Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2152
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: 115387
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Found at i:909 original size:158 final size:155
Alignment explanation
Indices: 587--949 Score: 370
Period size: 158 Copynumber: 2.3 Consensus size: 155
577 TTGTAATAAC
* ** * * * * *
587 TTCATGATTGGCCAACAAAAACATGTTCTCCTCAATGGGATACATGATATTGATTCATTGGTTTC
1 TTCATGATTGGGCAACAAAAACACATTCT-TTCATTGGGATACATGATACTGATGCATTGGCTTC
* * * * * * *
652 ATAGAAAAGCATTTTTTTAGCATTTTCCTTAAAATCATTATTTGTCCCTAAAATTAGATAAACAT
65 ATAGAAAAGCATTTTTTCAACATATTCCTTAAAATCATAATTTATCCCTAAAATGAGACAAACAT
* *
717 GGATTTTATTAATAATCTCCATTCTT
130 GGATTTCATTAACAATCTCCATTCTT
* * * *
743 ATCGTGATTGGGCAACAAAAATACATTCTTATCATTGGGATACATGATACTGATGCTTTGGCTTC
1 TTCATGATTGGGCAACAAAAACACATTCTT-TCATTGGGATACATGATACTGATGCATTGGCTTC
* ** *
808 ATAAGAAAAGCATTTCTTTCAACATATTCTTTTGAATCA-AAGTTTATCCCTCAAATGAGACAAA
65 AT-AGAAAAGCATTT-TTTCAACATATTCCTTAAAATCATAA-TTTATCCCTAAAATGAGACAAA
*
872 CATGGATTCTCA-TAACAATCTTCATTCTT
127 CATGGATT-TCATTAACAATCTCCATTCTT
* * * * *
901 TTCATGATTTGGCACCATAAACACATTCTCTGCATTGGGATACTTGATA
1 TTCATGATTGGGCAACAAAAACACATTCT-TTCATTGGGATACATGATA
950 AAGCTTTTCT
Statistics
Matches: 167, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
156 54 0.32
157 13 0.08
158 97 0.58
159 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (155 bp):
TTCATGATTGGGCAACAAAAACACATTCTTTCATTGGGATACATGATACTGATGCATTGGCTTCA
TAGAAAAGCATTTTTTCAACATATTCCTTAAAATCATAATTTATCCCTAAAATGAGACAAACATG
GATTTCATTAACAATCTCCATTCTT
Found at i:1444 original size:157 final size:156
Alignment explanation
Indices: 949--1445 Score: 400
Period size: 157 Copynumber: 3.2 Consensus size: 156
939 GATACTTGAT
* * * * * **
949 AAAGCTTTTCTCTCCACCATTTTCATTAGAATCAATGTTCT-TCTCTCAAATTTGACAAACAT-A
1 AAAGCTTTTCTTTCCACCATTTTCTTTAGAATCAAAGTT-TAACCCTCAAATAAGACAAACATGA
** * * * * * * * * **
1012 GATTCTTGTAATAATCTCCATTCTTTTCATGATTGGGCATCATAAATAC-TTTCTTCTTATTAAG
65 -ATTC-TCAAATAACCTCCATTCTTTTCGT-ACTAGGCAACAAAAACACATTT-TCCTTATTGGG
* * ***
1076 ATACATAATATTGAAGCTTTGGTTTCATAAG
126 ATACATGATATTGATGCTTTGGTTTTGCAAG
* ** ** **
1107 AAAAG-TCTTTCTCTCCATTATTTTCTTTAGAATCAAAGTTTGTCCCTCAAATAAGGTAAACATG
1 -AAAGCT-TTTCTTTCCACCATTTTCTTTAGAATCAAAGTTTAACCCTCAAATAAGACAAACATG
*
1171 GATTCTCAAATAACCTCCATTCTTTTCGTACTAGGCAACAAAAACACATTTTCCTTATTGGGATA
64 AATTCTCAAATAACCTCCATTCTTTTCGTACTAGGCAACAAAAACACATTTTCCTTATTGGGATA
*
1236 CATGATATTAATGCTTTGGTTTTGCAA-
129 CATGATATTGATGCTTTGGTTTTGCAAG
*** * *
1263 ATAAGCTTTTCTTTTTGCCAATTTT-TTTAGAATTAAAGTTTAACCCTCAAATGAGACAAACATG
1 A-AAGCTTTTCTTTCCACC-ATTTTCTTTAGAATCAAAGTTTAACCCTCAAATAAGACAAACATG
* * * * * * *
1327 AATTTTCATAATAATCC-CCATTCTTTTTGTGATTAGGTAATAAAAACATATTTTTCTCT-TT-G
64 AATTCTCA-AATAA-CCTCCATTCTTTTCGT-ACTAGGCAACAAAAACACATTTTCCT-TATTGG
1389 GATACATGATATTGATGCTTTGGTTTTGCAAG
125 GATACATGATATTGATGCTTTGGTTTTGCAAG
1421 AAAGGCTTTTCTTTCCACCATTTTC
1 AAA-GCTTTTCTTTCCACCATTTTC
1446 CTTATAATAG
Statistics
Matches: 272, Mismatches: 52, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
155 1 0.00
156 48 0.18
157 106 0.39
158 63 0.23
159 54 0.20
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.40
Consensus pattern (156 bp):
AAAGCTTTTCTTTCCACCATTTTCTTTAGAATCAAAGTTTAACCCTCAAATAAGACAAACATGAA
TTCTCAAATAACCTCCATTCTTTTCGTACTAGGCAACAAAAACACATTTTCCTTATTGGGATACA
TGATATTGATGCTTTGGTTTTGCAAG
Found at i:1509 original size:158 final size:158
Alignment explanation
Indices: 1185--1593 Score: 398
Period size: 158 Copynumber: 2.6 Consensus size: 158
1175 CTCAAATAAC
* * * *
1185 CTCCATTCTTTTCGT-ACTAGGCAACAAAAACACATTTTCCTTATTGGGATACATGATATTAATG
1 CTCCATTCTTTTCGTGATTAGGCAATAAAAACATATTTTCCTTATTGGGATACATGATATTGATG
*** * * *
1249 CTTTGGTTTTGCAA-ATAAGCTTTTCTTTTTGCCAATTTTTTTAGAATTAAAGTTTAACCCTCAA
66 CTTTGGTTTTGCAAGA-AAGCTTTTCTTTCCACCAATTTTCTTAGAATTAAAGCTCAACCCTCAA
* *
1313 ATGAGACAAACATGAATTTTCATAATAAT
130 ATGAGACAAACATGAATGTTCATAAGAAT
* * * *
1342 CCCCATTCTTTTTGTGATTAGGTAATAAAAACATATTTTTCTCT-TT-GGATACATGATATTGAT
1 CTCCATTCTTTTCGTGATTAGGCAATAAAAACATATTTTCCT-TATTGGGATACATGATATTGAT
* * *
1405 GCTTTGGTTTTGCAAGAAAGGCTTTTCTTTCCACC-ATTTTCCTTATAA-TAGAAGCTCATCTCT
65 GCTTTGGTTTTGCAAGAAA-GCTTTTCTTTCCACCAATTTT-CTTAGAATTA-AAGCTCAACCCT
* * **
1468 CAAATGAGACAAACTTGGATGTTGGTAAGAAT
127 CAAATGAGACAAACATGAATGTTCATAAGAAT
* * * * ** * ** * *
1500 TTCCATTCTTATCATGATTGGGCAATGTAAACATGTTCCCCTTGTTGGGATACACGATATTGATG
1 CTCCATTCTTTTCGTGATTAGGCAATAAAAACATATTTTCCTTATTGGGATACATGATATTGATG
**
1565 CTTTGGTTTCACAAGCAAAGCTTTTCTTT
66 CTTTGGTTTTGCAAG-AAAGCTTTTCTTT
1594 TTTGTAAAAT
Statistics
Matches: 204, Mismatches: 39, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
157 54 0.26
158 106 0.52
159 41 0.20
160 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (158 bp):
CTCCATTCTTTTCGTGATTAGGCAATAAAAACATATTTTCCTTATTGGGATACATGATATTGATG
CTTTGGTTTTGCAAGAAAGCTTTTCTTTCCACCAATTTTCTTAGAATTAAAGCTCAACCCTCAAA
TGAGACAAACATGAATGTTCATAAGAAT
Found at i:14557 original size:33 final size:33
Alignment explanation
Indices: 14520--14586 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
14510 AGTAGCTTAA
14520 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
14553 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
14586 A
1 A
14587 AATCGTTGAA
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:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:14560 original size:13 final size:13
Alignment explanation
Indices: 14542--14566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14532 CAAAAAAATA
14542 TGTATCGATACAT
1 TGTATCGATACAT
14555 TGTATCGATACA
1 TGTATCGATACA
14567 ACACTTTATG
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:15896 original size:52 final size:52
Alignment explanation
Indices: 15790--15906 Score: 182
Period size: 52 Copynumber: 2.2 Consensus size: 52
15780 GTTGCTTGCT
* ***
15790 TGTATCGATACATTTGGGCAAATTTGCCTGCATGTATCGATACATTTTATAA
1 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAGATAA
15842 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAGATCAA
1 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAGAT-AA
15894 TGTATCGATACAT
1 TGTATCGATACAT
15907 TTTTTGGCAG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 2 0.03
52 58 0.97
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAGATAA
Found at i:15962 original size:33 final size:33
Alignment explanation
Indices: 15925--15991 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
15915 AGTAGCTTAA
15925 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
15958 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
15991 A
1 A
15992 AATCGTTGAA
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:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:15965 original size:13 final size:13
Alignment explanation
Indices: 15947--15971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15937 CAAAAAAATA
15947 TGTATCGATACAT
1 TGTATCGATACAT
15960 TGTATCGATACA
1 TGTATCGATACA
15972 ACACTTTATG
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:16882 original size:67 final size:68
Alignment explanation
Indices: 16760--16886 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 68
16750 ATTGGGTTTT
* * *
16760 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
16825 AGA
66 AGA
* * *
16828 AAAG-TGATAAAGATGCCAATATGTTGATTCATA-GCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCA-AGGCCAACAATATTGGACTTAAAGATGA
16887 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
67 47 0.90
68 5 0.10
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:17077 original size:92 final size:92
Alignment explanation
Indices: 16890--17267 Score: 594
Period size: 92 Copynumber: 4.1 Consensus size: 92
16880 AAGATGAGAA
* * *
16890 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
*
16955 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
16986 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
17051 TGATTCAAGGCCAGCGATATTTGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
17078 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
17143 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
17170 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAGAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
17235 TGATTCAAGGCCAGCTATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
17262 AGAAGG
1 A-AAGG
17268 GTTGTCACCG
Statistics
Matches: 265, Mismatches: 16, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
92 216 0.82
93 4 0.02
95 40 0.15
96 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:17264 original size:49 final size:49
Alignment explanation
Indices: 16841--17262 Score: 414
Period size: 43 Copynumber: 8.8 Consensus size: 49
16831 GTGATAAAGA
* * * *
16841 TGCCAATATGTTGATTCATA-GCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCTGATTCA-AGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* * * *
16895 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
16948 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
16991 TGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
17040 TGCCAATATGTTGATTCAAGGCCAGCGATATTTGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
17083 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
17132 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
17175 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAGAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
17224 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
17263 GAAGGGTTGT
Statistics
Matches: 310, Mismatches: 38, Indels: 44
0.79 0.10 0.11
Matches are distributed among these distances:
43 114 0.37
45 2 0.01
47 3 0.01
48 1 0.00
49 114 0.37
52 34 0.11
53 6 0.02
54 2 0.01
55 34 0.11
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:17315 original size:33 final size:33
Alignment explanation
Indices: 17262--17532 Score: 393
Period size: 33 Copynumber: 8.2 Consensus size: 33
17252 TATTGGGCTT
*
17262 AGAAGGGTTGTCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
17295 AGAATGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
17327 AGAAGAGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
17360 AAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
17393 AAAAAGGTTGCCACCGACTTGTGTAGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
17426 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* ** *
17459 AAAAATGTTGCCACCGACTTGTGTGGGCTGTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
17492 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTGAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-AG
17526 AGGAAGG
1 A-GAAGG
17533 TGCCACGGAG
Statistics
Matches: 212, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
32 32 0.15
33 168 0.79
34 7 0.03
35 5 0.02
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:17566 original size:33 final size:34
Alignment explanation
Indices: 17529--17727 Score: 235
Period size: 34 Copynumber: 5.9 Consensus size: 34
17519 CTTTGAGAGG
* *
17529 AAGGTGCCACGGAGTCGTGGAC-TTAAAAAGAAC
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAA
* * *
17562 AAGGTGCCGCGGGGTTGTGGACTTTAAAAGGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAA-AGAAA
* *
17597 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
1 AAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAAA
* * *
17632 AAAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAA
*
17666 AAGGTGCCACGGAGTTGTGGACTTT--GAAG-AA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAA
* *
17697 AAGGTGCCACTGAGTCGTGGACTTTAAAAAG
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAG
17728 GTATTTGAAG
Statistics
Matches: 141, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
31 25 0.18
32 3 0.02
33 22 0.16
34 57 0.40
35 12 0.09
36 22 0.16
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.20
Consensus pattern (34 bp):
AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAA
Found at i:23013 original size:32 final size:32
Alignment explanation
Indices: 22977--23053 Score: 136
Period size: 32 Copynumber: 2.4 Consensus size: 32
22967 CATTTAATAG
*
22977 TGTATCGATATATCTGGGCAAATTTACCTGCA
1 TGTATCGATACATCTGGGCAAATTTACCTGCA
*
23009 TGTATCGATACATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACATCTGGGCAAATTTACCTGCA
23041 TGTATCGATACAT
1 TGTATCGATACAT
23054 TTGAGTAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATCTGGGCAAATTTACCTGCA
Found at i:23133 original size:13 final size:13
Alignment explanation
Indices: 23115--23139 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23105 CAAAAAAATA
23115 TGTATCGATACAT
1 TGTATCGATACAT
23128 TGTATCGATACA
1 TGTATCGATACA
23140 ACACTTTATG
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:28288 original size:19 final size:19
Alignment explanation
Indices: 28266--28328 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
28256 TAGCCAAACT
28266 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
28285 TGTATCGAT--A-C-A--A
1 TGTATCGATACACCAAGTA
28298 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
28317 TGTATCGATACA
1 TGTATCGATACA
28329 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 2 0.05
17 2 0.05
19 22 0.58
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACCAAGTA
Found at i:28302 original size:13 final size:13
Alignment explanation
Indices: 28284--28341 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
28274 TACACCAAGT
28284 ATGTATCGATACA
1 ATGTATCGATACA
28297 ATGTATCGATACACCAA
1 ATGTATCGAT--A-C-A
28314 GTATGTATCGATACA
1 --ATGTATCGATACA
28329 ATGTATCGATACA
1 ATGTATCGATACA
28342 CCAAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 2 0.05
16 2 0.05
17 2 0.05
19 10 0.26
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:28304 original size:32 final size:32
Alignment explanation
Indices: 28266--28361 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
28256 TAGCCAAACT
28266 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
28298 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
**
28330 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAGTA-TGTATCGATACA
28362 TTGGCTTGTA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 49 0.80
33 12 0.20
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAGTATGTATCGATACAA
Found at i:30594 original size:21 final size:21
Alignment explanation
Indices: 30561--30610 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
30551 TTGCAAGTTG
*
30561 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
30583 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
30604 AAATAAA
1 AAATAAA
30611 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:34525 original size:13 final size:13
Alignment explanation
Indices: 34507--34532 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34497 ACATTTTTCT
34507 TTGTATCGATACA
1 TTGTATCGATACA
34520 TTGTATCGATACA
1 TTGTATCGATACA
34533 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:34696 original size:20 final size:20
Alignment explanation
Indices: 34653--34698 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
34643 AAATCTTTTG
34653 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
34674 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
34694 CAAAA
1 CAAAA
34699 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:37100 original size:13 final size:13
Alignment explanation
Indices: 37082--37107 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37072 TACACCAAGT
37082 ATGTATCGATACA
1 ATGTATCGATACA
37095 ATGTATCGATACA
1 ATGTATCGATACA
37108 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:37105 original size:32 final size:33
Alignment explanation
Indices: 37064--37127 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
37054 TAGCCAAACT
**
37064 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
37096 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
37128 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:38612 original size:29 final size:30
Alignment explanation
Indices: 38549--38612 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
38539 TTCTTCTTTA
* *
38549 TTGA-TTTCTTTTCCTTTGAAATTTCTTGC
1 TTGATTTTCATTTCCTTTCAAATTTCTTGC
*
38578 TT-ATTTTCATTTCCTTTCATATTTCTTG-
1 TTGATTTTCATTTCCTTTCAAATTTCTTGC
38606 TTGATTT
1 TTGATTT
38613 CACCTCGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 3 0.10
29 27 0.90
ACGTcount: A:0.14, C:0.16, G:0.08, T:0.62
Consensus pattern (30 bp):
TTGATTTTCATTTCCTTTCAAATTTCTTGC
Found at i:46506 original size:13 final size:13
Alignment explanation
Indices: 46488--46516 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46478 ATATAGATTG
46488 CATTGTATCGATA
1 CATTGTATCGATA
46501 CATTGTATCGATA
1 CATTGTATCGATA
46514 CAT
1 CAT
46517 GACCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:46529 original size:20 final size:21
Alignment explanation
Indices: 46504--46556 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
46494 ATCGATACAT
**
46504 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
46524 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
46545 TGTATCGATACA
1 TGTATCGATACA
46557 AGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:46615 original size:19 final size:20
Alignment explanation
Indices: 46591--46640 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
46581 GCCAAACTTA
**
46591 TATCGATACA-CACAGTATG
1 TATCGATACATCACAAAATG
*
46610 TATCGATACATCATAAAATG
1 TATCGATACATCACAAAATG
46630 TATCGATACAT
1 TATCGATACAT
46641 TGGCTTGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (20 bp):
TATCGATACATCACAAAATG
Found at i:52585 original size:8 final size:8
Alignment explanation
Indices: 52572--52597 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
52562 ATTTGATTAA
52572 ATTTTGTG
1 ATTTTGTG
52580 ATTTTGTG
1 ATTTTGTG
52588 ATTTTGTG
1 ATTTTGTG
52596 AT
1 AT
52598 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:52958 original size:20 final size:20
Alignment explanation
Indices: 52923--52963 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
52913 TAAATTTCTT
52923 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
52945 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
52964 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:54671 original size:22 final size:21
Alignment explanation
Indices: 54646--54689 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
54636 CGAAATTTTC
*
54646 AAATTATTTTACTAAGGGGGAG
1 AAATT-TTTGACTAAGGGGGAG
*
54668 AAATTTTTGATTAAGGGGGAG
1 AAATTTTTGACTAAGGGGGAG
54689 A
1 A
54690 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (21 bp):
AAATTTTTGACTAAGGGGGAG
Found at i:57698 original size:13 final size:13
Alignment explanation
Indices: 57680--57710 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
57670 CGTTGGGCAT
*
57680 AATGTATCGATAC
1 AATGTATCAATAC
57693 AATGTATCAATAC
1 AATGTATCAATAC
57706 AATGT
1 AATGT
57711 CCTATGTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:57807 original size:19 final size:19
Alignment explanation
Indices: 57755--57810 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
57745 CTACCAATTT
*
57755 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
* *
57775 TATGTATTGATACAATGAA
1 CATGTATCGATACAATGAA
*
57794 CATGCATCGATACAATG
1 CATGTATCGATACAATG
57811 TATCGATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:58918 original size:20 final size:20
Alignment explanation
Indices: 58893--58947 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
58883 ATTTACCTAG
*
58893 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* *
58913 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
*
58933 ATGTATTGATACATT
1 ATGTATCGATACATT
58948 CTGTCATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:59008 original size:20 final size:20
Alignment explanation
Indices: 58985--59022 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
58975 TACATGTATG
*
58985 AATGTATGGATACATTCTTT
1 AATGTATCGATACATTCTTT
59005 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
59023 GTCTTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTCTTT
Found at i:59017 original size:73 final size:73
Alignment explanation
Indices: 58896--59035 Score: 192
Period size: 73 Copynumber: 1.9 Consensus size: 73
58886 TACCTAGATG
* * *
58896 TATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATTGATACATTCTGTCATTTTACC
1 TATCGATACATGTATCAATGTATCGATACATGTATGAATGTATCGATACATTCTGTCATTTTACC
58961 CAAAAATT
66 CAAAAATT
* * * * *
58969 TATCGATACATGTATGAATGTATGGATACAT-TCTTTAATGTATCGATACATTCTGTCTTTTTAC
1 TATCGATACATGTATCAATGTATCGATACATGT-ATGAATGTATCGATACATTCTGTCATTTTAC
59033 CCA
65 CCA
59036 GATGTATCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 1 0.02
73 57 0.98
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (73 bp):
TATCGATACATGTATCAATGTATCGATACATGTATGAATGTATCGATACATTCTGTCATTTTACC
CAAAAATT
Found at i:59069 original size:29 final size:29
Alignment explanation
Indices: 59005--59082 Score: 111
Period size: 29 Copynumber: 2.6 Consensus size: 29
58995 TACATTCTTT
*
59005 AATGTATCGATACATTCTGTCTTTTTACCCA
1 AATGTATCGATACA-T-TATCTTTTTACCCA
* *
59036 GATGTATCAATACATTATCTTTTTACCCA
1 AATGTATCGATACATTATCTTTTTACCCA
59065 AATGTATCGATACATTAT
1 AATGTATCGATACATTAT
59083 TCAATGTATC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 29 0.69
30 1 0.02
31 12 0.29
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (29 bp):
AATGTATCGATACATTATCTTTTTACCCA
Found at i:70776 original size:81 final size:81
Alignment explanation
Indices: 70641--70799 Score: 309
Period size: 81 Copynumber: 2.0 Consensus size: 81
70631 AAGACTCAGG
70641 CAGTACATGTTGTATCATACCACATGGCTAATTGCAAGGCTTAATCCTATCAAGTATCTATGTGA
1 CAGTACATGTTGTATCATACCACATGGCTAATTGCAAGGCTTAATCCTATCAAGTATCTATGTGA
70706 AGCCCCAGCACTACCC
66 AGCCCCAGCACTACCC
*
70722 CAGTACATGTTGTATCATACCACATGGCTAATTGCAAGGCTTGATCCTATCAAGTATCTATGTGA
1 CAGTACATGTTGTATCATACCACATGGCTAATTGCAAGGCTTAATCCTATCAAGTATCTATGTGA
70787 AGCCCCAGCACTA
66 AGCCCCAGCACTA
70800 TCAGGAATGC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (81 bp):
CAGTACATGTTGTATCATACCACATGGCTAATTGCAAGGCTTAATCCTATCAAGTATCTATGTGA
AGCCCCAGCACTACCC
Found at i:72785 original size:18 final size:18
Alignment explanation
Indices: 72762--72809 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
72752 TTCGTACCAA
72762 AAAAAAACCAAAAAAACG
1 AAAAAAACCAAAAAAACG
*
72780 AAAAAAACAAAAAAAACG
1 AAAAAAACCAAAAAAACG
72798 AAAAAAA-CAAAA
1 AAAAAAACCAAAA
72810 TAGAAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.00
Consensus pattern (18 bp):
AAAAAAACCAAAAAAACG
Found at i:72794 original size:8 final size:8
Alignment explanation
Indices: 72762--72863 Score: 68
Period size: 9 Copynumber: 12.8 Consensus size: 8
72752 TTCGTACCAA
72762 AAAAAAACC
1 AAAAAAA-C
72771 AAAAAAAC
1 AAAAAAAC
72779 GAAAAAAAC
1 -AAAAAAAC
72788 AAAAAAAAC
1 -AAAAAAAC
72797 GAAAAAAAC
1 -AAAAAAAC
* *
72806 -AAAATAG
1 AAAAAAAC
* *
72813 AAAAACAG
1 AAAAAAAC
*
72821 AAAAAATC
1 AAAAAAAC
72829 --AAAAAC
1 AAAAAAAC
*
72835 AAACAAAC
1 AAAAAAAC
72843 -AAAAAAC
1 AAAAAAAC
* *
72850 AAACAAAT
1 AAAAAAAC
72858 AAAAAA
1 AAAAAA
72864 GGGGTCTAGA
Statistics
Matches: 74, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
6 5 0.07
7 11 0.15
8 27 0.36
9 31 0.42
ACGTcount: A:0.80, C:0.13, G:0.04, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:72847 original size:15 final size:15
Alignment explanation
Indices: 72829--72863 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
72819 AGAAAAAATC
72829 AAAAACAAACAAACA
1 AAAAACAAACAAACA
*
72844 AAAAACAAACAAATA
1 AAAAACAAACAAACA
72859 AAAAA
1 AAAAA
72864 GGGGTCTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAAACAAACAAACA
Found at i:75937 original size:13 final size:13
Alignment explanation
Indices: 75919--75944 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75909 ATACAGACTG
75919 CATTGTATCGATA
1 CATTGTATCGATA
75932 CATTGTATCGATA
1 CATTGTATCGATA
75945 TATGACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:75960 original size:20 final size:21
Alignment explanation
Indices: 75935--75987 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
75925 ATCGATACAT
* **
75935 TGTATCGATATATGACCA-AA
1 TGTATCGATACATGAAAAGAA
75955 TGTATCGATACATGAAAAGAA
1 TGTATCGATACATGAAAAGAA
75976 TGTATCGATACA
1 TGTATCGATACA
75988 AGTCATTGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:76057 original size:13 final size:13
Alignment explanation
Indices: 76039--76063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76029 AGACACAGTA
76039 TGTATCGATACAT
1 TGTATCGATACAT
76052 TGTATCGATACA
1 TGTATCGATACA
76064 CCATAAAATG
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:77676 original size:9 final size:9
Alignment explanation
Indices: 77662--77692 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
77652 CATCAAGGAC
77662 GATGAAGAT
1 GATGAAGAT
77671 GATGAAGAT
1 GATGAAGAT
*
77680 GATGATGAT
1 GATGAAGAT
77689 GATG
1 GATG
77693 GTGACTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.26
Consensus pattern (9 bp):
GATGAAGAT
Found at i:82717 original size:20 final size:21
Alignment explanation
Indices: 82684--82736 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
82674 ACCCCTAGGC
*
82684 AGCACCCACCAGGTCACGACCG
1 AGCACCC-CCAGGTCACAACCG
82706 -GCACCCCCAGGTCACAACCG
1 AGCACCCCCAGGTCACAACCG
82726 AGCAGCCCCCA
1 AGCA-CCCCCA
82737 CACTAACAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 13 0.46
21 9 0.32
22 6 0.21
ACGTcount: A:0.26, C:0.49, G:0.21, T:0.04
Consensus pattern (21 bp):
AGCACCCCCAGGTCACAACCG
Found at i:84096 original size:23 final size:19
Alignment explanation
Indices: 84054--84091 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
84044 AAATAAATTT
84054 TATGATTAAGGGGGAGAAA
1 TATGATTAAGGGGGAGAAA
84073 TATGATTAAGGGGGAGAAA
1 TATGATTAAGGGGGAGAAA
84092 GAAATGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (19 bp):
TATGATTAAGGGGGAGAAA
Found at i:84142 original size:22 final size:21
Alignment explanation
Indices: 84117--84157 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
84107 CGAAAGTGTT
*
84117 AAATTGTTTTACTAAGGGGGGG
1 AAATT-TTTGACTAAGGGGGGG
*
84139 AAATTTTTGATTAAGGGGG
1 AAATTTTTGACTAAGGGGG
84158 AGAGAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.29, C:0.02, G:0.34, T:0.34
Consensus pattern (21 bp):
AAATTTTTGACTAAGGGGGGG
Found at i:84729 original size:13 final size:13
Alignment explanation
Indices: 84711--84739 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
84701 ATACAAACTG
84711 CATTGTATCGATA
1 CATTGTATCGATA
84724 CATTGTATCGATA
1 CATTGTATCGATA
84737 CAT
1 CAT
84740 GACCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:84752 original size:20 final size:21
Alignment explanation
Indices: 84727--84779 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
84717 ATCGATACAT
**
84727 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
84747 TGTATCGATACATGAAAAGAA
1 TGTATCGATACATGAAAAGAA
84768 TGTATCGATACA
1 TGTATCGATACA
84780 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:84849 original size:13 final size:13
Alignment explanation
Indices: 84831--84855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84821 ACACACAGTA
84831 TGTATCGATACAT
1 TGTATCGATACAT
84844 TGTATCGATACA
1 TGTATCGATACA
84856 CCATAAAATA
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:87681 original size:99 final size:100
Alignment explanation
Indices: 87570--87752 Score: 224
Period size: 99 Copynumber: 1.8 Consensus size: 100
87560 CAAAAAATGA
* * * * * *
87570 CAATGTGCTGATTCATGGCCAGCGACATTAGATTTAAAGAAGAA-TGCCAATGTGCTGAGACAAG
1 CAATATGCTGATTCAAGGCCAACGACATCAAACTTAAAGAAGAAGTGCCAATGTGCTGAGACAAG
*
87634 GCTAGCGACATTGGGCTTAGGAATGTTAAAGATGC
66 GCTAGCGACATGGGGCTTAGGAATGTTAAAGATGC
* * * * **
87669 CAATATGCTGATTCAAGGCCAACGATATCAAACTTAAATATGAAGGTGCCAATGTGTTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGACATCAAACTTAAAGAAGAA-GTGCCAATGTGCTGAGACAA
*
87734 GGCTAGCGATATGGGGCTT
65 GGCTAGCGACATGGGGCTT
87753 GTGCCAATGT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
99 35 0.51
101 33 0.49
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (100 bp):
CAATATGCTGATTCAAGGCCAACGACATCAAACTTAAAGAAGAAGTGCCAATGTGCTGAGACAAG
GCTAGCGACATGGGGCTTAGGAATGTTAAAGATGC
Found at i:87757 original size:39 final size:39
Alignment explanation
Indices: 87714--87861 Score: 125
Period size: 39 Copynumber: 3.6 Consensus size: 39
87704 AAATATGAAG
* *
87714 GTGCCAATGTGTTGATTCAAGGCTAGCGATATGGGGCTT
1 GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGGCTT
* * * *
87753 GTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGGT
1 GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGGC-T-----T
* * *
87798 AAGGTGCCAATATGTTGATTCAAGGCTAGCGATATTAGGCTT
1 ---GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGGCTT
*
87840 ATGCCAATGTGCTGATTCAAGG
1 GTGCCAATGTGCTGATTCAAGG
87862 TCAACGACAT
Statistics
Matches: 84, Mismatches: 16, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
39 50 0.60
40 1 0.01
42 1 0.01
45 1 0.01
47 1 0.01
48 30 0.36
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (39 bp):
GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGGCTT
Found at i:87923 original size:49 final size:48
Alignment explanation
Indices: 87841--88198 Score: 267
Period size: 49 Copynumber: 7.9 Consensus size: 48
87831 ATTAGGCTTA
* * *
87841 TGCCAATGTGCTGATTCAAGGTCAACGACATTGGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGG
* * *
87890 TGCCAATATGCTTATTCAAGGCCAGCGATATTGGGC-T-----T-A--
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGG
* * * *
87929 TGCTAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTGAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGG
* * * * *
87978 TGTCACTATGCTGATTCAAGGCCAGCAATATTGGACTT----A-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGG
* * *
88021 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTTTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGG
* * *
88070 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T---G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGG
* * *
88109 CGCCAATATGCTGATTCCAGGCCAGCGACATTGGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGG
* * * * *
88157 TGCCAATATGTTGATTCAAGGCTAGCAATATTGGGCTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
88199 GTGCCATGGA
Statistics
Matches: 237, Mismatches: 47, Indels: 51
0.71 0.14 0.15
Matches are distributed among these distances:
39 62 0.26
40 2 0.01
41 1 0.00
43 36 0.15
45 2 0.01
47 2 0.01
48 38 0.16
49 94 0.40
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGG
Found at i:87927 original size:88 final size:88
Alignment explanation
Indices: 87665--88195 Score: 663
Period size: 88 Copynumber: 6.0 Consensus size: 88
87655 AATGTTAAAG
* * * **** * *
87665 ATGCCAATATGCTGATTCAAGGCCAACGATATCAAACTTAAATATGAAGGTGCCAATGTGTTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGTTGAT
* *
87730 TCAAGGCTAGCGATATGGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
87753 GTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGGT-AAGGTGCCAATATGTTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGTTGAT
* *
87817 TCAAGGCTAGCGATATTAGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* *
87840 ATGCCAATGTGCTGATTCAAGGTCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTT-A
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATG-TTGA
87904 TTCAAGGCCAGCGATATTGGGCTT
65 TTCAAGGCCAGCGATATTGGGCTT
* * * * * *
87928 ATGCTAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTGAAGATGAAGGTGTCACTATGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGTTGAT
* *
87993 TCAAGGCCAGCAATATTGGACTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
88016 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTTTTAAAGATGAAGGTGCCAATATGC
1 --A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGT
*
88081 TGATTCAAGGCCAACGATATTGGGCTT
62 TGATTCAAGGCCAGCGATATTGGGCTT
** * * *
88108 GCGCCAATATGCTGATTCCAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGTTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGTTGAT
* *
88172 TCAAGGCTAGCAATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
88195 A
1 A
88196 AAGGTGCCAT
Statistics
Matches: 383, Mismatches: 53, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
87 118 0.31
88 185 0.48
89 2 0.01
90 1 0.00
92 77 0.20
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (88 bp):
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGTTGAT
TCAAGGCCAGCGATATTGGGCTT
Found at i:88071 original size:180 final size:178
Alignment explanation
Indices: 87659--88204 Score: 717
Period size: 180 Copynumber: 3.1 Consensus size: 178
87649 CTTAGGAATG
* * * * **** * *
87659 TTAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCAAACTTAAATATGAAGGTGCCAATGT
1 TTAAAGGTGCCAATGTGCTGATTCAAGGTCAACGACATTGGTCTTAAAGATGAAGGTGCCAATAT
* * *
87724 G-TTGATTCAAGGCTAGCGATATGGGGCTTGTGCCAATGTGCTGATTTAAGGCCAGCGACATTGG
66 GCTT-ATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
* *
87788 TCTTAAAGGTAAGGTGCCAATATGTTGATTCAAGGCTAGCGATATTAGGC
130 TCTTAAAGATAAGGTGCCAATATGTTGATTCAAGGCTAGCAATATT-GGC
87838 TT--A--TGCCAATGTGCTGATTCAAGGTCAACGACATTGGTCTTAAAGATGAAGGTGCCAATAT
1 TTAAAGGTGCCAATGTGCTGATTCAAGGTCAACGACATTGGTCTTAAAGATGAAGGTGCCAATAT
* * *
87899 GCTTATTCAAGGCCAGCGATATTGGGCTTATGCTAATGTGTTGATTCAAGGCCAGCGACATTGGT
66 GCTTATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
* * * * *
87964 CTTGAAGATGAAGGTGTCACTATGCTGATTCAAGGCCAGCAATATTGGAC
131 CTTAAAGAT-AAGGTGCCAATATGTTGATTCAAGGCTAGCAATATTGG-C
* *
88014 TTAAAGGTGCCAATGTGCTGATTCAAGG-CTAGCGACATTGGTTTTAAAGATGAAGGTGCCAATA
1 TTAAAGGTGCCAATGTGCTGATTCAAGGTC-AACGACATTGGTCTTAAAGATGAAGGTGCCAATA
* * * * *
88078 TGCTGATTCAAGGCCAACGATATTGGGCTTGCGCCAATATGCTGATTCCAGGCCAGCGACATTGG
65 TGCTTATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
*
88143 TCTTAAAGACAAGGTGCCAATATGTTGATTCAAGGCTAGCAATATTGGGC
130 TCTTAAAGATAAGGTGCCAATATGTTGATTCAAGGCTAGCAATATT-GGC
88193 TTAAAGGTGCCA
1 TTAAAGGTGCCA
88205 TGGAGTTGTG
Statistics
Matches: 320, Mismatches: 38, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
175 114 0.36
176 36 0.11
177 1 0.00
178 1 0.00
179 48 0.15
180 120 0.38
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (178 bp):
TTAAAGGTGCCAATGTGCTGATTCAAGGTCAACGACATTGGTCTTAAAGATGAAGGTGCCAATAT
GCTTATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
CTTAAAGATAAGGTGCCAATATGTTGATTCAAGGCTAGCAATATTGGC
Found at i:88305 original size:33 final size:33
Alignment explanation
Indices: 88195--88641 Score: 417
Period size: 34 Copynumber: 13.8 Consensus size: 33
88185 TATTGGGCTT
* *
88195 AAAGGTGCCATGGAGTTGTGGACTT-ACAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
88227 AAAGGGATGCCACGGACG-TGTGGGCTTAAAAGGGA
1 AAA-GG-TGCCACGGA-GTTGTGGACTTAAAAGGAA
* * *
88262 AAAGAGTGCCACGGAGTTCTAGACTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
88296 AAAGATGCCACGAAATTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
88329 CAAGGTGCCACAGAGTTGTGGAC-TAGAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTA-AAA-GGAA
* * * *
88363 AAGGGTGCCACGAAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
88395 AAAGGTGCCACGGAGTTGTAGACTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
88428 CAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
88461 AAAGATGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
88491 ---GGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
88522 AAAGGTGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
88552 ---GGTGCCACAGAGTTGTGGACTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* *
88583 AAAGGTGCCACAGAGTCGTGGACTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* *
88617 AAAGGTGCCACAGAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
88642 TGGGAAGAGA
Statistics
Matches: 349, Mismatches: 42, Indels: 47
0.80 0.10 0.11
Matches are distributed among these distances:
27 36 0.10
28 8 0.02
29 6 0.02
32 35 0.10
33 114 0.33
34 138 0.40
35 12 0.03
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:88497 original size:27 final size:27
Alignment explanation
Indices: 88466--88573 Score: 126
Period size: 27 Copynumber: 3.7 Consensus size: 27
88456 AGGAAAAAGA
*
88466 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGGG
*
88493 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACAGAGTTGTGGAC-TT-AAAAG-----GG
*
88527 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGGG
88554 TGCCACAGAGTTGTGGACTT
1 TGCCACAGAGTTGTGGACTT
88574 TGAAAAGAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
27 37 0.54
28 2 0.03
29 5 0.07
32 5 0.07
33 2 0.03
34 18 0.26
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (27 bp):
TGCCACAGAGTTGTGGACTTAAAAGGG
Found at i:88536 original size:61 final size:60
Alignment explanation
Indices: 88361--88607 Score: 318
Period size: 61 Copynumber: 4.0 Consensus size: 60
88351 CTAGAAAGGG
* *
88361 AAAAGGGTGCCAC-GAAGTCGTGGACTTAAAAAG-AAAAGGTGCCACGGAGTTGTAGACTT
1 AAAAGGGTGCCACAG-AGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
88420 AAAAAGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACT
1 -AAAAG-----GGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACT
88485 T
60 T
*
88486 AAAAGGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
88547 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
88608 TGAAAAGAAA
Statistics
Matches: 167, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
60 23 0.14
61 90 0.54
65 29 0.17
66 25 0.15
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.19
Consensus pattern (60 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:88665 original size:30 final size:30
Alignment explanation
Indices: 88521--89000 Score: 404
Period size: 30 Copynumber: 15.5 Consensus size: 30
88511 TTTAAAAAGA
* * *
88521 AAAAGGTGCCACGGAGTTGTGGAC-TT-A-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* * * *
88548 AAAGGGTGCCACAGAGTTGTGGACTTTGAAAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG---AG
* *
88581 AAAAAGGTGCCACAGAGTCGTGGACTTTGAAAAG
1 -AAAAGATGCCACTGAGTCGTGGACTTTG---AG
* * *
88615 AAAAAGGTGCCACAGAGTCGTGGACTTTGGG
1 -AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
88646 AAGAGATACCACTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
88676 AAGAGATTGCCACTGAGTCGTGGACTTAGA-
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
*
88706 AAAGAGATGCCACTGAGTTGTGGACTTTGAAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-AG
88738 AAAAAAGATGCCACTGAGTCGTGGACTTTG-G
1 --AAAAGATGCCACTGAGTCGTGGACTTTGAG
* * *
88769 -GAAGATGCCACTGAGTTGTGGATTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
88798 AAAAGATGCCACTGAGTCGTGGA-TTTAAAAG
1 AAAAGATGCCACTGAGTCGTGGACTTT--GAG
* * * *
88829 AAAAGGATGCCACTAAGTCGTGGGCTTAGAA
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
88860 AAAAGATGCCACTGAGTCGTGGA-TTTGGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTT-G-AG
*
88891 AAAAGGATGCCACTGAGTCGTGGACTTAGA-
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
*
88921 AAAGAGATGCCACTGAGTTGTGGACTTTGAAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-AG
** *
88953 AAAAAAGATGCCACTGAGTTATGGACTTAGA-
1 --AAAAGATGCCACTGAGTCGTGGACTTTGAG
88984 AAAGAGATGCCACTGAG
1 AAA-AGATGCCACTGAG
89001 GTCTGGCATT
Statistics
Matches: 388, Mismatches: 36, Indels: 55
0.81 0.08 0.11
Matches are distributed among these distances:
27 22 0.06
28 26 0.07
29 9 0.02
30 129 0.33
31 46 0.12
32 39 0.10
33 51 0.13
34 66 0.17
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.22
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:88870 original size:62 final size:60
Alignment explanation
Indices: 88582--89000 Score: 391
Period size: 62 Copynumber: 6.8 Consensus size: 60
88572 TTTGAAAAGA
* * * * **
88582 AAAAGG-TGCCACAGAGTCGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGACTTTGGG
1 AAAAGGATGCCACTGAGTCGTGGAC-TT--AGA-AAAAAGATGCCACTGAGTCGTGGA-TTTAAG
* * * * * *
88646 AAGA-GATACCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAGTCGTGGACTT-AG
1 AAAAGGATGCCACTGAGTCGTGGACTTAGAAAAAAGA-TGCCACTGAGTCGTGGATTTAAG
*
88705 AAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTT--G
1 AAAAG-GATGCCACTGAGTCGTGGAC-TT--AGAAAAAAGATGCCACTGAGTCGTGGA-TTTAAG
** * * * *
88768 GGAA-GATGCCACTGAGTTGTGGATTTTGAGAAAAGATGCCACTGAGTCGTGGATTTAAAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTAGAAAAAAGATGCCACTGAGTCGTGGATTT--AAG
* *
88829 AAAAGGATGCCACTAAGTCGTGGGCTTAGAAAAAAGATGCCACTGAGTCGTGGATTTGGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTAGAAAAAAGATGCCACTGAGTCGTGGATTT--AAG
* *
88891 AAAAGGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTAGAAAAAAGATGCCACTGAGTCGTGGA-TTT-AAG
* ** *
88953 AAAAAAGATGCCACTGAGTTATGGACTTAGAAAAGAGATGCCACTGAG
1 -AAAAGGATGCCACTGAGTCGTGGACTTAGAAAAAAGATGCCACTGAG
89001 GTCTGGCATT
Statistics
Matches: 300, Mismatches: 40, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
57 3 0.01
58 25 0.08
59 4 0.01
60 8 0.03
61 57 0.19
62 105 0.35
63 70 0.23
64 28 0.09
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (60 bp):
AAAAGGATGCCACTGAGTCGTGGACTTAGAAAAAAGATGCCACTGAGTCGTGGATTTAAG
Found at i:94112 original size:22 final size:21
Alignment explanation
Indices: 94070--94114 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
94060 AATGTGAAAA
* *
94070 TGAAGAATTTTGAGACGGATT
1 TGAAGAAATTTGAGAAGGATT
*
94091 TGAAGAAATTTGATGAATGATT
1 TGAAGAAATTTGA-GAAGGATT
94113 TG
1 TG
94115 TTATGGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.36
Consensus pattern (21 bp):
TGAAGAAATTTGAGAAGGATT
Found at i:95646 original size:16 final size:16
Alignment explanation
Indices: 95625--95655 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95615 CAACATTTCC
*
95625 TCTATTAAAACTTTTT
1 TCTATTAAAAATTTTT
95641 TCTATTAAAAATTTT
1 TCTATTAAAAATTTT
95656 GAAAGCCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (16 bp):
TCTATTAAAAATTTTT
Found at i:100402 original size:20 final size:20
Alignment explanation
Indices: 100357--100411 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
100347 ACCGTTGGAA
* *
100357 TAATGTATTGATATAATTCT
1 TAATGTATCGATACAATTCT
*
100377 TCATGTATCGATACAATATC-
1 TAATGTATCGATACAAT-TCT
100397 TAATGTATCGATACA
1 TAATGTATCGATACA
100412 TTTCACTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
TAATGTATCGATACAATTCT
Found at i:100485 original size:19 final size:19
Alignment explanation
Indices: 100440--100495 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
100430 CTACCAGTTT
*
100440 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
* *
100460 TATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
100479 CATGTATCGATACAATG
1 CATGTATCGATACAATG
100496 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:100498 original size:13 final size:13
Alignment explanation
Indices: 100480--100506 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100470 TACAATGAAC
100480 ATGTATCGATACA
1 ATGTATCGATACA
100493 ATGTATCGATACA
1 ATGTATCGATACA
100506 A
1 A
100507 GGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:101615 original size:27 final size:26
Alignment explanation
Indices: 101558--101633 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
101548 TATATGAGAA
* *
101558 AAAATTTAAAGAAAAATTCAATACGTTG
1 AAAATTTAATGAAAAATTC--TACATTG
*
101586 AAAGTTTAATGAAAAATTCTACATTAG
1 AAAATTTAATGAAAAATTCTACATT-G
* * *
101613 AAAATGTAATTAAGAATTCTA
1 AAAATTTAATGAAAAATTCTA
101634 TATAAAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.12
27 18 0.45
28 17 0.43
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.32
Consensus pattern (26 bp):
AAAATTTAATGAAAAATTCTACATTG
Found at i:107334 original size:52 final size:52
Alignment explanation
Indices: 107264--107384 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
107254 GAAAATTTAT
*
107264 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
107316 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
107368 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
107385 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:107397 original size:52 final size:51
Alignment explanation
Indices: 107264--107404 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
107254 GAAAATTTAT
107264 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* * *
107316 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
107368 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
107405 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:107411 original size:13 final size:13
Alignment explanation
Indices: 107393--107417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107383 CAAAGATCAG
107393 TGTATCGATACAA
1 TGTATCGATACAA
107406 TGTATCGATACA
1 TGTATCGATACA
107418 TGTGAGTAAT
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:107500 original size:13 final size:13
Alignment explanation
Indices: 107482--107506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107472 CAAAAAAATA
107482 TGTATCGATACAT
1 TGTATCGATACAT
107495 TGTATCGATACA
1 TGTATCGATACA
107507 ACATTTTATG
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:107502 original size:33 final size:33
Alignment explanation
Indices: 107460--107526 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
107450 AGTAGCTTAA
107460 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
107493 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
107526 A
1 A
107527 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:108460 original size:170 final size:171
Alignment explanation
Indices: 108118--108661 Score: 715
Period size: 170 Copynumber: 3.2 Consensus size: 171
108108 CCACTGTGCA
* * * * * * *
108118 GATTCAAGGCCTGCCACACTGGACTTAAAGATGATGAGGATGGAAAGTGATAAA-AGGACCAATA
1 GATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGA-GAAAAGTGATAAAGATG-CCAATA
* * * * * **
108182 CGTTGATTCACGGCCAACGATATTGGG-TTGAAAGATGAGAAAAAGGA--TAAAAGAGCCAATAT
64 TGTTGATTCATGGCCAACGATATTGGGCTT-AAAGATGAGAAAAAGGATGTCAACGTGCTGAT-T
* * * * * * *
108244 GC--GGCTAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCT
127 -CAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCT
*
108288 GATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATG
1 GATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATG
*
108353 TTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG-AAAAGGATGTCAACGTGCTGATTCAAG
66 TTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAG
108417 GCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCT
131 GCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCT
* * *
108458 GATTCAAGGCCAACGATATTGGACTTAAAAATGATGATGAGAAAAGTGATAAAGATGCCAATATG
1 GATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATG
108523 TTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAG
66 TTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAG
*
108588 GCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCT
131 GCCAGCTACATTGAACTTAAAGAT-GAAGA--TGCCAATATGCT
*
108632 GATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATTCAAGGCCAGCAATATTGGACTTAAAG
108662 GTGCCAATGT
Statistics
Matches: 332, Mismatches: 32, Indels: 16
0.87 0.08 0.04
Matches are distributed among these distances:
168 8 0.02
169 53 0.16
170 177 0.53
171 51 0.15
172 4 0.01
174 39 0.12
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (171 bp):
GATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAGATGCCAATATG
TTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAG
GCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCT
Found at i:108876 original size:49 final size:49
Alignment explanation
Indices: 108575--109769 Score: 1437
Period size: 49 Copynumber: 24.7 Consensus size: 49
108565 GGATGTCAAC
* *
108575 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
108627 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
108670 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCGAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
108722 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * **
108765 GTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGT-GGGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
108813 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* *
108862 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
108911 ATGCTGATTCAATGCCAGCGATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
108954 GTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * *
109003 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAAT
* *
109052 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * * * *
109101 ATGCTGAGTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* *
109150 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * * * *
109199 ATGCTGAGTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
109248 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * *
109297 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAAT
* *
109346 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * * * *
109395 ATGCTGAGTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
109444 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * *
109493 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAAT
* *
109542 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * *
109591 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAAT
* *
109640 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
109689 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
109738 GTGCTGAGTCAAAGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
109770 GAAGGGTTGC
Statistics
Matches: 985, Mismatches: 128, Indels: 63
0.84 0.11 0.05
Matches are distributed among these distances:
43 111 0.11
44 3 0.00
46 2 0.00
48 53 0.05
49 742 0.75
50 8 0.01
51 2 0.00
52 64 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
Found at i:109218 original size:196 final size:196
Alignment explanation
Indices: 108575--109769 Score: 1808
Period size: 196 Copynumber: 6.2 Consensus size: 196
108565 GGATGTCAAC
* *
108575 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT--AAAA-GTGCCAATATGCTGATTCAAG
*
108640 GCCAGCTATATTGGACTT-A-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
63 GCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC
*
108699 TTAAAGATGGAAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTT-A-----AAGG
128 TTAAAGAT--AAAA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
108758 TGCCAAT
190 TGCCAAT
* * * *** *
108765 GTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGT-GGGGTGCCAATGTGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
* * * * *
108829 AGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
66 AGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
* * *
108894 AAGAT-GAAGATGCCAATATGCTGATTCAATGCCAGCGATATTGGACTT-A-----AAGGTGCCA
131 AAGATAAAAG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCA
108952 AT
195 AT
* * *
108954 GTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
109019 AGCTATATTGGACTTAATGGTGCAA-GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
66 AGCTATATTGGACTTAATGGTG-AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
* *
109083 AAAGATAAAAGTGCCAATATGCTGAGTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCA
130 AAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCA
109148 AT
195 AT
*
109150 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGAGTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
*
109215 AGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
66 AGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
*
109280 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCA
131 AAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTG-AAGGTGCCA
109344 AT
195 AT
*
109346 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGAGTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
*
109411 AGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
66 AGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
*
109476 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGCAA-GTGCCA
131 AAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTG-AAGGTGCCA
109540 AT
195 AT
109542 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
109607 AGCTATATTGGACTTAATGGTGCAA-GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
66 AGCTATATTGGACTTAATGGTG-AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
* *
109671 AAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCA
130 AAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCA
109736 AT
195 AT
* * *
109738 GTGCTGAGTCAAAGCCAGCTATATTGGGCTTA
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTA
109770 GAAGGGTTGC
Statistics
Matches: 941, Mismatches: 44, Indels: 34
0.92 0.04 0.03
Matches are distributed among these distances:
186 37 0.04
187 1 0.00
188 1 0.00
189 83 0.09
190 154 0.16
191 6 0.01
192 48 0.05
195 4 0.00
196 603 0.64
197 4 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (196 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCC
AGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
AAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAA
T
Found at i:109988 original size:34 final size:34
Alignment explanation
Indices: 109817--110907 Score: 1140
Period size: 34 Copynumber: 32.6 Consensus size: 34
109807 AAAAAAAAGA
* *
109817 TGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-G
*
109852 TGCCACGGAGTTGTGGGCTTTG-AAAGAA-AAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
109884 TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA-G-AAGAAG-G
** * *
109921 TGCCACAAAGTTGTGGGATTT-AAGAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
109954 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
109988 TTGCCACCGACTTGTGTGGGCTTT-AGAA-AA-AA-G
1 -TGCCACGGA-GT-TGTGGGCTTTGAAAAGAAGAAGG
*
110021 TGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* *
110055 TGCCACGGAGTTGTGGGCTTTAAAAAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * * *
110089 TCCCACGGAGCTGTGGGCTTTAAAAAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
110123 TCCCACGGAGTTGTGGGCTTT----A-AAG-A-G
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* *
110150 TGCCACGGAGTTATGGGCTTTGAAAAGGAAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA-G-AAGAAG-G
**
110187 TGCCACAAAGTTGTGGGCTTT-AAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
110220 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
110254 TTGCCACCGACTTGTGTGGGCTTT-AGAA-AA-AA-G
1 -TGCCACGGA-GT-TGTGGGCTTTGAAAAGAAGAAGG
*
110287 TGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
110321 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
110355 TGCCACGGAGCTGTGGGCTTTAAAAAAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-GAAAAGAAGAAGG
*
110390 TCCCACGGAGTTGTGGGCTTT----A-AAG-A-G
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* *
110417 TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA-G--AAGAAGG
**
110454 TGCCACAAAGTTGTGGGCTTT-AAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
110487 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
110521 TTGCCACCGACTTGTGTGGGCTTT-AGAA-AA-AA-G
1 -TGCCACGGA-GT-TGTGGGCTTTGAAAAGAAGAAGG
*
110554 TGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
110588 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
110622 TGCCACGGAGCTGTGGGCTTTAAAAAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
110656 TCCCACGGAGTTGTGGGCTTT----A-AAG-A-G
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
110683 TGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAAA-G-AAGAAG-G
**
110720 TGCCACAAAGTTGTGGGCTTT-AAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
110753 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
* * *
110787 TTGCCACCGACTTGTGTGGGCTTT-AGAA-AA-AA-G
1 -TGCCACGGA-GT-TGTGGGCTTTGAAAAGAAGAAGG
*
110820 TGCCACGGAGTCGTGGGCTTTG-AAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
110853 TGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
*
110887 TCCCACGGAGTTGTGGGCTTT
1 TGCCACGGAGTTGTGGGCTTT
110908 AAAGAGTGCC
Statistics
Matches: 900, Mismatches: 85, Indels: 143
0.80 0.08 0.13
Matches are distributed among these distances:
27 62 0.07
28 3 0.00
29 9 0.01
30 41 0.05
31 18 0.02
32 63 0.07
33 120 0.13
34 330 0.37
35 97 0.11
36 39 0.04
37 118 0.13
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
Found at i:110363 original size:266 final size:266
Alignment explanation
Indices: 109854--110910 Score: 1963
Period size: 266 Copynumber: 4.0 Consensus size: 266
109844 AAAAAGAGTG
109854 CCACGGAGTTGTGGGCTTTGAAAGAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAG
1 CCACGGAGTTGTGGGCTTT-AAAG----AGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAG
* *
109919 AGTGCCACAAAGTTGTGGGATTTAAGAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
61 AGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
109984 AAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGA
126 AAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGA
*
110049 AGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTTAAAA
191 AGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTTAAAA
110114 AAAAGAAGGTC
256 AAAAGAAGGTC
*
110125 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGGAAAAAAGAGTGC
1 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGC
110190 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
66 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
110255 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
131 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
* *
110320 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGCTGTGGGCTTTAAAAAAAAA
196 GTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTT-AAAAAAAA
110385 GAAGGTC
260 GAAGGTC
*
110392 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAAAGTGC
1 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGC
110457 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
66 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
110522 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
131 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
* *
110587 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGCTGTGGGCTTTAAAAAAAAG
196 GTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTTAAAAAAAAG
110652 AAGGTC
261 AAGGTC
110658 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGC
1 CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGC
110723 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
66 CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
110788 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTG-AAAGAAGAAG
131 TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
*
110852 GTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGTTGTGGGCTTTAAA
196 GTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTTAAA
110911 GAGTGCCACG
Statistics
Matches: 773, Mismatches: 12, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
265 66 0.09
266 420 0.54
267 264 0.34
270 4 0.01
271 19 0.02
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (266 bp):
CCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGC
CACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
TGCCACCGACTTGTGTGGGCTTTAGAAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG
GTGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAGGTCCCACGGAGCTGTGGGCTTTAAAAAAAAG
AAGGTC
Found at i:110929 original size:27 final size:27
Alignment explanation
Indices: 110889--111059 Score: 99
Period size: 32 Copynumber: 5.7 Consensus size: 27
110879 AAAGAAGGTC
* *
110889 CCACGGAGTTGTGGGCTTTAAAGAGTG
1 CCACGGAGTCGTGGACTTTAAAGAGTG
* *
110916 CCACGGAGTCGTGGACTTTGAGACAAAATG
1 CCACGGAGTCGTGGACTTT-A-A-AGAGTG
*
110946 CCACTGAGTCGTGGACTTTAAAGAGAAGGATG
1 CCACGGAGTCGTGGACTTT-AA-AG-A-G-TG
* * *
110978 CCACTGCGTCGTGGACTTTGAGCAGAGATTG
1 CCACGGAGTCGTGGACTTT-A--A-AGAGTG
*
111009 CCACTTGAGTCGTGGACTTTGAGAAGAGATTG
1 CCAC-GGAGTCGTGGACTTT-A-AAGAG--TG
*
111041 CCACTGAGTCGTGGACTTT
1 CCACGGAGTCGTGGACTTT
111060 TTTTTTTATT
Statistics
Matches: 118, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
27 17 0.14
28 1 0.01
29 3 0.03
30 27 0.23
31 22 0.19
32 43 0.36
33 1 0.01
34 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (27 bp):
CCACGGAGTCGTGGACTTTAAAGAGTG
Found at i:111046 original size:63 final size:60
Alignment explanation
Indices: 110914--111059 Score: 188
Period size: 63 Copynumber: 2.4 Consensus size: 60
110904 CTTTAAAGAG
*
110914 TGCCACGGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTAAAGAGAAGGA
1 TGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTT--AGAGAAGGA
* *
110976 TGCCACTGCGTCGTGGACTTTGAG-CAGAGATTGCCACTTGAGTCGTGGACTTT-GAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCAC-TGAGTCGTGGACTTTAGAGAAG-GA
111038 TTGCCACTGAGTCGTGGACTTT
1 -TGCCACTGAGTCGTGGACTTT
111060 TTTTTTTATT
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
61 8 0.11
62 25 0.33
63 27 0.36
64 15 0.20
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (60 bp):
TGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTAGAGAAGGA
Found at i:111052 original size:31 final size:31
Alignment explanation
Indices: 110914--111059 Score: 183
Period size: 32 Copynumber: 4.7 Consensus size: 31
110904 CTTTAAAGAG
* *
110914 TGCCACGGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
110944 TGCCACTGAGTCGTGGACTTTAAAGAGAAG-GA-
1 TGCCACTGAGTCGTGGACTTT---GAGAAGAGAT
* *
110976 TGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
111007 TGCCACTTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCAC-TGAGTCGTGGACTTTGAGAAGAGAT
111039 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
111060 TTTTTTTATT
Statistics
Matches: 103, Mismatches: 5, Indels: 15
0.84 0.04 0.12
Matches are distributed among these distances:
29 5 0.05
30 22 0.21
31 21 0.20
32 50 0.49
33 5 0.05
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:111080 original size:15 final size:15
Alignment explanation
Indices: 111060--111089 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
111050 CGTGGACTTT
111060 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
*
111075 TTTTTTTTTTTTTTA
1 TTTTTTTATTTTTTA
111090 AAAAGGTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:112791 original size:21 final size:22
Alignment explanation
Indices: 112737--112796 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
112727 TACAAGGCCA
*
112737 TATTATTTCAATACAA--TGCC
1 TATTATATCAATACAATGTGCC
* *
112757 TATTGTATCTATACAATGTGCC
1 TATTATATCAATACAATGTGCC
112779 T-TTATATCAATACAATGT
1 TATTATATCAATACAATGT
112797 TGTGTTTTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 13 0.39
21 15 0.45
22 5 0.15
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (22 bp):
TATTATATCAATACAATGTGCC
Found at i:113509 original size:18 final size:19
Alignment explanation
Indices: 113486--113523 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
113476 AAAAAAGAAC
113486 AAAAAAGAT-AGAAA-AAAG
1 AAAAAAG-TGAGAAAGAAAG
113504 AAAAAAGTGAGAAAGAAAG
1 AAAAAAGTGAGAAAGAAAG
113523 A
1 A
113524 GAGATAGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 12 0.67
19 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAAAAGTGAGAAAGAAAG
Done.