Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 73 of 349
Found at i:21442228 original size:15 final size:17
Alignment explanation
Indices: 21442199--21442246 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
21442189 AAGGAAGGTT
21442199 TTTACAAAGAGAGAGTG
1 TTTACAAAGAGAGAGTG
21442216 TTTACAAAGAGAGAGTG
1 TTTACAAAGAGAGAGTG
21442233 TTTACAAAGAGAGA
1 TTTACAAAGAGAGA
21442247 ATACTCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.27, T:0.23
Consensus pattern (17 bp):
TTTACAAAGAGAGAGTG
Found at i:21443979 original size:93 final size:93
Alignment explanation
Indices: 21443869--21444039 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
21443859 GCCCCTAAGT
* * * *
21443869 GAACTCAGACTCAACTCAACGAGCT-CGGGCGTTCGCATCCATAAGTGAATTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAG-TACGGACATTCGCATCCATAAGTGAACTCGGACACAACTCA
21443933 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
21443962 GAACTC-GAACTCAACTCAACGAGTACGGACATTCGCATCCATAGGTGAACTCGGACACAACTCA
1 GAACTCAG-ACTCAACTCAACGAGTACGGACATTCGCATCCATAAGTGAACTCGGACACAACTCA
21444026 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
21444040 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTACGGACATTCGCATCCATAAGTGAACTCGGACACAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21448934 original size:22 final size:21
Alignment explanation
Indices: 21448907--21448969 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
21448897 TAGTATTTGC
*
21448907 TATATAATATAATAACAATATA
1 TATATAAAATAATAA-AATATA
* * *
21448929 TTTATAAGAGAATAATAAT-TA
1 TATATAAAATAATAA-AATATA
21448950 TATATAAAATATATAAAATA
1 TATATAAAATA-ATAAAATA
21448970 AAAGTAGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 13 0.41
22 19 0.59
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (21 bp):
TATATAAAATAATAAAATATA
Found at i:21449203 original size:18 final size:18
Alignment explanation
Indices: 21449158--21449204 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
21449148 AATATGTAAT
21449158 ATACATATATATAAAAATA
1 ATACATA-ATATAAAAATA
21449177 ATA-AGTAATATAAAAATA
1 ATACA-TAATATAAAAATA
21449195 ATACATAATA
1 ATACATAATA
21449205 AATATTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
ATACATAATATAAAAATA
Found at i:21449306 original size:21 final size:18
Alignment explanation
Indices: 21449276--21449344 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 18
21449266 GTTTATATGT
*
21449276 AAAAATA-AT-ATGTATA
1 AAAAATATATAATATATA
21449292 AATAAATATATAATATATAA
1 AA-AAATATATAATATAT-A
21449312 AAAAATATAATAATACATATA
1 AAAAATAT-ATAAT--ATATA
21449333 AAAAATA-ATAAT
1 AAAAATATATAAT
21449345 TTTGAGAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
16 2 0.04
17 5 0.11
18 2 0.04
19 16 0.36
20 8 0.18
21 8 0.18
22 4 0.09
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (18 bp):
AAAAATATATAATATATA
Found at i:21449308 original size:17 final size:17
Alignment explanation
Indices: 21449288--21449323 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
21449278 AAATAATATG
21449288 TATAAATAAATATATAATA
1 TATAAA-AAA-ATATAATA
21449307 TATAAAAAAATATAATA
1 TATAAAAAAATATAATA
21449324 ATACATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 3 0.18
19 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAAAAATATAATA
Found at i:21449323 original size:24 final size:22
Alignment explanation
Indices: 21449291--21449343 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
21449281 TAATATGTAT
21449291 AAATAAATATATA-ATATATAAAA
1 AAATAAATA-ATACATATA-AAAA
21449314 AAATATAATAATACATATAAAAA
1 AAATA-AATAATACATATAAAAA
21449337 ATAATAA
1 A-AATAA
21449344 TTTTGAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATAAATAATACATATAAAAA
Found at i:21449343 original size:19 final size:19
Alignment explanation
Indices: 21449288--21449344 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
21449278 AAATAATATG
*
21449288 TATAAATAAATATATAATATA
1 TATAAA-AAATA-ATAATACA
*
21449309 TAAAAAAATATAATAATACA
1 TATAAAAA-ATAATAATACA
21449329 TATAAAAAATAATAAT
1 TATAAAAAATAATAAT
21449345 TTTGAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 8 0.25
20 16 0.50
21 8 0.25
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAAAAATAATAATACA
Found at i:21451456 original size:119 final size:118
Alignment explanation
Indices: 21451167--21451880 Score: 1011
Period size: 119 Copynumber: 6.0 Consensus size: 118
21451157 GGAGTCTGTT
* * **
21451167 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGTCA
1 TGAGAACATCTGAGAGTCAAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * * *
21451232 AATCATATTGGATCTGGCTTCATTATAAACATCTGAAGGTTAGATCTGCCATGTGTC
66 AATCATCTTGGATCT-GCTTCAGTATAAACATCTGAA-GTTAGATCTG-C-TATATC
*
21451289 TGAGAACATCTGAGAGTCAAATCTGCTATA-TCCTCGATTTGTTCCTTGTAAACACAAGAATACC
1 TGAGAACATCTGAGAGTCAAATCTGCTA-AGTCCTCGATTTGTTTCTTGTAAACACAAGAATACC
* *
21451353 AAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGTTTAGATCTACTATATC
65 AAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TTAGATCTGCTATATC
* * *
21451408 TGAGAACGTCTGAGAGTCAAATTTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACTA
1 TGAGAACATCTGAGAGTCAAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
** *
21451473 AATCATCTTGGATCTATTTCAGTATAAACATCTGAAGTTTAGATCTGTTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TTAGATCTGCTATATC
* *
21451527 TGAGAACGTCTAAGAGTCAAATCTGCTATA-TCCTCGATTTGTTTCTTGTAAACACAAGAATACC
1 TGAGAACATCTGAGAGTCAAATCTGCTA-AGTCCTCGATTTGTTTCTTGTAAACACAAGAATACC
*
21451591 AAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA-C
65 AAATCATCTTGGATCTGCTTCAGTATAAACATCTG-AAGTTAGATCTGCTATATC
** * * *
21451645 TGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTTTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * *
21451710 AATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATT
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTG-AAGTTAGATCTGCTATATC
* * *
21451764 TGAGAACATCAGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* *
21451829 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATTTGCTATA
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTG-AAGTTAGATCTGCTATA
21451881 CTGCGGCCTA
Statistics
Matches: 543, Mismatches: 42, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
118 112 0.21
119 325 0.60
120 6 0.01
121 27 0.05
122 73 0.13
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (118 bp):
TGAGAACATCTGAGAGTCAAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTTAGATCTGCTATATC
Found at i:21451782 original size:237 final size:237
Alignment explanation
Indices: 21451167--21451883 Score: 1089
Period size: 237 Copynumber: 3.0 Consensus size: 237
21451157 GGAGTCTGTT
* * **
21451167 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGTCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * * * * *
21451232 AATCATATTGGATCTGGCTTCATTATAAACATCTGAAGGTTAGATCTGCCATGTGTCTGAGAACA
66 AATCATCTTGGATCT-GTTTCAGTATAAACATCTGAAAGTTAGATCTGCTATAT-T-TGAGAACA
* *
21451297 TCTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
128 TCAGAGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCT
* * *
21451362 TGGATCTGCTTCAGTATAAATATCTG-AAGTTTAGATCTACTATATC
193 TGGATCTGCTTCAGTATAAACATCTGAAAG-CTAGATCTGCTATA-C
* * *
21451408 TGAGAACGTCTGAGAGTCAAATTTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACTA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * * *
21451473 AATCATCTTGGATCTATTTCAGTATAAACATCTG-AAGTTTAGATCTGTTATATCTGAGAACGTC
66 AATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAG-TTAGATCTGCTATATTTGAGAACATC
21451537 TA-AGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTT
130 -AGAGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTT
21451601 GGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATAC
194 GGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATAC
* * *
21451645 TGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTTTTTCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
*
21451710 AATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCA
66 AATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGTTAGATCTGCTATATTTGAGAACATCA
* *
21451775 GAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGG
131 GAGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGG
*
21451840 ATCTGCTTCAGTATAAACATCTGAAAGCTAGATTTGCTATAC
196 ATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATAC
21451882 TG
1 TG
21451884 CGGCCTATTA
Statistics
Matches: 435, Mismatches: 36, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
236 1 0.00
237 220 0.51
238 109 0.25
239 5 0.01
240 28 0.06
241 72 0.17
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (237 bp):
TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGTTAGATCTGCTATATTTGAGAACATCA
GAGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATAC
Found at i:21451824 original size:356 final size:360
Alignment explanation
Indices: 21451167--21451864 Score: 1073
Period size: 356 Copynumber: 1.9 Consensus size: 360
21451157 GGAGTCTGTT
* * **
21451167 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGTCA
1 TGAGAACATCTAAGAGTCAAATCTACTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * * * *
21451232 AATCATATTGGATCTGGCTTCATTATAAACATCTGAAGGTTAGATCTGCCATGTGTCTGAGAACA
66 AATCATATTGGATCTGGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATATGACTGAGAACA
*
21451297 TCTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
131 TCTGAGAGTCAAATCTGCTATATCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
* * * *
21451362 TGGATCTGCTTCAGTATAAATATCTGAAGTTTAGATCTACTATATCTGAGAACGTCTGAGAGTCA
196 TGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCTACTATATCTGAGAACATCAGAGAGTCA
* * *
21451427 AATTTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACTAAATCATCTTGGATCTATTT
261 AATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTACTT
21451492 CAGTATAAACATCTGAAGTTTAGATCTGTTATATC
326 CAGTATAAACATCTGAAGTTTAGATCTGTTATATC
* *
21451527 TGAGAACGTCTAAGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTAAGAGTCAAATCTACTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* **
21451592 AATCATCTTGGATCT-GCTTCAGTATAAACATCTGAAAGCTAGATCTG-C-TAT-ACTGAGAATG
66 AATCATATTGGATCTGGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATATGACTGAGAACA
* * *
21451653 TCTGAGAGTCAAATCTGCTATGTCCTCAATTTTTTTCTTGTAAACACAAGAATACCAAATCATCT
131 TCTGAGAGTCAAATCTGCTATATCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
* * *
21451718 TGGATCTGTTTCAGTATAAACATCTGAAAG-CTAGATCTGCTATATTTGAGAACATCAGAGAGTC
196 TGGATCTGCTTCAGTATAAACATCTG-AAGTCTAGATCTACTATATCTGAGAACATCAGAGAGTC
* * *
21451782 AAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCT
260 AAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTACT
21451847 TCAGTATAAACATCTGAA
325 TCAGTATAAACATCTGAA
21451865 AGCTAGATTT
Statistics
Matches: 306, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
356 198 0.65
357 5 0.02
358 1 0.00
359 29 0.09
360 73 0.24
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (360 bp):
TGAGAACATCTAAGAGTCAAATCTACTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATATTGGATCTGGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATATGACTGAGAACA
TCTGAGAGTCAAATCTGCTATATCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
TGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCTACTATATCTGAGAACATCAGAGAGTCA
AATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTACTT
CAGTATAAACATCTGAAGTTTAGATCTGTTATATC
Found at i:21463930 original size:18 final size:18
Alignment explanation
Indices: 21463885--21463931 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
21463875 AATATGTAAT
21463885 ATACATATATATAAAAATA
1 ATACATA-ATATAAAAATA
21463904 ATA-AGTAATATAAAAATA
1 ATACA-TAATATAAAAATA
21463922 ATACATAATA
1 ATACATAATA
21463932 AATATTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
ATACATAATATAAAAATA
Found at i:21464050 original size:40 final size:38
Alignment explanation
Indices: 21464006--21464099 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 38
21463996 TATATGTAAA
** *
21464006 AATAATATGTATAAATAAATATATAATATATGA-AAAATAT
1 AATAATAAATATAAAAAAATA-ATAAT-TATGAGAAAAT-T
*
21464046 AATAATAAATATAAAAAAATAATAATTTTGAGAAAATT
1 AATAATAAATATAAAAAAATAATAATTATGAGAAAATT
21464084 AATATATAAATTATAA
1 AATA-ATAAA-TATAA
21464100 TACATATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 9 0.19
39 15 0.32
40 23 0.49
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (38 bp):
AATAATAAATATAAAAAAATAATAATTATGAGAAAATT
Found at i:21464067 original size:20 final size:21
Alignment explanation
Indices: 21464006--21464071 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 21
21463996 TATATGTAAA
* *
21464006 AATAAT-ATGTATAAATAAAT
1 AATAATAATATATAAAAAAAT
*
21464026 -AT-ATAATATATGAAAAATAT
1 AATAATAATATAT-AAAAAAAT
21464046 AATAATAA-ATATAAAAAAAT
1 AATAATAATATATAAAAAAAT
21464066 AATAAT
1 AATAAT
21464072 TTTGAGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 2 0.05
19 7 0.18
20 19 0.50
21 6 0.16
22 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (21 bp):
AATAATAATATATAAAAAAAT
Found at i:21471626 original size:11 final size:10
Alignment explanation
Indices: 21471606--21471631 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
21471596 CTTGAGATTT
21471606 AAAAACAAAA
1 AAAAACAAAA
21471616 AAAAACAAAA
1 AAAAACAAAA
21471626 AAAAAC
1 AAAAAC
21471632 GGAGAGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:21472855 original size:210 final size:210
Alignment explanation
Indices: 21472487--21473289 Score: 972
Period size: 210 Copynumber: 3.8 Consensus size: 210
21472477 TAAGCCGCAG
* * *
21472487 CATAGTAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTT
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
* *
21472552 TGTATTCGGCTGGGGGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
66 TGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
* *
21472617 AATCTAAGATGATTTGTCGCCTCTGTATTGTTATAGAACAAATCGAAGTCTGACATTTCCCCTGT
131 AATCTAAGATGATTTGTAGCCTCTGTATTGTTATAGAACAAATCGAAGTCTGACATTTCCACTGT
21472682 GATGGAAGGCAGACA
196 GATGGAAGGCAGACA
*
21472697 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGTAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
* *
21472762 TGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCATGTGTTTACGATGAAGCA
66 TGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
* * * * *
21472827 AATCTAAGATAATTTGTAGCCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
131 AATCTAAGATGATTTGTAGCCTCTGTATTGTTATAGAACAAATCGAAGTCTGACATTTCCACTGT
*
21472892 GATGGAAGGCAGACG
196 GATGGAAGGCAGACA
21472907 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
** *
21472972 TGTATTCGGTGGGGAGCAGATCGAAGATATAGCTGATTTAACTTTCACGTG-TTACGATGAAGCA
66 TGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
* ** * *
21473036 AATCTAAGATGATTTGTCA-TCTCTGTATT-TTCAGT-GAACAAATCGAAGTCTGGTATCTCTAC
131 AATCTAAGATGATTTGT-AGCCTCTGTATTGTT-A-TAGAACAAATCGAAGTCTGACATTTCCAC
* * *
21473098 T-TCAATAG-AGAGCAGATA
193 TGT-GATGGAAG-GCAGACA
* * * ** ** *
21473116 CATAGCAGATCTGACCTTCAGACGATTA-GACTGAAATAAGATCCAAGATGATTTG-GC--ATC-
1 CATAGCAGATCTCACCTTCAGATGTTTACG-CTG-AAGCAGATCCAAGATGA-CAGATCTTATCT
* * * * * * * * *
21473176 CT-TGTGCTT--ACAAGGAGCAAATCGAAGACATAGCTAATTT-AGTTTTCACGTGCTTATGATG
63 CTCTGT-ATTCGGCAGGGAGCAGATCGAAGATATAGCTGATTTGA-CTTTCACGTGTTTACGATG
* * *
21473237 AAGCAAATCTAAGATGATTTGTCA-TCTCTGTATTGTCAGAGAACAAATCGAAG
126 AAGCAAATCTAAGATGATTTGT-AGCCTCTGTATTGTTATAGAACAAATCGAAG
21473290 AAGAAGATTT
Statistics
Matches: 527, Mismatches: 53, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
204 1 0.00
205 33 0.06
206 58 0.11
207 5 0.01
208 8 0.02
209 100 0.19
210 321 0.61
211 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (210 bp):
CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
TGTATTCGGCAGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
AATCTAAGATGATTTGTAGCCTCTGTATTGTTATAGAACAAATCGAAGTCTGACATTTCCACTGT
GATGGAAGGCAGACA
Found at i:21474893 original size:17 final size:16
Alignment explanation
Indices: 21474859--21474902 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
21474849 CCCTATATTC
*
21474859 ATTTTTTATTATATAT
1 ATTTTTTATTATAGAT
*
21474875 ATTTTTTATATGTAGAT
1 ATTTTTTAT-TATAGAT
21474892 ATTGTTTTATT
1 ATT-TTTTATT
21474903 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 9 0.38
18 6 0.25
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (16 bp):
ATTTTTTATTATAGAT
Found at i:21475752 original size:33 final size:31
Alignment explanation
Indices: 21475680--21475752 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
21475670 ATTGATATTG
*
21475680 TATTATT-C-TTTTTGTATGTCATGCATTAT
1 TATTATTACTTTTTTGTATATCATGCATTAT
*
21475709 T-TTATTACTTTTTTGTATATCATGTATTATT
1 TATTATTACTTTTTTGTATATCATGCATTA-T
21475740 TAATTATTACTTT
1 T-ATTATTACTTT
21475753 GTATGTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 5 0.14
29 2 0.05
30 18 0.49
31 2 0.05
33 10 0.27
ACGTcount: A:0.23, C:0.08, G:0.07, T:0.62
Consensus pattern (31 bp):
TATTATTACTTTTTTGTATATCATGCATTAT
Found at i:21477759 original size:15 final size:16
Alignment explanation
Indices: 21477739--21477771 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21477729 GACTATTAGT
*
21477739 TTTTTCTATTAA-TCC
1 TTTTTCTAATAATTCC
21477754 TTTTTCTAATAATTCC
1 TTTTTCTAATAATTCC
21477770 TT
1 TT
21477772 GATTTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTCTAATAATTCC
Found at i:21478802 original size:54 final size:53
Alignment explanation
Indices: 21478698--21478874 Score: 165
Period size: 54 Copynumber: 3.3 Consensus size: 53
21478688 AGATACTTTA
* ** * * * * * *
21478698 GTTTACCAAATTACTAAAATACCCCCCAGTTGTAAAATTACTTAAGTACCCCCG
1 GTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTA-TCAAATACCCTCG
* * * * **
21478752 GTATATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAATACCCTTA
1 GTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTATC-AAATACCCTCG
**
21478806 GTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCG
1 GTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTATCAAA-TACCCTCG
*
21478860 ATTTACAAAATTACC
1 GTTTACAAAATTACC
21478875 GTTTTACCCT
Statistics
Matches: 97, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
53 4 0.04
54 93 0.96
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (53 bp):
GTTTACAAAATTACCCAAATACCCTCGACTTGTAAAATTATCAAATACCCTCG
Found at i:21478842 original size:81 final size:81
Alignment explanation
Indices: 21478757--21478910 Score: 193
Period size: 81 Copynumber: 1.9 Consensus size: 81
21478747 CCCCGGTATA
* ** * *
21478757 TAAAATTACCCAAA-TATCCTCGATTTGTAAAATTATCGAAATACCCTTAGTTTACAAAATTACT
1 TAAAATTA-CCAAAGTACCCTCGATTTACAAAATTACCGAAATACCCTCAGTTTACAAAATTACT
21478821 GAAATACCCTCGACTTG
65 GAAATACCCTCGACTTG
* *** * *
21478838 TAAAATTATCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGGTTTACAAAATTATTG
1 TAAAATTACCAAAGTACCCTCGATTTACAAAATTACCGAAATACCCTCAGTTTACAAAATTACTG
21478903 AAATACCC
66 AAATACCC
21478911 CTGTATGGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 4 0.07
81 57 0.93
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (81 bp):
TAAAATTACCAAAGTACCCTCGATTTACAAAATTACCGAAATACCCTCAGTTTACAAAATTACTG
AAATACCCTCGACTTG
Found at i:21478909 original size:27 final size:27
Alignment explanation
Indices: 21478699--21478910 Score: 115
Period size: 27 Copynumber: 7.9 Consensus size: 27
21478689 GATACTTTAG
* * * *
21478699 TTTACCAAATTACTAAAATACCCCCCA
1 TTTACAAAATTACTGAAATACCCTCGA
* ** * * * *
21478726 GTTGTAAAATTACTTAAGTACCCCCGG
1 TTTACAAAATTACTGAAATACCCTCGA
* * ** *
21478753 TATATAAAATTACCCAAATATCCTCGA
1 TTTACAAAATTACTGAAATACCCTCGA
** *
21478780 TTTGTAAAATTA-TCGAAATACCCT-TA
1 TTTACAAAATTACT-GAAATACCCTCGA
21478806 GTTTACAAAATTACTGAAATACCCTCGA
1 -TTTACAAAATTACTGAAATACCCTCGA
* ** *
21478834 CTTGTAAAATTA-TCAAAGTACCCTCGA
1 TTTACAAAATTACTGAAA-TACCCTCGA
* *** *
21478861 TTTACAAAATTACCGTTTTACCCTCGG
1 TTTACAAAATTACTGAAATACCCTCGA
*
21478888 TTTACAAAATTATTGAAATACCC
1 TTTACAAAATTACTGAAATACCC
21478911 CTGTATGGTA
Statistics
Matches: 135, Mismatches: 44, Indels: 12
0.71 0.23 0.06
Matches are distributed among these distances:
26 5 0.04
27 128 0.95
28 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTCGA
Found at i:21478910 original size:54 final size:54
Alignment explanation
Indices: 21478758--21478910 Score: 130
Period size: 54 Copynumber: 2.8 Consensus size: 54
21478748 CCCGGTATAT
* * * ** * *
21478758 AAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAATACCCTTAGTTTAC
1 AAAATTACCGAAATACCCTCGACTTACAAAATTATTGAAATACCCTGAGTTTAC
* ** *
21478812 AAAATTACTGAAATACCCTCGACTTGTAAAATTA-TCAAAGTACCCTCGA-TTTAC
1 AAAATTACCGAAATACCCTCGACTTACAAAATTATTGAAA-TACCCT-GAGTTTAC
*** **
21478866 AAAATTACCGTTTTACCCTCGGTTTACAAAATTATTGAAATACCC
1 AAAATTACCGAAATACCCTCGACTTACAAAATTATTGAAATACCC
21478911 CTGTATGGTA
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
53 3 0.04
54 72 0.90
55 5 0.06
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (54 bp):
AAAATTACCGAAATACCCTCGACTTACAAAATTATTGAAATACCCTGAGTTTAC
Found at i:21478925 original size:27 final size:27
Alignment explanation
Indices: 21478902--21479602 Score: 893
Period size: 27 Copynumber: 26.0 Consensus size: 27
21478892 CAAAATTATT
* *
21478902 GAAATACCCCTGTATGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
21478929 GAAATACCCTTGTAGGGTAAAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
21478956 GAAATACCCTTGTAGGGTAAAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* **
21478983 GAAATACCCCTGTAGGGTAAAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
21479010 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
21479037 GAAATACCCTTGTAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
21479064 GAAATACCCTTATAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
21479091 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
21479118 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
21479145 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
21479172 GAAATACCCCTATAAGGTAGAAATAAC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
21479199 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
21479226 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
21479253 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
21479280 GAAATACCCCTAT-GGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
** * *
21479306 GAAATACCTTTGTAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
21479333 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
21479360 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
21479387 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
21479414 AAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
21479441 GAAATACCCTTGTAGGGTAGAAAT-CTC
1 GAAATACCCCTGTAGGGTAGAATTAC-C
* **
21479468 AAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
21479495 GAAATACCCCTGTAGGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
21479522 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
21479549 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
21479576 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
21479603 ATTTTGTCCC
Statistics
Matches: 603, Mismatches: 68, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
26 22 0.04
27 581 0.96
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:21480273 original size:25 final size:26
Alignment explanation
Indices: 21480245--21480327 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 26
21480235 CCACGTATTT
* *
21480245 TGTT-AAGTGGCTTTTCCACATTATC
1 TGTTCAAGTGGCTTTGCCACAATATC
**
21480270 TGTTCTGGTGGCTTTGCCACAATATC
1 TGTTCAAGTGGCTTTGCCACAATATC
** * * *
21480296 TGTATCTGGTGACTCTGTCACAATATC
1 TGT-TCAAGTGGCTTTGCCACAATATC
21480323 TGTTC
1 TGTTC
21480328 TGGCAGCCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
25 4 0.08
26 22 0.45
27 23 0.47
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (26 bp):
TGTTCAAGTGGCTTTGCCACAATATC
Found at i:21480284 original size:26 final size:26
Alignment explanation
Indices: 21480251--21480330 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 26
21480241 ATTTTGTTAA
*
21480251 GTGGCTTTTCCACATTATCTGTTCTG
1 GTGGCTTTTCCACAATATCTGTTCTG
*
21480277 GTGGCTTTGCCACAATATCTGTATCTG
1 GTGGCTTTTCCACAATATCTGT-TCTG
* *
21480304 GTGACTCTGT-CACAATATCTGTTCTG
1 GTGGCT-TTTCCACAATATCTGTTCTG
21480330 G
1 G
21480331 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 25 0.53
27 21 0.45
28 1 0.02
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (26 bp):
GTGGCTTTTCCACAATATCTGTTCTG
Found at i:21480317 original size:27 final size:26
Alignment explanation
Indices: 21480260--21480330 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 26
21480250 AGTGGCTTTT
* * *
21480260 CCACATTATCTGTTCTGGTGGCTTTG
1 CCACAATATCTGTTCTGGTGACTCTG
21480286 CCACAATATCTGTATCTGGTGACTCTG
1 CCACAATATCTGT-TCTGGTGACTCTG
*
21480313 TCACAATATCTGTTCTGG
1 CCACAATATCTGTTCTGG
21480331 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 17 0.43
27 23 0.57
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (26 bp):
CCACAATATCTGTTCTGGTGACTCTG
Found at i:21480457 original size:6 final size:6
Alignment explanation
Indices: 21480448--21480634 Score: 114
Period size: 6 Copynumber: 30.3 Consensus size: 6
21480438 TTGCATTCAT
* * *
21480448 ATTCTG ATTCTG ATCCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
21480498 ATTCTG ATTATG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * * *
21480547 ATTCCG -TTACCTA ATTCTG ATTTTG ATTCTG ATTTTG ATTTTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
21480597 ATTCTG ATTCTG ATTCTC ATTTTG ATTCTA ATTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT
21480635 AATGTTTCTT
Statistics
Matches: 138, Mismatches: 28, Indels: 30
0.70 0.14 0.15
Matches are distributed among these distances:
5 8 0.06
6 112 0.81
7 11 0.08
8 7 0.05
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:21480514 original size:25 final size:25
Alignment explanation
Indices: 21480448--21480515 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
21480438 TTGCATTCAT
* *
21480448 ATTCTGATTCTGATCCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTA
*
21480473 ATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTA
* *
21480498 ATTCTGATTATGGTTCTG
1 ATTCTGATTCTGATTCTG
21480516 ATTCTGATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTA
Found at i:21480543 original size:25 final size:25
Alignment explanation
Indices: 21480513--21480577 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
21480503 GATTATGGTT
*
21480513 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
* *
21480538 CTGATTCTGATTCCGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
21480563 CTGATTTTGATTCTG
1 CTGATTCTGATTCTG
21480578 ATTTTGATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:21480546 original size:62 final size:62
Alignment explanation
Indices: 21480448--21480613 Score: 260
Period size: 62 Copynumber: 2.7 Consensus size: 62
21480438 TTGCATTCAT
*
21480448 ATTCTGATTCTGATCCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTATG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTATG
* * *
21480510 GTTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCCGTTACCTAATTCTGATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTATG
* * * *
21480572 ATTCTGATTTTGATTTTGTCACCTGATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCT
21480614 CATTTTGATT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 94 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTATG
Found at i:21480579 original size:37 final size:37
Alignment explanation
Indices: 21480532--21480624 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
21480522 ATTCTGTTAC
* * *
21480532 CTGATACTGATTCTGATTCCGTTACCTAATTCTGATT
1 CTGATTCTGATTTTGATTCCGTCACCTAATTCTGATT
* ** *
21480569 TTGATTCTGATTTTGATTTTGTCACCTGATTCTGATT
1 CTGATTCTGATTTTGATTCCGTCACCTAATTCTGATT
*
21480606 CTGATTCTCATTTTGATTC
1 CTGATTCTGATTTTGATTC
21480625 TAATTCTGAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.49
Consensus pattern (37 bp):
CTGATTCTGATTTTGATTCCGTCACCTAATTCTGATT
Found at i:21480587 original size:18 final size:18
Alignment explanation
Indices: 21480471--21480634 Score: 75
Period size: 19 Copynumber: 8.9 Consensus size: 18
21480461 TCCTGTTACC
* *
21480471 TGATACTGATTCTGATTC
1 TGATTCTGATTCTGATTT
* *
21480489 TG-TTACCTAATTCTGATTA
1 TGATT--CTGATTCTGATTT
* *
21480508 TGGTTCTGATTCTGATTC
1 TGATTCTGATTCTGATTT
* *
21480526 TG-TTACCTGATACTGATTC
1 TGATT--CTGATTCTGATTT
* * *
21480545 TGATTCCG-TTACCTAATTC
1 TGATTCTGATT--CTGATTT
*
21480564 TGATTTTGATTCTGATTT
1 TGATTCTGATTCTGATTT
* * *
21480582 TGATTTTG-TCACCTGATTC
1 TGATTCTGAT--TCTGATTT
*
21480601 TGATTCTGATTCTCATTT
1 TGATTCTGATTCTGATTT
*
21480619 TGATTCTAATTCTGAT
1 TGATTCTGATTCTGAT
21480635 AATGTTTCTT
Statistics
Matches: 113, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
17 5 0.04
18 49 0.43
19 52 0.46
20 7 0.06
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (18 bp):
TGATTCTGATTCTGATTT
Found at i:21480619 original size:31 final size:31
Alignment explanation
Indices: 21480448--21480620 Score: 89
Period size: 31 Copynumber: 5.6 Consensus size: 31
21480438 TTGCATTCAT
* ** * *
21480448 ATTCTGATTCTGATCCTGTTACCTGATACTG
1 ATTCTGATTCTCATTTTGTAACCTGATTCTG
* *** * *
21480479 ATTCTGATTCT-GTTACCTAATTCTGATTATG
1 ATTCTGATTCTCATTTTGTAA-CCTGATTCTG
* * * * *
21480510 GTTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTCATTTTGTAACCTGATTCTG
* *** * *
21480541 ATTCTGATTC-CGTTACCTAATTCTGATTTTG
1 ATTCTGATTCTCATTTTGTAA-CCTGATTCTG
* * *
21480572 ATTCTGATTTTGATTTTGTCACCTGATTCTG
1 ATTCTGATTCTCATTTTGTAACCTGATTCTG
21480603 ATTCTGATTCTCATTTTG
1 ATTCTGATTCTCATTTTG
21480621 ATTCTAATTC
Statistics
Matches: 99, Mismatches: 39, Indels: 8
0.68 0.27 0.05
Matches are distributed among these distances:
30 7 0.07
31 84 0.85
32 8 0.08
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTCATTTTGTAACCTGATTCTG
Found at i:21483719 original size:11 final size:10
Alignment explanation
Indices: 21483704--21483762 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
21483694 TGCAAAATAC
21483704 TTATTATATT
1 TTATTATATT
21483714 CTTATTAT-TT
1 -TTATTATATT
21483724 TATATTATATT
1 T-TATTATATT
**
21483735 TCCTTATATT
1 TTATTATATT
21483745 TTATTCATATT
1 TTATT-ATATT
*
21483756 ATATTAT
1 TTATTAT
21483763 TATATATAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 1 0.03
10 20 0.50
11 19 0.47
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATTATATT
Found at i:21495057 original size:7 final size:7
Alignment explanation
Indices: 21495047--21495080 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
21495037 TTCGAAAATC
21495047 AAAAAA-
1 AAAAAAG
21495053 AAAAAAG
1 AAAAAAG
21495060 AAAAAAG
1 AAAAAAG
21495067 AAAAAAG
1 AAAAAAG
21495074 AGAAAAA
1 A-AAAAA
21495081 TGGAGACGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 15 0.58
8 5 0.19
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:21495072 original size:16 final size:15
Alignment explanation
Indices: 21495047--21495080 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
21495037 TTCGAAAATC
21495047 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
*
21495062 AAAAGAAAAAAGAGAA
1 AAAA-AAAAAAAAGAA
21495078 AAA
1 AAA
21495081 TGGAGACGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:21495905 original size:15 final size:14
Alignment explanation
Indices: 21495868--21495915 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
21495858 TTATTTCATG
21495868 TTATTATTT-ATTA
1 TTATTATTTAATTA
21495881 TATATT-TTTAAATTA
1 T-TATTATTT-AATTA
21495896 TTATTATTTACATTA
1 TTATTATTTA-ATTA
21495911 TTATT
1 TTATT
21495916 TATACTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.13
14 9 0.30
15 17 0.57
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTATTTAATTA
Found at i:21495919 original size:37 final size:37
Alignment explanation
Indices: 21495868--21495959 Score: 93
Period size: 37 Copynumber: 2.5 Consensus size: 37
21495858 TTATTTCATG
21495868 TTATTATT-TATTATATATTTTTAAAT-TATTAT-TAT
1 TTATTATTAT-TTATATATTTTTAAATGTATTATATAT
* **
21495903 TTACATTATTATTTATA-CTTTTTACTTGTATTATATAT
1 TT--ATTATTATTTATATATTTTTAAATGTATTATATAT
21495941 TTATTAATTATTTATATAT
1 TTATT-ATTATTTATATAT
21495960 ATTATATACA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
35 2 0.04
36 10 0.22
37 27 0.59
38 7 0.15
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (37 bp):
TTATTATTATTTATATATTTTTAAATGTATTATATAT
Found at i:21496045 original size:17 final size:16
Alignment explanation
Indices: 21496011--21496047 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
21496001 ATTATGTCAT
21496011 TTTTTATACTATTATA
1 TTTTTATACTATTATA
21496027 TTTTTAT-CTA-TATA
1 TTTTTATACTATTATA
*
21496041 TTATTAT
1 TTTTTAT
21496048 TATTAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.50
15 3 0.15
16 7 0.35
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTATACTATTATA
Found at i:21496448 original size:24 final size:24
Alignment explanation
Indices: 21496418--21496464 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
21496408 GCTCACTTTA
*
21496418 TTTTATAT-TTATATATATTAATCT
1 TTTTATATGTTAT-TATATAAATCT
21496442 TTTTATATGTTATTATATAAATC
1 TTTTATATGTTATTATATAAATC
21496465 ATTAGGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTATATGTTATTATATAAATCT
Found at i:21499746 original size:19 final size:19
Alignment explanation
Indices: 21499721--21499809 Score: 134
Period size: 17 Copynumber: 4.9 Consensus size: 19
21499711 ATAATCTGCA
21499721 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
21499740 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
21499759 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
21499776 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
21499794 ATGATA--CAATCTTAGA
1 ATGATATGCAATCTTAGA
21499810 AGATATGATT
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
17 26 0.40
18 16 0.25
19 23 0.35
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:21499791 original size:35 final size:36
Alignment explanation
Indices: 21499729--21499816 Score: 146
Period size: 35 Copynumber: 2.5 Consensus size: 36
21499719 CAATGATATG
*
21499729 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
21499765 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
21499800 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
21499817 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
33 3 0.06
34 3 0.06
35 29 0.58
36 15 0.30
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:21500359 original size:19 final size:19
Alignment explanation
Indices: 21500318--21500362 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
21500308 TTATAAATAT
* * *
21500318 ATTTTTTATTATATTTTAA
1 ATTTTTTATTAAATATCAA
*
21500337 ATTTTTTATTAAATATCAC
1 ATTTTTTATTAAATATCAA
21500356 ATTTTTT
1 ATTTTTT
21500363 TATATGCTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTTATTAAATATCAA
Found at i:21506017 original size:14 final size:14
Alignment explanation
Indices: 21506010--21506057 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
21506000 AAAAAAAGAG
21506010 AAAAAAA-AG-AAA
1 AAAAAAAGAGAAAA
*
21506022 AGAAAAAGAGAAAA
1 AAAAAAAGAGAAAA
*
21506036 AAATAAAGAGAAAA
1 AAAAAAAGAGAAAA
21506050 AAGAAAAA
1 AA-AAAAA
21506058 AAATGGAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 17 0.59
15 4 0.14
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (14 bp):
AAAAAAAGAGAAAA
Found at i:21506030 original size:22 final size:21
Alignment explanation
Indices: 21505998--21506060 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
21505988 CTTCTATTTC
21505998 AAAA-AAAAAGAGAAAAAAAA
1 AAAAGAAAAAGAGAAAAAAAA
21506018 GAAAAGAAAAAGAGAAAAAAATA
1 -AAAAGAAAAAGAGAAAAAAA-A
*
21506041 AAGAGAAAAA-AGAAAAAAAA
1 AAAAGAAAAAGAGAAAAAAAA
21506061 TGGAGAGGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
20 1 0.03
21 13 0.33
22 24 0.62
23 1 0.03
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAAGAGAAAAAAAA
Found at i:21506061 original size:22 final size:21
Alignment explanation
Indices: 21505998--21506061 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
21505988 CTTCTATTTC
*
21505998 AAAA-AAAAAGAGAAAAAAAAG
1 AAAAGAAAAA-AGAAAAAAAAT
21506019 AAAAG-AAAAAGAGAAAAAAAT
1 AAAAGAAAAAAGA-AAAAAAAT
21506040 AAAGAGAAAAAAGAAAAAAAAT
1 AAA-AGAAAAAAGAAAAAAAAT
21506062 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 3 0.08
21 18 0.47
22 10 0.26
23 7 0.18
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (21 bp):
AAAAGAAAAAAGAAAAAAAAT
Found at i:21506067 original size:22 final size:23
Alignment explanation
Indices: 21506001--21506067 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 23
21505991 CTATTTCAAA
* *
21506001 AAAAAAGAGAAAAAAAAGAAAAG
1 AAAAAAGAGAAAAAAATGAAGAG
*
21506024 -AAAAAGAGAAAAAAATAAAGAG
1 AAAAAAGAGAAAAAAATGAAGAG
*
21506046 AAAAAAGA-AAAAAAATGGAGAG
1 AAAAAAGAGAAAAAAATGAAGAG
21506068 GCCAATGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 31 0.82
23 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (23 bp):
AAAAAAGAGAAAAAAATGAAGAG
Found at i:21507070 original size:44 final size:44
Alignment explanation
Indices: 21506929--21507108 Score: 168
Period size: 44 Copynumber: 4.1 Consensus size: 44
21506919 CAAACAAACA
* ** *
21506929 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGC
* * * * * ** **
21506973 AGATCTGACATTCCTGTGCTTACAGCAAAGCAGATTGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATTGAAGATAGC
21507018 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TTGAAGATAGC
** *
21507061 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGC
21507105 AGAT
1 AGAT
21507109 CTAACCTTCA
Statistics
Matches: 106, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
42 2 0.02
43 13 0.12
44 77 0.73
45 13 0.12
46 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGC
Found at i:21507305 original size:119 final size:119
Alignment explanation
Indices: 21507094--21507693 Score: 1020
Period size: 119 Copynumber: 5.0 Consensus size: 119
21507084 AGGGAACAGA
* * *
21507094 TCAAAGATAGTAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
*
21507159 TTGTGTTTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAAACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTC
*
21507213 TCAAAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
*
21507278 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTC
*
21507332 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
*
21507397 TTGTGTTTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAAACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTC
** *
21507451 TCAAATATAATAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
* *
21507516 TTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTC
* *
21507570 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
* * * **
21507635 TTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAGTGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTC
21507689 TCAAA
1 TCAAA
21507694 CAGACTCAAA
Statistics
Matches: 456, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 456 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTC
Found at i:21507760 original size:83 final size:83
Alignment explanation
Indices: 21507617--21507909 Score: 448
Period size: 83 Copynumber: 3.5 Consensus size: 83
21507607 GAAGCAGATC
*
21507617 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAAAAATCGAGGACATTGCAGATATGACTCTCA
21507682 AGTGTTCTCAAACAGACT
66 AGTGTTCTCAAACAGACT
* *
21507700 CAAAATGGTTTGGCATCCTTGTGCTTACAAAGAAAAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAAAAATCGAGGACATTGCAGATATGACTCTCA
*
21507765 AATGTTCTCAAACAGACT
66 AGTGTTCTCAAACAGACT
*
21507783 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC-
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAAAAATCGAGGACATTGCAGATATGACTCTCA
21507847 AGATGTTCTCAAGA-AGA-T
66 AG-TGTTCTCAA-ACAGACT
* * *
21507865 CCAAGATGGTTTAGTATCCTTGTACTTACAAGGAATACAAATCGA
1 -CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAA-A-AAATCGA
21507910 AGATATAGCT
Statistics
Matches: 193, Mismatches: 12, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
82 2 0.01
83 183 0.95
84 1 0.01
85 7 0.04
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAAAAATCGAGGACATTGCAGATATGACTCTCA
AGTGTTCTCAAACAGACT
Found at i:21508490 original size:19 final size:19
Alignment explanation
Indices: 21508465--21508553 Score: 125
Period size: 17 Copynumber: 4.9 Consensus size: 19
21508455 ATAATATTCA
21508465 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
21508484 GTGATATGCAATTTTAGAT
1 ATGATATGCAATCTTAGAT
21508503 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
21508520 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
21508538 ATGATA--CAATCTTAGA
1 ATGATATGCAATCTTAGA
21508554 AGATATGATT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
17 25 0.40
18 16 0.25
19 22 0.35
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:21508536 original size:35 final size:36
Alignment explanation
Indices: 21508473--21508560 Score: 137
Period size: 35 Copynumber: 2.5 Consensus size: 36
21508463 CAATGATATG
* *
21508473 CAATCTTAGATGTGATATGCAATTTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
21508509 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
21508544 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
21508561 ATTTTGTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
33 3 0.06
34 3 0.06
35 28 0.57
36 15 0.31
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:21509105 original size:19 final size:19
Alignment explanation
Indices: 21509064--21509108 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
21509054 TTATAAATAT
* * *
21509064 ATTTTTTATTATATTTTAA
1 ATTTTTTATTAAATATCAA
*
21509083 ATTTTTTATTAAATATCAC
1 ATTTTTTATTAAATATCAA
21509102 ATTTTTT
1 ATTTTTT
21509109 TATATGCTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTTATTAAATATCAA
Found at i:21511029 original size:16 final size:17
Alignment explanation
Indices: 21511008--21511040 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21510998 CACATTGAAG
21511008 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
21511024 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
21511041 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:21511866 original size:28 final size:27
Alignment explanation
Indices: 21511816--21511929 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 27
21511806 CTATTCAGAA
*
21511816 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
21511843 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
* *
21511870 ATTACAATATCAGAGCATACTGGGCCTAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCTAGCCCAT
* *
21511904 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCC-TAGCCC
21511930 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 19 0.27
28 21 0.30
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:21511871 original size:62 final size:60
Alignment explanation
Indices: 21511793--21511937 Score: 177
Period size: 61 Copynumber: 2.4 Consensus size: 60
21511783 TCAAGCTTTA
* * *
21511793 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
* *
21511855 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
21511916 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
21511938 GTCGAGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 39 0.53
62 31 0.42
63 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:21512012 original size:19 final size:20
Alignment explanation
Indices: 21511958--21512012 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
21511948 ATTGGGTCTT
* *
21511958 GCCCATATTAACACAGTTAG
1 GCCCATATTAAAACAGCTAG
* *
21511978 GCCCATTTTAATACAGCT-G
1 GCCCATATTAAAACAGCTAG
*
21511997 GCCCATAATAAAACAG
1 GCCCATATTAAAACAG
21512013 TCTCATATGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (20 bp):
GCCCATATTAAAACAGCTAG
Found at i:21512333 original size:26 final size:26
Alignment explanation
Indices: 21512304--21512366 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
21512294 AAAATTAACC
*
21512304 CTAGGGGTATAACGGTCATTTTGCAT-
1 CTAGGGGTATAACGGTAATTTT-CATA
* *
21512330 CTAGGGGTAAAATGGTAATTTTCATA
1 CTAGGGGTATAACGGTAATTTTCATA
21512356 CTTAGGGGTAT
1 C-TAGGGGTAT
21512367 TTCAGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 20 0.65
27 8 0.26
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (26 bp):
CTAGGGGTATAACGGTAATTTTCATA
Found at i:21512628 original size:8 final size:8
Alignment explanation
Indices: 21512615--21512644 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
21512605 ACAAATGCCA
21512615 GCTTTTCG
1 GCTTTTCG
21512623 GCTTTTCG
1 GCTTTTCG
21512631 GCTTTTCG
1 GCTTTTCG
21512639 GCTTTT
1 GCTTTT
21512645 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.23, T:0.53
Consensus pattern (8 bp):
GCTTTTCG
Found at i:21515793 original size:16 final size:16
Alignment explanation
Indices: 21515760--21515792 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21515750 TATACAAATC
*
21515760 AAGGAATTATTAGAAA
1 AAGGAATTAATAGAAA
21515776 AAGG-ATTAATAGAAA
1 AAGGAATTAATAGAAA
21515791 AA
1 AA
21515793 ACTAATAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (16 bp):
AAGGAATTAATAGAAA
Found at i:21516638 original size:40 final size:40
Alignment explanation
Indices: 21516594--21516673 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
21516584 ACAAGGTGAT
21516594 AGATTAATTTTAGAAACAAATGCATCACAAAATTATTGGG
1 AGATTAATTTTAGAAACAAATGCATCACAAAATTATTGGG
* *
21516634 AGATTAATTTTAGAAATAGATGCATCACAAAATTATTGGG
1 AGATTAATTTTAGAAACAAATGCATCACAAAATTATTGGG
21516674 GATGTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (40 bp):
AGATTAATTTTAGAAACAAATGCATCACAAAATTATTGGG
Found at i:21518776 original size:72 final size:75
Alignment explanation
Indices: 21518673--21518817 Score: 188
Period size: 75 Copynumber: 2.0 Consensus size: 75
21518663 TTTTTTTTAA
* *
21518673 TTCTCATGTTTTCTTTGCATTTTCCAA-TTTTTCCTAGG-TTTTTTACAACTTCGATAGCTGGTA
1 TTCTCATGTTTTCTTTCCATTTTCCAATTTTTTCCTAGGTTTTTTTACAACTTCGATAGCTAGTA
21518736 AATGTTATTT
66 AATGTTATTT
* * * * *
21518746 TTCTC-TGTTTTCTTTCCAATTTTCGATTTTTTTTCTGGGTTTTTTTACAACTTTGATAGCTAGT
1 TTCTCATGTTTTCTTTCC-ATTTTCCAATTTTTTCCTAGGTTTTTTTACAACTTCGATAGCTAGT
*
21518810 AGATGTTA
65 AAATGTTA
21518818 ATTATTTGTA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
72 11 0.18
73 12 0.20
74 9 0.15
75 29 0.48
ACGTcount: A:0.18, C:0.15, G:0.13, T:0.54
Consensus pattern (75 bp):
TTCTCATGTTTTCTTTCCATTTTCCAATTTTTTCCTAGGTTTTTTTACAACTTCGATAGCTAGTA
AATGTTATTT
Found at i:21520892 original size:26 final size:27
Alignment explanation
Indices: 21520841--21520892 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
21520831 TTTTTTCATG
*
21520841 TTTTTGAATAACATAAAGAGCTATGAA
1 TTTTTGAATAACATAAAGAGCAATGAA
*
21520868 TTTTTGAATAACATAAA-ATCAATGA
1 TTTTTGAATAACATAAAGAGCAATGA
21520893 CTATGGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (27 bp):
TTTTTGAATAACATAAAGAGCAATGAA
Found at i:21521298 original size:13 final size:12
Alignment explanation
Indices: 21521275--21521337 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
21521265 AATAATTTTA
21521275 TATTAAAATTAT
1 TATTAAAATTAT
21521287 TATT-AAA-TAT
1 TATTAAAATTAT
21521297 TATTAATAATTA-
1 TATTAA-AATTAT
*
21521309 TATTAAGAA-TGT
1 TATTAA-AATTAT
21521321 TATT-AAATTAT
1 TATTAAAATTAT
21521332 ATATTA
1 -TATTA
21521338 TTTTATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 22 0.54
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:21521302 original size:22 final size:23
Alignment explanation
Indices: 21521275--21521337 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
21521265 AATAATTTTA
21521275 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
21521297 TATTAATAATTA-TATTAAGAATGT
1 TATTAA-AATTATTATT-AGAATAT
21521321 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
21521338 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.43
23 8 0.23
24 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:21521456 original size:25 final size:26
Alignment explanation
Indices: 21521407--21521457 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
21521397 ATTTTTATTT
*
21521407 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATATATAACAATAATC
*
21521433 TTATTAAAATTTA-ATAACAATAATC
1 TTATTAAAATATATATAACAATAATC
21521458 ATATACCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (26 bp):
TTATTAAAATATATATAACAATAATC
Found at i:21521573 original size:39 final size:40
Alignment explanation
Indices: 21521514--21521627 Score: 115
Period size: 44 Copynumber: 2.7 Consensus size: 40
21521504 TTTTTCCTTA
*
21521514 TACTATTACAACATCTATTCCATTCAACCAAACATAAT-AAT
1 TACTATTACAGC-TCTATTCCATTCAACCAAACA-AATGAAT
*
21521555 T-CTATTACAGCTCTATTCCATTCCATTCAACCAAACAATTGAAT
1 TACTATTACAGCTC---T--ATTCCATTCAACCAAACAAATGAAT
21521599 TACTGATTACAGCTCTATTCCATTACAAC
1 TACT-ATTACAGCTCTATTCCATT-CAAC
21521628 TCTATTCTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
39 2 0.03
40 9 0.15
41 9 0.15
42 5 0.08
43 3 0.05
44 22 0.35
45 2 0.03
46 10 0.16
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (40 bp):
TACTATTACAGCTCTATTCCATTCAACCAAACAAATGAAT
Found at i:21521581 original size:44 final size:46
Alignment explanation
Indices: 21521530--21521622 Score: 147
Period size: 44 Copynumber: 2.1 Consensus size: 46
21521520 TACAACATCT
21521530 ATTCCATTCAACCAAACATAAT-AATT-CT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-AATGAATTACTGATTACAGCTCTATTCC
*
21521574 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAAATGAATTACTGATTACAGCTCTATTCC
21521620 ATT
1 ATT
21521623 ACAACTCTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 2 0.04
44 22 0.49
45 2 0.04
46 19 0.42
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.34
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAATGAATTACTGATTACAGCTCTATTCC
Found at i:21521625 original size:16 final size:16
Alignment explanation
Indices: 21521604--21521674 Score: 72
Period size: 16 Copynumber: 4.4 Consensus size: 16
21521594 TGAATTACTG
21521604 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
21521620 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCC
* *
21521636 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCC
* *
21521652 ATTATAGAC-ATATTCC
1 ATTACAG-CTCTATTCC
21521668 ATTACAG
1 ATTACAG
21521675 TGAACCAAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
16 45 0.98
17 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:21521666 original size:32 final size:32
Alignment explanation
Indices: 21521604--21521674 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
21521594 TGAATTACTG
* * *
21521604 ATTACAGCTCTATTCCATTACAACTCTATTCT
1 ATTACAGCTCTATTCAATTACAACTATATTCC
* *
21521636 ATTATAGCTCTATTCAATTATAGAC-ATATTCC
1 ATTACAGCTCTATTCAATTACA-ACTATATTCC
21521668 ATTACAG
1 ATTACAG
21521675 TGAACCAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (32 bp):
ATTACAGCTCTATTCAATTACAACTATATTCC
Found at i:21526573 original size:21 final size:22
Alignment explanation
Indices: 21526540--21526584 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
21526530 ATCAATTCCA
*
21526540 TTACCATTATCATTATTAACAT
1 TTACCATTATCATTATCAACAT
*
21526562 TTACCA-TCTCATTATCAACAT
1 TTACCATTATCATTATCAACAT
21526583 TT
1 TT
21526585 TGCTCACCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (22 bp):
TTACCATTATCATTATCAACAT
Found at i:21530652 original size:20 final size:22
Alignment explanation
Indices: 21530605--21530652 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
21530595 GGCTAGAAAT
*
21530605 AAGTCCAAAAATAAAAATAATA
1 AAGTCCAAAAATAAAAATAACA
21530627 AA--CCAAAAA-AAAAA-AACA
1 AAGTCCAAAAATAAAAATAACA
21530645 AAGTCCAA
1 AAGTCCAA
21530653 GTTCAGTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.22
19 5 0.22
20 11 0.48
22 2 0.09
ACGTcount: A:0.71, C:0.15, G:0.04, T:0.10
Consensus pattern (22 bp):
AAGTCCAAAAATAAAAATAACA
Found at i:21530832 original size:35 final size:37
Alignment explanation
Indices: 21530761--21530858 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
21530751 ATAATCTTCA
21530761 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
21530799 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
21530834 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
21530859 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:21530858 original size:17 final size:19
Alignment explanation
Indices: 21530761--21530851 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
21530751 ATAATCTTCA
21530761 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
21530780 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
21530799 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
21530816 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
21530834 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
21530852 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:21530877 original size:22 final size:22
Alignment explanation
Indices: 21530761--21530874 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
21530751 ATAATCTTCA
21530761 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
21530780 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
21530799 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
21530816 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
21530834 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
21530856 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
21530875 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:21531163 original size:18 final size:17
Alignment explanation
Indices: 21531140--21531173 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21531130 TTTCCCTGAT
*
21531140 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
21531158 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
21531174 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:21533504 original size:3 final size:3
Alignment explanation
Indices: 21533496--21533520 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21533486 CGTATCATAT
21533496 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
21533521 CATATATTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21534265 original size:130 final size:132
Alignment explanation
Indices: 21534103--21534357 Score: 388
Period size: 130 Copynumber: 1.9 Consensus size: 132
21534093 AGACGAGATT
* * *
21534103 TGATGTTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAA
1 TGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGCTCAAA
* * *
21534168 ATAATCGAATATCACTTCAAAATTTCACTCATGTCTTTTAAAAATCCCTT-AAACGAAGGCGATA
66 ATAATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATCCCTTAAAACGAAGGCGATA
21534232 TG
131 TG
** * *
21534234 TGATATTTGGCAA-TCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTTAAA
1 TGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGCTCAAA
* *
21534298 ATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGG
66 ATAATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATCCCTTAAAACGAAGG
21534358 TAATACTTGG
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
130 90 0.81
131 21 0.19
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (132 bp):
TGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGCTCAAA
ATAATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATCCCTTAAAACGAAGGCGATA
TG
Found at i:21534455 original size:131 final size:131
Alignment explanation
Indices: 21534104--21534568 Score: 284
Period size: 131 Copynumber: 3.5 Consensus size: 131
21534094 GACGAGATTT
* * * * * * * *
21534104 GATGTTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAA
1 GATGTTTGACAATTCG-AGAATCGAGCCCTATCGTGCTGGGTTGCGATTTCTCATTTACTCAAAA
* * *** * * * *
21534169 TAATCGAATA-TCACTTCAAAATTTCACTCATGTCTT-TTAAAAATCCCTT--AAACGAAGGCGA
65 CAATCGAATATTC-CTTTAGGTTTTCACTCAGGT-TTACTAAAAA-CCTTTCAAAACGAAGGCAA
*
21534230 TATGT-
127 TCT-TC
* * * * * * * * ** *
21534235 GATATTTGGCAA-TCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTTAAAA
1 GATGTTTGACAATTCG-AGAATCGAGCCCTATCGTGCTGGGTTGCGATTTCTCATTTACTCAAAA
* * * * *** *
21534299 TAATCAAATATCCCTTCAAAATTTCACTCAGGTCTT-CTAAAAATCCTTT-AAAACGAAGGTAAT
65 CAATCGAATATTCCTTTAGGTTTTCACTCAGGT-TTACTAAAAA-CCTTTCAAAACGAAGGCAAT
21534362 ACTT-
128 -CTTC
* * * * *
21534366 GGTGTTTGACAATTCGAGAAT-TATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTATTCAAAA
1 GATGTTTGACAATTCGAGAATCGA-GCCCTATCGTGCTGGGTTGCGATTTCTCATTTACTCAAAA
* * * * * *
21534430 CAATCGAATATTCCTTTAGGTTTTCATTCATGTTTATTAAAAACCTTTCAAAATGAAGGCGATGT
65 CAATCGAATATTCCTTTAGGTTTTCACTCAGGTTTACTAAAAACCTTTCAAAACGAAGGCAATCT
21534495 TC
130 TC
* * * * * *
21534497 GATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGCTCAAAAC
1 GATGTTTGACAATTCGAGAATCGAGCCCTATCGTGCTGGGTTGCGATTTCTCATTTACTCAAAAC
21534562 AATCGAA
66 AATCGAA
21534569 GATCCCTTCG
Statistics
Matches: 271, Mismatches: 54, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
130 97 0.36
131 169 0.62
132 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (131 bp):
GATGTTTGACAATTCGAGAATCGAGCCCTATCGTGCTGGGTTGCGATTTCTCATTTACTCAAAAC
AATCGAATATTCCTTTAGGTTTTCACTCAGGTTTACTAAAAACCTTTCAAAACGAAGGCAATCTT
C
Found at i:21546476 original size:132 final size:132
Alignment explanation
Indices: 21546165--21547345 Score: 1777
Period size: 132 Copynumber: 8.9 Consensus size: 132
21546155 ATCCTACAGA
*
21546165 TCTTGTTTCCTTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
* *
21546230 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCAAAAAGTTATAGTGGAGTAGGCTGAAATTTT
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCC-TAAAGTTGTAGTGGAGTAGGCTGAAATTTT
21546295 AGG
130 AGG
* * * *
21546298 TCTTGTTTCCCTGGAGTTGCAGTAAAGCAAATCGAAGACGGTGAATCTTGGCTTCTTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
* * *
21546363 AATGAAGCAGATTTAAGTCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
21546428 GG
131 GG
* *
21546430 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAAACGGCGAATCTTGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
21546495 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
21546560 GG
131 GG
* * **
21546562 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAAATCAAAGACGACGAATCTTGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
* * *
21546627 AGTGAAACAGATTTAAGTCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
21546692 GG
131 GG
* * *** *
21546694 CCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGGAGACGACAAATCTTGGCTTTCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
* * * * * **
21546759 AGTGAGGTAGATTTAAGCTACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAGATTGCA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
*
21546824 GA
131 GG
* * * * * *
21546826 TCTTGTTTCCCTAAAATCGTAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
21546891 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
21546956 GG
131 GG
*
21546958 TCTTGTTTCCCTAAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
* * *
21547023 AGTGAAGCAGATTTAAGTCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
21547088 GG
131 GG
* * *** *
21547090 CCTTGTTTCCCTGAAGTTGCAGTGAAGCAAATCGAAGACGACAAATCTTGGCTTTCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
* * * * * **
21547155 AGTGAGGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGCTGTAGTGGAGTAGGTTGAGATTGCA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
*
21547220 GA
131 GG
* * * * * *
21547222 TCTTATTTCCCTGAAATAGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTTCTGAAGTTGC
1 TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
*
21547287 AGTGAAGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAA
66 AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAA
21547346 GATTGTAGAT
Statistics
Matches: 949, Mismatches: 99, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
132 857 0.90
133 92 0.10
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (132 bp):
TCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGC
AGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTA
GG
Found at i:21549619 original size:3 final size:3
Alignment explanation
Indices: 21549611--21549638 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
21549601 CGTATCATAT
21549611 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21549639 CATATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21551894 original size:9 final size:9
Alignment explanation
Indices: 21551877--21551913 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
21551867 TGAGTTTTCA
21551877 AATTCGAAT
1 AATTCGAAT
*
21551886 AACTCGAAT
1 AATTCGAAT
21551895 AATTCGAAT
1 AATTCGAAT
21551904 AATTCGAAT
1 AATTCGAAT
21551913 A
1 A
21551914 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21551996 original size:30 final size:31
Alignment explanation
Indices: 21551962--21552021 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
21551952 AAACCTTTTT
* *
21551962 ACTTTTCCCTCAAAACTTTTACT-CCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
21551992 ACTTTCCCCCCAAAACTTTTACTCCCTTCC
1 ACTTTCCCCCCAAAACTTTTACTCCCTTCC
21552022 ATCCCAACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.37
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
Found at i:21552289 original size:17 final size:17
Alignment explanation
Indices: 21552262--21552319 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
21552252 ACTCCCCCTA
*
21552262 TTTATTTCCCCTCAAACT
1 TTTATTTCCCC-AAAACT
21552280 TTTA-TTCCCCAAAACTT
1 TTTATTTCCCCAAAAC-T
*
21552297 TTTATTTTCCCCCTAAACT
1 TTTA-TTT-CCCCAAAACT
21552316 TTTA
1 TTTA
21552320 CTTCTCGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 4 0.12
17 11 0.32
18 4 0.12
19 7 0.21
20 8 0.24
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTATTTCCCCAAAACT
Found at i:21553105 original size:21 final size:21
Alignment explanation
Indices: 21553076--21553131 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
21553066 AACAGCGGTG
*
21553076 GCGGTGAGATTAGTTACTATA
1 GCGGTGAGATTAGATACTATA
* * * *
21553097 GCTGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTATA
21553118 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
21553132 AACAATGGTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.07, G:0.34, T:0.32
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTATA
Found at i:21557342 original size:26 final size:26
Alignment explanation
Indices: 21557286--21557392 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
21557276 TGAAATGCCC
21557286 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
21557311 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
21557337 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
21557363 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21557389 ATCA
1 ATCA
21557393 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 20 0.26
26 57 0.74
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21564338 original size:26 final size:26
Alignment explanation
Indices: 21564308--21564415 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
21564298 TGAAATGCCC
21564308 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21564334 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
21564360 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
21564386 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACCCATT
21564412 ATCA
1 ATCA
21564416 ATTTGTACTA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21565533 original size:24 final size:23
Alignment explanation
Indices: 21565482--21565534 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
21565472 TAATTTTTAC
21565482 ATTATATATATGTACCTTAAAAT
1 ATTATATATATGTACCTTAAAAT
* ** *
21565505 TTTATATACTATGTAGTTTAAACT
1 ATTATATA-TATGTACCTTAAAAT
21565529 ATTATA
1 ATTATA
21565535 CGTTAACTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (23 bp):
ATTATATATATGTACCTTAAAAT
Found at i:21572910 original size:13 final size:13
Alignment explanation
Indices: 21572892--21572925 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
21572882 ATTTACTCTG
21572892 AAGGAAAGTCGAC
1 AAGGAAAGTCGAC
21572905 AAGGAAAGTCGAC
1 AAGGAAAGTCGAC
*
21572918 AAGAAAAG
1 AAGGAAAG
21572926 GGGCTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.29, T:0.06
Consensus pattern (13 bp):
AAGGAAAGTCGAC
Found at i:21577811 original size:45 final size:45
Alignment explanation
Indices: 21577757--21578070 Score: 231
Period size: 45 Copynumber: 6.7 Consensus size: 45
21577747 TCAAAACAAG
* * * * *
21577757 TCTTATCTCCTTGAAGTTACAATGAAGTAGATTGAAGATAGTGAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGTCAA
* * * *
21577802 TCTTGTCTCCTTGAAGTTACAGTGGAGTAGATTGAAGCTGGAAGTTACAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGAT---AG-T-CAA
* * * *
21577852 GTCTTATCT-CTCTGAAGTTGCAGTGGAGTAAACTGAAGATAGTGAA
1 -TCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGATAGTCAA
* * * *
21577898 TCTTGTCTTCC-TGGAGTTACAGTGGAGCAGATTGAAGCTGGAAGTTACAA
1 TCTTATC-TCCTTGAAGTTGCAGTGGAGCAGATTGAAGAT---AG-T-CAA
*
21577948 GTCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGATAG-CGAA
1 -TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGTC-AA
* * *
21577994 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAAAG-CAGA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGTCA-A
* * * *
21578039 CCTTGTCTCCTTGAAGTTGCAATAGAGCAGAT
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGAT
21578071 CAAGTTACAA
Statistics
Matches: 219, Mismatches: 32, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
44 1 0.00
45 130 0.59
46 5 0.02
47 2 0.01
48 8 0.04
49 2 0.01
50 9 0.04
51 62 0.28
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGTCAA
Found at i:21577861 original size:96 final size:95
Alignment explanation
Indices: 21577752--21578030 Score: 398
Period size: 96 Copynumber: 2.9 Consensus size: 95
21577742 ATTGATCAAA
* * *
21577752 ACAAGTCTTATCTCCTTGAAGTTACAATGAAGTAGATTGAAGATAGTGAATCTTGTCTCCTTGAA
1 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTCTCC-TGAA
*
21577817 GTTACAGTGGAGTAGATTGAAGCTGGAAGTT
65 GTTACAGTGGAGCAGATTGAAGCTGGAAGTT
* * *
21577848 ACAAGTCTTATCT-CTCTGAAGTTGCAGTGGAGTAAACTGAAGATAGTGAATCTTGTCTTCCTGG
1 ACAAGTCTTATCTCCT-TGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTC-TCCTGA
21577912 AGTTACAGTGGAGCAGATTGAAGCTGGAAGTT
64 AGTTACAGTGGAGCAGATTGAAGCTGGAAGTT
* * * *
21577944 ACAAGTCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAA
1 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTCT-CCTGAA
* *
21578009 GTTGCAGTGGAGCAGAATGAAG
65 GTTACAGTGGAGCAGATTGAAG
21578031 AAAGCAGACC
Statistics
Matches: 163, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
95 3 0.02
96 156 0.96
97 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (95 bp):
ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTCTCCTGAAG
TTACAGTGGAGCAGATTGAAGCTGGAAGTT
Found at i:21577876 original size:51 final size:51
Alignment explanation
Indices: 21577813--21577985 Score: 182
Period size: 51 Copynumber: 3.5 Consensus size: 51
21577803 CTTGTCTCCT
*
21577813 TGAAGTTACAGTGGAGTAGATTGAAGCTGGAAGTTACAAGTCTTATCTCTC
1 TGAAGTTACAGTGGAGCAGATTGAAGCTGGAAGTTACAAGTCTTATCTCTC
* * * * * * *
21577864 TGAAGTTGCAGTGGAGTAAACTGAAGAT---AG-T-GAA-TCTTGTCT-TCC
1 TGAAGTTACAGTGGAGCAGATTGAAGCTGGAAGTTACAAGTCTTATCTCT-C
*
21577909 TGGAGTTACAGTGGAGCAGATTGAAGCTGGAAGTTACAAGTCTTATCTC-C
1 TGAAGTTACAGTGGAGCAGATTGAAGCTGGAAGTTACAAGTCTTATCTCTC
*
21577959 ATGAAGTTGCAGTGGAGCAGATTGAAG
1 -TGAAGTTACAGTGGAGCAGATTGAAG
21577986 ATAGCGAATC
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
44 1 0.01
45 30 0.31
46 2 0.02
47 1 0.01
48 4 0.04
49 1 0.01
50 3 0.03
51 55 0.57
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.29
Consensus pattern (51 bp):
TGAAGTTACAGTGGAGCAGATTGAAGCTGGAAGTTACAAGTCTTATCTCTC
Found at i:21578665 original size:18 final size:19
Alignment explanation
Indices: 21578621--21578657 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21578611 CCTGTAAAAG
*
21578621 AAAGCAAAAAAGAGAAACA
1 AAAGCAGAAAAGAGAAACA
21578640 AAAGCAGAAAA-AGAAACA
1 AAAGCAGAAAAGAGAAACA
21578658 GTAGCAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.73, C:0.11, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAGCAGAAAAGAGAAACA
Found at i:21578872 original size:20 final size:19
Alignment explanation
Indices: 21578830--21578873 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
21578820 AGTCTCGTTG
*
21578830 TTCTCTTTTTTTTTTTTAC
1 TTCTCTTTTTTATTTTTAC
21578849 TTCTCGTTTCTTTATTTTTA-
1 TTCTC-TTT-TTTATTTTTAC
21578869 TTCTC
1 TTCTC
21578874 AAATTAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 9 0.41
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (19 bp):
TTCTCTTTTTTATTTTTAC
Found at i:21583480 original size:30 final size:30
Alignment explanation
Indices: 21583396--21583480 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
21583386 ATAGTACATA
*
21583396 ATAT-TGTAATTAAATTAAATTAATTATTAT
1 ATATATGTAATTAAATTAAGTTAA-TATTAT
21583426 ATAATATG--ATTAAATTAAGTTAATATTAT
1 AT-ATATGTAATTAAATTAAGTTAATATTAT
21583455 ATATATGTAATTAAATTAAGTTAATA
1 ATATATGTAATTAAATTAAGTTAATA
21583481 GTAGAGCCCA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
28 5 0.10
29 8 0.16
30 33 0.66
31 2 0.04
32 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (30 bp):
ATATATGTAATTAAATTAAGTTAATATTAT
Found at i:21583602 original size:2 final size:2
Alignment explanation
Indices: 21583581--21583629 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
21583571 TTCCTTACTT
21583581 TA TA T- TA TA T- TA TA TA -A 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
21583620 TA TA T- TA TA T
1 TA TA TA TA TA T
21583630 TACAAGGTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
1 4 0.09
2 39 0.91
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:21586347 original size:22 final size:21
Alignment explanation
Indices: 21586321--21586381 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
21586311 ATTAAACCTC
21586321 CAAGATTACAAGATCATATCTT
1 CAAGATTAC-AGATCATATCTT
* *
21586343 CAAGATTGCATATCATATC-T
1 CAAGATTACAGATCATATCTT
* *
21586363 -AAGATTGCATATCATATCT
1 CAAGATTACAGATCATATCT
21586382 AAGATTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 18 0.50
20 1 0.03
21 9 0.25
22 8 0.22
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (21 bp):
CAAGATTACAGATCATATCTT
Found at i:21586368 original size:19 final size:19
Alignment explanation
Indices: 21586333--21586394 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
21586323 AGATTACAAG
21586333 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
21586354 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21586373 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21586392 ATC
1 ATC
21586395 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
20 1 0.02
21 8 0.20
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:21586534 original size:7 final size:7
Alignment explanation
Indices: 21586517--21586545 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
21586507 TTGGACTTTG
21586517 TTTTA-T
1 TTTTATT
21586523 TTTTATT
1 TTTTATT
21586530 TTTTATT
1 TTTTATT
21586537 TTTTATT
1 TTTTATT
21586544 TT
1 TT
21586546 AGTTTAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:21586807 original size:12 final size:11
Alignment explanation
Indices: 21586789--21586815 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21586779 AGAAGAGAAT
21586789 GAAAAAAAAAA
1 GAAAAAAAAAA
21586800 GAAAAAAAAAA
1 GAAAAAAAAAA
21586811 GAAAA
1 GAAAA
21586816 GTTAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:21590398 original size:19 final size:19
Alignment explanation
Indices: 21590358--21590400 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
21590348 TACATGACCT
*
21590358 ACATAATATACATTATAGA
1 ACATAATATACATTATACA
*
21590377 ACATAATATGATATT-TACA
1 ACATAATAT-ACATTATACA
21590396 ACATA
1 ACATA
21590401 TAAAACTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (19 bp):
ACATAATATACATTATACA
Found at i:21592700 original size:43 final size:43
Alignment explanation
Indices: 21592639--21592841 Score: 144
Period size: 43 Copynumber: 4.7 Consensus size: 43
21592629 TGCCCTCGAT
* * *
21592639 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTTGAATTTAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
* * ** * **
21592682 CTGTTACCTTTCTGCTTAGGGATTTAAGGTCTGTAAATTTGGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
* * *
21592725 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATC-GCT---TTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAG---ATCTG-TAAATTTAAC
* * * *
21592769 CTATTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATCTTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA--TTTAAC
* *
21592814 CTGTTACCCTACGGCTTAGGGAGTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
21592842 GCTTGGTGGT
Statistics
Matches: 119, Mismatches: 30, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
40 4 0.03
41 1 0.01
43 56 0.47
44 28 0.24
45 26 0.22
46 1 0.01
47 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
Found at i:21592754 original size:130 final size:131
Alignment explanation
Indices: 21592593--21592842 Score: 340
Period size: 130 Copynumber: 1.9 Consensus size: 131
21592583 ATGAACGTCA
* * * *
21592593 GCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTACTGCTTAG
1 GCTTGTTACCCTACTGCTTAGGGAGTTAAAGCCCATCGCCCTCGATCTATTTCCCTACTGCTTAG
* * * * * * *
21592658 GGGGTTAAGATCTTTGAA-TTTAACCTGTTACCTTTCTGCTTAGGGATTTAAGGTCTGTAAATTT
66 GGGGCTAAGATCTGTAAACTTTAACCTGTTACCCTACGGCTTAGGGAGTTAAGGTCTGTAAATTT
21592722 G
131 G
* ** *
21592723 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTTAG
1 GCTTGTTACCCTACTGCTTAGGGAGTTAAAGCCCATCGCCCTCGATCTATTTCCCTACTGCTTAG
*
21592788 GGGGCTAAGATCTGTAAATCTTTAGCCTGTTACCCTACGGCTTAGGGAGTTAAGG
66 GGGGCTAAGATCTGTAAA-CTTTAACCTGTTACCCTACGGCTTAGGGAGTTAAGG
21592843 CTTGGTGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
130 72 0.71
132 30 0.29
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (131 bp):
GCTTGTTACCCTACTGCTTAGGGAGTTAAAGCCCATCGCCCTCGATCTATTTCCCTACTGCTTAG
GGGGCTAAGATCTGTAAACTTTAACCTGTTACCCTACGGCTTAGGGAGTTAAGGTCTGTAAATTT
G
Found at i:21592988 original size:354 final size:354
Alignment explanation
Indices: 21592325--21593217 Score: 1678
Period size: 354 Copynumber: 2.5 Consensus size: 354
21592315 TATAATTTTC
* * ** *
21592325 AACCTATTACCCTACTGCTTAGGGGGTTAAGGTCTGTAAATTTGGCTTGCTACCCTACTGCTTAG
1 AACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTTAG
*
21592390 GGGGTTAAAGCCCATCGTTTTTGATCTATTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATCT
66 GGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATCT
21592455 TTAGCCTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACT
131 TTAGCCTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACT
* *
21592520 TCAGGAAGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTGCTTAGGGTGATAAGATCTTAT
196 TCAGGAAGGCAAGATTCGCTATCTTTTGATCTGCTTCCCCACTGCTTAGGGTGATAAGATCTTAT
21592585 GAACGTCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTA
261 GAACGTCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTA
*
21592650 CTGCTTAGGGGGTTAAGATCTTTGAATTT
326 CTGCTTAGGGGGTTAAGATCTGTGAATTT
*
21592679 AACCTGTTACCTTTCTGCTTAGGGATTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTTAG
1 AACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTTAG
21592744 GGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATCT
66 GGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATCT
*
21592809 TTAGCCTGTTACCCTACGGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACT
131 TTAGCCTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACT
21592874 TCAGGAAGGCAAGATTCGCTATCTTTTGATCTGCTTCCCCACTGCTTAGGGTGATAAGATCTTAT
196 TCAGGAAGGCAAGATTCGCTATCTTTTGATCTGCTTCCCCACTGCTTAGGGTGATAAGATCTTAT
21592939 GAACGTCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTA
261 GAACGTCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTA
21593004 CTGCTTAGGGGGTTAAGATCTGTGAATTT
326 CTGCTTAGGGGGTTAAGATCTGTGAATTT
*
21593033 AACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGTTTGTTACCCTACTGCTTAG
1 AACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTTAG
21593098 GGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATCT
66 GGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATCT
21593163 TTAGCCTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTT
131 TTAGCCTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTT
21593218 TTAGGAACAT
Statistics
Matches: 525, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
354 525 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.35
Consensus pattern (354 bp):
AACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTTAG
GGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATCT
TTAGCCTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACT
TCAGGAAGGCAAGATTCGCTATCTTTTGATCTGCTTCCCCACTGCTTAGGGTGATAAGATCTTAT
GAACGTCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTA
CTGCTTAGGGGGTTAAGATCTGTGAATTT
Found at i:21593054 original size:43 final size:43
Alignment explanation
Indices: 21592993--21593195 Score: 162
Period size: 43 Copynumber: 4.7 Consensus size: 43
21592983 TGCCCTCGAT
* *
21592993 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTGAATTTAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
* ** * ***
21593036 CTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
* * *
21593079 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATC-GCT---TTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAG---ATCTG-TAAATTTAAC
* * * *
21593123 CTATTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATCTTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA--TTTAAC
*
21593168 CTGTTACCCTACTGCTTAGGGAGTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
21593196 GCTTGGTGGT
Statistics
Matches: 123, Mismatches: 26, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
40 4 0.03
41 1 0.01
43 58 0.47
44 29 0.24
45 27 0.22
46 1 0.01
47 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
Found at i:21593097 original size:130 final size:131
Alignment explanation
Indices: 21592949--21593196 Score: 363
Period size: 130 Copynumber: 1.9 Consensus size: 131
21592939 GAACGTCAGC
* * * *
21592949 TTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTACTGCTTAGGG
1 TTGTTACCCTACTGCTTAGGGAGTTAAAGCCCATCGCCCTCGATCTATTTCCCTACTGCTTAGGG
* * * *
21593014 GGTTAAGATCTGTGAA-TTTAACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAATTTGG
66 GGCTAAGATCTGTAAACTTTAACCTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTAAATTTGG
21593078 T
131 T
* ** *
21593079 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTTAGGG
1 TTGTTACCCTACTGCTTAGGGAGTTAAAGCCCATCGCCCTCGATCTATTTCCCTACTGCTTAGGG
*
21593144 GGCTAAGATCTGTAAATCTTTAGCCTGTTACCCTACTGCTTAGGGAGTTAAGG
66 GGCTAAGATCTGTAAA-CTTTAACCTGTTACCCTACTGCTTAGGGAGTTAAGG
21593197 CTTGGTGGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
130 71 0.69
132 32 0.31
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (131 bp):
TTGTTACCCTACTGCTTAGGGAGTTAAAGCCCATCGCCCTCGATCTATTTCCCTACTGCTTAGGG
GGCTAAGATCTGTAAACTTTAACCTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTAAATTTGG
T
Found at i:21607025 original size:26 final size:26
Alignment explanation
Indices: 21606989--21607124 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
21606979 TGATACAAAT
*
21606989 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
21607015 TGATAATAGGTTAGTTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21607041 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21607067 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21607093 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21607119 TGATAA
1 TGATAA
21607125 GAATTTCATG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21611749 original size:19 final size:19
Alignment explanation
Indices: 21611709--21611751 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
21611699 TACATGACCT
*
21611709 ACATAATATACATTATAGA
1 ACATAATATACATTATACA
*
21611728 ACATAATATGATATT-TACA
1 ACATAATAT-ACATTATACA
21611747 ACATA
1 ACATA
21611752 TAAAACTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (19 bp):
ACATAATATACATTATACA
Found at i:21612113 original size:20 final size:19
Alignment explanation
Indices: 21612088--21612129 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
21612078 AGTATTAATT
*
21612088 TAAAATGGGCTAAATAATAA
1 TAAAATAGGCTAAA-AATAA
*
21612108 TAAAATATGCTAAAAATAA
1 TAAAATAGGCTAAAAATAA
21612127 TAA
1 TAA
21612130 TACAAGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.26
Consensus pattern (19 bp):
TAAAATAGGCTAAAAATAA
Found at i:21615511 original size:10 final size:9
Alignment explanation
Indices: 21615498--21615619 Score: 75
Period size: 9 Copynumber: 12.4 Consensus size: 9
21615488 TCTTAATATA
21615498 TTTTATAACT
1 TTTTATAA-T
21615508 TTTTAAATAAT
1 TTTT--ATAAT
* *
21615519 TTTTACATT
1 TTTTATAAT
21615528 TTTATATAAT
1 TTT-TATAAT
21615538 TTTATAATAAT
1 TTT-T-ATAAT
*
21615549 TTTTAAAATT
1 TTTTATAA-T
*
21615559 TTTTGTAAT
1 TTTTATAAT
**
21615568 TTTTATCCT
1 TTTTATAAT
21615577 TTTTATAAT
1 TTTTATAAT
21615586 TTTT-TATAT
1 TTTTATA-AT
21615595 GTTTATATAAT
1 -TTT-TATAAT
*
21615606 ATTTTACAAT
1 -TTTTATAAT
21615616 TTTT
1 TTTT
21615620 TATGACATTT
Statistics
Matches: 89, Mismatches: 14, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
8 2 0.02
9 33 0.37
10 29 0.33
11 19 0.21
12 6 0.07
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:21615549 original size:30 final size:28
Alignment explanation
Indices: 21615475--21615622 Score: 111
Period size: 30 Copynumber: 4.9 Consensus size: 28
21615465 TTATTGTACT
* *
21615475 TTTTATATTAATATCTTAATATATTTTATAA
1 TTTTATA-TAAT-TTTTAA-ATTTTTTATAA
* *
21615506 CTTTTTAAATAATTTTTACATTTTTATATAA
1 --TTTTATATAATTTTTAAATTTTT-TATAA
*
21615537 TTTTATAATAATTTTTAAAATTTTTTGTAA
1 TTTTAT-ATAATTTTT-AAATTTTTTATAA
**
21615567 TTTT-TATCCTTTTTATAATTTTTTAT-A
1 TTTTATATAATTTTTA-AATTTTTTATAA
21615594 TGTTTATATAATATTTTACAATTTTTTAT
1 T-TTTATATAAT-TTTTA-AATTTTTTAT
21615623 GACATTTTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
27 3 0.03
28 19 0.20
29 10 0.11
30 37 0.39
31 16 0.17
32 4 0.04
33 6 0.06
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTTATATAATTTTTAAATTTTTTATAA
Found at i:21615553 original size:22 final size:20
Alignment explanation
Indices: 21615525--21615621 Score: 58
Period size: 19 Copynumber: 4.8 Consensus size: 20
21615515 TAATTTTTAC
21615525 ATTTTTATATAATTTTATAATA
1 ATTTTTATA-AATTTT-TAATA
**
21615547 ATTTTTA-AAATTTTTTGTA
1 ATTTTTATAAATTTTTAATA
**
21615566 ATTTTTAT-CCTTTTT-ATA
1 ATTTTTATAAATTTTTAATA
* *
21615584 ATTTTT-TATATGTTTATATA
1 ATTTTTATAAATTTTTA-ATA
* *
21615604 ATATTTTACAATTTTTTA
1 AT-TTTTATAAATTTTTA
21615622 TGACATTTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
17 1 0.02
18 12 0.21
19 15 0.26
20 11 0.19
21 5 0.09
22 13 0.23
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTTATAAATTTTTAATA
Found at i:21615620 original size:10 final size:10
Alignment explanation
Indices: 21615498--21615632 Score: 75
Period size: 10 Copynumber: 13.4 Consensus size: 10
21615488 TCTTAATATA
*
21615498 TTTTATAACT
1 TTTTATAATT
21615508 TTTTA-AATAAT
1 TTTTATAAT--T
*
21615519 TTTTA-CATT
1 TTTTATAATT
21615528 TTTATATAATT
1 TTT-TATAATT
*
21615539 TTATAATAA-T
1 TT-TTATAATT
*
21615549 TTTTAAAATT
1 TTTTATAATT
*
21615559 TTTTGTAA-T
1 TTTTATAATT
**
21615568 TTTTAT-CCT
1 TTTTATAATT
21615577 TTTTATAATT
1 TTTTATAATT
21615587 TTTTAT-ATGT
1 TTTTATAAT-T
* *
21615597 TTATATAATA
1 TTTTATAATT
*
21615607 TTTTACAATT
1 TTTTATAATT
21615617 TTTTATGACATT
1 TTTTAT-A-ATT
21615629 TTTT
1 TTTT
21615633 TTATACAAAT
Statistics
Matches: 95, Mismatches: 18, Indels: 22
0.70 0.13 0.16
Matches are distributed among these distances:
9 25 0.26
10 42 0.44
11 20 0.21
12 8 0.08
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:21617327 original size:14 final size:15
Alignment explanation
Indices: 21617310--21617338 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21617300 GAGTATGGTA
21617310 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
21617324 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
21617339 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:21619123 original size:118 final size:114
Alignment explanation
Indices: 21618777--21619125 Score: 366
Period size: 111 Copynumber: 3.0 Consensus size: 114
21618767 TAATTAAGAA
* * * *
21618777 TTTCTTTGCACTTCTCAGCAACAGTTGGCTGTTGCTATTCATTTGTTGTTTTTCTGGCAACTAAT
1 TTTC-TTGCACTTCTCTGCAACTGCT-GCTGTTGCTATTCATTTGTTGTTTTTC-GGCAACT-GT
** * * * * *
21618842 GGTTGCTGCTATTTTGCTATTCAATTGCTAGTTGCTGTTATTCAATTGCTGTT
62 GACTGCTGCTATTTTGCTATTCAATTGTTGGCTGCTGCTATTCAATTGTTGTT
* * * * * *
21618895 TTTCTTGGCACTTCACTGCAACTACTGACTGCTACAATTCATTTGTTGTTTTTC--C-A--GTAA
1 TTTCTT-GCACTTCTCTGCAACTGCTG-CTGTTGCTATTCATTTGTTGTTTTTCGGCAACTGTGA
*
21618955 CTGCTGCTATTTTTCTATTCAATTGTTGGCTGCTGCTATTCAATTGTTGTT
64 CTGCTGCTATTTTGCTATTCAATTGTTGGCTGCTGCTATTCAATTGTTGTT
21619006 TTTCTTGACACTTCTCTGCAACTGCTAGCTGTTGCTATTCATTTGTTGTTTTTCGGGCAACTGTT
1 TTTCTTG-CACTTCTCTGCAACTGCT-GCTGTTGCTATTCATTTGTTGTTTTTC-GGCAACTG-T
* * * * *
21619071 GCCAGCTGCTATTTTGCTATTCAATTGTTGGCTACTACTATCCAATTGTTGTT
62 GACTGCTGCTATTTTGCTATTCAATTGTTGGCTGCTGCTATTCAATTGTTGTT
21619124 TT
1 TT
21619126 AAGATAAGTT
Statistics
Matches: 190, Mismatches: 30, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
110 1 0.01
111 90 0.47
112 1 0.01
114 2 0.01
115 2 0.01
117 4 0.02
118 90 0.47
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (114 bp):
TTTCTTGCACTTCTCTGCAACTGCTGCTGTTGCTATTCATTTGTTGTTTTTCGGCAACTGTGACT
GCTGCTATTTTGCTATTCAATTGTTGGCTGCTGCTATTCAATTGTTGTT
Found at i:21622563 original size:50 final size:51
Alignment explanation
Indices: 21622504--21622599 Score: 142
Period size: 50 Copynumber: 1.9 Consensus size: 51
21622494 TTCAAAAAAG
* *
21622504 TTCTCAAAAAGAAAA-CACTTATATATAATACGCATTT-TTTTGTGTGTAAA
1 TTCT-AAAAAAAAAAGCACTCATATATAATACGCATTTGTTTTGTGTGTAAA
*
21622554 TTCTAAAAAAAAAAGCACTCATATATAATATGCATTTGTTTTGTGT
1 TTCTAAAAAAAAAAGCACTCATATATAATACGCATTTGTTTTGTGT
21622600 ATCTCTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
49 9 0.22
50 24 0.59
51 8 0.20
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (51 bp):
TTCTAAAAAAAAAAGCACTCATATATAATACGCATTTGTTTTGTGTGTAAA
Found at i:21625886 original size:13 final size:13
Alignment explanation
Indices: 21625868--21625895 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21625858 GGGCTATTTA
21625868 TTGTTTTTGTTTT
1 TTGTTTTTGTTTT
21625881 TTGTTTTTGTTTT
1 TTGTTTTTGTTTT
21625894 TT
1 TT
21625896 TATCTTTATT
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:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (13 bp):
TTGTTTTTGTTTT
Found at i:21633350 original size:10 final size:9
Alignment explanation
Indices: 21633333--21633371 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
21633323 AAATCAAAAT
21633333 AAAAAAAGA
1 AAAAAAAGA
21633342 AATAAAAAGA
1 AA-AAAAAGA
**
21633352 AAAAAAATC
1 AAAAAAAGA
21633361 AAAAAAAGA
1 AAAAAAAGA
21633370 AA
1 AA
21633372 GAAAGAATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.85, C:0.03, G:0.08, T:0.05
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:21633391 original size:20 final size:18
Alignment explanation
Indices: 21633319--21633382 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
21633309 TTGAGACATT
21633319 AAAAAAATCAAAATAAA-A
1 AAAAAAATCAAAA-AAAGA
*
21633337 AAAGAAAT---AAAAAGA
1 AAAAAAATCAAAAAAAGA
21633352 AAAAAAATCAAAAAAAGA
1 AAAAAAATCAAAAAAAGA
21633370 AAGAAAGAATCAA
1 AA-AAA-AATCAA
21633383 TCAAAGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 3 0.08
15 10 0.26
18 16 0.42
19 3 0.08
20 6 0.16
ACGTcount: A:0.80, C:0.05, G:0.08, T:0.08
Consensus pattern (18 bp):
AAAAAAATCAAAAAAAGA
Done.