Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003170.1 Hibiscus syriacus cultivar Beakdansim tig00006666_pilon, whole genome shotgun sequence
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: 749787
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 2 of 3
Found at i:308192 original size:78 final size:80
Alignment explanation
Indices: 308049--308240 Score: 241
Period size: 78 Copynumber: 2.4 Consensus size: 80
308039 ATATAATATA
*
308049 TATATATTTTATAATATATATATACTTTATAT-TACACTTTATATATACACTATATAGTTTATAT
1 TATATATATTAT-ATATATATATACTTTATATATACAC-TTATATATACACTATATAGTTTATAT
308113 TAATAAACTATACAGTT
64 TAATAAACTATACAGTT
* * *
308130 TATATATATTATATACGATATATACTTTATATATACAC-TATATA-GC-TTATATAGTTTATATT
1 TATATATATTATATA-TATATATACTTTATATATACACTTATATATACACTATATAGTTTATATT
**
308192 AATAAACTATATGGTT
65 AATAAACTATACAGTT
* * *
308208 TATACATAATATATATATATATA-TATATATATA
1 TATATATATTATATATATATATACTTTATATATA
308241 TATATATTAT
Statistics
Matches: 99, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
76 9 0.09
77 7 0.07
78 42 0.42
79 1 0.01
80 9 0.09
81 26 0.26
82 5 0.05
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (80 bp):
TATATATATTATATATATATATACTTTATATATACACTTATATATACACTATATAGTTTATATTA
ATAAACTATACAGTT
Found at i:310084 original size:26 final size:24
Alignment explanation
Indices: 310030--310088 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 24
310020 TATTTTGTTT
310030 TTATTATTATTTTTGATATATTTA
1 TTATTATTATTTTTGATATATTTA
*
310054 -AATTATTATTTTCATGAT-TATTTTA
1 TTATTATTATTTT--TGATATA-TTTA
310079 TTATTATTAT
1 TTATTATTAT
310089 CTTAAGTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 11 0.38
24 2 0.07
25 8 0.28
26 8 0.28
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (24 bp):
TTATTATTATTTTTGATATATTTA
Found at i:310408 original size:15 final size:15
Alignment explanation
Indices: 310388--310481 Score: 55
Period size: 15 Copynumber: 5.9 Consensus size: 15
310378 CCATTTTCTG
310388 ATATTTTTTTAATAA
1 ATATTTTTTTAATAA
*
310403 ATATTTTACTTTTATAA
1 ATATTTT--TTTAATAA
** *
310420 ATTATAATATTAATCAA
1 A-TATTTTTTTAAT-AA
310437 AT-TTTTTATTAGATAA
1 ATATTTTT-TTA-ATAA
* * *
310453 ATGTTTTATTAATAT
1 ATATTTTTTTAATAA
*
310468 TTATTTTTTTAATA
1 ATATTTTTTTAATA
310482 TTAAGAAATG
Statistics
Matches: 59, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
15 23 0.39
16 15 0.25
17 17 0.29
18 4 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
ATATTTTTTTAATAA
Found at i:310468 original size:137 final size:127
Alignment explanation
Indices: 310197--310503 Score: 325
Period size: 137 Copynumber: 2.3 Consensus size: 127
310187 TATCATATTA
* * * *
310197 ATATATTTA-TTTTTCAATATTAAAAAAGGGCAGTCTTAAAGCAACTGTTCATTTTCTGATATTT
1 ATATATTTATTTTTTAAATATTAAGAAAGGACAGTCTTAAAACAACTGTTCATTTTCTGATATTT
* *
310261 AAATAAATGTTTTATTTTATAAATTATATATATTAATCGATTTTTAGATAAATATTTTATCAAT
66 AAATAAATATTTTATTTTATAAATTATATATATTAATCAATTTTTAGATAAATATTTTAT--AT
* *
310325 ATATATTTATTTTTTAAATATTAGGAAAGGACAGTTTTAAAACAACTGGATGTCCATTTTCTGAT
1 ATATATTTATTTTTTAAATATTAAGAAAGGACAGTCTTAAAACAACT-G-T-T-CATTTTCTGAT
*
310390 ATTTTTTTAATAAATATTTTACTTTTATAAATTATA-ATATTAATCAAATTTTTTATTAGATAAA
62 A---TTTAAATAAATATTTTA-TTTTATAAATTATATATATTAATC-AA---TTT-TTAGATAAA
*
310454 TGTTTTAT-T
118 TATTTTATAT
* * *
310463 A-ATATTTATTTTTTTAATATTAAGAAATGAGCTGTCTTAAA
1 ATATATTTATTTTTTAAATATTAAGAAAGGA-CAGTCTTAAA
310504 GCACTTAAAA
Statistics
Matches: 149, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
128 9 0.06
129 31 0.21
130 1 0.01
131 1 0.01
132 1 0.01
133 12 0.08
136 24 0.16
137 41 0.28
138 10 0.07
140 3 0.02
141 16 0.11
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (127 bp):
ATATATTTATTTTTTAAATATTAAGAAAGGACAGTCTTAAAACAACTGTTCATTTTCTGATATTT
AAATAAATATTTTATTTTATAAATTATATATATTAATCAATTTTTAGATAAATATTTTATAT
Found at i:310567 original size:21 final size:20
Alignment explanation
Indices: 310539--310585 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
310529 TTCTAAATAA
310539 ATAAATATCTTAT-TTAAAA-T
1 ATAAATAT-TT-TCTTAAAATT
310559 ATAATATATTTTCTTAAAATT
1 ATAA-ATATTTTCTTAAAATT
310580 ATAAAT
1 ATAAAT
310586 TTGAAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 1 0.04
20 14 0.58
21 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAATATTTTCTTAAAATT
Found at i:311111 original size:18 final size:20
Alignment explanation
Indices: 311066--311132 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 20
311056 TTTCAAAATT
*
311066 TTTTATTTTCATAATATTTATA
1 TTTTATTTT-A-AATATTAATA
*
311088 TGTTATTTT-AA-ATTAATA
1 TTTTATTTTAAATATTAATA
311106 TTTTATTTTCAAATATTAA-A
1 TTTTATTTT-AAATATTAATA
311126 TTTTATT
1 TTTTATT
311133 ATTTATTTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 14 0.36
19 2 0.05
20 10 0.26
21 5 0.13
22 8 0.21
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (20 bp):
TTTTATTTTAAATATTAATA
Found at i:315900 original size:72 final size:72
Alignment explanation
Indices: 315783--315926 Score: 198
Period size: 72 Copynumber: 2.0 Consensus size: 72
315773 ATATAATAAA
* ** * *
315783 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATTACCCCGGCTTTATGGATAATATTCAGCTAGT
1 GCTTGAGTTATCCCCCTAAAGCAAATGGTTAACAACCCCGACTTTATGGATAATATTCAGCTAAT
315848 CTGTTAT
66 CTGTTAT
* * * * *
315855 GCTTGAGTTGTCCCTCTAGAGCAAATGGTTAACAACCCCGACTTTATGGATGATATTTAGCTAAT
1 GCTTGAGTTATCCCCCTAAAGCAAATGGTTAACAACCCCGACTTTATGGATAATATTCAGCTAAT
315920 CTGTTAT
66 CTGTTAT
315927 ACTATTATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAAATGGTTAACAACCCCGACTTTATGGATAATATTCAGCTAAT
CTGTTAT
Found at i:321479 original size:13 final size:14
Alignment explanation
Indices: 321463--321494 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
321453 GCTTTGTAAT
321463 TTAATAT-TATTTA
1 TTAATATATATTTA
321476 TTAATATATATTTA
1 TTAATATATATTTA
321490 -TAATA
1 TTAATA
321495 ATAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAATATATATTTA
Found at i:321497 original size:3 final size:3
Alignment explanation
Indices: 321489--321559 Score: 117
Period size: 3 Copynumber: 24.0 Consensus size: 3
321479 ATATATATTT
* *
321489 ATA ATA ATA ATA ATA ATG AT- ATA ATA ATA ATA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
321536 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
321560 TGGGTAAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:322298 original size:112 final size:112
Alignment explanation
Indices: 321863--322522 Score: 785
Period size: 113 Copynumber: 5.9 Consensus size: 112
321853 GATAGAATTA
* *
321863 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-G-G-TCTTCTCATTAT
** * *
321928 GAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAAACAAAAAG
63 GAACTCT-CTCTGGCAA-AATAATCCATCAAATGATGAATTC-AAGCAAAAAG
*
321980 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-G-G-TCTTCTCATTAT
** * *
322045 GAACTCT-TCCTGGCAATGTTGA-CCATCAAATGATGAATTCAA--ACAAAG
63 GAACTCTCT-CTGGCAA-AATAATCCATCAAATGATGAATTCAAGCAAAAAG
* *
322093 TTGAAC-AA--GTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG-GTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGGTCTTCTCATTATGAA
* * * *
322154 CTTTCTCTGG-AAATGATAATCCATCAAATGATGGATTCAAGTAAAAGG
66 CTCTCTCTGGCAAA--ATAATCCATCAAATGATGAATTCAAGCAAAAAG
*
322202 TTGAACAAATTCTTCTCATTA-GAACTTTTTCTTCCTTCTTCAGATGACGAGTCTTCTCATTATG
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-G-GTCTTCTCATTATG
*
322266 AAC-CTCTCTGGCAAAATAATCCATCAAGTGATGAATTC-AGACAAAAAG
64 AACTCTCTCTGGCAAAATAATCCATCAAATGATGAATTCAAG-CAAAAAG
*
322314 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGGTCTTCTCATTATGAA
* * * *
322379 CTTTCTCTGGAAAAAATAATCCATCAAGTGATGAATTC-AGACAAAAGG
66 CTCTCTCTGG-CAAAATAATCCATCAAATGATGAATTCAAG-CAAAAAG
*
322427 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT-TTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGGTCTTCTCATTATGAA
* *
322491 CTTTCTCTGG-AAATGATGATCCATCAAATGAT
66 CTCTCTCTGGCAAA--ATAATCCATCAAATGAT
322523 AGATTTGAAT
Statistics
Matches: 495, Mismatches: 27, Indels: 47
0.87 0.05 0.08
Matches are distributed among these distances:
105 2 0.00
106 24 0.05
107 20 0.04
108 1 0.00
109 10 0.02
110 40 0.08
111 42 0.08
112 116 0.23
113 117 0.24
114 19 0.04
115 2 0.00
116 18 0.04
117 84 0.17
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (112 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGGTCTTCTCATTATGAA
CTCTCTCTGGCAAAATAATCCATCAAATGATGAATTCAAGCAAAAAG
Found at i:322404 original size:113 final size:112
Alignment explanation
Indices: 321863--322522 Score: 869
Period size: 112 Copynumber: 5.9 Consensus size: 112
321853 GATAGAATTA
* *
321863 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * *
321928 GAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAAACAAAAAG
63 GAACT-TTCTCTGGAAATGATAATCCATCAAATGATGAATTC--AACAAAAAG
*
321980 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * *
322045 GAACTCTTC-CTGGCAATGTTGA-CCATCAAATGATGAATTCAA-ACAAAG
63 GAACT-TTCTCTGGAAATGATAATCCATCAAATGATGAATTCAACAAAAAG
*
322093 TTGAAC-AA--GTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG-GTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
322154 CTTTCTCTGGAAATGATAATCCATCAAATGATGGATTCAAGTAAAAGG
66 CTTTCTCTGGAAATGATAATCCATCAAATGATGAATTCAA-CAAAAAG
* *
322202 TTGAACAAATTCTTCTCATTA-GAACTTTTTCTTCCTTCTTCAGATGACGAGTCTTCTCATTATG
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-G-TTCTTCTCATTATG
* *
322266 AAC-CTCTCTGGCAAA--ATAATCCATCAAGTGATGAATTCAGACAAAAAG
64 AACTTTCTCTGG-AAATGATAATCCATCAAATGATGAATTCA-ACAAAAAG
322314 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
** * *
322379 CTTTCTCTGGAAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGG
66 CTTTCTCTGGAAATGATAATCCATCAAATGATGAATTCA-ACAAAAAG
322427 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT-TTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
322491 CTTTCTCTGGAAATGATGATCCATCAAATGAT
66 CTTTCTCTGGAAATGATAATCCATCAAATGAT
322523 AGATTTGAAT
Statistics
Matches: 500, Mismatches: 27, Indels: 37
0.89 0.05 0.07
Matches are distributed among these distances:
105 3 0.01
106 29 0.06
107 20 0.04
109 10 0.02
110 36 0.07
111 43 0.09
112 120 0.24
113 115 0.23
114 21 0.04
116 18 0.04
117 85 0.17
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (112 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGGAAATGATAATCCATCAAATGATGAATTCAACAAAAAG
Found at i:322666 original size:149 final size:153
Alignment explanation
Indices: 322476--322778 Score: 569
Period size: 149 Copynumber: 2.0 Consensus size: 153
322466 TCAGATGAGT
322476 TCTTCTCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATAGATTTGAATCTTTGCTA
1 TCTTCTCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATAGATTTGAATCTTTGCTA
322541 AAATCTTTGAAATTCCTGTTAAAAATTCAACATAGAT-AAAATGAATG-AAAA-GCACCTATTTT
66 AAATCTTTGAAATTCCTGTTAAAAATTCAACATAGATGAAAATGAATGAAAAATGCACCTATTTT
*
322603 TGTAAACACCTAAATATGATGCA
131 TGTAAACACCTAAAAATGATGCA
322626 TCTTCTCATTATGAAC-TTCTCTGGAAATGATGATCCATCAAATGATAGATTTGAATCTTTGCTA
1 TCTTCTCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATAGATTTGAATCTTTGCTA
322690 AAATCTTTGAAATTCCTGTTAAAAATTCAACATAGATGAAAATGAATGAAAAATGCACCTATTTT
66 AAATCTTTGAAATTCCTGTTAAAAATTCAACATAGATGAAAATGAATGAAAAATGCACCTATTTT
322755 TGTAAACACCTAAAAATGATGCA
131 TGTAAACACCTAAAAATGATGCA
322778 T
1 T
322779 GAATGTTAAG
Statistics
Matches: 149, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
149 85 0.57
150 26 0.17
151 4 0.03
152 34 0.23
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (153 bp):
TCTTCTCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATAGATTTGAATCTTTGCTA
AAATCTTTGAAATTCCTGTTAAAAATTCAACATAGATGAAAATGAATGAAAAATGCACCTATTTT
TGTAAACACCTAAAAATGATGCA
Found at i:323539 original size:83 final size:83
Alignment explanation
Indices: 323293--323738 Score: 785
Period size: 83 Copynumber: 5.4 Consensus size: 83
323283 TTTTCTATGA
*
323293 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCC-AACCAGATCAGATAAC-C-AAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
323355 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
*
323373 GCAAATTCATCTTCCAAATTCAATGATTGGTTATGCC-AATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
*
323437 TTCCAGAAAATGCTATTG
66 TTCCAGAAGATGCTATTG
*
323455 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
323520 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
323538 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTC-AAGAAACA
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAG-AACA
323602 CTTCCAGAAGATGCTATTG
65 CTTCCAGAAGATGCTATTG
* *
323621 GCAAATTCATCTTCTAAATTCAATGATTGGTTATGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
323686 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
*
323704 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTG
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTG
323739 AGATATCACA
Statistics
Matches: 351, Mismatches: 10, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
80 51 0.15
81 1 0.00
82 63 0.18
83 233 0.66
84 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (83 bp):
GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATTG
Found at i:324863 original size:9 final size:9
Alignment explanation
Indices: 324849--324918 Score: 72
Period size: 9 Copynumber: 8.0 Consensus size: 9
324839 GACCCCCCCT
324849 TTTTTTTTC
1 TTTTTTTTC
*
324858 TTTTTTCTC
1 TTTTTTTTC
324867 TTTTTTTT-
1 TTTTTTTTC
* *
324875 TCTTTCTTC
1 TTTTTTTTC
324884 TTTTTTTTC
1 TTTTTTTTC
*
324893 TTCTTTTTC
1 TTTTTTTTC
* *
324902 TTCTTTCT-
1 TTTTTTTTC
324910 TTTTTTTTC
1 TTTTTTTTC
324919 AAGCATAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
8 12 0.24
9 37 0.76
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:324869 original size:19 final size:19
Alignment explanation
Indices: 324847--324914 Score: 86
Period size: 19 Copynumber: 3.5 Consensus size: 19
324837 TTGACCCCCC
324847 CTTTTTTTTTCTTTTTTCT
1 CTTTTTTTTTCTTTTTTCT
*
324866 CTTTTTTTTTCTTTCTTCT
1 CTTTTTTTTTCTTTTTTCT
324885 -TTTTTTTCTTC-TTTTTCTT
1 CTTTTTTT-TTCTTTTTTC-T
324904 CTTTCTTTTTT
1 CTTT-TTTTTT
324915 TTTCAAGCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
18 12 0.28
19 22 0.51
20 5 0.12
21 4 0.09
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
CTTTTTTTTTCTTTTTTCT
Found at i:324872 original size:16 final size:16
Alignment explanation
Indices: 324851--324914 Score: 60
Period size: 16 Copynumber: 3.8 Consensus size: 16
324841 CCCCCCCTTT
324851 TTTTTTCTTTTTTCTC
1 TTTTTTCTTTTTTCTC
324867 TTTTTT-TTTCTTTCTTC
1 TTTTTTCTTT-TTTC-TC
324884 TTTTTTTTCTTCTTTT-TC
1 --TTTTTTCTT-TTTTCTC
*
324902 TTCTTTCTTTTTT
1 TTTTTTCTTTTTT
324915 TTTCAAGCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
15 7 0.17
16 18 0.44
17 2 0.05
18 2 0.05
19 6 0.15
20 5 0.12
21 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTCTTTTTTCTC
Found at i:324873 original size:12 final size:14
Alignment explanation
Indices: 324858--324918 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
324848 TTTTTTTTTC
324858 TTTTTTC-TCTT-T
1 TTTTTTCTTCTTCT
324870 TTTTTTCTTTCTTC-
1 TTTTTTC-TTCTTCT
324884 TTTTTT-TTCTTCT
1 TTTTTTCTTCTTCT
324897 TTTTCTTCTTTCTT-T
1 TTTT-TTC-TTCTTCT
324912 TTTTTTC
1 TTTTTTC
324919 AAGCATAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
12 13 0.31
13 4 0.10
14 15 0.36
15 5 0.12
16 5 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTCTTCTTCT
Found at i:324899 original size:28 final size:27
Alignment explanation
Indices: 324853--324917 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 27
324843 CCCCCTTTTT
*
324853 TTTTCTTTTTTCTCTTTTTTTTTCTTTC
1 TTTT-TTTTTTCTCTTTTTTCTTCTTTC
324881 TTCTTTTTTTTCT-TCTTTTTCTTCTTTC
1 TT-TTTTTTTTCTCT-TTTTTCTTCTTTC
324909 TTTTTTTTT
1 TTTTTTTTT
324918 CAAGCATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
27 8 0.24
28 24 0.71
29 2 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (27 bp):
TTTTTTTTTTCTCTTTTTTCTTCTTTC
Found at i:334974 original size:14 final size:15
Alignment explanation
Indices: 334938--334974 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
334928 AATAAATTAG
334938 TTTACATAATAGAAA
1 TTTACATAATAGAAA
*
334953 TTTA-ATAATA-ACA
1 TTTACATAATAGAAA
334966 TTTACATAA
1 TTTACATAA
334975 ATATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 6 0.30
14 10 0.50
15 4 0.20
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (15 bp):
TTTACATAATAGAAA
Found at i:337661 original size:14 final size:15
Alignment explanation
Indices: 337642--337671 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
337632 GGGCTTTGTA
337642 ATTTAATAT-TATTT
1 ATTTAATATATATTT
337656 ATTTAATATATATTT
1 ATTTAATATATATTT
337671 A
1 A
337672 ATAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTAATATATATTT
Found at i:337678 original size:3 final size:3
Alignment explanation
Indices: 337670--337728 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
337660 AATATATATT
*
337670 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
337718 TAA TTA TAA TA
1 TAA TAA TAA TA
337729 TGGGTAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:337980 original size:22 final size:22
Alignment explanation
Indices: 337955--338031 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
337945 ATCTACACTT
*
337955 TTCAAAGATGATAGACTCTTTC
1 TTCAAAGATGATAGACTATTTC
* *
337977 TTCAAAGATGATAGCCTATCTC
1 TTCAAAGATGATAGACTATTTC
* * * * *
337999 TTTAAAGATGATATATTTTTTT
1 TTCAAAGATGATAGACTATTTC
338021 TTCAAAGATGA
1 TTCAAAGATGA
338032 AAGCTTTATT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGACTATTTC
Found at i:339195 original size:73 final size:73
Alignment explanation
Indices: 338734--339180 Score: 804
Period size: 73 Copynumber: 6.1 Consensus size: 73
338724 GCCGGATGTT
*
338734 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAGAACAAAATTTGTCTCCCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
338799 CAGTTTCA
66 CAGTTTCA
*
338807 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTGTCTCCCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
338872 CAGTTTCA
66 CAGTTTCA
*
338880 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTAAAAACAAAATTTGTCTCCCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
338945 CAGTTTCA
66 CAGTTTCA
**
338953 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTTGCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
339018 CAGTTTCA
66 CAGTTTCA
*
339026 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
339091 CAGTTTCA
66 CAGTTTCA
* * *
339099 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCGTCTCGCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
339164 CAGTTTCA
66 CAGTTTCA
*
339172 CTAGAAACA
1 CTCGAAACA
339181 AAAATTTCCA
Statistics
Matches: 363, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 363 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (73 bp):
CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
CAGTTTCA
Found at i:339342 original size:3 final size:3
Alignment explanation
Indices: 339334--339417 Score: 73
Period size: 3 Copynumber: 28.3 Consensus size: 3
339324 TTTTACTTAA
** * * *
339334 ATT ATT ATT -TT AAA ATT ATT ATT ATT ATT ATT ACTA AAT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * *
339379 ATT ATT ATA ATT ATT ATA AAT ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
339418 ATAAATAATT
Statistics
Matches: 62, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
2 4 0.06
3 56 0.90
4 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:340901 original size:134 final size:137
Alignment explanation
Indices: 340745--341096 Score: 440
Period size: 136 Copynumber: 2.6 Consensus size: 137
340735 TTTTATCATT
* *
340745 TAATATATA-TTA-TTTTTCAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATGTCCATTTTC
1 TAATATATATTTATTTTTTAAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATATCCATTTTC
* *
340808 TGATA-TTTTTAAT-AATATTTTATTTTTATAAATTATATATATTAATC-GA-TTT-TTAGATAA
66 TGATATTTTTTAATAAATATTTTACTTTTATAAATTATA-ATATTAATCAAATTTTATTAGATAA
340868 ATGTTTTA
130 ATGTTTTA
* *
340876 TCAATATATATTTATTTTTTAAATATTAGGAAAGGGCAATCTTAAAGCAACTGGATATCCATTTT
1 T-AATATATATTTATTTTTTAAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATATCCATTTT
*
340941 CTGATATTTTTTAATAAATATTTTACTTTTATAGATTATAATATTAATCAAAAATTTTATTAGAT
65 CTGATATTTTTTAATAAATATTTTACTTTTATAAATTATAATATTAATC--AAATTTTATTAGAT
341006 AAATGTTTTA
128 AAATGTTTTA
* * * * *
341016 T--TA-ATATTTATTTTTTTAATATTAAGAAATGAGCTGTCTTAAAGC-ACATAGA-ATCCCTTT
1 TAATATATATTTATTTTTTAAATATTAAGAAA-GGGCAGTCTTAAAGCAAC-TGGATATCCATTT
* *
341076 TCTGATATTTCTAAATAAATA
64 TCTGATATTTTTTAATAAATA
341097 AATATCTTAT
Statistics
Matches: 193, Mismatches: 16, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
131 1 0.01
132 8 0.04
133 3 0.02
134 52 0.27
135 17 0.09
136 74 0.38
137 17 0.09
138 1 0.01
139 3 0.02
140 17 0.09
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (137 bp):
TAATATATATTTATTTTTTAAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATATCCATTTTC
TGATATTTTTTAATAAATATTTTACTTTTATAAATTATAATATTAATCAAATTTTATTAGATAAA
TGTTTTA
Found at i:344828 original size:48 final size:48
Alignment explanation
Indices: 344757--344854 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
344747 TAAAATCTTC
344757 ATTTTAGACATAATGTTATAAATTAAAAATATAACATTTAAATTATAT
1 ATTTTAGACATAATGTTATAAATTAAAAATATAACATTTAAATTATAT
344805 ATTTTAGACATAATGTTATAAATTAAAAATATAACATTTAAATTATAT
1 ATTTTAGACATAATGTTATAAATTAAAAATATAACATTTAAATTATAT
344853 AT
1 AT
344855 ATACTTATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (48 bp):
ATTTTAGACATAATGTTATAAATTAAAAATATAACATTTAAATTATAT
Found at i:347841 original size:134 final size:134
Alignment explanation
Indices: 347601--347875 Score: 532
Period size: 134 Copynumber: 2.1 Consensus size: 134
347591 TGTTAGAAAA
347601 AAATATCCCTAAACTATACACGTAGAGCAAACTCGCATCCTACAAAACATGACTTAAGGCTTCTC
1 AAATATCCCTAAACTATACACGTAGAGCAAACTCGCATCCTACAAAACATGACTTAAGGCTTCTC
* *
347666 GTCCTATATAACGCGAGGTATGTCCTATGTGGACGTACTTTTTAGAGTGTTTAATTTAATATTGG
66 GTCCTACATAACGCAAGGTATGTCCTATGTGGACGTACTTTTTAGAGTGTTTAATTTAATATTGG
347731 TATT
131 TATT
347735 AAATATCCCTAAACTATACACGTAGAGCAAACTCGCATCCTACAAAACATGACTTAAGGCTTCTC
1 AAATATCCCTAAACTATACACGTAGAGCAAACTCGCATCCTACAAAACATGACTTAAGGCTTCTC
347800 GTCCTACATAACGCAAGGTATGTCCTATGTGGACGTACTTTTTAGAGTGTTTAATTTAATATTGG
66 GTCCTACATAACGCAAGGTATGTCCTATGTGGACGTACTTTTTAGAGTGTTTAATTTAATATTGG
347865 TATT
131 TATT
347869 AAATATC
1 AAATATC
347876 TCATGTTACC
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 139 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (134 bp):
AAATATCCCTAAACTATACACGTAGAGCAAACTCGCATCCTACAAAACATGACTTAAGGCTTCTC
GTCCTACATAACGCAAGGTATGTCCTATGTGGACGTACTTTTTAGAGTGTTTAATTTAATATTGG
TATT
Found at i:348198 original size:4 final size:4
Alignment explanation
Indices: 348182--348285 Score: 66
Period size: 4 Copynumber: 24.8 Consensus size: 4
348172 GGAGGTAATT
* * * *
348182 TTTA TTTA CTTA TTTA TTTA CTTG TTTA TTT- TTATCA TTTA TTTA TTTC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-T-A TTTA TTTA TTTA
* * * * *
348231 TGTA ATCA TTTA TTTCAA ATTA TTTA TTTA TTTTGA ATTA TTTA TTTA
1 TTTA TTTA TTTA TTT--A TTTA TTTA TTTA -TTT-A TTTA TTTA TTTA
348279 TTTA TTT
1 TTTA TTT
348286 CAAGGGGTAT
Statistics
Matches: 75, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
3 2 0.03
4 61 0.81
5 6 0.08
6 6 0.08
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:348261 original size:18 final size:18
Alignment explanation
Indices: 348238--348281 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
348228 TTCTGTAATC
348238 ATTTATTTCAAATTATTT
1 ATTTATTTCAAATTATTT
**
348256 ATTTATTTTGAATTATTT
1 ATTTATTTCAAATTATTT
348274 ATTTATTT
1 ATTTATTT
348282 ATTTCAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTATTTCAAATTATTT
Found at i:350395 original size:22 final size:22
Alignment explanation
Indices: 350370--350419 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
350360 TTTGTACTTT
*
350370 TTTTTTAGTTAATCGAACTACA
1 TTTTCTAGTTAATCGAACTACA
350392 TTTTCTAGTTAATCGAACTACA
1 TTTTCTAGTTAATCGAACTACA
350414 TTTTCT
1 TTTTCT
350420 TTTTTAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (22 bp):
TTTTCTAGTTAATCGAACTACA
Found at i:350436 original size:27 final size:27
Alignment explanation
Indices: 350367--350443 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 27
350357 AAATTTGTAC
350367 TTTT-TTTT-TAGTTAATCGAACTACA
1 TTTTCTTTTCTAGTTAATCGAACTACA
350392 -----TTTTCTAGTTAATCGAACTACA
1 TTTTCTTTTCTAGTTAATCGAACTACA
* * * *
350414 TTTTCTTTTTTAGTTTATTGAACTTCA
1 TTTTCTTTTCTAGTTAATCGAACTACA
350441 TTT
1 TTT
350444 CCATTTTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 4 0.10
22 17 0.40
27 21 0.50
ACGTcount: A:0.25, C:0.13, G:0.08, T:0.55
Consensus pattern (27 bp):
TTTTCTTTTCTAGTTAATCGAACTACA
Found at i:350450 original size:27 final size:28
Alignment explanation
Indices: 350390--350450 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
350380 AATCGAACTA
*
350390 CATTTTCTAGTTAATCGAACTACATTTT
1 CATTTTCTAGTTAATCGAACTACATTTC
* * * *
350418 C-TTTTTTAGTTTATTGAACTTCATTTC
1 CATTTTCTAGTTAATCGAACTACATTTC
350445 CATTTT
1 CATTTT
350451 ATAAAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.54
Consensus pattern (28 bp):
CATTTTCTAGTTAATCGAACTACATTTC
Found at i:357418 original size:18 final size:18
Alignment explanation
Indices: 357397--357431 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
357387 ACAGTGTTCC
357397 TTCGGGACATAGTGGTCA
1 TTCGGGACATAGTGGTCA
*
357415 TTCGGGATATAGTGGTC
1 TTCGGGACATAGTGGTC
357432 TTACGAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.31
Consensus pattern (18 bp):
TTCGGGACATAGTGGTCA
Found at i:357761 original size:21 final size:20
Alignment explanation
Indices: 357733--357771 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
357723 GTAAGAAGAT
357733 TAAGTATAAGAATAAATAAC
1 TAAGTATAAGAATAAATAAC
*
357753 TAAGATATAAGAATGAATA
1 TAAG-TATAAGAATAAATA
357772 TAATATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.13, T:0.26
Consensus pattern (20 bp):
TAAGTATAAGAATAAATAAC
Found at i:359530 original size:81 final size:81
Alignment explanation
Indices: 358340--359522 Score: 1585
Period size: 81 Copynumber: 14.6 Consensus size: 81
358330 GGTGTTACAA
* * * *
358340 TGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCATTGAGTAAAAGATTAATTGCCTAACTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* *
358405 GCATTTGACATAAAAG
66 GCATTTGACAGAAAGG
* * * * * *
358421 TTTCCATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGC
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
358486 GCATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* * * * * *
358502 TGTCAATTATGCCAGTTAGATTAAAGGTTAAATGCCTTTGTGTAAAATATTAATTTCCTAGCTAT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
358567 GCATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* ** * *
358583 TGTCAATTATGCCAGTTATATGAAAGTTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGATGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
*
358648 GCATTTGAGAGAAAGG
66 GCATTTGACAGAAAGG
* * * * * *
358664 TGTCAATTATGTCAGTTAGATGAAAGACTACATGTCTTTGAGTTAAAGATTAAATGCCTAGCTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* * * *
358729 GCAATCGGCAAAAAGG
66 GCATTTGACAGAAAGG
* *
358745 TGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* * *
358810 GCATCTAACAGAAATG
66 GCATTTGACAGAAAGG
* * * * * *
358826 TGTCAATTATGCCGGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTTCCTAGTTGC
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
358891 GCATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* * * *
358907 TGTCAATTATGCCAGTTAGATTAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGTTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
358972 GCATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* *
358988 TGTCAATTATGCCAGTTATATGAAAGGCTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
359053 GCATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* * *
359069 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATTCCTTTGAGTTAAAGATTAAATGCCTAGCTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* *
359134 GCAATTGGCAGAAAGG
66 GCATTTGACAGAAAGG
* * * * *
359150 TGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTTAGTAAAAGATTAATTGGCTAGTTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* *
359215 GCATTTGATAGAAATG
66 GCATTTGACAGAAAGG
* * * * *
359231 TGCCAATTATGCCAGTTAGATGAAAGACTAAATGCCTTTGAGTTAAAGATTAAATGCCTAGTTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* *
359296 GCAATTGGCAGAAAGG
66 GCATTTGACAGAAAGG
* * * * *
359312 TGTCACTCATGCAAGTTAGATGAAAGGCTAAATGTCTTTGAGTAAAAGATTAATTGTCTAGCTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
359377 GCATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* * * * *
359393 TGTCAATTATGCTAGTTAGATGAAAGGCTAATTGCCTTTGAGTTAAAGATTAAATGCCTAGTTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* * *
359458 GCAATTGGCATAAAGG
66 GCATTTGACAGAAAGG
* *
359474 TGTCAA-TATTGCAAGTTAGATGAAAGGCTAAATGCCTTTGGGTAAAAGA
1 TGTCAATTA-TGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGA
359523 CTAAATGCTT
Statistics
Matches: 966, Mismatches: 135, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
80 2 0.00
81 964 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (81 bp):
TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
GCATTTGACAGAAAGG
Found at i:360589 original size:22 final size:22
Alignment explanation
Indices: 360561--360610 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
360551 AGAGAAATTG
360561 GAGGGCATATTTTCA-TTACTTC
1 GAGGGCATATTTT-AGTTACTTC
360583 GAGGGCATATTTTAGTTACTTC
1 GAGGGCATATTTTAGTTACTTC
360605 GAGGGC
1 GAGGGC
360611 GAGCTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (22 bp):
GAGGGCATATTTTAGTTACTTC
Found at i:369901 original size:61 final size:61
Alignment explanation
Indices: 369805--369956 Score: 205
Period size: 61 Copynumber: 2.5 Consensus size: 61
369795 GTGTTATCAC
* * * *
369805 ACATAATGTCCTGCCCACCACATGCACTAAGTTTACACTCTACTGCTAATCCGGATATGAA
1 ACATAAGGTCGTGCCCACCACCTGCACTAAATTTACACTCTACTGCTAATCCGGATATGAA
* * * * * *
369866 ACATAAGGTCGTGCCCACCACCTACACTAAATTTACACTCTAGTGTTGATTCGGATATGAC
1 ACATAAGGTCGTGCCCACCACCTGCACTAAATTTACACTCTACTGCTAATCCGGATATGAA
*
369927 ATATAAGGTCGTGCCCACCACCTGCACTAA
1 ACATAAGGTCGTGCCCACCACCTGCACTAA
369957 GTGTCCTTAC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 79 1.00
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (61 bp):
ACATAAGGTCGTGCCCACCACCTGCACTAAATTTACACTCTACTGCTAATCCGGATATGAA
Found at i:371322 original size:58 final size:57
Alignment explanation
Indices: 371144--371596 Score: 316
Period size: 59 Copynumber: 7.7 Consensus size: 57
371134 TCTGAAAGAT
* * *
371144 CATACACTCAGTATGATTTCTCTT-TCATTTTAGTACA-TGAAGTGCCCTAT-TCGAAAATC
1 CATACACTTAGTATGA-TTC-CTTATCA-TTTAGCACACT-AAGTGCCCTATAT-GGAAATC
* * *
371203 CATAC-CATTAGTATGAATTCATTACCATTTTAGCACACGAAGTGCCCTATAT-GAAATTC
1 CATACAC-TTAGTATG-ATTCCTTATCA-TTTAGCACACTAAGTGCCCTATATGGAAA-TC
* * ** * *
371262 CATACCCTTAGTATGATCTCCTTATCATTTAGCACACTCAGTGCTTTATCTAGAAATC
1 CATACACTTAGTATGAT-TCCTTATCATTTAGCACACTAAGTGCCCTATATGGAAATC
* * **
371320 CATACACTCAGTATGATTCCTTTACCATTTTAGCACA-TAAAGTGCCCTATCCGGAAATC
1 CATACACTTAGTATGATTCC-TTATCA-TTTAGCACACT-AAGTGCCCTATATGGAAATC
* * *
371379 CATATA-TTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCC-ATATGGAAATC
1 CATACACTT-AGTATGAT-TCCTTATCATTTAGCACACTAAGTGC-CCTATATGGAAATC
* * * * * **
371437 TATACACTCAGTATAATTCCTTTACCATTTTAGCATA-TAAAGTGCCCTATCCGGAAATC
1 CATACACTTAGTATGATTCC-TTATCA-TTTAGCACACT-AAGTGCCCTATATGGAAATC
* * *
371496 CATATA-TTCAATATGATCTCCTTATCATTTAGCACACTTAGTGCTCC-ATATGGAAATC
1 CATACACTT-AGTATGAT-TCCTTATCATTTAGCACACTAAGTGC-CCTATATGGAAATC
* * * * *
371554 CATACACTCAGTATGATTTCCTGATCCTTTATCACACAAAGTG
1 CATACACTTAGTATGA-TTCCTTATCATTTAGCACACTAAGTG
371597 ACATTTCGAA
Statistics
Matches: 311, Mismatches: 56, Indels: 55
0.74 0.13 0.13
Matches are distributed among these distances:
57 6 0.02
58 146 0.47
59 150 0.48
60 9 0.03
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (57 bp):
CATACACTTAGTATGATTCCTTATCATTTAGCACACTAAGTGCCCTATATGGAAATC
Found at i:371349 original size:117 final size:117
Alignment explanation
Indices: 371198--371571 Score: 531
Period size: 117 Copynumber: 3.2 Consensus size: 117
371188 CCCTATTCGA
* * ** **
371198 AAATCCATAC-CATTAGTATGAATT-CATTACCATTTTAGCACACGAAGTGCCCTAT-ATGAAAT
1 AAATCCATACAC-TCAGTATG-ATTCCTTTACCATTTTAGCACATAAAGTGCCCTATCCGGAAA-
** * ** * *
371260 TCCATACCCTT-AGTATGATCTCCTTATCATTTAGCACACTCAGTGCTTTATCTAG
63 TCCATA-TATTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
371315 AAATCCATACACTCAGTATGATTCCTTTACCATTTTAGCACATAAAGTGCCCTATCCGGAAATCC
1 AAATCCATACACTCAGTATGATTCCTTTACCATTTTAGCACATAAAGTGCCCTATCCGGAAATCC
371380 ATATATTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
66 ATATATTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
* * *
371432 AAATCTATACACTCAGTATAATTCCTTTACCATTTTAGCATATAAAGTGCCCTATCCGGAAATCC
1 AAATCCATACACTCAGTATGATTCCTTTACCATTTTAGCACATAAAGTGCCCTATCCGGAAATCC
*
371497 ATATATTCAATATGATCTCCTTATCATTTAGCACACTTAGTGCTCCATATGG
66 ATATATTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
371549 AAATCCATACACTCAGTATGATT
1 AAATCCATACACTCAGTATGATT
371572 TCCTGATCCT
Statistics
Matches: 234, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
116 5 0.02
117 224 0.96
118 5 0.02
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (117 bp):
AAATCCATACACTCAGTATGATTCCTTTACCATTTTAGCACATAAAGTGCCCTATCCGGAAATCC
ATATATTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
Found at i:371471 original size:176 final size:176
Alignment explanation
Indices: 371105--371471 Score: 412
Period size: 176 Copynumber: 2.1 Consensus size: 176
371095 TATAATTTTT
* *
371105 CTTACAATATTAGCACTCTCAGTGCTTTATCTGAAAGATCATACACTCAGTATGATTTCTCTTTC
1 CTTACCAT-TTAGCACACTCAGTGCTTTATCTGAAAGATCATACACTCAGTATGATTTCTCTTTC
* * * *
371170 ATTTTAGTACATGAAGTGCCCTATTCGAAAATCCATACCATTAGTATGAATTCATTACCATTTTA
65 ATTTTAGCACATAAAGTGCCCTATCCGAAAATCCATACCATTAATATGAATTCATTACCATTTTA
* * *
371235 GCACACGAAGTGCCCTATATGAAATTCCATACCCTTAGTATGATCTC
130 GCACACGAAGTGCCCTATATGAAATTCCATACACTCAGTATAATCTC
*
371282 CTTATCATTTAGCACACTCAGTGCTTTATCT-AGAA-ATCCATACACTCAGTATGA-TTC-CTTT
1 CTTACCATTTAGCACACTCAGTGCTTTATCTGA-AAGAT-CATACACTCAGTATGATTTCTCTTT
* * * *
371343 ACCATTTTAGCACATAAAGTGCCCTATCCGGAAATCCATA-TATTCAATATG-ATCTCCTTATCA
64 --CATTTTAGCACATAAAGTGCCCTATCCGAAAATCCATACCATT-AATATGAAT-TCATTACCA
** *
371406 -TTTAGCACACTCAGTGCTCC-ATATGGAAA-TCTATACACTCAGTATAAT-TC
125 TTTTAGCACACGAAGTGC-CCTATAT-GAAATTCCATACACTCAGTATAATCTC
371456 CTTTACCATTTTAGCA
1 C-TTACCA-TTTAGCA
371472 TATAAAGTGC
Statistics
Matches: 162, Mismatches: 18, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
174 7 0.04
175 50 0.31
176 99 0.61
177 6 0.04
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.35
Consensus pattern (176 bp):
CTTACCATTTAGCACACTCAGTGCTTTATCTGAAAGATCATACACTCAGTATGATTTCTCTTTCA
TTTTAGCACATAAAGTGCCCTATCCGAAAATCCATACCATTAATATGAATTCATTACCATTTTAG
CACACGAAGTGCCCTATATGAAATTCCATACACTCAGTATAATCTC
Found at i:371496 original size:176 final size:175
Alignment explanation
Indices: 371144--371531 Score: 382
Period size: 176 Copynumber: 2.2 Consensus size: 175
371134 TCTGAAAGAT
* * *
371144 CATACACTCAGTATGATTTCTCTTT-CATTTTAGTACATGAAGTGCCCTATTCGAAAATCCATAC
1 CATACACTCAGTATGA-TTC-CTTTACATTTTAGCACATAAAGTGCCCTATCCGAAAATCCATAC
* * *
371208 CATTAGTATGAATTCATTACCATTTTAGCACACGAAGTGCCCTATATGAAATTCCATACCCTTAG
64 CATTAATATGAATTCATTACCATTTTAGCACACGAAGTGCCCTATATGAAATTCCATACACTCAG
* * * ** *
371273 TATGATCTCCTTATCATTTAGCACACTCAGTGCTTTATCTAGAAATC
129 TATAATCTCCTTACCATTTAGCACACTAAGTGCCCTATCCAGAAATC
* *
371320 CATACACTCAGTATGATTCCTTTACCATTTTAGCACATAAAGTGCCCTATCCGGAAATCCATA-T
1 CATACACTCAGTATGATTCCTTTA-CATTTTAGCACATAAAGTGCCCTATCCGAAAATCCATACC
* * ** *
371384 ATTCAATATG-ATCTCCTTATCA-TTTAGCACACTCAGTGCTCC-ATATGGAAA-TCTATACACT
65 ATT-AATATGAAT-TCATTACCATTTTAGCACACGAAGTGC-CCTATAT-GAAATTCCATACACT
* *
371445 CAGTATAAT-TCCTTTACCATTTTAGCATA-TAAAGTGCCCTATCCGGAAATC
126 CAGTATAATCTCC-TTACCA-TTTAGCACACT-AAGTGCCCTATCCAGAAATC
* * *
371496 CATATATTCAATATGATCTCC-TTATCA-TTTAGCACA
1 CATACACTCAGTATGAT-TCCTTTA-CATTTTAGCACA
371532 CTTAGTGCTC
Statistics
Matches: 177, Mismatches: 25, Indels: 21
0.79 0.11 0.09
Matches are distributed among these distances:
174 7 0.04
175 57 0.32
176 110 0.62
177 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.35
Consensus pattern (175 bp):
CATACACTCAGTATGATTCCTTTACATTTTAGCACATAAAGTGCCCTATCCGAAAATCCATACCA
TTAATATGAATTCATTACCATTTTAGCACACGAAGTGCCCTATATGAAATTCCATACACTCAGTA
TAATCTCCTTACCATTTAGCACACTAAGTGCCCTATCCAGAAATC
Found at i:373731 original size:29 final size:30
Alignment explanation
Indices: 373676--373734 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
373666 TAATAATCCA
* * *
373676 TAACTTTTCCAAAATTATAAATTTGGTCCC
1 TAACTTTTCAAAAATTACAAATATGGTCCC
373706 TAACTTTTCAAAAATTACAAA-ATGGTCCC
1 TAACTTTTCAAAAATTACAAATATGGTCCC
373735 CCAAATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (30 bp):
TAACTTTTCAAAAATTACAAATATGGTCCC
Found at i:376267 original size:20 final size:20
Alignment explanation
Indices: 376242--376304 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
376232 GTGGTTTTCT
*
376242 AAATTCGCAACAAAGAAGTC
1 AAATTCGCAACACAGAAGTC
*
376262 AAATTCGCAACACATAAGTC
1 AAATTCGCAACACAGAAGTC
376282 AAATTCGCAACACAGAAGTC
1 AAATTCGCAACACAGAAGTC
376302 AAA
1 AAA
376305 GCGCGTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.49, C:0.22, G:0.13, T:0.16
Consensus pattern (20 bp):
AAATTCGCAACACAGAAGTC
Found at i:376887 original size:34 final size:34
Alignment explanation
Indices: 376849--376922 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
376839 GCAAATTTAG
376849 TTTCGCGTTACGATTTTGTCGTTGCGATTTTCAT
1 TTTCGCGTTACGATTTTGTCGTTGCGATTTTCAT
376883 TTTCGCGTTACGATTTTGTCGTTGCGATTTTCAT
1 TTTCGCGTTACGATTTTGTCGTTGCGATTTTCAT
376917 TTTCGC
1 TTTCGC
376923 ATTGCGAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.11, C:0.19, G:0.20, T:0.50
Consensus pattern (34 bp):
TTTCGCGTTACGATTTTGTCGTTGCGATTTTCAT
Found at i:378656 original size:21 final size:21
Alignment explanation
Indices: 378632--378672 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
378622 GAGTTAAGTG
*
378632 ATGAGGTCGGTGCTTTACGTC
1 ATGAGGTCGGTACTTTACGTC
378653 ATGAGGTCGGTACTTTACGT
1 ATGAGGTCGGTACTTTACGT
378673 GAAGACAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.34
Consensus pattern (21 bp):
ATGAGGTCGGTACTTTACGTC
Found at i:378773 original size:62 final size:61
Alignment explanation
Indices: 378666--378784 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 61
378656 AGGTCGGTAC
* *
378666 TTTACGTGAAGACAATGGTGCGCTACGTGATGAGGTACGGTCTTTACATGGTGAGGTGGATT
1 TTTACGCGAAGACAATGGTGCGCTACGTGATGAGGTAC-GTCTTTACATGATGAGGTGGATT
* * *
378728 TTTACGCGATGACAATGGTGCGCTACGTGGTGAGGTATC-TACTTTACGTGATGAGGT
1 TTTACGCGAAGACAATGGTGCGCTACGTGATGAGGTA-CGT-CTTTACATGATGAGGT
378785 AGCCGCTCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 1 0.02
62 48 0.96
63 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.31
Consensus pattern (61 bp):
TTTACGCGAAGACAATGGTGCGCTACGTGATGAGGTACGTCTTTACATGATGAGGTGGATT
Found at i:379122 original size:21 final size:21
Alignment explanation
Indices: 379108--379199 Score: 157
Period size: 21 Copynumber: 4.4 Consensus size: 21
379098 CCTCCTATCA
379108 TTCAAGAGGCCCCTCTCATCG
1 TTCAAGAGGCCCCTCTCATCG
379129 TTCAAGAGGCCCCTCTCATCG
1 TTCAAGAGGCCCCTCTCATCG
379150 TTCAAGAGGCCCCTCTCATCG
1 TTCAAGAGGCCCCTCTCATCG
* * *
379171 TTCAAGAGGTCCCTCCCACCG
1 TTCAAGAGGCCCCTCTCATCG
379192 TTCAAGAG
1 TTCAAGAG
379200 CCTGATTCAC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.23
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCTCATCG
Found at i:380766 original size:20 final size:20
Alignment explanation
Indices: 380741--380796 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
380731 TTTTTCGTTA
380741 CGATAGTCAAATTCGCAATG
1 CGATAGTCAAATTCGCAATG
380761 CGATAGTCAAATTCGCAATG
1 CGATAGTCAAATTCGCAATG
*
380781 CGAAAGTCAAATTCGC
1 CGATAGTCAAATTCGC
380797 GTTTCGATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (20 bp):
CGATAGTCAAATTCGCAATG
Found at i:380891 original size:34 final size:34
Alignment explanation
Indices: 380848--380920 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
380838 TTTCGTAACA
* * **
380848 ATCGCAACGCGATAATCGCGTTGCGAATTTGACT
1 ATCGCAACGCAAAAATCGCAATGCGAATTTGACT
*
380882 ATCGCAACGCAAAAATCGTAATGCGAATTTGACT
1 ATCGCAACGCAAAAATCGCAATGCGAATTTGACT
*
380916 TTCGC
1 ATCGC
380921 GTTGTGAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (34 bp):
ATCGCAACGCAAAAATCGCAATGCGAATTTGACT
Found at i:381210 original size:6 final size:6
Alignment explanation
Indices: 381201--381235 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
381191 TTGTGATTAG
**
381201 GATTTT GATTTT GATTGC GATTTT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
381236 CCTTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (6 bp):
GATTTT
Found at i:382065 original size:21 final size:20
Alignment explanation
Indices: 381992--382062 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
381982 TTAAATTCGT
*
381992 GTTGCGAATTCAAAAATCGA
1 GTTGCGAATTCGAAAATCGA
382012 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATCGA
* * *
382032 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTCGAAAATC-GA
382053 GTTGCGAATT
1 GTTGCGAATT
382063 TGACTTCTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 35 0.76
21 11 0.24
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (20 bp):
GTTGCGAATTCGAAAATCGA
Found at i:382079 original size:20 final size:21
Alignment explanation
Indices: 381984--382065 Score: 80
Period size: 20 Copynumber: 4.0 Consensus size: 21
381974 TTGCAAAATT
**
381984 AAATTC-GTGTTGCGAATTCA
1 AAATTCAGTGTTGCGAATTTG
* * *
382004 AAAATC-GAGTTGCGAATTCG
1 AAATTCAGTGTTGCGAATTTG
* *
382024 AAAATC-GAGTTGCGAATTTG
1 AAATTCAGTGTTGCGAATTTG
382044 AAATTCAGTGTTGCGAATTTG
1 AAATTCAGTGTTGCGAATTTG
382065 A
1 A
382066 CTTCTTTGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
20 41 0.75
21 14 0.25
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (21 bp):
AAATTCAGTGTTGCGAATTTG
Found at i:386670 original size:21 final size:21
Alignment explanation
Indices: 386646--386687 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
386636 TTTTTATTAA
386646 AATATGAATT-AAATCATATTT
1 AATATG-ATTCAAATCATATTT
386667 AATATGATTCAAATCATATTT
1 AATATGATTCAAATCATATTT
386688 TACGGGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (21 bp):
AATATGATTCAAATCATATTT
Found at i:389647 original size:16 final size:16
Alignment explanation
Indices: 389613--389646 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
389603 ATTAAATATA
389613 TTTAAATAATTTTAAT
1 TTTAAATAATTTTAAT
*
389629 TTTATATAATTTT-AT
1 TTTAAATAATTTTAAT
389644 TTT
1 TTT
389647 TTCTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAAATAATTTTAAT
Found at i:390259 original size:15 final size:16
Alignment explanation
Indices: 390239--390280 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
390229 ATCGTTACCC
*
390239 AAAATCCCTAA-ATTT
1 AAAATCCCTAATATCT
390254 AAAATCCCTAATATCT
1 AAAATCCCTAATATCT
390270 -AAATCCCTAAT
1 AAAATCCCTAAT
390281 TCTCAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 22 0.88
16 3 0.12
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATCCCTAATATCT
Found at i:390817 original size:19 final size:19
Alignment explanation
Indices: 390793--390829 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
390783 ATAACCAACA
*
390793 AAATCGCAATGCGATCTCT
1 AAATCGCAAAGCGATCTCT
390812 AAATCGCAAAGCGATCTC
1 AAATCGCAAAGCGATCTC
390830 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAAAGCGATCTCT
Found at i:390839 original size:20 final size:19
Alignment explanation
Indices: 390793--390841 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
390783 ATAACCAACA
* *
390793 AAATCGCAATGCGATCTCT
1 AAATCGCAAAGCGATCTCC
390812 AAATCGCAAAGCGATCTCC
1 AAATCGCAAAGCGATCTCC
*
390831 AGTATCGCAAA
1 A-AATCGCAAA
390842 TTAGTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.20
Consensus pattern (19 bp):
AAATCGCAAAGCGATCTCC
Found at i:390869 original size:20 final size:20
Alignment explanation
Indices: 390855--390903 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
390845 GTTTTCAGAT
390855 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTTTGACTA
* * *
390875 TCGCAACGCGATTCTGGCTG
1 TCGCAACGCGATTTTGACTA
390895 TCGCAACGC
1 TCGCAACGC
390904 TGAATTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGATTTTGACTA
Found at i:394023 original size:12 final size:12
Alignment explanation
Indices: 394008--394044 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
393998 TCAAAAAAAG
394008 GCAATCAAAATC
1 GCAATCAAAATC
394020 GCAATCAAAATC
1 GCAATCAAAATC
* *
394032 CCAATCACAATC
1 GCAATCAAAATC
394044 G
1 G
394045 GCTTCACCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.46, C:0.30, G:0.08, T:0.16
Consensus pattern (12 bp):
GCAATCAAAATC
Found at i:394348 original size:140 final size:140
Alignment explanation
Indices: 394096--394378 Score: 521
Period size: 140 Copynumber: 2.0 Consensus size: 140
394086 GCAAACGTTG
*
394096 TATTATGTGTATTTTATATGTAAACGTTTAACATTTTTAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATATGTAAACGTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
394161 TTGAACATTGCTATGATTTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
*
394226 CGAATTTGAC
131 CGAATTAGAC
* *
394236 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATATGTAAACGTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
394301 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
394366 CGAATTAGAC
131 CGAATTAGAC
394376 TAT
1 TAT
394379 CGCAACGCGA
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATATGTAAACGTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTAGAC
Found at i:394381 original size:20 final size:20
Alignment explanation
Indices: 394349--394425 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
394339 TTACACATTC
*
394349 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
394369 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
394389 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
394409 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
394426 AGAAAATCGC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:394489 original size:20 final size:20
Alignment explanation
Indices: 394464--394527 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
394454 GCAACGCGAA
*
394464 TTGACTTTCACGTTGCGATT
1 TTGACTTTCACATTGCGATT
**
394484 TTGACTTTTGCATTGCGATT
1 TTGACTTTCACATTGCGATT
*
394504 TTGACTTTCGCATTGCGATT
1 TTGACTTTCACATTGCGATT
394524 TTGA
1 TTGA
394528 GTTTAGCGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.16, C:0.17, G:0.20, T:0.47
Consensus pattern (20 bp):
TTGACTTTCACATTGCGATT
Found at i:394520 original size:40 final size:40
Alignment explanation
Indices: 394464--394541 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
394454 GCAACGCGAA
* *
394464 TTGACTTTCACGTTGCGATTTTGACTTTTGCATTGCGATT
1 TTGACTTTCACATTGCGATTTTGACTTTAGCATTGCGATT
* * *
394504 TTGACTTTCGCATTGCGATTTTGAGTTTAGCGTTGCGA
1 TTGACTTTCACATTGCGATTTTGACTTTAGCATTGCGA
394542 AAGTGTACCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (40 bp):
TTGACTTTCACATTGCGATTTTGACTTTAGCATTGCGATT
Found at i:394539 original size:20 final size:20
Alignment explanation
Indices: 394476--394541 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
394466 GACTTTCACG
*
394476 TTGCGATTTTGACTTTTGCA
1 TTGCGATTTTGACTTTAGCA
*
394496 TTGCGATTTTGACTTTCGCA
1 TTGCGATTTTGACTTTAGCA
* *
394516 TTGCGATTTTGAGTTTAGCG
1 TTGCGATTTTGACTTTAGCA
394536 TTGCGA
1 TTGCGA
394542 AAGTGTACCT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGCGATTTTGACTTTAGCA
Found at i:396093 original size:42 final size:41
Alignment explanation
Indices: 396034--396156 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 41
396024 GTGAATCGGG
* * *
396034 CTCTTAAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTAAACGATGGGAGGGACCTCTTGAA-GATGACAGGGGC
* * *
396076 CTCTTGAACGATGGGAGGGGA-CTCTTGAGAGATGATAGAGGC
1 CTCTTAAACGATGGGA-GGGACCTCTTGA-AGATGACAGGGGC
* *
396118 CTCTTAAACGATAGAAGAGG-CCTCTTGAATGATGACAGG
1 CTCTTAAACGATGGGAG-GGACCTCTTGAA-GATGACAGG
396157 TGAGTCGGGC
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
41 2 0.03
42 58 0.89
43 5 0.08
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.22
Consensus pattern (41 bp):
CTCTTAAACGATGGGAGGGACCTCTTGAAGATGACAGGGGC
Found at i:396094 original size:21 final size:21
Alignment explanation
Indices: 396045--396151 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 21
396035 TCTTAAATGG
* *
396045 TGGGAGGGACCTCTTCAACGA
1 TGGGAGGGGCCTCTTGAACGA
**
396066 TGACAGGGGCCTCTTGAACGA
1 TGGGAGGGGCCTCTTGAACGA
*
396087 TGGGAGGGGACTCTTGAGA-GA
1 TGGGAGGGGCCTCTTGA-ACGA
** * *
396108 TGATAGAGGCCTCTTAAACGA
1 TGGGAGGGGCCTCTTGAACGA
* * * *
396129 TAGAAGAGGCCTCTTGAATGA
1 TGGGAGGGGCCTCTTGAACGA
396150 TG
1 TG
396152 ACAGGTGAGT
Statistics
Matches: 66, Mismatches: 18, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
20 1 0.02
21 64 0.97
22 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.34, T:0.21
Consensus pattern (21 bp):
TGGGAGGGGCCTCTTGAACGA
Found at i:396656 original size:20 final size:20
Alignment explanation
Indices: 396631--396674 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
396621 AATAGTTTCT
396631 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
396651 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
396671 GAAA
1 GAAA
396675 ATGACTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:396684 original size:20 final size:20
Alignment explanation
Indices: 396661--396753 Score: 141
Period size: 20 Copynumber: 4.7 Consensus size: 20
396651 GAAACTTAAA
396661 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
396681 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
396701 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
** *
396721 ATCGCAATACGGAAATGACT
1 ATCGCAACGCGAAAATGACT
396741 ATCGCAACGCGAA
1 ATCGCAACGCGAA
396754 CGCGAATTTG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:396705 original size:40 final size:40
Alignment explanation
Indices: 396661--396753 Score: 159
Period size: 40 Copynumber: 2.3 Consensus size: 40
396651 GAAACTTAAA
*
396661 ATCGCAACGCGAAAATGACTATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACTATCGCAATACGAAAATGACT
* *
396701 ATCGCAACGCGGAAATGACTATCGCAATACGGAAATGACT
1 ATCGCAACGCGAAAATGACTATCGCAATACGAAAATGACT
396741 ATCGCAACGCGAA
1 ATCGCAACGCGAA
396754 CGCGAATTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (40 bp):
ATCGCAACGCGAAAATGACTATCGCAATACGAAAATGACT
Found at i:396888 original size:20 final size:20
Alignment explanation
Indices: 396865--396913 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
396855 GTCAAATTCA
396865 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
396885 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
396905 CGTTGCGAT
1 CGTTGCGAT
396914 TTTAGTTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:398846 original size:20 final size:20
Alignment explanation
Indices: 398823--398928 Score: 110
Period size: 20 Copynumber: 5.4 Consensus size: 20
398813 TCTGAAACTT
398823 AAAATCGCAACGCGAAAATG
1 AAAATCGCAACGCGAAAATG
*
398843 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** * *
398863 ACTATCGCAACGCG-AATTT
1 AAAATCGCAACGCGAAAATG
*
398882 AACTATCGCAACGCG-AAATG
1 AA-AATCGCAACGCGAAAATG
* *
398902 AAAATCGCAATGCGAAACT-
1 AAAATCGCAACGCGAAAATG
398921 AAAATCGC
1 AAAATCGC
398929 GTTGCAATTT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
19 22 0.31
20 50 0.69
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:399606 original size:19 final size:19
Alignment explanation
Indices: 399582--399618 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
399572 TGCGATACTG
* *
399582 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCAATTTA
399601 GAGATCGCATTGCAATTT
1 GAGATCGCATTGCAATTT
399619 TGTTGATCAT
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:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCAATTTA
Found at i:400370 original size:44 final size:44
Alignment explanation
Indices: 400322--400435 Score: 185
Period size: 44 Copynumber: 2.6 Consensus size: 44
400312 AATAACAATA
400322 ATTT-ATTAAGTATTTAAATTTAAAAGTTAGAAAGTAAATATCTT
1 ATTTAATTAA-TATTTAAATTTAAAAGTTAGAAAGTAAATATCTT
*
400366 ATTTAATTAATATTTAAGTTTAAAAGTTAGAAAGTAAATATCTT
1 ATTTAATTAATATTTAAATTTAAAAGTTAGAAAGTAAATATCTT
* *
400410 ATTTAATTAATGTTTAAATTAAAAAG
1 ATTTAATTAATATTTAAATTTAAAAG
400436 ACCTAAAATA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
44 60 0.92
45 5 0.08
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (44 bp):
ATTTAATTAATATTTAAATTTAAAAGTTAGAAAGTAAATATCTT
Found at i:400740 original size:51 final size:51
Alignment explanation
Indices: 400664--400766 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
400654 GTAAGAGAGA
* *
400664 TGAAATAAAATTTCAGGTGGCGAACTAAAATTCTAGGGGCGAAACAAATTT
1 TGAAATAAAATTTCAGGTGGCGAACTAAAATACTAGGGGCAAAACAAATTT
*
400715 TGAAATAAAATTTCAGGTGGTGAACTAAAATACTAGGGGCAAAACAAATTT
1 TGAAATAAAATTTCAGGTGGCGAACTAAAATACTAGGGGCAAAACAAATTT
400766 T
1 T
400767 CAATAAGAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (51 bp):
TGAAATAAAATTTCAGGTGGCGAACTAAAATACTAGGGGCAAAACAAATTT
Found at i:405893 original size:3 final size:3
Alignment explanation
Indices: 405885--405909 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
405875 CAAAGTTGCC
405885 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
405910 CATGGTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:411311 original size:27 final size:27
Alignment explanation
Indices: 411246--411339 Score: 77
Period size: 30 Copynumber: 3.5 Consensus size: 27
411236 TTAAATTCAT
* *
411246 AATATTTTATA-TATATTAACTTAAAA
1 AATATATTATATTATATTAACTTATAA
* *
411272 AAT-TATT-TTTTATATTAACTTATTA
1 AATATATTATATTATATTAACTTATAA
* *
411297 AATATATTATATTATTACTTTAAATTATCA
1 AATATATTATATTA-TA--TTAACTTATAA
*
411327 AATATATTTTATT
1 AATATATTATATT
411340 TTTATCTTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
24 1 0.02
25 19 0.35
26 7 0.13
27 4 0.07
28 2 0.04
30 21 0.39
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (27 bp):
AATATATTATATTATATTAACTTATAA
Found at i:411312 original size:25 final size:26
Alignment explanation
Indices: 411246--411313 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
411236 TTAAATTCAT
*
411246 AATATTTTATATATATTAACTTAAAA
1 AATATATTATATATATTAACTTAAAA
* * **
411272 AAT-TATTTTTTATATTAACTTATTA
1 AATATATTATATATATTAACTTAAAA
411297 AATATATTATAT-TATTA
1 AATATATTATATATATTA
411314 CTTTAAATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
25 25 0.74
26 9 0.26
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (26 bp):
AATATATTATATATATTAACTTAAAA
Found at i:417493 original size:38 final size:42
Alignment explanation
Indices: 417409--417496 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 42
417399 CGCGATCTCC
* *
417409 GGTATCGCAAATCAGTTTCCAGATAGTATTCGCAACGACTGGT
1 GGTATTGCAAATCAGTTTCCAGATAG-ATTCGCAACGACTGAT
417452 GGTATTGCAAATCAGTTTCCA-A-A-A-TCGCAACGACTGAT
1 GGTATTGCAAATCAGTTTCCAGATAGATTCGCAACGACTGAT
417490 GGTATTG
1 GGTATTG
417497 TATTTGTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
38 20 0.47
39 1 0.02
41 1 0.02
42 1 0.02
43 20 0.47
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (42 bp):
GGTATTGCAAATCAGTTTCCAGATAGATTCGCAACGACTGAT
Found at i:418365 original size:21 final size:19
Alignment explanation
Indices: 418313--418378 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
418303 CGTTGCGATT
418313 TTGGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
*
418332 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
* *
418355 TTGGACTATCGCAATGAAT
1 TTGGACTATCGCAACGAAC
418374 TTGGA
1 TTGGA
418379 AAATCGCATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 14 0.36
21 14 0.36
23 11 0.28
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:418413 original size:21 final size:21
Alignment explanation
Indices: 418387--418434 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
418377 GAAAATCGCA
418387 TTGCGATAGTCGAAGTTCACG
1 TTGCGATAGTCGAAGTTCACG
* **
418408 TTGCGATAGTCGATGTTTGCG
1 TTGCGATAGTCGAAGTTCACG
418429 TTGCGA
1 TTGCGA
418435 ATCTGGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (21 bp):
TTGCGATAGTCGAAGTTCACG
Found at i:418830 original size:31 final size:31
Alignment explanation
Indices: 418770--418830 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
418760 AACTACTTAA
*
418770 TATATTCAACATTTTTTAAAAGTACATATAT
1 TATATTCAACATTTTTTAAAACTACATATAT
* *
418801 TATATTCGACATTTTGTT-AAACTATATATA
1 TATATTCAACATTTT-TTAAAACTACATATA
418831 AGTGCTATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (31 bp):
TATATTCAACATTTTTTAAAACTACATATAT
Found at i:419852 original size:9 final size:8
Alignment explanation
Indices: 419822--419850 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
419812 GTCATGCAAG
419822 AAAAATAA
1 AAAAATAA
419830 AAAAATAA
1 AAAAATAA
419838 AAAAATAA
1 AAAAATAA
419846 AAAAA
1 AAAAA
419851 ATTCCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAATAA
Found at i:421859 original size:18 final size:18
Alignment explanation
Indices: 421836--421904 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
421826 TGAATATTTT
*
421836 TCCCGAAGGACCACTTTG
1 TCCCGAAGGACCACTATG
*
421854 TCCCGAATGACCACTATG
1 TCCCGAAGGACCACTATG
* *
421872 TCCCGAATGATCACTATG
1 TCCCGAAGGACCACTATG
*
421890 TCCCAAAGGACCACT
1 TCCCGAAGGACCACT
421905 GATAATCCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:434378 original size:18 final size:18
Alignment explanation
Indices: 434355--434409 Score: 101
Period size: 18 Copynumber: 3.1 Consensus size: 18
434345 GCACTGAATA
434355 TTTGTCCCGAAGGACCAC
1 TTTGTCCCGAAGGACCAC
434373 TTTGTCCCGAAGGACCAC
1 TTTGTCCCGAAGGACCAC
*
434391 TATGTCCCGAAGGACCAC
1 TTTGTCCCGAAGGACCAC
434409 T
1 T
434410 GATAATCCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.22
Consensus pattern (18 bp):
TTTGTCCCGAAGGACCAC
Found at i:439379 original size:4 final size:4
Alignment explanation
Indices: 439370--440613 Score: 1988
Period size: 4 Copynumber: 321.8 Consensus size: 4
439360 GATGCATAAC
439370 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
439418 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
439466 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATACT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA-T ACAT ACAT ACAT
*
439515 AC-T ACAT ACAT ACAT ACAT ACAG ACAT ACAT ACAT ACAT -CAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
439561 ACAT AC-- ACAT CACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
439608 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
439653 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
439700 ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
439747 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
439795 ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT -CAT ACCT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
439841 ACAT ACAT ACAT ACAT ACAG ACAT ACAT ACAT AC-T ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
439887 ACAT -CAT ACAT AC-T ACAT AC-T ACAT ACAT AC-T ACAT AC-- ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
439929 ACAT ACAT ACA- ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-AT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
439975 ACAT ACAT ACAT ACAT A-AT ACAT ACA- ACAT ACAT ACAT ACAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
440019 ACAT ACAT ACAT ACAT ACAT ACAT ACAT -CAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
440064 ACAT ACAT ACA- ACAT ACAT ACAT CCAT ACAT ACAC ATAC ACAT ACAG
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
440111 ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
440158 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT -CAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
440205 ACAT ACAT ACAT ACAT ACAT ACCT ACAT ACAT ACATT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA-T ACAT ACAT ACAT
*
440254 -CAT ACAT ACAT ACAT ACAT ACAT ACAT ACCT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
440301 ACAT ACAT ACAT -CAT ACAT ACA- ACAT ACAT ACAT A-AT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
440346 ACAT ACAT ACAT ACAT ACAT ACCT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
440394 ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
440439 ACAT CCAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
440485 ACAT ACAT AC-- ACAT ACAT ACAT ACAT CATAT ACAT -CAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT ACAT ACAT ACAT
440531 ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
440578 ACAT AC-- ACAT ACCT ACAT A-AT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
440614 AAATATGAAA
Statistics
Matches: 1161, Mismatches: 28, Indels: 102
0.90 0.02 0.08
Matches are distributed among these distances:
2 18 0.02
3 87 0.07
4 1042 0.90
5 14 0.01
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:442166 original size:4 final size:4
Alignment explanation
Indices: 442157--442581 Score: 688
Period size: 4 Copynumber: 110.2 Consensus size: 4
442147 GCATAACACA
442157 ACAT ACAT ACAT ACA- ACAT ACAT ACA- ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
442203 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
442249 ACAT A-AT ACAT ACAT ACAT AC-T ACA- ACAT --AT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
442292 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
442338 ACAT ACAT ACAT --AT ACAT ACAT ACAT ACCAT ACAT ACCAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT A-CAT ACAT ACAT
*
442386 AC-T ACAT ACAT ACAT AAAT ACAT ACAT ACAT ACAT ACAT ACAT ACA-
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
442432 A-AT ACAT A-AT ACA- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
442477 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
442525 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
442573 ACAT ACAT A
1 ACAT ACAT A
442582 GGATGGTTTT
Statistics
Matches: 397, Mismatches: 4, Indels: 40
0.90 0.01 0.09
Matches are distributed among these distances:
2 9 0.02
3 26 0.07
4 354 0.89
5 8 0.02
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:447712 original size:21 final size:21
Alignment explanation
Indices: 447674--447713 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
447664 ATTGTAAAAT
* *
447674 TTACCCCCAGTATTGATACTG
1 TTACCCCCAATATCGATACTG
*
447695 TTACCCTCAATATCGATAC
1 TTACCCCCAATATCGATAC
447714 CAGGTAGCAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (21 bp):
TTACCCCCAATATCGATACTG
Found at i:447750 original size:20 final size:20
Alignment explanation
Indices: 447725--447763 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
447715 AGGTAGCAGT
*
447725 ATCGATGCTCCCCCTTATAG
1 ATCGATACTCCCCCTTATAG
*
447745 ATCGATACTTCCCCTTATA
1 ATCGATACTCCCCCTTATA
447764 AAATGCCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.33
Consensus pattern (20 bp):
ATCGATACTCCCCCTTATAG
Found at i:450706 original size:7 final size:8
Alignment explanation
Indices: 450694--450722 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
450684 AACAATGAAG
450694 AAAAAATA
1 AAAAAATA
450702 AAAAAATA
1 AAAAAATA
450710 AAAAAATA
1 AAAAAATA
450718 AAAAA
1 AAAAA
450723 GAAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:452173 original size:114 final size:114
Alignment explanation
Indices: 451913--452264 Score: 424
Period size: 114 Copynumber: 3.1 Consensus size: 114
451903 TCAATATAAG
* * *
451913 GAGGTGGATCAACATTTCAATTGAGAGTTCATAATGAGAAGAACTC-TCCACGAAAGGAG-AATT
1 GAGGTGGATTAACATTTCAATTGAGAGTTCATAATGAGAAGAACTCGTCCACGAAGGGAGAAAGT
* * * *
451976 TTATAATGACAAGAACTTGTTTGACCTTTTGCTCAAATCTATCACAGAAT
66 TCATAATGAGAAGAAC-TGTTTGACCTTTTGCTCAAATCCATCACAGAAA
* * *
452026 GAGGTGGATTAACATTTCAATGGAGAGTTCATAATGAGAAGAACACGTCCACGGAGGGAGAACAA
1 GAGGTGGATTAACATTTCAATTGAGAGTTCATAATGAGAAGAACTCGTCCACGAAGGGAG-A-AA
*
452091 GTTCATAATGAGAATAACTGTTTGACCTTTTGCTCAAATCCATCACAGAAA
64 GTTCATAATGAGAAGAACTGTTTGACCTTTTGCTCAAATCCATCACAGAAA
* * *
452142 G-GGTGTA-TAACATTCCAATTGAGAGTTCATAATGAGAAGAACTCGACCACGAAGGGAGGAGAA
1 GAGGTGGATTAACATTTCAATTGAGAGTTCATAATGAGAAGAACTCGTCCACGAAGGGA-GA-AA
** * * * * * *
452205 GTTCATAATGAGAAGAACTTGTTCAACATTTTTCTCAGATCTATCATAGAAT
64 GTTCATAATGAGAAGAAC-TGTTTGACCTTTTGCTCAAATCCATCACAGAAA
452257 GAGGTGGA
1 GAGGTGGA
452265 AACATTCTTT
Statistics
Matches: 204, Mismatches: 28, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
113 43 0.21
114 76 0.37
115 32 0.16
116 37 0.18
117 16 0.08
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (114 bp):
GAGGTGGATTAACATTTCAATTGAGAGTTCATAATGAGAAGAACTCGTCCACGAAGGGAGAAAGT
TCATAATGAGAAGAACTGTTTGACCTTTTGCTCAAATCCATCACAGAAA
Found at i:453386 original size:151 final size:152
Alignment explanation
Indices: 453097--453401 Score: 569
Period size: 152 Copynumber: 2.0 Consensus size: 152
453087 ACAAGTGTGC
453097 ACTCCATGCACTGTGTTTAGGTTTCCTCCACATTTTAATTAAAAACAATTTTTTTGAGTTGTTGG
1 ACTCCATGCACTGTGTTTAGGTTTCCTCCACATTTTAA-TAAAAACAATTTTTTTGAGTTGTTGG
453162 AAGGAATCCAAAACAATAACTAGATTTTAGGGATTTGAATTCATTTTCAAATGAGATATGCAAAT
65 AAGGAATCCAAAACAATAACTAGATTTTAGGGATTTGAATTCATTTTCAAATGAGATATGCAAAT
453227 CTCATAGGG-TTGTGGTAAAAAA
130 CTCATAGGGTTTGTGGTAAAAAA
453249 ACTCCATGCACTGTGTTTAGGTTTCCTCCACATTTTAA-AAAAACAATTTTTTTGAGTTGTTGGA
1 ACTCCATGCACTGTGTTTAGGTTTCCTCCACATTTTAATAAAAACAATTTTTTTGAGTTGTTGGA
453313 AGGAATCCAAAACAATAACTAGATTTTTAGGGATTTGAATTCATTTTCAAATGAGATATGCAAAT
66 AGGAATCCAAAACAATAACTAGA-TTTTAGGGATTTGAATTCATTTTCAAATGAGATATGCAAAT
*
453378 CTCGTAGGGTTTGTGGTAAAAAA
130 CTCATAGGGTTTGTGGTAAAAAA
453401 A
1 A
453402 AACTTGTTTC
Statistics
Matches: 150, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
150 49 0.33
151 49 0.33
152 52 0.35
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.35
Consensus pattern (152 bp):
ACTCCATGCACTGTGTTTAGGTTTCCTCCACATTTTAATAAAAACAATTTTTTTGAGTTGTTGGA
AGGAATCCAAAACAATAACTAGATTTTAGGGATTTGAATTCATTTTCAAATGAGATATGCAAATC
TCATAGGGTTTGTGGTAAAAAA
Found at i:453399 original size:150 final size:150
Alignment explanation
Indices: 453097--453400 Score: 556
Period size: 151 Copynumber: 2.0 Consensus size: 150
453087 ACAAGTGTGC
453097 ACTCCATGCACTGTGTTTAGGTTTCCTCCACATTTTAATTAAAAACAATTTTTTTGAGTTGTTGG
1 ACTCCATGCACTGTGTTTAGGTTTCCTCCACATTTTAA-TAAAAACAATTTTTTTGAGTTGTTGG
453162 AAGGAATCCAAAACAATAACTAGATTTTAGGGATTTGAATTCATTTTCAAATGAGATATGCAAAT
65 AAGGAATCCAAAACAATAACTAGATTTTAGGGATTTGAATTCATTTTCAAATGAGATATGCAAAT
453227 CTCATAGGGTTGTGGTAAAAAA
130 CTCATAGGGTTGTGGT-AAAAA
453249 ACTCCATGCACTGTGTTTAGGTTTCCTCCACATTTTAA-AAAAACAATTTTTTTGAGTTGTTGGA
1 ACTCCATGCACTGTGTTTAGGTTTCCTCCACATTTTAATAAAAACAATTTTTTTGAGTTGTTGGA
453313 AGGAATCCAAAACAATAACTAGATTTTTAGGGATTTGAATTCATTTTCAAATGAGATATGCAAAT
66 AGGAATCCAAAACAATAACTAGA-TTTTAGGGATTTGAATTCATTTTCAAATGAGATATGCAAAT
*
453378 CTCGTAGGGTTTGTGGTAAAAA
130 CTCATAGGG-TTGTGGTAAAAA
453400 A
1 A
453401 AAACTTGTTT
Statistics
Matches: 149, Mismatches: 1, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
150 49 0.33
151 55 0.37
152 45 0.30
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (150 bp):
ACTCCATGCACTGTGTTTAGGTTTCCTCCACATTTTAATAAAAACAATTTTTTTGAGTTGTTGGA
AGGAATCCAAAACAATAACTAGATTTTAGGGATTTGAATTCATTTTCAAATGAGATATGCAAATC
TCATAGGGTTGTGGTAAAAA
Found at i:454020 original size:21 final size:21
Alignment explanation
Indices: 453990--454029 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
453980 GAAATAGGTT
453990 GAAACAATGAAGAGAAAAAATA
1 GAAACAATG-AGAGAAAAAATA
*
454012 GAAA-AATGAGAGCAAAAA
1 GAAACAATGAGAGAAAAAA
454030 GGGTCTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.68, C:0.05, G:0.20, T:0.07
Consensus pattern (21 bp):
GAAACAATGAGAGAAAAAATA
Found at i:455860 original size:22 final size:21
Alignment explanation
Indices: 455815--455861 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
455805 AATTATTTAT
*
455815 TAATATTTCTAATATATAATA
1 TAATATTTCTAATATATAAAA
455836 TAATATTT-TAATATTAATAAAA
1 TAATATTTCTAATA-T-ATAAAA
455858 TAAT
1 TAAT
455862 CAATTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 9 0.39
22 9 0.39
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATATTTCTAATATATAAAA
Found at i:455964 original size:30 final size:31
Alignment explanation
Indices: 455930--455987 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
455920 AATATTATTA
* * *
455930 ATAAAATTTATATTATT-ATTTATTAATTTC
1 ATAAAAATAATATTATTAAATTATTAATTTC
455960 ATAAAAATAATATTATTAAATTATTAAT
1 ATAAAAATAATATTATTAAATTATTAAT
455988 AATGAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (31 bp):
ATAAAAATAATATTATTAAATTATTAATTTC
Found at i:456069 original size:23 final size:23
Alignment explanation
Indices: 456036--456085 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
456026 ATAATCTAAT
*
456036 AATATATTAATAAAGATATTTAA
1 AATATACTAATAAAGATATTTAA
* * *
456059 AATATACTAATTAATATTTTTAA
1 AATATACTAATAAAGATATTTAA
456082 AATA
1 AATA
456086 AAGTATAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AATATACTAATAAAGATATTTAA
Found at i:456262 original size:16 final size:16
Alignment explanation
Indices: 456241--456293 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
456231 ATAATATTAA
456241 ATTTATGATAAATAAT
1 ATTTATGATAAATAAT
**
456257 ATTTATTG-TATTTAAT
1 ATTTA-TGATAAATAAT
*
456273 ATTTATAATAAATAAT
1 ATTTATGATAAATAAT
*
456289 TTTTA
1 ATTTA
456294 AAAAATTCAC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 1 0.03
16 26 0.90
17 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (16 bp):
ATTTATGATAAATAAT
Found at i:467297 original size:21 final size:21
Alignment explanation
Indices: 467271--467310 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
467261 TTGGGGTTGG
467271 TTTCGAAACCCCTTCAAGCGA
1 TTTCGAAACCCCTTCAAGCGA
467292 TTTCGAAACCCCTTCAAGC
1 TTTCGAAACCCCTTCAAGC
467311 AGTAAGGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.35, G:0.12, T:0.25
Consensus pattern (21 bp):
TTTCGAAACCCCTTCAAGCGA
Found at i:470485 original size:21 final size:21
Alignment explanation
Indices: 470459--470534 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
470449 TTTGGCCTAC
**
470459 AGGTTTTGAAACCTTTATCAA
1 AGGTTTTGAAACCCCTATCAA
*
470480 AGGTTTCGAAACCCCTATCAA
1 AGGTTTTGAAACCCCTATCAA
*
470501 AGGTTTTTAAACCCCTATCAA
1 AGGTTTTGAAACCCCTATCAA
470522 AGGTTTTGAAACC
1 AGGTTTTGAAACC
470535 TCTTGTTTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (21 bp):
AGGTTTTGAAACCCCTATCAA
Found at i:477588 original size:52 final size:52
Alignment explanation
Indices: 477526--477628 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
477516 AAATTGGATA
477526 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
477578 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
477629 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:482176 original size:52 final size:52
Alignment explanation
Indices: 482114--482212 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
482104 AAATTGGACA
482114 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
482166 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTA
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTA
482213 AAAGAATATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:482856 original size:52 final size:52
Alignment explanation
Indices: 482794--482892 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
482784 AAATTGGACA
482794 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
482846 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTA
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTA
482893 AAAGAATATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:483342 original size:680 final size:680
Alignment explanation
Indices: 482042--484081 Score: 4053
Period size: 680 Copynumber: 3.0 Consensus size: 680
482032 GAAATAGAGA
482042 GAAGAGTAATGAGAAACAATGGCTTGAGTTTTCCATTGATTAAGAGTGAATATATATACACAAAA
1 GAAGAGTAATGAGAAACAATGGCTTGAGTTTTCCATTGATTAAGAGTGAATATATATACACAAAA
482107 TTGGACACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGCATAGA
66 TTGGACACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGCATAGA
482172 AATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTAAAAGAATATTATAATTGATTACAA
131 AATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTAAAAGAATATTATAATTGATTACAA
482237 TAATTTAAAATATAGATAAAATCTATTATAATTAATTCTCTAATACTAGTGATATGGCTCAGGCT
196 TAATTTAAAATATAGATAAAATCTATTATAATTAATTCTCTAATACTAGTGATATGGCTCAGGCT
482302 CTTGCAACTGCAGCAGAAAGGGTAACTACTCGACATCCCTCTATCGTAGGCCAAGAAACCAGATT
261 CTTGCAACTGCAGCAGAAAGGGTAACTACTCGACATCCCTCTATCGTAGGCCAAGAAACCAGATT
482367 GAATATGAACTTTATTAGCATATGAAATGCATGGTTTTGCATGAGCTGGTGTGCTAGCGCGCTGG
326 GAATATGAACTTTATTAGCATATGAAATGCATGGTTTTGCATGAGCTGGTGTGCTAGCGCGCTGG
482432 TATAGGTTTGTTAGGTTGTTGTGGTTGTTTGGCTGACGTCATAGTTTGTTAACCAGCTCAGCATT
391 TATAGGTTTGTTAGGTTGTTGTGGTTGTTTGGCTGACGTCATAGTTTGTTAACCAGCTCAGCATT
482497 GTATTCTGTGCTCCCTATATATTGAGTACAGTATCACTAAAAGAGCAAGGTTATTCGTAAAACTT
456 GTATTCTGTGCTCCCTATATATTGAGTACAGTATCACTAAAAGAGCAAGGTTATTCGTAAAACTT
482562 CACCACCATCCGTACTTCACAAAATGGTTTGATGTTATTTGATGAGATATCAGAGTAGATTCAAG
521 CACCACCATCCGTACTTCACAAAATGGTTTGATGTTATTTGATGAGATATCAGAGTAGATTCAAG
482627 GGAATAAGTGGTGGCTTTCAACTTACTAGTGGAAGGCCGATTCCAAAGGAATTCAAAATTGTAAA
586 GGAATAAGTGGTGGCTTTCAACTTACTAGTGGAAGGCCGATTCCAAAGGAATTCAAAATTGTAAA
482692 AACCATACTAAGATGAATTCGACATCATCT
651 AACCATACTAAGATGAATTCGACATCATCT
482722 GAAGAGTAATGAGAAACAATGGCTTGAGTTTTCCATTGATTAAGAGTGAATATATATACACAAAA
1 GAAGAGTAATGAGAAACAATGGCTTGAGTTTTCCATTGATTAAGAGTGAATATATATACACAAAA
482787 TTGGACACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGCATAGA
66 TTGGACACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGCATAGA
482852 AATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTAAAAGAATATTATAATTGATTACAA
131 AATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTAAAAGAATATTATAATTGATTACAA
482917 TAATTTAAAATATAGATAAAATCTATTATAATTAATTCTCTAATACTAGTGATATGGCTCAGGCT
196 TAATTTAAAATATAGATAAAATCTATTATAATTAATTCTCTAATACTAGTGATATGGCTCAGGCT
482982 CTTGCAACTGCAGCAGAAAGGGTAACTACTCGACATCCCTCTATCGTAGGCCAAGAAACCAGATT
261 CTTGCAACTGCAGCAGAAAGGGTAACTACTCGACATCCCTCTATCGTAGGCCAAGAAACCAGATT
*
483047 GAATATAAACTTTATTAGCATATGAAATGCATGGTTTTGCATGAGCTGGTGTGCTAGCGCGCTGG
326 GAATATGAACTTTATTAGCATATGAAATGCATGGTTTTGCATGAGCTGGTGTGCTAGCGCGCTGG
*
483112 TATAGGTTTGTTAGGTTGTTGTGGTTGTTTAGCTGACGTCATAGTTTGTTAACCAGCTCAGCATT
391 TATAGGTTTGTTAGGTTGTTGTGGTTGTTTGGCTGACGTCATAGTTTGTTAACCAGCTCAGCATT
*
483177 GTATTTTGTGCTCCCTATATATTGAGTACAGTATCACTAAAAGAGCAAGGTTATTCGTAAAACTT
456 GTATTCTGTGCTCCCTATATATTGAGTACAGTATCACTAAAAGAGCAAGGTTATTCGTAAAACTT
483242 CACCACCATCCGTACTTCACAAAATGGTTTGATGTTATTTGATGAGATATCAGAGTAGATTCAAG
521 CACCACCATCCGTACTTCACAAAATGGTTTGATGTTATTTGATGAGATATCAGAGTAGATTCAAG
483307 GGAATAAGTGGTGGCTTTCAACTTACTAGTGGAAGGCCGATTCCAAAGGAATTCAAAATTGTAAA
586 GGAATAAGTGGTGGCTTTCAACTTACTAGTGGAAGGCCGATTCCAAAGGAATTCAAAATTGTAAA
483372 AACCATACTAAGATGAATTCGACATCATCT
651 AACCATACTAAGATGAATTCGACATCATCT
483402 GAAGAGTAATGAGAAACAATGGCTTGAGTTTTCCATTGATTAAGAGTGAATATATATACACAAAA
1 GAAGAGTAATGAGAAACAATGGCTTGAGTTTTCCATTGATTAAGAGTGAATATATATACACAAAA
483467 TTGGACACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGCATAGA
66 TTGGACACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGCATAGA
483532 AATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTAAAAGAATATTATAATTGATTACAA
131 AATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTAAAAGAATATTATAATTGATTACAA
483597 TAATTTAAAATATAGATAAAATCTATTATAATTAATTCTCTAATACTAGTGATATGGCTCAGGCT
196 TAATTTAAAATATAGATAAAATCTATTATAATTAATTCTCTAATACTAGTGATATGGCTCAGGCT
483662 CTTGCAACTGCAGCAGAAAGGGTAACTACTCGACATCCCTCTATCGTAGGCCAAGAAACCAGATT
261 CTTGCAACTGCAGCAGAAAGGGTAACTACTCGACATCCCTCTATCGTAGGCCAAGAAACCAGATT
483727 GAATATGAACTTTATTAGCATATGAAATGCATGGTTTTGCATGAGCTGGTGTGCTAGCGCGCTGG
326 GAATATGAACTTTATTAGCATATGAAATGCATGGTTTTGCATGAGCTGGTGTGCTAGCGCGCTGG
483792 TATAGGTTTGTTAGGTTGTTGTGGTTGTTTGGCTGACGTCATAGTTTGTTAACCAGCTCAGCATT
391 TATAGGTTTGTTAGGTTGTTGTGGTTGTTTGGCTGACGTCATAGTTTGTTAACCAGCTCAGCATT
483857 GTATTCTGTGCTCCCTATATATTGAGTACAGTATCACTAAAAGAGCAAGGTTATTCGTAAAACTT
456 GTATTCTGTGCTCCCTATATATTGAGTACAGTATCACTAAAAGAGCAAGGTTATTCGTAAAACTT
483922 CACCACCATCCGTACTTCACAAAATGGTTTGATGTTATTTGATGAGATATCAGAGTAGATTCAAG
521 CACCACCATCCGTACTTCACAAAATGGTTTGATGTTATTTGATGAGATATCAGAGTAGATTCAAG
483987 GGAATAAGTGGTGGCTTTCAACTTACTAGTGGAAGGCCGATTCCAAAGGAATTCAAAATTGTAAA
586 GGAATAAGTGGTGGCTTTCAACTTACTAGTGGAAGGCCGATTCCAAAGGAATTCAAAATTGTAAA
484052 AACCATACTAAGATGAATTCGACATCATCT
651 AACCATACTAAGATGAATTCGACATCATCT
484082 AATAAGCTTG
Statistics
Matches: 1354, Mismatches: 6, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
680 1354 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (680 bp):
GAAGAGTAATGAGAAACAATGGCTTGAGTTTTCCATTGATTAAGAGTGAATATATATACACAAAA
TTGGACACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGCATAGA
AATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTAAAAGAATATTATAATTGATTACAA
TAATTTAAAATATAGATAAAATCTATTATAATTAATTCTCTAATACTAGTGATATGGCTCAGGCT
CTTGCAACTGCAGCAGAAAGGGTAACTACTCGACATCCCTCTATCGTAGGCCAAGAAACCAGATT
GAATATGAACTTTATTAGCATATGAAATGCATGGTTTTGCATGAGCTGGTGTGCTAGCGCGCTGG
TATAGGTTTGTTAGGTTGTTGTGGTTGTTTGGCTGACGTCATAGTTTGTTAACCAGCTCAGCATT
GTATTCTGTGCTCCCTATATATTGAGTACAGTATCACTAAAAGAGCAAGGTTATTCGTAAAACTT
CACCACCATCCGTACTTCACAAAATGGTTTGATGTTATTTGATGAGATATCAGAGTAGATTCAAG
GGAATAAGTGGTGGCTTTCAACTTACTAGTGGAAGGCCGATTCCAAAGGAATTCAAAATTGTAAA
AACCATACTAAGATGAATTCGACATCATCT
Found at i:483536 original size:52 final size:52
Alignment explanation
Indices: 483474--483572 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
483464 AAATTGGACA
483474 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
483526 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTA
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTA
483573 AAAGAATATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:490129 original size:69 final size:69
Alignment explanation
Indices: 490019--490161 Score: 279
Period size: 69 Copynumber: 2.1 Consensus size: 69
490009 TGTGATATGG
490019 ATAT-TCGAGAAAGATCTAGACAAGACAGAAGATGTGGACATTGTAGAAACCCAGGACACACTAG
1 ATATGTCGAGAAAGATCTAGACAAGACAGAAGATGTGGACATTGTAGAAACCCAGGACACACTAG
490083 AAAA
66 AAAA
490087 ATATGTCGAGAAAGATCTAGACAAGACAGAAGATGTGGACATTGTAGAAACCCAGGACACACTAG
1 ATATGTCGAGAAAGATCTAGACAAGACAGAAGATGTGGACATTGTAGAAACCCAGGACACACTAG
490152 AAAA
66 AAAA
490156 ATATGT
1 ATATGT
490162 TCACTTCTGT
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 4 0.05
69 70 0.95
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.17
Consensus pattern (69 bp):
ATATGTCGAGAAAGATCTAGACAAGACAGAAGATGTGGACATTGTAGAAACCCAGGACACACTAG
AAAA
Found at i:491109 original size:27 final size:27
Alignment explanation
Indices: 491064--491115 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
491054 GGTGATGATG
* *
491064 GCGGCGGCGGCATCGGGTAAGGGAATA
1 GCGGCGGCGACATAGGGTAAGGGAATA
* *
491091 GCGGCGGCGACATATGGTAATGGAA
1 GCGGCGGCGACATAGGGTAAGGGAA
491116 AGGCGATGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.17, G:0.44, T:0.13
Consensus pattern (27 bp):
GCGGCGGCGACATAGGGTAAGGGAATA
Found at i:492776 original size:8 final size:7
Alignment explanation
Indices: 492767--492814 Score: 53
Period size: 8 Copynumber: 6.4 Consensus size: 7
492757 TAAATAAGTA
492767 AAATATT
1 AAATATT
492774 AAATAAATT
1 AAAT--ATT
492783 AAATACTT
1 AAATA-TT
492791 AAATAATT
1 AAAT-ATT
492799 AAATA-T
1 AAATATT
492805 AAATATT
1 AAATATT
492812 AAA
1 AAA
492815 AATATAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.17
7 10 0.28
8 12 0.33
9 8 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (7 bp):
AAATATT
Found at i:492776 original size:16 final size:15
Alignment explanation
Indices: 492755--492814 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 15
492745 CTGCAAAAGA
*
492755 ATTAAATAAGTAAAAT
1 ATTAAATAA-TTAAAT
492771 ATTAAATAAATTAAAT
1 ATTAAAT-AATTAAAT
492787 ACTTAAATAATTAAAT
1 A-TTAAATAATTAAAT
492803 A-TAAAT-ATTAAA
1 ATTAAATAATTAAA
492815 AATATAATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
13 6 0.15
14 5 0.12
16 22 0.54
17 8 0.20
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
ATTAAATAATTAAAT
Found at i:492793 original size:25 final size:25
Alignment explanation
Indices: 492754--492803 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
492744 TCTGCAAAAG
492754 AATTAAATAAGTAAA-ATATTAAATA
1 AATTAAATAAGTAAATA-ATTAAATA
**
492779 AATTAAATACTTAAATAATTAAATA
1 AATTAAATAAGTAAATAATTAAATA
492804 TAAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
AATTAAATAAGTAAATAATTAAATA
Found at i:498847 original size:18 final size:19
Alignment explanation
Indices: 498824--498860 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
498814 TTTAAAAGAA
498824 GGGATT-GACTAAACTATT
1 GGGATTGGACTAAACTATT
*
498842 GGGATTGGACTATACTATT
1 GGGATTGGACTAAACTATT
498861 CAATACAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (19 bp):
GGGATTGGACTAAACTATT
Found at i:509473 original size:24 final size:24
Alignment explanation
Indices: 509446--509495 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
509436 TGCTGACTGA
509446 TGCATCCATTGAATTCATGAAGTT
1 TGCATCCATTGAATTCATGAAGTT
509470 TGCATCCATTGAATTCATGAAGTT
1 TGCATCCATTGAATTCATGAAGTT
509494 TG
1 TG
509496 TAATCACATC
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:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (24 bp):
TGCATCCATTGAATTCATGAAGTT
Found at i:515725 original size:14 final size:14
Alignment explanation
Indices: 515706--515734 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
515696 AACATCCACC
515706 AATTACTGTACAAA
1 AATTACTGTACAAA
515720 AATTACTGTACAAA
1 AATTACTGTACAAA
515734 A
1 A
515735 CAGTTCCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
AATTACTGTACAAA
Found at i:516264 original size:36 final size:36
Alignment explanation
Indices: 516185--516252 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
516175 TTAAACTGTG
* *
516185 TACTAAAATAAAACAAAAACTTAAGTTTTTAATAGA
1 TACTAAAATAAAACAAAAACTTAAATTTTAAATAGA
*
516221 TACTAAAATAAAATAAAAAC-TAAATTTTAAAT
1 TACTAAAATAAAACAAAAACTTAAATTTTAAAT
516253 TTGATTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 10 0.34
36 19 0.66
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (36 bp):
TACTAAAATAAAACAAAAACTTAAATTTTAAATAGA
Found at i:518316 original size:175 final size:174
Alignment explanation
Indices: 518031--518389 Score: 514
Period size: 183 Copynumber: 2.0 Consensus size: 174
518021 ATAAAATTTT
518031 AAATATTAAATATATTATAAACATATGGCTCACCCAAACCATTTAAAACAATTAATAATTTAAGA
1 AAATATTAAATATATTATAAACATATGGCTCACCCAAACCATTTAAAACAATTAATAATTTAAGA
*
518096 TCCAATAAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAA-TT-TAT-ATTTTA-TAATT
66 TCCAATAAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAATTTTATTAATA
*
518157 A-TATATTATTTAAATTAATTGTAAACTATTTTTCTGAATTAAA
131 ATTATATTATTTAAATTAATTATAAACTATTTTTCTGAATTAAA
* *
518200 AAATATTATATATATTATATATAACATATGAGCTCAACCCAAATCATTTAAAACTCAATTAATAA
1 AAATATTAAATATA-T-TATA-AACATATG-GCTC-ACCCAAACCATTTAAAA--CAATTAATAA
518265 TTTAAGATCCAAT-AACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
59 TTTAAGATCCAATAAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATAT--AATT
* * * *
518329 TTATTTTATAATTATATTATTTAAATTAATTATAAACTGTTTTTTTGAATTATA
122 TTA-TTAATAATTATATTATTTAAATTAATTATAAACTATTTTTCTGAATTAAA
518383 AAATATT
1 AAATATT
518390 TAATTTTTAT
Statistics
Matches: 167, Mismatches: 8, Indels: 16
0.87 0.04 0.08
Matches are distributed among these distances:
169 13 0.08
170 1 0.01
171 4 0.02
172 8 0.05
173 4 0.02
174 16 0.10
175 38 0.23
176 25 0.15
177 3 0.02
180 6 0.04
182 4 0.02
183 45 0.27
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (174 bp):
AAATATTAAATATATTATAAACATATGGCTCACCCAAACCATTTAAAACAATTAATAATTTAAGA
TCCAATAAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAATTTTATTAATA
ATTATATTATTTAAATTAATTATAAACTATTTTTCTGAATTAAA
Found at i:518439 original size:28 final size:28
Alignment explanation
Indices: 518403--518470 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 28
518393 TTTTTATATA
*
518403 AATTAGAAAATTTTAAAAAATTTT-GGTT
1 AATTCGAAAATTTT-AAAAATTTTCGGTT
518431 AATTCGAAAATTTTAAAAATTTTCGGTT
1 AATTCGAAAATTTTAAAAATTTTCGGTT
518459 AATTCGAAAATT
1 AATTCGAAAATT
518471 AACCGAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 9 0.24
28 29 0.76
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.41
Consensus pattern (28 bp):
AATTCGAAAATTTTAAAAATTTTCGGTT
Found at i:523183 original size:108 final size:109
Alignment explanation
Indices: 523055--523273 Score: 431
Period size: 108 Copynumber: 2.0 Consensus size: 109
523045 CTGCTACAAA
523055 TTGGTAATATTGGTTGAATTCTTTAGGTCTATTGGCAATCTGTTTTTTATTTGTGCTCGTCCTCA
1 TTGGTAATATTGGTTGAATTCTTTAGGTCTATTGGCAATCTGTTTTTTATTTGTGCTCGTCCTCA
523120 AAATGGATTTGTTGCATCTTCTCTATTCTGGTTGCTA-TCAGTT
66 AAATGGATTTGTTGCATCTTCTCTATTCTGGTTGCTATTCAGTT
523163 TTGGTAATATTGGTTGAATTCTTTAGGTCTATTGGCAATCTGTTTTTTATTTGTGCTCGTCCTCA
1 TTGGTAATATTGGTTGAATTCTTTAGGTCTATTGGCAATCTGTTTTTTATTTGTGCTCGTCCTCA
523228 AAATGGATTTGTTGCATCTTCTCTATTCTGGTTGCTATTCAGTT
66 AAATGGATTTGTTGCATCTTCTCTATTCTGGTTGCTATTCAGTT
523272 TT
1 TT
523274 TTGCTAAATT
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 102 0.93
109 8 0.07
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.49
Consensus pattern (109 bp):
TTGGTAATATTGGTTGAATTCTTTAGGTCTATTGGCAATCTGTTTTTTATTTGTGCTCGTCCTCA
AAATGGATTTGTTGCATCTTCTCTATTCTGGTTGCTATTCAGTT
Found at i:523455 original size:18 final size:18
Alignment explanation
Indices: 523432--523469 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
523422 CAAATATTGT
523432 TGGTGAAACTGTTCTAAA
1 TGGTGAAACTGTTCTAAA
523450 TGGTGAAACTGTTCTAAA
1 TGGTGAAACTGTTCTAAA
523468 TG
1 TG
523470 CCTCTGGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (18 bp):
TGGTGAAACTGTTCTAAA
Found at i:524417 original size:36 final size:37
Alignment explanation
Indices: 524370--524444 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 37
524360 AAATGAATCG
524370 TCTCGCCCCCCACAGAATAGCAATAAC-AGTGGCTAT
1 TCTCGCCCCCCACAGAATAGCAATAACAAGTGGCTAT
524406 TCTCGCCCCCCACAGAATAGCAATAACAAGTGGCTAT
1 TCTCGCCCCCCACAGAATAGCAATAACAAGTGGCTAT
524443 TC
1 TC
524445 CACTACTCAG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 27 0.71
37 11 0.29
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (37 bp):
TCTCGCCCCCCACAGAATAGCAATAACAAGTGGCTAT
Found at i:525106 original size:36 final size:38
Alignment explanation
Indices: 525016--525123 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 38
525006 GTGATGGGCT
525016 TCATGTCAATGATTCTGCTCATAATTTTTCTGTTGATTCTGC
1 TCATGTCAATGATTCTGCTCATAATTTTTC--TTG--TCTGC
* *
525058 GCGTGTCAATGATTCTGCTCATAATTTTTC-TG-CTGC
1 TCATGTCAATGATTCTGCTCATAATTTTTCTTGTCTGC
* *
525094 TCATGTTAATGATTATGCTCATAATGTTTT
1 TCATGTCAATGATTCTGCTCATAAT-TTTT
525124 GTCTTCAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
36 25 0.42
37 4 0.07
39 2 0.03
42 28 0.47
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (38 bp):
TCATGTCAATGATTCTGCTCATAATTTTTCTTGTCTGC
Found at i:525550 original size:186 final size:189
Alignment explanation
Indices: 525236--525609 Score: 727
Period size: 186 Copynumber: 2.0 Consensus size: 189
525226 ACTTTACAAT
525236 GTAATTGCCTTTGATGATAATAAAGAACAAGTGTTGTGCAAAGCATGTCAACTTGCTAAATCACA
1 GTAATTGCCTTTGATGATAATAAAGAACAAGTGTTGTGCAAAGCATGTCAACTTGCTAAATCACA
525301 CAAATTGCCCTTCTATGACACACACTATTTATAAATAGCCACTTGAACTTATAGTATTTGATGTG
66 CAAATTGCCCTTCTATGACACACACTATTTATAAATAGCCACTTGAACTTATAGTATTTGATGTG
525366 TGGGG-CCTACCCCTGTTTACTCTAATGGGTTCAGA-TTTATG-TGCCTTTACTGATGC
131 TGGGGCCCTACCCCTGTTTACTCTAATGGGTTCAGATTTTATGTTGCCTTTACTGATGC
525422 GTAATTGCCTTTGATGATAATAAAGAACAAGTGTTGTGCAAAGCATGTCAACTTGCTAAATCACA
1 GTAATTGCCTTTGATGATAATAAAGAACAAGTGTTGTGCAAAGCATGTCAACTTGCTAAATCACA
525487 CAAATTGCCCTTCTATGACACACACTATTTATAAATAGCCACTTGAACTTATAGTATTTGATGTG
66 CAAATTGCCCTTCTATGACACACACTATTTATAAATAGCCACTTGAACTTATAGTATTTGATGTG
525552 TGGGGCCCTACCCCTGTTTACTCTAATGGGTTCAGATTTTATGTTGCCTTTACTGATG
131 TGGGGCCCTACCCCTGTTTACTCTAATGGGTTCAGATTTTATGTTGCCTTTACTGATG
525610 GACACAGTAG
Statistics
Matches: 185, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
186 135 0.73
187 30 0.16
188 6 0.03
189 14 0.08
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (189 bp):
GTAATTGCCTTTGATGATAATAAAGAACAAGTGTTGTGCAAAGCATGTCAACTTGCTAAATCACA
CAAATTGCCCTTCTATGACACACACTATTTATAAATAGCCACTTGAACTTATAGTATTTGATGTG
TGGGGCCCTACCCCTGTTTACTCTAATGGGTTCAGATTTTATGTTGCCTTTACTGATGC
Done.