Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold239
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: 1099591
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 28993 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:13763 original size:44 final size:45
Alignment explanation
Indices: 13698--14242 Score: 497
Period size: 44 Copynumber: 12.4 Consensus size: 45
13688 TAAAAAACAG
* * *
13698 CAGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * * *
13742 CAGATCATGTTTTCCTATATTGGTAGCCAAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * *
13786 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * *
13830 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAA
1 -CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * * *
13875 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATTGAATAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * *
13919 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * * * *
13963 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCCAAGATAG
1 -CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
** * *
14008 CAGATCCCGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * * *
14051 CAGATCTTTTCTTCCCATACTGGTGGCGAAGTAGATCAAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * * *
14095 GTAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAA
1 -CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * *
14140 CAGATCCTGTCTTCCTATATTGGTAGCCAAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
* * * *
14184 CAGATCCTGTCTTCCTATATTGGTA-AGAAGTGGATCGAAGA-AG
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
*
14227 CAGATCTTGCCTTCCT
1 CAGATCTTGTCTTCCT
14243 GCACCGACAG
Statistics
Matches: 401, Mismatches: 85, Indels: 31
0.78 0.16 0.06
Matches are distributed among these distances:
43 50 0.12
44 246 0.61
45 105 0.26
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAA
Found at i:13934 original size:133 final size:133
Alignment explanation
Indices: 13696--14240 Score: 889
Period size: 133 Copynumber: 4.1 Consensus size: 133
13686 GCTAAAAAAC
* * *
13696 AGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCATGTTTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
13761 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
13826 GAA
131 GAA
13829 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
* * *
13894 TTGGTAGCGAAGTGGATTGAATATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
13959 GAA
131 GAA
* * *
13962 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGATAGCAGATCCCGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
* * *
14027 TTGGTAG-GAAGTGGATCGAAGATGCAGATCTTTTCTTCCCATACTGGTGGCGAAGTAGATCAAA
66 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
14091 GAA
131 GAA
*
14094 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
* * * ** *
14159 TTGGTAGCCAAGTGGATCGAAGATGCAGATCCTGTCTTCCTATATTGGT-AAGAAGTGGATCGAA
66 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
14223 G-A
131 GAA
*
14225 AGCAGATCTTGCCTTC
1 AGCAGATCTTGTCTTC
14241 CTGCACCGAC
Statistics
Matches: 383, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
131 15 0.04
132 136 0.36
133 232 0.61
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (133 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
GAA
Found at i:14174 original size:265 final size:264
Alignment explanation
Indices: 13696--14240 Score: 885
Period size: 265 Copynumber: 2.1 Consensus size: 264
13686 GCTAAAAAAC
* * * *
13696 AGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCATGTTTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGATAACAGATCACGTCTTCCTATA
*
13761 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAA
13826 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCT
131 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCT
* * * * **
13891 ATATTGGTAGCGAAGTGGATTGAATATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
196 ATATTGGTAGCCAAGTGGATCGAAGATGCAGATCCTGTCTTCCCATACTGGT-AAGAAGTAGATC
13956 GAAGAA
260 GAAG-A
* *
13962 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGATAGCAGATCCCGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGATAACAGATCACGTCTTCCTATA
* *
14027 TTGGTAG-GAAGTGGATCGAAGATGCAGATCTTTTCTTCCCATACTGGTGGCGAAGTAGATCAAA
66 TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAA
*
14091 GAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCT
131 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCT
* * *
14156 ATATTGGTAGCCAAGTGGATCGAAGATGCAGATCCTGTCTTCCTATATTGGTAAGAAGTGGATCG
196 ATATTGGTAGCCAAGTGGATCGAAGATGCAGATCCTGTCTTCCCATACTGGTAAGAAGTAGATCG
14221 AAGA
261 AAGA
*
14225 AGCAGATCTTGCCTTC
1 AGCAGATCTTGTCTTC
14241 CTGCACCGAC
Statistics
Matches: 259, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
263 16 0.06
264 13 0.05
265 164 0.63
266 66 0.25
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (264 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGATAACAGATCACGTCTTCCTATA
TTGGTAGCCAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAA
GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCT
ATATTGGTAGCCAAGTGGATCGAAGATGCAGATCCTGTCTTCCCATACTGGTAAGAAGTAGATCG
AAGA
Found at i:14282 original size:44 final size:44
Alignment explanation
Indices: 14233--14370 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 44
14223 GAAGCAGATC
14233 TTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCT
1 TTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCT
* **** * * * * * * * *
14277 TTGCCTCCCTGGGTTG-CAACGGAGCAGGTTAAAAATAGCAGAT
1 TTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCT
* * *
14320 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCC
1 -TTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCT
14365 TTGCCT
1 TTGCCT
14371 CCCTAGGTTG
Statistics
Matches: 63, Mismatches: 29, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
43 19 0.30
44 28 0.44
45 16 0.25
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (44 bp):
TTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCT
Found at i:14374 original size:88 final size:88
Alignment explanation
Indices: 14225--14446 Score: 363
Period size: 88 Copynumber: 2.5 Consensus size: 88
14215 GGATCGAAGA
* * *
14225 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCTTTGCCTCCCTGGG
1 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGG
*
14290 TTGCAACGGAGCAGGTTAAAAAT
66 TTGCAACGGAACAGGTTAAAAAT
*
14313 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGG
1 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGG
* *
14378 TTGCAGCGGAACAGTTTAAAAAT
66 TTGCAACGGAACAGGTTAAAAAT
* *
14401 AGCAGATCTTGCCTTCCTGCACCGACAACAAAGCAGATCGAAGACA
1 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACA
14447 TCAGTCTTAT
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 125 1.00
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.19
Consensus pattern (88 bp):
AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGG
TTGCAACGGAACAGGTTAAAAAT
Found at i:14855 original size:44 final size:44
Alignment explanation
Indices: 14759--14916 Score: 135
Period size: 44 Copynumber: 3.7 Consensus size: 44
14749 AAGATGACGA
* *
14759 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATG
* * * *
14803 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAATCCACA-G
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATG
** * * * * * * *
14847 ATCTTATCTTTCTGAAGTTGCTGTAGAGTAGA-TCACGTC--GG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATG
*
14888 CTCTTATCTCCCTGAAGTTGCAGTGGAGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGC
14917 GAACTCAAGA
Statistics
Matches: 89, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
41 24 0.27
43 3 0.03
44 61 0.69
45 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATG
Found at i:21315 original size:22 final size:22
Alignment explanation
Indices: 21290--21333 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21280 TACCTTCATA
21290 CTTTAAAGCTTCAAACCAAACT
1 CTTTAAAGCTTCAAACCAAACT
* * *
21312 CTTTAAATCTTGATACCAAACT
1 CTTTAAAGCTTCAAACCAAACT
21334 TAAATTTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.32
Consensus pattern (22 bp):
CTTTAAAGCTTCAAACCAAACT
Found at i:25051 original size:11 final size:11
Alignment explanation
Indices: 25035--25059 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25025 AGTCACGAAT
25035 CGTTTCTAAAG
1 CGTTTCTAAAG
25046 CGTTTCTAAAG
1 CGTTTCTAAAG
25057 CGT
1 CGT
25060 CAAAGGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (11 bp):
CGTTTCTAAAG
Found at i:31413 original size:50 final size:50
Alignment explanation
Indices: 31349--31497 Score: 172
Period size: 50 Copynumber: 3.0 Consensus size: 50
31339 TGTCATATCT
* ** * *
31349 CAGATATGGTCTTACATGAGATTTCTCATATAGGTGCCCATGCCATGTCC
1 CAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCC
* ** * * *
31399 TAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCC
* * *
31449 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 CAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTC
31498 TCATCTCGGT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.28
Consensus pattern (50 bp):
CAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCC
Found at i:31504 original size:24 final size:24
Alignment explanation
Indices: 31472--31521 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
31462 ACATGGGACC
31472 TCTCATCTCGGTGCCAACGCCATG
1 TCTCATCTCGGTGCCAACGCCATG
31496 TCTCATCTCGGTGCCAACGCCATG
1 TCTCATCTCGGTGCCAACGCCATG
31520 TC
1 TC
31522 CCAGACATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.38, G:0.20, T:0.26
Consensus pattern (24 bp):
TCTCATCTCGGTGCCAACGCCATG
Found at i:39441 original size:25 final size:25
Alignment explanation
Indices: 39413--39585 Score: 172
Period size: 25 Copynumber: 7.4 Consensus size: 25
39403 GGAGTTTAGC
*
39413 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATTA
* *
39438 GTGCTATCTGATTATTAGCACGTTA
1 GTGCTCTCTGATTATTAGCACATTA
* * *
39463 TTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATTA
* *
39488 GTGCTCTCTTATTACTAGCAC----
1 GTGCTCTCTGATTATTAGCACATTA
39509 --GCTCTCTGATTATTAGCACATTA
1 GTGCTCTCTGATTATTAGCACATTA
*
39532 GTGCTCTCTG--T-TTAGCACATTT
1 GTGCTCTCTGATTATTAGCACATTA
*
39554 GTGCTCTCTG--TA-TAGCACTTTA
1 GTGCTCTCTGATTATTAGCACATTA
39576 GTGCTCTCTG
1 GTGCTCTCTG
39586 TTTAATAGTG
Statistics
Matches: 127, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
19 17 0.13
22 39 0.31
23 1 0.01
25 70 0.55
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATTA
Found at i:39514 original size:19 final size:19
Alignment explanation
Indices: 39490--39527 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
39480 GCACGTCAGT
*
39490 GCTCTCTTATTACTAGCAC
1 GCTCTCTGATTACTAGCAC
*
39509 GCTCTCTGATTATTAGCAC
1 GCTCTCTGATTACTAGCAC
39528 ATTAGTGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (19 bp):
GCTCTCTGATTACTAGCAC
Found at i:39549 original size:22 final size:22
Alignment explanation
Indices: 39521--39589 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
39511 TCTCTGATTA
39521 TTAGCACATTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
*
39543 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* *
39565 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
39587 TTA
1 TTA
39590 ATAGTGCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:50972 original size:38 final size:39
Alignment explanation
Indices: 50920--51011 Score: 116
Period size: 38 Copynumber: 2.4 Consensus size: 39
50910 AGTTTAAGTC
* * * *
50920 TTTAACTATATCATAATTTGAACAT-TATTAATATGAG-T
1 TTTAATTATGTCATAATCTGAACATCT-TTAATAAGAGTT
*
50958 TTTAATTATGTCATAATCTGAACATCTTTAATAAGGGTT
1 TTTAATTATGTCATAATCTGAACATCTTTAATAAGAGTT
50997 TTTAATTATGTCATA
1 TTTAATTATGTCATA
51012 GTTTAGGACA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
38 30 0.64
39 17 0.36
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.46
Consensus pattern (39 bp):
TTTAATTATGTCATAATCTGAACATCTTTAATAAGAGTT
Found at i:62179 original size:18 final size:17
Alignment explanation
Indices: 62151--62185 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62141 NNNNNNNAGA
*
62151 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62168 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62186 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62442 original size:16 final size:16
Alignment explanation
Indices: 62421--62456 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
62411 GATTTGCTAT
*
62421 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
62437 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
62453 TACA
1 TACA
62457 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:64336 original size:332 final size:333
Alignment explanation
Indices: 63718--64383 Score: 1316
Period size: 332 Copynumber: 2.0 Consensus size: 333
63708 ATAAAATAAA
63718 ATATAAGTAGAATAATTTATATTTAATTTATCAAATACAAAAATCAATCAAAACTCTAACAAAAA
1 ATATAAGTAG-ATAATTTATATTTAATTTATCAAATACAAAAATCAATCAAAACTCTAACAAAAA
63783 TTAAAATAAAAAGGAAGAATAGAGATATTACTAAACGTTGAGGCCTATGAAACACAATTTCCTTA
65 TTAAAATAAAAAGGAAGAATAGAGATATTACTAAACGTTGAGGCCTATGAAACACAATTTCCTTA
63848 AGACAGATTCGGCCGCTCCTACAGTACTTGGAGAAACGTTGGTCGAATGTCTCCCAGGATACAAC
130 AGACAGATTCGGCCGCTCCTACAGTACTTGGAGAAACGTTGGTCGAATGTCTCCCAGGATACAAC
63913 AACACAATGATCAAAGCAGCAGCACCTTTGCAGCGATCAACGAACAAACGATGCATTTTTCTATC
195 AACACAATGATCAAAGCAGCAGCACCTTTGCAGCGATCAACGAACAAACGATGCATTTTTCTATC
63978 ATCGGAACGTTTGAAAAATACGAAGAAGAAAAGAAGAGTTTTTTAGAGCAACAAAATTTCGGTGT
260 ATCGGAACGTTTGAAAAATACGAAGAAGAAAAGAAGAGTTTTTTAGAGCAACAAAATTTCGGTGT
64043 AAGAGAATT
325 AAGAGAATT
64052 ATATAAGTAG-TAATTTATATTTAATTTATCAAATACAAAAATCAATCAAAACTCTAACAAAAAT
1 ATATAAGTAGATAATTTATATTTAATTTATCAAATACAAAAATCAATCAAAACTCTAACAAAAAT
64116 TAAAATAAAAAGGAAGAATAGAGATATTACTAAACGTTGAGGCCTATGAAACACAATTTCCTTAA
66 TAAAATAAAAAGGAAGAATAGAGATATTACTAAACGTTGAGGCCTATGAAACACAATTTCCTTAA
64181 GACAGATTCGGCCGCTCCTACAGTACTTGGAGAAACGTTGGTCGAATGTCTCCCAGGATACAACA
131 GACAGATTCGGCCGCTCCTACAGTACTTGGAGAAACGTTGGTCGAATGTCTCCCAGGATACAACA
64246 ACACAATGATCAAAGCAGCAGCACCTTTGCAGCGATCAACGAACAAACGATGCATTTTTCTATCA
196 ACACAATGATCAAAGCAGCAGCACCTTTGCAGCGATCAACGAACAAACGATGCATTTTTCTATCA
64311 TCGGAACGTTTGAAAAATACGAAGAAGAAAAGAAGAGTTTTTTAGAGCAACAAAATTTCGGTGTA
261 TCGGAACGTTTGAAAAATACGAAGAAGAAAAGAAGAGTTTTTTAGAGCAACAAAATTTCGGTGTA
64376 AGAGAATT
326 AGAGAATT
64384 TGAGAGTGTG
Statistics
Matches: 332, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
332 322 0.97
334 10 0.03
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (333 bp):
ATATAAGTAGATAATTTATATTTAATTTATCAAATACAAAAATCAATCAAAACTCTAACAAAAAT
TAAAATAAAAAGGAAGAATAGAGATATTACTAAACGTTGAGGCCTATGAAACACAATTTCCTTAA
GACAGATTCGGCCGCTCCTACAGTACTTGGAGAAACGTTGGTCGAATGTCTCCCAGGATACAACA
ACACAATGATCAAAGCAGCAGCACCTTTGCAGCGATCAACGAACAAACGATGCATTTTTCTATCA
TCGGAACGTTTGAAAAATACGAAGAAGAAAAGAAGAGTTTTTTAGAGCAACAAAATTTCGGTGTA
AGAGAATT
Found at i:76784 original size:17 final size:18
Alignment explanation
Indices: 76758--76791 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
76748 TATTCTTTAA
*
76758 AATTTTAAAA-TAAAATC
1 AATTTAAAAATTAAAATC
76775 AATTTAAAAATTAAAAT
1 AATTTAAAAATTAAAAT
76792 TAAAATGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTTAAAAATTAAAATC
Found at i:81236 original size:25 final size:25
Alignment explanation
Indices: 81208--81256 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
81198 AAATCTTTGT
*
81208 ACAAAAAGTTTAAAGGATAATACAA
1 ACAAAAAGTTCAAAGGATAATACAA
81233 ACAAAAAGTTCAAAGGATAATACA
1 ACAAAAAGTTCAAAGGATAATACA
81257 TTTACAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.18
Consensus pattern (25 bp):
ACAAAAAGTTCAAAGGATAATACAA
Found at i:81303 original size:16 final size:16
Alignment explanation
Indices: 81282--81312 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
81272 CAATCAATTC
*
81282 TTAGATATCATTTTTG
1 TTAGATATAATTTTTG
81298 TTAGATATAATTTTT
1 TTAGATATAATTTTT
81313 TCTCGGTACT
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:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (16 bp):
TTAGATATAATTTTTG
Found at i:94375 original size:30 final size:30
Alignment explanation
Indices: 94341--94399 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
94331 AATTGCCGGA
94341 AAATTTGAATCCAATTTCAAATGATTCGAG
1 AAATTTGAATCCAATTTCAAATGATTCGAG
*
94371 AAATTTGAATCCAATTTCAAATTATTCGA
1 AAATTTGAATCCAATTTCAAATGATTCGA
94400 AAAGCAAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.36
Consensus pattern (30 bp):
AAATTTGAATCCAATTTCAAATGATTCGAG
Found at i:95029 original size:19 final size:19
Alignment explanation
Indices: 95005--95041 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
94995 GAAAGAAGAA
* *
95005 AAGGAAAACATGGAAAAAG
1 AAGGAAAAAAGGGAAAAAG
95024 AAGGAAAAAAGGGAAAAA
1 AAGGAAAAAAGGGAAAAA
95042 ATGGAAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.27, T:0.03
Consensus pattern (19 bp):
AAGGAAAAAAGGGAAAAAG
Found at i:99169 original size:27 final size:27
Alignment explanation
Indices: 99133--99274 Score: 169
Period size: 27 Copynumber: 5.3 Consensus size: 27
99123 AGAGGTCAAT
*
99133 AAATGACCGAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* * *
99160 AAATGACCGAGTTAACCCCACAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
*
99187 AAATGACCGAGTTACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* **
99214 AAATGATCC-AAATACCCTTATAGGGTA
1 AAATGA-CCGAATTACCCCCATAGGGTA
* * *
99241 AAATGGCCGAAATACCCCCATTGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
99268 AAATGAC
1 AAATGAC
99275 TGTTATGGCC
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
26 2 0.02
27 96 0.96
28 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCATAGGGTA
Found at i:99648 original size:28 final size:27
Alignment explanation
Indices: 99607--99677 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
99597 ATTGCACTGT
*
99607 ATTGATACTATATTGGGCTAAGGCCCAC
1 ATTG-TACTGTATTGGGCTAAGGCCCAC
* *
99635 ATTGTTACTGTATTAGGCTAGGGCCCAC
1 ATTG-TACTGTATTGGGCTAAGGCCCAC
*
99663 ACTGTACTGTTATTG
1 ATTGTACTG-TATTG
99678 AATAGGGCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
27 5 0.14
28 31 0.86
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (27 bp):
ATTGTACTGTATTGGGCTAAGGCCCAC
Found at i:101551 original size:6 final size:6
Alignment explanation
Indices: 101540--101568 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
101530 TAGAAAATTC
101540 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
101569 GTAGATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:101649 original size:83 final size:84
Alignment explanation
Indices: 101536--101705 Score: 333
Period size: 83 Copynumber: 2.0 Consensus size: 84
101526 AGTTTAGAAA
101536 ATTCTAAAAATAAAAATAAAAATAAAAATAAAAGTAGATAAAAATTGTAAAATTATATAAAGTGA
1 ATTCTAAAAATAAAAATAAAAATAAAAATAAAAGTAGATAAAAATTGTAAAATTATATAAAGTGA
101601 GGTAAAATGATAGGAAAAT
66 GGTAAAATGATAGGAAAAT
101620 ATTCTAAAAAT-AAAATAAAAATAAAAATAAAAGTAGATAAAAATTGTAAAATTATATAAAGTGA
1 ATTCTAAAAATAAAAATAAAAATAAAAATAAAAGTAGATAAAAATTGTAAAATTATATAAAGTGA
101684 GGTAAAATGATAGGAAAAT
66 GGTAAAATGATAGGAAAAT
101703 ATT
1 ATT
101706 TTTAAACCCT
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 75 0.87
84 11 0.13
ACGTcount: A:0.61, C:0.01, G:0.12, T:0.26
Consensus pattern (84 bp):
ATTCTAAAAATAAAAATAAAAATAAAAATAAAAGTAGATAAAAATTGTAAAATTATATAAAGTGA
GGTAAAATGATAGGAAAAT
Found at i:116052 original size:24 final size:24
Alignment explanation
Indices: 116024--116070 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
116014 ACTTTAGCAG
116024 ATAAACGCCGCTAAAGATCATGAA
1 ATAAACGCCGCTAAAGATCATGAA
116048 ATAAACGCCGCTAAAGATCATGA
1 ATAAACGCCGCTAAAGATCATGA
116071 CCTTTAGCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (24 bp):
ATAAACGCCGCTAAAGATCATGAA
Found at i:116098 original size:43 final size:43
Alignment explanation
Indices: 116050--116322 Score: 266
Period size: 43 Copynumber: 6.3 Consensus size: 43
116040 ATCATGAAAT
* *
116050 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTACCAC
* *
116093 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAT
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTACCAC
* * *
116136 AAACGTCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTACCAC
*
116179 AAACGCCGCTAAAGACCA-GTACCTTTAGCGGCGCTTCTACCAC
1 AAACGCCGCTAAAGACCATG-ACCTTTAGCGGCGCTTTTACCAC
* ** * * * **
116222 AAACTTTTACCGCTAAAGGTCATAACTTTTAGCGGCGCTTATATTAC
1 AAAC----GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTACCAC
* * * * **
116269 AAACGCCGCTATAA-A-AATGACTTTTAGCGAC-ATTTTTTCAC
1 AAACGCCGCTA-AAGACCATGACCTTTAGCGGCGCTTTTACCAC
116310 AAACGCCGCTAAA
1 AAACGCCGCTAAA
116323 AACATAACTT
Statistics
Matches: 195, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
40 2 0.01
41 17 0.09
42 14 0.07
43 126 0.65
44 2 0.01
47 34 0.17
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTACCAC
Found at i:116293 original size:42 final size:41
Alignment explanation
Indices: 116242--116335 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
116232 CGCTAAAGGT
* *
116242 CATAACTTTTAGCGGCGCTTATATT-ACAAACGCCGCTATAAAA
1 CATAACTTTTAGCGAC-ATT-TATTCACAAACGCCGCTA-AAAA
* *
116285 -ATGACTTTTAGCGACATTTTTTCACAAACGCCGCTAAAAA
1 CATAACTTTTAGCGACATTTATTCACAAACGCCGCTAAAAA
116325 CATAACTTTTA
1 CATAACTTTTA
116336 AAAAAATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 7 0.16
41 24 0.55
42 13 0.30
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (41 bp):
CATAACTTTTAGCGACATTTATTCACAAACGCCGCTAAAAA
Found at i:121385 original size:40 final size:40
Alignment explanation
Indices: 121285--121386 Score: 186
Period size: 41 Copynumber: 2.5 Consensus size: 40
121275 TTATTTTTGT
121285 GGCGTTTTTTATAAAAACGCCGCTATTGCTTACCTTTGGC
1 GGCGTTTTTTATAAAAACGCCGCTATTGCTTACCTTTGGC
121325 GGCGTTTTTTTATAAAAACGCCGCTATTGCTTACCTTTGGC
1 GGCG-TTTTTTATAAAAACGCCGCTATTGCTTACCTTTGGC
*
121366 GGCGTTTTTCATAAAAACGCC
1 GGCGTTTTTTATAAAAACGCC
121387 ACAAAGAATT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
40 20 0.33
41 40 0.67
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (40 bp):
GGCGTTTTTTATAAAAACGCCGCTATTGCTTACCTTTGGC
Found at i:121757 original size:148 final size:150
Alignment explanation
Indices: 121548--121919 Score: 561
Period size: 149 Copynumber: 2.5 Consensus size: 150
121538 ATATTTTGTG
* * * * * *
121548 GCGTTTTTTATAAAAATGCCGCTAAAAAATTATTTTATTTGGAATAAAATGACACTATTTTGCTA
1 GCGTTTTTCATAAAAACGCAGC-AAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGCTA
121613 TGCTAAAAGGGCGCTA-TTTTTTAAAGTAAAATTA-TTTTTTGTGGCATTTTTTTATAAAAACAC
65 TGCTAAAAGGGCGCTATTTTTTTAAAGTAAAATTATTTTTTTGTGGCATTTTTTTATAAAAACAC
*
121676 CGCTATTACTTACTTTTTGCA
130 CGCTATTACTTACCTTTTGCA
*
121697 GCGTTTGTCATAAAAACGCAGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGCTAT
1 GCGTTTTTCATAAAAACGCAGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGCTAT
* * *
121762 -ATAAAATGGCGCTATTTTTTTAAAGTAAAATTATTTTTTTGTGGCATTTTTTTATAAAAACGCC
66 GCTAAAAGGGCGCTATTTTTTTAAAGTAAAATTATTTTTTTGTGGCATTTTTTTATAAAAACACC
* **
121826 GCTATTGCTTACCTTTTGTG
131 GCTATTACTTACCTTTTGCA
*
121846 GCGTTTTTCATAAAAAAACGCTGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGCT
1 GCGTTTTTCAT--AAAAACGCAGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGCT
121911 ATGCTAAAA
64 ATGCTAAAA
121920 ATCTTTTATT
Statistics
Matches: 201, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
147 12 0.06
148 58 0.29
149 73 0.36
151 53 0.26
152 5 0.02
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.40
Consensus pattern (150 bp):
GCGTTTTTCATAAAAACGCAGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTTTTGCTAT
GCTAAAAGGGCGCTATTTTTTTAAAGTAAAATTATTTTTTTGTGGCATTTTTTTATAAAAACACC
GCTATTACTTACCTTTTGCA
Found at i:123171 original size:21 final size:21
Alignment explanation
Indices: 123147--123200 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
123137 TGAATCCATA
* * *
123147 AACCCTAAATCCCTAACTCTT
1 AACCCTAAACCCCTAACCCCT
123168 AACCTCT-AACCCCTAACCCCT
1 AACC-CTAAACCCCTAACCCCT
123189 AACCCCTAAACC
1 AA-CCCTAAACC
123201 TTAAATTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCTAAACCCCTAACCCCT
Found at i:123184 original size:14 final size:14
Alignment explanation
Indices: 123157--123197 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
123147 AACCCTAAAT
* *
123157 CCCTAACTCTTAAC
1 CCCTAACCCCTAAC
*
123171 CTCTAACCCCTAAC
1 CCCTAACCCCTAAC
123185 CCCTAACCCCTAA
1 CCCTAACCCCTAA
123198 ACCTTAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.29, C:0.49, G:0.00, T:0.22
Consensus pattern (14 bp):
CCCTAACCCCTAAC
Found at i:123243 original size:14 final size:15
Alignment explanation
Indices: 123224--123256 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
123214 CTTAAATCAG
123224 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
123238 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
123253 AATC
1 AATC
123257 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:123660 original size:41 final size:41
Alignment explanation
Indices: 123596--123750 Score: 202
Period size: 41 Copynumber: 3.8 Consensus size: 41
123586 TGTTTTTGCA
* * * ** * *
123596 GCGCTTTTTCAAAAACACTGCTAAAGCCCTGAACATTAGTG
1 GCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTAGCG
* ** *
123637 GCGCTTCTTGGAAAACGCCGCTAAAGATCTGAGCACTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTAGCG
123678 GCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTAGCG
1 GCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTAGCG
*
123719 GCGCTTTTTTAAAAACGCCACTAAAGATCTGA
1 GCGCTTTTTTAAAAACGCCGCTAAAGATCTGA
123751 AAGGTACAAA
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 99 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (41 bp):
GCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTAGCG
Found at i:123860 original size:41 final size:41
Alignment explanation
Indices: 123802--123883 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
123792 GTTTTTCAAT
* **
123802 AGAGCATTAGCGCCGCTTCTTCAAAAACGCCGCTAAAGCCC
1 AGAGCATTAGCGACGCTTCTTCAAAAACGCCGAGAAAGCCC
*
123843 AGAGCATTAGCGACGCTTCTTCAAAAATGCCGAGAAAGCCC
1 AGAGCATTAGCGACGCTTCTTCAAAAACGCCGAGAAAGCCC
123884 CGAAAACTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (41 bp):
AGAGCATTAGCGACGCTTCTTCAAAAACGCCGAGAAAGCCC
Found at i:133999 original size:95 final size:95
Alignment explanation
Indices: 133834--134021 Score: 304
Period size: 95 Copynumber: 2.0 Consensus size: 95
133824 GTTATGCATG
* *
133834 AAAACTATATAATAAAGTAGAAAATCACATTTTAATCATTTCTATGTCCTAATTTCATATTTTCA
1 AAAACTATATAATAAAGTAGAAAATCACATTTTAATAATTTCTATGTCCTAATTTAATATTTTCA
*
133899 CATATTTCATTAATTTATTAAACAATTATC
66 CATATTTCATTAATTTATTAAAAAATTATC
* * * *
133929 AAAACTATATAATAAAGTATAAAATGACATTTTCATAATTTCTATGTCCTAATTTAATATTTTCG
1 AAAACTATATAATAAAGTAGAAAATCACATTTTAATAATTTCTATGTCCTAATTTAATATTTTCA
*
133994 TATATTTCATTAATTTATTAAAAAATTA
66 CATATTTCATTAATTTATTAAAAAATTA
134022 CTTGGTTTTA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (95 bp):
AAAACTATATAATAAAGTAGAAAATCACATTTTAATAATTTCTATGTCCTAATTTAATATTTTCA
CATATTTCATTAATTTATTAAAAAATTATC
Found at i:146037 original size:28 final size:29
Alignment explanation
Indices: 145983--146037 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
145973 ACAGAATTGG
*
145983 GAAAAGTTCTCTCCTTTTAATGTGAAAAT
1 GAAAAGTTCTCTCCTTTTAATGAGAAAAT
*
146012 GAAAA-TTCTCTCTTCTTTAAT-AGAAA
1 GAAAAGTTCTCTCCT-TTTAATGAGAAA
146038 CCAATAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (29 bp):
GAAAAGTTCTCTCCTTTTAATGAGAAAAT
Found at i:151295 original size:13 final size:13
Alignment explanation
Indices: 151277--151303 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
151267 GGAGAGGAGG
151277 AGGAGGAAAATAT
1 AGGAGGAAAATAT
151290 AGGAGGAAAATAT
1 AGGAGGAAAATAT
151303 A
1 A
151304 TGATTATTCA
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:0.56, C:0.00, G:0.30, T:0.15
Consensus pattern (13 bp):
AGGAGGAAAATAT
Found at i:153137 original size:49 final size:49
Alignment explanation
Indices: 153074--153169 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
153064 CAACATGTGA
*
153074 TATGTGTTATGTGATT-CTGTGTAAGACCATAGCTAGG-CTATGGCATCGG
1 TATGTGATATGTGATTAC-GTGTAAGACCATAG-TAGGACTATGGCATCGG
*
153123 TATGTGATATGTGATTACGTGTAAGACCATAGTTGGACTATGGCATC
1 TATGTGATATGTGATTACGTGTAAGACCATAGTAGGACTATGGCATC
153170 AAGAAAACGA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
48 3 0.07
49 39 0.91
50 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (49 bp):
TATGTGATATGTGATTACGTGTAAGACCATAGTAGGACTATGGCATCGG
Found at i:157313 original size:11 final size:12
Alignment explanation
Indices: 157292--157320 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
157282 AACTTATTTC
157292 GAGAGATTTTAG
1 GAGAGATTTTAG
157304 GAGA-ATTTTAG
1 GAGAGATTTTAG
157315 GAGAGA
1 GAGAGA
157321 AATGGTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (12 bp):
GAGAGATTTTAG
Found at i:164371 original size:16 final size:16
Alignment explanation
Indices: 164350--164387 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
164340 GATGCGATAT
164350 TGTGATATGAAACATG
1 TGTGATATGAAACATG
164366 TGTGATATGAAACATG
1 TGTGATATGAAACATG
164382 TGTGAT
1 TGTGAT
164388 GAATATTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (16 bp):
TGTGATATGAAACATG
Found at i:164769 original size:16 final size:16
Alignment explanation
Indices: 164748--164785 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
164738 GATGCGATAT
164748 TGTGATATGAAACATG
1 TGTGATATGAAACATG
164764 TGTGATATGAAACATG
1 TGTGATATGAAACATG
164780 TGTGAT
1 TGTGAT
164786 GAATATTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (16 bp):
TGTGATATGAAACATG
Found at i:165076 original size:398 final size:399
Alignment explanation
Indices: 164335--165135 Score: 1595
Period size: 398 Copynumber: 2.0 Consensus size: 399
164325 TGAATTGATT
164335 ATTATGATGCGATATTGTGATATGAAACATGTGTGATATGAAACATGTGTGATGAATATTGTGAA
1 ATTATGATGCGATATTGTGATATGAAACATGTGTGATATGAAACATGTGTGATGAATATTGTGAA
164400 TTGTGTTGTATTTGTGGGCATGATATACATACAAAATGACAATGATAATGATATGCTAATAATGC
66 TTGTGTTGTATTTGTGGGCATGATATACATACAAAATGACAATGATAATGATATGCTAATAATGC
164465 AAATATTTGGCAAAAAGCAAGCGGAATTTCGGTAAGTATATATATCTGTTGAATTGTGGAATATA
131 AAATATTTGGCAAAAAGCAAGCGGAATTTCGGTAAGTATATATATCTGTTGAATTGTGGAATATA
164530 ATATTATTATGATAGGCAATATGTAAGAATACTTGTATGTGATATATGATGTACTGATTTTAATG
196 ATATTATTATGATAGGCAATATGTAAGAATACTTGTATGTGATATATGATGTACTGATTTTAATG
164595 CACACATATGTGGTCAGATATGTGATGGCTCAATGAGCATTATTATGGCACTTAAGGAGTAATTA
261 CACACATATGTGGTCAGATATGTGATGGCTCAATGAGCATTATTATGGCACTTAAGGAGTAATTA
164660 AATGTGAATCCGATAAGCATGTATTGTGTACAAGTTGTGATGTAAATTGATGAATATGAATAGAG
326 AATGTGAATCCGATAAGCATGTATTGTGTACAAGTTGTGATGTAAATTGATGAATATGAATAGAG
164725 ATGATGTGC
391 ATGATGTGC
164734 ATTA-GATGCGATATTGTGATATGAAACATGTGTGATATGAAACATGTGTGATGAATATTGTGAA
1 ATTATGATGCGATATTGTGATATGAAACATGTGTGATATGAAACATGTGTGATGAATATTGTGAA
164798 TTGTGTTGTATTTGTGGGCATGATATACATACAAAATGACAATGATAATGATATGCTAATAATGC
66 TTGTGTTGTATTTGTGGGCATGATATACATACAAAATGACAATGATAATGATATGCTAATAATGC
164863 AAATATTTGGCAAAAAGCAAGCGGAATTTCGGTAAGTATATATATCTGTTGAATTGTGGAATATA
131 AAATATTTGGCAAAAAGCAAGCGGAATTTCGGTAAGTATATATATCTGTTGAATTGTGGAATATA
164928 ATATTATTATGATAGGCAATATGTAAGAATACTTGTATGTGATATATGATGTACTGATTTTAATG
196 ATATTATTATGATAGGCAATATGTAAGAATACTTGTATGTGATATATGATGTACTGATTTTAATG
164993 CACACATATGTGGTCAGATATGTGATGGCTCAATGAGCATTATTATGGCACTTAAGGAGTAATTA
261 CACACATATGTGGTCAGATATGTGATGGCTCAATGAGCATTATTATGGCACTTAAGGAGTAATTA
165058 AATGTGAATCCGATAAGCATGTATTGTGTACAAGTTGTGATGTAAATTGATGAATATGAATAGAG
326 AATGTGAATCCGATAAGCATGTATTGTGTACAAGTTGTGATGTAAATTGATGAATATGAATAGAG
165123 ATGATGTGC
391 ATGATGTGC
165132 ATTA
1 ATTA
165136 AACCGGTAAT
Statistics
Matches: 402, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
398 398 0.99
399 4 0.01
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (399 bp):
ATTATGATGCGATATTGTGATATGAAACATGTGTGATATGAAACATGTGTGATGAATATTGTGAA
TTGTGTTGTATTTGTGGGCATGATATACATACAAAATGACAATGATAATGATATGCTAATAATGC
AAATATTTGGCAAAAAGCAAGCGGAATTTCGGTAAGTATATATATCTGTTGAATTGTGGAATATA
ATATTATTATGATAGGCAATATGTAAGAATACTTGTATGTGATATATGATGTACTGATTTTAATG
CACACATATGTGGTCAGATATGTGATGGCTCAATGAGCATTATTATGGCACTTAAGGAGTAATTA
AATGTGAATCCGATAAGCATGTATTGTGTACAAGTTGTGATGTAAATTGATGAATATGAATAGAG
ATGATGTGC
Found at i:168219 original size:17 final size:18
Alignment explanation
Indices: 168181--168222 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
168171 GCCCAATAAT
*
168181 CCCATACGCCCGTGTGGG
1 CCCACACGCCCGTGTGGG
*
168199 CCCACACGCTCGTGT-GG
1 CCCACACGCCCGTGTGGG
168216 CCCACAC
1 CCCACAC
168223 CACCCAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.14, C:0.45, G:0.26, T:0.14
Consensus pattern (18 bp):
CCCACACGCCCGTGTGGG
Found at i:177079 original size:21 final size:21
Alignment explanation
Indices: 177048--177100 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
177038 CTATTGTTGT
*
177048 GAAGAAAGTTGATGCTGCAGAA
1 GAAG-AAGTTGATGCTGAAGAA
*
177070 GAAGAAGTTGTTGCTGAAGAA
1 GAAGAAGTTGATGCTGAAGAA
*
177091 GAAGGAGTTG
1 GAAGAAGTTG
177101 CTAAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.38, C:0.06, G:0.36, T:0.21
Consensus pattern (21 bp):
GAAGAAGTTGATGCTGAAGAA
Found at i:177100 original size:18 final size:18
Alignment explanation
Indices: 177067--177102 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
177057 TGATGCTGCA
**
177067 GAAGAAGAAGTTGTTGCT
1 GAAGAAGAAGGAGTTGCT
177085 GAAGAAGAAGGAGTTGCT
1 GAAGAAGAAGGAGTTGCT
177103 AAAAATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.22
Consensus pattern (18 bp):
GAAGAAGAAGGAGTTGCT
Found at i:198901 original size:189 final size:189
Alignment explanation
Indices: 198581--198948 Score: 569
Period size: 189 Copynumber: 1.9 Consensus size: 189
198571 GAAATCCATC
* * * *
198581 GAAAAGAATAGAAATTGGGAGATGGTCGACTTGCCAGAAGACAGAATTACAATTGGTTTGAAATG
1 GAAAAGAATAGAAATTGGGACATGGTCGACTTGCCAGAAGAAAAAAATACAATTGGTTTGAAATG
*
198646 GGTGTTTAAGACAAAATTTGGTGCAGATGGAAGCATCCAAAAGCACAAAGCTCGTCTTGTGGCGA
66 GGTGTTCAAGACAAAATTTGGTGCAGATGGAAGCATCCAAAAGCACAAAGCTCGTCTTGTGGCGA
* *
198711 AAGGTTATGCATAGCAATATGGTGTTGATTTCGAAGAAACCTTCTCTCCTGTTTCTATT
131 AAGGTTATGCATAACAATATGGTGTTGATTTCAAAGAAACCTTCTCTCCTGTTTCTATT
* * ** * *
198770 GAAAAGAATGGAACTTGGGACATGGTCGACTTATC-GAAAGAAAAAAATGCAATTGGTTTGAAGT
1 GAAAAGAATAGAAATTGGGACATGGTCGACTTGCCAG-AAGAAAAAAATACAATTGGTTTGAAAT
* *
198834 GGGTGTTCAAGA-AAAACTTTGGTGTAGATGGAAGCATCCAAAAGCACAAAGCTTGTCTTGTGGC
65 GGGTGTTCAAGACAAAA-TTTGGTGCAGATGGAAGCATCCAAAAGCACAAAGCTCGTCTTGTGGC
198898 GAAAGGTTATGCATAACAATATGGTGTTGATTTCAAAGAAACCTTCTCTCC
129 GAAAGGTTATGCATAACAATATGGTGTTGATTTCAAAGAAACCTTCTCTCC
198949 GGTAGCTCAA
Statistics
Matches: 162, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
188 5 0.03
189 157 0.97
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (189 bp):
GAAAAGAATAGAAATTGGGACATGGTCGACTTGCCAGAAGAAAAAAATACAATTGGTTTGAAATG
GGTGTTCAAGACAAAATTTGGTGCAGATGGAAGCATCCAAAAGCACAAAGCTCGTCTTGTGGCGA
AAGGTTATGCATAACAATATGGTGTTGATTTCAAAGAAACCTTCTCTCCTGTTTCTATT
Found at i:200812 original size:50 final size:50
Alignment explanation
Indices: 200737--200837 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
200727 CAAGTTTACG
200737 TGGCATTACACATGATATTATGTTTGTTGCATTAGATTTTAGAAATAGCC
1 TGGCATTACACATGATATTATGTTTGTTGCATTAGATTTTAGAAATAGCC
200787 TGGCATTACACATGATATTATGTTTGTTGCATTAGATTTTAGAAATAGCC
1 TGGCATTACACATGATATTATGTTTGTTGCATTAGATTTTAGAAATAGCC
200837 T
1 T
200838 AAGTTGAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.41
Consensus pattern (50 bp):
TGGCATTACACATGATATTATGTTTGTTGCATTAGATTTTAGAAATAGCC
Found at i:201987 original size:61 final size:61
Alignment explanation
Indices: 201860--201980 Score: 165
Period size: 61 Copynumber: 2.0 Consensus size: 61
201850 TTTATTAATT
* **
201860 TTTTTAGAATCAGAACTAAATTGACAAATTTTGTAAATTTTGAGGACTAAATTTATTGAAC
1 TTTTTAGAATCAGAACTAAAATGACAAATTTTGTAAACATTGAGGACTAAATTTATTGAAC
* *
201921 TTTTTAGAATTCA-AACTAAAATGACAAGTTTTGTAAACATTGAGTG-CTAAATTTGTTGAA
1 TTTTTAGAA-TCAGAACTAAAATGACAAATTTTGTAAACATTGAG-GACTAAATTTATTGAA
201981 TATTTTATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
61 49 0.92
62 4 0.08
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (61 bp):
TTTTTAGAATCAGAACTAAAATGACAAATTTTGTAAACATTGAGGACTAAATTTATTGAAC
Found at i:212546 original size:17 final size:17
Alignment explanation
Indices: 212524--212558 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
212514 GAACAGAGAA
212524 TTTCGAAACAATCAACT
1 TTTCGAAACAATCAACT
212541 TTTCGAAACAATCAACT
1 TTTCGAAACAATCAACT
212558 T
1 T
212559 AATACATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (17 bp):
TTTCGAAACAATCAACT
Found at i:217085 original size:20 final size:21
Alignment explanation
Indices: 217056--217095 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
217046 NNNNTCTTTA
217056 TATATATTTT-TAAATATTTT
1 TATATATTTTATAAATATTTT
* *
217076 TATATTTTTTATAATTATTT
1 TATATATTTTATAAATATTT
217096 GAAAAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TATATATTTTATAAATATTTT
Found at i:217392 original size:16 final size:16
Alignment explanation
Indices: 217368--217398 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
217358 ATTATTGATG
217368 AATTAAAATAAGTATA
1 AATTAAAATAAGTATA
*
217384 AATTGAAATAAGTAT
1 AATTAAAATAAGTAT
217399 GAGTTTATAG
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:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (16 bp):
AATTAAAATAAGTATA
Found at i:218277 original size:25 final size:23
Alignment explanation
Indices: 218249--218309 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
218239 AATCCATTGC
218249 TAATAATTTGAAATAAATAATGAGT
1 TAATAATTTGAAATAAA-AATG-GT
218274 TAATAATTATTG--ATAAAAATGGT
1 TAATAA-T-TTGAAATAAAAATGGT
*
218297 TAATAGTTTGAAA
1 TAATAATTTGAAA
218310 GTGTTGGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
21 3 0.10
22 1 0.03
23 8 0.26
24 4 0.13
25 11 0.35
26 1 0.03
27 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (23 bp):
TAATAATTTGAAATAAAAATGGT
Found at i:241318 original size:25 final size:25
Alignment explanation
Indices: 241255--241302 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
241245 GCTTTCTCTC
*
241255 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCCCATGT
*
241280 GAGCCATGTAACGGGAAGCCCAT
1 GAGCCATATAACGGGAAGCCCAT
241303 TAGAGCTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.17
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCCCATGT
Found at i:242132 original size:18 final size:18
Alignment explanation
Indices: 242109--242144 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
242099 ATTAATTTCA
242109 TAAAAGTTGTTTATCTAT
1 TAAAAGTTGTTTATCTAT
242127 TAAAAGTTGTTTATCTAT
1 TAAAAGTTGTTTATCTAT
242145 CAACAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (18 bp):
TAAAAGTTGTTTATCTAT
Found at i:254097 original size:10 final size:11
Alignment explanation
Indices: 254067--254091 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
254057 GAATACCTAA
254067 AAAAAATAATG
1 AAAAAATAATG
254078 AAAAAATAATG
1 AAAAAATAATG
254089 AAA
1 AAA
254092 TATAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (11 bp):
AAAAAATAATG
Found at i:269792 original size:5 final size:5
Alignment explanation
Indices: 269770--269813 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
269760 AGCAAAACCC
* *
269770 AAAGA AAAGGC AAGGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAA-GA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
269814 AGCTTTGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 31 0.91
6 3 0.09
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:275604 original size:316 final size:318
Alignment explanation
Indices: 275135--275772 Score: 1262
Period size: 316 Copynumber: 2.0 Consensus size: 318
275125 AATATAAATT
275135 ATTTAATTTTTAAAAATAAATAAATATAGTATAAACATTAAGGATTTTGTTTTTTTTATTATCTT
1 ATTTAATTTTTAAAAATAAATAAATATAGTATAAACATTAAGGATTTTGTTTTTTTTATTATCTT
275200 TCCATGTTTTGTATCTTATTTTTAAAATAAATAAATATAGGATAAATTATCTATAAATTTATCTA
66 TCCATGTTTTGTATCTTATTTTTAAAATAAATAAATATAGGATAAATTATCTATAAATTTATCTA
275265 TACCTACCGTAGACGCAAGCAATAAGAGAAGTCGGTAGTGTTGGAAAAATCCTAGTTTGAAAATA
131 TACCTACCGTAGACGCAAGCAATAAGAGAAGTCGGTAGTGTTGGAAAAATCCTAGTTTGAAAATA
275330 ATTTTCTTACACGTTTGAAAATTGAAAATTTGAAAATCAATTTGATTTATGATATTTATAACAAT
196 ATTTTCTTACACGTTTGAAAATTGAAAATTTGAAAATCAATTTGATTTATGATATTTATAACAAT
275395 AAACCTTAATTAAATTTGTACTTGTATATTCAGTTGAGCGAATGTTTGTTGTTCTCGG
261 AAACCTTAATTAAATTTGTACTTGTATATTCAGTTGAGCGAATGTTTGTTGTTCTCGG
275453 ATTTAA-TTTT-AAAATAAATAAATATAGTATAAACATTAAGGATTTTGTTTTTTTTATTATCTT
1 ATTTAATTTTTAAAAATAAATAAATATAGTATAAACATTAAGGATTTTGTTTTTTTTATTATCTT
275516 TCCATGTTTTGTATCTTATTTTTAAAATAAATAAATATAGGATAAATTATCTATAAATTTATCTA
66 TCCATGTTTTGTATCTTATTTTTAAAATAAATAAATATAGGATAAATTATCTATAAATTTATCTA
275581 TACCTACCGTAGACGCAAGCAATAAGAGAAGTCGGTAGTGTTGGAAAAATCCTAGTTTGAAAATA
131 TACCTACCGTAGACGCAAGCAATAAGAGAAGTCGGTAGTGTTGGAAAAATCCTAGTTTGAAAATA
275646 ATTTTCTTACACGTTTGAAAATTGAAAATTTGAAAATCAATTTGATTTATGATATTTATAACAAT
196 ATTTTCTTACACGTTTGAAAATTGAAAATTTGAAAATCAATTTGATTTATGATATTTATAACAAT
275711 AAACCTTAATTAAATTTGTACTTGTATATTCAGTTGAGCGAATGTTTGTTGTTCTCGG
261 AAACCTTAATTAAATTTGTACTTGTATATTCAGTTGAGCGAATGTTTGTTGTTCTCGG
275769 ATTT
1 ATTT
275773 TAATAAAATG
Statistics
Matches: 320, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
316 310 0.97
317 4 0.01
318 6 0.02
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (318 bp):
ATTTAATTTTTAAAAATAAATAAATATAGTATAAACATTAAGGATTTTGTTTTTTTTATTATCTT
TCCATGTTTTGTATCTTATTTTTAAAATAAATAAATATAGGATAAATTATCTATAAATTTATCTA
TACCTACCGTAGACGCAAGCAATAAGAGAAGTCGGTAGTGTTGGAAAAATCCTAGTTTGAAAATA
ATTTTCTTACACGTTTGAAAATTGAAAATTTGAAAATCAATTTGATTTATGATATTTATAACAAT
AAACCTTAATTAAATTTGTACTTGTATATTCAGTTGAGCGAATGTTTGTTGTTCTCGG
Found at i:283658 original size:12 final size:12
Alignment explanation
Indices: 283641--283665 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
283631 GGTGTTCATT
283641 CGGTTAACCGAC
1 CGGTTAACCGAC
283653 CGGTTAACCGAC
1 CGGTTAACCGAC
283665 C
1 C
283666 CGAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:283838 original size:9 final size:9
Alignment explanation
Indices: 283827--283929 Score: 127
Period size: 9 Copynumber: 11.4 Consensus size: 9
283817 TTTGGTTAAA
*
283827 AATTAACCA
1 AATTAACCG
283836 AATTAACCG
1 AATTAACCG
283845 AATTAACCG
1 AATTAACCG
283854 AATTAACCG
1 AATTAACCG
*
283863 AATTACCCG
1 AATTAACCG
283872 AATT-ACTCG
1 AATTAAC-CG
*
283881 AATTACCCG
1 AATTAACCG
*
283890 AATTAACCT
1 AATTAACCG
*
283899 AATTACCCG
1 AATTAACCG
*
283908 AATTAACCA
1 AATTAACCG
*
283917 AATTAACCA
1 AATTAACCG
283926 AATT
1 AATT
283930 GAATCACTAC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
8 1 0.01
9 80 0.98
10 1 0.01
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:284075 original size:18 final size:18
Alignment explanation
Indices: 284035--284078 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
284025 TAATTTTATG
**
284035 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
284053 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
284071 CTTGGGTT
1 ATTGGGTT
284079 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:285981 original size:21 final size:22
Alignment explanation
Indices: 285957--285997 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
285947 CTTGAAAAGA
*
285957 TAATCACA-AAAAATAAAAAAT
1 TAATCAAATAAAAATAAAAAAT
*
285978 TAATTAAATAAAAATAAAAA
1 TAATCAAATAAAAATAAAAA
285998 TAAAAAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (22 bp):
TAATCAAATAAAAATAAAAAAT
Found at i:288083 original size:12 final size:12
Alignment explanation
Indices: 288066--288090 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
288056 TTTGAGTCAT
288066 TTTAATTATTGG
1 TTTAATTATTGG
288078 TTTAATTATTGG
1 TTTAATTATTGG
288090 T
1 T
288091 CTTCATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TTTAATTATTGG
Found at i:299979 original size:6 final size:6
Alignment explanation
Indices: 299958--299996 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
299948 ATTTTAAAAA
299958 TTTTA- TTTTAAG TTTTAG TTTTAG TTTTAG TTTTA- TTTT
1 TTTTAG TTTT-AG TTTTAG TTTTAG TTTTAG TTTTAG TTTT
299997 TCATTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 8 0.25
6 20 0.62
7 4 0.12
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (6 bp):
TTTTAG
Found at i:299997 original size:18 final size:18
Alignment explanation
Indices: 299958--300005 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
299948 ATTTTAAAAA
*
299958 TTTTATTTTAAGTTTTAG
1 TTTTATTTTTAGTTTTAG
* *
299976 TTTTAGTTTTAGTTTTAT
1 TTTTATTTTTAGTTTTAG
299994 TTTTCATTTTTA
1 TTTT-ATTTTTA
300006 TCTTTATCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.19, C:0.02, G:0.08, T:0.71
Consensus pattern (18 bp):
TTTTATTTTTAGTTTTAG
Found at i:300004 original size:7 final size:6
Alignment explanation
Indices: 299958--300045 Score: 52
Period size: 6 Copynumber: 14.3 Consensus size: 6
299948 ATTTTAAAAA
* * * * *
299958 TTTTAT TTTAAG TTTTAG TTTTAG TTTTAG TTTTAT TTTTCAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT TTTTAT
* * * * *
300007 CTTTAT CTTTGTCT TTGTA- TTTAAT TTTTAT TTTAAT TT
1 TTTTAT -TTT-TAT TTTTAT TTTTAT TTTTAT TTTTAT TT
300046 AATTTGTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
5 3 0.05
6 50 0.77
7 10 0.15
8 2 0.03
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.70
Consensus pattern (6 bp):
TTTTAT
Found at i:300446 original size:19 final size:19
Alignment explanation
Indices: 300422--300460 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
300412 AAATTTTCCC
**
300422 CAAAACACTTTTCTTGTCA
1 CAAAACACTAGTCTTGTCA
*
300441 CAAAACCCTAGTCTTGTCA
1 CAAAACACTAGTCTTGTCA
300460 C
1 C
300461 TGTAAGCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (19 bp):
CAAAACACTAGTCTTGTCA
Found at i:301169 original size:59 final size:59
Alignment explanation
Indices: 301077--301195 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
301067 CTTCAACAAG
301077 TGTGTAATGTTGTGACAAATCTAGGATCTCAATGGATTATAAGAAAGCTTGGTAGTCAT
1 TGTGTAATGTTGTGACAAATCTAGGATCTCAATGGATTATAAGAAAGCTTGGTAGTCAT
301136 TGTGTAATGTTGTGACAAATCTAGGATCTCAATGGATTATAAGAAAGCTTGGTAGTCAT
1 TGTGTAATGTTGTGACAAATCTAGGATCTCAATGGATTATAAGAAAGCTTGGTAGTCAT
301195 T
1 T
301196 CTCGCCGAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (59 bp):
TGTGTAATGTTGTGACAAATCTAGGATCTCAATGGATTATAAGAAAGCTTGGTAGTCAT
Found at i:304361 original size:36 final size:36
Alignment explanation
Indices: 304321--304391 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
304311 GGAGCGCATC
*
304321 AGTCAGAATAAATCCAAAAGGCTACTGAACTGAATT
1 AGTCAAAATAAATCCAAAAGGCTACTGAACTGAATT
* * **
304357 AGTCAAAATAGATCCAAAAGGTTGTTGAACTGAAT
1 AGTCAAAATAAATCCAAAAGGCTACTGAACTGAAT
304392 AGAGTTCACT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (36 bp):
AGTCAAAATAAATCCAAAAGGCTACTGAACTGAATT
Found at i:305334 original size:37 final size:35
Alignment explanation
Indices: 305277--305347 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
305267 TAATTTTAAT
*
305277 ATTAAATTAATAAAATACTATTAAGATAAGTACTAA
1 ATTAAATTAATAAAATACTATTAAAATAA-TACTAA
*
305313 ATTAAATTTAATATTAA-ACTATTAAAATAATACTA
1 ATTAAA-TTAATA-AAATACTATTAAAATAATACTA
305348 TTTTTTGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 11 0.35
37 18 0.58
38 2 0.06
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.37
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATTAAAATAATACTAA
Found at i:311917 original size:99 final size:99
Alignment explanation
Indices: 311737--311924 Score: 286
Period size: 99 Copynumber: 1.9 Consensus size: 99
311727 ACAGATATAC
* ** * *
311737 AATGAGATAGTTAATTAAAATAAAATTGCCAGCCAAGGTTTCCATGGTTATATTTCTAGAAAATA
1 AATGAGATAGGTAATTAAAATAAAATTGCCAAACAAGGTTTCCATGGTTATATTTCTAAAAAACA
*
311802 AAATTACATAAATTTTCGTCACAAAATAGATATT
66 AAATTACATAAATTTTCGCCACAAAATAGATATT
* *
311836 AATGAGATAGGTAATTAAAATAAAATTGTCAAACAAGGTTTCCATGGTTCTATTTCTAAAAAACA
1 AATGAGATAGGTAATTAAAATAAAATTGCCAAACAAGGTTTCCATGGTTATATTTCTAAAAAACA
* *
311901 AAATTATATAATTTTTCGCCACAA
66 AAATTACATAAATTTTCGCCACAA
311925 CGCATTCCTT
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 79 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (99 bp):
AATGAGATAGGTAATTAAAATAAAATTGCCAAACAAGGTTTCCATGGTTATATTTCTAAAAAACA
AAATTACATAAATTTTCGCCACAAAATAGATATT
Found at i:314044 original size:22 final size:22
Alignment explanation
Indices: 314016--314058 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
314006 ACAATTCCTG
314016 AATATATCATAATAATCAACAT
1 AATATATCATAATAATCAACAT
** *
314038 AATATATTTTAATAATTAACA
1 AATATATCATAATAATCAACA
314059 AATCATTCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATATCATAATAATCAACAT
Found at i:316843 original size:17 final size:19
Alignment explanation
Indices: 316823--316857 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
316813 TTACTTCTAA
316823 TTCACTT-AT-TATTCTTC
1 TTCACTTAATCTATTCTTC
316840 TTCACTTAATCTATTCTT
1 TTCACTTAATCTATTCTT
316858 AAATATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (19 bp):
TTCACTTAATCTATTCTTC
Found at i:320513 original size:20 final size:20
Alignment explanation
Indices: 320490--320648 Score: 81
Period size: 20 Copynumber: 7.8 Consensus size: 20
320480 ATATGGCATA
320490 TTAGAAATTTTGGTAAATTC
1 TTAGAAATTTTGGTAAATTC
*
320510 TTAGATACTAATTTTGGTAAAGTC
1 TTAG--A--AATTTTGGTAAATTC
* *
320534 TTAGGAATTTTTGTGT-AACT-
1 TTA-GAAATTTTG-GTAAATTC
*** * *
320554 TTAGAAATTTCAATAATTTA
1 TTAGAAATTTTGGTAAATTC
* *
320574 TTAGAAATTTTGGTAACTAC
1 TTAGAAATTTTGGTAAATTC
* * * *
320594 TTAGAAGTTTTTGTAAGTCC
1 TTAGAAATTTTGGTAAATTC
* *
320614 TTAAAAATTTTGG-AATTTCC
1 TTAGAAATTTTGGTAAATT-C
*
320634 TTATAAATTTTGGTA
1 TTAGAAATTTTGGTA
320649 TGTACCAAAA
Statistics
Matches: 104, Mismatches: 25, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
18 1 0.01
19 11 0.11
20 60 0.58
21 10 0.10
22 3 0.03
23 1 0.01
24 17 0.16
25 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (20 bp):
TTAGAAATTTTGGTAAATTC
Found at i:324312 original size:23 final size:23
Alignment explanation
Indices: 324261--324306 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
324251 GGTTTTCACT
*
324261 GCATTAGAAGATTAATTGTTTAA
1 GCATTAGAAGATTAATGGTTTAA
324284 GCATTAGAAGATTAATGGTTTAA
1 GCATTAGAAGATTAATGGTTTAA
324307 TGATTAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (23 bp):
GCATTAGAAGATTAATGGTTTAA
Found at i:326414 original size:19 final size:20
Alignment explanation
Indices: 326389--326448 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
326379 AATCTTTTTA
326389 ATTTAATGTTATTTATAATG
1 ATTTAATGTTATTTATAATG
*
326409 -TTTAATCTTAATTT-TAATTG
1 ATTTAATGTT-ATTTATAA-TG
*
326429 ATTTAATGCTATATTATAAT
1 ATTTAATGTTAT-TTATAAT
326449 AATTAAGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
19 11 0.34
20 8 0.25
21 10 0.31
22 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (20 bp):
ATTTAATGTTATTTATAATG
Found at i:330853 original size:13 final size:13
Alignment explanation
Indices: 330832--330864 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
330822 TTTTATTATT
*
330832 ATTTGACCTATGA
1 ATTTAACCTATGA
330845 ATTTAACCTATGA
1 ATTTAACCTATGA
330858 ATTTAAC
1 ATTTAAC
330865 TTATAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (13 bp):
ATTTAACCTATGA
Found at i:335337 original size:45 final size:45
Alignment explanation
Indices: 335256--335431 Score: 230
Period size: 45 Copynumber: 4.0 Consensus size: 45
335246 AACCGTTACA
* * *
335256 CGGTGG-ATCAACACATAGC-ACCACCCTTATAATCAATTATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATT
** *
335299 CGGTGGAATCAGCACATAGCAACCACCTTTATTTTCAATGATTTT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATT
* * * * **
335344 CGGTGGAGTCAGCACATATCAACCACATTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATT
335389 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATA
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATA
335432 CTCAGTACAC
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 6 0.05
44 12 0.11
45 94 0.84
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATT
Found at i:352706 original size:18 final size:18
Alignment explanation
Indices: 352685--352721 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
352675 CAACACTTTG
352685 TCATCAATCAACTACATA
1 TCATCAATCAACTACATA
352703 TCATCAATCAACTACATA
1 TCATCAATCAACTACATA
352721 T
1 T
352722 TAGTCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (18 bp):
TCATCAATCAACTACATA
Found at i:361787 original size:14 final size:15
Alignment explanation
Indices: 361750--361861 Score: 76
Period size: 14 Copynumber: 7.7 Consensus size: 15
361740 CATAATTAGT
*
361750 TAATATATATTTATCA
1 TAATATA-ATTTACCA
361766 TAAT-TAATTTA-CA
1 TAATATAATTTACCA
*
361779 TGATATAATTTACCA
1 TAATATAATTTACCA
*
361794 TAAT-TAGTTTA-CA
1 TAATATAATTTACCA
*
361807 TAATATAAATTCACCA
1 TAATAT-AATTTACCA
* *
361823 TAAT-TAGTTTA-AA
1 TAATATAATTTACCA
* *
361836 TGATATAAATTCACCA
1 TAATAT-AATTTACCA
361852 TAAT-TAATTT
1 TAATATAATTT
361862 TCATATTTAT
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
13 15 0.20
14 28 0.38
15 17 0.23
16 14 0.19
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.43
Consensus pattern (15 bp):
TAATATAATTTACCA
Found at i:361789 original size:28 final size:29
Alignment explanation
Indices: 361764--361861 Score: 144
Period size: 29 Copynumber: 3.4 Consensus size: 29
361754 ATATATTTAT
*
361764 CATAATTAATTTACATGATAT-AATTTAC
1 CATAATTAATTTACATGATATAAATTCAC
* *
361792 CATAATTAGTTTACATAATATAAATTCAC
1 CATAATTAATTTACATGATATAAATTCAC
* *
361821 CATAATTAGTTTAAATGATATAAATTCAC
1 CATAATTAATTTACATGATATAAATTCAC
361850 CATAATTAATTT
1 CATAATTAATTT
361862 TCATATTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 19 0.30
29 44 0.70
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (29 bp):
CATAATTAATTTACATGATATAAATTCAC
Found at i:361825 original size:57 final size:58
Alignment explanation
Indices: 361750--361866 Score: 155
Period size: 57 Copynumber: 2.0 Consensus size: 58
361740 CATAATTAGT
* * * * * *
361750 TAATATATATTTATCATAATTAATTTACATGATAT-AATTTACCATAATTAGTTTACA
1 TAATATAAATTCACCATAATTAATTTAAATGATATAAATTCACCATAATTAATTTACA
* *
361807 TAATATAAATTCACCATAATTAGTTTAAATGATATAAATTCACCATAATTAATTTTCA
1 TAATATAAATTCACCATAATTAATTTAAATGATATAAATTCACCATAATTAATTTACA
361865 TA
1 TA
361867 TTTATGTTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 30 0.59
58 21 0.41
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (58 bp):
TAATATAAATTCACCATAATTAATTTAAATGATATAAATTCACCATAATTAATTTACA
Found at i:361827 original size:29 final size:29
Alignment explanation
Indices: 361750--361866 Score: 137
Period size: 29 Copynumber: 4.1 Consensus size: 29
361740 CATAATTAGT
* * *
361750 TAATATATATTTATCATAATTAATTTACA
1 TAATATAAATTCACCATAATTAATTTACA
* * *
361779 TGATAT-AATTTACCATAATTAGTTTACA
1 TAATATAAATTCACCATAATTAATTTACA
* *
361807 TAATATAAATTCACCATAATTAGTTTAAA
1 TAATATAAATTCACCATAATTAATTTACA
* *
361836 TGATATAAATTCACCATAATTAATTTTCA
1 TAATATAAATTCACCATAATTAATTTACA
361865 TA
1 TA
361867 TTTATGTTTC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
28 24 0.32
29 51 0.68
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (29 bp):
TAATATAAATTCACCATAATTAATTTACA
Found at i:374446 original size:18 final size:18
Alignment explanation
Indices: 374415--374449 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
374405 GGGAGTAACT
* *
374415 TCGAGCATATCTTGGTGA
1 TCGAGAATAACTTGGTGA
374433 TCGAGAATAACTTGGTG
1 TCGAGAATAACTTGGTG
374450 GAGAGCGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (18 bp):
TCGAGAATAACTTGGTGA
Found at i:375210 original size:33 final size:34
Alignment explanation
Indices: 375173--375252 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
375163 TTAGTTGAAA
*
375173 GTGTCTTCAACAGAGTACTC-TAATACTTCATTG
1 GTGTCTTCAACACAGTACTCTTAATACTTCATTG
* *
375206 GTGTCTTCAACACAGTACTCTTATTACTTCGTTG
1 GTGTCTTCAACACAGTACTCTTAATACTTCATTG
375240 GTGTCTTCAACAC
1 GTGTCTTCAACAC
375253 TTTCAATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
33 19 0.44
34 24 0.56
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (34 bp):
GTGTCTTCAACACAGTACTCTTAATACTTCATTG
Found at i:377467 original size:26 final size:28
Alignment explanation
Indices: 377424--377477 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 28
377414 ATAATTCGGG
*
377424 AAATATATATAATCTTAA-ATTATAATAA
1 AAATATATAAAATCTTAATATTA-AATAA
377452 AAATAT-TAAAAT-TTAATATTAAATAA
1 AAATATATAAAATCTTAATATTAAATAA
377478 TTAATATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 9 0.38
27 9 0.38
28 6 0.25
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATATATAAAATCTTAATATTAAATAA
Found at i:380023 original size:12 final size:12
Alignment explanation
Indices: 380006--380034 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
379996 CCACATTTAT
380006 TGAAGAAATGTC
1 TGAAGAAATGTC
380018 TGAAGAAATGTC
1 TGAAGAAATGTC
380030 TGAAG
1 TGAAG
380035 GATAAGCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.28, T:0.24
Consensus pattern (12 bp):
TGAAGAAATGTC
Found at i:391808 original size:49 final size:50
Alignment explanation
Indices: 391707--391835 Score: 170
Period size: 49 Copynumber: 2.6 Consensus size: 50
391697 CGACCCACAA
* * * * * *
391707 CTCGTATGAGCATGCTGATTTACAGCTTGTGTGAGCATACCGATATATAG
1 CTCGTGTGAGCATACTGATTTACAGCTCGTGAGAGCATACCAATATACAG
*
391757 CTCGTGTGAGCATACTGATTT-CAGCTCGTGAGAGCATACCAATTTACAG
1 CTCGTGTGAGCATACTGATTTACAGCTCGTGAGAGCATACCAATATACAG
* *
391806 CTCGTGTGAGCATACCGATTTACAACTCGT
1 CTCGTGTGAGCATACTGATTTACAGCTCGT
391836 CTAAGCATAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 43 0.62
50 26 0.38
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
CTCGTGTGAGCATACTGATTTACAGCTCGTGAGAGCATACCAATATACAG
Found at i:391826 original size:25 final size:25
Alignment explanation
Indices: 391707--391845 Score: 163
Period size: 25 Copynumber: 5.6 Consensus size: 25
391697 CGACCCACAA
* * *
391707 CTCGTATGAGCATGCTGATTTACAG
1 CTCGTGTGAGCATACCGATTTACAG
* * *
391732 CTTGTGTGAGCATACCGATATATAG
1 CTCGTGTGAGCATACCGATTTACAG
*
391757 CTCGTGTGAGCATACTGATTT-CAG
1 CTCGTGTGAGCATACCGATTTACAG
* *
391781 CTCGTGAGAGCATACCAATTTACAG
1 CTCGTGTGAGCATACCGATTTACAG
*
391806 CTCGTGTGAGCATACCGATTTACAA
1 CTCGTGTGAGCATACCGATTTACAG
* *
391831 CTCGTCTAAGCATAC
1 CTCGTGTGAGCATAC
391846 ATGTACAAGA
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
24 20 0.21
25 75 0.79
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
CTCGTGTGAGCATACCGATTTACAG
Found at i:392979 original size:20 final size:20
Alignment explanation
Indices: 392946--392984 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
392936 ATCGTATGGT
392946 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTATGGTATC
392966 TTGG-TTGTGATTATGGTAT
1 TTGGCTTGTG-TTATGGTAT
392985 TTTGAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATGGTATC
Found at i:393499 original size:42 final size:42
Alignment explanation
Indices: 393424--393536 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
393414 GAAAATTGGT
* * * * * *
393424 GGTAGACGGCCTGGCGCACGAGCATGTGAGGCTATTTCGAAG
1 GGTACACGGCCTAGCACACGGGCGTGTGGGGCTATTTCGAAG
**
393466 GGTACACGGCCTAGCACACGGGCGTGTGGGGCTATTTTTAAG
1 GGTACACGGCCTAGCACACGGGCGTGTGGGGCTATTTCGAAG
*
393508 GGTACACGGCCTAGCACACGGTCGTGTGG
1 GGTACACGGCCTAGCACACGGGCGTGTGG
393537 CTTGACCGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.19, C:0.23, G:0.37, T:0.20
Consensus pattern (42 bp):
GGTACACGGCCTAGCACACGGGCGTGTGGGGCTATTTCGAAG
Found at i:395630 original size:21 final size:21
Alignment explanation
Indices: 395590--395630 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
395580 TCCCTTTAGT
**
395590 GGTATCACGATATCCTCCTTG
1 GGTATCACGATATCAACCTTG
395611 GGTATCACGATATCAACCTT
1 GGTATCACGATATCAACCTT
395631 TCAAAGAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (21 bp):
GGTATCACGATATCAACCTTG
Found at i:409304 original size:18 final size:18
Alignment explanation
Indices: 409281--409324 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
409271 TTTGGTTTGG
409281 TTATTTTACTTAGTGGTT
1 TTATTTTACTTAGTGGTT
* *
409299 TTATTTAACTTAGTGTTT
1 TTATTTTACTTAGTGGTT
409317 TTACTTTT
1 TTA-TTTT
409325 TATAGTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (18 bp):
TTATTTTACTTAGTGGTT
Found at i:413363 original size:36 final size:36
Alignment explanation
Indices: 413316--413390 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
413306 GTAATGTATG
413316 TGATAGTAACTAGCACAATGAATTATATGAAATGCA
1 TGATAGTAACTAGCACAATGAATTATATGAAATGCA
413352 TGATAGTAACTAGCACAATGAATTATATGAAATGCA
1 TGATAGTAACTAGCACAATGAATTATATGAAATGCA
413388 TGA
1 TGA
413391 ATAAAGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (36 bp):
TGATAGTAACTAGCACAATGAATTATATGAAATGCA
Found at i:415049 original size:124 final size:125
Alignment explanation
Indices: 414886--415141 Score: 496
Period size: 124 Copynumber: 2.1 Consensus size: 125
414876 TTGTCCAGCC
*
414886 TAAAAAACATTGAATTTTGGAAAAAAATTTATATTTTATATTTTATATTTTTTGAGTTTGAAAGA
1 TAAAATACATTGAATTTTGGAAAAAAATTTATATTTTATATTTTATATTTTTTGAGTTTGAAAGA
414951 CTTTTTTATTTTTTTCATAAAGTTTTATTTAAAAAATATATAATTTTTATGTTTTTTATT
66 CTTTTTTATTTTTTTCATAAAGTTTTATTTAAAAAATATATAATTTTTATGTTTTTTATT
415011 TAAAATACATTGAA-TTTGGAAAAAAATTTATATTTTATATTTTATATTTTTTGAGTTTGAAAGA
1 TAAAATACATTGAATTTTGGAAAAAAATTTATATTTTATATTTTATATTTTTTGAGTTTGAAAGA
415075 CTTTTTTATTTTTTTCATAAAGTTTTATTTAAAAAATATATAATTTTTATGTTTTTTATT
66 CTTTTTTATTTTTTTCATAAAGTTTTATTTAAAAAATATATAATTTTTATGTTTTTTATT
415135 TAAAATA
1 TAAAATA
415142 TGAAAAAAAT
Statistics
Matches: 130, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
124 117 0.90
125 13 0.10
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (125 bp):
TAAAATACATTGAATTTTGGAAAAAAATTTATATTTTATATTTTATATTTTTTGAGTTTGAAAGA
CTTTTTTATTTTTTTCATAAAGTTTTATTTAAAAAATATATAATTTTTATGTTTTTTATT
Found at i:417035 original size:20 final size:19
Alignment explanation
Indices: 417012--417075 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 19
417002 TTTTTTGAAT
*
417012 TTTTATTAACATTTTATATA
1 TTTTATTAA-ATTTTAAATA
*
417032 TTTT-TTTAATTTTAAATA
1 TTTTATTAAATTTTAAATA
* *
417050 TTTTA-TAATTTTTAATTA
1 TTTTATTAAATTTTAAATA
417068 -TTTATTAA
1 TTTTATTAA
417076 TGTGACATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 4 0.11
18 26 0.70
19 3 0.08
20 4 0.11
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTATTAAATTTTAAATA
Found at i:417064 original size:18 final size:17
Alignment explanation
Indices: 417022--417061 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
417012 TTTTATTAAC
* *
417022 ATTTTATATATTTTTTTA
1 ATTTTAAATA-TTTTATA
417040 ATTTTAAATATTTTATA
1 ATTTTAAATATTTTATA
417057 ATTTT
1 ATTTT
417062 TAATTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTAAATATTTTATA
Found at i:417662 original size:11 final size:9
Alignment explanation
Indices: 417636--417678 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
417626 TGAAATAAAC
417636 TTATAAAAA
1 TTATAAAAA
417645 TTATAAAAA
1 TTATAAAAA
*
417654 TAATATAAAAT
1 T--TATAAAAA
417665 TTATAAAAA
1 TTATAAAAA
417674 -TATAA
1 TTATAA
417679 TNNNNNNNNN
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 5 0.17
9 17 0.57
11 8 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:417662 original size:20 final size:20
Alignment explanation
Indices: 417637--417675 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
417627 GAAATAAACT
417637 TATAAAAATTATAAAAATAA
1 TATAAAAATTATAAAAATAA
*
417657 TATAAAATTTATAAAAATA
1 TATAAAAATTATAAAAATA
417676 TAATNNNNNN
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TATAAAAATTATAAAAATAA
Found at i:417735 original size:10 final size:10
Alignment explanation
Indices: 417703--417794 Score: 57
Period size: 10 Copynumber: 9.2 Consensus size: 10
417693 NNAATTTATG
417703 AATATTATAA
1 AATATTATAA
417713 AA-A-TATAA
1 AATATTATAA
*
417721 GATATTATAA
1 AATATTATAA
417731 AATATTTATAA
1 AATA-TTATAA
* *
417742 AGT-TAATAAA
1 AATATTAT-AA
417752 ACATATT-TAA
1 A-ATATTATAA
*
417762 AATTTTATAA
1 AATATTATAA
*
417772 AAAACTTATAA
1 AATA-TTATAA
* *
417783 AAAATCATAA
1 AATATTATAA
417793 AA
1 AA
417795 ACCTAGATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
8 6 0.09
9 9 0.14
10 28 0.44
11 20 0.31
12 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (10 bp):
AATATTATAA
Found at i:417752 original size:20 final size:20
Alignment explanation
Indices: 417727--417783 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
417717 ATAAGATATT
417727 ATAAAATATTTATAAAGTTA
1 ATAAAATATTTATAAAGTTA
* *
417747 ATAAAACATATTTA-AAATTTT
1 AT-AAA-ATATTTATAAAGTTA
* *
417768 ATAAAAAACTTATAAA
1 ATAAAATATTTATAAA
417784 AAATCATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 5 0.17
20 8 0.27
21 10 0.33
22 7 0.23
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAAAATATTTATAAAGTTA
Found at i:417774 original size:22 final size:22
Alignment explanation
Indices: 417732--417773 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
417722 ATATTATAAA
417732 ATATTTATAAAGTTAATAAAAC
1 ATATTTATAAAGTTAATAAAAC
* *
417754 ATATTTA-AAATTTTATAAAA
1 ATATTTATAAAGTTAATAAAA
417774 AACTTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
ATATTTATAAAGTTAATAAAAC
Found at i:418433 original size:17 final size:18
Alignment explanation
Indices: 418411--418453 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
418401 GTTCAAGTTT
*
418411 ATTTTTTA-TTTTTTATA
1 ATTTTTTACTTTTATATA
*
418428 ATTTTTATACTTTTATATT
1 ATTTTT-TACTTTTATATA
418447 ATTTTTT
1 ATTTTTT
418454 NNNNNNNNNN
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 3 0.14
19 13 0.59
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTTTACTTTTATATA
Found at i:418852 original size:30 final size:29
Alignment explanation
Indices: 418817--418891 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 29
418807 ATTTATTAGA
**
418817 TTTATTAGATTTTTATAATATTTATATTTT
1 TTTATTA-ATTTTTATAATATTTATAAGTT
*
418847 TTTATTACTTTTTAGTATAATATTTATAAGTT
1 TTTATTA-ATTTT--TATAATATTTATAAGTT
*
418879 TATATTAATTTTT
1 TTTATTAATTTTT
418892 GTTATGAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
29 1 0.03
30 11 0.30
31 4 0.11
32 21 0.57
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (29 bp):
TTTATTAATTTTTATAATATTTATAAGTT
Found at i:418885 original size:32 final size:32
Alignment explanation
Indices: 418830--418891 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
418820 ATTAGATTTT
** * *
418830 TATAATATTTATATTTTTTTATTACTTTTTAG
1 TATAATATTTATAAGTTTATATTAATTTTTAG
418862 TATAATATTTATAAGTTTATATTAATTTTT
1 TATAATATTTATAAGTTTATATTAATTTTT
418892 GTTATGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (32 bp):
TATAATATTTATAAGTTTATATTAATTTTTAG
Found at i:420352 original size:20 final size:20
Alignment explanation
Indices: 420327--420366 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
420317 ACTTACTATG
420327 GAGCTTGAAAGCTTGAAAAC
1 GAGCTTGAAAGCTTGAAAAC
*
420347 GAGCTTGGAAGCTTGAAAAC
1 GAGCTTGAAAGCTTGAAAAC
420367 CCTAACTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.20
Consensus pattern (20 bp):
GAGCTTGAAAGCTTGAAAAC
Found at i:434177 original size:18 final size:17
Alignment explanation
Indices: 434151--434189 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
434141 ATTTTCCTTC
434151 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
434168 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
434186 CACA
1 CACA
434190 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:436223 original size:12 final size:12
Alignment explanation
Indices: 436206--436236 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
436196 ATAGAGGAAC
436206 TCCCAAATACTT
1 TCCCAAATACTT
436218 TCCCAAATACTT
1 TCCCAAATACTT
436230 TCCCAAA
1 TCCCAAA
436237 CTCTTAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (12 bp):
TCCCAAATACTT
Found at i:439120 original size:57 final size:57
Alignment explanation
Indices: 439011--439120 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
439001 TTCAGTGAAA
* * * * *
439011 TGGGAGCCACGATAGTGTTGTCTCCAATTTGAATTGAATGTCCATCCATCAGTAATG
1 TGGGAGCCACCATAGTGTTGTCTCCAAATTGAATTAAAAGGCCATCCATCAGTAATG
* *
439068 TGGGAGCCACCATTGTGTTGTCTCCAAATTGGATTAAAAGGCCA-CCATTCAGT
1 TGGGAGCCACCATAGTGTTGTCTCCAAATTGAATTAAAAGGCCATCCA-TCAGT
439121 TTTGTACAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 3 0.07
57 42 0.93
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (57 bp):
TGGGAGCCACCATAGTGTTGTCTCCAAATTGAATTAAAAGGCCATCCATCAGTAATG
Found at i:444878 original size:11 final size:11
Alignment explanation
Indices: 444864--444902 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
444854 GTTTTCTTTT
*
444864 TATTTTGCTAC
1 TATTTTACTAC
*
444875 TATTTTACTAT
1 TATTTTACTAC
*
444886 TATGTTACTAC
1 TATTTTACTAC
444897 TATTTT
1 TATTTT
444903 GTTGTTATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.23, C:0.13, G:0.05, T:0.59
Consensus pattern (11 bp):
TATTTTACTAC
Found at i:444880 original size:22 final size:22
Alignment explanation
Indices: 444855--444911 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
444845 TTTCTTGTTG
* *
444855 TTTTCTTTTTATTTTGCTACTA
1 TTTTCTTATTATTTTACTACTA
*
444877 TTTTAC-TATTATGTTACTACTA
1 TTTT-CTTATTATTTTACTACTA
* *
444899 TTTTGTTGTTATT
1 TTTTCTTATTATT
444912 GTTTGGATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.18, C:0.11, G:0.07, T:0.65
Consensus pattern (22 bp):
TTTTCTTATTATTTTACTACTA
Found at i:445100 original size:24 final size:24
Alignment explanation
Indices: 445071--445120 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
445061 TTTCAATTTG
445071 TTGGGAAATATTTATGTTGATGTT
1 TTGGGAAATATTTATGTTGATGTT
445095 TTGGGAAATATTTATGTTGATGTT
1 TTGGGAAATATTTATGTTGATGTT
445119 TT
1 TT
445121 TAGTATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (24 bp):
TTGGGAAATATTTATGTTGATGTT
Found at i:445164 original size:11 final size:11
Alignment explanation
Indices: 445148--445178 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
445138 TATACATATT
445148 TAAAAATTATA
1 TAAAAATTATA
*
445159 TAAAAATAATA
1 TAAAAATTATA
445170 TAAAAATTA
1 TAAAAATTA
445179 ATACAGGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:445430 original size:26 final size:30
Alignment explanation
Indices: 445379--445440 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 30
445369 TCAAGATCTT
*
445379 TTTTTAATTAATAAATATGTTATTTTTAAG
1 TTTTTAATTAATAAATATGTTATTTTAAAG
*
445409 TTTTTAATTAA-AAA-ATG-T-TTTTAAAT
1 TTTTTAATTAATAAATATGTTATTTTAAAG
445435 TTTTTA
1 TTTTTA
445441 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 12 0.40
27 1 0.03
28 3 0.10
29 3 0.10
30 11 0.37
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (30 bp):
TTTTTAATTAATAAATATGTTATTTTAAAG
Found at i:446819 original size:16 final size:18
Alignment explanation
Indices: 446798--446831 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
446788 TTAATTACAT
446798 AATATAT-AC-CATTCAA
1 AATATATGACACATTCAA
446814 AATATATGACACATTCAA
1 AATATATGACACATTCAA
446832 GATCCAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (18 bp):
AATATATGACACATTCAA
Found at i:450087 original size:38 final size:38
Alignment explanation
Indices: 450044--450121 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
450034 GATACACTAG
450044 ATCCAACATTAAATCCATAAACTATTTATACATAATAT
1 ATCCAACATTAAATCCATAAACTATTTATACATAATAT
*
450082 ATCCAACATTAAATCCATAAACTATTTATTCATAATAT
1 ATCCAACATTAAATCCATAAACTATTTATACATAATAT
450120 AT
1 AT
450122 GCAGTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (38 bp):
ATCCAACATTAAATCCATAAACTATTTATACATAATAT
Found at i:457236 original size:29 final size:28
Alignment explanation
Indices: 457180--457248 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
457170 TAGAAAATTA
457180 TTAAAAATTA-AA-AAAATCATAACCTATTT
1 TTAAAAATTATAAGAAAATCATAA-CTA--T
457209 TTAAAAATTATAAGAAAAT-ATATA-TAT
1 TTAAAAATTATAAGAAAATCATA-ACTAT
457236 TT-AAAATTATAAG
1 TTAAAAATTATAAG
457249 TATGCAAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
26 11 0.30
27 3 0.08
29 12 0.32
30 5 0.14
31 6 0.16
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (28 bp):
TTAAAAATTATAAGAAAATCATAACTAT
Found at i:457708 original size:151 final size:152
Alignment explanation
Indices: 457533--457837 Score: 603
Period size: 151 Copynumber: 2.0 Consensus size: 152
457523 TTGACTTGAG
457533 TTATGAGAGTACAAATCTTTCTTCTTCTTCTTCTTCTTTTTTTTTAAACAGACGAGGTTAAATGT
1 TTATGAGAGTACAAATCTTTCTTCTTCTTCTTCTTCTTTTTTTTTAAACAGACGAGGTTAAATGT
457598 TTAATTGATTTGTTGATTTATTGATCTTTCTAACATTCTAATTCCATACATAAGCTTAACTTTTA
66 TTAATTGATTTGTTGATTTATTGATCTTTCTAACATTCTAATTCCATACATAAGCTTAACTTTTA
457663 ATTAATCATTTTTTCTTGAGTT
131 ATTAATCATTTTTTCTTGAGTT
457685 TTATGAGAGTA-AAATCTTTCTTCTTCTTCTTCTTCTTTTTTTTTAAACAGACGAGGTTAAATGT
1 TTATGAGAGTACAAATCTTTCTTCTTCTTCTTCTTCTTTTTTTTTAAACAGACGAGGTTAAATGT
457749 TTAATTGATTTGTTGATTTATTGATCTTTCTAACATTCTAATTCCATACATAAGCTTAACTTTTA
66 TTAATTGATTTGTTGATTTATTGATCTTTCTAACATTCTAATTCCATACATAAGCTTAACTTTTA
457814 ATTAATCATTTTTTCTTGAGTT
131 ATTAATCATTTTTTCTTGAGTT
457836 TT
1 TT
457838 TCTTATATGT
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
151 142 0.93
152 11 0.07
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.50
Consensus pattern (152 bp):
TTATGAGAGTACAAATCTTTCTTCTTCTTCTTCTTCTTTTTTTTTAAACAGACGAGGTTAAATGT
TTAATTGATTTGTTGATTTATTGATCTTTCTAACATTCTAATTCCATACATAAGCTTAACTTTTA
ATTAATCATTTTTTCTTGAGTT
Found at i:461166 original size:17 final size:16
Alignment explanation
Indices: 461127--461163 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
461117 ATGCTAAGTT
461127 ATTTTAATAATATAAA
1 ATTTTAATAATATAAA
461143 ATTTTAATTAA-ATAAA
1 ATTTTAA-TAATATAAA
461159 ATTTT
1 ATTTT
461164 TAACAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTAATAATATAAA
Done.