Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2298
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: 581295
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.21
Warning! 216560 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:397930 original size:26 final size:23
Alignment explanation
Indices: 397881--398015 Score: 134
Period size: 23 Copynumber: 5.7 Consensus size: 23
397871 GGCGTCCTCC
*
397881 AAAAAAACAAAAAAAAAACA-AA
1 AAAAAAACAAAAAAAAAAAACAA
397903 AAAAAAACGAAAAAATGAAAAAAC-A
1 AAAAAAAC-AAAAAA--AAAAAACAA
397928 AAAAAAACAAAAAACAAAAAA-AA
1 AAAAAAACAAAAAA-AAAAAACAA
397951 AACAAAAA-AACAAAAAAAAAACAA
1 AA-AAAAACAA-AAAAAAAAAACAA
*
397975 AAAAAACAAAAACAATAAAAAAACAA
1 AAAAAA-ACAAA-AA-AAAAAAACAA
*
398001 ACAAAAACAAAAAAA
1 AAAAAAACAAAAAAA
398016 GGGGGTCCGG
Statistics
Matches: 97, Mismatches: 4, Indels: 23
0.78 0.03 0.19
Matches are distributed among these distances:
22 8 0.08
23 29 0.30
24 23 0.24
25 22 0.23
26 15 0.15
ACGTcount: A:0.87, C:0.10, G:0.01, T:0.01
Consensus pattern (23 bp):
AAAAAAACAAAAAAAAAAAACAA
Found at i:397931 original size:27 final size:24
Alignment explanation
Indices: 397881--398013 Score: 130
Period size: 27 Copynumber: 5.3 Consensus size: 24
397871 GGCGTCCTCC
397881 AAAAAAAC--AAAAAAAAAACAAA
1 AAAAAAACAAAAAAAAAAAACAAA
397903 AAAAAAACGAAAAAATGAAAAAACAAA
1 AAAAAAAC-AAAAAA--AAAAAACAAA
*
397930 AAAAACAA-AAAACAAAAAAAA-AAC
1 AAAAA-AACAAAA-AAAAAAAACAAA
*
397954 AAAAAAACAAAAAAAAAACAAAAAA
1 AAAAAAACAAAAAAAAAA-AACAAA
397979 AACAAAAACAATAAAAAAACAAACAAA
1 AA-AAAAACAA-AAAAAAA-AAACAAA
398006 AACAAAAA
1 AA-AAAAA
398014 AAGGGGGTCC
Statistics
Matches: 95, Mismatches: 3, Indels: 21
0.80 0.03 0.18
Matches are distributed among these distances:
22 8 0.08
23 8 0.08
24 13 0.14
25 14 0.15
26 12 0.13
27 37 0.39
28 3 0.03
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.02
Consensus pattern (24 bp):
AAAAAAACAAAAAAAAAAAACAAA
Found at i:397971 original size:55 final size:55
Alignment explanation
Indices: 397881--398015 Score: 179
Period size: 54 Copynumber: 2.5 Consensus size: 55
397871 GGCGTCCTCC
* **
397881 AAAAAAACAAAAAAAAAACAAAAAAAAAACGAAAAAA-TGAAAAAACAAAAA-AA-
1 AAAAAAACAAAAAAAAAACAAAAAAAAAA-AAAAAAACAAAAAAAACAAAAACAAT
397934 ACAAAAAACAAAAAAAAAACAAAAAAACAAAAAAAAAACAAAAAAAACAAAAACAAT
1 A-AAAAAACAAAAAAAAAACAAAAAAA-AAAAAAAAAACAAAAAAAACAAAAACAAT
*
397991 AAAAAAAC-AAACAAAAACAAAAAAA
1 AAAAAAACAAAAAAAAAACAAAAAAA
398016 GGGGGTCCGG
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
53 1 0.01
54 31 0.42
55 31 0.42
56 9 0.12
57 1 0.01
ACGTcount: A:0.87, C:0.10, G:0.01, T:0.01
Consensus pattern (55 bp):
AAAAAAACAAAAAAAAAACAAAAAAAAAAAAAAAAACAAAAAAAACAAAAACAAT
Found at i:399497 original size:30 final size:29
Alignment explanation
Indices: 399457--399997 Score: 341
Period size: 30 Copynumber: 18.3 Consensus size: 29
399447 TCACCCTTCA
* *
399457 AAAGTCCACAAGTCAGTGGCATTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
*
399487 AAAGCCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
**
399516 GAAAGCCCACAAGTCAGTGGCA-A-CCTTC
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
* ** *
399544 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
* * * *
399574 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
* * * *
399603 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
* * * * *
399633 TTTTGTAAGCTCACAACTCTA-TAGCACTCTTTTTC
1 -----AAAGCCCACAAGTC-AGTGGCA-TATTTTTC
** * ***
399668 TTTTTCAGCCCACAAGTTAGTGGCACCCTTTTC
1 ----AAAGCCCACAAGTCAGTGGCATATTTTTC
399701 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
** *
399731 AAAAGCCCACAAGTCAGTGGCA-ACCTTTA
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
**
399760 AAAGCCCACAAGTCAGTGGCA-A-CCTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
** *
399787 AAAAGCCCACAAGTCAGTGGCA-ACCTTTA
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
**
399816 AAAGCCCACAAGTCAGTGGCA-A-CCTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
* * ***
399843 AAAGCCCACAAATCGGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
399872 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
** *
399902 AAAAGCCCACAAGTCAGTGGCA-ACCTTTA
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
**
399931 AAAGCCCACAAGTCAGTGGCA-A-CCTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
* ** *
399958 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
399988 AAAGCCCACA
1 AAAGCCCACA
399998 CAAGTCGGTG
Statistics
Matches: 424, Mismatches: 67, Indels: 40
0.80 0.13 0.08
Matches are distributed among these distances:
27 68 0.16
28 91 0.21
29 46 0.11
30 171 0.40
33 7 0.02
34 17 0.04
35 24 0.06
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATATTTTTC
Found at i:399699 original size:34 final size:36
Alignment explanation
Indices: 399608--399699 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 36
399598 TTTCCAAAGT
*
399608 CCACAACTC-CGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* * *
399643 TCACAACTCTA-TAGCACTCTTTTTCTTTT-TCAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* *
399677 CCACAAGT-TAGTGGCACCCTTTT
1 CCACAACTCTAGTGGCACTCTTTT
399700 CAAAAGCCCA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
33 2 0.04
34 20 0.43
35 25 0.53
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (36 bp):
CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
Found at i:399771 original size:28 final size:28
Alignment explanation
Indices: 399674--400013 Score: 414
Period size: 28 Copynumber: 11.8 Consensus size: 28
399664 TTTCTTTTTC
* *
399674 AGCCCACAAGTTAGTGGCACCCTTTTCAAA
1 AGCCCACAAGTCAGTGGCAACC-TTT-AAA
**
399704 AGCCCACAAGTCAGTGGCATATTTTTCAAA
1 AGCCCACAAGTCAGTGGCA-ACCTTT-AAA
399734 AGCCCACAAGTCAGTGGCAACCTTTAAA
1 AGCCCACAAGTCAGTGGCAACCTTTAAA
*
399762 AGCCCACAAGTCAGTGGCAACCTTCAAA
1 AGCCCACAAGTCAGTGGCAACCTTTAAA
399790 AGCCCACAAGTCAGTGGCAACCTTTAAA
1 AGCCCACAAGTCAGTGGCAACCTTTAAA
*
399818 AGCCCACAAGTCAGTGGCAACC-TTCAA
1 AGCCCACAAGTCAGTGGCAACCTTTAAA
* * *
399845 AGCCCACAAATCGGTGGCACCCTTTTCAAA
1 AGCCCACAAGTCAGTGGCAACC-TTT-AAA
**
399875 AGCCCACAAGTCAGTGGCATATTTTTCAAA
1 AGCCCACAAGTCAGTGGCA-ACCTTT-AAA
399905 AGCCCACAAGTCAGTGGCAACCTTTAAA
1 AGCCCACAAGTCAGTGGCAACCTTTAAA
*
399933 AGCCCACAAGTCAGTGGCAACC-TTCAA
1 AGCCCACAAGTCAGTGGCAACCTTTAAA
* * *
399960 AGCCCACAAATCAGTGGCACCCTTTTCCAA
1 AGCCCACAAGTCAGTGGCAACC-TTT-AAA
*
399990 AGCCCACACAAGTCGGTGGCAACC
1 AG-CC-CACAAGTCAGTGGCAACC
400014 CTTCTAAGCC
Statistics
Matches: 274, Mismatches: 26, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
27 47 0.17
28 104 0.38
29 12 0.04
30 94 0.34
31 2 0.01
32 15 0.05
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.19
Consensus pattern (28 bp):
AGCCCACAAGTCAGTGGCAACCTTTAAA
Found at i:399959 original size:171 final size:175
Alignment explanation
Indices: 399687--400025 Score: 589
Period size: 171 Copynumber: 2.0 Consensus size: 175
399677 CCACAAGTTA
399687 GTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGC
1 GTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGC
*
399752 AACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-
66 AACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAATCAGTGGCAACCTTTTC
399815 AAAAG-CC-CACAAGTCAGTGGCAA-CCTTCAAAGCCCACAAATCG
130 AAAAGCCCACACAAGTCAGTGGCAACCCTTCAAAGCCCACAAATCG
399858 GTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGC
1 GTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGC
* *
399923 AACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
66 AACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCAACCTTTTCA
* *
399988 AAAGCCCACACAAGTCGGTGGCAACCCTTCTAAGCCCA
131 AAAGCCCACACAAGTCAGTGGCAACCCTTCAAAGCCCA
400026 ATATAGCTGG
Statistics
Matches: 158, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
170 22 0.14
171 103 0.65
172 4 0.03
173 2 0.01
174 15 0.09
175 12 0.08
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.19
Consensus pattern (175 bp):
GTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGC
AACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCAACCTTTTCA
AAAGCCCACACAAGTCAGTGGCAACCCTTCAAAGCCCACAAATCG
Found at i:400025 original size:115 final size:113
Alignment explanation
Indices: 399674--400013 Score: 486
Period size: 115 Copynumber: 2.9 Consensus size: 113
399664 TTTCTTTTTC
* * **
399674 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCA-A-CCTTC-AAAGCCC
* *
399739 ACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCAACCTTCAAA
61 ACAAATCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAA
399790 AGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAA
1 AGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAA
* **
399855 TCGGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAA
66 TCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA-A-CCTTCAAA
399905 AGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAA
1 AGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAA
* *
399970 TCAGTGGCACCCTTTTCCAAAGCCCACACAAGTCGGTGGCAACC
66 TCAGTGGCACCCTTTTCAAAAG-CC-CACAAGTCAGTGGCAACC
400014 CTTCTAAGCC
Statistics
Matches: 204, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
111 21 0.10
112 6 0.03
113 23 0.11
114 23 0.11
115 94 0.46
116 23 0.11
117 14 0.07
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.19
Consensus pattern (113 bp):
AGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAA
TCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAA
Found at i:400080 original size:49 final size:47
Alignment explanation
Indices: 400018--400338 Score: 406
Period size: 49 Copynumber: 6.8 Consensus size: 47
400008 GCAACCCTTC
* *
400018 TAAGCCCAATATAGCTGGCCTTGAATCACCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTA-CTT
*
400067 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-A-CTT
*
400116 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C---CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTACTT
*
400159 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-A-CTT
*
400208 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C---CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTACTT
400251 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT--A-CTT
* * *
400303 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
400339 ACATCATTTT
Statistics
Matches: 242, Mismatches: 14, Indels: 29
0.85 0.05 0.10
Matches are distributed among these distances:
43 81 0.33
44 2 0.01
48 4 0.02
49 119 0.49
52 36 0.15
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (47 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTACTT
Found at i:400158 original size:21 final size:20
Alignment explanation
Indices: 400134--400201 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
400124 ATATAGCTGG
400134 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
400155 CCTTTAAGTC--CAATATAGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
400176 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
400198 CCTT
1 CCTT
400202 CACCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:400171 original size:43 final size:43
Alignment explanation
Indices: 400110--400294 Score: 289
Period size: 43 Copynumber: 4.2 Consensus size: 43
400100 TTGGCACCTT
400110 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* *
400153 CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
400196 CACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1 ------CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
400245 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
400288 CACCTTT
1 CACCTTT
400295 TCCATCTTTA
Statistics
Matches: 131, Mismatches: 5, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
43 90 0.69
49 41 0.31
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
Found at i:400191 original size:92 final size:92
Alignment explanation
Indices: 400064--400338 Score: 487
Period size: 92 Copynumber: 3.0 Consensus size: 92
400054 GCACCTTTAT
400064 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATA
400129 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
400156 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATA
400221 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
400248 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACC--TT-CACCTTTAAGTCCAAT
*
400313 GTAGCTGGCCTTGAATCAGCACATTG
63 ATAGCTGGCCTTGAATCAGCACATTG
400339 ACATCATTTT
Statistics
Matches: 176, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
92 135 0.77
94 2 0.01
95 39 0.22
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:400272 original size:22 final size:22
Alignment explanation
Indices: 400204--400272 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
400194 GGCACCTTCA
400204 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * *
400226 CCTTGAA-TCAGCACAT-TGGC--A
1 CCTTTAAGTC--CA-ATATAGCTGG
400247 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
400269 CCTT
1 CCTT
400273 GAATCAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:400326 original size:52 final size:53
Alignment explanation
Indices: 400248--400401 Score: 177
Period size: 52 Copynumber: 2.9 Consensus size: 53
400238 ACATTGGCAC
400248 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * * *
400300 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCATTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTCTCAT
* * * * *
400355 CTTTAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTT
400402 ATCACTTTTC
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
52 38 0.46
53 4 0.05
54 6 0.07
55 35 0.42
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:401232 original size:33 final size:33
Alignment explanation
Indices: 401195--401261 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
401185 TTCAACGATT
401195 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
401228 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
401261 T
1 T
401262 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:401233 original size:13 final size:13
Alignment explanation
Indices: 401215--401239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
401205 CATAAAATGT
401215 TGTATCGATACAA
1 TGTATCGATACAA
401228 TGTATCGATACA
1 TGTATCGATACA
401240 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:401320 original size:13 final size:13
Alignment explanation
Indices: 401302--401326 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
401292 ATTACTCAAA
401302 TGTATCGATACAT
1 TGTATCGATACAT
401315 TGTATCGATACA
1 TGTATCGATACA
401327 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:401428 original size:52 final size:52
Alignment explanation
Indices: 401335--401458 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
401325 CACTGATCTT
*
401335 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
401386 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
401438 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
401459 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:408851 original size:30 final size:30
Alignment explanation
Indices: 408794--408851 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
408784 GGCTTGTGAA
*
408794 TACTATTAGTTATGCACAAAGTTATGGCTT
1 TACTATTAGTTATGCACAAAGTCATGGCTT
408824 TACTATTAGTTATGCACTAAA-TCATGGC
1 TACTATTAGTTATGCAC-AAAGTCATGGC
408852 ACTACTCCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (30 bp):
TACTATTAGTTATGCACAAAGTCATGGCTT
Found at i:411935 original size:22 final size:24
Alignment explanation
Indices: 411895--411938 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
411885 GTTGAAGGAA
*
411895 CTTATGCTAGCTTCTTATAGAACT
1 CTTATGCAAGCTTCTTATAGAACT
411919 CTTATGCAAGC-TC-TATAGAA
1 CTTATGCAAGCTTCTTATAGAA
411939 GAACTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 2 0.11
24 10 0.53
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (24 bp):
CTTATGCAAGCTTCTTATAGAACT
Found at i:414156 original size:115 final size:115
Alignment explanation
Indices: 413927--414178 Score: 276
Period size: 115 Copynumber: 2.2 Consensus size: 115
413917 ACTTATTCAA
* ** * * *
413927 AAAAGGGTTGAATAATTTATTTCATTTAAGGTTAAGATACAATCTCCTTAGTGAAGTAGATAGTT
1 AAAAGGGTTGAATAATTTACTTCATCAAAGGTTAAGAAACAATCTCCTTAATGAAATAGATAGTT
* * * * *
413992 CTTTTTGCCTCAACTATAATCGCTCATATATTAGCCTAAGATACCTATTT
66 CTTTTGGCCTCAACTATAATCACTCATACACTAGCCAAAGATACCTATTT
* * *
414042 AAAA-GGTTGAATAATTTACTTCATCAAAGTTTAAGAAACAATCTACC-TAATGAAATGGATTGT
1 AAAAGGGTTGAATAATTTACTTCATCAAAGGTTAAGAAACAATCT-CCTTAATGAAATAGATAG-
* * * *
414105 TTCTTTTGGTCGT-AACTATAATCACTCATACACTGGCCAAAGATGCTTATTT
64 TTCTTTTGG-CCTCAACTATAATCACTCATACACTAGCCAAAGATACCTATTT
* *
414157 AAAATGATTGAATAATTTACTT
1 AAAAGGGTTGAATAATTTACTT
414179 TGTTTTAGGT
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
114 46 0.40
115 50 0.44
116 18 0.16
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (115 bp):
AAAAGGGTTGAATAATTTACTTCATCAAAGGTTAAGAAACAATCTCCTTAATGAAATAGATAGTT
CTTTTGGCCTCAACTATAATCACTCATACACTAGCCAAAGATACCTATTT
Found at i:415043 original size:12 final size:11
Alignment explanation
Indices: 415022--415148 Score: 78
Period size: 12 Copynumber: 10.6 Consensus size: 11
415012 AGTAATTATC
415022 CCAAAGGTTGTT
1 CCAAA-GTTGTT
415034 CCAAGAGTTGTT
1 CCAA-AGTTGTT
415046 CCAAAGGTTGCTT
1 CCAAA-GTTG-TT
415059 -CAAGAGTT-TT
1 CCAA-AGTTGTT
415069 GCCAAAGGTTGTT
1 -CCAAA-GTTGTT
* *
415082 CTAGAAGTTGTG
1 CCA-AAGTTGTT
415094 CCAAAGTTTGTT
1 CCAAAG-TTGTT
*
415106 CCAACAATTGTT
1 CCAA-AGTTGTT
*
415118 CCAAAGGTTGTC
1 CCAAA-GTTGTT
* *
415130 CCAAGAGTTATG
1 CCAA-AGTTGTT
415142 CCAAAGT
1 CCAAAGT
415149 ACTAGGAGCC
Statistics
Matches: 93, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
10 2 0.02
11 9 0.10
12 72 0.77
13 10 0.11
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (11 bp):
CCAAAGTTGTT
Found at i:415054 original size:24 final size:24
Alignment explanation
Indices: 415022--415147 Score: 132
Period size: 24 Copynumber: 5.2 Consensus size: 24
415012 AGTAATTATC
415022 CCAAAGGTTGTTCCAAGAGTTGTT
1 CCAAAGGTTGTTCCAAGAGTTGTT
415046 CCAAAGGTTGCTT-CAAGAGTT-TT
1 CCAAAGGTTG-TTCCAAGAGTTGTT
* *
415069 GCCAAAGGTTGTT-CTAGAAGTTGTG
1 -CCAAAGGTTGTTCCAAG-AGTTGTT
* * *
415094 CCAAAGTTTGTTCCAACAATTGTT
1 CCAAAGGTTGTTCCAAGAGTTGTT
* * *
415118 CCAAAGGTTGTCCCAAGAGTTATG
1 CCAAAGGTTGTTCCAAGAGTTGTT
415142 CCAAAG
1 CCAAAG
415148 TACTAGGAGC
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
23 7 0.08
24 72 0.86
25 5 0.06
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (24 bp):
CCAAAGGTTGTTCCAAGAGTTGTT
Found at i:416705 original size:28 final size:29
Alignment explanation
Indices: 416660--416714 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
416650 CGATGATTAG
416660 AAAAAAAATCGGGATTGGAGTATCCCCTC
1 AAAAAAAATCGGGATTGGAGTATCCCCTC
* *
416689 AAAAATAA-CGGGGTTGGAGTATCCCC
1 AAAAAAAATCGGGATTGGAGTATCCCC
416715 AATTATGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (29 bp):
AAAAAAAATCGGGATTGGAGTATCCCCTC
Found at i:416804 original size:28 final size:28
Alignment explanation
Indices: 416748--416824 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
416738 GGAATAAAGC
*** **
416748 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
416776 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
416804 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
416825 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:416811 original size:107 final size:108
Alignment explanation
Indices: 416669--416873 Score: 252
Period size: 107 Copynumber: 1.9 Consensus size: 108
416659 GAAAAAAAAT
* *
416669 CGGGATTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATTAAT-A
1 CGGGATTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATTAATGA
* * *
416733 TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAA
66 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAGGTAA
* * * * * * **
416776 CGGGGTTGGAGTATCCCC-GATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTG
1 CGGGATTGGAGTATCCCCTCA-AAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATTAATG
* *
416840 TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
65 ATTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
416874 GATTATGGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
106 1 0.01
107 51 0.63
108 29 0.36
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (108 bp):
CGGGATTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATTAATGA
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAGGTAA
Found at i:416877 original size:52 final size:51
Alignment explanation
Indices: 416812--416974 Score: 202
Period size: 51 Copynumber: 3.2 Consensus size: 51
416802 AACGAGGTTG
* * *
416812 GAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGGAGTTA
* * *
416864 GAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTA
* * * * *
416915 GAGTATCCCCGATTAAGAGAAATTGATGTTTTGGAAATGAAACCGG-GATTA
1 GAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGAG-TTA
416966 GAGTATCCC
1 GAGTATCCC
416975 TTCGGAAATA
Statistics
Matches: 96, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
50 1 0.01
51 71 0.74
52 24 0.25
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTA
Found at i:417004 original size:79 final size:79
Alignment explanation
Indices: 416915--417085 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
416905 ATCGGAGTTA
** * * * *
416915 GAGTATCCCCGATTAAGAGAAATTGATGTTTT-GGAAATGAAA-CCGGGATTAGAGTATCCCTTC
1 GAGTATCCCCGATTAAGAGAAATCAATATTTTAAG-AAT-AAAGCAGGGATTAGAGTATCCCCTC
*
416978 GGAAATAACGGGGTTG
64 GAAAATAACGGGGTTG
** * *
416994 GAGTATCCCCGATTATTAGAAATCAATATTTTAAGAATAAAGCAGGGGTTGGAGTATCCCCTCGA
1 GAGTATCCCCGATTAAGAGAAATCAATATTTTAAGAATAAAGCAGGGATTAGAGTATCCCCTCGA
417059 AAATAACGGGGTTG
66 AAATAACGGGGTTG
417073 GAGTATCCCCGAT
1 GAGTATCCCCGAT
417086 GATTAACGGG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 3 0.04
79 75 0.95
80 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (79 bp):
GAGTATCCCCGATTAAGAGAAATCAATATTTTAAGAATAAAGCAGGGATTAGAGTATCCCCTCGA
AAATAACGGGGTTG
Found at i:417100 original size:27 final size:27
Alignment explanation
Indices: 417038--417115 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
417028 GAATAAAGCA
*
417038 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATGAATAAC
*
417066 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
417093 GGGGTTGGAGTATCCCCGATGAA
1 GGGGTTGGAGTATCCCCGATGAA
417116 AAAATTGGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.07
27 30 0.65
28 13 0.28
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.23
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:419485 original size:34 final size:33
Alignment explanation
Indices: 419442--419505 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
419432 TTCCTAGATG
*
419442 TATCGATACAAAGAATAGATGTATCGATACAATC
1 TATCGATACAAAGAA-AAATGTATCGATACAATC
*
419476 TATCGATACACAGAAAAATGTATCGATACA
1 TATCGATACAAAGAAAAATGTATCGATACA
419506 TTTCCTTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (33 bp):
TATCGATACAAAGAAAAATGTATCGATACAATC
Found at i:419565 original size:19 final size:19
Alignment explanation
Indices: 419537--419601 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
419527 AGCGATACAT
*
419537 TGTATTGATACAAAACTTA
1 TGTATCGATACAAAACTTA
419556 TGTATCGATAC---A-TTA
1 TGTATCGATACAAAACTTA
*
419571 --TATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
419588 TGTATCGATACAAA
1 TGTATCGATACAAA
419602 TTATTGGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 9 0.24
15 3 0.08
16 2 0.05
17 3 0.08
19 21 0.55
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:419579 original size:32 final size:32
Alignment explanation
Indices: 419529--419599 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
419519 AGCTTCCTAG
* *
419529 CGATACATTGTATTGATACAAAACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
*
419561 CGATACATTATATCGATACAACACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
419593 CGATACA
1 CGATACA
419600 AATTATTGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:419663 original size:21 final size:22
Alignment explanation
Indices: 419637--419694 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
419627 GTTGGGACCT
* *
419637 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
419658 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
419679 TGTATCGATACATTTG
1 TGTATCGATACATTTG
419695 GATAAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:419728 original size:7 final size:7
Alignment explanation
Indices: 419705--419744 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
419695 GATAAAAATG
419705 TGATTTT
1 TGATTTT
419712 T--TTTT
1 TGATTTT
419717 T-ATTTT
1 TGATTTT
419723 TGATTTT
1 TGATTTT
419730 TGATTTT
1 TGATTTT
419737 TGATTTT
1 TGATTTT
419744 T
1 T
419745 TTTTCAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.16
6 5 0.16
7 21 0.68
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (7 bp):
TGATTTT
Found at i:422733 original size:14 final size:14
Alignment explanation
Indices: 422714--422757 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
422704 TCATTGCTAA
*
422714 AGGTATTTTGGCAG
1 AGGTATTTTGGCAC
422728 AGGTATCTTTGGCAC
1 AGGTAT-TTTGGCAC
* *
422743 AGTTATTATGGCAC
1 AGGTATTTTGGCAC
422757 A
1 A
422758 AGTACTATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (14 bp):
AGGTATTTTGGCAC
Found at i:422848 original size:14 final size:15
Alignment explanation
Indices: 422829--422857 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
422819 ACTTCTGTTG
422829 TAAGTA-TTTTGGCA
1 TAAGTAGTTTTGGCA
422843 TAAGTAGTTTTGGCA
1 TAAGTAGTTTTGGCA
422858 ACAACACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (15 bp):
TAAGTAGTTTTGGCA
Found at i:425607 original size:21 final size:21
Alignment explanation
Indices: 425581--425620 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
425571 TAAAATAATA
*
425581 TTTATTTATTATTTTATTTAT
1 TTTATTCATTATTTTATTTAT
*
425602 TTTATTCATTTTTTTATTT
1 TTTATTCATTATTTTATTT
425621 TTGAAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTCATTATTTTATTTAT
Found at i:426489 original size:18 final size:18
Alignment explanation
Indices: 426466--426520 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 18
426456 AGCTTGTTTT
426466 TTTTTTTATTTTCTCTTC
1 TTTTTTTATTTTCTCTTC
*
426484 TTTTTTTAATTT-TCTT-
1 TTTTTTTATTTTCTCTTC
*
426500 TTTCTTT-TTTTCTC-TC
1 TTTTTTTATTTTCTCTTC
426516 TTTTT
1 TTTTT
426521 CTTTCTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 4 0.13
16 12 0.39
17 4 0.13
18 11 0.35
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTATTTTCTCTTC
Found at i:426489 original size:19 final size:20
Alignment explanation
Indices: 426465--426510 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
426455 TAGCTTGTTT
*
426465 TTTTTTTTATTTTC-TCTTC
1 TTTTTTTAATTTTCTTCTTC
*
426484 TTTTTTTAATTTTCTTTTTC
1 TTTTTTTAATTTTCTTCTTC
426504 TTTTTTT
1 TTTTTTT
426511 CTCTCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTTTAATTTTCTTCTTC
Found at i:431806 original size:19 final size:21
Alignment explanation
Indices: 431760--431813 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
431750 TTTCAATTAT
431760 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACAAATAGTAA
* *
431781 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAATAGTAA
431800 TTGTATCGATACAA
1 TTGTATCGATACAA
431814 TGTATCGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAATAGTAA
Found at i:431882 original size:13 final size:13
Alignment explanation
Indices: 431864--431903 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
431854 CATTATTCAA
431864 TATATCGATACAT
1 TATATCGATACAT
431877 TATATCGATACAT
1 TATATCGATACAT
431890 TATATCGATACAT
1 TATATCGATACAT
431903 T
1 T
431904 GATCTTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (13 bp):
TATATCGATACAT
Found at i:431916 original size:33 final size:33
Alignment explanation
Indices: 431848--431922 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
431838 AGAAAATGTG
*
431848 TCGATACATTATTCAATATATCGATACATTATA
1 TCGATACATTATTCAATACATCGATACATTATA
* * * *
431881 TCGATACATTATATCGATACATTGAT-CTTTGTA
1 TCGATACATTAT-TCAATACATCGATACATTATA
431914 TCGATACAT
1 TCGATACAT
431923 CTGGGAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 26 0.72
34 10 0.28
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (33 bp):
TCGATACATTATTCAATACATCGATACATTATA
Found at i:444209 original size:13 final size:12
Alignment explanation
Indices: 444173--444246 Score: 79
Period size: 11 Copynumber: 6.6 Consensus size: 12
444163 GCGTCCTCCG
444173 CAAAAAAAACAA
1 CAAAAAAAACAA
*
444185 C-AAAACAA-AA
1 CAAAAAAAACAA
*
444195 -AAAAAAGAC-A
1 CAAAAAAAACAA
444205 CAAAAAAAACAA
1 CAAAAAAAACAA
444217 CAAACAAAAAC-A
1 CAAA-AAAAACAA
444229 -AAAAAAAACAA
1 CAAAAAAAACAA
444240 CAAAAAA
1 CAAAAAA
444247 GGGTTCGGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
10 14 0.27
11 18 0.35
12 13 0.25
13 6 0.12
ACGTcount: A:0.82, C:0.16, G:0.01, T:0.00
Consensus pattern (12 bp):
CAAAAAAAACAA
Found at i:444212 original size:32 final size:32
Alignment explanation
Indices: 444173--444246 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
444163 GCGTCCTCCG
* *
444173 CAAAAAAAACAACAAAACAAAAA-AAAAAGACA
1 CAAAAAAAACAAC-AAACAAAAACAAAAAAAAA
444205 CAAAAAAAACAACAAACAAAAACAAAAAAAAA
1 CAAAAAAAACAACAAACAAAAACAAAAAAAAA
444237 CAACAAAAAA
1 CAA-AAAAAA
444247 GGGTTCGGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 9 0.24
32 23 0.61
33 6 0.16
ACGTcount: A:0.82, C:0.16, G:0.01, T:0.00
Consensus pattern (32 bp):
CAAAAAAAACAACAAACAAAAACAAAAAAAAA
Found at i:445632 original size:49 final size:49
Alignment explanation
Indices: 445563--446275 Score: 518
Period size: 49 Copynumber: 15.0 Consensus size: 49
445553 ACCTTTCTTT
* * * * *
445563 ATCTTTAAAACCAATGTCACTGGCCTTGAATCAGCAAATTAGCACCTTC
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
* * ***
445612 ATCTTTAAGACCAATGTCACTGGCCTTGAATCAGTGCATTGG------C
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
* *
445655 A-C---AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTC
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
* * * * *
445700 ATCTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTAGCACCTTT
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
* * * *
445749 ATCTTTAAGACCAATGTCACTGGCCTTGAATCAGTACATTGG------C
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
* * * *
445792 A-C---AAGCCCAATATCGTTGACCTTGAATCAACATATTGGCACCTTC
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
* * * * * *
445837 ATCTTTAAGTCCGATATCGCTGCCCTTGAAACAACATATCGGCACCTTC
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
* * * * *
445886 ATCTTTAAGTCCGATATCGATGGTCTTGAATCAGCATATTGGCACCTTT
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
** * *
445935 ATCTTTAAGACCAAGGTCGCCGGCCTTGAATCAGCACATTGG------C
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
445978 A----TAAG-CTCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-
1 ATCTTTAAGAC-CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
* * * *
446022 GTTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTC
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
* *
446071 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCATC
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TC
* * * * *
446123 ATCTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTC
1 ATCTTTAAGA-CCAATATCGCTGGCCTTGAATCAGCATATTGGCA--CCT-TC
* * * * * * * * *
446176 ATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACATTCTTTAC
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA--CCTT-C
* * * * *
446228 ATCTTTAAGCCCAATATCACTGGTCTTGAATCAGCGTATTGGTACCTT
1 ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
446276 TATCACTCTT
Statistics
Matches: 525, Mismatches: 99, Indels: 79
0.75 0.14 0.11
Matches are distributed among these distances:
38 1 0.00
39 88 0.17
42 2 0.00
43 4 0.01
45 4 0.01
46 2 0.00
48 39 0.07
49 262 0.50
50 4 0.01
51 1 0.00
52 77 0.15
53 39 0.07
54 1 0.00
55 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
ATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
Found at i:445809 original size:137 final size:137
Alignment explanation
Indices: 445582--445930 Score: 538
Period size: 137 Copynumber: 2.5 Consensus size: 137
445572 ACCAATGTCA
* *
445582 CTGGCCTTGAATCAGCAAATTAGCACCTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGT
1 CTGGCCTTGAATCAACATATTAGCACCTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGT
* * *
445647 GCATTGGCACAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
66 ACATTGGCACAAGCCCAATATCGTTGACCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCC
445712 GATATCG
131 GATATCG
*
445719 CTGGCCTTGAATCAACATATTAGCACCTTTATCTTTAAGACCAATGTCACTGGCCTTGAATCAGT
1 CTGGCCTTGAATCAACATATTAGCACCTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGT
445784 ACATTGGCACAAGCCCAATATCGTTGACCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCC
66 ACATTGGCACAAGCCCAATATCGTTGACCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCC
445849 GATATCG
131 GATATCG
* * ** * * * *
445856 CTGCCCTTGAAACAACATATCGGCACCTTCATCTTTAAGTCCGATATCGA-TGGTCTTGAATCAG
1 CTGGCCTTGAATCAACATATTAGCACCTTCATCTTTAAGACCAATGTC-ACTGGCCTTGAATCAG
* *
445920 CATATTGGCAC
65 TACATTGGCAC
445931 CTTTATCTTT
Statistics
Matches: 194, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
137 193 0.99
138 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (137 bp):
CTGGCCTTGAATCAACATATTAGCACCTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGT
ACATTGGCACAAGCCCAATATCGTTGACCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCC
GATATCG
Found at i:445883 original size:186 final size:185
Alignment explanation
Indices: 445661--446167 Score: 717
Period size: 186 Copynumber: 2.7 Consensus size: 185
445651 TGGCACAAGC
*
445661 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATATCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATATCGCTGGCCT
* * * *
445726 TGAATCAACATATTAGCACCTTTATCTTTAAGACCAATGTCACTGGCCTTGAATCAGTACATTGG
66 TGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG
* *
445791 CACAAGCCCAATATCGTTGACCTTGAATCAACATATTGGCACCTTCATCTTTAAGT
131 CACAAGCCCAATATCGCTGACCTTGAATCAACATATTGGCACCTT-ATCTTTAAGA
* * * * * * *
445847 CCGATATCGCTGCCCTTGAAACAACATATCGGCACCTTCATCTTTAAGTCCGATATCGATGGTCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATATCGCTGGCCT
* *
445912 TGAATCAGCATATTGGCACCTTTATCTTTAAGACCAAGGTCGCCGGCCTTGAATCAGCACATTGG
66 TGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG
* * * * * *
445977 CATAAGCTCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTTTTTAAGA
131 CACAAGCCCAATATCGCTGACCTTGAATCAACATATTGGCACCTTATCTTTAAGA
* * *
446032 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATATCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATATCGCTGGCCT
* * *
446097 TGAATCAGCATATTGGCGCCTTCATCATCTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACA
66 TGAATCAGCATATTGGCACCTT--T-ATCTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCACA
446162 TTGGCA
127 TTGGCA
446168 TTCTTCTCAT
Statistics
Matches: 280, Mismatches: 37, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
185 83 0.30
186 156 0.56
187 1 0.00
188 9 0.03
189 31 0.11
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (185 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATATCGCTGGCCT
TGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG
CACAAGCCCAATATCGCTGACCTTGAATCAACATATTGGCACCTTATCTTTAAGA
Found at i:446096 original size:136 final size:137
Alignment explanation
Indices: 445850--446113 Score: 361
Period size: 136 Copynumber: 1.9 Consensus size: 137
445840 TTTAAGTCCG
* * *
445850 ATATCGCTGCCCTTGAAACAACATATCGGCACCTTCATCTTTAAGTCCGATATCGATGGTCTTGA
1 ATATCGCTGCCCTTGAAACAACATATCGGCACCTTCATCTTTAAGACCAATATCGATGGCCTTGA
*
445915 ATCAGCATATTGGCACCTTTATCTTTAAGACCAAGGTCGCCGGCCTTGAATCAGCACATTGGCAT
66 ATCAGCATATTGGCACCTTTATCTTTAAGACCAAGATCGCCGGCCTTGAATCAGCACATTGGCAT
445980 AAGCTCA
131 AAGCTCA
* * * * * * * *
445987 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTTTTTAAGACCAATGTCGCTGGCCTTGA
1 ATATCGCTGCCCTTGAAACAACATATCGGCACCTTCATCTTTAAGACCAATATCGATGGCCTTGA
* * * *
446051 ATCAGCATATTGGCA-CTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
66 ATCAGCATATTGGCACCTTT-ATCTTTAAGACCAAGATCGCCGGCCTTGAATCAGCACATTGGC
446114 GCCTTCATCA
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
135 4 0.04
136 75 0.68
137 31 0.28
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (137 bp):
ATATCGCTGCCCTTGAAACAACATATCGGCACCTTCATCTTTAAGACCAATATCGATGGCCTTGA
ATCAGCATATTGGCACCTTTATCTTTAAGACCAAGATCGCCGGCCTTGAATCAGCACATTGGCAT
AAGCTCA
Found at i:446167 original size:102 final size:99
Alignment explanation
Indices: 445985--446216 Score: 297
Period size: 105 Copynumber: 2.3 Consensus size: 99
445975 GGCATAAGCT
* *
445985 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTTTTTAAGACCAATGTCGCTGGCCTTG
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATTTTTAAAACCAATGTCGCTGGCCTTG
* *
446050 AATCAGCATATTGGCA-CTT-TCATCTTTAAGTC
66 AATCAGCACATTGGCATCTTCTCATCTTCAAGTC
* *
446082 CAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCATCATCTTTAAAACCCAATGTCGTTGG
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-AT--T-TTTAAAA-CCAATGTCGCTGG
446147 CCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTC
61 CCTTGAATCAGCACATTGGCA-TCTTCTCATCTTCAAGTC
* * * * *
446187 TAATGTCGCTGACCGTGAATCAGCACATTG
1 CAATATCGCTGGCCTTGAATCAGCATATTG
446217 ACATTCTTTA
Statistics
Matches: 116, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
97 36 0.31
98 1 0.01
100 1 0.01
101 6 0.05
102 32 0.28
104 3 0.03
105 37 0.32
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (99 bp):
CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATTTTTAAAACCAATGTCGCTGGCCTTG
AATCAGCACATTGGCATCTTCTCATCTTCAAGTC
Found at i:446212 original size:52 final size:51
Alignment explanation
Indices: 445985--446262 Score: 237
Period size: 52 Copynumber: 5.5 Consensus size: 51
445975 GGCATAAGCT
* * * * *
445985 CAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTGT--T-TTTAAGAC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT-TCATCTTAAAGTC
* *
446033 CAATGTCGCTGGCCTTGAATCAGCATATTGGCA--CTTTCATCTTTAAGTC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTTCATCTTAAAGTC
* * * * **
446082 CAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTC-ATCATCTTTAAAACC
1 CAATGTCGCTGGCCTTGAATCAGCACATT-G-GCATTCTTTCATC-TTAAAGTC
* *
446135 CAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT-TCATCTTAAAGTC
* * * * * *
446187 TAATGTCGCTGACCGTGAATCAGCACATTGACATTCTTTACATCTTTAAGCC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTT-CATCTTAAAGTC
* * *
446239 CAATATCACTGGTCTTGAATCAGC
1 CAATGTCGCTGGCCTTGAATCAGC
446263 GTATTGGTAC
Statistics
Matches: 190, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 33 0.17
49 35 0.18
50 1 0.01
51 8 0.04
52 72 0.38
53 37 0.19
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (51 bp):
CAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTTCATCTTAAAGTC
Found at i:446231 original size:105 final size:101
Alignment explanation
Indices: 446032--446262 Score: 266
Period size: 105 Copynumber: 2.2 Consensus size: 101
446022 GTTTTTAAGA
* * * *
446032 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATATCGCTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTCAAGTCCAATATCGCTGACCG
* *
446097 TGAATCAGCATATTGGCGCCTTCATCATCTTTAAAAC
66 TGAATCAGCACATTGACGCCTTCATCATCTTT-AAAC
* * *
446134 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CTT-TCATCTTCAAGTCCAATATCGCTGA
** * *
446199 CCGTGAATCAGCACATTGACATTCTTTA-CATCTTTAAGC
63 CCGTGAATCAGCACATTGAC-GCCTTCATCATCTTTAAAC
* * *
446238 CCAATATCACTGGTCTTGAATCAGC
1 CCAATGTCGCTGGCCTTGAATCAGC
446263 GTATTGGTAC
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
102 32 0.30
104 27 0.25
105 45 0.42
106 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (101 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTCAAGTCCAATATCGCTGACCG
TGAATCAGCACATTGACGCCTTCATCATCTTTAAAC
Found at i:446937 original size:19 final size:21
Alignment explanation
Indices: 446891--446941 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
446881 TTTCAATAAT
446891 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACAAATAGTAA
* *
446912 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAATAGTAA
446931 TTGTATCGATA
1 TTGTATCGATA
446942 TAATGTATCG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 13 0.48
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (21 bp):
TTGTATCGATACAAATAGTAA
Found at i:447276 original size:19 final size:19
Alignment explanation
Indices: 447237--447320 Score: 108
Period size: 19 Copynumber: 4.7 Consensus size: 19
447227 TTTCAACGAT
447237 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
447257 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
447276 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
447290 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
447308 TTGTATCGATACA
1 TTGTATCGATACA
447321 ATGTAAGCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 13
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 2 0.03
19 29 0.50
20 14 0.24
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:447295 original size:13 final size:13
Alignment explanation
Indices: 447277--447301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
447267 ACATAAGTGT
447277 TGTATCGATACAA
1 TGTATCGATACAA
447290 TGTATCGATACA
1 TGTATCGATACA
447302 TAAGTTTTGT
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:447299 original size:32 final size:32
Alignment explanation
Indices: 447258--447325 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
447248 CATAAAGTGT
447258 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
447290 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
447322 TGTA
1 TGTA
447326 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:461230 original size:18 final size:17
Alignment explanation
Indices: 461209--461298 Score: 85
Period size: 17 Copynumber: 5.2 Consensus size: 17
461199 GTCCTCCACA
461209 AAAAAAAACCAAATAAAC
1 AAAAAAAACCAAA-AAAC
*
461227 AAAAAAATACAAAAAAAC
1 AAAAAAA-ACCAAAAAAC
*
461245 AAAAAAAAACAAAAAA-
1 AAAAAAAACCAAAAAAC
*
461261 AAACAAAAAACAAAAAA-
1 AAA-AAAAACCAAAAAAC
* * *
461278 AATAAAGACAAAAAAAC
1 AAAAAAAACCAAAAAAC
461295 AAAA
1 AAAA
461299 CAACGACAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
16 13 0.21
17 25 0.41
18 18 0.30
19 5 0.08
ACGTcount: A:0.84, C:0.11, G:0.01, T:0.03
Consensus pattern (17 bp):
AAAAAAAACCAAAAAAC
Found at i:461240 original size:10 final size:10
Alignment explanation
Indices: 461206--461298 Score: 95
Period size: 10 Copynumber: 9.6 Consensus size: 10
461196 GGCGTCCTCC
461206 ACAAAAAAAA
1 ACAAAAAAAA
* *
461216 AC-CAAATAA
1 ACAAAAAAAA
*
461225 ACAAAAAAAT
1 ACAAAAAAAA
461235 AC--AAAAAA
1 ACAAAAAAAA
461243 ACAAAAAAAA
1 ACAAAAAAAA
461253 ACAAAAAAAA
1 ACAAAAAAAA
461263 ACAAAAAACAA
1 ACAAAAAA-AA
*
461274 A-AAAAATAA
1 ACAAAAAAAA
* *
461283 AGACAAAAAA
1 ACAAAAAAAA
461293 ACAAAA
1 ACAAAA
461299 CAACGACAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
8 7 0.10
9 10 0.15
10 47 0.70
11 3 0.04
ACGTcount: A:0.84, C:0.12, G:0.01, T:0.03
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:461241 original size:28 final size:29
Alignment explanation
Indices: 461210--461298 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 29
461200 TCCTCCACAA
* * *
461210 AAAAAAACCAAATAAACAAAAAAATACAA
1 AAAAAAACAAAAAAAACAAAAAAAAACAA
*
461239 AAAAACA-AAAAAAAACAAAAAAAAACAA
1 AAAAAAACAAAAAAAACAAAAAAAAACAA
* *
461267 AAAACAAA-AAAAATAAAGACAAAAAAACAA
1 AAAA-AAACAAAAA-AAACAAAAAAAAACAA
461297 AA
1 AA
461299 CAACGACAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 22 0.43
29 13 0.25
30 16 0.31
ACGTcount: A:0.84, C:0.11, G:0.01, T:0.03
Consensus pattern (29 bp):
AAAAAAACAAAAAAAACAAAAAAAAACAA
Found at i:461298 original size:19 final size:18
Alignment explanation
Indices: 461210--461310 Score: 88
Period size: 18 Copynumber: 5.8 Consensus size: 18
461200 TCCTCCACAA
*
461210 AAAAAAAC-CAAATAAAC
1 AAAAAAACACAAAAAAAC
*
461227 AAAAAAATACAAAAAAAC
1 AAAAAAACACAAAAAAAC
*
461245 AAAAAAAAACAAAAAAA-
1 AAAAAAACACAAAAAAAC
461262 AACAAAAA-AC--AAAAA-
1 AA-AAAAACACAAAAAAAC
* *
461277 AAATAAAGACAAAAAAAC
1 AAAAAAACACAAAAAAAC
*
461295 AAAACAACGACAAAAA
1 AAAAAAAC-ACAAAAA
461311 GGGTCCGGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
14 4 0.06
15 9 0.13
17 16 0.23
18 34 0.49
19 7 0.10
ACGTcount: A:0.82, C:0.13, G:0.02, T:0.03
Consensus pattern (18 bp):
AAAAAAACACAAAAAAAC
Found at i:461310 original size:1 final size:1
Alignment explanation
Indices: 461208--461298 Score: 56
Period size: 1 Copynumber: 91.0 Consensus size: 1
461198 CGTCCTCCAC
** * * * * * * * *
461208 AAAAAAAAACCAAATAAACAAAAAAATACAAAAAAACAAAAAAAAACAAAAAAAAACAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
461273 AAAAAAATAAAGACAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
461299 CAACGACAAA
Statistics
Matches: 64, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.85, C:0.11, G:0.01, T:0.03
Consensus pattern (1 bp):
A
Found at i:462870 original size:30 final size:30
Alignment explanation
Indices: 462748--462890 Score: 134
Period size: 30 Copynumber: 4.8 Consensus size: 30
462738 TCACCCTTCA
* * *
462748 AAAGCCCATAAGTCAGTGGCATC-TTTGTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTTTC
*
462777 AAAGCCCACAGGTCAGTGGCAACC----TTC
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTTTC
* * * **
462804 AAAGCCCACAAATCAATGGCACCCTTCTCCC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTTTC
462835 AAAGCCCACAAGTCAGTGGCACCTTTTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTTTC
*
462865 AAAGCCCACAAATCAGTGGCAACCTT
1 AAAGCCCACAAGTCAGTGGC-ACCTT
462891 CAAAAGCCCA
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.01
27 21 0.23
29 18 0.20
30 27 0.29
31 25 0.27
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTTTC
Found at i:462936 original size:33 final size:32
Alignment explanation
Indices: 462894--462983 Score: 110
Period size: 32 Copynumber: 2.8 Consensus size: 32
462884 CAACCTTCAA
* *
462894 AAGCCCACAAGTCTGTGGC-CTCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCGC-C-TTTTCCTTTT
*
462927 AAGCCCACAACTCCGTGGCGCCTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCGCCTTTTCCTTTT
* *
462959 AAGTCCACAACTCCGTGGCACCTTT
1 AAGCCCACAACTCCGTGGCGCCTTT
462984 AAAACCAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
32 32 0.63
33 18 0.35
34 1 0.02
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (32 bp):
AAGCCCACAACTCCGTGGCGCCTTTTCCTTTT
Found at i:462936 original size:61 final size:61
Alignment explanation
Indices: 462777--462920 Score: 169
Period size: 58 Copynumber: 2.5 Consensus size: 61
462767 CATCTTTGTC
* * * *
462777 AAAGCCCACAGGTCAGTGGCAACC----TTCAAAGCCCACAAATCAATGGCACCCTTCTCCC
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCTCCA
462835 AAAGCCCACAAGTCAGTGGCACCTTTTTTCAAAGCCCACAAATCAGTGGCAACC-T-T-CA
1 AAAGCCCACAAGTCAGTGGCACCTTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCTCCA
*
462893 AAAGCCCACAAGTCTGTGGC-CTCTTTTT
1 AAAGCCCACAAGTCAGTGGCAC-CTTTTT
462921 CCTTTTAAGC
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
57 4 0.05
58 45 0.59
59 1 0.01
60 1 0.01
61 25 0.33
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (61 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCTCCA
Found at i:463174 original size:91 final size:92
Alignment explanation
Indices: 462987--463550 Score: 359
Period size: 91 Copynumber: 5.9 Consensus size: 92
462977 CACCTTTAAA
*
462987 ACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTTAAGACCAATGTTG-TC
1 ACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCT-
*
463047 GGCCTTGAATCAGCACGTTGGCACCTTTAAG
65 GGCCTTGAATCAGCACATTGGCA-C--TAAG
* * *
463078 TCCAATATCGCTAGCCTTGAATCAGTATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTG
1 ACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTG
*
463143 GCCTTAAATCAGCACATTGGCAC-AAG
66 GCCTTGAATCAGCACATTGGCACTAAG
* ** * ** *
463169 ACCAATGTCGCTGGCCAAGAATCAACATATTGGCACCTTCATCATCTTTAAGTCCAATGTCGCTG
1 ACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTG
* *
463234 GCCTTGAATCTGCATATTGGCACCCTCATCTTTTAAG
66 GCCTTGAATCAGCACATTGG------CA-C---TAAG
* * * * *
463271 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-TAAGTC--T-AG-----TATCGCT
1 ACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCA-TCTTTAAGACCAATGTCGCT
*
463326 GGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAG
65 GGCCTTGAATCAGCACATT---G-----G-CA-C--TAAG
* * * ** * *
463366 TCCAATATCGTTGGCCTTGAATCAGAATATTGGCGTCTTTGTCATCTTTAAGTCCAATGTCGCTC
1 ACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTG
*
463431 GCCTTGAATCAGCACATTGCCACCTTCATCTTTAAG
66 GCCTTGAATCAGCACATTG------GCA-C--TAAG
* * * * * * *
463467 TCCAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATTTTTAAAACAAATGTCGCTG
1 ACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTG
*
463532 GCCATGAATCAGCACATTG
66 GCCTTGAATCAGCACATTG
463551 TCATTTTTTG
Statistics
Matches: 383, Mismatches: 54, Indels: 62
0.77 0.11 0.12
Matches are distributed among these distances:
91 109 0.28
92 3 0.01
93 24 0.06
94 1 0.00
95 74 0.19
96 11 0.03
97 4 0.01
98 4 0.01
99 3 0.01
100 2 0.01
101 88 0.23
102 37 0.10
104 23 0.06
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (92 bp):
ACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCACTAAG
Found at i:463192 original size:39 final size:39
Alignment explanation
Indices: 463127--463204 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
463117 TGTCATCTTT
* *
463127 AAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCAC
1 AAGACCAATGTCGCTGGCCTAAAATCAACACATTGGCAC
*
463166 AAGACCAATGTCGCTGGCC-AAGAATCAACATATTGGCAC
1 AAGACCAATGTCGCTGGCCTAA-AATCAACACATTGGCAC
463205 CTTCATCATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 34 0.97
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (39 bp):
AAGACCAATGTCGCTGGCCTAAAATCAACACATTGGCAC
Found at i:463250 original size:52 final size:52
Alignment explanation
Indices: 463170--463550 Score: 380
Period size: 52 Copynumber: 7.6 Consensus size: 52
463160 TGGCACAAGA
** * *
463170 CCAATGTCGCTGGCCAAGAATCAACATATTGGCACCTTCATCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGT
* *
463222 CCAATGTCGCTGGCCTTGAATCTGCATATTGGCACC--C-TCATCTTTTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATC-TTTAAGT
* *
463272 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--TAAGTC--T-AGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCA-TCTTTAAGT
* *
463320 ---A--TCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGT
* * * ** *
463367 CCAATATCGTTGGCCTTGAATCAGAATATTGGCGTCTTTGTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGT
* * *
463419 CCAATGTCGCTCGCCTTGAATCAGCACATTGCCACC-T--TCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGT
* * * * **
463468 CCAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATTTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGT
* * *
463520 CAAATGTCGCTGGCCATGAATCAGCACATTG
1 CCAATGTCGCTGGCCTTGAATCAGCATATTG
463551 TCATTTTTTG
Statistics
Matches: 275, Mismatches: 37, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
43 30 0.11
44 2 0.01
45 3 0.01
46 1 0.00
47 3 0.01
48 2 0.01
49 48 0.17
50 43 0.16
51 3 0.01
52 140 0.51
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (52 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGT
Found at i:463485 original size:101 final size:103
Alignment explanation
Indices: 463307--463550 Score: 312
Period size: 101 Copynumber: 2.4 Consensus size: 103
463297 ACATTGGCAC
* * * * * *
463307 CTTTAAGTCTAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCAAATGTCGCTGGCCTTGAATCAGCACATTGCCACC-TTGTCATCTTTAAGTCCAAT
* * *
463372 ATCGTTGGCCTTGAATCAGAATATTGGCGTCTTTGTCAT
65 ATCGCTGGCCTTGAATCAGAATATTGGCGCCTTCGTCAT
* * *
463411 CTTTAAGTCCAATGTCGCTCGCCTTGAATCAGCACATTGCCACC-T-TCATCTTTAAGTCCAGTA
1 CTTTAAGTCAAATGTCGCTGGCCTTGAATCAGCACATTGCCACCTTGTCATCTTTAAGTCCAATA
*
463474 TCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
66 TCGCTGGCCTTGAATCAGAATATTGGCGCCTTCGTCAT
* ** *
463512 TTTTAAAACAAATGTCGCTGGCCATGAATCAGCACATTG
1 CTTTAAGTCAAATGTCGCTGGCCTTGAATCAGCACATTG
463551 TCATTTTTTG
Statistics
Matches: 122, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
101 84 0.69
102 1 0.01
104 37 0.30
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (103 bp):
CTTTAAGTCAAATGTCGCTGGCCTTGAATCAGCACATTGCCACCTTGTCATCTTTAAGTCCAATA
TCGCTGGCCTTGAATCAGAATATTGGCGCCTTCGTCAT
Found at i:463540 original size:153 final size:145
Alignment explanation
Indices: 463071--463543 Score: 499
Period size: 145 Copynumber: 3.2 Consensus size: 145
463061 ACGTTGGCAC
* * * * *
463071 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGTATATTGGCACCTTTGTCATC-TTTAAGACCAA
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGAATATTGGCACC---CTCATCTTTTAAGCCCAA
* * * * * * ** *
463135 TGTCGCTGGCCTTAAATCAGCACATTGGCA-C---AAGACCAATGTCGCTGGCCAAGAATCAACA
63 TGTCGCTCGCCTTGAATCAGCACATTGCCACCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCA
* *
463196 TATTGGCACCTTCATCAT
128 TATTGGCGCCTTCGTCAT
* *
463214 CTTTAAGTCCAATGTCGCTGGCCTTGAATCTGCATATTGGCACCCTCATCTTTTAAGCCCAATGT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGAATATTGGCACCCTCATCTTTTAAGCCCAATGT
* * *
463279 CGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCTAGTATCGCTGGCCTTGAATCAGCATAT
66 CGCTCGCCTTGAATCAGCACATTGCCACCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATAT
*
463344 TGGCGCCTTTGTCAT
131 TGGCGCCTTCGTCAT
* * * ** *
463359 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGAATATTGGCGTCTTTGTCATC-TTTAAGTCCAA
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGAATATTGGC-AC--CCTCATCTTTTAAGCCCAA
463423 TGTCGCTCGCCTTGAATCAGCACATTGCCACCTTCATCTTTAAGTCCAGTATCGCTGGCCTTGAA
63 TGTCGCTCGCCTTGAATCAGCACATTGCCA----C--CTTTAAGTCCAGTATCGCTGGCCTTGAA
463488 TCAGCATATTGGCGCCTTCGTCAT
122 TCAGCATATTGGCGCCTTCGTCAT
* ** * *
463512 TTTTAAAACAAATGTCGCTGGCCATGAATCAG
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAG
463544 CACATTGTCA
Statistics
Matches: 280, Mismatches: 36, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
140 5 0.02
141 39 0.14
142 1 0.00
143 40 0.14
145 75 0.27
146 1 0.00
147 38 0.14
148 5 0.02
151 1 0.00
153 75 0.27
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (145 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGAATATTGGCACCCTCATCTTTTAAGCCCAATGT
CGCTCGCCTTGAATCAGCACATTGCCACCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATAT
TGGCGCCTTCGTCAT
Found at i:463565 original size:153 final size:146
Alignment explanation
Indices: 463071--463582 Score: 541
Period size: 153 Copynumber: 3.5 Consensus size: 146
463061 ACGTTGGCAC
* * * * *
463071 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGTATATTGGCACCTTTGTCATCTTTAAGACCAAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTTG-CATCTTTAAGCCCAAT
* * * * * * ** *
463136 GTCGCTGGCCTTAAATCAGCACATTGGCA-C---AAGACCAATGTCGCTGGCCAAGAATCAACAT
65 GTCGCTCGCCTTGAATCAGCACATTGCCACCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCAT
* *
463197 ATTGGCACCTTCATCAT
130 ATTGGCGCCTTCGTCAT
* **
463214 CTTTAAGTCCAATGTCGCTGGCCTTGAATCTGCATATTGGCA-CCCT-CATCTTTTAAGCCCAAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTTGCATC-TTTAAGCCCAAT
* * *
463277 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCTAGTATCGCTGGCCTTGAATCAGCAT
65 GTCGCTCGCCTTGAATCAGCACATTGCCACCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCAT
*
463342 ATTGGCGCCTTTGTCAT
130 ATTGGCGCCTTCGTCAT
* * * * *
463359 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGAATATTGGCGTCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTTG-CATCTTTAAGCCCAAT
463424 GTCGCTCGCCTTGAATCAGCACATTGCCACCTTCATCTTTAAGTCCAGTATCGCTGGCCTTGAAT
65 GTCGCTCGCCTTGAATCAGCACATTGCCA----C--CTTTAAGTCCAGTATCGCTGGCCTTGAAT
463489 CAGCATATTGGCGCCTTCGTCAT
124 CAGCATATTGGCGCCTTCGTCAT
* ** * * * * * * *
463512 TTTTAAAACAAATGTCGCTGGCCATGAATCAGCACATTGTCATTTTTTGCATCTTCAAGCCTAAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-TCTTTGCATCTTTAAGCCCAAT
*
463577 ATCGCT
65 GTCGCT
463583 AGCCGCATAT
Statistics
Matches: 308, Mismatches: 46, Indels: 20
0.82 0.12 0.05
Matches are distributed among these distances:
140 4 0.01
141 39 0.13
142 3 0.01
143 38 0.12
145 75 0.24
146 2 0.01
147 38 0.12
148 4 0.01
151 1 0.00
153 99 0.32
154 5 0.02
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (146 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTTGCATCTTTAAGCCCAATG
TCGCTCGCCTTGAATCAGCACATTGCCACCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATA
TTGGCGCCTTCGTCAT
Found at i:464342 original size:13 final size:13
Alignment explanation
Indices: 464324--464412 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
464314 CATAAAGTGT
464324 TGTATCGATACAA
1 TGTATCGATACAA
464337 TGTATCGATACATAA
1 TGTATCGATAC--AA
464352 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
464369 TGTATCGATACATAA
1 TGTATCGATAC--AA
464384 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
464401 TGTATCGATACA
1 TGTATCGATACA
464413 TAAGTTTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:464359 original size:32 final size:32
Alignment explanation
Indices: 464304--464436 Score: 248
Period size: 32 Copynumber: 4.1 Consensus size: 32
464294 TTCAACGATT
464304 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
464337 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
464369 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
464401 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
464433 TGTA
1 TGTA
464437 AGCTACTGCC
Statistics
Matches: 99, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 86 0.87
33 13 0.13
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:464361 original size:19 final size:18
Alignment explanation
Indices: 464302--464431 Score: 110
Period size: 19 Copynumber: 7.8 Consensus size: 18
464292 ATTTCAACGA
464302 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
464321 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
464337 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
464353 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
464369 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
464385 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
464401 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
464417 TTTTGTATCGATACA
1 -TTTGTATCGATACA
464432 ATGTAAGCTA
Statistics
Matches: 92, Mismatches: 0, Indels: 38
0.71 0.00 0.29
Matches are distributed among these distances:
13 33 0.36
15 6 0.07
17 6 0.07
19 35 0.38
20 12 0.13
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:464492 original size:13 final size:13
Alignment explanation
Indices: 464474--464498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
464464 ATTACTCAAA
464474 TGTATCGATACAT
1 TGTATCGATACAT
464487 TGTATCGATACA
1 TGTATCGATACA
464499 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:464552 original size:52 final size:52
Alignment explanation
Indices: 464507--464635 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
464497 CACTGATCTT
464507 TGTATCGATACATGCAGGCAAATTTGCCCAGAAGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGAAGTATCGATACACTATAAAA
* *
464559 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGAAGTATCGATACACTATAAAA
464611 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
464636 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGAAGTATCGATACACTATAAAA
Found at i:467306 original size:169 final size:169
Alignment explanation
Indices: 467027--467364 Score: 622
Period size: 169 Copynumber: 2.0 Consensus size: 169
467017 CCTTGTCAGC
467027 ATGCTTCCTCCTTATTAATCTTAATGGCACTCATTTTTTAAAACCAGTTTACAAAAATCATAAGG
1 ATGCTTCCTCCTTATTAATCTTAATGGCACTCATTTTTTAAAACCAGTTTACAAAAATCATAAGG
*
467092 CAATGTTCCGTGTCGATATCCCTCCAGTGCTTGATACGGAATATCCAGTTTTTAAAGTGAAATCC
66 CAATGTTCCGTGTCGATATCCCTCCAGTGCTTGATACGGAATATCCAGTTTTCAAAGTGAAATCC
467157 AGAGGTCACTTTATATCTCTATGTTTCCCATCTCTCCGG
131 AGAGGTCACTTTATATCTCTATGTTTCCCATCTCTCCGG
*
467196 ATGCTTCCTCCTTATTAATCTTAATGGCACTCATTTTTTTAAACCAGTTTACAAAAATCATAAGG
1 ATGCTTCCTCCTTATTAATCTTAATGGCACTCATTTTTTAAAACCAGTTTACAAAAATCATAAGG
* *
467261 CAATGTTCCGTGTCGGTATCCCTCCAGTGCTTGATACGGAATATCCAGTTTTCAAAGTGAAATCG
66 CAATGTTCCGTGTCGATATCCCTCCAGTGCTTGATACGGAATATCCAGTTTTCAAAGTGAAATCC
* *
467326 AGAGGTCACTTTATATTTTTATGTTTCCCATCTCTCCGG
131 AGAGGTCACTTTATATCTCTATGTTTCCCATCTCTCCGG
467365 GGCGTATATG
Statistics
Matches: 163, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
169 163 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (169 bp):
ATGCTTCCTCCTTATTAATCTTAATGGCACTCATTTTTTAAAACCAGTTTACAAAAATCATAAGG
CAATGTTCCGTGTCGATATCCCTCCAGTGCTTGATACGGAATATCCAGTTTTCAAAGTGAAATCC
AGAGGTCACTTTATATCTCTATGTTTCCCATCTCTCCGG
Found at i:470667 original size:13 final size:13
Alignment explanation
Indices: 470649--470707 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
470639 CATAAAGTGT
470649 TGTATCGATACAA
1 TGTATCGATACAA
470662 TGTATCGATAC-A
1 TGTATCGATACAA
470674 T-TA-C--T-CAA
1 TGTATCGATACAA
*
470682 TTGTATCGATACAT
1 -TGTATCGATACAA
470696 TGTATCGATACA
1 TGTATCGATACA
470708 CTGATCTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 2 0.05
9 1 0.03
10 3 0.08
11 3 0.08
12 2 0.05
13 24 0.63
14 2 0.05
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:470691 original size:34 final size:33
Alignment explanation
Indices: 470648--470731 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 33
470638 ACATAAAGTG
*
470648 TTGTATCGATACAATGTATCGATACA-TTACTCAA
1 TTGTATCGATACAATGTATCGATACACTGA-TC-A
* *
470682 TTGTATCGATACATTGTATCGATACACTGATCT
1 TTGTATCGATACAATGTATCGATACACTGATCA
470715 TTGTATCGATAC-ATGTA
1 TTGTATCGATACAATGTA
470732 GGCAAATTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
32 4 0.09
33 12 0.27
34 27 0.60
35 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACAATGTATCGATACACTGATCA
Found at i:470772 original size:52 final size:52
Alignment explanation
Indices: 470716--470844 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
470706 CACTGATCTT
* *
470716 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACGCTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
470768 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
470820 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
470845 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:471146 original size:31 final size:32
Alignment explanation
Indices: 471110--471472 Score: 283
Period size: 31 Copynumber: 11.4 Consensus size: 32
471100 GTTCCTTTTT
* *
471110 AAAGTCCACGACTCAATGGCAAT-CTCTTC-TC
1 AAAGTCCACGACTCAGTGGC-ATCCTTTTCTTC
471141 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
*
471173 AAAGTCCACGACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
*
471205 AAAGTCCATGACTCAGTGGCAT--TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCCTTT-TCTTC
*
471235 AAAGTCCACGACTCCGTGGCA-CCTTCTT-TTC
1 AAAGTCCACGACTCAGTGGCATCCTT-TTCTTC
* * * * *
471266 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGTCCACGACTCAGTGGCA-TCCTTTT--C-TTC
* * * *
471302 AAAGCCCACAACTCTGTGGCA-CCTTGTTCCTTT
1 AAAGTCCACGACTCAGTGGCATCCTT-TT-CTTC
* *
471335 TAAGTCCACGACTTC-GTGGCA-CC-TTCCTTTC
1 AAAGTCCACGAC-TCAGTGGCATCCTTTTC-TTC
* *
471366 ATAGTCCACGACTCCGTGGCA-CCTTCTT-TTC
1 AAAGTCCACGACTCAGTGGCATCCTT-TTCTTC
*
471397 AAAGTCCACGACTCCGTGGCA-CCTTCTT-TTC
1 AAAGTCCACGACTCAGTGGCATCCTT-TTCTTC
*
471428 AAAGTCCACGACTCTGTGGCA-CCTTCTT-TTC
1 AAAGTCCACGACTCAGTGGCATCCTT-TTCTTC
* *
471459 AAAGCCCACAACTC
1 AAAGTCCACGACTC
471473 CATGGCACTC
Statistics
Matches: 288, Mismatches: 25, Indels: 38
0.82 0.07 0.11
Matches are distributed among these distances:
30 28 0.10
31 146 0.51
32 59 0.20
33 24 0.08
34 7 0.02
35 2 0.01
36 22 0.08
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.30
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
Found at i:471308 original size:36 final size:33
Alignment explanation
Indices: 471235--471589 Score: 283
Period size: 31 Copynumber: 10.8 Consensus size: 33
471225 ATTTTGTCTC
* *
471235 AAAGTCCACGACTCCGTGGCACC--TT-CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
471265 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGCCCACAACTCCGTGGCAC-C-TTTT-CCTTTT
*
471302 AAAGCCCACAACTCTGTGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTT-TTCCTTTT
* * * *
471336 -AAGTCCACGACTTCGTGGCACC--TTCCTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
471366 ATAGTCCACGACTCCGTGGCACC--TT-CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* *
471396 CAAAGTCCACGACTCCGTGGCACC--TT-CTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
471427 CAAAGTCCACGACTCTGTGGCACC--TT-CTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
*
471458 CAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTT
1 -AAAGCCCACAACTCCGTGGCAC-C-TTTT-CCTTTT
471495 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTT-CCTTTT
*
471531 AAAGCCCACAACTCCGTGGCACTTTATTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTT-TTCCTTTT
* * *
471565 -AAGTCCACAACTTCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
471590 CACCCTTTTT
Statistics
Matches: 285, Mismatches: 23, Indels: 31
0.84 0.07 0.09
Matches are distributed among these distances:
30 11 0.04
31 120 0.42
32 3 0.01
33 38 0.13
34 16 0.06
35 9 0.03
36 78 0.27
37 10 0.04
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:471440 original size:193 final size:196
Alignment explanation
Indices: 471141--471552 Score: 581
Period size: 193 Copynumber: 2.1 Consensus size: 196
471131 ATCTCTTCTC
* *
471141 AAAGTCCACGAC-TCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTTC-GTGGCA-CCTTCTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
*
471205 AAAGTCCATGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAG
64 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAG
* *
471270 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCTGTGGCAC-CTTGTT-CCT
129 CCCACAACTCCATGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTGTTCCCT
471333 TTT
194 TTT
* *
471336 -AAGTCCACGACTTCGTGGCACCTTC-CTTTCATAGTCCACGACTCCGTGGCA-CCTTCTT-TTC
1 AAAGTCCACGACTTCGTGGCACCTTCTC-TTCAAAGTCCACGACTCAGTGGCATCCTT-TTCTTC
* *
471397 AAAGTCCACGACTCCGTGGCACCTTCTT-T-TCAAAGTCCACGACTCTGTGGCACCTTCTTTTCA
64 AAAGTCCACGACTCAGTGGCA--TT-TTGTCTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCA
*
471460 AAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
126 AAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTGTTC
471525 CCTTTT
191 CCTTTT
* * *
471531 AAAGCCCACAACTCCGTGGCAC
1 AAAGTCCACGACTTCGTGGCAC
471553 TTTATTCCTT
Statistics
Matches: 195, Mismatches: 13, Indels: 17
0.87 0.06 0.08
Matches are distributed among these distances:
192 26 0.13
193 116 0.59
194 25 0.13
195 10 0.05
196 18 0.09
ACGTcount: A:0.21, C:0.34, G:0.15, T:0.31
Consensus pattern (196 bp):
AAAGTCCACGACTTCGTGGCACCTTCTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAA
AGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCC
CACAACTCCATGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTGTTCCCTTT
T
Found at i:471479 original size:31 final size:31
Alignment explanation
Indices: 471134--471552 Score: 269
Period size: 31 Copynumber: 12.9 Consensus size: 31
471124 AATGGCAATC
* * * *
471134 TCTTCTCAAAGTCCACGACTCAGTGGCATCCT
1 TCTTTTCAAAGCCCACAACTCCGTGGCA-CCT
* * *
471166 T-TTCTTCAAAGTCCACGACTCAGTGGCATCCT
1 TCTT-TTCAAAGCCCACAACTCCGTGGCA-CCT
* * ** *
471198 T-TTCTTTAAAGTCCATGACTCAGTGGCA--T
1 TCTT-TTCAAAGCCCACAACTCCGTGGCACCT
* *
471227 T-TTGTCTCAAAGTCCACGACTCCGTGGCACCT
1 TCTT-T-TCAAAGCCCACAACTCCGTGGCACCT
471259 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-C---T
*
471294 TCCCTTTT-AAAGCCCACAACTCTGTGGCACCT
1 T--CTTTTCAAAGCCCACAACTCCGTGGCACCT
* ** * * *
471326 TGTTCCTTTTAAGTCCACGACTTCGTGGCACCT
1 TCTT--TTCAAAGCCCACAACTCCGTGGCACCT
* * * *
471359 TCCTTTCATAGTCCACGACTCCGTGGCACCT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCT
* *
471390 TCTTTTCAAAGTCCACGACTCCGTGGCACCT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCT
* * *
471421 TCTTTTCAAAGTCCACGACTCTGTGGCACCT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCT
*
471452 TCTTTTCAAAGCCCACAACTCCATGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-C---T
471487 TCCCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTT
1 T--CTTTTCAAAGCCCACAACTCCGTGGCAC-C---T
471523 TCCCTTTT-AAAGCCCACAACTCCGTGGCAC
1 T--CTTTTCAAAGCCCACAACTCCGTGGCAC
471553 TTTATTCCTT
Statistics
Matches: 337, Mismatches: 30, Indels: 36
0.84 0.07 0.09
Matches are distributed among these distances:
29 5 0.01
30 22 0.07
31 131 0.39
32 63 0.19
33 23 0.07
35 5 0.01
36 78 0.23
37 10 0.03
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.31
Consensus pattern (31 bp):
TCTTTTCAAAGCCCACAACTCCGTGGCACCT
Found at i:471607 original size:69 final size:72
Alignment explanation
Indices: 471453--471609 Score: 205
Period size: 69 Copynumber: 2.2 Consensus size: 72
471443 GTGGCACCTT
*
471453 CTTTTCAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACT
1 CTTTTC-AAGCCCACAACTCCATGGCACTCTTATTCCCTTTTAAAGCCCACAACTCCGTGGCACT
**
471518 CTTTTTCC
65 CTTTCACC
* * * *
471526 CTTTTAAAGCCCACAACTCCGTGGCACT-TTATT-CCTTTT-AAGTCCACAACTTCGTGGCA-TC
1 CTTTTCAAGCCCACAACTCCATGGCACTCTTATTCCCTTTTAAAGCCCACAACTCCGTGGCACTC
471587 TTTCACC
66 TTTCACC
471594 CTTTTTCAAGCCCACA
1 C-TTTTCAAGCCCACA
471610 CAAGTCGGTG
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
68 8 0.11
69 31 0.41
70 6 0.08
71 4 0.05
72 21 0.28
73 5 0.07
ACGTcount: A:0.22, C:0.35, G:0.10, T:0.33
Consensus pattern (72 bp):
CTTTTCAAGCCCACAACTCCATGGCACTCTTATTCCCTTTTAAAGCCCACAACTCCGTGGCACTC
TTTCACC
Found at i:471628 original size:32 final size:32
Alignment explanation
Indices: 471591--471799 Score: 230
Period size: 32 Copynumber: 6.5 Consensus size: 32
471581 GGCATCTTTC
*
471591 ACCCTTTTTCAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTCTCAAGCCCACACAAGTCGGTGGCA
* *
471623 ACCC-TTCTCAAAGCCCACATAAGTCGATGGCA
1 ACCCTTTCTC-AAGCCCACACAAGTCGGTGGCA
* *
471655 ACCCTCCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCT-TTCTCAAGCCCACACAAGTCGGTGGCA
* *
471688 ACCC-TTCCCAAAGCCCACATAAGTCGGTGGCA
1 ACCCTTTCTC-AAGCCCACACAAGTCGGTGGCA
* *
471720 ACCCTCTCT-AACGCCCACACAAGTTGGTGGCA
1 ACCCTTTCTCAA-GCCCACACAAGTCGGTGGCA
* * *
471752 ACCATTCTTTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTT-TCTCAAGCCCACACAAGTCGGTGGCA
471785 ACCC-TTCT-AAGCCCA
1 ACCCTTTCTCAAGCCCA
471800 ATATCGCTGG
Statistics
Matches: 148, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
30 7 0.05
31 10 0.07
32 76 0.51
33 50 0.34
34 5 0.03
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (32 bp):
ACCCTTTCTCAAGCCCACACAAGTCGGTGGCA
Found at i:471674 original size:65 final size:64
Alignment explanation
Indices: 471601--471799 Score: 303
Period size: 65 Copynumber: 3.1 Consensus size: 64
471591 ACCCTTTTTC
*
471601 AAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACATAAGTCGATGGCAACCCTCCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACATAAGTCGGTGGCAACCCT-CTCTA
*
471666 AAGCCCACACAAGTCGGTGGCAACCCTTCCCAAAGCCCACATAAGTCGGTGGCAACCCTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACATAAGTCGGTGGCAACCCTCTCTA
* * * * *
471730 ACGCCCACACAAGTTGGTGGCAACCATTCTTTAAAGCCCACACAAGTCGGTGGCAACCCT-TCT-
1 AAGCCCACACAAGTCGGTGGCAACCCTTC-TCAAAGCCCACATAAGTCGGTGGCAACCCTCTCTA
471793 AAGCCCA
1 AAGCCCA
471800 ATATCGCTGG
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
63 6 0.05
64 34 0.27
65 84 0.68
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (64 bp):
AAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACATAAGTCGGTGGCAACCCTCTCTA
Found at i:471712 original size:97 final size:97
Alignment explanation
Indices: 471601--471791 Score: 294
Period size: 97 Copynumber: 2.0 Consensus size: 97
471591 ACCCTTTTTC
* *
471601 AAGCCCACACAAGTCGGTGGCAACCCT-TCTCAAAGCCCACATAAGTCGATGGCAACCCTCCTCT
1 AAGCCCACACAAGTCGGTGGCAACCCTCTCT-AAAGCCCACACAAGTCGATGGCAACCATCCTCT
471665 AAAGCCCACACAAGTCGGTGGCAACCCTTCCCA
65 AAAGCCCACACAAGTCGGTGGCAACCCTTCCCA
* * * * * *
471698 AAGCCCACATAAGTCGGTGGCAACCCTCTCTAACGCCCACACAAGTTGGTGGCAACCATTCTTTA
1 AAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGATGGCAACCATCCTCTA
471763 AAGCCCACACAAGTCGGTGGCAACCCTTC
66 AAGCCCACACAAGTCGGTGGCAACCCTTC
471792 TAAGCCCAAT
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
97 82 0.96
98 3 0.04
ACGTcount: A:0.28, C:0.36, G:0.18, T:0.17
Consensus pattern (97 bp):
AAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGATGGCAACCATCCTCTA
AAGCCCACACAAGTCGGTGGCAACCCTTCCCA
Found at i:471899 original size:43 final size:44
Alignment explanation
Indices: 471792--472865 Score: 1036
Period size: 43 Copynumber: 23.0 Consensus size: 44
471782 GCAACCCTTC
* *
471792 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C-TCTT
** *
471841 TAAGTCCAACGTAGCTGGCCTTGAATCAGCACATTGGCAC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
* *
471884 TAAGTCCAATATAGCTGGCCTTGAATCAGTACATTGGCAC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
* *
471927 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-G-C----AC-TCTT
* *
471979 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
472022 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C-TCTT
*
472071 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C-TCTT
* *
472120 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
*
472163 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C-TCTT
472212 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C-TCTT
* * *
472261 TAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
* *
472304 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-G-C----AC-TCTT
* *
472356 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
472399 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C-TCTT
* *
472448 TAAGTCCAATATAGCTAGCATTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C-TCTT
* *
472497 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
* *
472540 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-G-C----AC-TCTT
* * *
472592 TAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
* * *
472635 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-G-C----AC-TCTT
* ** *
472687 TAAGTCCAATGTAATTGGCCTTGAATCAGCACATTGGCAC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
*
472730 TAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C-TCTT
* * *
472779 TAAGTCCAATGTAGCTGGCCTTGGATCAGCACATTGGCAC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
*
472822 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCAC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
472865 T
1 T
472866 TCCATCTTTA
Statistics
Matches: 884, Mismatches: 81, Indels: 126
0.81 0.07 0.12
Matches are distributed among these distances:
43 376 0.43
44 4 0.00
45 13 0.01
46 4 0.00
47 4 0.00
49 335 0.38
50 8 0.01
51 4 0.00
52 136 0.15
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (44 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTT
Found at i:471902 original size:24 final size:24
Alignment explanation
Indices: 471875--471945 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 24
471865 ATCAGCACAT
471875 TGGCACCTTTAAGTCCAATATAGC
1 TGGCACCTTTAAGTCCAATATAGC
* * * *
471899 TGG--CCTTGAA-T-CAGTACA-T
1 TGGCACCTTTAAGTCCAATATAGC
*
471918 TGGCACCTTTAAGTCCAATATCGC
1 TGGCACCTTTAAGTCCAATATAGC
471942 TGGC
1 TGGC
471946 CTTGAATCAG
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 7 0.21
22 7 0.21
23 4 0.12
24 7 0.21
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (24 bp):
TGGCACCTTTAAGTCCAATATAGC
Found at i:471905 original size:22 final size:22
Alignment explanation
Indices: 471880--471948 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
471870 CACATTGGCA
471880 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * * *
471902 CCTTGAA-T-CAGTACA-TTGG
1 CCTTTAAGTCCAATATAGCTGG
*
471921 CACCTTTAAGTCCAATATCGCTGG
1 --CCTTTAAGTCCAATATAGCTGG
471945 CCTT
1 CCTT
471949 GAATCAGCAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 7 0.21
22 11 0.33
23 4 0.12
24 3 0.09
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:471926 original size:21 final size:21
Alignment explanation
Indices: 471859--471926 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
471849 ACGTAGCTGG
*
471859 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGTACATTGGCA
* * * *
471880 CCTTTAAGTCCAATATAGCTGG--
1 CCTTGAA-T-CAGTACA-TTGGCA
471902 CCTTGAATCAGTACATTGGCA
1 CCTTGAATCAGTACATTGGCA
471923 CCTT
1 CCTT
471927 TAAGTCCAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 11 0.33
22 7 0.21
23 4 0.12
24 3 0.09
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (21 bp):
CCTTGAATCAGTACATTGGCA
Found at i:472164 original size:92 final size:92
Alignment explanation
Indices: 472068--472918 Score: 1060
Period size: 95 Copynumber: 9.0 Consensus size: 92
472058 GCACCTTCTT
*
472068 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
472133 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
472160 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
*
472225 GCTGGCCTTGAATCAGCATATTGGCACCTTC
66 GCTGGCCTTGAATCAGCACATTGGCA----C
* * * *
472256 TTCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
* * *
472315 TCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
64 TAGCTGGCCTTGAATCAGCACATT-G-G-C----AC
* * *
472351 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
*
472410 TAGCTGGCCTTGAATCAGCATATTGGCACCTTC
64 TAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
472443 TTCTTTAAGTCCAATATAGCTAGCATTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
472508 TAGCTGGCCTTGAATCAGCACATTGGCAC
64 TAGCTGGCCTTGAATCAGCACATTGGCAC
* *
472537 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTCTTTAAGTCCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--T-TCTTCTTTAAGTCCAAT
*
472602 GTAGCTGGCCTTGAATTAGCACATTGGCAC
63 GTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
472632 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTCTTTAAGTCCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--T-TCTTCTTTAAGTCCAAT
**
472697 GTAATTGGCCTTGAATCAGCACATTGGCAC
63 GTAGCTGGCCTTGAATCAGCACATTGGCAC
*
472727 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
*
472792 GCTGGCCTTGGATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
472819 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CTTCTTTAAGTCCAAT
*
472884 GTAGCTGGCCTTGAATCAGCACATTGACATC
63 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
472915 CTTT
1 CTTT
472919 TTCTCATCTT
Statistics
Matches: 688, Mismatches: 41, Indels: 56
0.88 0.05 0.07
Matches are distributed among these distances:
92 292 0.42
93 3 0.00
94 7 0.01
95 301 0.44
96 7 0.01
98 78 0.11
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:472355 original size:236 final size:234
Alignment explanation
Indices: 471787--472822 Score: 1365
Period size: 236 Copynumber: 4.4 Consensus size: 234
471777 CGGTGGCAAC
* * * **
471787 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAACG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TCTTTAAGTCCAATA
* *
471852 TAGCTGGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGA
61 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTCTTTAAGTCCAATGTAGCTGGCCTTGA
* **
471908 ATCAGTACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGT
126 ATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT
*
471973 CTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
190 CTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
472018 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TCTTTAAGTCCAATAT
*
472083 AGCTAGCCTTGAATCAGCATATTGGCACC--T-TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAA
62 AGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAA
472145 TCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T-TCT
127 TCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCT
*
472208 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
192 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
472251 CCTTCTTCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAAT
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAAT
* *
472314 ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTCTTTAAGTCCAATGTAGCTGGCCTTG
60 ATAGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTCTTTAAGTCCAATGTAGCTGGCCTTG
*
472379 AATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-T-T
125 AATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* * *
472442 CTTCTTTAAGTCCAATATAGCTAGCATTGAATCAGCATATTGGCA
190 CTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
472487 CCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAAT
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAAT
* *
472550 ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTCTTTAAGTCCAATGTAGCTGGCCTTG
60 ATAGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTCTTTAAGTCCAATGTAGCTGGCCTTG
* * *
472615 AATTAGCACATTGGCACCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTG
125 AATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG
* **
472680 TCTTCTTTAAGTCCAATGTAATTGGCCTTGAATCAGCACATTGGCA
189 TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* * *
472726 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TCTTTAAGTCCAATAT
* *
472791 AGCTGGCCTTGGATCAGCACATTGGCACCTTT
62 AGCTGGCCTTGAATCAGCATATTGGCACCTTT
472823 AAGTCCAATA
Statistics
Matches: 740, Mismatches: 41, Indels: 40
0.90 0.05 0.05
Matches are distributed among these distances:
230 81 0.11
231 4 0.01
233 124 0.17
234 2 0.00
235 3 0.00
236 402 0.54
237 2 0.00
238 1 0.00
239 121 0.16
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (234 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACCTTTGTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
CACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCTT
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:473068 original size:53 final size:52
Alignment explanation
Indices: 472984--473087 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 52
472974 TCACTTTTCT
* ** * *
472984 CATCTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC
1 CATCATCATCTTTAAACCCAATATTGCTGGCCTTGAATCAACACATTGGCAC
* *
473036 CATCATCATCTTTAAAACCCAATGTTGTTGGCCTTGAATCAACACATTGGCA
1 CATCATCATCTTT-AAACCCAATATTGCTGGCCTTGAATCAACACATTGGCA
473088 TTTTTTTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 12 0.27
53 32 0.73
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (52 bp):
CATCATCATCTTTAAACCCAATATTGCTGGCCTTGAATCAACACATTGGCAC
Found at i:473881 original size:13 final size:13
Alignment explanation
Indices: 473863--473887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
473853 CATAAAGTGT
473863 TGTATCGATACAA
1 TGTATCGATACAA
473876 TGTATCGATACA
1 TGTATCGATACA
473888 TAAGTTTTGT
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:473903 original size:32 final size:33
Alignment explanation
Indices: 473843--473908 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
473833 TTCAATGATT
473843 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
473876 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
473908 T
1 T
473909 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:473967 original size:13 final size:13
Alignment explanation
Indices: 473949--473973 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
473939 ATTACTCAAC
473949 TGTATCGATACAT
1 TGTATCGATACAT
473962 TGTATCGATACA
1 TGTATCGATACA
473974 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:474026 original size:52 final size:52
Alignment explanation
Indices: 473982--474110 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
473972 CACTGATCTT
*
473982 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
474034 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGGTACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
474086 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
474111 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:480082 original size:58 final size:58
Alignment explanation
Indices: 479987--480172 Score: 300
Period size: 58 Copynumber: 3.2 Consensus size: 58
479977 TGTAAATTTG
* *
479987 GATCCAAGTTTGGGTGACTTAGCGTCACTTAGTGTGTGAATCTAGTCACCTTGGTGGC
1 GATCTAAGTTTGGGTGACTTAGCGTCACTTAGTGTGTGAATCTGGTCACCTTGGTGGC
*
480045 GATCTAAGTTTGGGTGGCTTAGCGTCACTTAGTGTGTGAATCTGGTCACCTTGGTGGC
1 GATCTAAGTTTGGGTGACTTAGCGTCACTTAGTGTGTGAATCTGGTCACCTTGGTGGC
* * ** *
480103 GATCTAAGTTTGGGTAACTTGGCGTCACTTAGTGTGCAAATCTGGTCTCCTTGGTGGC
1 GATCTAAGTTTGGGTGACTTAGCGTCACTTAGTGTGTGAATCTGGTCACCTTGGTGGC
480161 GATCTAAGTTTG
1 GATCTAAGTTTG
480173 CAGTGTGATA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 119 1.00
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (58 bp):
GATCTAAGTTTGGGTGACTTAGCGTCACTTAGTGTGTGAATCTGGTCACCTTGGTGGC
Found at i:487203 original size:17 final size:17
Alignment explanation
Indices: 487183--487233 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
487173 ACATAATAAA
487183 AAAATTTTAAATATATC
1 AAAATTTTAAATATATC
487200 AAAA-TTTAAATA-AT-
1 AAAATTTTAAATATATC
*
487214 ATAAATTTTAAATGTATC
1 A-AAATTTTAAATATATC
487232 AA
1 AA
487234 TTTATACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 5 0.17
16 15 0.52
17 7 0.24
18 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAATTTTAAATATATC
Found at i:487214 original size:19 final size:18
Alignment explanation
Indices: 487147--487216 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
487137 TACGAAAAAT
* *
487147 AAAATTAAAATATTATAC
1 AAAATTTAAATAATATAC
* *
487165 AAAATATAACATAATA-AA
1 AAAATTTAA-ATAATATAC
487183 AAAATTTTAAAT-ATAT-C
1 AAAA-TTTAAATAATATAC
487200 AAAATTTAAATAATATA
1 AAAATTTAAATAATATA
487217 AATTTTAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 7 0.17
17 11 0.27
18 14 0.34
19 9 0.22
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTTAAATAATATAC
Found at i:492014 original size:21 final size:20
Alignment explanation
Indices: 491990--492028 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
491980 AATCTAATTA
491990 ATTACTTAATAATATTATAAT
1 ATTACTTAAT-ATATTATAAT
*
492011 ATTATTTAATATATTATA
1 ATTACTTAATATATTATA
492029 TATCATTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTACTTAATATATTATAAT
Found at i:492493 original size:18 final size:18
Alignment explanation
Indices: 492461--492506 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
492451 TAACATATCA
* * *
492461 AATTTTTTATGATAAGTT
1 AATTTTATATAATAAATT
*
492479 GATTTTATATAATAAATT
1 AATTTTATATAATAAATT
492497 AATTTTATAT
1 AATTTTATAT
492507 CCTTTCAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (18 bp):
AATTTTATATAATAAATT
Found at i:493324 original size:15 final size:17
Alignment explanation
Indices: 493287--493335 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 17
493277 TATTTTACTT
*
493287 TTATAATTTATTATTATA
1 TTATATTTTA-TATTATA
493305 TTATATTTTA-ATTA-A
1 TTATATTTTATATTATA
493320 TTATATTTTATATTAT
1 TTATATTTTATATTAT
493336 TAACATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 11 0.39
16 8 0.29
18 9 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATTTTATATTATA
Found at i:493665 original size:15 final size:17
Alignment explanation
Indices: 493627--493666 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
493617 AATTTTAAAT
493627 TAAATTTTATTAAGTTA
1 TAAATTTTATTAAGTTA
*
493644 T-AATTTT-TT-ATTTA
1 TAAATTTTATTAAGTTA
493658 TAAATTTTA
1 TAAATTTTA
493667 ATTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 6 0.30
17 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TAAATTTTATTAAGTTA
Found at i:496825 original size:69 final size:69
Alignment explanation
Indices: 496750--496901 Score: 250
Period size: 69 Copynumber: 2.2 Consensus size: 69
496740 GAGAAATGGG
* *
496750 GTTGGAGTATCCCCGACAATGATAATTTGGACAAAATAAGAATTAAATTTTGATGAGTTTAAAAA
1 GTTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGAATTAAATTTCGATGAGTTTAAAAA
496815 CGAA
66 CGAA
* *
496819 GTTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGATTTAAATTTCGATGAGTTTACAAA
1 GTTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGAATTAAATTTCGATGAGTTTAAAAA
**
496884 CGGG
66 CGAA
496888 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
496902 TCAGAGGAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 77 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (69 bp):
GTTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGAATTAAATTTCGATGAGTTTAAAAA
CGAA
Found at i:498866 original size:7 final size:8
Alignment explanation
Indices: 498849--498916 Score: 50
Period size: 8 Copynumber: 8.2 Consensus size: 8
498839 TTTTTAGAAA
498849 TTTTAATT
1 TTTTAATT
498857 TTTTAATTT
1 TTTTAA-TT
*
498866 TTTTGA-T
1 TTTTAATT
*
498873 TTTAAATT
1 TTTTAATT
*
498881 TTTTGATT
1 TTTTAATT
*
498889 GTTTTCATT
1 -TTTTAATT
498898 TTATT-ATT
1 TT-TTAATT
498906 ATTTTAATT
1 -TTTTAATT
498915 TT
1 TT
498917 ATATATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
7 5 0.10
8 22 0.46
9 21 0.44
ACGTcount: A:0.22, C:0.01, G:0.04, T:0.72
Consensus pattern (8 bp):
TTTTAATT
Found at i:498869 original size:17 final size:18
Alignment explanation
Indices: 498857--498916 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 18
498847 AATTTTAATT
498857 TTTTAATTTTTTTG---A
1 TTTTAATTTTTTTGATTA
* *
498872 TTTTAAATTTTTTGATTG
1 TTTTAATTTTTTTGATTA
* *
498890 TTTTCATTTTATT-ATTA
1 TTTTAATTTTTTTGATTA
498907 TTTTAATTTT
1 TTTTAATTTT
498917 ATATATAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
15 13 0.37
17 12 0.34
18 10 0.29
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTAATTTTTTTGATTA
Found at i:498880 original size:24 final size:24
Alignment explanation
Indices: 498848--498916 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
498838 TTTTTTAGAA
*
498848 ATTTT-AATTTTTTAATTTTTTTG
1 ATTTTAAATTTTTTAATTTTTTTC
* *
498871 ATTTTAAATTTTTTGATTGTTTTC
1 ATTTTAAATTTTTTAATTTTTTTC
*
498895 ATTTTATTATTATTTTAATTTT
1 ATTTTA-AATT-TTTTAATTTT
498917 ATATATAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.14
24 21 0.57
25 3 0.08
26 8 0.22
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.71
Consensus pattern (24 bp):
ATTTTAAATTTTTTAATTTTTTTC
Found at i:498918 original size:17 final size:16
Alignment explanation
Indices: 498857--498916 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
498847 AATTTTAATT
*
498857 TTTTAATTTTTT-TGA
1 TTTTAATTTTTTATTA
*
498872 TTTTAAATTTTTTGATTG
1 TTTT-AATTTTTT-ATTA
*
498890 TTTTCATTTTATTATTA
1 TTTTAATTTT-TTATTA
498907 TTTTAATTTT
1 TTTTAATTTT
498917 ATATATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
15 4 0.11
16 8 0.22
17 17 0.47
18 7 0.19
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTTAATTTTTTATTA
Found at i:499644 original size:61 final size:61
Alignment explanation
Indices: 499566--499690 Score: 200
Period size: 61 Copynumber: 2.0 Consensus size: 61
499556 AAAGATGATG
499566 AAGATGAGAAGAGTGAT-AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAGATGAGAAGAGTGATAAAAG-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
**
499627 AAGATGAGAAG-GATGATAAAAGTGCCAATATGCTGATTTGAGGCCAGCGATATTGGACTTA
1 AAGATGAGAAGAG-TGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
499688 AAG
1 AAG
499691 GTGCCAATGT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
60 1 0.02
61 55 0.92
62 4 0.07
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (61 bp):
AAGATGAGAAGAGTGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
Found at i:499714 original size:43 final size:43
Alignment explanation
Indices: 499643--499733 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
499633 AGAAGGATGA
* * *
499643 TAAAAGTGCCAATATGCTGATTTGAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAATATGCTGATTTAAGGCCAGCGACATTGGACT
* *
499686 TAAAGGTGCCAATGTGCTGATTTAAGGCCAGTGACATTGGACT
1 TAAAGGTGCCAATATGCTGATTTAAGGCCAGCGACATTGGACT
499729 TAAAG
1 TAAAG
499734 ATGAAAAAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTTAAGGCCAGCGACATTGGACT
Found at i:499765 original size:52 final size:51
Alignment explanation
Indices: 499687--500094 Score: 324
Period size: 52 Copynumber: 8.0 Consensus size: 51
499677 TATTGGACTT
* * *
499687 AAAGGTGCCAATGTGCTGATTTAAGGCCAGTGACATTGGACTTAAAGATGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-A
* * ** * * *
499739 AAAGGTGCCAATATACTGATTCAAGGCCAGCAATTTTGGGCTTAAAGGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
* * * * *
499790 AAAGAGTGTCAATGTGCTGATTCACGGCCAGCGACATTAGACTTGAAGATGA
1 AAAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
* * * * ** ** *
499842 GAAGAATGCCAATATGTTGATTCAAGGCCAGCGATATTGGGTTTAGGGATGTT
1 AAAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-A
* * * *
499895 AAAGATGCCAATATGCTGATTCAAGGCTAGTGATATTGGACTTAAAGAT--
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
* * *
499944 AAAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
* * * * * * *
499994 -GAGGTGCCAATGTGCTAATTCAAGGCTAACGACATTAGATTTAAATG-TGGTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-GAT-G-A
* * * * *
500046 AAA-GTGCCAATATGCTGATTTAAGGTCAACGATATTAGACTTAAAGATG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
500095 TCAATATGCT
Statistics
Matches: 286, Mismatches: 61, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
49 86 0.30
50 2 0.01
51 6 0.02
52 188 0.66
53 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (51 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
Found at i:499863 original size:156 final size:153
Alignment explanation
Indices: 499692--500132 Score: 373
Period size: 156 Copynumber: 2.9 Consensus size: 153
499682 GACTTAAAGG
* * * *
499692 TGCCAATGTGCTGATTTAAGGCCAGTGACATTGGACTTAAAGATGAAAAAGGTGCCAATATACTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGATGCCAATATACTG
* * * * *
499757 ATTCAAGGCCAGCAATTTTGGGCTTAAAGGTGCAAAGAGTGTCAATGTGCTGATTCACGGCCAGC
66 ATTCAAGGCCAGCAATATTGGACTTAAAGAT--AAAG-GTGCCAATGTGCTGATTCAAGGCCAGC
*
499822 GACATTAGACTTGAAGATGAGAAGAA
128 GACATTAGACTTAAAGATGAGAAGAA
* * ** ** ** *
499848 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGGTTTAGGGATGTTAAAGATGCCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGATGCCAATATACTG
* ** * *
499913 ATTCAAGGCTAGTGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCTAGTGAC
66 ATTCAAGGCCAGCAATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAC
* *
499978 ATTGGACTTAAAGATG-G-AG-G
131 ATTAGACTTAAAGATGAGAAGAA
* * * * * * * *
499998 TGCCAATGTGCTAATTCAAGGCTAACGACATTAGATTTAAATG-TGGTAAAAG-TGCCAATATGC
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-GAT-GAAAAAGATGCCAATATAC
* * * * * * * *
500061 TGATTTAAGGTCAACGATATTAGACTTAAAGAT----GT--CAATATGCTGATTTAAGGCCAACG
64 TGATTCAAGGCCAGCAATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCG
*
500120 ATATTAGACTTAA
129 ACATTAGACTTAA
500133 CGGTGCCAAT
Statistics
Matches: 233, Mismatches: 50, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
144 30 0.13
146 2 0.01
150 70 0.30
151 9 0.04
152 1 0.00
153 40 0.17
154 4 0.02
156 77 0.33
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (153 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGATGCCAATATACTG
ATTCAAGGCCAGCAATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAC
ATTAGACTTAAAGATGAGAAGAA
Found at i:499963 original size:49 final size:49
Alignment explanation
Indices: 499641--500169 Score: 311
Period size: 52 Copynumber: 10.9 Consensus size: 49
499631 TGAGAAGGAT
* * ** *
499641 GATAAAAGTGCCAATATGCTGATTTGAGGCCAGCGATATTGGAC-T---
1 GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* *
499686 --TAAAGGTGCCAATGTGCTGATTTAAGGCCAGTGACATTGGACTTAAA
1 GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* * * ** *
499733 GATGAAAAAGGTGCCAATATACTGATTCAAGGCCAGCAATTTTGGGCTTAAA
1 GAT---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* * * * *
499785 GGTGCAAAGAGTGTCAATGTGCTGATTCACGGCCAGCGACATTAGACTTGAA
1 GAT--AAAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* * * * ** *
499837 GATGAGAAGAATGCCAATATGTTGATTCAAGGCCAGCGATATTGGGTTTAGGGAT
1 GAT-A-AAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA---AA
* * * * * *
499892 GTTAAAGATGCCAATATGCTGATTCAAGGCTAGTGATATTGGACTTAAA
1 GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* *
499941 GATAAAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAA
1 GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
** * * * * *
499990 GATGGAGGTGCCAATGTGCTAATTCAAGGCTAACGACATTAGATTTAAA
1 GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* * * * * * * *
500039 TGTGGTAAAAGTGCCAATATGCTGATTTAAGGTCAACGATATTAGACTTAAA
1 ---GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* * * * *
500091 GAT----GT--CAATATGCTGATTTAAGGCCAACGATATTAGAC-T---
1 GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
*
500130 --TAACGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
500170 GCCTAGAAAG
Statistics
Matches: 386, Mismatches: 75, Indels: 48
0.76 0.15 0.09
Matches are distributed among these distances:
37 1 0.00
41 2 0.01
42 1 0.00
43 95 0.25
44 1 0.00
45 2 0.01
49 91 0.24
51 5 0.01
52 181 0.47
53 3 0.01
54 1 0.00
55 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (49 bp):
GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
Found at i:500089 original size:21 final size:21
Alignment explanation
Indices: 500065--500132 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
500055 ATATGCTGAT
500065 TTAAGGTCAACGATATTAGAC
1 TTAAGGTCAACGATATTAGAC
* ** *
500086 TTAAAGATGTCAA-TATGCT-GAT
1 TT-AAG--GTCAACGATATTAGAC
*
500108 TTAAGGCCAACGATATTAGAC
1 TTAAGGTCAACGATATTAGAC
500129 TTAA
1 TTAA
500133 CGGTGCCAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 11 0.33
22 7 0.21
23 3 0.09
24 5 0.15
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (21 bp):
TTAAGGTCAACGATATTAGAC
Found at i:500119 original size:43 final size:43
Alignment explanation
Indices: 500046--500159 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 43
500036 AAATGTGGTA
*
500046 AAAG-TGCCAATATGCTGATTTAAGGTCAACGATATTAGACTT
1 AAAGATGCCAATATGCTGATTTAAGGCCAACGATATTAGACTT
*
500088 AAAGATGTCAATATGCTGATTTAAGGCCAACGATATTAGACTT
1 AAAGATGCCAATATGCTGATTTAAGGCCAACGATATTAGACTT
* * * *
500131 AACGGTGCCAATGTGCTGATTCAAGGCCA
1 AAAGATGCCAATATGCTGATTTAAGGCCA
500160 GCGACATTGG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 4 0.06
43 60 0.94
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (43 bp):
AAAGATGCCAATATGCTGATTTAAGGCCAACGATATTAGACTT
Found at i:500258 original size:33 final size:33
Alignment explanation
Indices: 500185--500313 Score: 156
Period size: 32 Copynumber: 4.0 Consensus size: 33
500175 GAAAGAGATA
* *
500185 CCACCAACTTGTGTGGGCTTTTGAA-AGGGTTG
1 CCACCAACTTGAGTGGGCTTTTGAAGAAGGTTG
* * *
500217 CCATCAGCTTGAGTGGGCTCTTGAAGAAGGTTG
1 CCACCAACTTGAGTGGGCTTTTGAAGAAGGTTG
* *
500250 CCACCAGCTT-ATGTGGGCTTTAG-AGAAGGTTG
1 CCACCAACTTGA-GTGGGCTTTTGAAGAAGGTTG
*
500282 CCACCAACTTGTGTGGGCTTTTGAAGAAGGTT
1 CCACCAACTTGAGTGGGCTTTTGAAGAAGGTT
500314 TCTCTATTGG
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
32 50 0.61
33 32 0.39
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (33 bp):
CCACCAACTTGAGTGGGCTTTTGAAGAAGGTTG
Found at i:500298 original size:65 final size:65
Alignment explanation
Indices: 500185--500313 Score: 179
Period size: 65 Copynumber: 2.0 Consensus size: 65
500175 GAAAGAGATA
* * * *
500185 CCACCAACTTGTGTGGGCTTTTGAAAGGGTTGCCATCAGCTTGAGTGGGCTCTTGAAGAAGGTTG
1 CCACCAACTTATGTGGGCTTTAGAAAGGGTTGCCACCAACTTGAGTGGGCTCTTGAAGAAGGTTG
* * *
500250 CCACCAGCTTATGTGGGCTTTAGAGAA-GGTTGCCACCAACTTGTGTGGGCTTTTGAAGAAGGTT
1 CCACCAACTTATGTGGGCTTTAGA-AAGGGTTGCCACCAACTTGAGTGGGCTCTTGAAGAAGGTT
500314 TCTCTATTGG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 54 0.96
66 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (65 bp):
CCACCAACTTATGTGGGCTTTAGAAAGGGTTGCCACCAACTTGAGTGGGCTCTTGAAGAAGGTTG
Found at i:500544 original size:34 final size:31
Alignment explanation
Indices: 500473--501332 Score: 147
Period size: 32 Copynumber: 26.3 Consensus size: 31
500463 ACTTAAAAGG
* *
500473 GTGCTATGGAGTTATGGACTTAAAAGGAAAA
1 GTGCCATGGAGTTATGGACTTAAAAGAAAAA
*
500504 GATGCCATGGAGTTATGGGCTTCGAAAAGAAAAAA
1 G-TGCCATGGAGTTATGGACTT--AAAAG-AAAAA
* * **
500539 GTGCCACGGAGTTGTGGACTTTCAAGAAAAA
1 GTGCCATGGAGTTATGGACTTAAAAGAAAAA
* * * * * *
500570 GATGCCACGAAGTTGTGGGCCCTGAAGAGAAAACA
1 G-TGCCATGGAGTTAT-GG-ACTTAAAAGAAAA-A
** * *
500605 GTGCCA-CAAGGTTGTGGACTTAAAAGGAACAA
1 GTGCCATGGA-GTTATGGACTTAAAA-GAAAAA
** * * * *
500637 GATGTTACGGAGCTATGGACCTT-GAAGGAAAA
1 G-TGCCATGGAGTTATGGA-CTTAAAAGAAAAA
* * * * *
500669 GATGCCACGAAGTTGTGGGCTTTGAAGAGAAAACA
1 G-TGCCATGGAGTTATGGAC-TT-AAAAGAAAA-A
* * *
500704 GTGCCACAGG-GTTGTGGACTTAAAAGGAATAA
1 GTGCCA-TGGAGTTATGGACTTAAAA-GAAAAA
* *
500736 GATGCC-TCGGAGTTATGGACCTT-GAAGGAAAA
1 G-TGCCAT-GGAGTTATGGA-CTTAAAAGAAAAA
* * *
500768 GATGCCACGGAGTTGTGGACTTAAAAGGAATAA
1 G-TGCCATGGAGTTATGGACTTAAAA-GAAAAA
* * *
500801 GATGCCACGGAGTTATGGACCTT-GAAGGAAAA
1 G-TGCCATGGAGTTATGGA-CTTAAAAGAAAAA
* * *
500833 GATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
1 G-TGCCATGGAGTTATGGAC-TT-AAAAGAAAAA
* * * *
500867 GGTGCTATAGAGTTGTGGACTTAACTAG-----
1 -GTGCCATGGAGTTATGGACTTAA-AAGAAAAA
* * * *
500895 GTGCCACGGAGTTGTCGG-TTTAAAAAGAACAAG
1 GTGCCATGGAGTTAT-GGACTT-AAAAGAA-AAA
* * *
500928 GTGCCATGGAGTTGTGAACCTT-GAAGAAAAA
1 GTGCCATGGAGTTATGGA-CTTAAAAGAAAAA
* ** * *
500959 GATGTCACAGAGTTGTGGGCTTTAAAGAGAAAAA
1 G-TGCCATGGAGTTATGGAC-TTAAA-AGAAAAA
** * * * *
500993 GACACCACGGGGTTGTGGACTTAAAAGGAACAAG
1 G-TGCCATGGAGTTATGGACTTAAAA-GAA-AAA
* * * * *
501027 GTGTCACGGAGTTATAGACTTTAAAGGAAAA
1 GTGCCATGGAGTTATGGACTTAAAAGAAAAA
* * * *
501058 GATGCCACGAAGTTGTGGGCTTTGAAAA-AAAAA
1 G-TGCCATGGAGTTATGGAC-TT-AAAAGAAAAA
* * * *
501091 GGTGCCACGGGGTTGTGTTGTGGACTTAAAAGGAACAAG
1 -GTGCCA-----TGGAGTTATGGACTTAAAA-GAA-AAA
*
501130 GTGCCATGGAGTTATGGACTTTGAAAG-AAAA
1 GTGCCATGGAGTTATGGAC-TTAAAAGAAAAA
** * *
501161 GATGCCACAGAGTTGTGGGTCTTGAAAAGAAAAA
1 G-TGCCATGGAGTTAT-GGACTT-AAAAGAAAAA
* * *
501195 GATGCCACGGAGTTGTGGACTTAAAAG----G
1 G-TGCCATGGAGTTATGGACTTAAAAGAAAAA
* * *
501223 GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1 GTGCCATGGAGTTATGGACTTAAAAGAAAAA
*** * *
501254 GATGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAA
1 G-TGCCATGGAGTTATGGAC-TT-AAAAG-AAAAA
* * *
501289 GGTGCCACGGAGTTGTGGACTTAAAAAGAAGAAG
1 -GTGCCATGGAGTTATGGACTT-AAAAGAA-AAA
*
501323 GTGCTATGGA
1 GTGCCATGGA
501333 ATTGTAGACT
Statistics
Matches: 620, Mismatches: 134, Indels: 148
0.69 0.15 0.16
Matches are distributed among these distances:
27 41 0.07
28 5 0.01
31 23 0.04
32 184 0.30
33 154 0.25
34 158 0.25
35 30 0.05
36 5 0.01
37 2 0.00
38 16 0.03
39 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (31 bp):
GTGCCATGGAGTTATGGACTTAAAAGAAAAA
Found at i:500671 original size:99 final size:98
Alignment explanation
Indices: 500539--501575 Score: 832
Period size: 99 Copynumber: 10.5 Consensus size: 98
500529 AAAGAAAAAA
* * * * **
500539 GTGCCACGGAGTTGTGGACTTTCAAGAAAAAGATGCCACGAAGTTGTGGGCCCTGAAGAGAAAAC
1 GTGCCACGGAGTTATGGACCTTGAAGGAAAAGATGCCACGAAGTTGTGGGCTTTGAAGAGAAAA-
*
500604 AGTGCCAC-AAGGTTGTGGACTTAAAAGGAACAAG
65 AGTGCCACGGA-GTTGTGGACTTAAAAGGAACAAG
* ** *
500638 ATGTTACGGAGCTATGGACCTTGAAGGAAAAGATGCCACGAAGTTGTGGGCTTTGAAGAGAAAAC
1 GTGCCACGGAGTTATGGACCTTGAAGGAAAAGATGCCACGAAGTTGTGGGCTTTGAAGAGAAAA-
*
500703 AGTGCCACAGG-GTTGTGGACTTAAAAGGAATAAG
65 AGTGCCAC-GGAGTTGTGGACTTAAAAGGAACAAG
* * * * ** *
500737 ATGCCTCGGAGTTATGGACCTTGAAGGAAAAGATGCCACGGAGTTGTGGACTTAAAAG-GAATAA
1 GTGCCACGGAGTTATGGACCTTGAAGGAAAAGATGCCACGAAGTTGTGGGCTTTGAAGAGAAAAA
* *
500801 GATGCCACGGAGTTATGGACCTT-GAAGGAA-AAG
66 G-TGCCACGGAGTTGTGGA-CTTAAAAGGAACAAG
* * * * * * * * * *
500834 ATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCTA-TAGAGTTGTGGAC-TT-AACTAG-
1 GTGCCACGGAGTTATGGACCTTG--AAGGAAAAGATGCCACGA-AGTTGTGGGCTTTGAA-GAGA
* *
500895 ----GTGCCACGGAGTTGTCGG-TTTAAAAAGAACAAG
62 AAAAGTGCCACGGAGTTGT-GGACTTAAAAGGAACAAG
* * * * * *
500928 GTGCCATGGAGTTGTGAACCTTGAAGAAAAAGATGTCAC-AGAGTTGTGGGCTTTAAAGAGAAAA
1 GTGCCACGGAGTTATGGACCTTGAAGGAAAAGATGCCACGA-AGTTGTGGGCTTTGAAGAGAAAA
** *
500992 AGACACCACGGGGTTGTGGACTTAAAAGGAACAAG
65 AG-TGCCACGGAGTTGTGGACTTAAAAGGAACAAG
* * * * *
501027 GTGTCACGGAGTTATAGACTTTAAAGGAAAAGATGCCACGAAGTTGTGGGCTTTGAA-AAAAAAA
1 GTGCCACGGAGTTATGGACCTTGAAGGAAAAGATGCCACGAAGTTGTGGGCTTTGAAGAGAAAAA
*
501091 GGTGCCACGGGGTTGTGTTGTGGACTTAAAAGGAACAAG
66 -GTGCCAC---G--GAGTTGTGGACTTAAAAGGAACAAG
* * * *
501130 GTGCCATGGAGTTATGGACTTTGAAAGAAAAGATGCCAC-AGAGTTGTGGG-TCTTGAAAAGAAA
1 GTGCCACGGAGTTATGGACCTTGAAGGAAAAGATGCCACGA-AGTTGTGGGCT-TTGAAGAGAAA
501193 AAGATGCCACGGAGTTGTGGACTTAAAA-G-----G
64 AAG-TGCCACGGAGTTGTGGACTTAAAAGGAACAAG
* * * * *
501223 GTGCCACGGAGTTGTGGA-CTTAAAAGGAAAAGATGCCACAAAGTTGTGGGCTTTAAAAAGAAAA
1 GTGCCACGGAGTTATGGACCTT-GAAGGAAAAGATGCCACGAAGTTGTGGGCTTTGAAGAG-AAA
* *
501287 AAGGTGCCACGGAGTTGTGGACTTAAAAAGAAGAAG
64 AA-GTGCCACGGAGTTGTGGACTTAAAAGGAACAAG
* * * * * * ** *
501323 GTGCTATGGAATTGTAGACTTTGAAGGAAGTGGATGCCACGGAGTTGTGGGCTTTGAAGAGAAAA
1 GTGCCACGGAGTTATGGACCTTGAAGGAA-AAGATGCCACGAAGTTGTGGGCTTTGAAGAGAAAA
* *
501388 AGGTACCACAGG-GTTGTGGACTTAAAAAGAACAAG
65 A-GTGCCAC-GGAGTTGTGGACTTAAAAGGAACAAG
* * * * *
501423 GTGCTACGGAGTTATGGACCTTGAAGGAAAAGATGCCAAG-GGATTGTGGGCTTTAAAAAGAAAA
1 GTGCCACGGAGTTATGGACCTTGAAGGAAAAGATGCCACGAAG-TTGTGGGCTTTGAAGAGAAAA
* *
501487 GGTGCCACGGAGTTGTGTTGTGGATTTAAAAGGAACAAG
65 AGTGCCACGGA-----GTTGTGGACTTAAAAGGAACAAG
* * * * *
501526 GTGCCACGGAGTTGTGGACTTTGAAGGAAACGGATGCCACTAAGTCGTGG
1 GTGCCACGGAGTTATGGACCTTGAAGGAAA-AGATGCCACGAAGTTGTGG
501576 ACTTAGAAAA
Statistics
Matches: 764, Mismatches: 117, Indels: 109
0.77 0.12 0.11
Matches are distributed among these distances:
92 27 0.04
93 70 0.09
94 57 0.07
95 2 0.00
97 30 0.04
98 45 0.06
99 274 0.36
100 80 0.10
101 31 0.04
102 2 0.00
103 121 0.16
104 24 0.03
105 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (98 bp):
GTGCCACGGAGTTATGGACCTTGAAGGAAAAGATGCCACGAAGTTGTGGGCTTTGAAGAGAAAAA
GTGCCACGGAGTTGTGGACTTAAAAGGAACAAG
Done.