Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 70 of 78
Found at i:14378884 original size:15 final size:16
Alignment explanation
Indices: 14378859--14378892 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
14378849 ATTTCGAATT
14378859 ATAGTTTTATATTTTA
1 ATAGTTTTATATTTTA
14378875 ATAG-TTTATATTTTA
1 ATAGTTTTATATTTTA
14378890 ATA
1 ATA
14378893 ACCGTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
ATAGTTTTATATTTTA
Found at i:14379102 original size:3 final size:3
Alignment explanation
Indices: 14379096--14379124 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14379086 TATTACTTTA
14379096 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14379125 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14379450 original size:150 final size:149
Alignment explanation
Indices: 14379148--14379453 Score: 415
Period size: 150 Copynumber: 2.0 Consensus size: 149
14379138 TGTTTAAATT
* *
14379148 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGTTGTCTTAAAGCATCTAGAAGTCATTTTC
1 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTC
* * * * * * *
14379213 TGATATTCTTAAATAAATAAATATTATATTTTTATAAATTATATATATATATTATTTTTTTTAAT
66 TGATATTCTTAAATAAATAAATATTATATTTATAAAAATAAAATATATATATTATATATATTAAT
*
14379278 TTTTTTATAGAAATGTTTTA
131 TTTTTTATAGAAA-GTTATA
14379298 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTC
1 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTC
*
14379363 TGATATT-TCTAAGTAAATAAATATCT-TATTTATAAAAATAAAATATATATATATATATATATT
66 TGATATTCT-TAAATAAATAAATAT-TATATTTATAAAAATAAAATATATATAT-TATATATATT
14379426 AATATATTTTCT-TA-AAA-TTATA
128 AAT-T-TTTT-TATAGAAAGTTATA
14379448 TTAATA
1 TTAATA
14379454 AATTTGAAAT
Statistics
Matches: 139, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
149 1 0.01
150 116 0.83
151 11 0.08
152 4 0.03
153 6 0.04
154 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (149 bp):
TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTC
TGATATTCTTAAATAAATAAATATTATATTTATAAAAATAAAATATATATATTATATATATTAAT
TTTTTTATAGAAAGTTATA
Found at i:14379869 original size:15 final size:15
Alignment explanation
Indices: 14379849--14379877 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14379839 CTCCGCTGGG
14379849 GAAGAACTCATATGA
1 GAAGAACTCATATGA
14379864 GAAGAACTCATATG
1 GAAGAACTCATATG
14379878 GAAAAGGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (15 bp):
GAAGAACTCATATGA
Found at i:14380074 original size:121 final size:121
Alignment explanation
Indices: 14379856--14380133 Score: 452
Period size: 121 Copynumber: 2.3 Consensus size: 121
14379846 GGGGAAGAAC
* * *
14379856 TCAT-ATGAGAAGAACTCATATGGAAAAGGATAAGAAGTTCATAATGAGAATAACTTGTTCAACC
1 TCATAATGAGAAGAACTCATATGGAAAAGGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACC
* *
14379920 TTTGCATGACTCTATCACAGAATGAGATAGATCAACATCAACATTTCCAGAAGTGT
66 TTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAACATTTCCAGAAGAGT
14379976 TCATAATGAGAAGAACTCATATGGAAAAGGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACC
1 TCATAATGAGAAGAACTCATATGGAAAAGGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACC
* *
14380041 TTTGCATGACTCTATCATAGAAGGAGATAGATCAACATCAACATTTCCGGAAGAGT
66 TTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAACATTTCCAGAAGAGT
* *
14380097 TCATAATGAGAAGAACTCAT-TTGAAGAATGAGAAGAA
1 TCATAATGAGAAGAACTCATATGGAA-AAGGAGAAGAA
14380134 CTTATTTAAC
Statistics
Matches: 147, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
120 8 0.05
121 139 0.95
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (121 bp):
TCATAATGAGAAGAACTCATATGGAAAAGGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACC
TTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAACATTTCCAGAAGAGT
Found at i:14382151 original size:143 final size:144
Alignment explanation
Indices: 14381863--14382154 Score: 353
Period size: 143 Copynumber: 2.0 Consensus size: 144
14381853 GTTTAAATAA
* * * *
14381863 TAATTTTTATTTATTTTTTTATATTAAAGAAATGGGTTGTCTTAAAGCACCTATAAGTCATTTTC
1 TAATATTTATTTATTTTTTAATATTAAAGAAATGAGCTGTCTTAAAGCACCTATAAGTCATTTTC
*** * *
14381928 TGATATTCTTAAATAAATAAATATCCTATTTTTTTATAAATTATATATATTAAATTATTTTAATT
66 TGATATTCTTAAATAAATAAATATCCTATTTTAAAATAAATTATATATATTAAATTAATATAATT
** *
14381993 ATTCTTTGTTTTAT
131 ATTCTTAATTATAT
14382007 TAATATTTATTTATTTTTTAATATT-AAGAAATGAGCTGTCTTAAAGCACCTATAAGTCATTTTC
1 TAATATTTATTTATTTTTTAATATTAAAGAAATGAGCTGTCTTAAAGCACCTATAAGTCATTTTC
* ** *
14382071 TGATATT-TCTAAGTAAATAAATATGTTATTTATAAAAATAAA-TATATATA-TATATTAATAT-
66 TGATATTCT-TAAATAAATAAATATCCTATTT-T-AAAATAAATTATATATATTAAATTAATATA
14382132 ATT-TTCTTAAAATTATAT
128 ATTATTCTT--AATTATAT
14382150 TAATA
1 TAATA
14382155 AATTTGAAAT
Statistics
Matches: 127, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
141 5 0.04
142 4 0.03
143 81 0.64
144 32 0.25
145 5 0.04
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (144 bp):
TAATATTTATTTATTTTTTAATATTAAAGAAATGAGCTGTCTTAAAGCACCTATAAGTCATTTTC
TGATATTCTTAAATAAATAAATATCCTATTTTAAAATAAATTATATATATTAAATTAATATAATT
ATTCTTAATTATAT
Found at i:14389099 original size:325 final size:324
Alignment explanation
Indices: 14388475--14389124 Score: 908
Period size: 325 Copynumber: 2.0 Consensus size: 324
14388465 ACTCGCTCTG
* * * *
14388475 ATTGACCATCGCATGTGGGTGGAAAGCCGTACTAAAATTCAAACGAGTACCTAGAGCCTCGTGCA
1 ATTGACCATCGCATGCGGGTGGAAAGCCATACTAAAATTCAAACGAGTACCCAGAGCCTCGTACA
*
14388540 AAACATTCCAGAACCTAGAAGTAAACTTCAAATCTCGGTCAGATATGATGGACAATGGAACACCA
66 AAACATTCCAGAACCTAGAAGTAAACTTCAAATCTCGGTCAGAGATGATGGACAATGGAACACCA
** * ** * *
14388605 TGGAGTCTAATGATCTTAGAGATATACAATCTAGCCATTTTTTCTAGAGAATAATTAACCCAAAC
131 TGGAGTCTAACAATCTCAGAGATATACAATCTAGCCAGCTTGTCCAGAGAATAATTAACCCAAAC
* * *
14388670 AGGGATAAAGTGAGTTGACTTGGTGAGTCGATCCAAAATCACCCAAACAAAATCCTTTTTGGAAT
196 AGGGATAAAGTGAGCTGACTTGGTGAGTCGATCCAAAATCACCCAAACAAAATCCTTTTTAGAAG
* * * *
14388735 TAGTCAAAGGAAGACCATAAACGAAGTCCATCATAATGCGCTCCAACTTCCACTCACGAATCTT
261 AAATCAAAGGAAGACCATAAACGAAATCCATCATAATGCGCTCCAACTTCCACTCAAGAATCTT
* * * *
14388799 ATTGACCATCAGTC-TGCGGGTGGAAAGTCATACTGAAATTCAAACGAGTACCCAGAGTCTCTTA
1 ATTGACCATC-G-CATGCGGGTGGAAAGCCATACTAAAATTCAAACGAGTACCCAGAGCCTCGTA
*** * **
14388863 CAAAGTTTTCTAGAACCTAGAAGTAAACTTCGGATCTCGGTCAGAGATGATGGACAATGGAACAC
64 CAAAACATTCCAGAACCTAGAAGTAAACTTCAAATCTCGGTCAGAGATGATGGACAATGGAACAC
*
14388928 CATGGAGTCTAACAATCTCAGAGATATACAATCTAGCCAGCTTGTCCAGAGAATAATTAACCCGA
129 CATGGAGTCTAACAATCTCAGAGATATACAATCTAGCCAGCTTGTCCAGAGAATAATTAACCCAA
* ** * *
14388993 ACAGGGATAAAGTGAGCTGACTTGGTGAGTCGATCCATAATTGCCCAAATAGAATCCTTTTTAGA
194 ACAGGGATAAAGTGAGCTGACTTGGTGAGTCGATCCAAAATCACCCAAACAAAATCCTTTTTAGA
* * * *
14389058 AGAAATCCAAGGAAGACTGAT-AACGAAATCCATCGTAATGCGCTCCCACTTCCACTCAAGAATC
259 AGAAATCAAAGGAAGAC-CATAAACGAAATCCATCATAATGCGCTCCAACTTCCACTCAAGAATC
14389122 TT
323 TT
14389124 A
1 A
14389125 ATAAACTGGA
Statistics
Matches: 284, Mismatches: 39, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
324 10 0.04
325 271 0.95
326 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (324 bp):
ATTGACCATCGCATGCGGGTGGAAAGCCATACTAAAATTCAAACGAGTACCCAGAGCCTCGTACA
AAACATTCCAGAACCTAGAAGTAAACTTCAAATCTCGGTCAGAGATGATGGACAATGGAACACCA
TGGAGTCTAACAATCTCAGAGATATACAATCTAGCCAGCTTGTCCAGAGAATAATTAACCCAAAC
AGGGATAAAGTGAGCTGACTTGGTGAGTCGATCCAAAATCACCCAAACAAAATCCTTTTTAGAAG
AAATCAAAGGAAGACCATAAACGAAATCCATCATAATGCGCTCCAACTTCCACTCAAGAATCTT
Found at i:14392418 original size:16 final size:16
Alignment explanation
Indices: 14392382--14392419 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
14392372 TCCTTGCAGT
14392382 GTATAAAAAACATTCA
1 GTATAAAAAACATTCA
14392398 G-ATAAAAATAC-TTCA
1 GTATAAAAA-ACATTCA
14392413 GTATAAA
1 GTATAAA
14392420 TCAGTTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (16 bp):
GTATAAAAAACATTCA
Found at i:14394157 original size:18 final size:18
Alignment explanation
Indices: 14394125--14394160 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14394115 GAGAAAACAG
**
14394125 AAAGAAAAATGAGAGTGA
1 AAAGAAAAACAAGAGTGA
14394143 AAAGAAAAACAAGAGTGA
1 AAAGAAAAACAAGAGTGA
14394161 GGGTGCTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.03, G:0.25, T:0.08
Consensus pattern (18 bp):
AAAGAAAAACAAGAGTGA
Found at i:14396024 original size:57 final size:57
Alignment explanation
Indices: 14395925--14396236 Score: 316
Period size: 57 Copynumber: 5.6 Consensus size: 57
14395915 ATGGCATTGA
* * *
14395925 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGACATTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTTTATGAATTTCCGTATGGACACTTT
* * *
14395982 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTATATGCATTTCCATAT-GAGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTTTATGAATTTCCGTATGGA-CACTTT
* * * *
14396039 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCTGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTTTATGAATTTCCGTATGGACACTTT
* * * * * *
14396096 GTGTACAAAAAGCTAAGAAATTCATACTAAGTGTATTAATTTTCGTATGGGCA-TTAT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTTTATGAATTTCCGTATGGACACTT-T
* * * * * *
14396153 GTGTGC--AAA-CTAAGAAATTCATACTAAGTGTGTAAATTTTCGTATGGGA-ACTAT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTTTATGAATTTCCGTAT-GGACACTTT
* * *
14396207 ATGTGCAAACA--TAAGAAATTCATAATAAGT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGT
14396237 AGGTGAATTT
Statistics
Matches: 219, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
54 41 0.19
55 24 0.11
56 6 0.03
57 147 0.67
58 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (57 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTTTATGAATTTCCGTATGGACACTTT
Found at i:14396156 original size:114 final size:114
Alignment explanation
Indices: 14395917--14396161 Score: 359
Period size: 114 Copynumber: 2.1 Consensus size: 114
14395907 ATTACCAAAT
*
14395917 GGCATTGA-GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGACATTT
1 GGCATT-ATGTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGACACTT
* * *
14395981 TGTGTGCAAAAAGTTAAGAAATTCATACTAAGTATATGCATTTCCATATG
65 TGTGTACAAAAAGCTAAGAAATTCATACTAAGTATATGAATTTCCATATG
* * *
14396031 AGCACTT-TGTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCTGTATGGGCACTT
1 GGCA-TTATGTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGACACTT
* * * *
14396095 TGTGTACAAAAAGCTAAGAAATTCATACTAAGTGTATTAATTTTCGTATG
65 TGTGTACAAAAAGCTAAGAAATTCATACTAAGTATATGAATTTCCATATG
14396145 GGCATTATGTGTGCAAA
1 GGCATTATGTGTGCAAA
14396162 CTAAGAAATT
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
113 2 0.02
114 112 0.97
115 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (114 bp):
GGCATTATGTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGACACTTT
GTGTACAAAAAGCTAAGAAATTCATACTAAGTATATGAATTTCCATATG
Found at i:14396247 original size:55 final size:54
Alignment explanation
Indices: 14396108--14396236 Score: 195
Period size: 54 Copynumber: 2.4 Consensus size: 54
14396098 GTACAAAAAG
* * * * *
14396108 CTAAGAAATTCATACTAAGTGTATTAATTTTCGTATGGGCATTATGTGTGCAAA
1 CTAAGAAATTCATACTAAGTGTGTAAATTTTCGTATGGGAACTATATGTGCAAA
14396162 CTAAGAAATTCATACTAAGTGTGTAAATTTTCGTATGGGAACTATATGTGCAAA
1 CTAAGAAATTCATACTAAGTGTGTAAATTTTCGTATGGGAACTATATGTGCAAA
*
14396216 CATAAGAAATTCATAATAAGT
1 C-TAAGAAATTCATACTAAGT
14396237 AGGTGAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 50 0.74
55 18 0.26
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (54 bp):
CTAAGAAATTCATACTAAGTGTGTAAATTTTCGTATGGGAACTATATGTGCAAA
Found at i:14412005 original size:23 final size:24
Alignment explanation
Indices: 14411979--14412029 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
14411969 AAAATTTTAG
*
14411979 TTTAGGAGATA-AATTAATAAAAT
1 TTTAAGAGATATAATTAATAAAAT
* *
14412002 TTTAAGAGATATAATTTATAGAAT
1 TTTAAGAGATATAATTAATAAAAT
14412026 TTTA
1 TTTA
14412030 TGGGTGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (24 bp):
TTTAAGAGATATAATTAATAAAAT
Found at i:14414287 original size:2 final size:2
Alignment explanation
Indices: 14414282--14414393 Score: 155
Period size: 2 Copynumber: 58.0 Consensus size: 2
14414272 TTAATTTTAT
14414282 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14414324 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA GTA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
14414364 T- TT TGA -A TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
14414394 GTTTTGGAAA
Statistics
Matches: 101, Mismatches: 1, Indels: 16
0.86 0.01 0.14
Matches are distributed among these distances:
1 6 0.06
2 93 0.92
3 2 0.02
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14414377 original size:31 final size:31
Alignment explanation
Indices: 14414283--14414431 Score: 111
Period size: 32 Copynumber: 5.0 Consensus size: 31
14414273 TAATTTTATT
*
14414283 ATATATATATATATATATA-TAT-A-TAT--
1 ATATATATATATATATATAGTATAATTTTGA
*
14414309 ATATATATATATATATATA-TAT-A-TAT-A
1 ATATATATATATATATATAGTATAATTTTGA
14414336 TATATATATATATATTAATATAGTATAATTTTGA
1 -ATATATATATATA-T-ATATAGTATAATTTTGA
* *
14414370 ATATATATATATATATATATTATAGTTTTGGA
1 ATATATATATATATATATAGTATAATTTT-GA
* * * *
14414402 A-ATATTTTAAATATATATATTATAGTTTTG
1 ATATA-TATATATATATATAGTATAATTTTG
14414432 GAAATATTTT
Statistics
Matches: 108, Mismatches: 5, Indels: 15
0.84 0.04 0.12
Matches are distributed among these distances:
26 26 0.24
28 13 0.12
29 1 0.01
30 5 0.05
31 20 0.19
32 27 0.25
33 15 0.14
34 1 0.01
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (31 bp):
ATATATATATATATATATAGTATAATTTTGA
Found at i:14414416 original size:36 final size:38
Alignment explanation
Indices: 14414376--14414646 Score: 314
Period size: 39 Copynumber: 7.3 Consensus size: 38
14414366 TTGAATATAT
*
14414376 ATATATATATATATTATAGTTTTGGAAATA-TTTT---A
1 ATATATATATATA-TATAGTTTTGAAAATATTTTTGAAA
*
14414411 A-ATATATATAT-TATAGTTTTGGAAATATTTTTTGAAA
1 ATATATATATATATATAGTTTTGAAAATA-TTTTTGAAA
14414448 ATATATATA-ATATATAGTTTTGAAAATATTTATTTGAAA
1 ATATATATATATATATAGTTTTGAAAATA-TT-TTTGAAA
*
14414487 ATATATATA-ATATATAGTTTTGAAAACATTTTTGAAA
1 ATATATATATATATATAGTTTTGAAAATATTTTTGAAA
* *
14414524 ACATATATATATTATATAGTTTTGAAAACA-TTTTGAAA
1 ATATATATATA-TATATAGTTTTGAAAATATTTTTGAAA
* * **
14414562 ACATATATAT-TATATAGTTTT-AAAAAAAATTTGAAA
1 ATATATATATATATATAGTTTTGAAAATATTTTTGAAA
*
14414598 ATATATATA-ATATATAGTCTTGAAAATATTTTTGAAA
1 ATATATATATATATATAGTTTTGAAAATATTTTTGAAA
14414635 ATATACTATATA
1 ATATA-TATATA
14414647 GTTTTAAAAA
Statistics
Matches: 211, Mismatches: 10, Indels: 26
0.85 0.04 0.11
Matches are distributed among these distances:
32 16 0.08
34 14 0.07
35 6 0.03
36 36 0.17
37 36 0.17
38 50 0.24
39 53 0.25
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (38 bp):
ATATATATATATATATAGTTTTGAAAATATTTTTGAAA
Found at i:14414495 original size:39 final size:37
Alignment explanation
Indices: 14414376--14414676 Score: 318
Period size: 36 Copynumber: 8.2 Consensus size: 37
14414366 TTGAATATAT
*
14414376 ATATATATATATATTATAGTTTTGGAAATA-TTTT--AA
1 ATATATATA-ATA-TATAGTTTTGAAAATATTTTTGAAA
*
14414412 ATATATAT-AT-TATAGTTTTGGAAATATTTTTTGAAA
1 ATATATATAATATATAGTTTTGAAAATA-TTTTTGAAA
14414448 ATATATATAATATATAGTTTTGAAAATATTTATTTGAAA
1 ATATATATAATATATAGTTTTGAAAATA-TT-TTTGAAA
*
14414487 ATATATATAATATATAGTTTTGAAAACATTTTTGAAAA
1 ATATATATAATATATAGTTTTGAAAATATTTTTG-AAA
* *
14414525 CATATATATATTATATAGTTTTGAAAACA-TTTTGAAA
1 -ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
* * * **
14414562 ACATATATATTATATAGTTTT-AAAAAAAATTTGAAA
1 ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
*
14414598 ATATATATAATATATAGTCTTGAAAATATTTTTG--A
1 ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
* * *
14414633 A-A-ATATACTATATAGTTTTAAAAACATTTTTTGAAA
1 ATATATATAATATATAGTTTTGAAAATA-TTTTTGAAA
*
14414669 GTATATAT
1 ATATATAT
14414677 TGTAGGGTTT
Statistics
Matches: 232, Mismatches: 17, Indels: 30
0.83 0.06 0.11
Matches are distributed among these distances:
32 16 0.07
33 20 0.09
34 13 0.06
35 7 0.03
36 64 0.28
37 19 0.08
38 32 0.14
39 61 0.26
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
Found at i:14414959 original size:22 final size:23
Alignment explanation
Indices: 14414927--14414974 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
14414917 GACGAAAAAG
*
14414927 AAGGAGGCAACCACTACACAACA
1 AAGGAGGCAACCAATACACAACA
14414950 AAGG-GGCAACCAATACACAACA
1 AAGGAGGCAACCAATACACAACA
14414972 AAG
1 AAG
14414975 AGATACAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.50, C:0.27, G:0.19, T:0.04
Consensus pattern (23 bp):
AAGGAGGCAACCAATACACAACA
Found at i:14415695 original size:13 final size:13
Alignment explanation
Indices: 14415677--14415704 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14415667 TAACTTTTTA
14415677 TTTATTTAATATT
1 TTTATTTAATATT
14415690 TTTATTTAATATT
1 TTTATTTAATATT
14415703 TT
1 TT
14415705 GTTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTTAATATT
Found at i:14415759 original size:15 final size:15
Alignment explanation
Indices: 14415739--14415778 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
14415729 TGCCTTTGAT
**
14415739 TTATTATTTTTATTA
1 TTATTATTTTTAAAA
14415754 TTATTATTTTTAAAA
1 TTATTATTTTTAAAA
14415769 TT-TTATTTTT
1 TTATTATTTTT
14415779 TCATTTGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTATTTTTAAAA
Found at i:14421382 original size:83 final size:84
Alignment explanation
Indices: 14421230--14421478 Score: 347
Period size: 83 Copynumber: 3.0 Consensus size: 84
14421220 CTATTTTCCA
* * * *
14421230 ACAGTATAACTCAGGGCAAGAAGGACTATCTGTCAACCAAAACCTTCGAGTTTGATTACATTCAG
1 ACAGCATAGCTCAGGGCAAGAAGGGCTATCTGTCAA-CAAAACCTTCGAGTTCGATTACATTCAG
14421295 CTCAAGGACATATCAAATTT
65 CTCAAGGACATATCAAATTT
*
14421315 ACAGCATAGCTCAGGGCAAGAAGGGCTATCTGTCAAC-AAACCTTCGAATTCGATTACATTCAGC
1 ACAGCATAGCTCAGGGCAAGAAGGGCTATCTGTCAACAAAACCTTCGAGTTCGATTACATTCAGC
*
14421379 TCAAGGGCATATCAAATTT
66 TCAAGGACATATCAAATTT
* * * * * *
14421398 ATAGCATAGCTCAAGGCGAGAAGGGCTATTTGTCAACAAAAACTATCGAGTTCGATTCCATTCAG
1 ACAGCATAGCTCAGGGCAAGAAGGGCTATCTGTCAACAAAACCT-TCGAGTTCGATTACATTCAG
* *
14421463 CTCGATGACATATCAA
65 CTCAAGGACATATCAA
14421479 CCGCATGGTA
Statistics
Matches: 146, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
83 76 0.52
84 6 0.04
85 64 0.44
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (84 bp):
ACAGCATAGCTCAGGGCAAGAAGGGCTATCTGTCAACAAAACCTTCGAGTTCGATTACATTCAGC
TCAAGGACATATCAAATTT
Found at i:14422452 original size:2 final size:2
Alignment explanation
Indices: 14422445--14422476 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
14422435 ATATTTTTGA
14422445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14422477 ATTTTGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14422502 original size:39 final size:39
Alignment explanation
Indices: 14422459--14422641 Score: 257
Period size: 39 Copynumber: 4.7 Consensus size: 39
14422449 ATATATATAT
* *
14422459 ATATATATATATATTATAATTTTGTAAATA-TTTTTGAAA
1 ATATATATATATA-TATAGTTTTGAAAATATTTTTTGAAA
*
14422498 ATATATATATATTATATAGTTTTGGAAATATTTTTTGAAA
1 ATATATATATA-TATATAGTTTTGAAAATATTTTTTGAAA
14422538 ATATATATA-ATATATAGTTTTGAAAATATTTGTTTGAAA
1 ATATATATATATATATAGTTTTGAAAATATTT-TTTGAAA
*
14422577 ATATATATA-ATATATAGTTTTGAAAACA-TTTTTGAAA
1 ATATATATATATATATAGTTTTGAAAATATTTTTTGAAA
*
14422614 ACATATATATATTATATAGTTTTGAAAA
1 ATATATATATA-TATATAGTTTTGAAAA
14422642 CATATATATT
Statistics
Matches: 134, Mismatches: 5, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
37 15 0.11
38 23 0.17
39 76 0.57
40 20 0.15
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (39 bp):
ATATATATATATATATAGTTTTGAAAATATTTTTTGAAA
Found at i:14422533 original size:13 final size:13
Alignment explanation
Indices: 14422517--14422580 Score: 51
Period size: 14 Copynumber: 4.9 Consensus size: 13
14422507 TATTATATAG
*
14422517 TTTTGGAAATATT
1 TTTTGAAAATATT
14422530 TTTTGAAAATA-T
1 TTTTGAAAATATT
* * * *
14422542 ATAT-AATATATAG
1 TTTTGAAAATAT-T
14422555 TTTTGAAAATATT
1 TTTTGAAAATATT
14422568 TGTTTGAAAATAT
1 T-TTTGAAAATAT
14422581 ATATAATATA
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
11 5 0.13
12 3 0.08
13 13 0.34
14 17 0.45
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (13 bp):
TTTTGAAAATATT
Found at i:14422637 original size:103 final size:104
Alignment explanation
Indices: 14422530--14422729 Score: 289
Period size: 103 Copynumber: 1.9 Consensus size: 104
14422520 TGGAAATATT
* * * **
14422530 TTTTGAAAATATATATAATATATAG-TTTTGAAAATATTTGTTTGAAAATATATATAATATATAG
1 TTTTGAAAACATATATAATATATAGTTTTTAAAAAAACAT-TTTGAAAATATATATAATATATAG
*
14422594 TTTTGAAAACA-TTTTTGAAAACATA-TATATATTATATAG
65 TCTTGAAAA-AGTTTTTGAAAACATACTATATATTATATAG
*
14422633 TTTTGAAAACATATATATTATATAGTTTTTAAAAAAACATTTTGAAAATATATATAATATATAGT
1 TTTTGAAAACATATATAATATATAGTTTTTAAAAAAACATTTTGAAAATATATATAATATATAGT
14422698 CTTGAAAAATGTTTTTGAAAACATACTATATA
66 CTTGAAAAA-GTTTTTGAAAACATACTATATA
14422730 GTTTTAAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
102 1 0.01
103 55 0.64
104 24 0.28
105 6 0.07
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.43
Consensus pattern (104 bp):
TTTTGAAAACATATATAATATATAGTTTTTAAAAAAACATTTTGAAAATATATATAATATATAGT
CTTGAAAAAGTTTTTGAAAACATACTATATATTATATAG
Found at i:14422638 original size:64 final size:63
Alignment explanation
Indices: 14422570--14422705 Score: 177
Period size: 64 Copynumber: 2.1 Consensus size: 63
14422560 AAAATATTTG
* * *
14422570 TTTGAAAATATATATAATATATAG-TTTT-GAAAACATTTTTGAAAACATATATATATTATATAG
1 TTTGAAAACATATATAATATATAGTTTTTAAAAAACA-TTTTG-AAA-ATATATATAATATATAG
14422633 T
63 T
*
14422634 TTTGAAAACATATATATTATATAGTTTTTAAAAAAACATTTTGAAAATATATATAATATATAGT
1 TTTGAAAACATATATAATATATAGTTTTT-AAAAAACATTTTGAAAATATATATAATATATAGT
*
14422698 CTTGAAAA
1 TTTGAAAA
14422706 ATGTTTTTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
64 46 0.72
65 7 0.11
66 5 0.08
67 6 0.09
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (63 bp):
TTTGAAAACATATATAATATATAGTTTTTAAAAAACATTTTGAAAATATATATAATATATAGT
Found at i:14422652 original size:25 final size:26
Alignment explanation
Indices: 14422606--14422666 Score: 97
Period size: 25 Copynumber: 2.3 Consensus size: 26
14422596 TTGAAAACAT
14422606 TTTTGAAAACATATATATATTATATAG
1 TTTTGAAAACA-ATATATATTATATAG
14422633 TTTTGAAAAC-ATATATATTATATAG
1 TTTTGAAAACAATATATATTATATAG
*
14422658 TTTTTAAAA
1 TTTTGAAAA
14422667 AAACATTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
25 23 0.70
27 10 0.30
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (26 bp):
TTTTGAAAACAATATATATTATATAG
Found at i:14422676 original size:39 final size:38
Alignment explanation
Indices: 14422633--14422728 Score: 111
Period size: 39 Copynumber: 2.5 Consensus size: 38
14422623 TATTATATAG
*
14422633 TTTTGAAAACATATATATTATATAGTTTTTAAAAAAACA
1 TTTTGAAAACATATATATTATATAG-TCTTAAAAAAACA
* * * ***
14422672 TTTTGAAAATATATATAATATATAGTCTTGAAAAATGT
1 TTTTGAAAACATATATATTATATAGTCTTAAAAAAACA
14422710 TTTTGAAAACATACTATAT
1 TTTTGAAAACATA-TATAT
14422729 AGTTTTAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 20 0.43
39 27 0.57
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (38 bp):
TTTTGAAAACATATATATTATATAGTCTTAAAAAAACA
Found at i:14422825 original size:23 final size:24
Alignment explanation
Indices: 14422799--14422848 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
14422789 TAATATATAG
14422799 TTTTAAAAATAATT-TTTA-TTTTA
1 TTTTAAAAA-AATTATTTATTTTTA
* *
14422822 TTTTATAAACATTATTTATTTTTA
1 TTTTAAAAAAATTATTTATTTTTA
14422846 TTT
1 TTT
14422849 ATTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 12 0.52
24 8 0.35
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTAAAAAAATTATTTATTTTTA
Found at i:14422854 original size:17 final size:18
Alignment explanation
Indices: 14422832--14422882 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
14422822 TTTTATAAAC
14422832 ATTATTTATTT-TTATTT
1 ATTATTTATTTATTATTT
14422849 ATTATTTATTTATTA-TT
1 ATTATTTATTTATTATTT
14422866 A-TATATTATTTATTATT
1 ATTAT-TTATTTATTATT
14422883 CATATTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.10
17 24 0.77
18 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTATTTATTTATTATTT
Found at i:14422855 original size:7 final size:7
Alignment explanation
Indices: 14422837--14422882 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
14422827 TAAACATTAT
14422837 TTATTT-
1 TTATTTA
14422843 TTATTTA
1 TTATTTA
14422850 TTATTTA
1 TTATTTA
14422857 TT-TATTA
1 TTAT-TTA
*
14422864 TTATATA
1 TTATTTA
14422871 TTATTTA
1 TTATTTA
14422878 TTATT
1 TTATT
14422883 CATATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 7 0.20
7 27 0.77
8 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:14422859 original size:21 final size:21
Alignment explanation
Indices: 14422833--14422879 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
14422823 TTTATAAACA
* *
14422833 TTATTTATTTTTATTTATTAT
1 TTATTTATTATTATATATTAT
14422854 TTATTTATTATTATATATTAT
1 TTATTTATTATTATATATTAT
14422875 TTATT
1 TTATT
14422880 ATTCATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATTTATTATTATATATTAT
Found at i:14424470 original size:59 final size:59
Alignment explanation
Indices: 14424168--14424451 Score: 489
Period size: 59 Copynumber: 4.8 Consensus size: 59
14424158 ATGTATGATA
*
14424168 AATTTCCAGATAGGACACTTTGTGTGCTAAAATGGTAAGGAAATCACT-CTAAGTGTATG
1 AATTTCCAGATAGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCA-TACTAAGTGTATG
14424227 AATTTCCAGATAGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATG
1 AATTTCCAGATAGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATG
14424286 AATTTCCAGATAGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATG
1 AATTTCCAGATAGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATG
* *
14424345 AATTTCCAGATATGGCACTCTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATG
1 AATTTCCAGATAGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATG
* * * *
14424404 AATTTCCAAATAGGGCACTTTGTGTACTAAAATGATAAGGAAGTCATA
1 AATTTCCAGATAGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATA
14424452 TTGTTTGTAT
Statistics
Matches: 215, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
58 1 0.00
59 214 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (59 bp):
AATTTCCAGATAGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATG
Found at i:14426207 original size:26 final size:25
Alignment explanation
Indices: 14426144--14426241 Score: 72
Period size: 27 Copynumber: 3.8 Consensus size: 25
14426134 TTTAACCTTT
* * ***
14426144 TTTTAATTTTTAAATTTTTTTGACA
1 TTTTATTTTTTATATTTTTTTCTTA
*
14426169 TTTGATTTATTTAATATTTTTATT-TTA
1 TTTTATTT-TTT-ATATTTTT-TTCTTA
14426196 TTTTATTTTTTATATTTTTTTCTTA
1 TTTTATTTTTTATATTTTTTTCTTA
* *
14426221 GATTTATTTTTATTTATTTTT
1 -TTTTATTTTT-TATATTTTT
14426242 CTATTGTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
24 2 0.03
25 17 0.29
26 15 0.25
27 23 0.39
28 2 0.03
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTTATTTTTTATATTTTTTTCTTA
Found at i:14426213 original size:19 final size:18
Alignment explanation
Indices: 14426174--14426208 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14426164 TGACATTTGA
14426174 TTTATTTAATATTTTTAT
1 TTTATTTAATATTTTTAT
*
14426192 TTTATTTTAT-TTTTTAT
1 TTTATTTAATATTTTTAT
14426209 ATTTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTTAATATTTTTAT
Found at i:14426260 original size:35 final size:34
Alignment explanation
Indices: 14426187--14426338 Score: 93
Period size: 35 Copynumber: 4.5 Consensus size: 34
14426177 ATTTAATATT
* * *
14426187 TTTA-TTTTATTTTATTTTTTATATTTTTTTCTTAGA
1 TTTATTTTTA-TTTA-TTTTTCTA-TTGTTTCTTTGA
14426223 TTTATTTTTATTTATTTTTCTATTGTTTCATTTGA
1 TTTATTTTTATTTATTTTTCTATTGTTTC-TTTGA
* * * *
14426258 TTTATTATTA-TTATTATTC-A-TGTTTATTATTA
1 TTTATTTTTATTTATTTTTCTATTGTTTCTT-TGA
* ** *
14426290 -TTATTTTT-TTAAAATTT-TATTTTTTCTTTGA
1 TTTATTTTTATTTATTTTTCTATTGTTTCTTTGA
*
14426321 TTTATTTAATATTTATTT
1 TTTATTT-TTATTTATTT
14426339 ATTATTTATT
Statistics
Matches: 88, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
31 16 0.18
32 19 0.22
33 2 0.02
34 18 0.20
35 20 0.23
36 8 0.09
37 5 0.06
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (34 bp):
TTTATTTTTATTTATTTTTCTATTGTTTCTTTGA
Found at i:14426704 original size:4 final size:4
Alignment explanation
Indices: 14426695--14426766 Score: 55
Period size: 4 Copynumber: 18.8 Consensus size: 4
14426685 TTTTTGACCT
* *
14426695 TTTA TTTA TTTA -ATA TTTA TTTA TTTA -TTG TTTA -TTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
* *
14426741 TTTA TCT- TTT- TTTC TTTGA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT-A TTTA TTT
14426767 TGATTTATTG
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
3 12 0.22
4 37 0.67
5 6 0.11
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:14426715 original size:15 final size:14
Alignment explanation
Indices: 14426695--14426775 Score: 62
Period size: 14 Copynumber: 5.7 Consensus size: 14
14426685 TTTTTGACCT
14426695 TTTATTTATTTAATA
1 TTTATTTATTT-ATA
*
14426710 TTTATTTATTTATTG
1 TTTATTTATTTA-TA
14426725 TTTA-TTATTT-TA
1 TTTATTTATTTATA
*
14426737 TTTATTTATCTT-TT
1 TTTATTTAT-TTATA
*
14426751 TTTCTTTGATTTAT-
1 TTTATTT-ATTTATA
14426765 TTTGATTTATT
1 TTT-ATTTATT
14426776 GTTTTTTCTA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.09
13 4 0.07
14 24 0.44
15 22 0.40
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (14 bp):
TTTATTTATTTATA
Found at i:14426719 original size:19 final size:19
Alignment explanation
Indices: 14426694--14426744 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
14426684 TTTTTTGACC
14426694 TTTTATTTATTTAATATT-
1 TTTTATTTATTTAATATTA
*
14426712 TATTTATTTATTGT-TTATTA
1 T-TTTATTTATT-TAATATTA
14426732 TTTTATTTATTTA
1 TTTTATTTATTTA
14426745 TCTTTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.07
19 24 0.86
20 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTATTTATTTAATATTA
Found at i:14426762 original size:23 final size:23
Alignment explanation
Indices: 14426703--14426766 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
14426693 CTTTTATTTA
*
14426703 TTTAATATTT-ATTTATTTATTG
1 TTTATTATTTGATTTATTTATTG
*
14426725 TTTATTATTTTATTTATTTATCT-
1 TTTATTATTTGATTTATTTAT-TG
* *
14426748 TTTTTTCTTTGATTTATTT
1 TTTATTATTTGATTTATTT
14426767 TGATTTATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 9 0.25
23 26 0.72
24 1 0.03
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (23 bp):
TTTATTATTTGATTTATTTATTG
Found at i:14428888 original size:19 final size:19
Alignment explanation
Indices: 14428864--14428919 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
14428854 ATGACCAACA
14428864 AAATCGCAATGCGATCTCT
1 AAATCGCAATGCGATCTCT
*
14428883 AAATCGCAATGCAATCTCT
1 AAATCGCAATGCGATCTCT
*
14428902 AAATCGCAACGCGATCTC
1 AAATCGCAATGCGATCTC
14428920 CATTATCACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (19 bp):
AAATCGCAATGCGATCTCT
Found at i:14428947 original size:20 final size:20
Alignment explanation
Indices: 14428924--14428986 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
14428914 GATCTCCATT
14428924 ATCACAATGCGAATATGTAA
1 ATCACAATGCGAATATGTAA
*
14428944 ATCACAATGCAAATATGTAA
1 ATCACAATGCGAATATGTAA
14428964 ATCACAATGCGAATATGTAA
1 ATCACAATGCGAATATGTAA
14428984 ATC
1 ATC
14428987 GCAACACGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
ATCACAATGCGAATATGTAA
Found at i:14429029 original size:41 final size:41
Alignment explanation
Indices: 14428984--14429073 Score: 126
Period size: 41 Copynumber: 2.2 Consensus size: 41
14428974 GAATATGTAA
* *
14428984 ATCGCAACACGATAACACGTTATCACAATGCGATTCTGACT
1 ATCGCAACACGATAACACGTGATCACAACGCGATTCTGACT
* * *
14429025 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACACGATAACACGTGATCACAACGCGATTCTGACT
*
14429066 ATCACAAC
1 ATCGCAAC
14429074 GAGATTCTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (41 bp):
ATCGCAACACGATAACACGTGATCACAACGCGATTCTGACT
Found at i:14429036 original size:20 final size:20
Alignment explanation
Indices: 14429013--14429090 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
14429003 TTATCACAAT
14429013 GCGATTCTGACTATCGCAAC
1 GCGATTCTGACTATCGCAAC
**
14429033 GCGATAAT-ACGTGATCGCAAC
1 GCGATTCTGAC-T-ATCGCAAC
*
14429054 GCGATTCTGACTATCACAAC
1 GCGATTCTGACTATCGCAAC
*
14429074 GAGATTCTGACTATCGC
1 GCGATTCTGACTATCGC
14429091 GTTGCGATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
19 2 0.04
20 29 0.60
21 15 0.31
22 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (20 bp):
GCGATTCTGACTATCGCAAC
Found at i:14429111 original size:61 final size:61
Alignment explanation
Indices: 14429004--14429120 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
14428994 GATAACACGT
* * ***
14429004 TATCACAATGCGATTCTGACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGAC
1 TATCACAACGAGATTCTGACTATCGCAACGCGATAATACAAAATCGCAACGCGATTCTGAC
*** * *
14429065 TATCACAACGAGATTCTGACTATCGCGTTGCGATAATATAAAATCGCAATGCGATT
1 TATCACAACGAGATTCTGACTATCGCAACGCGATAATACAAAATCGCAACGCGATT
14429121 TTCAAAGCTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (61 bp):
TATCACAACGAGATTCTGACTATCGCAACGCGATAATACAAAATCGCAACGCGATTCTGAC
Found at i:14429343 original size:22 final size:22
Alignment explanation
Indices: 14429260--14429354 Score: 118
Period size: 22 Copynumber: 4.3 Consensus size: 22
14429250 TTACGACGAC
* *
14429260 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGGCAAA
* **
14429282 ATCCGTCCCCATTTCCGGTGAA
1 ATCCGTCCCCATCTCCGGCAAA
*
14429304 ATCCGTCCCTATCTCCGGCAAA
1 ATCCGTCCCCATCTCCGGCAAA
*
14429326 ATCCATCCCCATCTCCGGCAAA
1 ATCCGTCCCCATCTCCGGCAAA
*
14429348 ATTCGTC
1 ATCCGTC
14429355 TATCTCCATC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.23
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGGCAAA
Found at i:14429758 original size:14 final size:14
Alignment explanation
Indices: 14429739--14429775 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
14429729 ACAAAATTCG
14429739 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
14429753 CGTTGCAATTATCT
1 CGTTGCGATTATCT
*
14429767 CGTTACGAT
1 CGTTGCGAT
14429776 AGTCAAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:14429795 original size:20 final size:20
Alignment explanation
Indices: 14429767--14429815 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
14429757 GCAATTATCT
* *
14429767 CGTTACGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
**
14429787 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAATCAAATTCG
*
14429807 TGTTGCGAT
1 CGTTGCGAT
14429816 TTTCATTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:14429821 original size:20 final size:20
Alignment explanation
Indices: 14429783--14429838 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
14429773 GATAGTCAAA
* **
14429783 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
14429803 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
14429823 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
14429839 AAGTTTCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:14429845 original size:20 final size:20
Alignment explanation
Indices: 14429802--14429845 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
14429792 CGATAATCAT
* *
14429802 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
14429822 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
14429842 TTTC
1 TTTC
14429846 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:14431654 original size:34 final size:34
Alignment explanation
Indices: 14431608--14431744 Score: 157
Period size: 34 Copynumber: 3.9 Consensus size: 34
14431598 GAAAATGATT
**
14431608 ATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAACGCGAAAATGACTATCGCAACGGGATA
* *
14431642 ATCGCAATGCGAAAATGACTATCGCAAATCGGAAATGA
1 ATCGCAACGCGAAAATGACTATCGC-AA-CGG-GAT-A
**
14431680 CTATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 --ATCGCAACGCGAAAATGACTATCGCAACGGGATA
*
14431716 ATCGCAATGCGAAAATGACTATCGCAACG
1 ATCGCAACGCGAAAATGACTATCGCAACG
14431745 CGAATTTAGT
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
34 48 0.56
35 2 0.02
36 4 0.05
37 4 0.05
38 4 0.05
39 2 0.02
40 22 0.26
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (34 bp):
ATCGCAACGCGAAAATGACTATCGCAACGGGATA
Found at i:14431710 original size:20 final size:19
Alignment explanation
Indices: 14431589--14431748 Score: 108
Period size: 20 Copynumber: 8.6 Consensus size: 19
14431579 AGAAGAATAG
* *
14431589 TCGCAACACGAAAATGATTA
1 TCGCAACGCG-AAATGACTA
*
14431609 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
*
14431629 TCGCAACG-G-GAT-A--A
1 TCGCAACGCGAAATGACTA
*
14431643 TCGCAATGCGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
14431663 TCGCAAATCG-GAAATGACTA
1 TCGC-AA-CGCGAAATGACTA
*
14431683 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
*
14431703 TCGCAACG-G-GAT-A--A
1 TCGCAACGCGAAATGACTA
*
14431717 TCGCAATGCGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
14431737 TCGCAACGCGAA
1 TCGCAACGCGAA
14431749 TTTAGTTTCA
Statistics
Matches: 109, Mismatches: 14, Indels: 35
0.69 0.09 0.22
Matches are distributed among these distances:
14 16 0.15
15 2 0.02
16 2 0.02
17 6 0.06
18 4 0.04
19 11 0.10
20 64 0.59
21 3 0.03
22 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:14431710 original size:74 final size:74
Alignment explanation
Indices: 14431600--14431742 Score: 277
Period size: 74 Copynumber: 1.9 Consensus size: 74
14431590 CGCAACACGA
*
14431600 AAATGATTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAATGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAATGACTATC
14431665 GCAAATCGG
66 GCAAATCGG
14431674 AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAATGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAATGACTATC
14431739 GCAA
66 GCAA
14431743 CGCGAATTTA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (74 bp):
AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAATGACTATC
GCAAATCGG
Found at i:14431775 original size:19 final size:19
Alignment explanation
Indices: 14431753--14431789 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14431743 CGCGAATTTA
*
14431753 GTTTCACGTTGCGATTTTG
1 GTTTCACGTTGCAATTTTG
*
14431772 GTTTCGCGTTGCAATTTT
1 GTTTCACGTTGCAATTTT
14431790 CTCGTTGCGA
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:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (19 bp):
GTTTCACGTTGCAATTTTG
Found at i:14431796 original size:33 final size:33
Alignment explanation
Indices: 14431773--14431850 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
14431763 GCGATTTTGG
14431773 TTTCGCGTTGCAATTTTCTCGTTGCGATGGTCA
1 TTTCGCGTTGCAATTTTCTCGTTGCGATGGTCA
* * * *
14431806 TTTCGCGTTGCGATTATCTCGTTACGATAGTCAA
1 TTTCGCGTTGCAATTTTCTCGTTGCGATGGTC-A
*
14431840 ATTCGCGTTGC
1 TTTCGCGTTGC
14431851 GATAGTCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 28 0.72
34 11 0.28
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.40
Consensus pattern (33 bp):
TTTCGCGTTGCAATTTTCTCGTTGCGATGGTCA
Found at i:14431853 original size:20 final size:20
Alignment explanation
Indices: 14431825--14431874 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
14431815 GCGATTATCT
*
14431825 CGTTACGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
14431845 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
14431865 CATTGCGATA
1 CGTTGCGATA
14431875 ATCATTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:14432436 original size:21 final size:22
Alignment explanation
Indices: 14432412--14432472 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 22
14432402 CTCCTATCGT
14432412 TCAAGAGGCCCCTATCATCC-C
1 TCAAGAGGCCCCTATCATCCGC
* ** *
14432433 TCAAGAGTCCCCTCCCA-CCGT
1 TCAAGAGGCCCCTATCATCCGC
*
14432454 TCAAGAGGCCCCTGTCATC
1 TCAAGAGGCCCCTATCATC
14432473 ATTGAAGAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.21, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
TCAAGAGGCCCCTATCATCCGC
Found at i:14432455 original size:42 final size:42
Alignment explanation
Indices: 14432391--14432472 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
14432381 CTTTCATCGT
* * *
14432391 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
* *
14432433 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTGTCATC
1 TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATC
14432473 ATTGAAGAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.21, C:0.40, G:0.17, T:0.22
Consensus pattern (42 bp):
TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
Found at i:14434854 original size:20 final size:20
Alignment explanation
Indices: 14434829--14434972 Score: 166
Period size: 20 Copynumber: 7.1 Consensus size: 20
14434819 AGTGATGCAT
14434829 TAGTCAGAATCGCGTTGCGA
1 TAGTCAGAATCGCGTTGCGA
* *
14434849 TAGTCAAAATAGCGTTGCGA
1 TAGTCAGAATCGCGTTGCGA
**
14434869 TCACGT-ATTATCGCGTTGCGA
1 T-A-GTCAGAATCGCGTTGCGA
* *
14434890 TAGTCAGAATCTCATTGCGA
1 TAGTCAGAATCGCGTTGCGA
14434910 TAGTCAGAATCGCGTTGCGA
1 TAGTCAGAATCGCGTTGCGA
**
14434930 TCACGT-ATTATCGCGTTGCGA
1 T-A-GTCAGAATCGCGTTGCGA
14434951 TAGTCAGAATCGCGTTGCGA
1 TAGTCAGAATCGCGTTGCGA
14434971 TA
1 TA
14434973 ACGTGTTATC
Statistics
Matches: 103, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.04
20 66 0.64
21 29 0.28
22 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (20 bp):
TAGTCAGAATCGCGTTGCGA
Found at i:14434895 original size:61 final size:61
Alignment explanation
Indices: 14434829--14434972 Score: 252
Period size: 61 Copynumber: 2.4 Consensus size: 61
14434819 AGTGATGCAT
14434829 TAGTCAGAATCGCGTTGCGATAGTCAAAATAGCGTTGCGATCACGTATTATCGCGTTGCGA
1 TAGTCAGAATCGCGTTGCGATAGTCAAAATAGCGTTGCGATCACGTATTATCGCGTTGCGA
* * * *
14434890 TAGTCAGAATCTCATTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGTTGCGA
1 TAGTCAGAATCGCGTTGCGATAGTCAAAATAGCGTTGCGATCACGTATTATCGCGTTGCGA
14434951 TAGTCAGAATCGCGTTGCGATA
1 TAGTCAGAATCGCGTTGCGATA
14434973 ACGTGTTATC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 77 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (61 bp):
TAGTCAGAATCGCGTTGCGATAGTCAAAATAGCGTTGCGATCACGTATTATCGCGTTGCGA
Found at i:14434949 original size:41 final size:41
Alignment explanation
Indices: 14434904--14434992 Score: 160
Period size: 41 Copynumber: 2.2 Consensus size: 41
14434894 CAGAATCTCA
*
14434904 TTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCG
1 TTGCGATAGTCAGAATCGCGTTGCGATAACGTATTATCGCG
*
14434945 TTGCGATAGTCAGAATCGCGTTGCGATAACGTGTTATCGCG
1 TTGCGATAGTCAGAATCGCGTTGCGATAACGTATTATCGCG
14434986 TTGCGAT
1 TTGCGAT
14434993 TTAAATATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (41 bp):
TTGCGATAGTCAGAATCGCGTTGCGATAACGTATTATCGCG
Found at i:14435009 original size:20 final size:20
Alignment explanation
Indices: 14434981--14435030 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
14434971 TAACGTGTTA
*
14434981 TCGCGTTGCGATTTAAATAT
1 TCGCATTGCGATTTAAATAT
*
14435001 TCGCATTGCGATTTATATAT
1 TCGCATTGCGATTTAAATAT
14435021 TCGCATTGCG
1 TCGCATTGCG
14435031 GTTATCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTAAATAT
Found at i:14435143 original size:19 final size:19
Alignment explanation
Indices: 14435119--14435155 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
14435109 TACGATAATG
14435119 GAGATCGCGA-TGCGATTTA
1 GAGATCGC-ATTGCGATTTA
14435138 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
14435156 TGTTGGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:14439735 original size:67 final size:67
Alignment explanation
Indices: 14439655--14439788 Score: 232
Period size: 67 Copynumber: 2.0 Consensus size: 67
14439645 CAAATAAAAA
* *
14439655 AACATGGTGATATTATGATCGTGTGCTTATATGTAGAAGACATGATTTTCACGGGAAATAATTCA
1 AACATGATGATATTATGATCGTGTGCTTATATGTAGAAGACATGATTTTCACGAGAAATAATTCA
14439720 GG
66 GG
* *
14439722 AACATGATGATATTATGATCGTGTGCTTATATGTAGAAGACATGATTTTCATGATAAATAATTCA
1 AACATGATGATATTATGATCGTGTGCTTATATGTAGAAGACATGATTTTCACGAGAAATAATTCA
14439787 GG
66 GG
14439789 TATGTTTAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (67 bp):
AACATGATGATATTATGATCGTGTGCTTATATGTAGAAGACATGATTTTCACGAGAAATAATTCA
GG
Found at i:14446165 original size:45 final size:46
Alignment explanation
Indices: 14446116--14446206 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
14446106 GAACATCAAA
* * *
14446116 TGCATTTTATGCATCAATGCA-CATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCAATGCATAAGACCATGCATCGATGCACTCAG
*
14446161 TGCATTTGATGCATTAATGCATAAGACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCAATGCATAAGACCATGCATCGATGCACTCAG
14446207 GCTTTTTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 19 0.46
46 22 0.54
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (46 bp):
TGCATTTGATGCATCAATGCATAAGACCATGCATCGATGCACTCAG
Found at i:14460509 original size:19 final size:19
Alignment explanation
Indices: 14460487--14460542 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
14460477 ATAGAAGAAG
14460487 TAAATTTTAGCACTATTCT
1 TAAATTTTAGCACTATTCT
* * *
14460506 TAAAATTTATCGGAC-AATCT
1 T-AAATTT-TAGCACTATTCT
*
14460526 TCAATTTTAGCACTATT
1 TAAATTTTAGCACTATT
14460543 TGTACACAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
18 4 0.15
19 8 0.30
20 11 0.41
21 4 0.15
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (19 bp):
TAAATTTTAGCACTATTCT
Found at i:14462511 original size:20 final size:20
Alignment explanation
Indices: 14462486--14462527 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
14462476 TATAGATCCA
*
14462486 ATGAGAACACAATACATGTC
1 ATGAGAACAAAATACATGTC
14462506 ATGAGAACAAAATACATGTC
1 ATGAGAACAAAATACATGTC
14462526 AT
1 AT
14462528 CATTTCTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (20 bp):
ATGAGAACAAAATACATGTC
Found at i:14464698 original size:55 final size:55
Alignment explanation
Indices: 14464625--14464808 Score: 280
Period size: 55 Copynumber: 3.4 Consensus size: 55
14464615 ATAACAAAAT
* *
14464625 GGCACTATGCGTGC-AAACTAATAAATTCATAATAAGTTTATGAATTTCAGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCAGTATG
* * * *
14464679 GGCACTATGTGTGAAAAACTAAGAAATTCATAATAAGTTCATGAATTTCTGAATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCAGTATG
*
14464734 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCAGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCAGTATG
* *
14464789 GGCGCTGTGTGTGCAAAACT
1 GGCACTATGTGTGCAAAACT
14464809 GTTGAGTTAA
Statistics
Matches: 117, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
54 12 0.10
55 105 0.90
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCAGTATG
Found at i:14465032 original size:13 final size:13
Alignment explanation
Indices: 14465014--14465039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14465004 TTCTTTTGAG
14465014 GACAAAGAGTAAC
1 GACAAAGAGTAAC
14465027 GACAAAGAGTAAC
1 GACAAAGAGTAAC
14465040 CTTATAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.23, T:0.08
Consensus pattern (13 bp):
GACAAAGAGTAAC
Found at i:14465547 original size:19 final size:20
Alignment explanation
Indices: 14465521--14465573 Score: 99
Period size: 19 Copynumber: 2.7 Consensus size: 20
14465511 CGTTGAACAG
14465521 TGGGGGGAATCGGTACCCCC
1 TGGGGGGAATCGGTACCCCC
14465541 T-GGGGGAATCGGTACCCCC
1 TGGGGGGAATCGGTACCCCC
14465560 TGGGGGGAATCGGT
1 TGGGGGGAATCGGT
14465574 TCCCTCTGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.15, C:0.25, G:0.43, T:0.17
Consensus pattern (20 bp):
TGGGGGGAATCGGTACCCCC
Found at i:14468331 original size:20 final size:20
Alignment explanation
Indices: 14468253--14468332 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 20
14468243 GAACCCCATG
*
14468253 GGGGGTATCGATTCCC-C-T
1 GGGGGAATCGATTCCCTCAT
* *
14468271 AGGGGGAATCGGTTCCCCTTCAAA
1 -GGGGGAATCGATT-CCC-TC-AT
*
14468295 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
14468315 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
14468333 TGCACCAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 11 0.22
20 20 0.40
21 2 0.04
22 4 0.08
23 13 0.26
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.25
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:14474465 original size:3 final size:3
Alignment explanation
Indices: 14474450--14474501 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
14474440 ATATTTAATT
* ** *
14474450 TAA TAA TAT TAA TAA T-A TATA TAA TAA TAA TAA TAA TTT TAA AAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
14474495 TAA TAA T
1 TAA TAA T
14474502 TTAAATAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:14479805 original size:11 final size:11
Alignment explanation
Indices: 14479789--14479813 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14479779 GCTATAATTT
14479789 TAAAAAAATAA
1 TAAAAAAATAA
14479800 TAAAAAAATAA
1 TAAAAAAATAA
14479811 TAA
1 TAA
14479814 TTTATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
TAAAAAAATAA
Found at i:14481880 original size:37 final size:37
Alignment explanation
Indices: 14481813--14481905 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
14481803 GAAGTGACCG
* * *
14481813 AATTACCGATTGGTTCATTCATTGGAATGATAATTCC
1 AATTACCGACTGGTTCATCCATAGGAATGATAATTCC
*
14481850 AATTCCCGACTGGTTCATCCACTAGG-ATGATAATTCC
1 AATTACCGACTGGTTCATCCA-TAGGAATGATAATTCC
* * *
14481887 AACTATCGAATGGTTCATC
1 AATTACCGACTGGTTCATC
14481906 TCATCGAGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 44 0.94
38 3 0.06
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (37 bp):
AATTACCGACTGGTTCATCCATAGGAATGATAATTCC
Found at i:14488482 original size:20 final size:20
Alignment explanation
Indices: 14488453--14488495 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
14488443 ATTCCACCAC
*
14488453 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
14488473 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
14488493 ATG
1 ATG
14488496 TGCTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:14496052 original size:39 final size:39
Alignment explanation
Indices: 14495998--14496072 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
14495988 ATTAAAGAAA
*
14495998 ATTCTTCAAGTACTCATAGCTTCTAAGGCAAATCTTAAT
1 ATTCTTCAAGTACTCATAGCTTCTAAGGAAAATCTTAAT
14496037 ATTCTTCAAGTACTCATAGCTTCTAAGGAAAATCTT
1 ATTCTTCAAGTACTCATAGCTTCTAAGGAAAATCTT
14496073 TCGTAATCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (39 bp):
ATTCTTCAAGTACTCATAGCTTCTAAGGAAAATCTTAAT
Found at i:14504548 original size:15 final size:16
Alignment explanation
Indices: 14504528--14504559 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
14504518 ATGGATATTT
14504528 AATTTGAA-TTAATTA
1 AATTTGAATTTAATTA
14504543 AATTTGAATTTAATTA
1 AATTTGAATTTAATTA
14504559 A
1 A
14504560 TTCAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
AATTTGAATTTAATTA
Found at i:14504557 original size:20 final size:20
Alignment explanation
Indices: 14504524--14504561 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14504514 TTTAATGGAT
14504524 ATTTAATTTGAATTAATTAA
1 ATTTAATTTGAATTAATTAA
14504544 ATTTGAATTT-AATTAATT
1 ATTT-AATTTGAATTAATT
14504562 CAAAATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
ATTTAATTTGAATTAATTAA
Found at i:14504561 original size:15 final size:14
Alignment explanation
Indices: 14504526--14504561 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
14504516 TAATGGATAT
14504526 TTAATTTGAATTAA
1 TTAATTTGAATTAA
14504540 TTAAATTTGAATTTAA
1 TT-AATTTGAA-TTAA
14504556 TTAATT
1 TTAATT
14504562 CAAAATAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 12 0.60
16 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (14 bp):
TTAATTTGAATTAA
Found at i:14510626 original size:23 final size:24
Alignment explanation
Indices: 14510570--14510629 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
14510560 TCTTTATTTT
*
14510570 CTTTGTTTTTCTTCTTTTTGAGTG
1 CTTTATTTTTCTTCTTTTTGAGTG
** *
14510594 CTGGAATTTTCTTC-TTTTGAGTG
1 CTTTATTTTTCTTCTTTTTGAGTG
14510617 CTTTATTTTTCTT
1 CTTTATTTTTCTT
14510630 TGCTGGATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.08, C:0.13, G:0.15, T:0.63
Consensus pattern (24 bp):
CTTTATTTTTCTTCTTTTTGAGTG
Found at i:14528267 original size:14 final size:14
Alignment explanation
Indices: 14528248--14528275 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14528238 GACTATGACG
14528248 AAACATTTTCCCTT
1 AAACATTTTCCCTT
14528262 AAACATTTTCCCTT
1 AAACATTTTCCCTT
14528276 GTTGCTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (14 bp):
AAACATTTTCCCTT
Found at i:14536841 original size:17 final size:18
Alignment explanation
Indices: 14536804--14536845 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
14536794 CTTTAAGTTC
14536804 TTTATTTCATGCACTTCA
1 TTTATTTCATGCACTTCA
*
14536822 TTTATTTCATG-ACTTTA
1 TTTATTTCATGCACTTCA
14536839 TTTATTT
1 TTTATTT
14536846 TTCCTTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.21, C:0.14, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTATTTCATGCACTTCA
Found at i:14542988 original size:42 final size:42
Alignment explanation
Indices: 14542744--14543072 Score: 293
Period size: 42 Copynumber: 7.7 Consensus size: 42
14542734 CAAAAAATGC
* * * * *
14542744 CGCAATAGGTCAAGATTTATAGCGGCGTTTTTGGAACAAATGC
1 CGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGAACAAACGT
* * * * *
14542787 CGTAAAAGGTTTATATCTATAGCGGCATTTTTGGAATAAACGC
1 CGCAAAAGG-TCAGATCTATAGCGGCATTTTTGGAACAAACGT
* * *
14542830 CGCAAAAGGTTGATATCTATAGCGGCATTTTTTGGAACAAACGC
1 CGCAAAAGG-TCAGATCTATAGCGGCA-TTTTTGGAACAAACGT
* ** ****
14542874 CGCAAAACGTCAAGAAATATAGCAATGTTTTTGGAACAAACGT
1 CGCAAAAGGTC-AGATCTATAGCGGCATTTTTGGAACAAACGT
* * * * *
14542917 CGC-AAAGGTCAGATCTATAACAGCGTTTTTGAAACAAACAT
1 CGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAACGT
* * * *
14542958 CGCAAGAGATCAGATTTATAGCGGCATTTTTGGAACAAATGT
1 CGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAACGT
* *
14543000 CG-AAAAGTGTCAGATCTATAGCGGCGTTTTTGGAACAAACGG
1 CGCAAAAG-GTCAGATCTATAGCGGCATTTTTGGAACAAACGT
* *
14543042 CGCAAAATGTCAGATCTATAGCGGTATTTTT
1 CGCAAAAGGTCAGATCTATAGCGGCATTTTT
14543073 TTATACAAAC
Statistics
Matches: 233, Mismatches: 47, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
41 31 0.13
42 89 0.38
43 81 0.35
44 32 0.14
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (42 bp):
CGCAAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAACGT
Found at i:14545509 original size:44 final size:45
Alignment explanation
Indices: 14545437--14545521 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
14545427 CATGTTTATA
*
14545437 ATACACCATTATACCATTTCCATTATGGCATTATTTCATGCTTTT
1 ATACACCATTATACCATTTCCATTATGGCATCATTTCATGCTTTT
* *
14545482 ATACACTATTATA-CATTT-CATTTATGGCATCCTTTCATGC
1 ATACACCATTATACCATTTCCA-TTATGGCATCATTTCATGC
14545522 CTTCTATGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 2 0.06
44 22 0.61
45 12 0.33
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (45 bp):
ATACACCATTATACCATTTCCATTATGGCATCATTTCATGCTTTT
Found at i:14546258 original size:45 final size:45
Alignment explanation
Indices: 14546209--14546423 Score: 252
Period size: 45 Copynumber: 4.8 Consensus size: 45
14546199 ACTCTAACAT
* *
14546209 CTTTTCTGTTGATAATACACCCATATGCATTTCAACTATAATATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * * * *
14546254 CTTTTATGTTGATAATGTACCCATATACATCTCAACCATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * * * * *
14546299 TTTTTCTGTTGATAATGTACCCATGTACATTTCAACTCTAGCATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* *
14546344 -TTTTCCTGTTGATAATGCACCCATGTGCATTTCAACTCTAGTATA
1 CTTTT-CTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * *
14546389 CTTTTCTGTTGAAAATGAACCAATATGCATTTCAA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAA
14546424 ATCTGGCATC
Statistics
Matches: 147, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
44 4 0.03
45 139 0.95
46 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
Found at i:14546438 original size:45 final size:44
Alignment explanation
Indices: 14546198--14546438 Score: 207
Period size: 45 Copynumber: 5.4 Consensus size: 44
14546188 ATGCCTTTTA
* *
14546198 AACTCTAACATCTTTTCTGTTGATAAT-ACACCCATATGCATTTC
1 AACTCTAGCATCTTTTCTGTTGATAATGA-ACCCATGTGCATTTC
* ** * * * * *
14546242 AACTATAATATACTTTTATGTTGATAATGTACCCATATACATCTC
1 AACTCTAGCAT-CTTTTCTGTTGATAATGAACCCATGTGCATTTC
* * * *
14546287 AAC-CATAGTATATTTTTCTGTTGATAATGTACCCATGTACATTTC
1 AACTC-TAGCAT-CTTTTCTGTTGATAATGAACCCATGTGCATTTC
* *
14546332 AACTCTAGCATATTTTCCTGTTGATAATGCACCCATGTGCATTTC
1 AACTCTAGCATCTTTT-CTGTTGATAATGAACCCATGTGCATTTC
* * * *
14546377 AACTCTAGTATACTTTTCTGTTGAAAATGAACCAATATGCATTTC
1 AACTCTAGCAT-CTTTTCTGTTGATAATGAACCCATGTGCATTTC
* *
14546422 AAATCTGGCATCCTTTT
1 AACTCTAGCAT-CTTTT
14546439 ATACCAATAA
Statistics
Matches: 165, Mismatches: 26, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
44 13 0.08
45 147 0.89
46 5 0.03
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (44 bp):
AACTCTAGCATCTTTTCTGTTGATAATGAACCCATGTGCATTTC
Found at i:14546456 original size:135 final size:134
Alignment explanation
Indices: 14546198--14546464 Score: 293
Period size: 135 Copynumber: 2.0 Consensus size: 134
14546188 ATGCCTTTTA
*
14546198 AACTCTAACATCTTTTCTGTTGATAATACACCCATATGCATTTCAACTATAATATACTTTTATGT
1 AACTCTAACATATTTTCTGTTGATAATACACCCATATGCATTTCAACTATAATATACTTTTATGT
* * * * * * **** *
14546263 TGATAATGTACCCATATACATCTCAACCATAGTATATTTTTCTGTTGATAATGTACCCATGTACA
66 TGAAAATGAACCAATATACATCTCAACCATAGCATACTTTTATACCAATAATGCACCCATGTACA
14546328 TTTC
131 TTTC
* * * * * *
14546332 AACTCTAGCATATTTTCCTGTTGATAATGCACCCATGTGCATTTCAACTCTAGTATACTTTTCTG
1 AACTCTAACATATTTT-CTGTTGATAATACACCCATATGCATTTCAACTATAATATACTTTTATG
* * * * * *
14546397 TTGAAAATGAACCAATATGCATTTCAAATC-TGGCATCCTTTTATACCAATAATGCACCCATGTG
65 TTGAAAATGAACCAATATACATCTC-AACCATAGCATACTTTTATACCAATAATGCACCCATGTA
14546461 CATT
129 CATT
14546465 ATTCTGTTAT
Statistics
Matches: 107, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
134 14 0.13
135 90 0.84
136 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.38
Consensus pattern (134 bp):
AACTCTAACATATTTTCTGTTGATAATACACCCATATGCATTTCAACTATAATATACTTTTATGT
TGAAAATGAACCAATATACATCTCAACCATAGCATACTTTTATACCAATAATGCACCCATGTACA
TTTC
Found at i:14546463 original size:45 final size:46
Alignment explanation
Indices: 14546310--14546464 Score: 111
Period size: 45 Copynumber: 3.4 Consensus size: 46
14546300 TTTTCTGTTG
* * * * ***
14546310 ATAATGTACCCATGTACATTTCAACTCTAGCATA-TTTTCCTG-TTG
1 ATAATGCACCCATGTGCATTTCAAATCTAGCATACTTTT-ATGACCA
* * * ***
14546355 ATAATGCACCCATGTGCATTTCAACTCTAGTATACTTTTCTGTTGA
1 ATAATGCACCCATGTGCATTTCAAATCTAGCATACTTTTATGACCA
* * * * *
14546401 A-AATGAACCAATATGCATTTCAAATCTGGCATCCTTTTAT-ACCA
1 ATAATGCACCCATGTGCATTTCAAATCTAGCATACTTTTATGACCA
14546445 ATAATGCACCCATGTGCATT
1 ATAATGCACCCATGTGCATT
14546465 ATTCTGTTAT
Statistics
Matches: 88, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
44 2 0.02
45 80 0.91
46 6 0.07
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (46 bp):
ATAATGCACCCATGTGCATTTCAAATCTAGCATACTTTTATGACCA
Found at i:14547992 original size:42 final size:42
Alignment explanation
Indices: 14547940--14548226 Score: 172
Period size: 42 Copynumber: 6.9 Consensus size: 42
14547930 ATCGTTTATA
* *
14547940 TAAAGACGCCAATAAAGTGCGAGTATTTAGGGGAGTTTGTGCT
1 TAAA-ACGCCAATAAAGTACGAGTATTTAGCGGAGTTTGTGCT
* * * *
14547983 TAAAACGCCACTAAAGTATGAGTCTTTAGCGGCGTTTGTGCT
1 TAAAACGCCAATAAAGTACGAGTATTTAGCGGAGTTTGTGCT
** ** * ** * *
14548025 TAAAATACCGCTAAAGTACGGGCCTTTAGCGGCGTTT-TTC-
1 TAAAACGCCAATAAAGTACGAGTATTTAGCGGAGTTTGTGCT
**** * ** * *
14548065 TACAAACGATGCTAAA-TACG-GTAATTAGCGGCTTTTAT-AT
1 TA-AAACGCCAATAAAGTACGAGTATTTAGCGGAGTTTGTGCT
* * * * * *
14548105 AAAAACACCAATAAAGTACGAGTATTTAGTGGTGTTTAT-AT
1 TAAAACGCCAATAAAGTACGAGTATTTAGCGGAGTTTGTGCT
* * *
14548146 AAAAACGCCAATAAAGTACGAGTATTTAGTGGTGTTTGTGCT
1 TAAAACGCCAATAAAGTACGAGTATTTAGCGGAGTTTGTGCT
* * * * *
14548188 TAAAACACCACTAAAGTACGAGTCTTTAGAGGGGTTTGT
1 TAAAACGCCAATAAAGTACGAGTATTTAGCGGAGTTTGT
14548227 ACTCAAATGC
Statistics
Matches: 197, Mismatches: 41, Indels: 13
0.78 0.16 0.05
Matches are distributed among these distances:
39 20 0.10
40 12 0.06
41 64 0.32
42 97 0.49
43 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (42 bp):
TAAAACGCCAATAAAGTACGAGTATTTAGCGGAGTTTGTGCT
Found at i:14548157 original size:41 final size:41
Alignment explanation
Indices: 14548098--14548216 Score: 175
Period size: 41 Copynumber: 2.9 Consensus size: 41
14548088 ATTAGCGGCT
14548098 TTTATATAAAAACACCAATAAAGTACGAGTATTTAGTGGTG
1 TTTATATAAAAACACCAATAAAGTACGAGTATTTAGTGGTG
*
14548139 TTTATATAAAAACGCCAATAAAGTACGAGTATTTAGTGGTG
1 TTTATATAAAAACACCAATAAAGTACGAGTATTTAGTGGTG
* * * * *
14548180 TTTGTGCTTAAAACACCACTAAAGTACGAGTCTTTAG
1 TTTAT-ATAAAAACACCAATAAAGTACGAGTATTTAG
14548217 AGGGGTTTGT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 44 0.63
42 26 0.37
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (41 bp):
TTTATATAAAAACACCAATAAAGTACGAGTATTTAGTGGTG
Found at i:14548268 original size:164 final size:164
Alignment explanation
Indices: 14547840--14548289 Score: 458
Period size: 164 Copynumber: 2.7 Consensus size: 164
14547830 AAATACTACA
* * * * *
14547840 TATTTAACGTCGTTTGTGCTTAAAACGCCACTAAAGTACGAGCCTTTAGCGACGCTTTT-CTACA
1 TATTTAGCGGCGTTTGTGCTTAAAACACCACTAAAGTACGAGCCTTTAGAGGCG-TTTTACTACA
* *** * * *
14547904 AACG-CCGCTAAAGTACATTAATTAGTATCGTTTATATAAAGACGCCAATAAAGTGCGAGTATTT
65 AACGACC-CTAAA-TACAATAATTAGCGGCATTTATATAAAAACGCCAATAAAGTACGAGTATTT
* * * * *
14547968 AGGGGAGTTTGTGCTTAAAACGCCACTAAAGTATGAG
128 AGGGGAGTTTATGATAAAAACGCCAATAAAGTACGAG
* * * * * *
14548005 TCTTTAGCGGCGTTTGTGCTTAAAATACCGCTAAAGTACGGGCCTTTAGCGGCGTTTTTCTACAA
1 TATTTAGCGGCGTTTGTGCTTAAAACACCACTAAAGTACGAGCCTTTAGAGGCGTTTTACTACAA
** ** * * *
14548070 ACGATGCTAAATACGGTAATTAGCGGCTTTTATATAAAAACACCAATAAAGTACGAGTATTTAGT
66 ACGACCCTAAATACAATAATTAGCGGCATTTATATAAAAACGCCAATAAAGTACGAGTATTTAGG
*
14548135 GGTGTTTAT-ATAAAAACGCCAATAAAGTACGAG
131 GGAGTTTATGATAAAAACGCCAATAAAGTACGAG
* * * *
14548168 TATTTAGTGGTGTTTGTGCTTAAAACACCACTAAAGTACGAGTCTTTAGAGGGGTTTGTACT-CA
1 TATTTAGCGGCGTTTGTGCTTAAAACACCACTAAAGTACGAGCCTTTAGAGGCGTTT-TACTACA
* * * * * *
14548232 AATGCCCCTAAACTATAATATTTAGCGGCATTTATATAAAAATGCCACTAAAGTACGA
65 AACGACCCTAAA-TACAATAATTAGCGGCATTTATATAAAAACGCCAATAAAGTACGA
14548290 TTACTTACCG
Statistics
Matches: 233, Mismatches: 48, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
163 78 0.33
164 95 0.41
165 60 0.26
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (164 bp):
TATTTAGCGGCGTTTGTGCTTAAAACACCACTAAAGTACGAGCCTTTAGAGGCGTTTTACTACAA
ACGACCCTAAATACAATAATTAGCGGCATTTATATAAAAACGCCAATAAAGTACGAGTATTTAGG
GGAGTTTATGATAAAAACGCCAATAAAGTACGAG
Found at i:14570706 original size:138 final size:138
Alignment explanation
Indices: 14570496--14570767 Score: 420
Period size: 138 Copynumber: 2.0 Consensus size: 138
14570486 CTATCATCAA
*
14570496 TAACATGCTGCTCACGTAGCCCATTAACAAGGGAGAAAGGCACAACATGGAGCCCTGTACCAAAA
1 TAACATGCTGCTCACGTAGCCCATTAACAAGGGAGAAAGGCACAACATGGAGCCCTGCACCAAAA
* * * * *
14570561 GAATTCCTGCAGTCCACGTTATCAACTACATGTTATCCCCCACCATCCATAAAGTCATTGATTTT
66 GAATTCCTACAATCCACATAATCAACTACATGTTATCCCCCACCATCCATAAAGTCATTGATTTC
14570626 ATCGACAT
131 ATCGACAT
* * *
14570634 TAACATGCTGCTCCCGTATCCCATTAAC-AGAGGAGAAAGGCACAACATGGAGCCCTGCACCCAA
1 TAACATGCTGCTCACGTAGCCCATTAACAAG-GGAGAAAGGCACAACATGGAGCCCTGCACCAAA
* * *
14570698 AGCATTCCTACAATCCACATAATCAACTACATGTTATCCCCCATCATCCATAAATTCATTGATTT
65 AGAATTCCTACAATCCACATAATCAACTACATGTTATCCCCCACCATCCATAAAGTCATTGATTT
14570763 CATCG
130 CATCG
14570768 CACCTCTGAC
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
137 2 0.02
138 119 0.98
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (138 bp):
TAACATGCTGCTCACGTAGCCCATTAACAAGGGAGAAAGGCACAACATGGAGCCCTGCACCAAAA
GAATTCCTACAATCCACATAATCAACTACATGTTATCCCCCACCATCCATAAAGTCATTGATTTC
ATCGACAT
Found at i:14572262 original size:25 final size:25
Alignment explanation
Indices: 14572224--14572278 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
14572214 CAATGGATGG
*
14572224 CCAAATGTTCAATTACCCCAATCAT
1 CCAAATGTTCAATTACCACAATCAT
*
14572249 CCAAATGGTT-AATTGCCACAATCAT
1 CCAAAT-GTTCAATTACCACAATCAT
14572274 CCAAA
1 CCAAA
14572279 CGATGGATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 24 0.89
26 3 0.11
ACGTcount: A:0.38, C:0.29, G:0.07, T:0.25
Consensus pattern (25 bp):
CCAAATGTTCAATTACCACAATCAT
Found at i:14572288 original size:25 final size:25
Alignment explanation
Indices: 14572242--14572289 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
14572232 TCAATTACCC
* * *
14572242 CAATCATCCAAATGGTTAATTGCCA
1 CAATCATCCAAACGATGAATTGCCA
*
14572267 CAATCATCCAAACGATGGATTGC
1 CAATCATCCAAACGATGAATTGC
14572290 TACGACCGAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
CAATCATCCAAACGATGAATTGCCA
Found at i:14572365 original size:22 final size:24
Alignment explanation
Indices: 14572327--14572370 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
14572317 ATTTAAATCC
14572327 TTAAGATTTAAGGAATTTAAGGAT
1 TTAAGATTTAAGGAATTTAAGGAT
14572351 TTAAG-TTT-AGGAATTTAAGG
1 TTAAGATTTAAGGAATTTAAGG
14572371 GATTGGGACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
23 3 0.15
24 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (24 bp):
TTAAGATTTAAGGAATTTAAGGAT
Found at i:14572849 original size:123 final size:123
Alignment explanation
Indices: 14572585--14572851 Score: 374
Period size: 123 Copynumber: 2.2 Consensus size: 123
14572575 ATAAAGTAAT
*
14572585 TTAGCGGCGTTTTCATACAAACGCTACAATATGGTTCATATATAGTGGCATCGTTACAACAAACG
1 TTAGCGGCGTTTTCATACAAACGCCACAATATGGTTCATATATAGTGGCATCGTTACAACAAACG
* ** *
14572650 TCGCAATAGAAAGTAATTTAGTGGTGTTTTTATACAAACGCCGCAATAGATTGGTATG
66 CCGCAATAGAAAGTAATTTAGTCATATTTTTATACAAACGCCGCAATAGATTGGTATG
* ** * *
14572708 TTAGCAGCACTTTCATACAAACGCCGCAATATGGTTCATATATAGTGGCGTCGTTACAACAAACG
1 TTAGCGGCGTTTTCATACAAACGCCACAATATGGTTCATATATAGTGGCATCGTTACAACAAACG
* * **
14572773 CCGCAATAGAATGTAATTTAG-CATCATTTTTATACAAATGCCTTAATAGATTGGTATG
66 CCGCAATAGAAAGTAATTTAGTCAT-ATTTTTATACAAACGCCGCAATAGATTGGTATG
* *
14572831 TTAGTGGCGTTTTTATACAAA
1 TTAGCGGCGTTTTCATACAAA
14572852 TGCTACATTA
Statistics
Matches: 124, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
122 1 0.01
123 123 0.99
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (123 bp):
TTAGCGGCGTTTTCATACAAACGCCACAATATGGTTCATATATAGTGGCATCGTTACAACAAACG
CCGCAATAGAAAGTAATTTAGTCATATTTTTATACAAACGCCGCAATAGATTGGTATG
Found at i:14573157 original size:42 final size:42
Alignment explanation
Indices: 14573076--14573317 Score: 271
Period size: 42 Copynumber: 5.8 Consensus size: 42
14573066 TTTATATTTG
* *
14573076 ACTTTAGTGGCGTTTTTGTT--CAAACGCCGCAATACTCATGT
1 ACTTTAGTGGCG-TTTTGTTAATAAACGCCGCAATAATCATGT
14573117 ACTTTAGTGGCGTTTTGTTAATAAACGCCGCAATAATCATGT
1 ACTTTAGTGGCGTTTTGTTAATAAACGCCGCAATAATCATGT
* * * *
14573159 AATTTAGTGGCGTTTTTGTT--CAAACGCCGTAATACTCATGT
1 ACTTTAGTGGCG-TTTTGTTAATAAACGCCGCAATAATCATGT
14573200 ACTTTAGTGGCGTTTTGTTAATAAACGCCGCAATAATCATGT
1 ACTTTAGTGGCGTTTTGTTAATAAACGCCGCAATAATCATGT
* * * * *
14573242 AATTTAGTGGCGTTTT-TGTAATAAACGCCACCATATTGATGT
1 ACTTTAGTGGCGTTTTGT-TAATAAACGCCGCAATAATCATGT
* * * *
14573284 TCTTTAGTGGCATTTT-TATTATAAACGCTGCAAT
1 ACTTTAGTGGCGTTTTGT-TAATAAACGCCGCAAT
14573318 TGTGCAATCC
Statistics
Matches: 172, Mismatches: 23, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
40 14 0.08
41 42 0.24
42 109 0.63
43 7 0.04
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (42 bp):
ACTTTAGTGGCGTTTTGTTAATAAACGCCGCAATAATCATGT
Found at i:14573217 original size:83 final size:83
Alignment explanation
Indices: 14573078--14573317 Score: 358
Period size: 83 Copynumber: 2.9 Consensus size: 83
14573068 TATATTTGAC
14573078 TTTAGTGGCGTTTTTGTTCAAACGCCGCAATACTCATGTACTTTAGTGGCGTTTTGTTAATAAAC
1 TTTAGTGGCGTTTTTGTTCAAACGCCGCAATACTCATGTACTTTAGTGGCGTTTTGTTAATAAAC
14573143 GCCGCAATAATCATGTAA
66 GCCGCAATAATCATGTAA
*
14573161 TTTAGTGGCGTTTTTGTTCAAACGCCGTAATACTCATGTACTTTAGTGGCGTTTTGTTAATAAAC
1 TTTAGTGGCGTTTTTGTTCAAACGCCGCAATACTCATGTACTTTAGTGGCGTTTTGTTAATAAAC
14573226 GCCGCAATAATCATGTAA
66 GCCGCAATAATCATGTAA
* * * * * * *
14573244 TTTAGTGGCGTTTTTGTAAT-AAACGCCACCATATTGATGTTCTTTAGTGGCATTTT-TATTATA
1 TTTAGTGGCGTTTTTGT--TCAAACGCCGCAATACTCATGTACTTTAGTGGCGTTTTGT-TAATA
*
14573307 AACGCTGCAAT
63 AACGCCGCAAT
14573318 TGTGCAATCC
Statistics
Matches: 144, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
83 100 0.69
84 43 0.30
85 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (83 bp):
TTTAGTGGCGTTTTTGTTCAAACGCCGCAATACTCATGTACTTTAGTGGCGTTTTGTTAATAAAC
GCCGCAATAATCATGTAA
Found at i:14575174 original size:20 final size:20
Alignment explanation
Indices: 14575149--14575219 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
14575139 TTCCTAATTT
*
14575149 GCAATGAGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
*
14575169 GCAATGCGATTACGTAAATC
1 GCAATGCGAATACGTAAATC
14575189 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
14575209 GCAATGCGAAT
1 GCAATGCGAAT
14575220 CTGACTATCG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (20 bp):
GCAATGCGAATACGTAAATC
Found at i:14575925 original size:20 final size:20
Alignment explanation
Indices: 14575900--14575949 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
14575890 TGCGATTCTT
14575900 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
14575920 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
14575940 GTGTTGCGAT
1 GCGTTGCGAT
14575950 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:14575955 original size:20 final size:20
Alignment explanation
Indices: 14575917--14575971 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
14575907 GATAGTCAAA
* **
14575917 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
14575937 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
14575957 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
14575972 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:14575979 original size:20 final size:20
Alignment explanation
Indices: 14575936--14575979 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
14575926 CGATAGTCAT
** *
14575936 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
14575956 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
14575976 TTTC
1 TTTC
14575980 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:14580266 original size:21 final size:21
Alignment explanation
Indices: 14580240--14580279 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14580230 CAGAACCCCA
*
14580240 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
14580261 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
14580280 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:14580314 original size:20 final size:21
Alignment explanation
Indices: 14580260--14580322 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
14580250 GATTCCCCTG
14580260 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
14580284 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
14580304 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
14580323 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:14586713 original size:20 final size:20
Alignment explanation
Indices: 14586664--14586807 Score: 183
Period size: 20 Copynumber: 7.5 Consensus size: 20
14586654 AGAATAGTTT
14586664 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* * *
14586684 ACTTTTGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
14586704 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
14586720 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
14586738 ACTATCACAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
14586758 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
14586778 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
14586798 ACTATCGCAA
1 ACTATCGCAA
14586808 CGAAAGAATC
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
14 7 0.07
16 4 0.04
17 4 0.04
18 4 0.04
20 88 0.82
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:14586823 original size:34 final size:38
Alignment explanation
Indices: 14586671--14586828 Score: 129
Period size: 40 Copynumber: 4.3 Consensus size: 38
14586661 TTTACTATCG
* * *
14586671 CAATGCGAAAATGACTTTTGCAACGCGAAAATGACTATCG
1 CAATGCGAAAATGACTATCGCAA-GCGAAAATGAC-ATCA
*
14586711 CAA--CG-AGA-GA--ATCGCAATGCGAAAATGACTATCA
1 CAATGCGAAAATGACTATCGCAA-GCGAAAATGAC-ATCA
*
14586745 CAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCG
1 CAATGCGAAAATGACTATCGCAA-GCGAAAATGAC-ATCA
**
14586785 CAATGCGAATTTGACTATCGCAA-CG-AAA-GA-ATCA
1 CAATGCGAAAATGACTATCGCAAGCGAAAATGACATCA
14586819 CAATGCGAAA
1 CAATGCGAAA
14586829 TGAAAATCGC
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
34 35 0.35
36 6 0.06
37 7 0.07
38 6 0.06
40 47 0.47
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (38 bp):
CAATGCGAAAATGACTATCGCAAGCGAAAATGACATCA
Found at i:14586883 original size:20 final size:20
Alignment explanation
Indices: 14586854--14586960 Score: 169
Period size: 20 Copynumber: 5.3 Consensus size: 20
14586844 GATTCTCTCG
**
14586854 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
14586874 TTGGGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
14586894 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
14586914 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
14586934 TTGCGATAGTCATTTTCTCG
1 TTGCGATAGTCATTTTCGCA
14586954 TTGCGAT
1 TTGCGAT
14586961 TTTAAGTTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:14588898 original size:14 final size:14
Alignment explanation
Indices: 14588879--14588914 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14588869 ATTGTTTAAT
14588879 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
14588893 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
14588907 TGATTTGT
1 TGATTTGT
14588915 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:14589037 original size:20 final size:20
Alignment explanation
Indices: 14589012--14589051 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14589002 ATGCAAAACA
*
14589012 GACTATCGCAACGCGAAAAT
1 GACTATCGCAACGAGAAAAT
14589032 GACTATCGCAACGAGAAAAT
1 GACTATCGCAACGAGAAAAT
14589052 CGCAATGCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (20 bp):
GACTATCGCAACGAGAAAAT
Found at i:14589073 original size:33 final size:33
Alignment explanation
Indices: 14589016--14589193 Score: 293
Period size: 33 Copynumber: 5.4 Consensus size: 33
14589006 AAAACAGACT
* ** **
14589016 ATCGCAACGCGAAAATGACTATCGCAACGAGAAA
1 ATCGCAATGCG-AAATGAAAATCGCAACGAGTGA
14589050 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
14589083 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
14589116 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
14589149 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
*
14589182 ATCGCATTGCGA
1 ATCGCAATGCGA
14589194 TTTTCTCGTT
Statistics
Matches: 138, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 128 0.93
34 10 0.07
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
Found at i:14589186 original size:14 final size:14
Alignment explanation
Indices: 14589068--14589187 Score: 78
Period size: 14 Copynumber: 7.5 Consensus size: 14
14589058 GCGAAATGAA
14589068 AATCGCAACGAGTG
1 AATCGCAACGAGTG
*
14589082 AATCGCAATGCGAAATG
1 AATCGCAA--CG-AGTG
14589099 AAAATCGCAACGAGTG
1 --AATCGCAACGAGTG
*
14589115 AATCGCAATGCGAAATG
1 AATCGCAA--CG-AGTG
14589132 AAAATCGCAACGAGTG
1 --AATCGCAACGAGTG
*
14589148 AATCGCAATGCGAAATG
1 AATCGCAA--CG-AGTG
14589165 AAAATCGCAACGAGTG
1 --AATCGCAACGAGTG
14589181 AATCGCA
1 AATCGCA
14589188 TTGCGATTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 30
0.70 0.05 0.25
Matches are distributed among these distances:
14 31 0.36
16 15 0.18
17 15 0.18
19 24 0.28
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (14 bp):
AATCGCAACGAGTG
Found at i:14589223 original size:20 final size:20
Alignment explanation
Indices: 14589200--14589284 Score: 127
Period size: 20 Copynumber: 4.2 Consensus size: 20
14589190 GCGATTTTCT
14589200 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
14589220 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
14589240 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
14589260 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
14589280 CGTTG
1 CGTTG
14589285 TGATTTCCGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 56 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:14591788 original size:24 final size:24
Alignment explanation
Indices: 14591737--14591788 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
14591727 ATCCAAGTAT
** *
14591737 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
14591761 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
14591785 TGAC
1 TGAC
14591789 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:14597777 original size:22 final size:22
Alignment explanation
Indices: 14597749--14597804 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
14597739 TGACCGACTG
14597749 GACTGAGCCGACCAATCGAG-C
1 GACTGAGCCGACCAATCGAGAC
** *
14597770 AGACTGAGCTAACCGATCGAGAC
1 -GACTGAGCCGACCAATCGAGAC
14597793 GAGCTGAGCCGA
1 GA-CTGAGCCGA
14597805 GTCGAGCCGC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.30, C:0.29, G:0.30, T:0.11
Consensus pattern (22 bp):
GACTGAGCCGACCAATCGAGAC
Found at i:14599398 original size:12 final size:12
Alignment explanation
Indices: 14599381--14599426 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
14599371 GAATGTTTTA
14599381 TCTGATTTCTGT
1 TCTGATTTCTGT
**
14599393 TCTGATTTCTAC
1 TCTGATTTCTGT
14599405 TCTGAATTT-TGT
1 TCTG-ATTTCTGT
14599417 TCTGATTTCT
1 TCTGATTTCT
14599427 ACTCTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 4 0.14
12 20 0.71
13 4 0.14
ACGTcount: A:0.13, C:0.17, G:0.13, T:0.57
Consensus pattern (12 bp):
TCTGATTTCTGT
Found at i:14599417 original size:24 final size:24
Alignment explanation
Indices: 14599381--14599441 Score: 97
Period size: 24 Copynumber: 2.5 Consensus size: 24
14599371 GAATGTTTTA
14599381 TCTG-ATTTCTGTTCTGATTTCTAC
1 TCTGAATTT-TGTTCTGATTTCTAC
14599405 TCTGAATTTTGTTCTGATTTCTAC
1 TCTGAATTTTGTTCTGATTTCTAC
*
14599429 TCTAAATTTTGTT
1 TCTGAATTTTGTT
14599442 ATGTTTTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 31 0.89
25 4 0.11
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.56
Consensus pattern (24 bp):
TCTGAATTTTGTTCTGATTTCTAC
Found at i:14602271 original size:12 final size:12
Alignment explanation
Indices: 14602254--14602322 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 12
14602244 ATGTTTTATT
*
14602254 TGATTTCTGTTA
1 TGATTTCTGTTC
**
14602266 TGATTTCTACTC
1 TGATTTCTGTTC
*
14602278 TGAATTCTGTTC
1 TGATTTCTGTTC
*
14602290 TGATTTCTACTT-
1 TGATTTCT-GTTC
*
14602302 TGAATTCTGTTC
1 TGATTTCTGTTC
14602314 TGATTTCTG
1 TGATTTCTG
14602323 ATATCTTCGT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.54
Consensus pattern (12 bp):
TGATTTCTGTTC
Found at i:14602293 original size:24 final size:24
Alignment explanation
Indices: 14602258--14602321 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
14602248 TTTATTTGAT
*
14602258 TTCTGTTATGATTTCTACTCTGAA
1 TTCTGTTCTGATTTCTACTCTGAA
*
14602282 TTCTGTTCTGATTTCTACTTTGAA
1 TTCTGTTCTGATTTCTACTCTGAA
14602306 TTCTGTTCTGATTTCT
1 TTCTGTTCTGATTTCT
14602322 GATATCTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.16, C:0.17, G:0.12, T:0.55
Consensus pattern (24 bp):
TTCTGTTCTGATTTCTACTCTGAA
Found at i:14604380 original size:31 final size:31
Alignment explanation
Indices: 14604345--14604420 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
14604335 AAGGTGACAT
** * *
14604345 TTGGGTAGGCTCTGCGACCTTGAGATTTTTC
1 TTGGGTAGGCTCTGCGACCCCGAGAATTGTC
* * *
14604376 TTGGGTAAGCCTCTGTGGCCCCGAGAATTGTC
1 TTGGGT-AGGCTCTGCGACCCCGAGAATTGTC
14604408 TTGGGTAGGCTCT
1 TTGGGTAGGCTCT
14604421 CAGGTTCCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
31 12 0.33
32 24 0.67
ACGTcount: A:0.13, C:0.21, G:0.32, T:0.34
Consensus pattern (31 bp):
TTGGGTAGGCTCTGCGACCCCGAGAATTGTC
Found at i:14609697 original size:20 final size:20
Alignment explanation
Indices: 14609657--14609695 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
14609647 CATTGGAAGA
14609657 ATTTATGGCCCCAACAAAAG
1 ATTTATGGCCCCAACAAAAG
*
14609677 ATTTCATGGCCTCAACAAA
1 ATTT-ATGGCCCCAACAAA
14609696 GAACTTGATG
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:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (20 bp):
ATTTATGGCCCCAACAAAAG
Done.