAAGGTATATCCC
* * * * * *
55841 TAAGGGCATTTTTGTAATTTTTGGAACCAAGTCCTAAGTTGTCACTAGATCTGCTTTCATGCCGA
63 TAAGGGCATTTTCGTAATTTTTAGAACCAAGTCCTAAGTTGTCACTGGGTCCGCTTTTATGCCGA
* *
55906 AGGTGGGTATTTAGGATA-GTATCACCCCA-TCTATAATAT-TTTTTAAGTCCTTTAGGGG
128 AGGTTGGTATTTAGGATAGGT-TCATCCCAGT-TATAAT-TCTTTTTAAGTCCTTTAGGGG
55964 TATCAAGCAC
Statistics
Matches: 643, Mismatches: 125, Indels: 84
0.75 0.15 0.10
Matches are distributed among these distances:
307 2 0.00
308 19 0.03
309 159 0.25
310 64 0.10
311 69 0.11
312 197 0.31
313 100 0.16
314 24 0.04
315 5 0.01
316 4 0.01
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (309 bp):
CATCTCAAATCTTTTTAAGTCCTTTAAGGGTAACAGGTACTTTTATGTCGAAGGTATATCCCTAA
GGGCATTTTCGTAATTTTTAGAACCAAGTCCTAAGTTGTCACTGGGTCCGCTTTTATGCCGAAGG
TTGGTATTTAGGATAGGTTCATCCCAGTTATAATTCTTTTTAAGTCCTTTAGGGGCATAGGATAC
TTTCACGTCGAAAGTATACCTTAAGGGCATTGTCGTAATTTTTTAAAACTAACTCCTAGGTTATC
ACCAGGCCAGTTTTTATGCCAAAGGGGGGCAGTTAGGATAGGTTCATCA
Found at i:58402 original size:19 final size:19
Alignment explanation
Indices: 58380--58429 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
58370 ATTTTTCCTA
58380 TTTTTTCTTGTTTTTTCTC
1 TTTTTTCTTGTTTTTTCTC
*
58399 -TTTTTCTTTCTTTTTTCTC
1 TTTTTTC-TTGTTTTTTCTC
58418 TCTTTTT-TTGTT
1 T-TTTTTCTTGTT
58430 GAGTTTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 6 0.23
19 15 0.58
21 5 0.19
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (19 bp):
TTTTTTCTTGTTTTTTCTC
Found at i:58403 original size:10 final size:10
Alignment explanation
Indices: 58371--58426 Score: 55
Period size: 10 Copynumber: 5.5 Consensus size: 10
58361 ATTTTAACTA
58371 TTTTTC-CTAT
1 TTTTTCTCT-T
58381 TTTTTCT-TGT
1 TTTTTCTCT-T
58391 TTTTTCTCTT
1 TTTTTCTCTT
58401 TTTCTT-TCTT
1 TTT-TTCTCTT
58411 TTTTCTCTCTT
1 TTTT-TCTCTT
58422 TTTTT
1 TTTTT
58427 GTTGAGTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
9 1 0.03
10 28 0.70
11 11 0.28
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:58415 original size:11 final size:11
Alignment explanation
Indices: 58383--58425 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
58373 TTTCCTATTT
*
58383 TTTCTTGTTT-
1 TTTCTTTTTTC
58393 TTTCTCTTTTTC
1 TTTCT-TTTTTC
58405 TTTCTTTTTTC
1 TTTCTTTTTTC
*
58416 TCTCTTTTTT
1 TTTCTTTTTT
58426 TGTTGAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 5 0.17
11 19 0.66
12 5 0.17
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:58903 original size:19 final size:20
Alignment explanation
Indices: 58881--58931 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
58871 TCAATTTTTT
**
58881 GAAAATAA-GAAAATTTCAA
1 GAAAATAATGAAAAACTCAA
*
58900 GAAAA-AATGAAAAACTCAT
1 GAAAATAATGAAAAACTCAA
58919 GAAAATAAATGAA
1 GAAAAT-AATGAA
58932 TTTTTGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 18 0.69
21 6 0.23
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (20 bp):
GAAAATAATGAAAAACTCAA
Found at i:58949 original size:166 final size:165
Alignment explanation
Indices: 58755--59185 Score: 383
Period size: 154 Copynumber: 2.7 Consensus size: 165
58745 AAATTCAAGG
* *
58755 AATAAATTGAATTTCTCAAAATTGATTTAATGA-GAGTT-TAATAATAATATTAGATGAATTTCA
1 AATAAATTGAATTTCTCAAAACTGATTTAAT-ATGAATTAT-ATAATAATATTAGATGAATTTCA
** * * * **
58818 AAAATTTTAAAGAGAAG-AAAATCCTCCTCGAAAATATTTATGGAATAGAAAATTCAATTTTTTG
64 AAAATTAAAAAGA-AAGAAAAATCC-CCCCGAAAACATTTATGGAATAGAAAACTCAA-TTTCAG
58882 AAAATA-AGAAAATTTCAAG-AAAAAATGAAAAACTCATGAA
126 AAAA-AGA-AAAATTTCAAGAAAAAAATGAAAAACTCATGAA
* * * *
58922 AATAAA-TGAATTTTTGAAAACTGATTTAATATGAATTATATAATAATATTTGATGAATTTTAAA
1 AATAAATTGAATTTCTCAAAACTGATTTAATATGAATTATATAATAATATTAGATGAATTTCAAA
* * * * *
58986 AATTAAAAATAAAGAAAAATCCCCCCGAAAACATTTATTGAGTAGAAAACTCTATTTCAGAAACA
66 AATTAAAAAGAAAGAAAAATCCCCCCGAAAACATTTATGGAATAGAAAACTCAATTTCAGAAAAA
59051 GAAAAATTTCAAGAAAAAAATG-AAAA---ATG--
131 GAAAAATTTCAAGAAAAAAATGAAAAACTCATGAA
* * * * * * *
59080 ----AA-TGAATTTTTGAAAACTAATTTAATATAAATTAAATAATAATATTTGATGAATTTTAAA
1 AATAAATTGAATTTCTCAAAACTGATTTAATATGAATTATATAATAATATTAGATGAATTTCAAA
* ** * * * * *
59140 AATGAAAAACTAAGAAAAATCACTCTGAAAACATTTACGGAGTAGA
66 AATTAAAAAGAAAGAAAAATCCCCCCGAAAACATTTATGGAATAGA
59186 GAAAAAGGAA
Statistics
Matches: 230, Mismatches: 29, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
154 95 0.41
160 3 0.01
163 16 0.07
164 16 0.07
165 30 0.13
166 63 0.27
167 7 0.03
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (165 bp):
AATAAATTGAATTTCTCAAAACTGATTTAATATGAATTATATAATAATATTAGATGAATTTCAAA
AATTAAAAAGAAAGAAAAATCCCCCCGAAAACATTTATGGAATAGAAAACTCAATTTCAGAAAAA
GAAAAATTTCAAGAAAAAAATGAAAAACTCATGAA
Found at i:59091 original size:154 final size:147
Alignment explanation
Indices: 58917--59355 Score: 497
Period size: 154 Copynumber: 2.9 Consensus size: 147
58907 TGAAAAACTC
* * *
58917 ATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTATATAATAATATTTGATGAATTT
1 ATGAAAATGAATGAATTTTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTT
* **
58982 TAAAAATTAAAAATAAAGAAAAATCCCCCCGAAAACATTTATTGAGTAGAAAACTCTATTTCAGA
66 TAAAAATTAAAAAT-AAGAAAAATCACCCCGAAAACATTTACGGAGTAGAAAACTCTATTTCA-A
59047 AACAGAAAAATTTCAAGAAAAA-A
129 AA-AGAAAAA--T-AA-AAAAACA
*
59070 ATGAAAAATGAATGAATTTTTGAAAACTAATTTAATATAAATTAAATAATAATATTTGATGAATT
1 ATG-AAAATGAATGAATTTTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATT
* * * ****
59135 TTAAAAATGAAAAACTAAGAAAAATCACTCTGAAAACATTTACGGAGTAGAGAAAAAGGAAATTT
65 TTAAAAATTAAAAA-TAAGAAAAATCACCCCGAAAACATTTACGGAGT--AG-AAAACTCTATTT
* * *
59200 --TAAGGAAAAATAAAAAAACTT
126 CAAAAAGAAAAATAAAAAAAC-A
* *
59221 ATGAAAATGAATGAATTTTTGAAAATTTATTTAATATGAATTAAATAATAATAATTTGATGAATT
1 ATGAAAATGAATGAATTTTTGAAAACTAATTTAATATGAATTAAATAATAAT-ATTTGATGAATT
* * * *
59286 TTAAAAATTAAAAACCAAGAAAAATCTCCTCGAAAATATTTACGGAGTAGAAAACTCCATATTTC
65 TTAAAAATTAAAAA-TAAGAAAAATCACCCCGAAAACATTTACGGAGTAGAAAACT-C-TATTTC
59351 AAAAA
127 AAAAA
59356 AAGGAGAATT
Statistics
Matches: 241, Mismatches: 33, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
148 4 0.02
149 7 0.03
150 52 0.22
151 57 0.24
152 2 0.01
153 9 0.04
154 99 0.41
155 1 0.00
156 2 0.01
157 8 0.03
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.30
Consensus pattern (147 bp):
ATGAAAATGAATGAATTTTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTT
TAAAAATTAAAAATAAGAAAAATCACCCCGAAAACATTTACGGAGTAGAAAACTCTATTTCAAAA
AGAAAAATAAAAAAACA
Found at i:61137 original size:20 final size:19
Alignment explanation
Indices: 61091--61147 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
61081 TTGTATCGAT
*
61091 ACATTGTATCGACACATGC
1 ACATTGTATCGATACATGC
* *
61110 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
61129 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
61148 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:61194 original size:13 final size:13
Alignment explanation
Indices: 61176--61225 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
61166 CTATCACTAT
61176 TTGTATCGATACA
1 TTGTATCGATACA
61189 TTGTATCGATACA
1 TTGTATCGATACA
*
61202 -TG-A-GGA-A-A
1 TTGTATCGATACA
61210 TTGTATCGATACA
1 TTGTATCGATACA
61223 TTG
1 TTG
61226 CTTGTAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 17 0.57
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:69939 original size:29 final size:29
Alignment explanation
Indices: 69897--69967 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
69887 CACACTCAGA
*
69897 TGTATCGATACATTGTATTACATGCTTAT
1 TGTATCGATACATTGTATTACATGCTCAT
*
69926 TGTATCGATACATTGTATTGCATGCTCAT
1 TGTATCGATACATTGTATTACATGCTCAT
*
69955 TGTATTGATACAT
1 TGTATCGATACAT
69968 GGATAATTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (29 bp):
TGTATCGATACATTGTATTACATGCTCAT
Found at i:69957 original size:16 final size:16
Alignment explanation
Indices: 69907--69961 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
69897 TGTATCGATA
*
69907 CATTGTATTACATGCT
1 CATTGTATTGCATGCT
* * *
69923 TATTGTATCG-AT--A
1 CATTGTATTGCATGCT
69936 CATTGTATTGCATGCT
1 CATTGTATTGCATGCT
69952 CATTGTATTG
1 CATTGTATTG
69962 ATACATGGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
13 8 0.28
14 2 0.07
15 2 0.07
16 17 0.59
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (16 bp):
CATTGTATTGCATGCT
Found at i:70035 original size:43 final size:43
Alignment explanation
Indices: 69974--70074 Score: 184
Period size: 43 Copynumber: 2.3 Consensus size: 43
69964 ACATGGATAA
*
69974 TTGTATCGATACATGAGATTGGTAGTAGCTACCCTATCACTAT
1 TTGTATCGATACATGAGATTGGCAGTAGCTACCCTATCACTAT
*
70017 TTGTATTGATACATGAGATTGGCAGTAGCTACCCTATCACTAT
1 TTGTATCGATACATGAGATTGGCAGTAGCTACCCTATCACTAT
70060 TTGTATCGATACATG
1 TTGTATCGATACATG
70075 GTATAATGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (43 bp):
TTGTATCGATACATGAGATTGGCAGTAGCTACCCTATCACTAT
Found at i:70086 original size:20 final size:20
Alignment explanation
Indices: 70061--70098 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
70051 TATCACTATT
70061 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
*
70081 TGTATCGATACATTGTAT
1 TGTATCGATACATGGTAT
70099 CGATACATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:70097 original size:13 final size:13
Alignment explanation
Indices: 70081--70108 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
70071 CATGGTATAA
70081 TGTATCGATACAT
1 TGTATCGATACAT
70094 TGTATCGATACAT
1 TGTATCGATACAT
70107 TG
1 TG
70109 CTTGTAACGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:72661 original size:21 final size:22
Alignment explanation
Indices: 72632--72677 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
72622 GTGCTTTATT
72632 AAATGAAAAAGAAAAAAATCAA
1 AAATGAAAAAGAAAAAAATCAA
** *
72654 AAAT-AAAATTAAAAAAATGAA
1 AAATGAAAAAGAAAAAAATCAA
72675 AAA
1 AAA
72678 GGTTGATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (22 bp):
AAATGAAAAAGAAAAAAATCAA
Found at i:74356 original size:156 final size:156
Alignment explanation
Indices: 74122--74579 Score: 587
Period size: 156 Copynumber: 2.9 Consensus size: 156
74112 TTATCGAGAC
* * * * * *
74122 ACTTTTACGTCAAAGGTATCCCCTA-A-GGGTATTTTAGCAATTTTCTAAAATCGACTCCTAAGT
1 ACTTTCACGTCGAAGGTAT-ACCTATAGGGGTATTTTAGTAATTTTATAAAATCGACTCCTAGGT
* * * * * * *
74185 TGTCACCGGGTCTGCTTTTATACCGAAGATAGGCATTTAAGATAGGTTCATCCCATCTCTAATCG
65 TATCACCAGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCT
*
74250 TTTTAAGTCTTTTAGGGTTACCAGGAT
130 TTTTAAGTCCTTTAGGGTTACCAGGAT
* * *
74277 ACTTTCACGTCGAAGGTATACCTATAGGGGCATTTTAGTAATTTTATAAAATGGACTCTTAGGTT
1 ACTTTCACGTCGAAGGTATACCTATAGGGGTATTTTAGTAATTTTATAAAATCGACTCCTAGGTT
* *
74342 ATCACTAGGTCTGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCTT
66 ATCACCAGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCTT
* *
74407 TTTAAGTCCTTTAGGGTTATCGGGAT
131 TTTAAGTCCTTTAGGGTTACCAGGAT
* * * * *
74433 ACTTTCACGTCGAATGTATACCCATAGGGGTATTTTCGTAATTTTTTAAAATCAACTCCTAGGTT
1 ACTTTCACGTCGAAGGTATACCTATAGGGGTATTTTAGTAATTTTATAAAATCGACTCCTAGGTT
* ** * * * *
74498 ATCACCAAGTCCACTTTTATGCTGAAGGTGGGTATTGAGGATAGGTTCATCCCATCTATAATCCT
66 ATCACCAGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAAT-CT
74563 TTTTAAGTCCTTTAGGG
130 TTTTAAGTCCTTTAGGG
74580 GTATCTGGCA
Statistics
Matches: 262, Mismatches: 38, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
154 4 0.02
155 18 0.07
156 221 0.84
157 19 0.07
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (156 bp):
ACTTTCACGTCGAAGGTATACCTATAGGGGTATTTTAGTAATTTTATAAAATCGACTCCTAGGTT
ATCACCAGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCTT
TTTAAGTCCTTTAGGGTTACCAGGAT
Found at i:74678 original size:153 final size:157
Alignment explanation
Indices: 74187--74731 Score: 521
Period size: 156 Copynumber: 3.5 Consensus size: 157
74177 TCCTAAGTTG
* * * * * * * *
74187 TCACCGGGTCTGCTTTTATACCGAAGATAGGCATTTAAGATAGGTTCATCCCATCTCTAAT-CGT
1 TCACCAGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTT
* * * * * * * * * *
74251 TTTAAGTCTTTTAGGGTTACCAGGATACTTTCACGTCGAAGGTATACCTATAGGGGCAT-TTTAG
66 TTTAAGTCCTTTAGGGGTATCGGGACACTTTCACATCGAAAGTATACCCATAAGGGCATCTTCA-
***
74315 TAATTTTAT-AAAATGGACTCTTAGGTTA
130 TAATTTT-TCAAAACCAACTCTTAGGTTA
* * * *
74343 TCACTAGGTCTGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAAT-CTT
1 TCACCAGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTT
* * * * * * * *
74407 TTTAAGTCCTTTAGGGTTATCGGGATACTTTCACGTCGAATGTATACCCATAGGGGTATTTTCGT
66 TTTAAGTCCTTTAGGGGTATCGGGACACTTTCACATCGAAAGTATACCCATAAGGGCATCTTCAT
* * *
74472 AATTTTTTAAAATCAACTCCTAGGTTA
131 AATTTTTCAAAACCAACTCTTAGGTTA
* ** * *
74499 TCACCAAGTCCACTTTTATGCTGAAGGTGGGTATTGAGGATAGGTTCATCCCATCTATAATCCTT
1 TCACCAGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTT
* * * **
74564 TTTAAGTCCTTTAGGGGTATCTGG-CAGTTTTACATC-AAAG-ATGGCC-TAAGGGCATCTTCAT
66 TTTAAGTCCTTTAGGGGTATCGGGACACTTTCACATCGAAAGTATACCCATAAGGGCATCTTCAT
*
74625 AATTTTTCAAAACCAACTCTTATGTTA
131 AATTTTTCAAAACCAACTCTTAGGTTA
* * * ***
74652 TCACCGGGTCTGCTTTTATGCCGAAGGTTGGTATTTAGGATAGGTTTATCTTGTCTATAATCCTT
1 TCACCAGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTT
* *
74717 TCTAAATCCTTTAGG
66 TTTAAGTCCTTTAGG
74732 ACCACTAGGC
Statistics
Matches: 328, Mismatches: 58, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
153 101 0.31
154 4 0.01
155 4 0.01
156 192 0.59
157 27 0.08
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (157 bp):
TCACCAGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTT
TTTAAGTCCTTTAGGGGTATCGGGACACTTTCACATCGAAAGTATACCCATAAGGGCATCTTCAT
AATTTTTCAAAACCAACTCTTAGGTTA
Found at i:74877 original size:22 final size:22
Alignment explanation
Indices: 74851--74897 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
74841 TTAGGAGTAT
74851 GTTCGTCCTTTA-AGTCCTCTAG
1 GTTCGT-CTTTATAGTCCTCTAG
* *
74873 GTTCGTTTTTATATTCCTCTAG
1 GTTCGTCTTTATAGTCCTCTAG
74895 GTT
1 GTT
74898 TCTAGTGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.49
Consensus pattern (22 bp):
GTTCGTCTTTATAGTCCTCTAG
Found at i:78881 original size:24 final size:24
Alignment explanation
Indices: 78854--78972 Score: 91
Period size: 24 Copynumber: 5.5 Consensus size: 24
78844 AGAAAGAAGA
78854 AGAGATAGGAGGGATGACAGAAAG
1 AGAGATAGGAGGGATGACAGAAAG
* *
78878 AGAGATAGGA--GA-GATA-ATAG
1 AGAGATAGGAGGGATGACAGAAAG
*
78898 AGAG--AGGAGGGATGACAGGAAG
1 AGAGATAGGAGGGATGACAGAAAG
* *
78920 AGAGATAGGA--GA-GATA-ATAG
1 AGAGATAGGAGGGATGACAGAAAG
* *
78940 AGAG--AGAAGGGATGACAGGAAG
1 AGAGATAGGAGGGATGACAGAAAG
78962 AGAGATAGGAG
1 AGAGATAGGAG
78973 AGATAATAGA
Statistics
Matches: 70, Mismatches: 13, Indels: 24
0.65 0.12 0.22
Matches are distributed among these distances:
18 7 0.10
20 17 0.24
21 12 0.17
22 16 0.23
24 18 0.26
ACGTcount: A:0.46, C:0.03, G:0.42, T:0.09
Consensus pattern (24 bp):
AGAGATAGGAGGGATGACAGAAAG
Found at i:78906 original size:42 final size:42
Alignment explanation
Indices: 78854--79001 Score: 269
Period size: 42 Copynumber: 3.5 Consensus size: 42
78844 AGAAAGAAGA
* *
78854 AGAGATAGGAGGGATGACAGAAAGAGAGATAGGAGAGATAAT
1 AGAGAGAGGAGGGATGACAGGAAGAGAGATAGGAGAGATAAT
78896 AGAGAGAGGAGGGATGACAGGAAGAGAGATAGGAGAGATAAT
1 AGAGAGAGGAGGGATGACAGGAAGAGAGATAGGAGAGATAAT
*
78938 AGAGAGAGAAGGGATGACAGGAAGAGAGATAGGAGAGATAAT
1 AGAGAGAGGAGGGATGACAGGAAGAGAGATAGGAGAGATAAT
78980 AGAGAGAGGAGGGATGACAGGA
1 AGAGAGAGGAGGGATGACAGGA
79002 GGAGGAGAGA
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 102 1.00
ACGTcount: A:0.46, C:0.03, G:0.42, T:0.09
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGACAGGAAGAGAGATAGGAGAGATAAT
Found at i:78987 original size:24 final size:24
Alignment explanation
Indices: 78854--78987 Score: 80
Period size: 24 Copynumber: 6.1 Consensus size: 24
78844 AGAAAGAAGA
* * *
78854 AGAGATAGGAGGGATGACAGAAAG
1 AGAGATAGGAGAGATAACAGAGAG
*
78878 AGAGATAGGAGAGATAATAGAGAG
1 AGAGATAGGAGAGATAACAGAGAG
*
78902 AG-G--A-G-G-GATGACAG-GAAG
1 AGAGATAGGAGAGATAACAGAG-AG
*
78920 AGAGATAGGAGAGAT-A-ATAGAG
1 AGAGATAGGAGAGATAACAGAGAG
*
78942 AGAGA-A-G-G-GATGACAG-GAAG
1 AGAGATAGGAGAGATAACAGAG-AG
*
78962 AGAGATAGGAGAGATAATAGAGAG
1 AGAGATAGGAGAGATAACAGAGAG
78986 AG
1 AG
78988 GAGGGATGAC
Statistics
Matches: 84, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
17 1 0.01
18 13 0.15
19 5 0.06
20 10 0.12
21 4 0.05
22 10 0.12
23 5 0.06
24 35 0.42
25 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.41, T:0.10
Consensus pattern (24 bp):
AGAGATAGGAGAGATAACAGAGAG
Found at i:83685 original size:52 final size:52
Alignment explanation
Indices: 83623--84443 Score: 376
Period size: 52 Copynumber: 15.7 Consensus size: 52
83613 CTTGTCAAAA
* * * *
83623 CTTATCATCTTTAAGCCTAATGTCGTTGGCCTTGAATCAACTCATTAGCACC
1 CTTATCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC
* * * *
83675 CTTATCATCTTTAAGCCCAATGTCGCTCGCTTTGGATCAGCACATTGGCACC
1 CTTATCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC
* * * * ** * ** * *
83727 TTTGTCCTCTCTAAAACCAATGTAGCTGGCCACGAATTAGCACATTAGCGCC
1 CTTATCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC
* * * *
83779 CTTATCATCTTTAAGCCCAATGTCACTAGCCTTGGATTAGCACATTAGCACC
1 CTTATCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC
* * ** * * * **
83831 TTTGTCAT-TTCTAAAACCAGTG-CTGCTGGCCATGAATCAACGTATT-GACACC
1 CTTATCATCTT-TAAGCCCAATGTC-GCTGGCCTTGAATCAGCACATTAG-CACC
* * * * * * *
83883 TTTATCATCTTCAAGTCCAATATCACTGGCCTTGGATCAGCACATTGGCACC
1 CTTATCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC
* * * * * * *
83935 TTTGTCAT-TTCAAAGACCAATATCGCTGGCCTTGGATCAGCACATTGGCACC
1 CTTATCATCTT-TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC
* * * ** * * * * *
83987 TTTGTCATCTCTAAAACCAGTGTTGATGGCCATGGATCAGCACATTAGCACC
1 CTTATCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC
* * * * * * * *
84039 TTTGTCATATTTAAGTCCAATATCGCTGGCCTTGGATCAGCATATTGGTGGCACC
1 CTTATCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACA-T--TAGCACC
* * * ** * * * * * *
84094 TTTGTCAT-TTCTAAGACCAATGTCAATAGCTTTGGATCAGTACGTTGGCACC
1 CTTATCATCTT-TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC
* * ** * * * * * * *
84146 TTTGTCATCTTTAAAACTAGTGTCGTTGGCCATGAATTAGCATATTGGCACC
1 CTTATCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC
* *
84198 CTTATAATCTTTAAGTCCAATGTCGCTGGCCTT-AGATCAGCACATT-G-ATGCC
1 CTTATCATCTTTAAGCCCAATGTCGCTGGCCTTGA-ATCAGCACATTAGCA--CC
* * * * * * **
84250 TTTATCATCTTTAAGTCCAATATCACTGGCCTTGGATCAGCAAATTAG-TGC
1 CTTATCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC
* * * *
84301 CTT-TGCTATCCTTAAGACCAATGTCACTGGCCTT-AGATCAGCACATTGGCA-C
1 CTTAT-C-ATCTTTAAGCCCAATGTCGCTGGCCTTGA-ATCAGCACATTAGCACC
* * * * **
84353 ATT-TGCTATCCTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATGTT-G-ACAC
1 CTTAT-C-ATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCAC-C
* * * * *
84405 CTGTGTCATCTTTAAGTCCAGTGTCACAGGCCTTGAATC
1 CT-TATCATCTTTAAGCCCAATGTCGCTGGCCTTGAATC
84444 TATATATTGG
Statistics
Matches: 596, Mismatches: 146, Indels: 54
0.75 0.18 0.07
Matches are distributed among these distances:
50 3 0.01
51 13 0.02
52 526 0.88
53 12 0.02
54 4 0.01
55 38 0.06
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (52 bp):
CTTATCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC
Found at i:83821 original size:104 final size:104
Alignment explanation
Indices: 83641--84439 Score: 572
Period size: 104 Copynumber: 7.7 Consensus size: 104
83631 CTTTAAGCCT
* * * * * * * * *
83641 AATGTCGTTGGCCTTGAATCAACTCATTAGCACCCTTATCATCTTTAAGCCCAATGTCGCTCGCT
1 AATGTCGCTGGCCATGAATCAGCACATTGGCACCCTTATCATCTTTAAGACCAATGTCACTGGCC
*
83706 TTGGATCAGCACATTGGCACCTTTGTCCTCTCTAAAACC
66 TTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAACC
* * * * * * *
83745 AATGTAGCTGGCCACGAATTAGCACATTAGCGCCCTTATCATCTTTAAGCCCAATGTCACTAGCC
1 AATGTCGCTGGCCATGAATCAGCACATTGGCACCCTTATCATCTTTAAGACCAATGTCACTGGCC
* * *
83810 TTGGATTAGCACATTAGCACCTTTGTCATTTCTAAAACC
66 TTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAACC
* * ** * * * * *
83849 AGTG-CTGCTGGCCATGAATCAACGTATTGACACCTTTATCATCTTCAAGTCCAATATCACTGGC
1 AATGTC-GCTGGCCATGAATCAGCACATTGGCACCCTTATCATCTTTAAGACCAATGTCACTGGC
*
83913 CTTGGATCAGCACATTGGCACCTTTGTCATTTC-AAAGACC
65 CTTGGATCAGCACATTGGCACCTTTGTCATCTCTAAA-ACC
* * * * * * * * *
83953 AATATCGCTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAACCAGTGTTGA-TGGC
1 AATGTCGCTGGCCATGAATCAGCACATTGGCACCCTTATCATCTTTAAGACCAATG-TCACTGGC
* * * * **
84017 CATGGATCAGCACATTAGCACCTTTGTCATATTTAAGTCC
65 CTTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAACC
* * * * * * *
84057 AATATCGCTGGCCTTGGATCAGCATATTGGTGGCACCTTTGTCAT-TTCTAAGACCAATGTCAAT
1 AATGTCGCTGGCCATGAATCAGCACA-T--TGGCACCCTTATCATCTT-TAAGACCAATGTCACT
* * * * * *
84121 AGCTTTGGATCAGTACGTTGGCACCTTTGTCATCTTTAAAACT
62 GGCCTTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAACC
* * * * * * *
84164 AGTGTCGTTGGCCATGAATTAGCATATTGGCACCCTTATAATCTTTAAGTCCAATGTCGCTGGCC
1 AATGTCGCTGGCCATGAATCAGCACATTGGCACCCTTATCATCTTTAAGACCAATGTCACTGGCC
* *** * * **
84229 TTAGATCAGCACATTGATGCCTTTATCATCTTTAAGTCC
66 TTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAACC
* * * * * * ** *
84268 AATATCACTGGCCTTGGATCAGCAAATTAG-TGCCTT-TGCTATCCTTAAGACCAATGTCACTGG
1 AATGTCGCTGGCCATGAATCAGCACATTGGCACCCTTAT-C-ATCTTTAAGACCAATGTCACTGG
* * **
84331 CCTTAGATCAGCACATTGGCACATTTG-CTATC-CTTAAGTCC
64 CCTTGGATCAGCACATTGGCACCTTTGTC-ATCTC-TAAAACC
* * ** * * * * *
84372 AATGTCGTTGGCCTTGAATCAGCATGTTGACA-CCTGTGTCATCTTTAAGTCCAGTGTCACAGGC
1 AATGTCGCTGGCCATGAATCAGCACATTGGCACCCT-TATCATCTTTAAGACCAATGTCACTGGC
84436 CTTG
65 CTTG
84440 AATCTATATA
Statistics
Matches: 549, Mismatches: 128, Indels: 36
0.77 0.18 0.05
Matches are distributed among these distances:
102 1 0.00
103 8 0.01
104 447 0.81
105 10 0.02
106 5 0.01
107 78 0.14
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (104 bp):
AATGTCGCTGGCCATGAATCAGCACATTGGCACCCTTATCATCTTTAAGACCAATGTCACTGGCC
TTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAACC
Found at i:84168 original size:159 final size:157
Alignment explanation
Indices: 83790--84291 Score: 577
Period size: 156 Copynumber: 3.2 Consensus size: 157
83780 TTATCATCTT
* * * *
83790 TAAGCCCAATGTCACTAGCCTTGGATTAGCACATTAGCACCTTTGTCAT-TTCTAAAACCAGTGC
1 TAAGACCAATGTCACTAGCCTTGGATCAGCACATTGGCACCTTTGTCATCTT-TAAAACCAGTGT
* * * * *
83854 TGCTGGCCATGAATCAACGTATTGACACCTTTATCATCTTCAAGTCCAATATCACTGGCCTTGGA
65 TGATGGCCATGAATCAGCATATTG-CACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGGA
83919 TCAGCACA-T-TGGCACCTTTGTCATTTC
129 TCAGCACATTGTGGCACCTTTGTCATTTC
* * * * *
83946 AAAGACCAATATCGCTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAACCAGTGTT
1 TAAGACCAATGTCACTAGCCTTGGATCAGCACATTGGCACCTTTGTCATCTTTAAAACCAGTGTT
* * * *
84011 GATGGCCATGGATCAGCACATTAGCACCTTTGTCATATTTAAGTCCAATATCGCTGGCCTTGGAT
66 GATGGCCATGAATCAGCATATT-GCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGGAT
*
84076 CAGCATATTGGTGGCACCTTTGTCATTTC
130 CAGCACATT-GTGGCACCTTTGTCATTTC
* * * * * *
84105 TAAGACCAATGTCAATAGCTTTGGATCAGTACGTTGGCACCTTTGTCATCTTTAAAACTAGTGTC
1 TAAGACCAATGTCACTAGCCTTGGATCAGCACATTGGCACCTTTGTCATCTTTAAAACCAGTGTT
* * * * * *
84170 GTTGGCCATGAATTAGCATATTGGCACCCTTATAATCTTTAAGTCCAATGTCGCTGGCCTTAGAT
66 GATGGCCATGAATCAGCATATT-GCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGGAT
*
84235 CAGCACATTGAT-G--CCTTTATCATCTT-
130 CAGCACATTG-TGGCACCTTTGTCAT-TTC
* * *
84261 TAAGTCCAATATCACTGGCCTTGGATCAGCA
1 TAAGACCAATGTCACTAGCCTTGGATCAGCA
84292 AATTAGTGCC
Statistics
Matches: 290, Mismatches: 49, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
156 148 0.51
157 5 0.02
158 2 0.01
159 135 0.47
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (157 bp):
TAAGACCAATGTCACTAGCCTTGGATCAGCACATTGGCACCTTTGTCATCTTTAAAACCAGTGTT
GATGGCCATGAATCAGCATATTGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGGATC
AGCACATTGTGGCACCTTTGTCATTTC
Found at i:84272 original size:315 final size:314
Alignment explanation
Indices: 83790--84396 Score: 724
Period size: 315 Copynumber: 1.9 Consensus size: 314
83780 TTATCATCTT
* * *
83790 TAAGCCCAATGTCACTAGCCTTGGATTAGCACATTAGCACCTTTGTCATTTCTAAAACCAGTGCT
1 TAAGACCAATGTCAATAGCCTTGGATCAGCACATTAGCACCTTTGTCATTTCTAAAACCAGTGCT
* * * *
83855 GCTGGCCATGAATCAACGTATTGACACCTTTATCATCTTCAAGTCCAATATCACTGGCCTTGGAT
66 GCTGGCCATGAATCAACATATTGACACCCTTATAATCTTCAAGTCCAATATCACTGGCCTTAGAT
* * * * *
83920 CAGCACATTGGCACCTTTGTCATTTCAAAGACCAATATCGCTGGCCTTGGATCAGCACATTGGCA
131 CAGCACATTGACACCTTTATCATTTCAAAGACCAATATCACTGGCCTTGGATCAGCAAATTAGCA
* * * *
83985 CCTTTG-TCAT-CTCTAAAACCAGTGTTGA-TGGCCATGGATCAGCACATTAGCACCTTTGTCAT
196 CCTTTGCT-ATCCT-TAAAACCAATG-TCACTGGCCATAGATCAGCACATTAGCACATTTG-C-T
*
84047 AT-TTAAGTCCAATATCGCTGGCCTTGGATCAGCATATTGGTGGCACCTTTGTCATTTC
256 ATCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGGCACCTTTGTCATTTC
* * * * *
84105 TAAGACCAATGTCAATAGCTTTGGATCAGTACGTTGGCACCTTTGTCATCTT-TAAAACTAGTG-
1 TAAGACCAATGTCAATAGCCTTGGATCAGCACATTAGCACCTTTGTCAT-TTCTAAAACCAGTGC
* * * * * * *
84168 TCGTTGGCCATGAATTAGCATATTGGCACCCTTATAATCTTTAAGTCCAATGTCGCTGGCCTTAG
65 T-GCTGGCCATGAATCAACATATTGACACCCTTATAATCTTCAAGTCCAATATCACTGGCCTTAG
** * *
84233 ATCAGCACATTGATGCCTTTATCATCTT-TAAGTCCAATATCACTGGCCTTGGATCAGCAAATTA
129 ATCAGCACATTGACACCTTTATCAT-TTCAAAGACCAATATCACTGGCCTTGGATCAGCAAATTA
** * * *
84297 GTGCCTTTGCTATCCTTAAGACCAATGTCACTGGCCTTAGATCAGCACATTGGCACATTTGCTAT
193 GCACCTTTGCTATCCTTAAAACCAATGTCACTGGCCATAGATCAGCACATTAGCACATTTGCTAT
* *
84362 CCTTAAGTCCAATGTCGTTGGCCTTGAATCAGCAT
258 -CTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
84397 GTTGACACCT
Statistics
Matches: 244, Mismatches: 40, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
313 3 0.01
314 4 0.02
315 230 0.94
316 7 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (314 bp):
TAAGACCAATGTCAATAGCCTTGGATCAGCACATTAGCACCTTTGTCATTTCTAAAACCAGTGCT
GCTGGCCATGAATCAACATATTGACACCCTTATAATCTTCAAGTCCAATATCACTGGCCTTAGAT
CAGCACATTGACACCTTTATCATTTCAAAGACCAATATCACTGGCCTTGGATCAGCAAATTAGCA
CCTTTGCTATCCTTAAAACCAATGTCACTGGCCATAGATCAGCACATTAGCACATTTGCTATCTT
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGGCACCTTTGTCATTTC
Found at i:84350 original size:156 final size:154
Alignment explanation
Indices: 83709--84439 Score: 553
Period size: 156 Copynumber: 4.7 Consensus size: 154
83699 GCTCGCTTTG
* * * ** * * ** * *
83709 GATCAGCACATTGGCACCTTTGTCCTCTCTAAAACCAATGTAGCTGGCCACGAATTAGCACATT-
1 GATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGGATCAGCACATTG
* * * * * * * *
83773 AGCGCCCTTATCATCTT-TAAGCCCAATGTCACTAGCCTTGGATTAGCACATTAGCACCTTTGTC
66 A-CACCTTTGTCAT-TTCTAAGACCAATATCACTGGCCTTGGATCAGCACATTGGCACCTTTGTC
*
83837 AT-TTCTAAAACCAGTGCTGC-TGGCCAT
129 ATCCT-TAAAACCAGTG-T-CATGGCCAT
* ** * * *
83864 GAATCAACGTATTGACACCTTTATCATCTTCAAGTCCAATATCACTGGCCTTGGATCAGCACATT
1 G-ATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGGATCAGCACATT
* * *
83929 GGCACCTTTGTCATTTCAAAGACCAATATCGCTGGCCTTGGATCAGCACATTGGCACCTTTGTCA
65 GACACCTTTGTCATTTCTAAGACCAATATCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCA
*
83994 T-CTCTAAAACCAGTGTTGATGGCCAT
130 TCCT-TAAAACCAGTG-TCATGGCCAT
* * * *
84020 GGATCAGCACATTAGCACCTTTGTCATATTTAAGTCCAATATCGCTGGCCTTGGATCAGCATATT
1 -GATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGGATCAGCACA-T
* * * * * * *
84085 GGTGGCACCTTTGTCATTTCTAAGACCAATGTCAATAGCTTTGGATCAGTACGTTGGCACCTTTG
64 --TGACACCTTTGTCATTTCTAAGACCAATATCACTGGCCTTGGATCAGCACATTGGCACCTTTG
* * *
84150 TCATCTTTAAAACTAGTGTCGTTGGCCAT
127 TCATCCTTAAAACCAGTGTC-ATGGCCAT
* * * * * *
84179 GAATTAGCATATTGGCACCCTTATAATCTTTAAGTCCAATGTCGCTGGCCTTAGATCAGCACATT
1 G-ATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGGATCAGCACATT
** * * * * **
84244 GATGCCTTTATCATCTT-TAAGTCCAATATCACTGGCCTTGGATCAGCAAATTAGTGCCTTTG-C
65 GACACCTTTGTCAT-TTCTAAGACCAATATCACTGGCCTTGGATCAGCACATTGGCACCTTTGTC
* * *
84307 TATCCTTAAGACCAATGTCACTGGCCTT
129 -ATCCTTAAAACCAGTGTCA-TGGCCAT
* * * * * * **
84335 AGATCAGCACATTGGCACATTT-GCTATCCTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATGT
1 -GATCAGCACATTGGCACCTTTATC-ATCTTTAAGTCCAATATCGCTGGCCTTGGATCAGCACAT
* * * * *
84399 TGACACCTGTGTCATCTT-TAAGTCCAGTGTCACAGGCCTTG
64 TGACACCTTTGTCAT-TTCTAAGACCAATATCACTGGCCTTG
84440 AATCTATATA
Statistics
Matches: 457, Mismatches: 103, Indels: 31
0.77 0.17 0.05
Matches are distributed among these distances:
155 4 0.01
156 317 0.69
157 5 0.01
158 3 0.01
159 127 0.28
160 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (154 bp):
GATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGGATCAGCACATTG
ACACCTTTGTCATTTCTAAGACCAATATCACTGGCCTTGGATCAGCACATTGGCACCTTTGTCAT
CCTTAAAACCAGTGTCATGGCCAT
Found at i:93744 original size:12 final size:11
Alignment explanation
Indices: 93725--93800 Score: 70
Period size: 12 Copynumber: 6.9 Consensus size: 11
93715 AGAGAAAGAA
93725 GAGATAGGAGG
1 GAGATAGGAGG
93736 GATGATAGGAGG
1 GA-GATAGGAGG
93748 AGAGATAGGA--
1 -GAGATAGGAGG
*
93758 GAGATAGTA--
1 GAGATAGGAGG
93767 GAGATAGGAGG
1 GAGATAGGAGG
*
93778 GATAATAGGAGG
1 GA-GATAGGAGG
93790 AGAGATAGGAG
1 -GAGATAGGAG
93801 AGATAATAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
9 16 0.29
11 4 0.07
12 31 0.56
13 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.46, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:93759 original size:9 final size:9
Alignment explanation
Indices: 93745--93805 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
93735 GGATGATAGG
93745 AGGAGAGAT
1 AGGAGAGAT
93754 AGGAGAGAT
1 AGGAGAGAT
*
93763 AGTAGAGAT
1 AGGAGAGAT
*
93772 AGGAGGGAT
1 AGGAGAGAT
* *
93781 A--ATAG-G
1 AGGAGAGAT
93787 AGGAGAGAT
1 AGGAGAGAT
93796 AGGAGAGAT
1 AGGAGAGAT
93805 A
1 A
93806 ATAGAGAGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
6 1 0.02
7 2 0.05
8 3 0.07
9 35 0.85
ACGTcount: A:0.44, C:0.00, G:0.43, T:0.13
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:93774 original size:42 final size:42
Alignment explanation
Indices: 93715--93833 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
93705 TAGCCCACAA
* *
93715 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
*
93757 AGAGATAGTAGAGATAGGAGGGATAATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* * *
93799 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAG
93834 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.01, G:0.45, T:0.11
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:93817 original size:18 final size:18
Alignment explanation
Indices: 93748--93818 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
93738 TGATAGGAGG
* *
93748 AGAGATAGGAGAGATAGT
1 AGAGAGAGGAGAGATAAT
* *
93766 AGAGATAGGAGGGATAAT
1 AGAGAGAGGAGAGATAAT
93784 AGGAGGAGAGATAGGAGAGATAAT
1 ---A-GAGAG--AGGAGAGATAAT
93808 AGAGAGAGGAG
1 AGAGAGAGGAG
93819 GGATGACAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
18 21 0.49
20 5 0.12
21 2 0.05
22 4 0.09
24 11 0.26
ACGTcount: A:0.45, C:0.00, G:0.42, T:0.13
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:98853 original size:107 final size:107
Alignment explanation
Indices: 98667--98869 Score: 370
Period size: 107 Copynumber: 1.9 Consensus size: 107
98657 TTTCTACTTC
* *
98667 TTTCAATTTCTGTTCTTGCATTAATAATTCTGTTTGTTGTTTGAAATCCATCTCAAGATCATTAT
1 TTTCAATTTCTGTTCTTGCATTAATAATTCTGTTTGTTGTTAGAAATCCATCTCAAAATCATTAT
98732 TTAGGCAACCTTGGATCATGGTTGTCATCAATTGGTAGCTTT
66 TTAGGCAACCTTGGATCATGGTTGTCATCAATTGGTAGCTTT
* *
98774 TTTCAATTTTTTTTCTTGCATTAATAATTCTGTTTGTTGTTAGAAATCCATCTCAAAATCATTAT
1 TTTCAATTTCTGTTCTTGCATTAATAATTCTGTTTGTTGTTAGAAATCCATCTCAAAATCATTAT
98839 TTAGGCAACCTTGGATCATGGTTGTCATCAA
66 TTAGGCAACCTTGGATCATGGTTGTCATCAA
98870 AACTCAAAAT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 92 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (107 bp):
TTTCAATTTCTGTTCTTGCATTAATAATTCTGTTTGTTGTTAGAAATCCATCTCAAAATCATTAT
TTAGGCAACCTTGGATCATGGTTGTCATCAATTGGTAGCTTT
Found at i:104095 original size:18 final size:18
Alignment explanation
Indices: 104072--104136 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 18
104062 TGATAAGAGG
104072 AGAGATAGGAGAGATAAT
1 AGAGATAGGAGAGATAAT
*
104090 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGGA--GA-GATA--A-T
104114 AGAGATAGGAGAGATAAT
1 AGAGATAGGAGAGATAAT
104132 AGAGA
1 AGAGA
104137 AAAGAGGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
18 15 0.38
19 1 0.03
20 2 0.05
21 8 0.21
22 2 0.05
23 1 0.03
24 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.40, T:0.14
Consensus pattern (18 bp):
AGAGATAGGAGAGATAAT
Found at i:104102 original size:42 final size:42
Alignment explanation
Indices: 104048--104148 Score: 175
Period size: 42 Copynumber: 2.4 Consensus size: 42
104038 AAGAGAAAGA
104048 AGAGATAAGAGGGATGATAAGAGGAGAGATAGGAGAGATAAT
1 AGAGATAAGAGGGATGATAAGAGGAGAGATAGGAGAGATAAT
* *
104090 AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAAT
1 AGAGATAAGAGGGATGATAAGAGGAGAGATAGGAGAGATAAT
*
104132 AGAGAAAAGAGGGATGA
1 AGAGATAAGAGGGATGA
104149 CAGGAAGAGG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.13
Consensus pattern (42 bp):
AGAGATAAGAGGGATGATAAGAGGAGAGATAGGAGAGATAAT
Found at i:104108 original size:12 final size:12
Alignment explanation
Indices: 104090--104124 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
104080 GAGAGATAAT
104090 AGAGATAGGAGG
1 AGAGATAGGAGG
104102 -GATGATAGGAGG
1 AGA-GATAGGAGG
104114 AGAGATAGGAG
1 AGAGATAGGAG
104125 AGATAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.11
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:104125 original size:9 final size:9
Alignment explanation
Indices: 104069--104129 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
104059 GGATGATAAG
104069 AGGAGAGAT
1 AGGAGAGAT
104078 AGGAGAGAT
1 AGGAGAGAT
**
104087 AATAGAGAT
1 AGGAGAGAT
*
104096 AGGAGGGAT
1 AGGAGAGAT
* *
104105 --GATAG-G
1 AGGAGAGAT
104111 AGGAGAGAT
1 AGGAGAGAT
104120 AGGAGAGAT
1 AGGAGAGAT
104129 A
1 A
104130 ATAGAGAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 32 0.82
ACGTcount: A:0.44, C:0.00, G:0.43, T:0.13
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:104256 original size:49 final size:49
Alignment explanation
Indices: 104202--104299 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
104192 GGAATTGGTG
104202 GAGTAAAAATAAAGATCCCTAGTTTTCATGGAAGGAATGATGTTGAAGC
1 GAGTAAAAATAAAGATCCCTAGTTTTCATGGAAGGAATGATGTTGAAGC
104251 GAGTAAAAATAAAGATCCCTAGTTTTCATGGAAGGAATGATGTTGAAGC
1 GAGTAAAAATAAAGATCCCTAGTTTTCATGGAAGGAATGATGTTGAAGC
104300 AAACTTAGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (49 bp):
GAGTAAAAATAAAGATCCCTAGTTTTCATGGAAGGAATGATGTTGAAGC
Found at i:113377 original size:2 final size:2
Alignment explanation
Indices: 113370--113412 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
113360 TTGATGAATG
113370 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113412 T
1 T
113413 GTCTGATAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:114794 original size:13 final size:13
Alignment explanation
Indices: 114776--114801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114766 ACATAAGTGT
114776 TGTATCGATACAA
1 TGTATCGATACAA
114789 TGTATCGATACAA
1 TGTATCGATACAA
114802 AAGTTACCCC
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):
TGTATCGATACAA
Found at i:114852 original size:20 final size:20
Alignment explanation
Indices: 114827--114864 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
114817 CTGCTAAGGA
114827 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
114847 AATGTATCGATACATTAT
1 AATGTATCGATACATTAT
114865 GCAGGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:121760 original size:22 final size:22
Alignment explanation
Indices: 121735--121787 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
121725 AGTCAAAAGT
121735 AAAAACACAAA-AAAAAACAAAC
1 AAAAACA-AAATAAAAAACAAAC
*
121757 AAAAACAAAATAAAAAACACAC
1 AAAAACAAAATAAAAAACAAAC
121779 AAAAA-AAAA
1 AAAAACAAAA
121788 GAATGCAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 7 0.24
22 22 0.76
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (22 bp):
AAAAACAAAATAAAAAACAAAC
Found at i:123273 original size:124 final size:123
Alignment explanation
Indices: 122980--123387 Score: 504
Period size: 124 Copynumber: 3.3 Consensus size: 123
122970 TCTTCACATC
* *** ** *
122980 TCTTTTC-TCAAGGTCCACAACTCAGTGGCATCTCT-TTTTAAAGTCCACAACTCCGTGGCATCC
1 TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCT-TGTCCCAAAGTCCATGACTCAGTGGCAT-C
* * *
123043 TTTTCTTTC-AAGTCCACGACTCAGTGGCATCT-TTTTCTTCAAAGTCCATGACTTAGTGTCA
64 TTTTC-TTCAAAGTCCAC-AATTAGTGGCATCTCTTTTC-TCAAAGTCCATGACTTAGTGGCA
*
123104 TCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCATGACTCAGTGGCATC
1 TC--TTTTCTTCAAAGTCCACAACTCAGTGGCATCTTGTCCCAAAGTCCATGACTCAGTGGCATC
* * * *
123169 TTTTCTTCAAAGTTCGCAATTAAGTGGCTTCTCTTTTCTCAAAGTCCATGACTTAATGGCA
64 TTTTCTTCAAAGTCCACAATT-AGTGGCATCTCTTTTCTCAAAGTCCATGACTTAGTGGCA
*
123230 TCTTTTCTTCAAAGTCCCCAACTCAGTGGCATCTTGTCCCAAAGTCCATGACTCAGTGGCATCTT
1 TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTGTCCCAAAGTCCATGACTCAGTGGCATCTT
* *
123295 TTCTTCAAAGTCCACAACTTAGTGGCATCTC-TTT-TCAAAGTCCACGACTCAGTGGCA
66 TTCTTCAAAGTCCACAA-TTAGTGGCATCTCTTTTCTCAAAGTCCATGACTTAGTGGCA
* *
123352 TCCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTT
1 T-CTTTTCTTCAAAGTCCACAACTCAGTGGCATCTT
123388 TTTTCTTCAA
Statistics
Matches: 249, Mismatches: 26, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
122 21 0.08
123 34 0.14
124 88 0.35
125 7 0.03
126 50 0.20
127 49 0.20
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.34
Consensus pattern (123 bp):
TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTGTCCCAAAGTCCATGACTCAGTGGCATCTT
TTCTTCAAAGTCCACAATTAGTGGCATCTCTTTTCTCAAAGTCCATGACTTAGTGGCA
Found at i:123297 original size:61 final size:60
Alignment explanation
Indices: 122980--123448 Score: 446
Period size: 61 Copynumber: 7.6 Consensus size: 60
122970 TCTTCACATC
* * * ** *
122980 TCTTTTC-TCAAGGTCCACAACTCAGTGGCATCTCTTTTTAAAGTCCACAACTCCGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCT-TTCTCAAAGTCCATGACTCAGTGGCA
* * *
123040 TCCTTTTCTTTC-AAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCATGACTTAGTGTCA
1 T-CTTTTC-TTCAAAGTCCACAACTCAGTGGCATC--TTTC-TCAAAGTCCATGACTCAGTGGCA
* *
123104 TCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCATGACTCAGTGGCA
1 TC--TTTTCTTCAAAGTCCACAACTCAGTGGCATCTT-TCTCAAAGTCCATGACTCAGTGGCA
* * * * * * *
123167 TCTTTTCTTCAAAGTTCGCAATTAAGTGGCTTCTCTTTTCTCAAAGTCCATGACTTAATGGCA
1 TCTTTTCTTCAAAGTCCACAACTCAGTGGC--ATC-TTTCTCAAAGTCCATGACTCAGTGGCA
* *
123230 TCTTTTCTTCAAAGTCCCCAACTCAGTGGCATCTTGTCCCAAAGTCCATGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTT-TCTCAAAGTCCATGACTCAGTGGCA
* * *
123291 TCTTTTCTTCAAAGTCCACAACTTAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCT-TTCTCAAAGTCCATGACTCAGTGGCA
* * * ** *
123352 TCCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTTCACAACTCCGTGGCA
1 T-CTTTTCTTCAAAGTCCACAACTCAGTGGCATC---TTTC-TCAAAGTCCATGACTCAGTGGCA
* *
123417 -CCTTT-TT--AAGTCCACAACTCTGTGGCATCTTT
1 TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTT
123449 TTCCTTTTAA
Statistics
Matches: 345, Mismatches: 44, Indels: 43
0.80 0.10 0.10
Matches are distributed among these distances:
57 3 0.01
60 23 0.07
61 108 0.31
62 52 0.15
63 83 0.24
64 28 0.08
65 48 0.14
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (60 bp):
TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTCTCAAAGTCCATGACTCAGTGGCA
Found at i:123415 original size:33 final size:32
Alignment explanation
Indices: 122976--123664 Score: 477
Period size: 33 Copynumber: 22.1 Consensus size: 32
122966 CAATTCTTCA
*
122976 CATCTCTTTTC-TCAAGGTCCACAACTCAGTGG
1 CATCT-TTTTCTTCAAAGTCCACAACTCAGTGG
* *
123008 CATCTCTTT-TT-AAAGTCCACAACTCCGTGG
1 CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
* *
123038 CATCCTTTTCTTTC-AAGTCCACGACTCAGTGG
1 CATCTTTTTC-TTCAAAGTCCACAACTCAGTGG
** * *
123070 CATCTTTTTCTTCAAAGTCCATGACTTAGTGT
1 CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
*
123102 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
1 CATC-TTTTTCTTCAAAGTCCACAACTCAGTGG
* * **
123135 CATC-TTGTC-CCAAAGTCCATGACTCAGTGG
1 CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
* * * *
123165 CATC-TTTTCTTCAAAGTTCGCAATTAAGTGG
1 CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
* ** * *
123196 CTTCTCTTTTC-TCAAAGTCCATGACTTAATGG
1 CATCT-TTTTCTTCAAAGTCCACAACTCAGTGG
*
123228 CATC-TTTTCTTCAAAGTCCCCAACTCAGTGG
1 CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
* * **
123259 CATC-TTGTC-CCAAAGTCCATGACTCAGTGG
1 CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
*
123289 CATC-TTTTCTTCAAAGTCCACAACTTAGTGG
1 CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
* *
123320 CATC-TCTT-TTCAAAGTCCACGACTCAGTGG
1 CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
* * *
123350 CATCCTTTTCTTCCAAGTCCACGACTCAGTGG
1 CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
* *
123382 CATCTTTTTTCTTCAAAGTTCACAACTCCGTGG
1 CATC-TTTTTCTTCAAAGTCCACAACTCAGTGG
* *
123415 CA-C-CTTT-TT--AAGTCCACAACTCTGTGG
1 CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
** * *
123442 CATCTTTTTCCTTTTAAGTCTACAACTCTGTGG
1 CATCTTTTT-CTTCAAAGTCCACAACTCAGTGG
* **
123475 CACCTTTTTCCTTTTAAGTCCACAACTCTA-TGG
1 CATCTTTTT-CTTCAAAGTCCACAACTC-AGTGG
** *
123508 CA-C-AATT-TT--ACGTCCACAACTCCA-TGG
1 CATCTTTTTCTTCAAAGTCCACAACT-CAGTGG
* * * *
123535 CACCTTTTTCTTTTTAAAGCCCACAACTCCGTGG
1 CATCTTTTTC--TTCAAAGTCCACAACTCAGTGG
* ** *
123569 TACTCTTTTTTCTTTTAAGTCCACAACTCTGTGG
1 CA-TC-TTTTTCTTCAAAGTCCACAACTCAGTGG
** *
123603 CA-C-CCTT-TT--AAGTCCACAACTCCGTGG
1 CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
** *
123630 CATCTTTTTCCTTTTAAGTCCACAACTCTGTGG
1 CATCTTTTT-CTTCAAAGTCCACAACTCAGTGG
123663 CA
1 CA
123665 CCCTGTTACT
Statistics
Matches: 532, Mismatches: 87, Indels: 75
0.77 0.13 0.11
Matches are distributed among these distances:
27 54 0.10
28 4 0.01
29 13 0.02
30 110 0.21
31 85 0.16
32 98 0.18
33 127 0.24
34 34 0.06
35 1 0.00
36 6 0.01
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (32 bp):
CATCTTTTTCTTCAAAGTCCACAACTCAGTGG
Found at i:123422 original size:93 final size:94
Alignment explanation
Indices: 122976--123664 Score: 511
Period size: 93 Copynumber: 7.4 Consensus size: 94
122966 CAATTCTTCA
* * *
122976 CATCTCTTTTC-TCAAGGTCCACAACTCAGTGGCATC-TCTTT-TT-AAAGTCCACAACTCCGTG
1 CATC-CTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACAACTCAGTG
* *
123037 GCATCCTTTTCTTTCAAGTCCACGACTCAGTGG
65 GCATCCTTTTC---AAAGTCCACAACTCAGTGG
* ** * * *
123070 CATCTTTTTCTTCAAAGTCCATGACTTAGTGTCATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
1 CATCCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACAACTCAGTGG
* **
123135 CAT-CTTGTCCCAAAGTCCATGACTCAGTGG
66 CATCCTT-T-TCAAAGTCCACAACTCAGTGG
* * * * * * ** * *
123165 CAT-CTTTTCTTCAAAGTTCGCAATTAAGTGGCTTCTCTTTTC-TCAAAGTCCATGACTTAATGG
1 CATCCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACAACTCAGTGG
* *
123228 CATCTTTTCTTCAAAGTCCCCAACTCAGTGG
66 CATC-CTT-TTCAAAGTCCACAACTCAGTGG
* * ** *
123259 CAT-CTTGTC-CCAAAGTCCATGACTCAGTGGCATC--TTTTCTTCAAAGTCCACAACTTAGTGG
1 CATCCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACAACTCAGTGG
*
123320 CATCTCTTTTCAAAGTCCACGACTCAGTGG
66 CATC-CTTTTCAAAGTCCACAACTCAGTGG
* * * *
123350 CATCCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTTCACAACTCCGTGG
1 CATCCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACAACTCAGTGG
* *
123415 CA-CCTTTT-TAAGTCCACAACTCTGTGG
66 CATCCTTTTCAAAGTCCACAACTCAGTGG
* ** * * * * **
123442 CATCTTTTTCCTTTTAAGTCTACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTA-T
1 CATCCTTTT-CTTCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACAACTC-AGT
* *
123506 GGCA-CAATTTT--ACGTCCACAACTCCA-TGG
64 GGCATC-CTTTTCAAAGTCCACAACT-CAGTGG
* * * * ** *
123535 CA-CCTTTTTCTTTTTAAAGCCCACAACTCCGTGGTACTCTTTTTTCTTTTAAGTCCACAACTCT
1 CATCC-TTTTC--TTCAAAGTCCACAACTCAGTGGCA-TCTTTTTTCTTCAAAGTCCACAACTCA
* *
123599 GTGGCACCCTTTT--AAGTCCACAACTCCGTGG
62 GTGGCATCCTTTTCAAAGTCCACAACTCAGTGG
* ** *
123630 CATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA
1 CATCCTTTT-CTTCAAAGTCCACAACTCAGTGGCA
123665 CCCTGTTACT
Statistics
Matches: 481, Mismatches: 88, Indels: 52
0.77 0.14 0.08
Matches are distributed among these distances:
91 28 0.06
92 56 0.12
93 137 0.28
94 124 0.26
95 106 0.22
96 8 0.02
97 21 0.04
98 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (94 bp):
CATCCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCACAACTCAGTGG
CATCCTTTTCAAAGTCCACAACTCAGTGG
Found at i:123435 original size:27 final size:27
Alignment explanation
Indices: 123397--123638 Score: 106
Period size: 27 Copynumber: 8.0 Consensus size: 27
123387 TTTTTCTTCA
*
123397 AAGTTCACAACTCCGTGGCACCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT
* *
123424 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-C-----CTTTTT
* *
123457 AAGTCTACAACTCTGTGGCACCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACC----T--TTTT
** **
123490 AAGTCCACAACTCTATGGCACAATTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT
* *
123517 ACGTCCACAACTCCATGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCA-C-----CTTTTT
* *
123550 AAAGCCCACAACTCCGTGGTACTCTTTTTTCTTTT
1 -AAGTCCACAACTCCGTGGCAC-C-----T-TTTT
* *
123585 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT
*
123612 AAGTCCACAACTCCGTGGCATCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT
123639 CCTTTTAAGT
Statistics
Matches: 166, Mismatches: 24, Indels: 50
0.69 0.10 0.21
Matches are distributed among these distances:
27 69 0.42
28 2 0.01
29 2 0.01
32 1 0.01
33 53 0.32
34 35 0.21
35 4 0.02
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.37
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCTTTTT
Found at i:123442 original size:60 final size:60
Alignment explanation
Indices: 123302--123666 Score: 264
Period size: 60 Copynumber: 5.9 Consensus size: 60
123292 CTTTTCTTCA
* * * *
123302 AAGTCCACAACT-TAGTGGCATCTCTTTTC---AAAGTCCACGACTCAGTGGCATCCTTTTCTT
1 AAGTCCACAACTCT-GTGGCATCTTTTTTCTTTTAAGTCCACAACTCTGTGGCA-CC-TTT-TT
* * ** * *
123362 CCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTTCACAACTCCGTGGCACCTTTTT
1 --AAGTCCACAACTCTGTGGCATCTTTTTTCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* *
123424 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCTACAACTCTGTGGCACCTTTTTCCTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTTCTTTTAAGTCCACAACTCTGTGGCACC----T--TTT
123489 T
60 T
* ** * **
123490 AAGTCCACAACTCTATGGCA-C-----AATTTTACGTCCACAACTCCATGGCACCTTTTTCTTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTTCTTTTAAGTCCACAACTCTGTGGCA-C-----CTTTT
123549 T
60 T
* * * *
123550 AAAGCCCACAACTCCGTGGTACTCTTTTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
1 -AAGTCCACAACTCTGTGGCA-TCTTTTTTCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* *
123612 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACC
1 AAGTCCACAACTCTGTGGCATCTTTTTTCTTTTAAGTCCACAACTCTGTGGCACC
123667 CTGTTACTTT
Statistics
Matches: 245, Mismatches: 34, Indels: 50
0.74 0.10 0.15
Matches are distributed among these distances:
60 105 0.43
61 35 0.14
62 33 0.13
63 4 0.02
64 3 0.01
65 19 0.08
66 24 0.10
67 1 0.00
68 21 0.09
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (60 bp):
AAGTCCACAACTCTGTGGCATCTTTTTTCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
Found at i:123584 original size:36 final size:33
Alignment explanation
Indices: 123420--123699 Score: 165
Period size: 33 Copynumber: 8.8 Consensus size: 33
123410 CGTGGCACCT
* * * *
123420 TTTTAAGTCCACAACTCTGTGGCATCTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTTTC
* * * *
123453 TTTTAAGTCTACAACTCTGTGGCACCTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTTTC
* ** **
123486 TTTTAAGTCCACAACTCTATGGCA-C-----AA
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTTTC
* * *
123513 TTTTACGTCCACAACTCCATGGCACC-TTTTTC
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTTTC
*
123545 TTTTTAAAGCCCACAACTCCGTGGTACTCTTTTTTC
1 -TTTT-AAGCCCACAACTCCGTGGCAC-CTTTTTTC
* *
123581 TTTTAAGTCCACAACTCTGTGGCACC------C
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTTTC
* * *
123608 TTTTAAGTCCACAACTCCGTGGCATCTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTTTC
* * * * *
123641 TTTTAAGTCCACAACTCTGTGGCACCCTGTTAC
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTTTC
**
123674 TTTCTAA-TTCACAACTCCGTGGCACC
1 TTT-TAAGCCCACAACTCCGTGGCACC
123700 CATCGAGAAT
Statistics
Matches: 205, Mismatches: 26, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
27 47 0.23
28 1 0.00
32 1 0.00
33 107 0.52
34 38 0.19
35 5 0.02
36 6 0.03
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (33 bp):
TTTTAAGCCCACAACTCCGTGGCACCTTTTTTC
Found at i:127841 original size:51 final size:51
Alignment explanation
Indices: 127749--127845 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
127739 TAGAGTCTTG
* * ** *
127749 ACTAAACAAGGACAATCCTAATCACAGTTGTAATAGCAATCAATAATCCTA
1 ACTAAAAAAGGACAATCCTAATCACAATCCTAACAGCAATCAATAATCCTA
127800 ACTAAAAAAGGACAATCCTAATCACAATCCTAACA-CTAATCAATAA
1 ACTAAAAAAGGACAATCCTAATCACAATCCTAACAGC-AATCAATAA
127846 AGATAAAGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.03
51 39 0.98
ACGTcount: A:0.48, C:0.23, G:0.07, T:0.22
Consensus pattern (51 bp):
ACTAAAAAAGGACAATCCTAATCACAATCCTAACAGCAATCAATAATCCTA
Found at i:132781 original size:42 final size:42
Alignment explanation
Indices: 132722--132831 Score: 184
Period size: 42 Copynumber: 2.6 Consensus size: 42
132712 AAAAGAAAGA
* *
132722 AGAGAGAGGGGGGATGATAGGAGGAGAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
132764 AGAGATAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
132806 AGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGAGAGGAGGGATGATAGGAGGAG
132832 GAGAGAAGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.40, C:0.03, G:0.48, T:0.09
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:143680 original size:42 final size:42
Alignment explanation
Indices: 143625--143743 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
143615 TTCTTCTCTC
* *
143625 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
143667 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
143709 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
143744 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:143684 original size:12 final size:11
Alignment explanation
Indices: 143658--143733 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
143648 TCTATTATCT
*
143658 CTCCTGTCTCTC
1 CTCCTATCTC-C
143670 CTCCTATCATCC
1 CTCCTATC-TCC
143682 CTCCTATCT--
1 CTCCTATCTCC
*
143691 CTACTATCT--
1 CTCCTATCTCC
*
143700 CTCCTGTCTCTC
1 CTCCTATCTC-C
143712 CTCCTATCATCC
1 CTCCTATC-TCC
*
143724 CTCCTCTCTC
1 CTCCTATCTC
143734 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:143685 original size:24 final size:24
Alignment explanation
Indices: 143649--143734 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
143639 CCTCCTCTCT
* *
143649 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
143673 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
143694 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
143715 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
143735 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:143709 original size:18 final size:18
Alignment explanation
Indices: 143640--143710 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
143630 CCTGTCATCC
* *
143640 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
143658 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
143680 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
143700 CTCCTGTCTCT
1 CTCCTGTCTCT
143711 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:149788 original size:12 final size:11
Alignment explanation
Indices: 149766--149841 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
149756 AGAGAAAGAA
*
149766 GAGAGAGGAGG
1 GAGATAGGAGG
149777 GATGATAGGAGG
1 GA-GATAGGAGG
*
149789 AGAGACAGGA--
1 -GAGATAGGAGG
*
149799 GAGATAGTA--
1 GAGATAGGAGG
149808 GAGATAGGAGG
1 GAGATAGGAGG
149819 GATGATAGGAGG
1 GA-GATAGGAGG
*
149831 AGAGACAGGAG
1 -GAGATAGGAG
149842 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:149817 original size:42 final size:42
Alignment explanation
Indices: 149756--149874 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
149746 TAGCCCTCAA
* *
149756 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
149798 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
149840 AGAGATAATAGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
149875 GAGAGAAGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.43, C:0.02, G:0.46, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:149858 original size:18 final size:18
Alignment explanation
Indices: 149831--149880 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
149821 TGATAGGAGG
*
149831 AGAGACAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
149849 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
149867 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
149881 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.44, C:0.02, G:0.46, T:0.08
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:149895 original size:42 final size:41
Alignment explanation
Indices: 149763--149898 Score: 184
Period size: 42 Copynumber: 3.2 Consensus size: 41
149753 CAAAGAGAAA
149763 GAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGAT
1 GAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGAT
* *
149804 AGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGGAGAGAT
1 -GAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGAT
* * *
149846 AATAGAGAGAGGAGGGATGATAGGAGGAG-GAGAGAAGAAGAT
1 GA-AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAG-AGAT
149888 GGAAGAGAGAG
1 -GAAGAGAGAG
149899 AAAATGAGAG
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
41 6 0.07
42 76 0.92
43 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.47, T:0.09
Consensus pattern (41 bp):
GAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGAT
Found at i:154686 original size:251 final size:250
Alignment explanation
Indices: 154244--154745 Score: 950
Period size: 251 Copynumber: 2.0 Consensus size: 250
154234 TTTTTGTGTG
*
154244 AGAGTGTGATTCTTAGGTTCTTGAGTGAGCCAATTTCTAGATCTTGTCAAGAGCCCAAGACTCTT
1 AGAGTGTGATTCTTAGGTTCTTGAGTGAGCCAATTTCTAGATCTTATCAAGAGCCCAAGACTCTT
*
154309 GTGGCGATCATTCCTTTTGGCTTATCAATCTTGTGATTGTGGTGCCATCCTTCATCTCTAATCTA
66 GTGGCGATCATTCCTTTTGGCTTATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAATCTA
*
154374 TTCCATTTTGTTATTTTTTCTGCTTCTTTCAATTTCTGTTCTTGCATTAATAATTCTGTTTAATG
131 TTCCATTTTGTTATTTTTTCTGCTTCTTTCAATTTATGTTCTTGCATTAATAATTCTGTTTAATG
154439 TTAGAAATCCATCTCAAGATCATTATTTAGGCAACCTTGGTTCATGGTTGTCATC
196 TTAGAAATCCATCTCAAGATCATTATTTAGGCAACCTTGGTTCATGGTTGTCATC
* *
154494 AGAGTGTGATTCTTAGGTTCTTGAGTGAGCCAATTTTCTGGATCTTATCAAGAGGCCAAGACTCT
1 AGAGTGTGATTCTTAGGTTCTTGAGTGAGCCAA-TTTCTAGATCTTATCAAGAGCCCAAGACTCT
154559 TGTGGCGATCATTCCTTTTGGCTTATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAATCT
65 TGTGGCGATCATTCCTTTTGGCTTATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAATCT
154624 ATTCCATTTTGTTATTTTTTCTGCTTCTTTCAATTTATGTTCTTGCATTAATAATTCTGTTTAAT
130 ATTCCATTTTGTTATTTTTTCTGCTTCTTTCAATTTATGTTCTTGCATTAATAATTCTGTTTAAT
154689 GTTAGAAATCCATCTCAAGATCATTATTTAGGCAACCTTGGTTCATGGTTGTCATC
195 GTTAGAAATCCATCTCAAGATCATTATTTAGGCAACCTTGGTTCATGGTTGTCATC
154745 A
1 A
154746 CTTGGACTGA
Statistics
Matches: 246, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
250 33 0.13
251 213 0.87
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.43
Consensus pattern (250 bp):
AGAGTGTGATTCTTAGGTTCTTGAGTGAGCCAATTTCTAGATCTTATCAAGAGCCCAAGACTCTT
GTGGCGATCATTCCTTTTGGCTTATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAATCTA
TTCCATTTTGTTATTTTTTCTGCTTCTTTCAATTTATGTTCTTGCATTAATAATTCTGTTTAATG
TTAGAAATCCATCTCAAGATCATTATTTAGGCAACCTTGGTTCATGGTTGTCATC
Found at i:160972 original size:42 final size:42
Alignment explanation
Indices: 160917--161035 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
160907 TTCTTCTCTC
* *
160917 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
160959 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCTTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
161001 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
161036 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.08, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:160977 original size:24 final size:24
Alignment explanation
Indices: 160941--161026 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
160931 CCTCCTCTCT
* *
160941 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
160965 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
*
160986 CTATC-T--CTCTTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
161007 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
161027 TCTTTCTCTT
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
18 3 0.06
20 5 0.11
21 14 0.30
22 5 0.11
24 20 0.43
ACGTcount: A:0.10, C:0.44, G:0.02, T:0.43
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Done.