Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 198 of 250
Found at i:61865391 original size:21 final size:20
Alignment explanation
Indices: 61865367--61865405 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
61865357 ATCATATTGG
*
61865367 GAGAACAGATGTTATCCTAAA
1 GAGAACA-ATGATATCCTAAA
*
61865388 GAGATCAATGATATCCTA
1 GAGAACAATGATATCCTA
61865406 TGAGGGTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (20 bp):
GAGAACAATGATATCCTAAA
Found at i:61868516 original size:3 final size:3
Alignment explanation
Indices: 61868492--61868542 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
61868482 TGTCTAACAC
* *
61868492 TAT TAT TTT TAT T-T T-T TA- TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
61868537 ATAT TA
1 -TAT TA
61868543 GTGTATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.15
3 32 0.78
4 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:61868733 original size:3 final size:3
Alignment explanation
Indices: 61868727--61868772 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
61868717 TGTATTTCAA
* * *
61868727 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAG TAT ATAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
61868773 ATATGTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:61868875 original size:3 final size:3
Alignment explanation
Indices: 61868867--61868907 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
61868857 TGTATTTTAA
*
61868867 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
61868908 GTGTATATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:61869035 original size:143 final size:140
Alignment explanation
Indices: 61868618--61869546 Score: 970
Period size: 142 Copynumber: 6.5 Consensus size: 140
61868608 CTTTCTTTTA
* * *
61868618 ATAT-TTTTGTTATATATGTATATGTATTTATATTTATACATAGTATTATTTTTTAATTACTTTA
1 ATATGTTTTATTATATATGTATA--TATATATATTTATATATAGTATTA-TTTTTAATTACTTTA
* * * *
61868682 TTTTAATATTTTTATTATATTATATTTGCTTTTTTTGTATTTCA--A-TATTATTACTATTATTA
63 TTTTAATATTATTATTATATTATATTT-ATTTTTTTGTATTTCATTATTATTGTTAGTATTATTA
*
61868744 TTATTATTATTAGT
127 TTATTAATATTAGT
* * * *
61868758 ATATATTTTTATTATATATGTATATGTATTTATACTTATACATAGTATTATTTTTTAATTACTTT
1 ATAT-GTTTTATTATATATGTATA--TATATATATTTATATATAGTATTA-TTTTTAATTACTTT
* * * * * * *
61868823 ATTTTAATATTTTTATTATATTACATTTGCTTTTTGTATTTTAATATTATTATTATTATTATTAT
62 ATTTTAATATTATTATTATATT--ATAT--TTATT-T-TTTT-GTATT-TCATTATTATTGTTAG
61868888 TATTATTATTATTAATATTAGT
119 TATTATTATTATTAATATTAGT
* * * * *
61868910 GTATATTCTTATTATATACATGTGTATATATATATTTATATATAATACTATTTTTAATTACTTTA
1 ATATGTT-TTATTATAT--ATGTATATATATATATTTATATATAGTATTATTTTTAATTACTTTA
*
61868975 TTTTAATATTATTATTATATTATGTTTATTTTTTTGTATTTCATTATTATT-TCTAGTATTATTA
63 TTTTAATATTATTATTATATTATATTTATTTTTTTGTATTTCATTATTATTGT-TAGTATTATTA
61869039 TTATTAATATTAGT
127 TTATTAATATTAGT
*
61869053 ATATGTTTTATTATATATGTATATATATATATATATATATTTATA-TAGTATTTTTTAATTACTT
1 ATATGTTTTATTATATATGTATATATATATAT-T-TATA--TATAGTATTA-TTTTTAATTACTT
* * *
61869117 TATTTTAATAATATTATTATATTATATTTA-CTTTTTGTATTTCATTACTATTGTTAGCATTATT
61 TATTTTAATATTATTATTATATTATATTTATTTTTTTGTATTTCATTATTATTGTTAG---TATT
*
61869181 ATCATTATTAATATTAGT
123 ATTATTATTAATATTAGT
* * *
61869199 GTATGTTTTTATTATATAGGTATATATATATTTTTATATATAGTATTATTTTTAATTACTTTATT
1 ATATG-TTTTATTATATATGTATATATATATATTTATATATAGTATTATTTTTAATTACTTTATT
* * *
61869264 TT-A-A-TATTATTATATCATGTTTATGTTTTTTGTATTTCATTATTATT-TCTATTATTATTAT
65 TTAATATTATTATTATATTATATTTAT-TTTTTTGTATTTCATTATTATTGT-TAGTATTATTAT
*
61869325 TATTATTATTAGT
128 TATTAATATTAGT
* *
61869338 ATATGTTTTATTATATA--T-TGTATATATATTTATATATAGCATT-TTTTTAATTACTTTATTT
1 ATATGTTTTATTATATATGTATATATATATATTTATATATAGTATTATTTTTAATTACTTTATTT
* *
61869399 TAATAATATTATTATATTATATTTACTTTTTTTTGTATTTCATTACTATTGTTAGTATTATTATC
66 TAATATTATTATTATATTATATTTA--TTTTTTTGTATTTCATTATTATTGTTAGTATTA-T-T-
61869464 ATTATTAATATTAGT
126 ATTATTAATATTAGT
* * *
61869479 GTATG---T-TT-T-TAT-TATATGTGTATA--TATATATAGTATTATTTTTAATTACTTTATTT
1 ATATGTTTTATTATATATGTATATATATATATTTATATATAGTATTATTTTTAATTACTTTATTT
61869535 TAATATTATTAT
66 TAATATTATTAT
61869547 ATTATATGCC
Statistics
Matches: 689, Mismatches: 57, Indels: 90
0.82 0.07 0.11
Matches are distributed among these distances:
134 19 0.03
135 37 0.05
136 33 0.05
137 26 0.04
138 41 0.06
139 27 0.04
140 37 0.05
141 21 0.03
142 116 0.17
143 89 0.13
144 57 0.08
145 10 0.01
146 30 0.04
147 33 0.05
148 4 0.01
149 5 0.01
151 38 0.06
152 60 0.09
154 6 0.01
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (140 bp):
ATATGTTTTATTATATATGTATATATATATATTTATATATAGTATTATTTTTAATTACTTTATTT
TAATATTATTATTATATTATATTTATTTTTTTGTATTTCATTATTATTGTTAGTATTATTATTAT
TAATATTAGT
Found at i:61869077 original size:2 final size:2
Alignment explanation
Indices: 61869064--61869099 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
61869054 TATGTTTTAT
* *
61869064 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61869100 GTATTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:61869248 original size:18 final size:16
Alignment explanation
Indices: 61869219--61869252 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
61869209 ATTATATAGG
61869219 TATATATATATTTTTA
1 TATATATATATTTTTA
61869235 TATATAGTATTATTTTTA
1 TATATA-TA-TATTTTTA
61869253 ATTACTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TATATATATATTTTTA
Found at i:61869319 original size:12 final size:12
Alignment explanation
Indices: 61869296--61869334 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
61869286 ATGTTTTTTG
61869296 TATTTC-ATTAT
1 TATTTCTATTAT
61869307 TATTTCTATTAT
1 TATTTCTATTAT
61869319 TATTAT-TATTAT
1 TATT-TCTATTAT
61869331 TATT
1 TATT
61869335 AGTATATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 6 0.23
12 19 0.73
13 1 0.04
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTCTATTAT
Found at i:61869351 original size:3 final size:3
Alignment explanation
Indices: 61869302--61869335 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
61869292 TTTGTATTTC
61869302 ATT ATT ATT -TCT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT A
61869336 GTATATGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.03
3 27 0.93
4 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:61869373 original size:21 final size:22
Alignment explanation
Indices: 61869319--61869375 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
61869309 TTTCTATTAT
61869319 TATTATTATTAT-TATTAGTATA
1 TATT-TTATTATATATTAGTATA
*
61869341 TGTTTTATTATATATT-GTATA
1 TATTTTATTATATATTAGTATA
61869362 TATATTTA-TATATA
1 TAT-TTTATTATATA
61869376 GCATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
TATTTTATTATATATTAGTATA
Found at i:61869507 original size:280 final size:283
Alignment explanation
Indices: 61868621--61869551 Score: 1170
Period size: 280 Copynumber: 3.3 Consensus size: 283
61868611 TCTTTTAATA
* * *
61868621 TTTTTGTTATATA-TGTATATGTATTTATATTTATACATAGTATTATTTTTTAATTACTTTATTT
1 TTTTTATTATATAGTGTATA--TATATATATTTATATATAGTATTA-TTTTTAATTACTTTATTT
* * * *
61868685 TAATATTTTTATTATATTATATTTGCTTTTTTTGTATTTCAATATTATTACTATTATTATTATTA
63 TAATA---TTATTATATTATGTTT-ATTTTTTTGTATTTCATTATTATTTCTATTATTATTATTA
* * *
61868750 TTATTAGTA-TATAT-TTTTATTATATA-TGTATATGTATTTATACTTATACATAGTATTATTTT
124 TTATTATTAGTATATGTTTTATTATATATTGTATA--TA--TATA-TTATATATAGTAGTATTTT
* * * * * *
61868812 TTAATTACTTTATTTTAATATTTTTATTATATTACATTTGCTTTTTGTATTTTAATATT-ATTAT
184 TTAATTACTTTATTTTAATAATATTATTATATTATATTTACTTTTT-T-TTGT-AT-TTCATTAC
* * * *
61868876 TATTATTATTATTATTATTATTATTAATATTAGTGTATA
245 TATTGTTAGTATTATTATCATTATTAATATTAGTGTATG
* * * * *
61868915 TTCTTATTATATACATGTGTATATATATATTTATATATAATACTATTTTTAATTACTTTATTTTA
1 TTTTTATTATATA-GTGTATATATATATATTTATATATAGTATTATTTTTAATTACTTTATTTT-
*
61868980 ATATTATTATTATATTATGTTTATTTTTTTGTATTTCATTATTATTTCTAGTATTATTATTATTA
64 A-A-TATTATTATATTATGTTTATTTTTTTGTATTTCATTATTATTTCTATTATTATTATTATTA
* * *
61869045 ATATTAGTATATGTTTTATTATATATGTATATATATATATATATATATTTATATAGTATTTTTTA
127 TTATTAGTATATGTTTTATTATATAT-TGTATATATATAT-TATATA--TA-GTAGTATTTTTTA
61869110 ATTACTTTATTTTAATAATATTATTATATTATATTTAC---TTTTTGTATTTCATTACTATTGTT
187 ATTACTTTATTTTAATAATATTATTATATTATATTTACTTTTTTTTGTATTTCATTACTATTGTT
*
61869172 AGCATTATTATCATTATTAATATTAGTGTATG
252 AGTATTATTATCATTATTAATATTAGTGTATG
*
61869204 TTTTTATTATATAG-GTATATATATATTTTTATATATAGTATTATTTTTAATTACTTTATTTTAA
1 TTTTTATTATATAGTGTATATATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAA
*
61869268 TATTATTATATCATGTTTATGTTTTTTGTATTTCATTATTATTTCTATTATTATTATTATTATTA
66 TATTATTATATTATGTTTAT-TTTTTTGTATTTCATTATTATTTCTATTATTATTATTATTATTA
*
61869333 TTAGTATATGTTTTATTATATATTGTATATATAT-TTATATATAGCA-T-TTTTTTAATTACTTT
130 TTAGTATATGTTTTATTATATATTGTATATATATATTATATATAGTAGTATTTTTTAATTACTTT
61869395 ATTTTAATAATATTATTATATTATATTTACTTTTTTTTGTATTTCATTACTATTGTTAGTATTAT
195 ATTTTAATAATATTATTATATTATATTTACTTTTTTTTGTATTTCATTACTATTGTTAGTATTAT
61869460 TATCATTATTAATATTAGTGTATG
260 TATCATTATTAATATTAGTGTATG
61869484 TTTTTATTATAT-GTG--------TATA--TATATATAGTATTATTTTTAATTACTTTATTTTAA
1 TTTTTATTATATAGTGTATATATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAA
61869538 TATTATTATATTAT
66 TATTATTATATTAT
61869552 ATGCCTTCCT
Statistics
Matches: 574, Mismatches: 44, Indels: 62
0.84 0.06 0.09
Matches are distributed among these distances:
270 48 0.08
272 3 0.01
277 45 0.08
278 1 0.00
279 2 0.00
280 70 0.12
282 6 0.01
283 1 0.00
284 29 0.05
285 66 0.11
286 1 0.00
287 44 0.08
288 2 0.00
289 52 0.09
290 3 0.01
291 2 0.00
292 54 0.09
293 39 0.07
294 48 0.08
295 46 0.08
296 12 0.02
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (283 bp):
TTTTTATTATATAGTGTATATATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAA
TATTATTATATTATGTTTATTTTTTTGTATTTCATTATTATTTCTATTATTATTATTATTATTAT
TAGTATATGTTTTATTATATATTGTATATATATATTATATATAGTAGTATTTTTTAATTACTTTA
TTTTAATAATATTATTATATTATATTTACTTTTTTTTGTATTTCATTACTATTGTTAGTATTATT
ATCATTATTAATATTAGTGTATG
Found at i:61869612 original size:280 final size:273
Alignment explanation
Indices: 61868652--61869612 Score: 856
Period size: 295 Copynumber: 3.4 Consensus size: 273
61868642 TATTTATATT
* *
61868652 TATACATAGTATTATTTTTTAATTACTTTATTTTAATATT-TT-TATTATAT-TATATTTGCTT-
1 TATATATAGTATTA-TTTTTAATTACTTTATTTTAATATTATTATATTATATGTTTATTT--TTG
* * * * * *
61868713 TTTT-TGTATTTCAATATTATTACTATTATTA-TT--ATTATTATTAGTATATATTTTTATTATA
63 TTTTATTTATTT-ATTGTT-TTATTATTATAATTTAGATTATTATTAGTATAT-GTTTTATTATA
* * *
61868774 TATGTATATGTATTTATACTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTAT
125 TATGTATA--TA--TAT--TTATATATAGTA-T-TTTTTTAATTACTTTATTTTAATAATATTAT
* * * * * * *
61868839 TATATTACATTTGCTTTTTGTATTTTAATATT-ATTATTATTATTATTATTATTATTATTATTAA
182 TATATTATATTTACTTTTT-T-TTGT-AT-TTCATTACTATTGTTAGTATTATTATCATTATTAA
* *
61868903 TATTAGTGTATATTCTTATTATATACATGTGTATATA
243 TATTAGTGTAT-GT-TT-TTAT-TATATGTG--TATA
*
61868940 TATATTTATATATAATACTATTTTTAATTACTTTATTTTAATATTATTAT-TATATTATGTTTAT
1 TATA--TATA-GT-AT--TATTTTTAATTACTTTATTTTAATATTATTATAT-TA-TATGTTTAT
* * * * *
61869004 TTTT-TTGTATTTCA-TTATTATTTCTAGTATTATTA-TT--ATTAATATTAGTATATGTTTTAT
58 TTTTGTTTTATTT-ATTTATTGTTT-TATTATTATAATTTAGATTATTATTAGTATATGTTTTAT
*
61869064 TATATATGTATATATATATATATATATATTTATATAGTATTTTTTAATTACTTTATTTTAATAAT
121 TATATATG--TATATATAT-T-TATATA--TA-GTA-T-TTTTTTAATTACTTTATTTTAATAAT
*
61869129 ATTATTATATTATATTTAC---TTTTTGTATTTCATTACTATTGTTAGCATTATTATCATTATTA
177 ATTATTATATTATATTTACTTTTTTTTGTATTTCATTACTATTGTTAGTATTATTATCATTATTA
*
61869191 ATATTAGTGTATGTTTTTATTATATAGGTATATATATA
242 ATATTAGTGTATGTTTTTATTATAT--G----TGTATA
*
61869229 TTTTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATA-T-CATGTTTATGTTT
1 ----TATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATGTTTAT-TTT
* * *
61869292 T-TTGTATTTCA-TTATTATTTCTATTATTATTA-TT--ATTATTATTAGTATATGTTTTATTAT
61 TGTTTTATTT-ATTTATTGTTT-TATTATTATAATTTAGATTATTATTAGTATATGTTTTATTAT
*
61869352 ATATTGTATATATATTTATATATAGCATTTTTTTAATTACTTTATTTTAATAATATTATTATATT
124 ATA-TGTATATATATTTATATATAGTATTTTTTTAATTACTTTATTTTAATAATATTATTATATT
61869417 ATATTTACTTTTTTTTGTATTTCATTACTATTGTTAGTATTATTATCATTATTAATATTAGTGTA
188 ATATTTACTTTTTTTTGTATTTCATTACTATTGTTAGTATTATTATCATTATTAATATTAGTGTA
61869482 TGTTTTTATTATATGTGTATA
253 TGTTTTTATTATATGTGTATA
**
61869503 TATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATGCCTTCCTTTTTGT
1 TATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATG--TTTATTTTTGT
61869568 GTTTATTTATTTATTGTTTTATTATTAACTAATTTAGCATTATTA
64 -TTTATTTATTTATTGTTTTATTATT-A-TAATTTAG-ATTATTA
61869613 ATTATTATTG
Statistics
Matches: 583, Mismatches: 40, Indels: 108
0.80 0.05 0.15
Matches are distributed among these distances:
270 45 0.08
271 1 0.00
272 3 0.01
273 4 0.01
274 17 0.03
275 15 0.03
276 2 0.00
277 47 0.08
278 2 0.00
279 1 0.00
280 76 0.13
282 6 0.01
283 1 0.00
284 17 0.03
285 68 0.12
286 7 0.01
287 35 0.06
288 7 0.01
289 46 0.08
290 7 0.01
291 8 0.01
292 12 0.02
293 29 0.05
294 24 0.04
295 85 0.15
296 11 0.02
297 7 0.01
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (273 bp):
TATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATGTTTATTTTTGTTT
TATTTATTTATTGTTTTATTATTATAATTTAGATTATTATTAGTATATGTTTTATTATATATGTA
TATATATTTATATATAGTATTTTTTTAATTACTTTATTTTAATAATATTATTATATTATATTTAC
TTTTTTTTGTATTTCATTACTATTGTTAGTATTATTATCATTATTAATATTAGTGTATGTTTTTA
TTATATGTGTATA
Found at i:61881798 original size:64 final size:64
Alignment explanation
Indices: 61881684--61881809 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 64
61881674 AAAAAAATCA
* * * * *
61881684 ACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCTGAGGTATTTTTAGTTTCTATCC
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTTTCAATTTCTATCC
*
61881748 ACTCATATTGCGAGAGGTGAGTTGA-CCATCGGG-CTACATGCCGAGATATTTTCAATTTCTAT
1 ACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGGTC-ACACGCCGAGATATTTTCAATTTCTAT
61881810 TTTTTAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
63 3 0.06
64 51 0.94
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (64 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTTTCAATTTCTATCC
Found at i:61881976 original size:77 final size:78
Alignment explanation
Indices: 61881810--61881976 Score: 273
Period size: 77 Copynumber: 2.2 Consensus size: 78
61881800 CAATTTCTAT
*
61881810 TTTTTAATTTCTGTTTTTTCAAAAAAATTAACTCATATTGCAAGAGGTGAGTTCAGCCTCGGGTC
1 TTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTCAGCCTCGGGTC
61881875 ACACGCCGAGGTA
66 ACACGCCGAGGTA
* * *
61881888 TTTTCAATTTCTG-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTCAGCCTCGGGTC
*
61881952 ACACGCTGAGGTA
66 ACACGCCGAGGTA
*
61881965 TTTTTAGTTTCT
1 TTTTTAATTTCT
61881977 ATCCACTCAT
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
77 70 0.85
78 12 0.15
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (78 bp):
TTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTCAGCCTCGGGTC
ACACGCCGAGGTA
Found at i:61882040 original size:64 final size:64
Alignment explanation
Indices: 61881917--61882040 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
61881907 AAAAAAATCA
* * * * * *
61881917 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTCTATCC
1 ACTCATATTGCGAGAGGTGAGTTGACCCTCGGGCCACACGCCGAGATATTTTCAATTTCTATCC
* *
61881981 ACTCATATTGCGAGATGTGAGTTGACCCTCGGGCCACATGCCGAGATATTTTCAATTTCT
1 ACTCATATTGCGAGAGGTGAGTTGACCCTCGGGCCACACGCCGAGATATTTTCAATTTCT
61882041 GTTTTTAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (64 bp):
ACTCATATTGCGAGAGGTGAGTTGACCCTCGGGCCACACGCCGAGATATTTTCAATTTCTATCC
Found at i:61883732 original size:18 final size:18
Alignment explanation
Indices: 61883705--61883781 Score: 70
Period size: 18 Copynumber: 4.2 Consensus size: 18
61883695 ACTATTATTT
*
61883705 TTATTTTTATTTTTTATA
1 TTATTATTATTTTTTATA
*
61883723 TTATTATTA-TTATTATTA
1 TTATTATTATTTTTTA-TA
*
61883741 TTATTATTATTATTATATA
1 TTATTATTATT-TTTTATA
61883760 TTAATGTA-TATTTTTT-TA
1 TT-AT-TATTATTTTTTATA
61883778 TTAT
1 TTAT
61883782 ATACATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
17 7 0.14
18 23 0.47
19 8 0.16
20 9 0.18
21 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (18 bp):
TTATTATTATTTTTTATA
Found at i:61883781 original size:3 final size:3
Alignment explanation
Indices: 61883697--61883762 Score: 84
Period size: 3 Copynumber: 22.7 Consensus size: 3
61883687 TGTCTAACAC
* *
61883697 TAT TAT TTT TAT TTT TAT T-T T-T TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
61883742 TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT -TAT TA
61883763 ATGTATATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 6 0.11
3 47 0.84
4 3 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:61883804 original size:27 final size:25
Alignment explanation
Indices: 61883750--61883805 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
61883740 ATTATTATTA
* *
61883750 TTATTATATATTAATGTATATTTTT
1 TTATTATATAATAATGTATATTTAT
61883775 TTATTATATACATATATGTAT-TTATAT
1 TTATTATATA-ATA-ATGTATATT-TAT
61883802 TTAT
1 TTAT
61883806 ACATAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 10 0.38
26 4 0.15
27 12 0.46
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (25 bp):
TTATTATATAATAATGTATATTTAT
Found at i:61883809 original size:22 final size:23
Alignment explanation
Indices: 61883768--61883819 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
61883758 TATTAATGTA
*
61883768 TATT-TTTTTATTATATACATA-
1 TATTATTTATATTATATACATAG
61883789 TATGTATTTATATT-TATACATAG
1 TAT-TATTTATATTATATACATAG
61883812 TATTATTT
1 TATTATTT
61883820 TTTTAATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 14 0.52
23 10 0.37
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (23 bp):
TATTATTTATATTATATACATAG
Found at i:61883906 original size:136 final size:135
Alignment explanation
Indices: 61883739--61884657 Score: 599
Period size: 136 Copynumber: 6.7 Consensus size: 135
61883729 TTATTATTAT
* * * * *
61883739 TATTATTATTATTATTATATATTAATGTATATTTTTTTATTATATACATATATGTATTTATATTT
1 TATTATTACTAGTATTAT-TATTATTATATATTTTTTTATTATATATATATATGTATTTATATTT
*
61883804 ATACATAGTATTATTTTTTTAATTACTTTATTTTAATATTTTATTATATTATATTTGCTTTTTTT
65 ATACATA-TATTATTTTTTTAATTACTTTATTTTAATA--TTATTATATTATATTTACTTTTTTT
61883869 GTATTTCAA
127 GTATTTCAA
* * * *
61883878 TATTATTACTA-T-TTATTATTATTATATATGTATATGTATTTATATTTATACATAGTA-TTAT-
1 TATTATTACTAGTATTATTATTATTATATAT-T-TTTTTA-TTATATATATATAT-GTATTTATA
* * * *
61883939 TTTTTA-AT-TACT-TTATTTTAA-TA-TTTA---T--TA-TATTATATT-T-TCT--TTTTTTT
62 TTTATACATATATTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTT
*
61883989 ATATTTCAA
127 GTATTTCAA
* *
61883998 TATTATTACTATTATTATTATTATTAATATTAGTATATATTTTTATTATATATGTATATGTATTT
1 TATTATTACTAGTATTATTATTA-T--TA-TA-TAT-T-TTTTTATTATATATATATATGTATTT
*
61884063 ATATTTATACAGAGTATTA-TTTTTTAATTACTTTA-TTTAATATT-TT-TATTATA-TTACATT
59 ATATTTATACATA-TATTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTAC---
61884123 TTCTTTTTGTATTTCAA
120 TT-TTTTTGTATTTCAA
* * * * * *
61884140 TATTATTATTATTATTATTATTATTA-ATATTAGTGTATATTCT-TATTATATACGTATATATAT
1 TATTATTACTAGTATTATTATTATTATATATT--TTTTTATTATATA-TATATATGTAT-T-TAT
* * * * *
61884203 ATTTAT--ATATAATACTATTTTAATTACTTTATTTTAACATTA-T-TATTATTTTTAC-TTTTT
61 ATTTATACATATATTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTT
*
61884263 TGTATTTCAT
126 TGTATTTCAA
* ** * * * * *
61884273 TATTATTGCTAGTATTATTATTATTATTAATATTAGTGTATGTTTTTATTATATAGGTATATATA
1 TATTATTACTAGTATTATTATTATTA-T-ATATTTTTTTAT-TATATA-TATATATGTATTTATA
* * *
61884338 TTT-TACATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATGTTTATTTTTTT
62 TTTATACATATATTATT-TTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTT
*
61884402 TGTATTTCAT
126 TGTATTTCAA
* * ** * * *
61884412 TATTATTTCAAGTATTATTATTATTAATAATATTAGTATATGT-TTTATTATATATGTATATATA
1 TATTATTACTAGTATTATTATTATT-AT-ATATTTTTTTAT-TATATA-TATATATGTATTTATA
* * *
61884476 TTTTTATATATAGTATTTTTTTAATTACTTTATTTTAATATTATTATTATATTATATTTACTTTT
62 TTTATACATATATTATTTTTTTAATTACTTTATTTT-A-A-TATTATTATATTATATTTACTTTT
*
61884541 TTTGTATTTCAT
124 TTTGTATTTCAA
* ** * * ** * * * *
61884553 TACTATTGTTAGCATTATTATCATTATTAATATTAGTGTATGTTTTTATTATATAGGTATATATA
1 TATTATTACTAGTATTATTATTATTA-T-ATATTTTTTTAT-TATATA-TATATATGTAT-T-TA
* * *
61884618 TATTTTTTATATATAGTATTATTTTTAATTACTTTATTTT
60 TA-TTTATACATATATTATT-TTTTTAATTACTTTATTTT
61884658 TTATTACACG
Statistics
Matches: 650, Mismatches: 68, Indels: 117
0.78 0.08 0.14
Matches are distributed among these distances:
120 26 0.04
121 1 0.00
122 11 0.02
123 2 0.00
124 9 0.01
125 5 0.01
126 17 0.03
127 16 0.02
128 1 0.00
129 1 0.00
130 10 0.02
131 2 0.00
132 8 0.01
133 39 0.06
134 22 0.03
135 24 0.04
136 95 0.15
137 26 0.04
138 75 0.12
139 93 0.14
140 6 0.01
141 71 0.11
142 50 0.08
144 4 0.01
145 17 0.03
146 19 0.03
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.61
Consensus pattern (135 bp):
TATTATTACTAGTATTATTATTATTATATATTTTTTTATTATATATATATATGTATTTATATTTA
TACATATATTATTTTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTTGTAT
TTCAA
Found at i:61883933 original size:121 final size:120
Alignment explanation
Indices: 61883768--61884021 Score: 426
Period size: 120 Copynumber: 2.1 Consensus size: 120
61883758 TATTAATGTA
61883768 TATTT-TT-TTATTATATACATATATGTATTTATATTTATACATAGTATTATTTTTTTAATTACT
1 TATTTATTATTATTATATACATATATGTATTTATATTTATACATAGTATTA-TTTTTTAATTACT
*
61883831 TTATTTTAATATTTTATTATATTATATTTGC-TTTTTTTGTATTTCAATATTATTAC
65 TTATTTTAATA-TTTATTATATTATATTTGCTTTTTTTTATATTTCAATATTATTAC
**
61883887 TATTTATTATTATTATATATGTATATGTATTTATATTTATACATAGTATTATTTTTTAATTACTT
1 TATTTATTATTATTATATACATATATGTATTTATATTTATACATAGTATTATTTTTTAATTACTT
*
61883952 TATTTTAATATTTATTATATTATATTTTCTTTTTTTTATATTTCAATATTATTAC
66 TATTTTAATATTTATTATATTATATTTGCTTTTTTTTATATTTCAATATTATTAC
61884007 TA-TTATTATTATTAT
1 TATTTATTATTATTAT
61884022 TAATATTAGT
Statistics
Matches: 128, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 36 0.28
120 52 0.41
121 40 0.31
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (120 bp):
TATTTATTATTATTATATACATATATGTATTTATATTTATACATAGTATTATTTTTTAATTACTT
TATTTTAATATTTATTATATTATATTTGCTTTTTTTTATATTTCAATATTATTAC
Found at i:61884004 original size:3 final size:3
Alignment explanation
Indices: 61883998--61884046 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
61883988 TATATTTCAA
* * * *
61883998 TAT TAT TAC TAT TAT TAT TAT TAT TAA TAT TAG TAT ATAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
61884044 TAT
1 TAT
61884047 ATATGTATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:61884047 original size:120 final size:121
Alignment explanation
Indices: 61883768--61884049 Score: 414
Period size: 121 Copynumber: 2.3 Consensus size: 121
61883758 TATTAATGTA
** *
61883768 TATTT-TT-TTATTATATACATATATGTATTTATATTTATACATAGTATTATTTTTTTAATTACT
1 TATTTATTATTATTATATATGTATATATATTTATATTTATACATAGTATTATTTTTTTAATTACT
*
61883831 TTATTTTAATATTTTATTATATTATATTTGCTTTTTTTGTATTTCAATATTATTAC
66 TTATTTTAATATTTTATTATATTATATTTGCTTTTTTTATATTTCAATATTATTAC
*
61883887 TATTTATTATTATTATATATGTATATGTATTTATATTTATACATAGTATTA-TTTTTTAATTACT
1 TATTTATTATTATTATATATGTATATATATTTATATTTATACATAGTATTATTTTTTTAATTACT
*
61883951 TTATTTTAATA-TTTATTATATTATATTTTCTTTTTTTTATATTTCAATATTATTAC
66 TTATTTTAATATTTTATTATATTATATTTGC-TTTTTTTATATTTCAATATTATTAC
*
61884007 TA-TTATTATTATTATTAATAT-TAGTATATATTTTTATTATATA
1 TATTTATTATTATTA-T-ATATGTA-TATATATTTATATT-TATA
61884050 TGTATATGTA
Statistics
Matches: 150, Mismatches: 6, Indels: 11
0.90 0.04 0.07
Matches are distributed among these distances:
119 35 0.23
120 55 0.37
121 56 0.37
122 4 0.03
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (121 bp):
TATTTATTATTATTATATATGTATATATATTTATATTTATACATAGTATTATTTTTTTAATTACT
TTATTTTAATATTTTATTATATTATATTTGCTTTTTTTATATTTCAATATTATTAC
Found at i:61884148 original size:3 final size:3
Alignment explanation
Indices: 61884140--61884171 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
61884130 TGTATTTCAA
*
61884140 TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
61884172 GTGTATATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:61884473 original size:22 final size:21
Alignment explanation
Indices: 61884441--61884491 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
61884431 ATTATTAATA
*
61884441 ATAT-TAGTATATGT-TTTATT
1 ATATATAGTATATATATTT-TT
61884461 ATATAT-GTATATATATTTTT
1 ATATATAGTATATATATTTTT
61884481 ATATATAGTAT
1 ATATATAGTAT
61884492 TTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (21 bp):
ATATATAGTATATATATTTTT
Found at i:61884630 original size:15 final size:17
Alignment explanation
Indices: 61884610--61884642 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
61884600 ATTATATAGG
61884610 TATATATA-TATT-TTT
1 TATATATAGTATTATTT
61884625 TATATATAGTATTATTT
1 TATATATAGTATTATTT
61884642 T
1 T
61884643 TAATTACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TATATATAGTATTATTT
Found at i:61885908 original size:49 final size:49
Alignment explanation
Indices: 61885853--61885999 Score: 169
Period size: 49 Copynumber: 3.0 Consensus size: 49
61885843 ACCACCATCT
*
61885853 TTTCCATAAGCCT-CCTCCTTATGTGTCT-AGAGTAGAGTCA-TCTTATTAC
1 TTTCCATAAGCCTACC-CC-TATGCGTCTGAGAGTAGAGTCACT-TTATTAC
* *
61885902 TTTCCATAAGCCTACCCCTATGCGTCTGGGAGTAGGGTCACTTTATTAC
1 TTTCCATAAGCCTACCCCTATGCGTCTGAGAGTAGAGTCACTTTATTAC
* * * *
61885951 TTTCCATAA-CC-ACCCCCATACGTCTGGGAGTAGGGTCACTTTATTAC
1 TTTCCATAAGCCTACCCCTATGCGTCTGAGAGTAGAGTCACTTTATTAC
61885998 TT
1 TT
61886000 ATCGAGTCGC
Statistics
Matches: 90, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
47 36 0.40
48 10 0.11
49 41 0.46
50 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.35
Consensus pattern (49 bp):
TTTCCATAAGCCTACCCCTATGCGTCTGAGAGTAGAGTCACTTTATTAC
Found at i:61885984 original size:47 final size:49
Alignment explanation
Indices: 61885882--61885999 Score: 179
Period size: 47 Copynumber: 2.4 Consensus size: 49
61885872 TATGTGTCTA
* * *
61885882 GAGTAGAGTCA-TCTTATTACTTTCCATAAGCCTACCCCTATGCGTCTGG
1 GAGTAGGGTCACT-TTATTACTTTCCATAAGCCTACCCCCATACGTCTGG
61885931 GAGTAGGGTCACTTTATTACTTTCCATAA-CC-ACCCCCATACGTCTGG
1 GAGTAGGGTCACTTTATTACTTTCCATAAGCCTACCCCCATACGTCTGG
61885978 GAGTAGGGTCACTTTATTACTT
1 GAGTAGGGTCACTTTATTACTT
61886000 ATCGAGTCGC
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
47 36 0.55
48 2 0.03
49 26 0.40
50 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
GAGTAGGGTCACTTTATTACTTTCCATAAGCCTACCCCCATACGTCTGG
Found at i:61892990 original size:2 final size:2
Alignment explanation
Indices: 61892985--61893023 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
61892975 AAGAAAAAAA
61892985 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61893024 AACATGAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:61895595 original size:25 final size:25
Alignment explanation
Indices: 61895567--61895617 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
61895557 TTATGCCTGA
61895567 TTACATAATGATAATCAACAAATAC
1 TTACATAATGATAATCAACAAATAC
61895592 TTACATAATGATAATCAACAAATAC
1 TTACATAATGATAATCAACAAATAC
61895617 T
1 T
61895618 ATGTAATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (25 bp):
TTACATAATGATAATCAACAAATAC
Found at i:61899147 original size:15 final size:14
Alignment explanation
Indices: 61899121--61899190 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
61899111 ACCATGTCAG
61899121 TTTTT-TTTTTATT
1 TTTTTATTTTTATT
61899134 TTTTTATGTTTTA-T
1 TTTTTAT-TTTTATT
* *
61899148 GTTTTATCTTTATT
1 TTTTTATTTTTATT
61899162 TTATTT-TATTTTATT
1 TT-TTTAT-TTTTATT
* *
61899177 TATTTATTATTATT
1 TTTTTATTTTTATT
61899191 AACTTAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
13 9 0.20
14 20 0.44
15 16 0.36
ACGTcount: A:0.17, C:0.01, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:61899180 original size:4 final size:5
Alignment explanation
Indices: 61899122--61899190 Score: 54
Period size: 5 Copynumber: 13.4 Consensus size: 5
61899112 CCATGTCAGT
* *
61899122 TTTTT TTTTA TTTT- TTTATG TTTTA TGTTTTA TCTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTT-TA TTTTA --TTTTA T-TTTA TTTTA TTTTA
61899170 TTTTA -TTTA -TTTA TTATTA TT
1 TTTTA TTTTA TTTTA TT-TTA TT
61899191 AACTTAAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
4 11 0.20
5 26 0.47
6 13 0.24
7 5 0.09
ACGTcount: A:0.17, C:0.01, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:61899258 original size:30 final size:30
Alignment explanation
Indices: 61899244--61899305 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
61899234 TATATATTTT
*
61899244 TTATTTTTTAATTTTTTTAAATATTAAATA
1 TTATTTTTTAATTTTATTAAATATTAAATA
**
61899274 TTATTTTTTAATAATA-TAAATATTTAAATA
1 TTATTTTTTAATTTTATTAAATA-TTAAATA
61899304 TT
1 TT
61899306 TTAAACTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTATTTTTTAATTTTATTAAATATTAAATA
Found at i:61899280 original size:20 final size:22
Alignment explanation
Indices: 61899257--61899297 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
61899247 TTTTTTAATT
61899257 TTTTTAAAT-AT-TAAATATTA
1 TTTTTAAATAATATAAATATTA
*
61899277 TTTTTTAATAATATAAATATT
1 TTTTTAAATAATATAAATATT
61899298 TAAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTTAAATAATATAAATATTA
Found at i:61899282 original size:21 final size:22
Alignment explanation
Indices: 61899254--61899297 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
61899244 TTATTTTTTA
*
61899254 ATTTTTTTA-AATATTAAATATT
1 ATTTTTTAATAATA-TAAATATT
61899276 ATTTTTTAATAATATAAATATT
1 ATTTTTTAATAATATAAATATT
61899298 TAAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTTTAATAATATAAATATT
Found at i:61899308 original size:9 final size:9
Alignment explanation
Indices: 61899290--61899382 Score: 52
Period size: 8 Copynumber: 10.1 Consensus size: 9
61899280 TTTAATAATA
61899290 TAAATA-TT
1 TAAATATTT
61899298 TAAATATTT
1 TAAATATTT
*
61899307 TAAA-CTTT
1 TAAATATTT
61899315 TAAAT-TTGT
1 TAAATATT-T
*
61899324 T-ATTAGTTT
1 TAAATA-TTT
61899333 TATAATATTT
1 TA-AATATTT
61899343 TAAATATTATT
1 TAAATA-T-TT
* *
61899354 TAATTTGTTT
1 TAA-ATATTT
61899364 TATAATATTT
1 TA-AATATTT
61899374 TAAA-ATTT
1 TAAATATTT
61899382 T
1 T
61899383 TATATATACT
Statistics
Matches: 67, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
8 22 0.33
9 16 0.24
10 18 0.27
11 10 0.15
12 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (9 bp):
TAAATATTT
Found at i:61903263 original size:26 final size:26
Alignment explanation
Indices: 61903203--61903264 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
61903193 TTTTATTAAT
61903203 TTAAAAATTCAAAAAATATAAAAACTA
1 TTAAAAATT-AAAAAATATAAAAACTA
** * *
61903230 TTTTAAATT-AAAAATCATTAAAATTA
1 TTAAAAATTAAAAAAT-ATAAAAACTA
61903256 TTAAAAATT
1 TTAAAAATT
61903265 TATAAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 6 0.21
26 15 0.54
27 7 0.25
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (26 bp):
TTAAAAATTAAAAAATATAAAAACTA
Found at i:61905782 original size:4 final size:4
Alignment explanation
Indices: 61905773--61905878 Score: 56
Period size: 4 Copynumber: 26.0 Consensus size: 4
61905763 TAATTCTGGC
* * * * * *
61905773 ATTT ATTT ATTC ATCT ACTT GTTT ATTT A-TT CTTT ATTAC ATTT ATTTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT A-TTT
* * * *
61905822 ATTC ATTT ATGTGT -TCTT ACTT ATTT ATTT ATAT A-TT ATTA ATTT ATTT
1 ATTT ATTT AT-T-T AT-TT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
61905871 ATTT ATTT
1 ATTT ATTT
61905879 TTGTTTCAAT
Statistics
Matches: 74, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
3 4 0.05
4 59 0.80
5 10 0.14
6 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.65
Consensus pattern (4 bp):
ATTT
Found at i:61906114 original size:13 final size:13
Alignment explanation
Indices: 61906072--61906114 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
61906062 CATTTTGTTC
*
61906072 ATTTATTATCATT
1 ATTTTTTATCATT
*
61906085 A-TTATTATCATT
1 ATTTTTTATCATT
61906097 ATTTTTTATC-TT
1 ATTTTTTATCATT
61906109 ATTTTT
1 ATTTTT
61906115 ATTACTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 20 0.71
13 8 0.29
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTTTATCATT
Found at i:61910377 original size:183 final size:186
Alignment explanation
Indices: 61909942--61910490 Score: 448
Period size: 189 Copynumber: 2.9 Consensus size: 186
61909932 TCAGTAAAAC
* * * * ** * *
61909942 CACAAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTGAAGTCATTATGGCGAATATTATCTT
1 CACAAATCCTATACCTCTGAAGTTGCAGTAGGATGGATTCAAATCACCATGGCGAATCTTATCTC
** * * * * * * * * ***
61910007 CCTGACGTTGTAGTGGAGAAAATTAAAGCCACAAATCTTATCTCCTTGAAGTCGCAAATGAA-TA
66 CCTGAAATTGTAATGGAGCAAATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGCGGAACTA
* * * *** * * * * * *
61910071 GATTGAAGTCACAGATCTCATCTATTTGAAATTGTAGTGGAGTAGATCAAAGATT-GAAGC
131 G--TAAAGTCA-A-ATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAG-TTACAAGT
* * * * **
61910131 CATAAATCTTATACCTCTGAAGTTGCAGTGGGATGGATTGAAATCATTATGGCGAATCTTATCTC
1 CACAAATCCTATACCTCTGAAGTTGCAGTAGGATGGATTCAAATCACCATGGCGAATCTTATCTC
* * * * * * * *
61910196 CTTGAAGTTGTAGTGGAGCAAATTGAAG-CTGCTAATCTTATCTCCCTGAAGTTGCAGCGG-AGT
66 CCTGAAATTGTAATGGAGCAAATTGAAGTC-ACAAACCTTATCTCCCTAAAGTTGCAGCGGAACT
*
61910259 AG-AAAG-CGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGTTACAAGT
130 AGTAAAGTCAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGTTACAAGT
* *
61910314 CACAAATCCTATACCTCTGAAGTTGTAGTAGG-TCGGA-TCAAATCTACCATGGTGAATCTTATC
1 CACAAATCCTATACCTCTGAAGTTGCAGTAGGAT-GGATTCAAATC-ACCATGGCGAATCTTATC
* * *
61910377 TCCCTGAAATTGTAATGGAGTAGATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGTGGAAC
64 TCCCTGAAATTGTAATGGAGCAAATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGCGGAAC
* *
61910442 TAGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGCAGTGGAGTAGATT
129 TAG-TAAAG-T-CAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATT
61910491 GAAAATAGTA
Statistics
Matches: 296, Mismatches: 52, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
182 9 0.03
183 128 0.43
184 6 0.02
185 1 0.00
186 6 0.02
188 2 0.01
189 144 0.49
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (186 bp):
CACAAATCCTATACCTCTGAAGTTGCAGTAGGATGGATTCAAATCACCATGGCGAATCTTATCTC
CCTGAAATTGTAATGGAGCAAATTGAAGTCACAAACCTTATCTCCCTAAAGTTGCAGCGGAACTA
GTAAAGTCAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGTTACAAGT
Found at i:61910552 original size:89 final size:89
Alignment explanation
Indices: 61910459--61910668 Score: 269
Period size: 89 Copynumber: 2.4 Consensus size: 89
61910449 AGTTACAAAT
61910459 CTTATTTCCCTGAAGTTGCAGTGGAGTAGATTGAAAATAGTAACTCTTATCTCTCTGAAGTTGCA
1 CTTATTTCCCTGAAGTTGCAGTGGAGTAGATTGAAAATA-TAACTCTTATCTCTCTGAAGTTGCA
*
61910524 GTAGAGCAGACTAAAGCTA-TAAAC
65 GTAGAGCAGACTAAAGATAGTAAAC
* * * * * ** * *
61910548 CTTATCTCTCTAAAGTTGCAGTGGAGAAGGTTGAAGTTATAACTCTTATCTTTCTGAAGTTGTAG
1 CTTATTTCCCTGAAGTTGCAGTGGAGTAGATTGAAAATATAACTCTTATCTCTCTGAAGTTGCAG
* * * *
61910613 TGGAGCAGACTGAAGATAGTACAT
66 TAGAGCAGACTAAAGATAGTAAAC
*
61910637 CTTATTTCCCTGAAGTTGCAGTGGAATAGATT
1 CTTATTTCCCTGAAGTTGCAGTGGAGTAGATT
61910669 AAAGCTACAA
Statistics
Matches: 100, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
88 39 0.39
89 61 0.61
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (89 bp):
CTTATTTCCCTGAAGTTGCAGTGGAGTAGATTGAAAATATAACTCTTATCTCTCTGAAGTTGCAG
TAGAGCAGACTAAAGATAGTAAAC
Found at i:61910589 original size:44 final size:44
Alignment explanation
Indices: 61910371--61910661 Score: 212
Period size: 44 Copynumber: 6.6 Consensus size: 44
61910361 CATGGTGAAT
* * * * * * *
61910371 CTTATCTCCCTGAAATTGTAATGGAGTAGATTGAAGTCACAAAC
1 CTTATCTCTCTGAAGTTGCAGTGGAGAAGATTGAAGTTATAAAC
* * * *
61910415 CTTATCTCCCTAAAGTTGCAGTGGA-ACTAG-TTGAAGTTACAAAT
1 CTTATCTCTCTGAAGTTGCAGTGGAGA--AGATTGAAGTTATAAAC
* * * **
61910459 CTTATTTCCCTGAAGTTGCAGTGGAGTAGATTGAAAATAGT-AAC
1 CTTATCTCTCTGAAGTTGCAGTGGAGAAGATTGAAGTTA-TAAAC
* * * * *
61910503 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGCTATAAAC
1 -CTTATCTCTCTGAAGTTGCAGTGGAGAAGATTGAAGTTATAAAC
* *
61910548 CTTATCTCTCTAAAGTTGCAGTGGAGAAGGTTGAAGTTAT-AAC
1 CTTATCTCTCTGAAGTTGCAGTGGAGAAGATTGAAGTTATAAAC
* * * * * * *
61910591 TCTTATCTTTCTGAAGTTGTAGTGGAGCAGACTGAAGATAGTACAT
1 -CTTATCTCTCTGAAGTTGCAGTGGAGAAGATTGAAGTTA-TAAAC
* *
61910637 CTTATTTCCCTGAAGTTGCAGTGGA
1 CTTATCTCTCTGAAGTTGCAGTGGA
61910662 ATAGATTAAA
Statistics
Matches: 195, Mismatches: 42, Indels: 19
0.76 0.16 0.07
Matches are distributed among these distances:
43 5 0.03
44 131 0.67
45 58 0.30
46 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (44 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGAAGATTGAAGTTATAAAC
Found at i:61910672 original size:133 final size:131
Alignment explanation
Indices: 61910368--61910678 Score: 367
Period size: 133 Copynumber: 2.3 Consensus size: 131
61910358 TACCATGGTG
* * * *
61910368 AATCTTATCTCCCTGAAATTGTAATGGAGTAGATTGAAG-TCACAAACCTTATCTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCT-ACAAACCTTATCTCCCTAAAGTT
* *
61910432 GCAGTGGAACTAGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGCAGTGGAGTAGATTGAAAAT
65 GCAGTGGAAC-AGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAT
61910497 AGT
129 AGT
* * * * * *
61910500 AACTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGCTATAAACCTTATCTCTCTAAAGTT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAACCTTATCTCCCTAAAGTT
* * * * *
61910565 GCAGTGGAGA-AGGTTGAAGTTATAACTCTTATCTT-TCTGAAGTTGTAGTGGAGCAGACTGAAG
65 GCAGTGGA-ACA-GTTGAAGTTACAAATCTTAT-TTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
61910628 ATAGT
127 ATAGT
* *
61910633 ACATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAA
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAA
61910679 GTTACAAATC
Statistics
Matches: 149, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
132 3 0.02
133 141 0.95
134 5 0.03
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (131 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTG
CAGTGGAACAGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATAG
T
Found at i:61912089 original size:4 final size:4
Alignment explanation
Indices: 61912065--61912189 Score: 56
Period size: 4 Copynumber: 30.8 Consensus size: 4
61912055 TTAAGTCCTT
* * * * * * *
61912065 TTTA TTTTA ATTA TGTTA TTTA TTTA TTCA TCTA CTTG CTTA TTTA -TTC
1 TTTA -TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * * *
61912114 TTTA TTCCA TTTA TTTTA TTCA TTTA TCTG TTCA TTTA CTCA TTTA TTTA
1 TTTA TT-TA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
61912164 TATA -TTA TTCA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
61912190 TTGTTTCAAT
Statistics
Matches: 85, Mismatches: 30, Indels: 11
0.67 0.24 0.09
Matches are distributed among these distances:
3 4 0.05
4 66 0.78
5 15 0.18
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:61913355 original size:220 final size:215
Alignment explanation
Indices: 61912973--61913492 Score: 553
Period size: 220 Copynumber: 2.4 Consensus size: 215
61912963 AAAAGGGTTG
* *
61912973 GGATAGACCTAGT-TAAGGCCAACCTTTGAAAAAGGTTGCGATAGACCTGTTTAAGGCAACCTTA
1 GGATAGACCT-GTCTAAGG-CAACCTTTAAAAAAGGTTG-GATAGACCCGTTTAAGGCAACCTTA
* * * * * * *
61913037 AAAGGGTTGGTATAGTTCTTGTTTAACGCAACTTTTAAAAACGATTGGGATAGAGCCGTCTAAGG
63 AAAAGGTTGGGATAG-ACTTGTCTAACGCAACTTTAAAAAAAGATTGGGATAGAGCCGTCTAAGA
* *
61913102 CAACCTTAAAAAGGTTGAGATAGACCTTGTCTAAGACAACCTATAAAAAAAGGTTGGGATAGACC
127 CAACCTTAAAAAGGTTGAGATAAACCTTGTCTAAGACAA-CTATAAAAAAAGGTTGGGATAAACC
*
61913167 TATCTAAAGCAACCTTA-AACAGGCTA
191 CATCTAAAGCAACCTTAGAA-AGG-TA
* * * *
61913193 GGATAGACCATGTCTAAGGCAACCTTAAAAAAAAGTTGGAATAGACCCATTCAAGGCAACCTTAA
1 GGATAGACC-TGTCTAAGGCAACCTTTAAAAAAGGTTGG-ATAGACCCGTTTAAGGCAACCTTAA
*
61913258 AAAGGTTGGGATAGACTATGTCTAAGGCAACCTTTAAAAAAAG-TTGGGATAGA-CCTGTCTAAG
64 AAAGGTTGGGATAGACT-TGTCTAACGCAA-CTTTAAAAAAAGATTGGGATAGAGCC-GTCTAAG
* * * * * * *
61913321 ACAGCCTTAAAATGGTTGGGATAAATCTTGTCTAAGGCAACTTTTAAAAAAGGTTGGGATAAACC
126 ACAACCTTAAAAAGGTTGAGATAAACCTTGTCTAAGACAACTATAAAAAAAGGTTGGGATAAACC
* * * *
61913386 CGTTTAAAGCAACTTTAGAAAGGTT
191 CATCTAAAGCAACCTTAGAAAGGTA
* * * * ** *
61913411 GAGATAAATCTTGTCTAAGGTAACCTTTAAAAAAGGTTAGGATAAACCCGTTTAAGATAACCTGA
1 G-GATAGA-CCTGTCTAAGGCAACCTTTAAAAAAGGTT-GGATAGACCCGTTTAAGGCAACCTTA
*
61913476 AAAAGATTGGGATAGAC
63 AAAAGGTTGGGATAGAC
61913493 ACGTATAATG
Statistics
Matches: 250, Mismatches: 40, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
218 2 0.01
219 106 0.42
220 126 0.50
221 16 0.06
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (215 bp):
GGATAGACCTGTCTAAGGCAACCTTTAAAAAAGGTTGGATAGACCCGTTTAAGGCAACCTTAAAA
AGGTTGGGATAGACTTGTCTAACGCAACTTTAAAAAAAGATTGGGATAGAGCCGTCTAAGACAAC
CTTAAAAAGGTTGAGATAAACCTTGTCTAAGACAACTATAAAAAAAGGTTGGGATAAACCCATCT
AAAGCAACCTTAGAAAGGTA
Found at i:61913398 original size:146 final size:145
Alignment explanation
Indices: 61912954--61913491 Score: 551
Period size: 146 Copynumber: 3.7 Consensus size: 145
61912944 TAGTCAATGC
* * * * *
61912954 CAACCTTTAAAAAGGGTTGGGATAGACCTAGT-TAAGGCCAACCTTTGAAAAAGGTTGCGATAGA
1 CAACC-TTAAAAA-GGTTGAGATAGACCTTGTCTAAGG-CAACCTTTAAAAAAAGTTGGGATAGA
* * * * * * * *
61913018 CCTGTTTAAGGCAACCTTAAAAGGGTTGGTATAGTTCTTGTTTAACGCAACTTTTAAAAACGATT
63 CCTGTCTAAGACAACCTTAAAA-GGTTGGGATAGATCTTGTCTAAGGCAACTTTTAAAAAAGGTT
* *
61913083 GGGATAGAGCCGTCTAAGG
127 GGGATAGACCCGTTTAAGG
* *
61913102 CAACCTTAAAAAGGTTGAGATAGACCTTGTCTAAGACAACCTATAAAAAAAGGTTGGGATAGACC
1 CAACCTTAAAAAGGTTGAGATAGACCTTGTCTAAGGCAACCTTTAAAAAAA-GTTGGGATAGACC
* * * * * * * *
61913167 TATCTAA-AGCAACCTTAAACAGGCTAGGATAGACCATGTCTAAGGCAACCTTAAAAAAAAGTTG
65 TGTCTAAGA-CAACCTTAAA-AGGTTGGGATAGATCTTGTCTAAGGCAACTTTTAAAAAAGGTTG
* * *
61913231 GAATAGACCCATTCAAGG
128 GGATAGACCCGTTTAAGG
*
61913249 CAACCTTAAAAAGGTTGGGATAGA-CTATGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACC
1 CAACCTTAAAAAGGTTGAGATAGACCT-TGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACC
* *
61913313 TGTCTAAGACAGCCTTAAAATGGTTGGGATAAATCTTGTCTAAGGCAACTTTTAAAAAAGGTTGG
65 TGTCTAAGACAACCTTAAAA-GGTTGGGATAGATCTTGTCTAAGGCAACTTTTAAAAAAGGTTGG
* *
61913378 GATAAACCCGTTTAAAG
129 GATAGACCCGTTTAAGG
* * * * * * * * *
61913395 CAACTTTAGAAAGGTTGAGATAAATCTTGTCTAAGGTAACCTTTAAAAAAGGTTAGGATAAACCC
1 CAACCTTAAAAAGGTTGAGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACCT
* * * *
61913460 GTTTAAGATAACCTGAAAAAGATTGGGATAGA
66 GTCTAAGACAACCT-TAAAAGGTTGGGATAGA
61913492 CACGTATAAT
Statistics
Matches: 320, Mismatches: 61, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
145 1 0.00
146 180 0.56
147 133 0.42
148 6 0.02
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (145 bp):
CAACCTTAAAAAGGTTGAGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACCT
GTCTAAGACAACCTTAAAAGGTTGGGATAGATCTTGTCTAAGGCAACTTTTAAAAAAGGTTGGGA
TAGACCCGTTTAAGG
Found at i:61913448 original size:38 final size:37
Alignment explanation
Indices: 61912954--61913457 Score: 311
Period size: 38 Copynumber: 13.7 Consensus size: 37
61912944 TAGTCAATGC
* * *
61912954 CAACCTTTAAAAAGGGTTGGGATAGACCTAGT-TAAGG
1 CAACCTTTAAAAAAGGTTGGGATA-AACTTGTCTAAGG
* * * * *
61912991 CCAACCTTTGAAAAAGGTTGCGATAGACCTGTTTAAGG
1 -CAACCTTTAAAAAAGGTTGGGATAAACTTGTCTAAGG
* * ** * *
61913029 CAACC-TT-AAAAGGGTTGGTATAGTTCTTGTTTAACG
1 CAACCTTTAAAAAAGGTTGGGATA-AACTTGTCTAAGG
* * * * *
61913065 CAACTTTTAAAAACGATTGGGATAGAGC-CGTCTAAGG
1 CAACCTTTAAAAAAGGTTGGGATA-AACTTGTCTAAGG
* * *
61913102 CAACC-TT-AAAAAGGTTGAGATAGACCTTGTCTAAGA
1 CAACCTTTAAAAAAGGTTGGGATA-AACTTGTCTAAGG
* * * * *
61913138 CAACCTATAAAAAAAGGTTGGGATAGACCTATCTAAAG
1 CAACCT-TTAAAAAAGGTTGGGATAAACTTGTCTAAGG
* * * * *
61913176 CAACC-TT-AAACAGGCTAGGATAGACCATGTCTAAGG
1 CAACCTTTAAAAAAGGTTGGGATA-AACTTGTCTAAGG
* * * * *
61913212 CAACCTTAAAAAAAAGTTGGAATAGACCCAT-TC-AAGG
1 CAACCTTTAAAAAAGGTTGGGATA-A-ACTTGTCTAAGG
*
61913249 CAACC-TT-AAAAAGGTTGGGATAGACTATGTCTAAGG
1 CAACCTTTAAAAAAGGTTGGGATAAACT-TGTCTAAGG
* * * *
61913285 CAACCTTTAAAAAAAGTTGGGATAGACCTGTCTAAGA
1 CAACCTTTAAAAAAGGTTGGGATAAACTTGTCTAAGG
* *
61913322 CAGCC-TT-AAAATGGTTGGGATAAATCTTGTCTAAGG
1 CAACCTTTAAAAAAGGTTGGGATAAA-CTTGTCTAAGG
* ** * *
61913358 CAACTTTTAAAAAAGGTTGGGATAAACCCGTTTAAAG
1 CAACCTTTAAAAAAGGTTGGGATAAACTTGTCTAAGG
* *
61913395 CAA-CTTT-AGAAAGGTTGAGATAAATCTTGTCTAAGG
1 CAACCTTTAAAAAAGGTTGGGATAAA-CTTGTCTAAGG
* *
61913431 TAACCTTTAAAAAAGGTTAGGATAAAC
1 CAACCTTTAAAAAAGGTTGGGATAAAC
61913458 CCGTTTAAGA
Statistics
Matches: 357, Mismatches: 86, Indels: 47
0.73 0.18 0.10
Matches are distributed among these distances:
33 1 0.00
34 1 0.00
35 83 0.23
36 79 0.22
37 61 0.17
38 114 0.32
39 18 0.05
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (37 bp):
CAACCTTTAAAAAAGGTTGGGATAAACTTGTCTAAGG
Found at i:61913455 original size:73 final size:72
Alignment explanation
Indices: 61912954--61913465 Score: 449
Period size: 73 Copynumber: 7.0 Consensus size: 72
61912944 TAGTCAATGC
* * * * *
61912954 CAACCTTTAAAAAGGGTTGGGATAGACCTAGT-TAAGGCCAACCTTTGAAAAAGGTTGCGATAGA
1 CAACC-TT-AAAA-GGTTGAGATAGATCTTGTCTAAGG-CAACCTTTAAAAAAGGTTGGGATAGA
* *
61913018 CCTGTTTAAGG
62 CCCGTTTAAAG
* * * * * * *
61913029 CAACCTTAAAAGGGTTG-GTATAGTTCTTGTTTAACGCAACTTTTAAAAACGATTGGGATAGAGC
1 CAACCTTAAAA-GGTTGAG-ATAGATCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACC
* *
61913093 CGTCTAAGG
64 CGTTTAAAG
* * *
61913102 CAACCTTAAAAAGGTTGAGATAGACCTTGTCTAAGACAACCTATAAAAAAAGGTTGGGATAGACC
1 CAACCTT-AAAAGGTTGAGATAGATCTTGTCTAAGGCAACCT-TTAAAAAAGGTTGGGATAGACC
** *
61913167 TATCTAAAG
64 CGTTTAAAG
* * * * * *
61913176 CAACCTTAAACAGGCT-AGGATAGACCATGTCTAAGGCAACCTTAAAAAAAAGTTGGAATAGACC
1 CAACCTTAAA-AGGTTGA-GATAGATCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACC
* * *
61913240 CATTCAAGG
64 CGTTTAAAG
* *
61913249 CAACCTTAAAAAGGTTGGGATAGA-CTATGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACC
1 CAACCTT-AAAAGGTTGAGATAGATCT-TGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACC
* *
61913313 TGTCT-AAG
64 CGTTTAAAG
* * * * *
61913321 ACAGCCTTAAAATGGTTGGGATAAATCTTGTCTAAGGCAACTTTTAAAAAAGGTTGGGATAAACC
1 -CAACCTTAAAA-GGTTGAGATAGATCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACC
61913386 CGTTTAAAG
64 CGTTTAAAG
* * * * *
61913395 CAACTTTAGAAAGGTTGAGATAAATCTTGTCTAAGGTAACCTTTAAAAAAGGTTAGGATAAACCC
1 CAACCTTA-AAAGGTTGAGATAGATCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCC
61913460 GTTTAA
65 GTTTAA
61913466 GATAACCTGA
Statistics
Matches: 365, Mismatches: 57, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
72 8 0.02
73 273 0.75
74 79 0.22
75 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (72 bp):
CAACCTTAAAAGGTTGAGATAGATCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCG
TTTAAAG
Found at i:61913472 original size:37 final size:36
Alignment explanation
Indices: 61913363--61913473 Score: 102
Period size: 37 Copynumber: 3.0 Consensus size: 36
61913353 TAAGGCAACT
*
61913363 TTTAAAAAAGGTTGGGATAAACCCGTTTAA-AGCAA-C
1 TTTAAAAAAGGTT-GGATAAACCCGTTTAAGA-TAACC
* ** * *
61913399 TTT-AGAAAGGTTGAGATAAATCTTGTCTAAGGTAACC
1 TTTAAAAAAGGTTG-GATAAA-CCCGTTTAAGATAACC
61913436 TTTAAAAAAGGTTAGGATAAACCCGTTTAAGATAACC
1 TTTAAAAAAGGTT-GGATAAACCCGTTTAAGATAACC
61913473 T
1 T
61913474 GAAAAAGATT
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
34 1 0.02
35 14 0.24
36 11 0.19
37 17 0.29
38 14 0.24
39 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTAAAAAAGGTTGGATAAACCCGTTTAAGATAACC
Found at i:61916652 original size:11 final size:11
Alignment explanation
Indices: 61916638--61916671 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
61916628 GGGAAGAAAG
61916638 GAAGAAGAGAA
1 GAAGAAGAGAA
61916649 GAAGAAGAGAA
1 GAAGAAGAGAA
*
61916660 GGAGAAAGAGAA
1 GAAG-AAGAGAA
61916672 AAAATTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (11 bp):
GAAGAAGAGAA
Found at i:61923551 original size:37 final size:36
Alignment explanation
Indices: 61923496--61923590 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 36
61923486 TTTATATTAA
*
61923496 AAAACCCTAAAATTCTAAACCCCAAACCCATA-ATCAC
1 AAAA-CCTAAAATCCTAAACCCCAAACCCATATA-CAC
*
61923533 AAAATCCTAAAATCCTAAACCCTAAACCCATATACAC
1 AAAA-CCTAAAATCCTAAACCCCAAACCCATATACAC
61923570 AAAACTCTAAAA-CCTTAAACC
1 AAAAC-CTAAAATCC-TAAACC
61923591 ATAATGTGAC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
36 3 0.06
37 48 0.92
38 1 0.02
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (36 bp):
AAAACCTAAAATCCTAAACCCCAAACCCATATACAC
Found at i:61925644 original size:47 final size:47
Alignment explanation
Indices: 61925590--61925861 Score: 384
Period size: 47 Copynumber: 5.7 Consensus size: 47
61925580 TTAGGATTCT
* * *
61925590 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
61925637 ATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
61925686 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
61925733 ATGTGATGAATGTGAAAGTGTATATAAGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
61925780 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
61925827 ACGTGATGGATGTGAAAGTGTATAAATGTCATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
61925862 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.00
47 159 0.78
49 44 0.22
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:61926036 original size:37 final size:37
Alignment explanation
Indices: 61925980--61926058 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
61925970 CCGAGCTCTA
* * *
61925980 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
61926017 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
61926054 AAGAC
1 AAGAC
61926059 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:61927885 original size:30 final size:30
Alignment explanation
Indices: 61927849--61927909 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
61927839 AGGCATACAT
61927849 ATCCCAACCCTTATACAAAGAGTTGGCCAA
1 ATCCCAACCCTTATACAAAGAGTTGGCCAA
61927879 ATCCCAACCCTTATACAAAGAGTTGGCCAA
1 ATCCCAACCCTTATACAAAGAGTTGGCCAA
61927909 A
1 A
61927910 GCATAGTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.20
Consensus pattern (30 bp):
ATCCCAACCCTTATACAAAGAGTTGGCCAA
Found at i:61928038 original size:132 final size:131
Alignment explanation
Indices: 61927879--61928455 Score: 706
Period size: 141 Copynumber: 4.2 Consensus size: 131
61927869 AGTTGGCCAA
*
61927879 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAAGTGTTGC
1 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAAGTGTCGC
* *
61927944 CACAAAAGTGTCATCTTAGGACTACAGAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATAC
66 CACAAAAGTGTCATCTTAGGACT-CACAAAAGCCAACTCTTATTCAAGCGTCGCCTTAGGCATAC
61928009 AT
130 AT
* *
61928011 ACCCCAACCCTTATACAAAGAGTTGGCCAAAGCCTAGTCTATCCCAACACTTAGGAAAGTGTCGC
1 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAAGTGTCGC
* *
61928076 CACGAAAGTGTCATCTTAGGACCTCACAAAAGCCAACTCTTATTCAAGCATCGCCTTAGGCATAC
66 CACAAAAGTGTCATCTTAGGA-CTCACAAAAGCCAACTCTTATTCAAGCGTCGCCTTAGGCATAC
61928141 AT
130 AT
* * ** *
61928143 ATCCCAACCCTTATATAAAGAGTTGCCCAAAGTGTATGTTCGCAACTTTATCCCAACACTTAAGA
1 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATA-G-T-----C--TATCCCAACACTTAGGA
* * *
61928208 AAGTGTCGTCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCAACTCTTATTCAAGCGTCGCCT
57 AAGTGTCGCCACAAAAGTGTCATCTTAGGACT-CACAAAAGCCAACTCTTATTCAAGCGTCGCCT
61928273 TAGGCATACAT
121 TAGGCATACAT
* *
61928284 ATCCCAACCCTTATACAAAGAGTTGCCCAAAGCGTATGTTCGCAACTCTATCCCAACACTTAGGA
1 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGC--A---T----AGTCTATCCCAACACTTAGGA
* * * * * * *
61928349 AAGTGTTGCCCCAAAAGTGTCGTCTTAGGACT-AGACAAAGCCAACTCTTATTTAAGTGTTGCCT
57 AAGTGTCGCCACAAAAGTGTCATCTTAGGACTCACA-AAAGCCAACTCTTATTCAAGCGTCGCCT
*
61928413 TAGGCATGCAT
121 TAGGCATACAT
* *
61928424 ATTCCAACCCTTAAACAAAGAGTTGGCCAAAG
1 ATCCCAACCCTTATACAAAGAGTTGGCCAAAG
61928456 AATATGTTGG
Statistics
Matches: 390, Mismatches: 34, Indels: 34
0.85 0.07 0.07
Matches are distributed among these distances:
132 153 0.39
133 3 0.01
134 1 0.00
139 3 0.01
140 66 0.17
141 160 0.41
143 1 0.00
146 1 0.00
148 1 0.00
150 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (131 bp):
ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAAGTGTCGC
CACAAAAGTGTCATCTTAGGACTCACAAAAGCCAACTCTTATTCAAGCGTCGCCTTAGGCATACA
T
Found at i:61928275 original size:273 final size:274
Alignment explanation
Indices: 61927916--61928495 Score: 788
Period size: 273 Copynumber: 2.1 Consensus size: 274
61927906 CAAAGCATAG
* *
61927916 TCTATCCCAACACTTAGGAAAGTGTTGCCACAAAAGTGTCATCTTAGGACTACAGAAAAGCCAAC
1 TCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCATCTTAGGACTACACAAAAGCCAAC
* *
61927981 TCTTATTCAAGCGTTGCCTTAGGCATACATACCCCAACCCTTATACAAAGAGTTGGCCAAAGCCT
66 TCTTATTCAAGCGTCGCCTTAGGCATACATACCCCAACCCTTATACAAAGAGTTGCCCAAAGCCT
*
61928046 A-G-TCTATCCCAACACTTAGGAAAGTGTCGCCACGAAAGTGTCATCTTAGGACCT-CACAAAAG
131 ATGATCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCATCTTAGGA-CTACAC-AAAG
* *
61928108 CCAACTCTTATTCAAGCATCGCCTTAGGCATACATATCCCAACCCTTATATAAAGAGTTGCCCAA
194 CCAACTCTTATTCAAGCATCGCCTTAGGCATACATATCCCAACCCTTAAACAAAGAGTTGCCCAA
**
61928173 AGTGTATGTTCGCAAC
259 AGAATATGTTCGCAAC
* * * * *
61928189 TTTATCCCAACACTTAAGAAAGTGTCGTCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCAAC
1 TCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCATCTTAGGACTACACAAAAGCCAAC
* *
61928254 TCTTATTCAAGCGTCGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGCGT
66 TCTTATTCAAGCGTCGCCTTAGGCATACATACCCCAACCCTTATACAAAGAGTTGCCCAAAGCCT
* * * *
61928319 ATGTTCGCAACTCTATCCCAACACTTAGGAAAGTGTTGCCCCAAAAGTGTCGTCTTAGGACTAGA
131 A---T-G--A-TCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCATCTTAGGACTACA
* ** * * *
61928384 CAAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATGCATATTCCAACCCTTAAACAAAGAGTTG
189 CAAAGCCAACTCTTATTCAAGCATCGCCTTAGGCATACATATCCCAACCCTTAAACAAAGAGTTG
* * * *
61928449 GCCAAAGAATATGTTGGCCAG
254 CCCAAAGAATATGTTCGCAAC
61928470 TCTATCCCAACACTTAGGAAAGTGTC
1 TCTATCCCAACACTTAGGAAAGTGTC
61928496 ACCCATAAAT
Statistics
Matches: 265, Mismatches: 32, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
273 120 0.45
278 1 0.00
281 97 0.37
282 47 0.18
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (274 bp):
TCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCATCTTAGGACTACACAAAAGCCAAC
TCTTATTCAAGCGTCGCCTTAGGCATACATACCCCAACCCTTATACAAAGAGTTGCCCAAAGCCT
ATGATCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCATCTTAGGACTACACAAAGCC
AACTCTTATTCAAGCATCGCCTTAGGCATACATATCCCAACCCTTAAACAAAGAGTTGCCCAAAG
AATATGTTCGCAAC
Found at i:61928462 original size:140 final size:141
Alignment explanation
Indices: 61928048--61928515 Score: 665
Period size: 141 Copynumber: 3.3 Consensus size: 141
61928038 CAAAGCCTAG
* *
61928048 TCTATCCCAACACTTAGGAAAGTGTCGCCACGAAAGTGTCATCTTAGGACCT-CACAAAAGCCAA
1 TCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGA-CTACACAAAAGCCAA
* * *
61928112 CTCTTATTCAAGCATCGCCTTAGGCATACATATCCCAACCCTTATATAAAGAGTTGCCCAAAGTG
65 CTCTTATTCAAGCGTCGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGAG
61928177 TATGTTCGCAAC
130 TATGTTCGCAAC
* * * *
61928189 TTTATCCCAACACTTAAGAAAGTGTCGTCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCAAC
1 TCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAAC
*
61928254 TCTTATTCAAGCGTCGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGCGT
66 TCTTATTCAAGCGTCGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGAGT
61928319 ATGTTCGCAAC
131 ATGTTCGCAAC
* * *
61928330 TCTATCCCAACACTTAGGAAAGTGTTGCCCCAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAAC
1 TCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAAC
* * * * * * * *
61928394 TCTTATTTAAGTGTTGCCTTAGGCATGCATATTCCAACCCTTAAACAAAGAGTTGGCCAAAGAAT
66 TCTTATTCAAGCGTCGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGAGT
* * *
61928459 ATGTTGGCCAG
131 ATGTTCGCAAC
*
61928470 TCTATCCCAACACTTAGGAAAGTGTCACC-CATAAA-TGTCGTCTTAG
1 TCTATCCCAACACTTAGGAAAGTGTCGCCACA-AAAGTGTCGTCTTAG
61928516 CACTGTTTTG
Statistics
Matches: 296, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
139 13 0.04
140 105 0.35
141 178 0.60
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (141 bp):
TCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAAC
TCTTATTCAAGCGTCGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGCCCAAAGAGT
ATGTTCGCAAC
Found at i:61932353 original size:14 final size:15
Alignment explanation
Indices: 61932334--61932389 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
61932324 AATCTTCAAT
61932334 GATATG-CAATCTTA
1 GATATGACAATCTTA
61932348 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
61932365 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
61932383 GATATGA
1 GATATGA
61932390 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:61932356 original size:19 final size:19
Alignment explanation
Indices: 61932332--61932403 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
61932322 ATAATCTTCA
61932332 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
61932351 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
61932368 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
61932386 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
61932404 AGATATATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:61932378 original size:35 final size:37
Alignment explanation
Indices: 61932332--61932403 Score: 121
Period size: 35 Copynumber: 2.0 Consensus size: 37
61932322 ATAATCTTCA
61932332 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
61932368 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGA
61932404 AGATATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 19 0.56
36 5 0.15
37 10 0.29
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:61932436 original size:21 final size:22
Alignment explanation
Indices: 61932395--61932438 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
61932385 TATGATATGC
*
61932395 AATCTTAGAAGATATATTTTGT
1 AATCTTAGAAGATATAATTTGT
*
61932417 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
61932438 A
1 A
61932439 GATACCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:61934616 original size:42 final size:43
Alignment explanation
Indices: 61934539--61934688 Score: 185
Period size: 43 Copynumber: 3.5 Consensus size: 43
61934529 AAAAACGACA
* * * * *
61934539 CTAAAAGCCATGACTTTTAGCGACGTTTGAAAAAAAAGTGCCG
1 CTAAAAGTCATGGCTTTTAGCGACATTTGATAAAAAAGTGCTG
* *
61934582 TTAAAAGTCATGGTTTTTAGCGACATTTG-TAAAAAAGTGCTG
1 CTAAAAGTCATGGCTTTTAGCGACATTTGATAAAAAAGTGCTG
* * ***
61934624 CTAAAAGTCATGGCTTTTAGCGGCATTTGTTGGGAAAGTGCTG
1 CTAAAAGTCATGGCTTTTAGCGACATTTGATAAAAAAGTGCTG
61934667 CTAAAAGTCATGGCTTTTAGCG
1 CTAAAAGTCATGGCTTTTAGCG
61934689 GCGTTTCTAG
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 37 0.40
43 56 0.60
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (43 bp):
CTAAAAGTCATGGCTTTTAGCGACATTTGATAAAAAAGTGCTG
Found at i:61934672 original size:85 final size:85
Alignment explanation
Indices: 61934573--61934733 Score: 207
Period size: 85 Copynumber: 1.9 Consensus size: 85
61934563 GTTTGAAAAA
* * * * * *
61934573 AAAGTGCCGTTAAAAGTCATGGTTTTTAGCGACATTTGTA-AAAAAGTGCTGCTAAAAGTCATGG
1 AAAGTGCCGCTAAAAGTCATGGCTTTTAGCGACATTTCTAGAAAAA-TGCCGCTAAAACTCAAGG
61934637 CTTTTAGCGGCATTTGTTGGG
65 CTTTTAGCGGCATTTGTTGGG
* * *
61934658 AAAGTGCTGCTAAAAGTCATGGCTTTTAGCGGCGTTTCTAGGAAAAATGCCGCTAAAACTCAAGG
1 AAAGTGCCGCTAAAAGTCATGGCTTTTAGCGACATTTCTA-GAAAAATGCCGCTAAAACTCAAGG
*
61934723 GTTTTAGCGGC
65 CTTTTAGCGGC
61934734 GTTTTTTCCA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
85 34 0.53
86 25 0.39
87 5 0.08
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (85 bp):
AAAGTGCCGCTAAAAGTCATGGCTTTTAGCGACATTTCTAGAAAAATGCCGCTAAAACTCAAGGC
TTTTAGCGGCATTTGTTGGG
Found at i:61934689 original size:43 final size:43
Alignment explanation
Indices: 61934572--61934733 Score: 182
Period size: 43 Copynumber: 3.8 Consensus size: 43
61934562 CGTTTGAAAA
* * * **
61934572 AAAAGTGCCGTTAAAAGTCATGGTTTTTAGCGACATTTG-TAA
1 AAAAGTGCCGCTAAAAGTCATGGCTTTTAGCGGCATTTGTTGG
*
61934614 AAAAGTGCTGCTAAAAGTCATGGCTTTTAGCGGCATTTGTTGG
1 AAAAGTGCCGCTAAAAGTCATGGCTTTTAGCGGCATTTGTTGG
* * * * *
61934657 GAAAGTGCTGCTAAAAGTCATGGCTTTTAGCGGCGTTTCTAGG
1 AAAAGTGCCGCTAAAAGTCATGGCTTTTAGCGGCATTTGTTGG
* * * *
61934700 AAAAATGCCGCTAAAACTCAAGGGTTTTAGCGGC
1 AAAAGTGCCGCTAAAAGTCATGGCTTTTAGCGGC
61934734 GTTTTTTCCA
Statistics
Matches: 103, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 35 0.34
43 68 0.66
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
AAAAGTGCCGCTAAAAGTCATGGCTTTTAGCGGCATTTGTTGG
Found at i:61934734 original size:43 final size:43
Alignment explanation
Indices: 61934539--61934737 Score: 170
Period size: 43 Copynumber: 4.7 Consensus size: 43
61934529 AAAAACGACA
* * * * ** *
61934539 CTAAAAGCCATGACTTTTAGCGACGTTT-GAAAAAAAAGTGCCG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTCTAGGAAAAA-TGCTG
* * * * *
61934582 TTAAAAGTCATGGTTTTTAGCGACATTTGTA--AAAAAGTGCTG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTCTAGGAAAAA-TGCTG
* * * * *
61934624 CTAAAAGTCATGGCTTTTAGCGGCATTTGTTGGGAAAGTGCTG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTCTAGGAAAAATGCTG
*
61934667 CTAAAAGTCATGGCTTTTAGCGGCGTTTCTAGGAAAAATGCCG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTCTAGGAAAAATGCTG
* * *
61934710 CTAAAACTCAAGGGTTTTAGCGGCGTTT
1 CTAAAAGTCATGGCTTTTAGCGGCGTTT
61934738 TTTCCACAAA
Statistics
Matches: 131, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 37 0.28
43 90 0.69
44 4 0.03
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (43 bp):
CTAAAAGTCATGGCTTTTAGCGGCGTTTCTAGGAAAAATGCTG
Found at i:61935597 original size:13 final size:14
Alignment explanation
Indices: 61935572--61935600 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61935562 TGATGAATTG
61935572 AATTAAACAATTAT
1 AATTAAACAATTAT
61935586 AATTAAAC-ATTAT
1 AATTAAACAATTAT
61935599 AA
1 AA
61935601 CTATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:61936626 original size:24 final size:24
Alignment explanation
Indices: 61936593--61936774 Score: 256
Period size: 24 Copynumber: 7.4 Consensus size: 24
61936583 CTAGAGGCCT
*
61936593 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
61936618 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
61936642 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* * *
61936666 AGCCCTTTTGATAATTGGGGCACA
1 AGCCCTTTTAATAACTGGGGCATA
*
61936690 AGCCCTTTTTTTAATAACTGGGGCACA
1 AGCCC---TTTTAATAACTGGGGCATA
61936717 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
61936741 AGCCCTTTTTAATAACTAGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
61936766 AGCCCTTTT
1 AGCCCTTTT
61936775 GCACTTCCTC
Statistics
Matches: 145, Mismatches: 8, Indels: 9
0.90 0.05 0.06
Matches are distributed among these distances:
24 96 0.66
25 27 0.19
27 22 0.15
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:61936720 original size:75 final size:75
Alignment explanation
Indices: 61936593--61936774 Score: 262
Period size: 75 Copynumber: 2.4 Consensus size: 75
61936583 CTAGAGGCCT
* *
61936593 AGCCTCTTTTAATAACTGGGGCAAAAGCCC---TTTTAATAACTGGGGCATAAGCCCTTTTGATA
1 AGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTTTTAATAACTGGGGCACAAGCCCTTTTAATA
61936655 ACTGGGGCATA
65 ACTGGGGCATA
* * *
61936666 AGCCCTTTTGATAATTGGGGCACAAGCCCTTTTTTTAATAACTGGGGCACAAGCCCTTTTAATAA
1 AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTTTTAATAACTGGGGCACAAGCCCTTTTAATAA
61936731 CTGGGGCATA
66 CTGGGGCATA
* *
61936741 AGCCCTTTTTAATAACTAGGGCATAAGCCCTTTT
1 AGCCC-TTTTAATAACTGGGGCAAAAGCCCTTTT
61936775 GCACTTCCTC
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
72 22 0.23
73 4 0.04
75 46 0.48
76 24 0.25
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (75 bp):
AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTTTTAATAACTGGGGCACAAGCCCTTTTAATAA
CTGGGGCATA
Found at i:61936849 original size:20 final size:20
Alignment explanation
Indices: 61936824--61936890 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
61936814 TTATGAATAC
61936824 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
61936844 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
61936864 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
61936884 ACCATGT
1 ATCATGT
61936891 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:61936855 original size:11 final size:11
Alignment explanation
Indices: 61936824--61936879 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
61936814 TTATGAATAC
61936824 ATCATGTGCAT
1 ATCATGTGCAT
*
61936835 ATCA--TACAT
1 ATCATGTGCAT
61936844 ATCATGTGCAT
1 ATCATGTGCAT
*
61936855 ATCA--TACAT
1 ATCATGTGCAT
*
61936864 GTCATGTGCAT
1 ATCATGTGCAT
61936875 ATCAT
1 ATCAT
61936880 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:61937417 original size:16 final size:16
Alignment explanation
Indices: 61937393--61937424 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61937383 CTCGAAATGC
61937393 CAGAATTTCGGCATTT
1 CAGAATTTCGGCATTT
*
61937409 CAGATTTTCGGCATTT
1 CAGAATTTCGGCATTT
61937425 ATCGCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (16 bp):
CAGAATTTCGGCATTT
Found at i:61943916 original size:9 final size:9
Alignment explanation
Indices: 61943902--61944123 Score: 114
Period size: 9 Copynumber: 24.0 Consensus size: 9
61943892 TATTTATGTA
61943902 TTATGTAAG
1 TTATGTAAG
*
61943911 TTATGTAAA
1 TTATGTAAG
61943920 TTATGTAAG
1 TTATGTAAG
* * **
61943929 GTATTTATC
1 TTATGTAAG
*
61943938 TTATGTAAA
1 TTATGTAAG
61943947 TTATGTAAG
1 TTATGTAAG
* *
61943956 ATATGATATATAT
1 -T-T-ATGTA-AG
61943969 TTATGT-A-
1 TTATGTAAG
61943976 TTATGTAAG
1 TTATGTAAG
*
61943985 TTATGTAAA
1 TTATGTAAG
61943994 TTATGTAAG
1 TTATGTAAG
* **
61944003 TTATTTATC
1 TTATGTAAG
*
61944012 TTATGTAAA
1 TTATGTAAG
61944021 TTATGTAAG
1 TTATGTAAG
** *
61944030 ACATGATACG
1 TTATG-TAAG
61944040 TCATTATGT-A-
1 ---TTATGTAAG
61944050 TTATGTAAG
1 TTATGTAAG
*
61944059 TTATGTAAA
1 TTATGTAAG
61944068 TTATGTAAG
1 TTATGTAAG
*
61944077 ATATGATGTATAT
1 -T-T-ATGTA-AG
*
61944090 TTATAT-A-
1 TTATGTAAG
61944097 TTATGTAAG
1 TTATGTAAG
*
61944106 TTATGTAAA
1 TTATGTAAG
61944115 TTATGTAAG
1 TTATGTAAG
61944124 ATATTTATCT
Statistics
Matches: 159, Mismatches: 36, Indels: 36
0.69 0.16 0.16
Matches are distributed among these distances:
7 17 0.11
8 5 0.03
9 105 0.66
10 11 0.07
11 4 0.03
12 12 0.08
13 5 0.03
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:61943926 original size:47 final size:47
Alignment explanation
Indices: 61943864--61944127 Score: 225
Period size: 47 Copynumber: 5.5 Consensus size: 47
61943854 AGGGATTATC
*
61943864 TTATGTAAATCATGTAAGATATGATATATATTTATGTATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAG
* *
61943911 TTATGTAAATTATGTAAGGTAT--T-TAT-CTTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGT--ATTATGTAAG
* * * * * * **
61943956 ATATGATATATATTTATGTATTATG-TAAGTTATGTAAATTATGTAAGTTATTTATC
1 TTATG-TA-A-A-TTATGTA--A-GATATGATATAT-ATTTATGT-A-TTATGTAAG
* **
61944012 TTATGTAAATTATGTAAGACATGATACGTCA-TTATGTATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATAT-ATTTATGTATTATGTAAG
* *
61944059 TTATGTAAATTATGTAAGATATGATGTATATTTATATATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAG
61944106 TTATGTAAATTATGTAAGATAT
1 TTATGTAAATTATGTAAGATAT
61944128 TTATCTTATG
Statistics
Matches: 176, Mismatches: 24, Indels: 34
0.75 0.10 0.15
Matches are distributed among these distances:
43 6 0.03
44 3 0.02
45 15 0.09
46 3 0.02
47 89 0.51
48 2 0.01
49 14 0.08
50 8 0.05
51 3 0.02
52 8 0.05
53 2 0.01
54 3 0.02
55 4 0.02
56 16 0.09
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (47 bp):
TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAG
Found at i:61943980 original size:74 final size:74
Alignment explanation
Indices: 61943859--61944076 Score: 375
Period size: 74 Copynumber: 2.9 Consensus size: 74
61943849 GTAAAAGGGA
*
61943859 TTATCTTATGTAAATCATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
61943924 GTAAGGTAT
66 GTAAGGTAT
61943933 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
*
61943998 GTAAGTTAT
66 GTAAGGTAT
* **
61944007 TTATCTTATGTAAATTATGTAAGACATGATACGTCA-TTATGTATTATGTAAGTTATGTAAATTA
1 TTATCTTATGTAAATTATGTAAGATATGATATAT-ATTTATGTATTATGTAAGTTATGTAAATTA
61944071 TGTAAG
65 TGTAAG
61944077 ATATGATGTA
Statistics
Matches: 138, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
74 137 0.99
75 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (74 bp):
TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
GTAAGGTAT
Found at i:61944068 original size:121 final size:121
Alignment explanation
Indices: 61943938--61944216 Score: 479
Period size: 121 Copynumber: 2.3 Consensus size: 121
61943928 GGTATTTATC
61943938 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
* *
61944003 TTATTTATCTTATGTAAATTATGTAAGACATGATACGTCA-TTATGTATTATGTAAG
66 ATATTTATCTTATGTAAATTATGTAAGACATGATACAT-ATTTATGTATTATGTAAG
* *
61944059 TTATGTAAATTATGTAAGATATGATGTATATTTATATATTATGTAAGTTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
* *
61944124 ATATTTATCTTATGTAAATTGTGTAAGACATGATATATATTTATGTATTATGTAAG
66 ATATTTATCTTATGTAAATTATGTAAGACATGATACATATTTATGTATTATGTAAG
*
61944180 TTATGTAAATTATATAAGATATGATATATATTTATGT
1 TTATGTAAATTATGTAAGATATGATATATATTTATGT
61944217 TGATGGGATT
Statistics
Matches: 148, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
120 1 0.01
121 147 0.99
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.46
Consensus pattern (121 bp):
TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
ATATTTATCTTATGTAAATTATGTAAGACATGATACATATTTATGTATTATGTAAG
Found at i:61944137 original size:74 final size:74
Alignment explanation
Indices: 61944059--61944201 Score: 241
Period size: 74 Copynumber: 1.9 Consensus size: 74
61944049 ATTATGTAAG
* * *
61944059 TTATGTAAATTATGTAAGATATGATGTATATTTATATATTATGTAAGTTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAGACATGATATATATTTATATATTATGTAAGTTATGTAAATTATATAAG
61944124 ATATTTATC
66 ATATTTATC
* *
61944133 TTATGTAAATTGTGTAAGACATGATATATATTTATGTATTATGTAAGTTATGTAAATTATATAAG
1 TTATGTAAATTATGTAAGACATGATATATATTTATATATTATGTAAGTTATGTAAATTATATAAG
61944198 ATAT
66 ATAT
61944202 GATATATATT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.46
Consensus pattern (74 bp):
TTATGTAAATTATGTAAGACATGATATATATTTATATATTATGTAAGTTATGTAAATTATATAAG
ATATTTATC
Found at i:61944432 original size:13 final size:14
Alignment explanation
Indices: 61944401--61944432 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
61944391 TTTTTCGTGA
61944401 TTAAAATAAAATAT
1 TTAAAATAAAATAT
61944415 TTAAAATAAAAT-T
1 TTAAAATAAAATAT
61944428 TTAAA
1 TTAAA
61944433 TACAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAAAATAAAATAT
Found at i:61944505 original size:95 final size:95
Alignment explanation
Indices: 61944347--61944659 Score: 445
Period size: 91 Copynumber: 3.2 Consensus size: 95
61944337 AATAATGATT
61944347 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAA
61944412 TATTTAAAATAAAATTTTAAATACAATTTA
66 TATTTAAAATAAAATTTTAAATACAATTTA
* *
61944442 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGGCAAAATATTTTTCCTGATTAAAAT-AAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAA
*
61944506 -A--TAAAATACAATTTTAAATACAATTTA
66 TATTTAAAATAAAATTTTAAATACAATTTA
* * *
61944533 ATTTAATTAGGTAATTTAAAATTAAAATAAAAGTAGACAAAGTATTTATCGTGATTAAATTAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG-----ATTAAAA
*
61944598 TAAAATAATATCTTCAAAATAAAACTTTAAATACAATTTA
61 T--AA-AATAT-TT-AAAATAAAATTTTAAATACAATTTA
61944638 ATTTAATTAGGTAATTTAAAAA
1 ATTTAATTAGGTAATTTAAAAA
61944660 AATATTTAAA
Statistics
Matches: 193, Mismatches: 11, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
91 73 0.38
93 1 0.01
94 3 0.02
95 59 0.31
96 8 0.04
99 1 0.01
100 2 0.01
101 1 0.01
104 1 0.01
105 44 0.23
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (95 bp):
ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAA
TATTTAAAATAAAATTTTAAATACAATTTA
Found at i:61946149 original size:27 final size:26
Alignment explanation
Indices: 61946111--61946161 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
61946101 CAATCACATA
*
61946111 GTATTTTCTCTCAAAAGAAAGAAAGTT
1 GTATTTTCTCTC-AAACAAAGAAAGTT
61946138 GTATTTTCTCTCAAACAAAGAAAG
1 GTATTTTCTCTCAAACAAAGAAAG
61946162 CTGGTTCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (26 bp):
GTATTTTCTCTCAAACAAAGAAAGTT
Found at i:61947938 original size:14 final size:15
Alignment explanation
Indices: 61947914--61947943 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
61947904 CACAAACTTC
61947914 AGAATTTATGTATTT
1 AGAATTTATGTATTT
61947929 AGAA-TTATGTATTT
1 AGAATTTATGTATTT
61947943 A
1 A
61947944 TATCAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
AGAATTTATGTATTT
Found at i:61949043 original size:26 final size:28
Alignment explanation
Indices: 61949014--61949072 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
61949004 CCCAAAAAAC
*
61949014 TTTAATATTAT-TTTAAAT-AATAGTAT
1 TTTAATATTATATTTAAATGAATAATAT
* * *
61949040 TTTAATTTTTTATTTAAATGAATAATTT
1 TTTAATATTATATTTAAATGAATAATAT
61949068 TTTAA
1 TTTAA
61949073 AATTTAACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.33
27 7 0.26
28 11 0.41
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTAATATTATATTTAAATGAATAATAT
Found at i:61949123 original size:16 final size:16
Alignment explanation
Indices: 61949102--61949155 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
61949092 AGAATTAGAT
61949102 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
61949118 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
*
61949128 AAAATTTGAAATCTTT
1 AAAATTTGAAATCTTG
61949144 AAAATTTGAAAT
1 AAAATTTGAAAT
61949156 TATTTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 18 0.58
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:61949344 original size:14 final size:15
Alignment explanation
Indices: 61949320--61949372 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
61949310 ACCCCTAAAT
61949320 CCCTAAACTCATAAC
1 CCCTAAACTCATAAC
*
61949335 CCCT-AACTCATAAA
1 CCCTAAACTCATAAC
* * * *
61949349 CCTTAGACCCTTAAC
1 CCCTAAACTCATAAC
61949364 CCCTAAACT
1 CCCTAAACT
61949373 TTAAACTCTA
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.36, C:0.40, G:0.02, T:0.23
Consensus pattern (15 bp):
CCCTAAACTCATAAC
Found at i:61949566 original size:22 final size:22
Alignment explanation
Indices: 61949541--61949603 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
61949531 CCTTGAGATA
*
61949541 TTAACTCATAAACTATAAACCC
1 TTAACTCATAAACCATAAACCC
* *
61949563 TTAAAC-CTTAAACCCTAAACCC
1 TT-AACTCATAAACCATAAACCC
* * *
61949585 ATAATTCATAAACCTTAAA
1 TTAACTCATAAACCATAAA
61949604 ATATTAACTC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 27 0.84
23 3 0.09
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (22 bp):
TTAACTCATAAACCATAAACCC
Found at i:61949637 original size:25 final size:22
Alignment explanation
Indices: 61949571--61949634 Score: 58
Period size: 25 Copynumber: 2.8 Consensus size: 22
61949561 CCTTAAACCT
61949571 TAAACCCTAAACCCATAA-TTCA
1 TAAACCCTAAA-CCATAACTTCA
* **
61949593 TAAACCTTAAAATATTAACTCATCA
1 TAAACCCTAAACCA-TAACT--TCA
61949618 TAAACCCTAAACCATAA
1 TAAACCCTAAACCATAA
61949635 ACTATATACT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
21 1 0.03
22 13 0.41
23 1 0.03
24 3 0.09
25 14 0.44
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAACCCTAAACCATAACTTCA
Found at i:61949979 original size:40 final size:40
Alignment explanation
Indices: 61949930--61950060 Score: 158
Period size: 41 Copynumber: 3.2 Consensus size: 40
61949920 ATGTTTTTGT
*
61949930 GGCGCTTTTTAAAAAAACGCCGCTATAAATC-GAGCATTAGC
1 GGCG-TTTTTAAAAAAA-GCCGCTATAGATCTGAGCATTAGC
*
61949971 GGCGTTTTT-CAAAAAGCACGCTATAGATCTGAGCATTAGC
1 GGCGTTTTTAAAAAAAGC-CGCTATAGATCTGAGCATTAGC
* *
61950011 GGCGTTTTTAAAAAAGTGCCGCTATAGGTCTGAGCATTAGC
1 GGCGTTTTTAAAAAA-AGCCGCTATAGATCTGAGCATTAGC
* *
61950052 AGCGCTTTT
1 GGCGTTTTT
61950061 GGTAAAACGC
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.03
39 15 0.19
40 24 0.30
41 36 0.46
42 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
GGCGTTTTTAAAAAAAGCCGCTATAGATCTGAGCATTAGC
Found at i:61951477 original size:3 final size:3
Alignment explanation
Indices: 61951471--61951517 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
61951461 TATGTAAATA
*
61951471 AAT AAT AAT AAT AAT GAT AAT AAAT AAT -AT AA- AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
61951514 AAT A
1 AAT A
61951518 GAAATATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 6 0.15
3 30 0.77
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:61951512 original size:22 final size:22
Alignment explanation
Indices: 61951467--61951558 Score: 66
Period size: 22 Copynumber: 4.2 Consensus size: 22
61951457 AACATATGTA
* *
61951467 AATAAATAATAATAATAATGAT
1 AATAAATAATAATAAAAATAAT
61951489 AATAAATAAT-ATAAAAAATAAT
1 AATAAATAATAAT-AAAAATAAT
*
61951511 AAT-AATAGA-AATATAAATAGAT
1 AATAAATA-ATAATAAAAATA-AT
* * *
61951533 AAATAAA-AATTAGATAAATAAT
1 -AATAAATAATAATAAAAATAAT
61951555 AATA
1 AATA
61951559 GTATTTGAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
21 16 0.28
22 28 0.48
23 12 0.21
24 2 0.03
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (22 bp):
AATAAATAATAATAAAAATAAT
Found at i:61951522 original size:15 final size:15
Alignment explanation
Indices: 61951474--61951559 Score: 51
Period size: 15 Copynumber: 5.9 Consensus size: 15
61951464 GTAAATAAAT
61951474 AATAATAATAAT-GA
1 AATAATAATAATAGA
*
61951488 TAATAAATAAT-ATAAAA
1 -AAT-AATAATAAT-AGA
61951505 AATAATAATAATAGA
1 AATAATAATAATAGA
61951520 AAT-AT-A-AATAGA
1 AATAATAATAATAGA
* *
61951532 TA-AATAAAAATTAGA
1 AATAATAATAA-TAGA
*
61951547 TA-AATAATAATAG
1 AATAATAATAATAG
61951560 TATTTGAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
12 9 0.15
13 2 0.03
14 7 0.12
15 29 0.49
16 11 0.19
17 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AATAATAATAATAGA
Found at i:61951536 original size:14 final size:15
Alignment explanation
Indices: 61951519--61951553 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
61951509 ATAATAATAG
*
61951519 AAATATAAA-TAGAT
1 AAATAAAAATTAGAT
61951533 AAATAAAAATTAGAT
1 AAATAAAAATTAGAT
61951548 AAATAA
1 AAATAA
61951554 TAATAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATAAAAATTAGAT
Found at i:61953315 original size:143 final size:143
Alignment explanation
Indices: 61953094--61953890 Score: 1058
Period size: 143 Copynumber: 5.6 Consensus size: 143
61953084 CTTCAATGAG
* * * *
61953094 ATAAGAATT-ACTGTCTTCAGTCTGCGCCGCTGCAACTTCAGGGGGATAAGACTGGTGGCTTCAA
1 ATAAG-ATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAA
** * * *
61953158 TCCACTCCACTGCAACTTTAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATATGTTCCACT
65 TCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACT
* *
61953223 GCAATTCTAGGGAA
130 GCAACTCCAGGGAA
* * * *
61953237 ATAAGATTCACTTTCTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGGCTAGTAGCTTCAAT
1 ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * * *
61953302 CTGCTCCAGTGCAACTTCAGAAAGATAAGATCCGCCATAATCTATAGCTTCAATCTGTTCCACTG
66 CTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTG
61953367 CAACTCCAGGGAA
131 CAACTCCAGGGAA
* * * * *
61953380 ATAAGATTCACTTTTTTCAATCTGCTTCGCTGCAACTTTAGGGAGATAAGGCTGGTAGCTTCAAT
1 ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * * * * *
61953445 CTGCTTCACCGCAACTTCAAGAAGATAAGATCCACCATAATTTGTAGCTTCAATCTATTCTACTG
66 CTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTG
61953510 CAACTCCAGGGAA
131 CAACTCCAGGGAA
* * * * * *
61953523 ATGAGATTCGCTTTTTTCAGTCTGCTTCACTGCAATTTCAGGGAGATAAGGCTGGTGGCTTCAAT
1 ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * * *
61953588 CTGCTCCACTACAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCATTCTGTTTCAATG
66 CTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTG
61953653 CAACTCCAGGGAA
131 CAACTCCAGGGAA
* * * * *
61953666 ATAAGATTCGCTTTCTTCAGTCTGTTCTGCTACAACTTCAGGGAAATAAGGCTGGTGGCTTCAAT
1 ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * *** *
61953731 CTGCTCCACTACAA-TATCAGAAAGATAAGATCAATCATAATTTGTAGCTTCAATTTGTTCCACT
66 CTGCTCCACTGCAACT-TCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACT
*
61953795 GCAACTCTAGGGAA
130 GCAACTCCAGGGAA
* * *
61953809 ATAAGATTCGCTTTCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGATTCAAT
1 ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
*
61953874 CTGCTCCACTGCTACTT
66 CTGCTCCACTGCAACTT
61953891 TAAGGAGATG
Statistics
Matches: 572, Mismatches: 79, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
142 4 0.01
143 567 0.99
144 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (143 bp):
ATAAGATTCACTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
CTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTG
CAACTCCAGGGAA
Found at i:61953318 original size:44 final size:45
Alignment explanation
Indices: 61953251--61953616 Score: 137
Period size: 44 Copynumber: 7.8 Consensus size: 45
61953241 GATTCACTTT
* *
61953251 CTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGGCT-AGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* ** *
61953295 CTTCAATCTGCTCCAGTGCAACTTCAGAAAGATAAGATCCGCCATAATCTATAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----G-C-TAA---GTAG
* * * ** * * **
61953349 CTTCAATCTGTTCCACTGCAACTCCAGGGAAATAAGATTCACTTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* * * * *
61953394 TTTCAATCTGCTTCGCTGCAACTTTAGGGAGATAAGGCT-GGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* * * * *
61953438 CTTCAATCTGCTTCACCGCAACTTCAAGAAGATAAGATCCACCATAATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG-----GC-TAA---GTAG
** * * * * * ** **
61953492 CTTCAATCTATTCTACTGCAACTCCAGGGAAATGA-GATTCGCTTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAG-TAG
* * * * * *
61953537 TTTCAGTCTGCTTCACTGCAATTTCAGGGAGATAAGGCT-GGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
* *
61953581 CTTCAATCTGCTCCACTACAACTTCAGGAAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
61953617 ATCCGCCATA
Statistics
Matches: 225, Mismatches: 75, Indels: 44
0.65 0.22 0.13
Matches are distributed among these distances:
44 94 0.42
45 58 0.26
46 2 0.01
47 1 0.00
48 3 0.01
49 2 0.01
50 2 0.01
51 1 0.00
54 62 0.28
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAAGTAG
Found at i:61960572 original size:19 final size:20
Alignment explanation
Indices: 61960550--61960601 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
61960540 GGTCATTTCG
* *
61960550 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAGATGCA
61960569 TGAAATGTAATGCAGATGCA
1 TGAAATGTAATGCAGATGCA
61960589 TGAAATG-AATGCA
1 TGAAATGTAATGCA
61960602 AAAAGAGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (20 bp):
TGAAATGTAATGCAGATGCA
Found at i:61963238 original size:3 final size:3
Alignment explanation
Indices: 61963230--61963392 Score: 158
Period size: 3 Copynumber: 55.7 Consensus size: 3
61963220 TAAATAAATA
* * * *
61963230 AAT AAT AAT AAT -AT AAT AGT AA- AAA AAT AAT AGT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
61963276 AAT AAT AAT AAAT AAT AAT AGT AA- AA- AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
61963320 AGT AAT AAT AAT GAT AAT AAAT AAT -AT AAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
61963365 AGT AGT AGT AGT AA- AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61963393 AACAATGATA
Statistics
Matches: 136, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
2 12 0.09
3 118 0.87
4 6 0.04
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:61963698 original size:15 final size:15
Alignment explanation
Indices: 61963678--61963707 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61963668 CATTTTATTT
*
61963678 ATATTAGGATAATTA
1 ATATTAAGATAATTA
61963693 ATATTAAGATAATTA
1 ATATTAAGATAATTA
61963708 TAAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:61965772 original size:13 final size:12
Alignment explanation
Indices: 61965754--61965783 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
61965744 AAAACAAATG
61965754 AATAATATGTAA
1 AATAATATGTAA
61965766 CAATAATATGTAA
1 -AATAATATGTAA
61965779 AATAA
1 AATAA
61965784 CATAAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (12 bp):
AATAATATGTAA
Found at i:61966028 original size:24 final size:24
Alignment explanation
Indices: 61965996--61966045 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
61965986 ATAATATATA
61965996 GAATAATTTCAAATAAAACAAATT
1 GAATAATTTCAAATAAAACAAATT
61966020 GAATAATTTCAAATAAAACAAATT
1 GAATAATTTCAAATAAAACAAATT
61966044 GA
1 GA
61966046 TTTAACTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (24 bp):
GAATAATTTCAAATAAAACAAATT
Found at i:61968363 original size:14 final size:15
Alignment explanation
Indices: 61968331--61968386 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 15
61968321 AAAATAGTAC
61968331 ATATTATTTTATCGATT
1 ATATTATTTTAT-G-TT
61968348 ATATTA-TTTATGTT
1 ATATTATTTTATGTT
61968362 AT-TATATTTTAT-TT
1 ATAT-TATTTTATGTT
61968376 ATA-TATTTTAT
1 ATATTATTTTAT
61968387 TACATATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
13 9 0.25
14 10 0.28
15 6 0.17
16 5 0.14
17 6 0.17
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (15 bp):
ATATTATTTTATGTT
Found at i:61968382 original size:13 final size:14
Alignment explanation
Indices: 61968335--61968387 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 14
61968325 TAGTACATAT
**
61968335 TATTTTATCGATTA
1 TATTTTATTTATTA
61968349 TATTATTTATGTTATTA
1 TA-T-TTTAT-TTATTA
61968366 TATTTTATTTA-TA
1 TATTTTATTTATTA
61968379 TATTTTATT
1 TATTTTATT
61968388 ACATATCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 11 0.32
14 5 0.15
15 6 0.18
16 6 0.18
17 6 0.18
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (14 bp):
TATTTTATTTATTA
Found at i:61968412 original size:14 final size:14
Alignment explanation
Indices: 61968345--61968413 Score: 63
Period size: 13 Copynumber: 4.9 Consensus size: 14
61968335 TATTTTATCG
61968345 ATTATAT-TATTTAT
1 ATTATATATATTT-T
*
61968359 GTTAT-TATATTTT
1 ATTATATATATTTT
61968372 ATT-TATATATTTT
1 ATTATATATATTTT
61968385 ATTACATATCATATTTT
1 ATT--ATAT-ATATTTT
*
61968402 GTTATATATATT
1 ATTATATATATT
61968414 ATTCCTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
12 1 0.02
13 15 0.33
14 14 0.30
15 4 0.09
16 3 0.07
17 9 0.20
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (14 bp):
ATTATATATATTTT
Found at i:61975456 original size:16 final size:17
Alignment explanation
Indices: 61975437--61975476 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
61975427 AATCTTATTT
61975437 TTATATAATTATT-TTA
1 TTATATAATTATTGTTA
61975453 TTATAT-ATTATTGTTA
1 TTATATAATTATTGTTA
*
61975469 TTTTATAA
1 TTATATAA
61975477 AATATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 14 0.67
17 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATATAATTATTGTTA
Found at i:61975470 original size:21 final size:21
Alignment explanation
Indices: 61975445--61975485 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61975435 TTTTATATAA
* *
61975445 TTATTTTATTATATATTATTG
1 TTATTTTATAAAATATTATTG
61975466 TTATTTTATAAAATATTATT
1 TTATTTTATAAAATATTATT
61975486 ATTTCTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTTATAAAATATTATTG
Found at i:61975474 original size:18 final size:17
Alignment explanation
Indices: 61975413--61975526 Score: 56
Period size: 18 Copynumber: 6.4 Consensus size: 17
61975403 TATATTGTTA
*
61975413 TTTATTTTAT-TTTTAAT
1 TTTATTTTATATATT-AT
*
61975430 CTTATTTTTATATAATTAT
1 TTTA-TTTTATAT-ATTAT
61975449 TTTA--TTATATATTAT
1 TTTATTTTATATATTAT
* *
61975464 TGTTATTTTATAAAATAT
1 T-TTATTTTATATATTAT
*
61975482 TATTATTTCTCAT-TCTTAT
1 T-TTATTT-T-ATATATTAT
*
61975501 TTATATATTATTATATTAT
1 TT-TATTTTA-TATATTAT
*
61975520 ATTATTT
1 TTTATTT
61975527 ATTTATATAT
Statistics
Matches: 73, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
15 6 0.08
16 9 0.12
17 4 0.05
18 29 0.40
19 21 0.29
20 4 0.05
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (17 bp):
TTTATTTTATATATTAT
Found at i:61975520 original size:13 final size:13
Alignment explanation
Indices: 61975432--61975534 Score: 51
Period size: 13 Copynumber: 8.2 Consensus size: 13
61975422 TTTTTAATCT
*
61975432 TATTTTTATA-TA
1 TATTATTATATTA
*
61975444 -ATTATTTTATTA
1 TATTATTATATTA
61975456 TA-TATTAT-TGT-
1 TATTATTATAT-TA
**
61975467 TATT-TTATAAAA
1 TATTATTATATTA
*
61975479 TATTATTAT-TTC
1 TATTATTATATTA
* *
61975491 TCATTCTTATTTATA
1 T-ATTATTATAT-TA
61975506 TATTATTATATTA
1 TATTATTATATTA
61975519 TATTATT-TATTTA
1 TATTATTATA-TTA
61975532 TAT
1 TAT
61975535 ATACGTATAT
Statistics
Matches: 68, Mismatches: 12, Indels: 21
0.67 0.12 0.21
Matches are distributed among these distances:
11 14 0.21
12 16 0.24
13 27 0.40
14 9 0.13
15 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:61975576 original size:16 final size:15
Alignment explanation
Indices: 61975552--61975594 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
61975542 TATACTTTCA
*
61975552 TATTATATATTATAAT
1 TATTTTATATTAT-AT
*
61975568 TATTTTATATTATGT
1 TATTTTATATTATAT
*
61975583 CATTTTATATTA
1 TATTTTATATTA
61975595 CTACGTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (15 bp):
TATTTTATATTATAT
Found at i:61975784 original size:21 final size:21
Alignment explanation
Indices: 61975760--61975810 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
61975750 ATCATCAATT
*
61975760 ACTTATTTTGTAT-TATTCTAA
1 ACTTATTTT-TATATATTATAA
*
61975781 ACTTATGTTTATATATTATAA
1 ACTTATTTTTATATATTATAA
*
61975802 AATTATTTT
1 ACTTATTTT
61975811 ATTATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (21 bp):
ACTTATTTTTATATATTATAA
Found at i:61975959 original size:19 final size:20
Alignment explanation
Indices: 61975937--61975978 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
61975927 ATATATTGCA
*
61975937 TATTAAATACTAT-TTTTAT
1 TATTAAATACCATATTTTAT
61975956 TATTAAATACCATATTTTAT
1 TATTAAATACCATATTTTAT
61975976 TAT
1 TAT
61975979 ACGAATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTAAATACCATATTTTAT
Found at i:61981135 original size:25 final size:25
Alignment explanation
Indices: 61981089--61981139 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
61981079 GTTTAGGGGC
* *
61981089 AAAATTGTAATTTTCCCCAAATATG
1 AAAATTGTAATTTTCACAAAATATG
*
61981114 AAAATTGTAATTTTTACAAAATATG
1 AAAATTGTAATTTTCACAAAATATG
61981139 A
1 A
61981140 TTTTGGGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (25 bp):
AAAATTGTAATTTTCACAAAATATG
Found at i:61981649 original size:47 final size:47
Alignment explanation
Indices: 61981582--61981750 Score: 204
Period size: 47 Copynumber: 3.6 Consensus size: 47
61981572 GATGCGAATG
61981582 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCA
* * * *
61981629 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAC---G--
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGGCA
*
61981675 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCA
* *
61981722 TCCGAGCTCGTTAAGTTGAGTCCAAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTC
61981751 ACCTATGGAT
Statistics
Matches: 101, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 27 0.27
47 54 0.53
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCA
Found at i:61981683 original size:93 final size:93
Alignment explanation
Indices: 61981533--61981797 Score: 433
Period size: 93 Copynumber: 2.9 Consensus size: 93
61981523 CGGATATTTG
* * * *
61981533 GGCAGCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
61981597 TTGAGTCCAAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
61981625 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
61981690 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * *
61981718 GGCATCCGAGCTCGTTAAGTTGAGTCCAAGTTCACCTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
61981783 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
61981798 CTTATGGGCG
Statistics
Matches: 162, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
92 31 0.19
93 131 0.81
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:61981696 original size:46 final size:46
Alignment explanation
Indices: 61981538--61981804 Score: 219
Period size: 46 Copynumber: 5.8 Consensus size: 46
61981528 ATTTGGGCAG
* *
61981538 CCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGT
* * *
61981583 CCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAC---G--T
*
61981630 CCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGT
1 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGT
* * * *
61981676 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAC---G--T
* * * * *
61981723 CCGAGCTCGTTAAGTTGAGTCCAAGTTCACCTATGGATACGAACGC
1 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGT
* * *
61981769 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGG
61981805 GCGGGTTACA
Statistics
Matches: 177, Mismatches: 26, Indels: 37
0.74 0.11 0.15
Matches are distributed among these distances:
42 5 0.03
43 8 0.05
45 33 0.19
46 59 0.33
47 54 0.31
48 5 0.03
50 7 0.04
51 6 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGT
Found at i:61989174 original size:15 final size:15
Alignment explanation
Indices: 61989154--61989183 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61989144 CATTTTATTT
*
61989154 ATATTAGGATAATTA
1 ATATTAAGATAATTA
61989169 ATATTAAGATAATTA
1 ATATTAAGATAATTA
61989184 TGAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:61990150 original size:12 final size:12
Alignment explanation
Indices: 61990130--61990159 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
61990120 CTACTTCCCC
61990130 TTTACTGTTATT
1 TTTACTGTTATT
*
61990142 TTTATTGTTATT
1 TTTACTGTTATT
61990154 TTTACT
1 TTTACT
61990160 ATTTTACAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTACTGTTATT
Found at i:61990613 original size:20 final size:20
Alignment explanation
Indices: 61990581--61990620 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
61990571 CATTCAATTA
61990581 ATTTATATTTGGTTTATTTTT
1 ATTTATATTTGGTTT-TTTTT
61990602 ATTTAT-TTTGGTTTTTTTT
1 ATTTATATTTGGTTTTTTTT
61990621 GGTGTTGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (20 bp):
ATTTATATTTGGTTTTTTTT
Found at i:61991284 original size:133 final size:133
Alignment explanation
Indices: 61990886--61991708 Score: 1207
Period size: 133 Copynumber: 6.2 Consensus size: 133
61990876 ACTGCAACTT
* * *
61990886 CTCCGCTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTATTACC-CTACGAC-TTAGGG
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACT-CCACTACAACTTTAGGG
* * * * *
61990949 AGTTA--A-GGCTTGCTTAAATCTGCTTCACCGCAACTTTAGGAAGCCAAGATTCGTCGTCTTCA
65 AGCTAGGATGG-TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCG
61991011 ATTTG
129 ATTTG
* * ** *
61991016 CTCCACTGCAACTTCATGGAAACAAGATCTACAATCTTCAGCCTGTTACC-CTACGAC-TTAGGG
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACT-CCACTACAACTTTAGGG
* * * * *
61991079 AGTTA--A-GGCTTGCTTAAATCTACTTCACCGCAATTTCAGGAAGCCAAGATTCGTCGTCTTCG
65 AGCTAGGATGG-TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCG
61991141 ATTTG
129 ATTTG
* *
61991146 CTCCACTGCAACTTCATGGAGACAAGATTTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
* * *
61991211 GCTAGGATGGTGGGTTAAATCTGCTTCACTACAACTTCAGGAAGCCAAAATTCGTCGTCTTCGAT
66 GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGAT
61991276 TTG
131 TTG
* *
61991279 CTCCACTGCAACTTCAGGAAGACAAGATCTACAATCTTCAGCCTACTCTACTACAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
* * *
61991344 GCTAGTATGGTGGCTTAAATCTGCTTTACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCAAT
66 GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGAT
61991409 TTG
131 TTG
* *
61991412 CTCCACTACAATTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
* * *
61991477 GCTAGGATGGTGGCTTAAATCTGCTTCACTACAACTTCAAGAAGCCAAGATTCGTCATCTTCGAT
66 GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGAT
61991542 TTG
131 TTG
*
61991545 CTCCACTGCGACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
*
61991610 GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTTGTCTTCGAT
66 GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGAT
*
61991675 CTG
131 TTG
*
61991678 CTCCACTGCAACTTCATGGAGACAAGATCTA
1 CTCCACTGCAACTTCAGGGAGACAAGATCTA
61991709 TAGAATCAGT
Statistics
Matches: 637, Mismatches: 51, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
129 2 0.00
130 171 0.27
131 10 0.02
133 452 0.71
134 2 0.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (133 bp):
CTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
GCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGAT
TTG
Found at i:61991450 original size:45 final size:43
Alignment explanation
Indices: 61991228--61991707 Score: 105
Period size: 45 Copynumber: 10.8 Consensus size: 43
61991218 TGGTGGGTTA
* * * * * *
61991228 AATCTGCTTCACTACAACTTCAGGAAGCCAAAATTCGTCGTCTTC
1 AATCTGCTCCACTACAATTTCAGGGAGACAAGA-TC-TCATCTTC
* * * * *
61991273 GATTTGCTCCACTGCAACTTCAGGAAGACAAGATCTACAATCTTC
1 AATCTGCTCCACTACAATTTCAGGGAGACAAGATCT-C-ATCTTC
** * * * * ** *
61991318 AGCCTACTCTACTACAACTTT-AGGGAG-CTAGTATGGT-GGCTTA
1 AATCTGCTCCACTACAA-TTTCAGGGAGACAAG-AT-CTCATCTTC
** * * * * *
61991361 AATCTGCTTTACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTC
1 AATCTGCTCCACTACAATTTCAGGGAGACAAGA-TC-TCATCTTC
*
61991406 AATTTGCTCCACTACAATTTCAGGGAGACAAGATCTACAATCTTC
1 AATCTGCTCCACTACAATTTCAGGGAGACAAGATCT-C-ATCTTC
** * * * ** *
61991451 AGCCTACTCCACTACAACTTT-AGGGAG-CTAGGATGGT-GGCTTA
1 AATCTGCTCCACTACAA-TTTCAGGGAGAC-AAGAT-CTCATCTTC
* * * * *
61991494 AATCTGCTTCACTACAACTTCAAGAAGCCAAGATTCGTCATCTTC
1 AATCTGCTCCACTACAATTTCAGGGAGACAAGA-TC-TCATCTTC
* * * * *
61991539 GATTTGCTCCACTGCGACTTCAGGGAGACAAGATCTACAATCTTC
1 AATCTGCTCCACTACAATTTCAGGGAGACAAGATCT-C-ATCTTC
** * * * ** *
61991584 AGCCTACTCCACTACAACTTT-AGGGAG-CTAGGATGGT-GGCTTA
1 AATCTGCTCCACTACAA-TTTCAGGGAGAC-AAGAT-CTCATCTTC
* * * * * **
61991627 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTTGTCTTC
1 AATCTGCTCCACTACAATTTCAGGGAGACAAGA-TC-TCATCTTC
* * * *
61991672 GATCTGCTCCACTGCAACTTCATGGAGACAAGATCT
1 AATCTGCTCCACTACAATTTCAGGGAGACAAGATCT
61991708 ATAGAATCAG
Statistics
Matches: 307, Mismatches: 98, Indels: 62
0.66 0.21 0.13
Matches are distributed among these distances:
42 6 0.02
43 71 0.23
44 27 0.09
45 193 0.63
46 10 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
AATCTGCTCCACTACAATTTCAGGGAGACAAGATCTCATCTTC
Found at i:61999883 original size:20 final size:20
Alignment explanation
Indices: 61999851--61999889 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
61999841 CATTCAATTA
61999851 ATTTATATTTGGTTTATTTTT
1 ATTTATATTTGGTTT-TTTTT
61999872 ATTTAT-TTTGGTTTTTTT
1 ATTTATATTTGGTTTTTTT
61999890 GGGTGTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.74
Consensus pattern (20 bp):
ATTTATATTTGGTTTTTTTT
Found at i:62003901 original size:27 final size:27
Alignment explanation
Indices: 62003871--62003925 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
62003861 TCCAAGCCAA
62003871 TTTAGACTTAGCAGTTCTTCATACTTT
1 TTTAGACTTAGCAGTTCTTCATACTTT
*
62003898 TTTAGACTTAGCAGTTCTTCATGCTTT
1 TTTAGACTTAGCAGTTCTTCATACTTT
62003925 T
1 T
62003926 GTGTCAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (27 bp):
TTTAGACTTAGCAGTTCTTCATACTTT
Found at i:62005214 original size:21 final size:22
Alignment explanation
Indices: 62005185--62005225 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
62005175 ATTACATATT
*
62005185 TTTAGTTTTA-ATTTTTTAAAA
1 TTTAGTTTTAGAATTTTTAAAA
*
62005206 TTTATTTTTAGAATTTTTAA
1 TTTAGTTTTAGAATTTTTAA
62005226 CCAGTCACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (22 bp):
TTTAGTTTTAGAATTTTTAAAA
Found at i:62017386 original size:286 final size:286
Alignment explanation
Indices: 62016868--62017400 Score: 996
Period size: 286 Copynumber: 1.9 Consensus size: 286
62016858 ATTCAAAATG
*
62016868 AAAGGCCATAAGCGTAGCAGACAAGAACTTTATTCAAGAATCATATCAAGATATACGAGCGAGAC
1 AAAGGCCATAAGCATAGCAGACAAGAACTTTATTCAAGAATCATATCAAGATATACGAGCGAGAC
*
62016933 AAAAGTAAAATAACATGACAACTAAAACTGTAAGACATGGATCAGCTTAGCAGGAAATCAATCTT
66 AAAAGTAAAATAAAATGACAACTAAAACTGTAAGACATGGATCAGCTTAGCAGGAAATCAATCTT
*
62016998 TCTCTCATCTTTAAAGAAATGTCAAAGTTTACAGAAGTAGTCAATCAACTTAGCAGTCCCTAATT
131 TCTCTCATCTTTAAAGAAATGTCAAAGTTTACAGAAGTAGTCAATCAACTTAGCAGTACCTAATT
62017063 TTCAAGAGTAAATAATTAAAATTACAATATAAAACAGTCCCTCAAATTAGCATAAGGAACTAAAT
196 TTCAAGAGTAAATAATTAAAATTACAATATAAAACAGTCCCTCAAATTAGCATAAGGAACTAAAT
62017128 AAATAAATAAGCATTCAAAATAACAA
261 AAATAAATAAGCATTCAAAATAACAA
*
62017154 AAAGGTCATAAGCATAGCAGACAAGAACTTTATTCAAGAATCATATCAAGATATACGAGCGAGAC
1 AAAGGCCATAAGCATAGCAGACAAGAACTTTATTCAAGAATCATATCAAGATATACGAGCGAGAC
* *
62017219 AAAAAGTAAAATAAAATGATAACTAAGACTGTAAGACATGGATCAGCTTAGCAGGAAATCAATCT
66 -AAAAGTAAAATAAAATGACAACTAAAACTGTAAGACATGGATCAGCTTAGCAGGAAATCAATCT
62017284 TTCTCTCATCTTTAAAGAAATGTCAAAGTTTACAGAAGTAGTCAATCAACTTAGCAG-ACCTAAT
130 TTCTCTCATCTTTAAAGAAATGTCAAAGTTTACAGAAGTAGTCAATCAACTTAGCAGTACCTAAT
62017348 TTTCAAGAGTAAATAATTAAAATTACAATATAAAACAGTCCCTCAAATTAGCA
195 TTTCAAGAGTAAATAATTAAAATTACAATATAAAACAGTCCCTCAAATTAGCA
62017401 GGCGTTTTAT
Statistics
Matches: 240, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
286 122 0.51
287 118 0.49
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.25
Consensus pattern (286 bp):
AAAGGCCATAAGCATAGCAGACAAGAACTTTATTCAAGAATCATATCAAGATATACGAGCGAGAC
AAAAGTAAAATAAAATGACAACTAAAACTGTAAGACATGGATCAGCTTAGCAGGAAATCAATCTT
TCTCTCATCTTTAAAGAAATGTCAAAGTTTACAGAAGTAGTCAATCAACTTAGCAGTACCTAATT
TTCAAGAGTAAATAATTAAAATTACAATATAAAACAGTCCCTCAAATTAGCATAAGGAACTAAAT
AAATAAATAAGCATTCAAAATAACAA
Done.