Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold18
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: 4432388
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 63034 characters in sequence are not A, C, G, or T
File 24 of 27
Found at i:3894926 original size:165 final size:166
Alignment explanation
Indices: 3894729--3895443 Score: 660
Period size: 163 Copynumber: 4.3 Consensus size: 166
3894719 TTCTCCGTAA
* *
3894729 AAATTTTTTC-AGGAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTA
1 AAATTTTTTCGAAG-GGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTA
* *
3894793 AATCATATTAAATTAATTTTCAAAAATTCATTCATTTTCAAGAATTTTTTA-TTTTTCCTTGAAA
65 AATCATATTAAATCATTTTTCAAAAATTCATTCATTTTCAAGAATTTTTTATTTTTTCCTTGAAA
* *
3894857 CTCTTTTATTTTCGAAATGC-AGAGTTTTTTACTACGT
130 CTCTTTTATTTTCGAAATACGA-AGTTTTCTACTACGT
*
3894894 AAATTTTTTCGAAGGGATTTTTCCTAGTTTTTAAATTTTT-AAATTCATCAAAT-TTATTATTTA
1 AAATTTTTTCGAAGGGATTTTTCTTAGTTTTT-AATTTTTAAAATTCATCAAATATTATTATTTA
3894957 AATCATATTAAATCAGTTTTT-AAAAA-TCATTCATTTTCATAG-ATTTTTTATTTTTTCCTTGA
65 AATCATATTAAATCA-TTTTTCAAAAATTCATTCATTTTCA-AGAATTTTTTATTTTTTCCTTGA
* *
3895019 AACT-TTCTT-TTTTCGAAATACGAAATTTTCTACTCCGT
128 AACTCTT-TTATTTTCGAAATACGAAGTTTTCTACTACGT
* * * * *
3895057 AACTTTTTTCG-GGGGAATTTTTCTTAGTTTTTAATTTTTTTAAATTCATCAAATATTATTAGTC
1 AAATTTTTTCGAAGGG-ATTTTTCTTAGTTTTTAA-TTTTTAAAATTCATCAAATATTATTATTT
** * * * * ** * * *
3895121 ATTTCACATTAAATTATTTTTCAAAAATTCTTTCATTATCATTAGTTTTTGAATTTTTTTCTTGA
64 AAATCATATTAAATCATTTTTCAAAAATTCATTCATTTTCAAGAATTTTT-TATTTTTTCCTTGA
* ** * * *
3895186 AATTCTCATATTTTCAAAATACGAAGATTTGTACTACGT
128 AACTCTTTTATTTTCGAAATACGAAGTTTTCTACTACGT
* * * *
3895225 AATTTTTTTAGGGAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATT-TTATTTA
1 AAATTTTTT-CGAAGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTA
** * * * * * * *
3895289 TTTTATATTAAATCATTTTTAAAAAATTTC-TTCATATTCATG-AGTTTTAATTTTTTCTTTGAA
65 AATCATATTAAATCATTTTTCAAAAA-TTCATTCATTTTCAAGAATTTTTTATTTTTTCCTTGAA
* * ** * *
3895352 GTCCCTTTT-TTTAAG-AA-ACTAAGTTTTCTTCT-CTGT
129 -ACTCTTTTATTTTCGAAATACGAAGTTTTCTACTAC-GT
* * ** *
3895388 AAATCTTTTT-GGAGGGATTTTT-TTCAATTTAAAATTTTTAAAATTCATCTAATATT
1 AAAT-TTTTTCGAAGGGATTTTTCTT-AGTTTTTAATTTTTAAAATTCATCAAATATT
3895444 GTTACAAAAC
Statistics
Matches: 457, Mismatches: 69, Indels: 51
0.79 0.12 0.09
Matches are distributed among these distances:
161 2 0.00
162 44 0.10
163 92 0.20
164 74 0.16
165 83 0.18
166 32 0.07
167 52 0.11
168 57 0.12
169 18 0.04
170 3 0.01
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.51
Consensus pattern (166 bp):
AAATTTTTTCGAAGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAA
ATCATATTAAATCATTTTTCAAAAATTCATTCATTTTCAAGAATTTTTTATTTTTTCCTTGAAAC
TCTTTTATTTTCGAAATACGAAGTTTTCTACTACGT
Found at i:3895426 original size:331 final size:328
Alignment explanation
Indices: 3894714--3895443 Score: 746
Period size: 331 Copynumber: 2.2 Consensus size: 328
3894704 AATTATGAGT
* * ** **
3894714 TTTTCTTCTCCGTAAAAATTTTTTCAGGAGG-ATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
1 TTTTCTACTCCGT--AAATTTTTTC-GGGGGAATTTTTCTTAATTTAAAATTTTTAAAATTCATC
* * * * *
3894778 AAATATTATTATTTAAATCATATTAAATTAATTTTCAAAAATTCATTCATTTTCAAGAATTTTTT
63 AAATATTATTAGTCAAATCACATTAAATTAATTTTCAAAAATTCATTCATTATCAAGAATTTTTA
** * * * *
3894843 ATTTTTCCTTGAAACTCTTTTATTTTCGAAATGCAGAGTTTTTTACTACGTAAATTTTTTCGAAG
128 ATTTTTCCTTGAAACTCTCATATTTTCAAAATACAGAGATTTGTACTACGTAAATTTTTTCGAAG
3894908 GGATTTTTCCTAGTTTTTAAATTTTTAAATTCATCAAATTTATTATTTAAATCATATTAAATCAG
193 GGATTTTTCCTAGTTTTTAAATTTTTAAATTCATCAAATTTATTATTTAAATCATATTAAATCAG
* * * ** *
3894973 TTTTTAAAAATCATTCATTTTCATAGATTTTTTATTTTTTCCTTGAAACTTTCTTTTTTCGAAAT
258 TTTTTAAAAATCATTCATATTCATAGAGTTTTAATTTTTTCCTTGAAACTCCCTTTTTTCGAAAA
3895038 ACGAAA
323 ACGAAA
* * * * *
3895044 TTTTCTACTCCGTAACTTTTTTCGGGGGAATTTTTCTTAGTTTTTAATTTTTTTAAATTCATCAA
1 TTTTCTACTCCGTAAATTTTTTCGGGGGAATTTTTCTTA-ATTTAAAATTTTTAAAATTCATCAA
** * * ** *
3895109 ATATTATTAGTCATTTCACATTAAATTATTTTTCAAAAATTCTTTCATTATCATTAGTTTTTGAA
65 ATATTATTAGTCAAATCACATTAAATTAATTTTCAAAAATTCATTCATTATCAAGAATTTTT-AA
* * * * *
3895174 TTTTTTTCTTGAAATTCTCATATTTTCAAAATAC-GAAGATTTGTACTACGTAATTTTTTTAGGG
129 -TTTTTCCTTGAAACTCTCATATTTTCAAAATACAG-AGATTTGTACTACGTAAATTTTTT-CGA
* * ** *
3895238 AGGGATTTTTCTTGGTTTTT-AATTTTTAAAATTCATCAAATATT-TTATTTATTTTATATTAAA
191 AGGGATTTTTCCTAGTTTTTAAATTTTT-AAATTCATCAAAT-TTATTATTTAAATCATATTAAA
* *
3895301 TCA-TTTTTAAAAAATTTC-TTCATATTCAT-GAGTTTTAATTTTTTCTTTG-AAGTCCCTTTTT
254 TCAGTTTTT-AAAAA--TCATTCATATTCATAGAGTTTTAATTTTTTCCTTGAAACTCCCTTTTT
* * *
3895362 T-TAAGAAACTAAG
316 TCGAA-AAACGAAA
* *
3895375 TTTTCTTCTCTGTAAATCTTTTT-GGAGGG-ATTTTT-TTCAATTTAAAATTTTTAAAATTCATC
1 TTTTCTACTCCGTAAAT-TTTTTCGG-GGGAATTTTTCTT-AATTTAAAATTTTTAAAATTCATC
*
3895437 TAATATT
63 AAATATT
3895444 GTTACAAAAC
Statistics
Matches: 330, Mismatches: 55, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
327 4 0.01
328 18 0.05
329 72 0.22
330 43 0.13
331 98 0.30
332 81 0.25
333 12 0.04
334 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (328 bp):
TTTTCTACTCCGTAAATTTTTTCGGGGGAATTTTTCTTAATTTAAAATTTTTAAAATTCATCAAA
TATTATTAGTCAAATCACATTAAATTAATTTTCAAAAATTCATTCATTATCAAGAATTTTTAATT
TTTCCTTGAAACTCTCATATTTTCAAAATACAGAGATTTGTACTACGTAAATTTTTTCGAAGGGA
TTTTTCCTAGTTTTTAAATTTTTAAATTCATCAAATTTATTATTTAAATCATATTAAATCAGTTT
TTAAAAATCATTCATATTCATAGAGTTTTAATTTTTTCCTTGAAACTCCCTTTTTTCGAAAAACG
AAA
Found at i:3897707 original size:155 final size:155
Alignment explanation
Indices: 3897293--3898277 Score: 847
Period size: 156 Copynumber: 6.3 Consensus size: 155
3897283 CCACTAAGGA
* * ** *
3897293 TATCGTGTACTTTTACGTCAAAGTTAT-CTTTAGAGGTATTTTCATAATTTTCTAGAACCAACTC
1 TATCGAGTACTTTTACGTCAAAGGTATCCCCTAGAGGTATTTTCATAATTTTTTAGAACCAACTC
* ** * * * * *
3897357 CTAGGTCGTCACCGGGTCTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTC
66 CTAGGTCGTCATCGGGTCCACTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCATTTA
* ** *
3897422 TAAT-CTTTTTAAGT-CCTCTAAAGT
131 TGATCCTTTTTAAGTCCCT-TAGGGG
* * * * ** * * *
3897446 TACCGAGATACTTTCACGTCAAAGGTATACCCATAGGGGTATTTTTGTAATTTTTTAAAACTAAG
1 TATCGAG-TACTTTTACGTCAAAGGTAT-CCCCTAGAGGTATTTTCATAATTTTTTAGAACCAAC
* * * * * ** * * *
3897511 TCCTAGGTTGTCATCGAGTCTACTTTTATACCAAAAATAGATACTTATGATAGGTTTAT-CCATA
64 TCCTAGGTCGTCATCGGGTCCACTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCAT-
*
3897575 TTATGATCCTTTTTAAGTCCCTTAGAGG
128 TTATGATCCTTTTTAAGTCCCTTAGGGG
* * *
3897603 TATCGAGTACTTTTACGTCAAAGGTATCCCCTACAGATATTTTCATAATTTTTTAAAACCAACTC
1 TATCGAGTACTTTTACGTCAAAGGTATCCCCTAGAGGTATTTTCATAATTTTTTAGAACCAACTC
* *
3897668 CTAGGTCATCATCGGGTCCACTTTTATGCCGAAGGTAGATATTTAGGATATGTTCATCCCATTTA
66 CTAGGTCGTCATCGGGTCCACTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCATTTA
* * *
3897733 TTATCCTTTTTAAGTCTCGTAGGGG
131 TGATCCTTTTTAAGTCCCTTAGGGG
* * * * * ** * * *
3897758 TATC-AGATACTTTCACGTCGAAGGTATACTCATAGTGGTATTTTTGTAATTTTTCAGAACCGAG
1 TATCGAG-TACTTTTACGTCAAAGGTAT-CCCCTAGAGGTATTTTCATAATTTTTTAGAACCAAC
* * * * * *
3897822 TCCTAGGTTGTCA-CTGGGTCCATTTTTATGCTGAAGATAGATATTTATGATAGGTTCATCCCTT
64 TCCTAGGTCGTCATC-GGGTCCACTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCAT
* *
3897886 TTATGATTCTTTTTTAGTCCCTTAGGGG
128 TTATGATCCTTTTTAAGTCCCTTAGGGG
* * * * *
3897914 TATTGGGTACTTTTATGTCAAAGGTATCCCCTAGGGGTATTTTCATAATTTTCTAGAACCAACTC
1 TATCGAGTACTTTTACGTCAAAGGTATCCCCTAGAGGTATTTTCATAATTTTTTAGAACCAACTC
* * * * *** *** *
3897979 CTAGGTCGTCGTCGGGTTCGCTTTTATGCCGAAAGTAGATATTTGATTTTTTTTTCATCCCTTTT
66 CTAGGTCGTCATCGGGTCCACTTTTATGCCGAAGGTAGATATTT-AGGATAGGTTCATCCCATTT
*
3898044 ATGATCCTTTTTAAGTCTCTTAGGGGG
130 ATGATCCTTTTTAAGTCCCTTA-GGGG
* * * * * **
3898071 CATCGGGTACTTTTACATCAAAGATATCCCCTAAAGGTATTTTTGTAATTTTTTAGAACCAACTC
1 TATCGAGTACTTTTACGTCAAAGGTATCCCCTAGAGGTATTTTCATAATTTTTTAGAACCAACTC
* * * * *** * * *
3898136 TTAGGTTGTCGTCGGCTCTGTTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTA
66 CTAGGTCGTCATCGGGTCCACTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCATTTA
** *
3898201 TGAT-CTTTTTAAGTCTTTTAGGGT
131 TGATCCTTTTTAAGTCCCTTAGGGG
* * * *
3898225 TA-CTGAGATA-TTTTCACATTAAAGGTATACCCTAGGGGTATTTT-AGTAATTTT
1 TATC-GAG-TACTTTT-ACGTCAAAGGTATCCCCTAGAGGTATTTTCA-TAATTTT
3898278 CTCATAATCG
Statistics
Matches: 665, Mismatches: 149, Indels: 34
0.78 0.18 0.04
Matches are distributed among these distances:
153 6 0.01
154 30 0.05
155 237 0.36
156 274 0.41
157 115 0.17
158 3 0.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (155 bp):
TATCGAGTACTTTTACGTCAAAGGTATCCCCTAGAGGTATTTTCATAATTTTTTAGAACCAACTC
CTAGGTCGTCATCGGGTCCACTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCATTTA
TGATCCTTTTTAAGTCCCTTAGGGG
Found at i:3897768 original size:311 final size:310
Alignment explanation
Indices: 3897293--3898145 Score: 994
Period size: 311 Copynumber: 2.7 Consensus size: 310
3897283 CCACTAAGGA
* * **
3897293 TATCGTGTACTTTTACGTCAAAGTTAT-CTTTAGAGGTATTTTCATAATTTTCTAGAACCAACTC
1 TATCGAGTACTTTTACGTCAAAGGTATCCCCTAGAGGTATTTTCATAATTTTCTAGAACCAACTC
* * * * * * * *
3897357 CTAGGTCGTCACCGGGTCTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTC
66 CTAGGTCGTCATCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATATGTTCATCCCATTTA
** * * *
3897422 TAAT-CTTTTTAAGTCCTCTAAAGTTACCGAGATACTTTCACGTCAAAGGTATACCCATAGGGGT
131 TAATCCTTTTTAAGT-CTCTAGGGGTATC-AGATACTTTCACGTCAAAGGTATACCCATAGAGGT
* * *
3897486 ATTTTTGTAATTTTTTAAAACTAAGTCCTAGGTTGTCA-TCGAGTCTACTTTTATACCAAAAATA
194 ATTTTTGTAATTTTTTAGAACCAAGTCCTAGGTTGTCACT-GAGTCCACTTTTATACCAAAAATA
*
3897550 GATACTTATGATAGGTTTATCCATATTATGATCCTTTTTAAGTCCCTTAGAGG
258 GATACTTATGATAGGTTCATCCATATTATGATCCTTTTTAAGTCCCTTAGAGG
* * * *
3897603 TATCGAGTACTTTTACGTCAAAGGTATCCCCTACAGATATTTTCATAATTTTTTAAAACCAACTC
1 TATCGAGTACTTTTACGTCAAAGGTATCCCCTAGAGGTATTTTCATAATTTTCTAGAACCAACTC
* *
3897668 CTAGGTCATCATCGGGTCCACTTTTATGCCGAAGGTAGATATTTAGGATATGTTCATCCCATTTA
66 CTAGGTCGTCATCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATATGTTCATCCCATTTA
* * * *
3897733 TTATCCTTTTTAAGTCTCGTAGGGGTATCAGATACTTTCACGTCGAAGGTATACTCATAGTGGTA
131 TAATCCTTTTTAAGTCTC-TAGGGGTATCAGATACTTTCACGTCAAAGGTATACCCATAGAGGTA
* * * * * ** *
3897798 TTTTTGTAATTTTTCAGAACCGAGTCCTAGGTTGTCACTGGGTCCATTTTTATGCTGAAGATAGA
195 TTTTTGTAATTTTTTAGAACCAAGTCCTAGGTTGTCACTGAGTCCACTTTTATACCAAAAATAGA
* * * * * *
3897863 TATTTATGATAGGTTCATCCCTTTTATGATTCTTTTTTAGTCCCTTAGGGG
260 TACTTATGATAGGTTCATCCATATTATGATCCTTTTTAAGTCCCTTAGAGG
* * * *
3897914 TATTGGGTACTTTTATGTCAAAGGTATCCCCTAGGGGTATTTTCATAATTTTCTAGAACCAACTC
1 TATCGAGTACTTTTACGTCAAAGGTATCCCCTAGAGGTATTTTCATAATTTTCTAGAACCAACTC
* * * *** * * *
3897979 CTAGGTCGTCGTCGGGTTCGCTTTTATGCCGAAAGTAGATATTTGATTTTTTTTTCATCCCTTTT
66 CTAGGTCGTCATCGGGTCCGCTTTTATGCCGAAGGTAGATATTT-AGGATATGTTCATCCCATTT
* * * * * * * * *
3898044 ATGATCCTTTTTAAGTCTCTTAGGGGGCATCGGGTACTTTTACATCAAAGATAT-CCCCTAAAGG
130 ATAATCCTTTTTAAGTCTC-TA-GGGGTATCAGATACTTTCACGTCAAAGGTATACCCATAGAGG
* *
3898108 TATTTTTGTAATTTTTTAGAACCAACTCTTAGGTTGTC
193 TATTTTTGTAATTTTTTAGAACCAAGTCCTAGGTTGTC
3898146 GTCGGCTCTG
Statistics
Matches: 457, Mismatches: 80, Indels: 10
0.84 0.15 0.02
Matches are distributed among these distances:
310 25 0.05
311 317 0.69
312 91 0.20
313 24 0.05
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (310 bp):
TATCGAGTACTTTTACGTCAAAGGTATCCCCTAGAGGTATTTTCATAATTTTCTAGAACCAACTC
CTAGGTCGTCATCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATATGTTCATCCCATTTA
TAATCCTTTTTAAGTCTCTAGGGGTATCAGATACTTTCACGTCAAAGGTATACCCATAGAGGTAT
TTTTGTAATTTTTTAGAACCAAGTCCTAGGTTGTCACTGAGTCCACTTTTATACCAAAAATAGAT
ACTTATGATAGGTTCATCCATATTATGATCCTTTTTAAGTCCCTTAGAGG
Found at i:3898210 original size:311 final size:308
Alignment explanation
Indices: 3897299--3898279 Score: 961
Period size: 311 Copynumber: 3.2 Consensus size: 308
3897289 AGGATATCGT
* ** * *
3897299 GTACTTTTACGTCAAAGTTAT-CTTTAGAGGTATTTTCATAATTTTCTAGAACCAACTCCTAGGT
1 GTACTTTTACGTCAAAGGTATCCCCTAGGGGTATTTTCATAATTTTCTAAAACCAACTCCTAGGT
* * ** * * * * * *
3897363 CGTCACCGGGTCTGCTTTTATGCC-AAAGGTGGGTATTTAGGATAGGTTCATCCCATCTCTAAT-
66 CATCATCGGGTCCACTTTTATGCCGAAA-GTAGATATTTAGGATATGTTCATCCCATTTATGATC
** ** * * * **
3897426 CTTTTTAAGTCCTC-TAAAGTTACCGAGATACTTTCACGTCAAAGGTATACCCATAGGGGTATTT
130 CTTTTTAAGT-CTCGTAGGGGCATC-AGATACTTTCACATCAAAGATATACCCATAAAGGTATTT
* * * * * * *
3897490 TTGTAATTTTTTAAAACTAAGTCCTAGGTTGTCATCGAGTCTACTTTTATACCAAAAATAGATAC
193 TTGTAATTTTTTAGAACCAAGTCCTAGGTTGTC-TCG-GTCTATTTTTATGCCGAAGATAGATAT
* * * *
3897555 TTATGATAGGTTTAT-CCATATTATGATCCTTTTTAAGTCCCTTAGAGGTATCGA
256 TTATGATAGGTTCATCCCAT-TTATGAT-CTTTTTAAGTCCCTTAGGGGTATTGG
** * *
3897609 GTACTTTTACGTCAAAGGTATCCCCTACAGATATTTTCATAATTTTTTAAAACCAACTCCTAGGT
1 GTACTTTTACGTCAAAGGTATCCCCTAGGGGTATTTTCATAATTTTCTAAAACCAACTCCTAGGT
* *
3897674 CATCATCGGGTCCACTTTTATGCCGAAGGTAGATATTTAGGATATGTTCATCCCATTTATTATCC
66 CATCATCGGGTCCACTTTTATGCCGAAAGTAGATATTTAGGATATGTTCATCCCATTTATGATCC
* * * * * **
3897739 TTTTTAAGTCTCGTAGGGGTATCAGATACTTTCACGTCGAAGGTATACTCATAGTGGTATTTTTG
131 TTTTTAAGTCTCGTAGGGGCATCAGATACTTTCACATCAAAGATATACCCATAAAGGTATTTTTG
* * * * *
3897804 TAATTTTTCAGAACCGAGTCCTAGGTTGTCACTGGGTCCATTTTTATGCTGAAGATAGATATTTA
196 TAATTTTTTAGAACCAAGTCCTAGGTTGT--CTCGGTCTATTTTTATGCCGAAGATAGATATTTA
* *
3897869 TGATAGGTTCATCCCTTTTATGATTCTTTTTTAGTCCCTTAGGGGTATTGG
259 TGATAGGTTCATCCCATTTATGA-TCTTTTTAAGTCCCTTAGGGGTATTGG
* *
3897920 GTACTTTTATGTCAAAGGTATCCCCTAGGGGTATTTTCATAATTTTCTAGAACCAACTCCTAGGT
1 GTACTTTTACGTCAAAGGTATCCCCTAGGGGTATTTTCATAATTTTCTAAAACCAACTCCTAGGT
* * * * *** * * *
3897985 CGTCGTCGGGTTCGCTTTTATGCCGAAAGTAGATATTTGATTTTTTTTTCATCCCTTTTATGATC
66 CATCATCGGGTCCACTTTTATGCCGAAAGTAGATATTT-AGGATATGTTCATCCCATTTATGATC
* * * * *
3898050 CTTTTTAAGTCTCTTAGGGGGCATCGGGTACTTTTACATCAAAGATAT-CCCCTAAAGGTATTTT
130 CTTTTTAAGTCTCGTA-GGGGCATCAGATACTTTCACATCAAAGATATACCCATAAAGGTATTTT
* * * * * *
3898114 TGTAATTTTTTAGAACCAACTCTTAGGTTGTCGTCGGCTCTGTTTTTATGCCGAAGGTGGGTATT
194 TGTAATTTTTTAGAACCAAGTCCTAGGTTGTC-TCGG-TCTATTTTTATGCCGAAGATAGATATT
* * ** * *
3898179 TAGGATAGGTTCATCCCATCTATGATCTTTTTAAGTCTTTTAGGGTTACTGAG
257 TATGATAGGTTCATCCCATTTATGATCTTTTTAAGTCCCTTAGGGGTATTG-G
* * * *
3898232 ATA-TTTTCACATTAAAGGTATACCCTAGGGGTATTTT-AGTAATTTTCT
1 GTACTTTT-ACGTCAAAGGTATCCCCTAGGGGTATTTTCA-TAATTTTCT
3898280 CATAATCGAG
Statistics
Matches: 559, Mismatches: 97, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
310 21 0.04
311 336 0.60
312 177 0.32
313 25 0.04
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (308 bp):
GTACTTTTACGTCAAAGGTATCCCCTAGGGGTATTTTCATAATTTTCTAAAACCAACTCCTAGGT
CATCATCGGGTCCACTTTTATGCCGAAAGTAGATATTTAGGATATGTTCATCCCATTTATGATCC
TTTTTAAGTCTCGTAGGGGCATCAGATACTTTCACATCAAAGATATACCCATAAAGGTATTTTTG
TAATTTTTTAGAACCAAGTCCTAGGTTGTCTCGGTCTATTTTTATGCCGAAGATAGATATTTATG
ATAGGTTCATCCCATTTATGATCTTTTTAAGTCCCTTAGGGGTATTGG
Found at i:3901758 original size:10 final size:10
Alignment explanation
Indices: 3901745--3901777 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3901735 GAAAAAGTGC
3901745 AAAAAAAGAG
1 AAAAAAAGAG
*
3901755 AAAAAAAAAG
1 AAAAAAAGAG
3901765 AAAAAAAGA-
1 AAAAAAAGAG
3901774 AAAA
1 AAAA
3901778 TGAAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:3901768 original size:19 final size:19
Alignment explanation
Indices: 3901745--3901787 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
3901735 GAAAAAGTGC
*
3901745 AAAAAAAGAGAAAAAAAAAG
1 AAAAAAAGA-AAAATAAAAG
*
3901765 AAAAAAAGAAAAATGAAAG
1 AAAAAAAGAAAAATAAAAG
3901784 AAAA
1 AAAA
3901788 TGAGGAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (19 bp):
AAAAAAAGAAAAATAAAAG
Found at i:3903245 original size:91 final size:90
Alignment explanation
Indices: 3903044--3903309 Score: 301
Period size: 91 Copynumber: 3.0 Consensus size: 90
3903034 GAAATTATGG
* *
3903044 AGTCCATACATT-CCTAATCATATCCTTCTTTT-T-CAACCACCAAATGGTATTGATGCAT--CA
1 AGTCCATACATTCCCTAATCATAT-C-TCTTTTATCCAACCACTAGATGGTATTGATGCATCACA
* * * *
3903104 AAGCCTGAGTTCAGTAAGGGTAAGGTGC
64 AAGCCTGATTTC-CTAGGGGCAAGGTGC
3903132 AG-CCTATACATTCCCTAATCATATCTCTTTTATCCAACCACTAGATGGTATTGATGCATCACAA
1 AGTCC-ATACATTCCCTAATCATATCTCTTTTATCCAACCACTAGATGGTATTGATGCATCACAA
*
3903196 AGCCTGATTTCCTTAGGGGCAAGGTGT
65 AGCCTGATTTCC-TAGGGGCAAGGTGC
* * * * * * *
3903223 AGTCCACACATTCCCTAATCATATCTCCTTCATCTAACCACTAGATAGTACTGATGCATCATAAA
1 AGTCCATACATTCCCTAATCATATCTCTTTTATCCAACCACTAGATGGTATTGATGCATCACAAA
* *
3903288 GCTTGATATCCTAGGGGCAAGG
66 GCCTGATTTCCTAGGGGCAAGG
3903310 ATATCCCGAC
Statistics
Matches: 154, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
87 8 0.05
88 11 0.07
89 34 0.22
90 11 0.07
91 88 0.57
92 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (90 bp):
AGTCCATACATTCCCTAATCATATCTCTTTTATCCAACCACTAGATGGTATTGATGCATCACAAA
GCCTGATTTCCTAGGGGCAAGGTGC
Found at i:3903359 original size:92 final size:91
Alignment explanation
Indices: 3903139--3903373 Score: 250
Period size: 91 Copynumber: 2.6 Consensus size: 91
3903129 TGCAGCCTAT
* * *
3903139 ACATTCCCTAATCATATCTCTTT-TATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGA
1 ACATTCCCTAATCATATCCCTTTCTCTCC-ACCACTAGATGGTACTGATGCATCACAAAGCCTGA
* *
3903203 TTTCCTTAGGGGCAAGGTGTAGTCCAC
65 TATCCTTAGGGGCAAGGTATAGTCCAC
* * * *
3903230 ACATTCCCTAATCATATCTCC-TTCATCT-AACCACTAGATAGTACTGATGCATCATAAAGCTTG
1 ACATTCCCTAATCATATC-CCTTTC-TCTCCACCACTAGATGGTACTGATGCATCACAAAGCCTG
3903293 ATATCC-TAGGGGCAAGG-ATA-TCCCGACC
64 ATATCCTTAGGGGCAAGGTATAGT-CC-A-C
* *
3903321 ACTTATTCCC-ATTCATATCCCTTTCTCTCCACCACTAGATGGTACTAATGCAT
1 AC--ATTCCCTAATCATATCCCTTTCTCTCCACCACTAGATGGTACTGATGCAT
3903374 TACATAACCA
Statistics
Matches: 121, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
88 1 0.01
89 4 0.03
90 12 0.10
91 63 0.52
92 33 0.27
93 8 0.07
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (91 bp):
ACATTCCCTAATCATATCCCTTTCTCTCCACCACTAGATGGTACTGATGCATCACAAAGCCTGAT
ATCCTTAGGGGCAAGGTATAGTCCAC
Found at i:3903611 original size:48 final size:48
Alignment explanation
Indices: 3903534--3903666 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 48
3903524 TTGACTGTAT
* * * *
3903534 CTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTAGTATTAGGGC
1 CTGGTCAAACTCTTTTCATCCCTCGTTTGACTATATTGGTGTTAGGGC
* * * * * * *
3903582 CTAGTCAAGCTCTTTTCTTTCCTCGTTTGACTGTATTAGTGTTAAGGC
1 CTGGTCAAACTCTTTTCATCCCTCGTTTGACTATATTGGTGTTAGGGC
* *
3903630 TTGGTCAAACTCTTTTCATCCCTCGTTTAACTATATT
1 CTGGTCAAACTCTTTTCATCCCTCGTTTGACTATATT
3903667 TGGTCAAACT
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.43
Consensus pattern (48 bp):
CTGGTCAAACTCTTTTCATCCCTCGTTTGACTATATTGGTGTTAGGGC
Found at i:3903681 original size:84 final size:83
Alignment explanation
Indices: 3903585--3903749 Score: 188
Period size: 83 Copynumber: 2.0 Consensus size: 83
3903575 TTAGGGCCTA
* * * * * *
3903585 GTCAAGCTCTTTTCTTTC-CTCGTTTGACTGTATTAGTGTTAAGGCTTGGTCAAACTCTTTTCAT
1 GTCAAACTCTTTTC-ATCACTCGTTTGACTATATTAGTGTT-AGGCCTAGTCAAACCCTTTTCAT
3903649 CCCTCGTTTAACTATATTTG
64 CCCTCGTTTAACTATATTTG
* * * * * *
3903669 GTCAAACTCTTTTCATCATTTGTTTGAGTATATTGGTGTTAGGCCTAGTCAAACCCTTTTCTTTC
1 GTCAAACTCTTTTCATCACTCGTTTGACTATATTAGTGTTAGGCCTAGTCAAACCCTTTTCATCC
*
3903734 CTCGTTTGACTATATT
66 CTCGTTTAACTATATT
3903750 GGTGTTAGGG
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
83 37 0.55
84 30 0.45
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (83 bp):
GTCAAACTCTTTTCATCACTCGTTTGACTATATTAGTGTTAGGCCTAGTCAAACCCTTTTCATCC
CTCGTTTAACTATATTTG
Found at i:3903794 original size:131 final size:132
Alignment explanation
Indices: 3903524--3903797 Score: 354
Period size: 131 Copynumber: 2.1 Consensus size: 132
3903514 CCATCATCGT
* * * *
3903524 TTGACTGTATCTGGTCAAACTCTTTTCATCCCTCATTTGACTGTATTAGTATTAGGGCCTAGTCA
1 TTGACTATATTTGGTCAAACTCTTTTCATCACTCATTTGACTATATTAGTATTAGGGCCTAGTCA
* * * *
3903589 AGCTCTTTTCTTTCCTCGTTTGACTGTATTAGTGTTAAGGCTTGGTCAAACTCTTTTCATCCCTC
66 AACCCTTTTCTTTCCTCGTTTGACTATATTAGTGTTAAGGCTTGGTCAAACTCCTTTCATCCCTC
**
3903654 GT
131 AA
* * ** * * *
3903656 TTAACTATATTTGGTCAAACTCTTTTCATCATTTGTTTGAGTATATTGGTGTTA-GGCCTAGTCA
1 TTGACTATATTTGGTCAAACTCTTTTCATCACTCATTTGACTATATTAGTATTAGGGCCTAGTCA
* *
3903720 AACCCTTTTCTTTCCTCGTTTGACTATATTGGTGTT-AGGGTCTGGTCAAACTCCTTTCATCCCT
66 AACCCTTTTCTTTCCTCGTTTGACTATATTAGTGTTAAGGCT-TGGTCAAACTCCTTTCATCCCT
3903784 CAA
130 CAA
3903787 TTGACTATATT
1 TTGACTATATT
3903798 GGTGTTAGGG
Statistics
Matches: 121, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
130 4 0.03
131 74 0.61
132 43 0.36
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (132 bp):
TTGACTATATTTGGTCAAACTCTTTTCATCACTCATTTGACTATATTAGTATTAGGGCCTAGTCA
AACCCTTTTCTTTCCTCGTTTGACTATATTAGTGTTAAGGCTTGGTCAAACTCCTTTCATCCCTC
AA
Found at i:3903839 original size:48 final size:48
Alignment explanation
Indices: 3903690--3903924 Score: 256
Period size: 48 Copynumber: 4.9 Consensus size: 48
3903680 TTCATCATTT
* * * ***
3903690 GTTTGAGTATATTGGTGTTA-GGCCTAGTCAAACCCTTTTCTTTCCTC
1 GTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAATCTTTCCTC
* *** * *
3903737 GTTTGACTATATTGGTGTTAGGGTCTGGTCAAACTCCTTTCATCCCTC
1 GTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAATCTTTCCTC
**
3903785 AATTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAATCTTTCCTC
1 GTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAATCTTTCCTC
* * * * **
3903833 GTTTGACTGTATTGGTATTAAGGCTTGGTCAAACTCAAATCTACCCTC
1 GTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAATCTTTCCTC
** *
3903881 GTTTGACTATATTGGTGTTAGGGAGTGGTTAAACTCAAATCTTT
1 GTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAATCTTT
3903925 GACTGTATTG
Statistics
Matches: 156, Mismatches: 31, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
47 19 0.12
48 137 0.88
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (48 bp):
GTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAATCTTTCCTC
Found at i:3904154 original size:44 final size:44
Alignment explanation
Indices: 3904104--3904211 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 44
3904094 ATTCCGATTA
* * *
3904104 GACATATGGTTACCACCCTAGTAAAATCTGCCTCTTTCTTGTCT
1 GACATATGGTTACCACCCTAGTAAAATCTGCCTCTCTCCTATCT
* * * * *
3904148 GCCATATGGTTATCACCCTGGTCAAATCTGCCTCTCTCCTATTT
1 GACATATGGTTACCACCCTAGTAAAATCTGCCTCTCTCCTATCT
*
3904192 GACATATGATTACCACCCTA
1 GACATATGGTTACCACCCTA
3904212 ACCACCCTAG
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (44 bp):
GACATATGGTTACCACCCTAGTAAAATCTGCCTCTCTCCTATCT
Found at i:3904196 original size:88 final size:88
Alignment explanation
Indices: 3903983--3904211 Score: 216
Period size: 88 Copynumber: 2.6 Consensus size: 88
3903973 ACGTATGGTA
* ** ** * * * *
3903983 ACCACCCTAGTCAAATTCTTTTCATTTTGATTTGACTTATGGTTAACACCC-CGATCAAATCTCC
1 ACCACCCTGGTCAAATTCCGTTCA-TCCGATTTGACATATGGTTACCACCCTAGATAAAATCTCC
3904047 CTCTTTCTTGTCTAGCATATGATT
65 CTCTTTCTTGTCTAGCATATGATT
* * * *
3904071 ACCACCCTGGTTAGATTCCGTTCATTCCGATTAGACATATGGTTACCACCCTAG-TAAAATCTGC
1 ACCACCCTGGTCAAATTCCGTTCA-TCCGATTTGACATATGGTTACCACCCTAGATAAAATCTCC
*
3904135 CTCTTTCTTGTCT-GCCATATGGTT
65 CTCTTTCTTGTCTAG-CATATGATT
* * *
3904159 ATCACCCTGGTCAAATCTGCC-TCTC-TCCTATTTGACATATGATTACCACCCTA
1 ACCACCCTGGTCAAAT-T-CCGT-TCATCCGATTTGACATATGGTTACCACCCTA
3904212 ACCACCCTAG
Statistics
Matches: 116, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
87 1 0.01
88 108 0.93
89 3 0.03
90 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.36
Consensus pattern (88 bp):
ACCACCCTGGTCAAATTCCGTTCATCCGATTTGACATATGGTTACCACCCTAGATAAAATCTCCC
TCTTTCTTGTCTAGCATATGATT
Found at i:3904341 original size:44 final size:44
Alignment explanation
Indices: 3904293--3904747 Score: 286
Period size: 44 Copynumber: 10.4 Consensus size: 44
3904283 TTGTCTGGCA
*
3904293 TATGGTTACCATCCTGGTAAGATTCTTTTCATTCCGATTTGACG
1 TATGGTTACCACCCTGGTAAGATTCTTTTCATTCCGATTTGACG
** ** *
3904337 TATGGTTACCACCCTGACCAA-A-TCTACCTCATTCCTG-TCTGACG
1 TATGGTTACCACCCTG-GTAAGATTCT-TTTCATTCC-GATTTGACG
* ** *
3904381 TATGGTTACCACCTTGGCCAGATTCTTTTTATTCCGATTTGACG
1 TATGGTTACCACCCTGGTAAGATTCTTTTCATTCCGATTTGACG
* * * ** * ** * *
3904425 TATGATTACCACACTAGTCAAG--TCTACATCCTTCTTATATGAGG
1 TATGGTTACCACCCTGGT-AAGATTCT-TTTCATTCCGATTTGACG
** * *
3904469 TATGGTTACCATGCTGGTCAGATTCTTTTCATTTCGATTTGACG
1 TATGGTTACCACCCTGGTAAGATTCTTTTCATTCCGATTTGACG
* * *
3904513 TATGGTTATCACCCTGGTCAA-ATTCTTTTCATTCTGATTTGATG
1 TATGGTTACCACCCTGGT-AAGATTCTTTTCATTCCGATTTGACG
* ** ** * * *
3904557 TATGGTTACCACTCTGGTCAAG--TCTACATCATTCTTATCTAACA
1 TATGGTTACCACCCTGGT-AAGATTCT-TTTCATTCCGATTTGACG
* * *
3904601 TATGATTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGACG
1 TATGGTTACCACCCTGGTAAGATTCTTTTCATTCCGATTTGACG
* * * * * * *
3904645 TATGGTTACTACCTTGGTCAA-A-TCTGTGTCTTTCTTG-TCTGA-A
1 TATGGTTACCACCCTGGT-AAGATTCT-TTTCATTC-CGATTTGACG
* * * *
3904688 TATGGTTACCACCCTAGTTAGATTCTTTTCATTCCCATTTGATG
1 TATGGTTACCACCCTGGTAAGATTCTTTTCATTCCGATTTGACG
3904732 TATGGTTACCACCCTG
1 TATGGTTACCACCCTG
3904748 ATCAAATCTG
Statistics
Matches: 305, Mismatches: 84, Indels: 44
0.70 0.19 0.10
Matches are distributed among these distances:
42 1 0.00
43 45 0.15
44 241 0.79
45 18 0.06
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.40
Consensus pattern (44 bp):
TATGGTTACCACCCTGGTAAGATTCTTTTCATTCCGATTTGACG
Found at i:3904376 original size:88 final size:88
Alignment explanation
Indices: 3904224--3904535 Score: 378
Period size: 88 Copynumber: 3.5 Consensus size: 88
3904214 CACCCTAGTT
* * * *
3904224 AGATTCTTTTCATTCAGATTTGACGTATGGTTACCACCTTGATCAAATCTGCCTCCCTCTTGTCT
1 AGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGATCAAATCTACCTCCTTCTTGTCT
* *
3904289 GGCATATGGTTACCATCCTGGTA
66 GGCGTATGGTTACCATCCTGGTC
* * *
3904312 AGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGACCAAATCTACCTCATTCCTGTCT
1 AGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGATCAAATCTACCTCCTTCTTGTCT
* *
3904377 GACGTATGGTTACCA-CCTTGGCC
66 GGCGTATGGTTACCATCC-TGGTC
* * * * * * *
3904400 AGATTCTTTTTATTCCGATTTGACGTATGATTACCACACT-AGTCAAGTCTACATCCTTCTTATA
1 AGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGA-TCAAATCTACCTCCTTCTTGTC
*
3904464 TGAG-GTATGGTTACCATGCTGGTC
65 TG-GCGTATGGTTACCATCCTGGTC
* * *
3904488 AGATTCTTTTCATTTCGATTTGACGTATGGTTATCACCCTGGTCAAAT
1 AGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGATCAAAT
3904536 TCTTTTCATT
Statistics
Matches: 188, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
87 3 0.02
88 184 0.98
89 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (88 bp):
AGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGATCAAATCTACCTCCTTCTTGTCT
GGCGTATGGTTACCATCCTGGTC
Found at i:3904387 original size:229 final size:229
Alignment explanation
Indices: 3903981--3904393 Score: 569
Period size: 229 Copynumber: 1.8 Consensus size: 229
3903971 CGACGTATGG
** *
3903981 TAACCACCCTAGTCAAATTCTTTTCATTTTGATTTGACTTATGGTTAACACCCCGATCAAATCTC
1 TAACCACCCTAGTCAAATTCTTTTCATTCAGATTTGACGTATGGTTAACACCCCGATCAAATCTC
** *
3904046 CCTCTTTCTTGTCTAGCATATGATTACCACCCTGGTTAGATTCCGTTCATTCCGATTAGACATAT
66 CCTCCCTCTTGTCTAGCATATGATTACCACCCTGGTAAGATTCCGTTCATTCCGATTAGACATAT
* * * * *
3904111 GGTTACCACCCTAGTAAAATCTGCCTCTTTCTTGTCTGCCATATGGTTATCACCCTGGTCAAATC
131 GGTTACCACCCTAGTAAAATCTACCTCATTCCTGTCTGACATATGGTTACCACCCTGGTCAAATC
3904176 TGCCTCTCTCCTATTTGACATATGATTACCACCC
196 TGCCTCTCTCCTATTTGACATATGATTACCACCC
* * * ** *
3904210 TAACCACCCTAGTTAGATTCTTTTCATTCAGATTTGACGTATGGTTACCACCTTGATCAAATCTG
1 TAACCACCCTAGTCAAATTCTTTTCATTCAGATTTGACGTATGGTTAACACCCCGATCAAATCTC
* * * ** * *
3904275 CCTCCCTCTTGTCTGGCATATGGTTACCATCCTGGTAAGATTCTTTTCATTCCGATTTGACGTAT
66 CCTCCCTCTTGTCTAGCATATGATTACCACCCTGGTAAGATTCCGTTCATTCCGATTAGACATAT
*
3904340 GGTTACCACCCT-G-ACCAAATCTACCTCATTCCTGTCTGACGTATGGTTACCACC
131 GGTTACCACCCTAGTA--AAATCTACCTCATTCCTGTCTGACATATGGTTACCACC
3904394 TTGGCCAGAT
Statistics
Matches: 157, Mismatches: 25, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
227 1 0.01
228 1 0.01
229 155 0.99
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.36
Consensus pattern (229 bp):
TAACCACCCTAGTCAAATTCTTTTCATTCAGATTTGACGTATGGTTAACACCCCGATCAAATCTC
CCTCCCTCTTGTCTAGCATATGATTACCACCCTGGTAAGATTCCGTTCATTCCGATTAGACATAT
GGTTACCACCCTAGTAAAATCTACCTCATTCCTGTCTGACATATGGTTACCACCCTGGTCAAATC
TGCCTCTCTCCTATTTGACATATGATTACCACCC
Found at i:3904518 original size:132 final size:132
Alignment explanation
Indices: 3904376--3904667 Score: 388
Period size: 132 Copynumber: 2.2 Consensus size: 132
3904366 CATTCCTGTC
* *
3904376 TGACGTATGGTTACCACCTTGGCCAGATTCTTTTTATTCCGATTTGACGTATGATTACCACACTA
1 TGACGTATGGTTACCACCTTGGCCAAATTCTTTTCATTCCGATTTGACGTATGATTACCACACTA
* * ** * **
3904441 GTCAAGTCTACATCCTTCTTATATGAGGTATGGTTACCATGCTGGTCAGATTCTTTTCATT-TCG
66 GTCAAGTCTACATCATTCTTATATAACATATGATTACCACCCTGGTCAGATTCTTTTCATTCT-G
3904505 ATT
130 ATT
* * * * * * * *
3904508 TGACGTATGGTTATCACCCTGGTCAAATTCTTTTCATTCTGATTTGATGTATGGTTACCACTCTG
1 TGACGTATGGTTACCACCTTGGCCAAATTCTTTTCATTCCGATTTGACGTATGATTACCACACTA
*
3904573 GTCAAGTCTACATCATTCTTATCTAACATATGATTACCACCCTGGTCAGATTCTTTTCATTCTGA
66 GTCAAGTCTACATCATTCTTATATAACATATGATTACCACCCTGGTCAGATTCTTTTCATTCTGA
3904638 TT
131 TT
* *
3904640 TGACGTATGGTTACTACCTTGGTCAAAT
1 TGACGTATGGTTACCACCTTGGCCAAAT
3904668 CTGTGTCTTT
Statistics
Matches: 138, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
132 137 0.99
133 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (132 bp):
TGACGTATGGTTACCACCTTGGCCAAATTCTTTTCATTCCGATTTGACGTATGATTACCACACTA
GTCAAGTCTACATCATTCTTATATAACATATGATTACCACCCTGGTCAGATTCTTTTCATTCTGA
TT
Found at i:3904560 original size:88 final size:89
Alignment explanation
Indices: 3904224--3904653 Score: 358
Period size: 88 Copynumber: 4.9 Consensus size: 89
3904214 CACCCTAGTT
* * * * * * **
3904224 AGATTCTTTTCATTCAGATTTGACGTATGGTTACCACCTTGATCAAA-TCTGCCTCCCTCTTG-T
1 AGATTCTTTTCATTCCGATTTGACGTATGATTACCACCCTGGTCAAATTCTACTTCATTC-TGAT
* * * *
3904287 CTGGCATATGGTTACCATCCTGGTA
65 TTGACGTATGGTTACCATCCTGGTC
* ** *
3904312 AGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGACCAAA-TCTACCTCATTCCTG-T
1 AGATTCTTTTCATTCCGATTTGACGTATGATTACCACCCTGGTCAAATTCTACTTCATT-CTGAT
* *
3904375 CTGACGTATGGTTACCA-CCTTGGCC
65 TTGACGTATGGTTACCATCC-TGGTC
* * * * * * * *
3904400 AGATTCTTTTTATTCCGATTTGACGTATGATTACCACACTAGTC-AAGTCTACATCCTTCTTATA
1 AGATTCTTTTCATTCCGATTTGACGTATGATTACCACCCTGGTCAAATTCTACTTCATTCTGATT
* *
3904464 TGAGGTATGGTTACCATGCTGGTC
66 TGACGTATGGTTACCATCCTGGTC
* * * *
3904488 AGATTCTTTTCATTTCGATTTGACGTATGGTTATCACCCTGGTCAAATTCT-TTTCATTCTGATT
1 AGATTCTTTTCATTCCGATTTGACGTATGATTACCACCCTGGTCAAATTCTACTTCATTCTGATT
*
3904552 TGATGTATGGTTACCA-CTCTGGTC
66 TGACGTATGGTTACCATC-CTGGTC
* ** ** * * * * *
3904576 A-AGTCTACATCATTCTTATCTAACATATGATTACCACCCTGGTCAGATTCT-TTTCATTCTGAT
1 AGATTCT-TTTCATTCCGATTTGACGTATGATTACCACCCTGGTCAAATTCTACTTCATTCTGAT
3904639 TTGACGTATGGTTAC
65 TTGACGTATGGTTAC
3904654 TACCTTGGTC
Statistics
Matches: 284, Mismatches: 50, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
87 10 0.04
88 267 0.94
89 7 0.02
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (89 bp):
AGATTCTTTTCATTCCGATTTGACGTATGATTACCACCCTGGTCAAATTCTACTTCATTCTGATT
TGACGTATGGTTACCATCCTGGTC
Found at i:3904663 original size:88 final size:88
Alignment explanation
Indices: 3904508--3904795 Score: 339
Period size: 88 Copynumber: 3.3 Consensus size: 88
3904498 CATTTCGATT
* * *
3904508 TGACGTATGGTTATCACCCTGGTCAAATTCTTTTCATTCTGATTTGATGTATGGTTACCA-CTCT
1 TGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGTATGGTTACCACCT-T
* *
3904572 GGTCAAGTCTACATCATTCTTATC
65 GGTCAAATCTACATCTTTCTTATC
* * * *
3904596 TAACATATGATTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACTACCTTG
1 TGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGTATGGTTACCACCTTG
*** *
3904661 GTCAAATCTGTGTCTTTCTTGTC
66 GTCAAATCTACATCTTTCTTATC
* * ** *
3904684 TGA-ATATGGTTACCACCCTAGTTAGATTCTTTTCATTCCCATTTGATGTATGGTTACCACCCTG
1 TGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGTATGGTTACCACCTTG
* * *
3904748 ATCAAATCTGCCATCTTTC-TATT
66 GTCAAATCT-ACATCTTTCTTATC
*
3904771 TGACATATGGTTACCACCTTGGTCA
1 TGACATATGGTTACCACCCTGGTCA
3904796 AACAATTTGC
Statistics
Matches: 166, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
87 66 0.40
88 98 0.59
89 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (88 bp):
TGACATATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGTATGGTTACCACCTTG
GTCAAATCTACATCTTTCTTATC
Found at i:3905389 original size:2 final size:2
Alignment explanation
Indices: 3905382--3905416 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3905372 TCTTGTTAAG
3905382 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 A
3905417 AAATGTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3907015 original size:155 final size:151
Alignment explanation
Indices: 3906411--3907030 Score: 462
Period size: 155 Copynumber: 4.0 Consensus size: 151
3906401 ACGTTGAAGT
* * * * *
3906411 TATCTCCTAAAGACATTTTCATAATTTTTTAAAACCAACTCTTAGGT-AGTCATCGGATCGTTTT
1 TATCCCCTAAAGGCATTTTCATAATTTTCTAAAACCAACTCCTAGGTCA-TCATCGG-TCGCTTT
* * ** * * *
3906475 TATGCTAAAGGTGGGTATTTAGGATAGGTTCATTGCATCTCTAATCTTTTTAAGTCCTTTAGGGT
64 TATGC-CAAGGTGGATATTTAGGATAGGTTCATCCCTTCTATGATCTTTTTAAGTCCTTTAGGGT
* * *
3906540 TACCGAGATACTTTCACATCGAAGG
128 TATCG-GGTACTTTCACATCAAAGG
* * * * * * * ** *
3906565 TATACCCATAAGGGCATTTTCGTATTTTTTTTAGAA-CAGAGTCCTAGGTTGTCATC-G-CACTT
1 TAT-CCCCTAAAGGCATTTTCATA-ATTTTCTAAAACCA-ACTCCTAGGTCATCATCGGTCGCTT
* * * * * *
3906627 TTATGCCGAAGATGGATATTTATGACAGGTTCATCCCTTTTATGATCCTTTTTTAGTCCCTTAGG
63 TTATGCC-AAGGTGGATATTTAGGATAGGTTCATCCCTTCTATGAT-CTTTTTAAGTCCTTTAGG
* * * *
3906692 GGTATCGGGTACTTTTACGTCAAAGA
126 GTTATCGGGTACTTTCACATCAAAGG
* ** * * * *
3906718 TATCTCCTAGGGGTATTTTCATAATTTTCTAAAACCAACTCCTAGGTCATCGTTGGGTCTGTTTT
1 TATCCCCTAAAGGCATTTTCATAATTTTCTAAAACCAACTCCTAGGTCATC-ATCGGTC-GCTTT
* * * *** ** *
3906783 TTTGTCGAAGGTAGATATTTGATTTTTTGTTCATCCCTTTTATGATTCTTTTTAAGTCCTTT-GA
64 TATG-CCAAGGTGGATATTT-AGGATAGGTTCATCCCTTCTATGA-TCTTTTTAAGTCCTTTAG-
*
3906847 GG-TATCGGGTACTTTTACATCAAAGG
125 GGTTATCGGGTACTTTCACATCAAAGG
** *
3906873 TATCCCCTAAAGGCATTTTTGTAATTTTCTAGAACCAACTCCTAGGTCATCATCGGCTCCGCTTT
1 TATCCCCTAAAGGCATTTTCATAATTTTCTAAAACCAACTCCTAGGTCATCATCGG-T-CGCTTT
** * *
3906938 TATGCCAAGGGTGGGCATTTAGGATAGGTTCAT-CCTATCTATGATCTTTCTAAGTCTTTTAGGG
64 TATGCCAA-GGTGGATATTTAGGATAGGTTCATCCCT-TCTATGATCTTTTTAAGTCCTTTAGGG
**
3907002 TTATCGGGATACTTTCACATTGAAGG
127 TTATCGGG-TACTTTCACATCAAAGG
3907028 TAT
1 TAT
3907031 ATCTTAGGGC
Statistics
Matches: 358, Mismatches: 86, Indels: 43
0.74 0.18 0.09
Matches are distributed among these distances:
151 19 0.05
152 18 0.05
153 74 0.21
154 53 0.15
155 135 0.38
156 58 0.16
157 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (151 bp):
TATCCCCTAAAGGCATTTTCATAATTTTCTAAAACCAACTCCTAGGTCATCATCGGTCGCTTTTA
TGCCAAGGTGGATATTTAGGATAGGTTCATCCCTTCTATGATCTTTTTAAGTCCTTTAGGGTTAT
CGGGTACTTTCACATCAAAGG
Found at i:3909024 original size:21 final size:21
Alignment explanation
Indices: 3909000--3909044 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
3908990 TGTTGTTTTA
3909000 TTGTTGATAAAATATTAAGCC
1 TTGTTGATAAAATATTAAGCC
3909021 TTGTTGATAAAATATTAAGCC
1 TTGTTGATAAAATATTAAGCC
3909042 TTG
1 TTG
3909045 ATCTTGAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (21 bp):
TTGTTGATAAAATATTAAGCC
Found at i:3913501 original size:52 final size:52
Alignment explanation
Indices: 3913352--3913480 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
3913342 CGAAATATGA
3913352 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
3913404 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
3913456 AAATTTGCCTGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
3913481 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:3913563 original size:13 final size:13
Alignment explanation
Indices: 3913545--3913628 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
3913535 AGCTTCGTAG
3913545 CGATACATTGTAT
1 CGATACATTGTAT
3913558 CGATACAAAACTTAAGTAT
1 CGATAC---A-TT--GTAT
3913577 CGATACATTGTAT
1 CGATACATTGTAT
3913590 CGATACAAAACTTAAGTAT
1 CGATAC---A-TT--GTAT
3913609 CGATACATTGTAT
1 CGATACATTGTAT
3913622 CGATACA
1 CGATACA
3913629 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 27 0.46
15 4 0.07
16 4 0.07
17 4 0.07
19 20 0.34
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:3913578 original size:19 final size:18
Alignment explanation
Indices: 3913554--3913649 Score: 86
Period size: 19 Copynumber: 5.7 Consensus size: 18
3913544 GCGATACATT
3913554 GTATCGATACAAAACTTAA
1 GTATCGATACAAAACTT-A
3913573 GTATCGATAC---A-TT-
1 GTATCGATACAAAACTTA
3913586 GTATCGATACAAAACTTAA
1 GTATCGATACAAAACTT-A
3913605 GTATCGATAC---A-TT-
1 GTATCGATACAAAACTTA
*
3913618 GTATCGATACAACACTTA
1 GTATCGATACAAAACTTA
3913636 TGTATCGATACAAA
1 -GTATCGATACAAA
3913650 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 20 0.31
15 4 0.06
16 4 0.06
17 4 0.06
19 32 0.50
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (18 bp):
GTATCGATACAAAACTTA
Found at i:3913586 original size:32 final size:32
Alignment explanation
Indices: 3913545--3913647 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
3913535 AGCTTCGTAG
3913545 CGATACATTGTATCGATACAAAACTTAAGTAT
1 CGATACATTGTATCGATACAAAACTTAAGTAT
3913577 CGATACATTGTATCGATACAAAACTTAAGTAT
1 CGATACATTGTATCGATACAAAACTTAAGTAT
* *
3913609 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTAAGTAT
3913641 CGATACA
1 CGATACA
3913648 AATCGTTGAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTAAGTAT
Found at i:3914446 original size:49 final size:48
Alignment explanation
Indices: 3914381--3914753 Score: 427
Period size: 49 Copynumber: 7.7 Consensus size: 48
3914371 AATGATAATG
*
3914381 TGCTGATTCATGGCCAGCGACATTGATCTTAAAGATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGA-CTTAAAGATGAAGGTGCCAATA
* * ** * *
3914430 TGCTGATTCAAAGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATG
1 TGCTGATTCAAGGCCAGCGACA-TTGACTTAAAGATGAAGGTGCCAATA
* *
3914479 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATT-GACTTAAAGATGAAGGTGCCAATA
* * * *
3914528 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGATGCCAATG
1 TGCTGATTCAAGGCCAGCGACATT-GACTTAAAGATGAAGGTGCCAATA
*
3914577 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACA-GTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATT-GACTTAAAGATGA-AGGTGCCAATA
* * *
3914626 TGCTGATTCAAGGCCAACGATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATT-GACTTAAAGATGAAGGTGCCAATA
* *
3914669 TGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATT-GACTTAAAGATGAAGGTGCCAATA
*
3914718 TGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCTGATTCAAGGCCAGCGACATT-GACTTA-AAGA
3914754 AGATGCCACC
Statistics
Matches: 276, Mismatches: 37, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.00
43 36 0.13
45 1 0.00
47 1 0.00
49 230 0.83
50 7 0.03
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (48 bp):
TGCTGATTCAAGGCCAGCGACATTGACTTAAAGATGAAGGTGCCAATA
Found at i:3914516 original size:98 final size:97
Alignment explanation
Indices: 3914377--3914761 Score: 586
Period size: 98 Copynumber: 4.0 Consensus size: 97
3914367 GAAGAATGAT
* * *
3914377 AATGTGCTGATTCATGGCCAGCGACATTGATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAA
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAG
**
3914442 GCCAGCGATACCGGACTTAAAGATGAAGATGCC
66 GCCAGCGATATTGGACTT-AAGATGAAGATGCC
*
3914475 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATTCAAG
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAG
*
3914540 GCCAGCGATATTGGACTTAAAGGTGAAGATGCC
66 GCCAGCGATATTGGACTT-AAGATGAAGATGCC
3914573 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACA-GTGCCAATATGCTGATTCAA
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGA-AGGTGCCAATATGCTGATTCAA
*
3914637 GGCCAACGATATTGGACTTAA-A-G--G-TGCC
65 GGCCAGCGATATTGGACTTAAGATGAAGATGCC
* * *
3914665 AATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGCCAATATGCTGATTCAAG
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAG
*
3914730 GCCAGCGATATTGGACTT-AGAAGAAGATGCC
66 GCCAGCGATATTGGACTTAAGATGAAGATGCC
3914761 A
1 A
3914762 CCAACTTGTG
Statistics
Matches: 266, Mismatches: 14, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
91 1 0.00
92 83 0.31
93 2 0.01
95 2 0.01
96 5 0.02
97 2 0.01
98 171 0.64
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (97 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAG
GCCAGCGATATTGGACTTAAGATGAAGATGCC
Found at i:3914573 original size:147 final size:141
Alignment explanation
Indices: 3914381--3914761 Score: 500
Period size: 147 Copynumber: 2.7 Consensus size: 141
3914371 AATGATAATG
* *
3914381 TGCTGATTCATGGCCAGCGACATT-GATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAAGCC
1 TGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
** * * *
3914445 AGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
65 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT-
3914510 AAGATGACGGTGCCAATA
129 -A-A--A-GGTGCCAATA
* * * *
3914528 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGATGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
* * *
3914593 GCGACATTGGTCTTAAAGATGACAG-TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
66 GCGATATTGGACTTAAAGATGA-AGATGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA
*
3914657 AAGGTGCCAATG
130 AAGGTGCCAATA
* *
3914669 TGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
*
3914734 GCGATATTGGACTT--AGAAGAAGATGCCA
66 GCGATATTGGACTTAAAGATGAAGATGCCA
3914762 CCAACTTGTG
Statistics
Matches: 207, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
138 2 0.01
139 10 0.05
141 80 0.39
142 1 0.00
144 1 0.00
145 1 0.00
147 108 0.52
148 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (141 bp):
TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
GCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAA
AGGTGCCAATA
Found at i:3914908 original size:58 final size:58
Alignment explanation
Indices: 3914770--3915011 Score: 319
Period size: 58 Copynumber: 4.2 Consensus size: 58
3914760 CACCAACTTG
** * *
3914770 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTCAAAA-GATACCACTAACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACT
* * *
3914827 TGTAGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACT
* *
3914885 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACT
* * *
3914943 TGTGGGC-TTTGAAAAAGGGTGCCACTGACTTGTGGGCTTTAG-AAAGGATGCCACGGACT
1 TGTGGGCTTTTG---AAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACT
*
3915002 TATGGGCTTT
1 TGTGGGCTTT
3915012 GGAAAAGGTG
Statistics
Matches: 164, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
57 44 0.27
58 72 0.44
59 21 0.13
60 27 0.16
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (58 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACT
Found at i:3914938 original size:30 final size:30
Alignment explanation
Indices: 3914782--3915019 Score: 258
Period size: 30 Copynumber: 8.1 Consensus size: 30
3914772 TGGGCTTTTG
* **
3914782 AAGGTTGCCACTGACTTGTGGGCTTTTCAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGAAA
* * * *
3914812 AA-GATACCACTAACTTGTAGGCTTTTG---
1 AAGGGTGCCACTGACTTGTGGGC-TTTGAAA
* * *
3914839 AAGGTTGCCACTGACTTATGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGAAA
3914869 AAGGGTGCCACTGACTTGTGGGCTTTTG---
1 AAGGGTGCCACTGACTTGTGGGC-TTTGAAA
*
3914897 AAGGTTGCCACTGACTTGTGGGCTTTGAAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGAAA
3914927 AAGGGTGCCACTGACTTGTGGGCTTTGAAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGAAA
*
3914957 AAGGGTGCCACTGACTTGTGGGCTTT-AGA
1 AAGGGTGCCACTGACTTGTGGGCTTTGAAA
* * * *
3914986 AAGGATGCCACGGACTTATGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGAAA
3915016 AAGG
1 AAGG
3915020 TGAGGAATGT
Statistics
Matches: 178, Mismatches: 20, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
27 10 0.06
28 37 0.21
29 41 0.23
30 86 0.48
31 4 0.02
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (30 bp):
AAGGGTGCCACTGACTTGTGGGCTTTGAAA
Found at i:3914960 original size:88 final size:87
Alignment explanation
Indices: 3914782--3915019 Score: 300
Period size: 88 Copynumber: 2.7 Consensus size: 87
3914772 TGGGCTTTTG
* * * * * * *
3914782 AAGGTTGCCACTGACTTGTGGGCTTTTCAAAAGATACCACTAACTTGTAGGCTTTTG--AAGGTT
1 AAGGGTGCCACTGACTTGTGGGCTTTT-GAAGGATGCCACTGACTTGTGGGC-TTTGAAAAGGGT
*
3914845 GCCACTGACTTATGGGCTTTGGAA
64 GCCACTGACTTATGGGCTTTGAAA
*
3914869 AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGGGTG
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGATGCCACTGACTTGTGGGCTTTG-AAAAGGGTG
*
3914934 CCACTGACTTGTGGGCTTTGAAA
65 CCACTGACTTATGGGCTTTGAAA
* * *
3914957 AAGGGTGCCACTGACTTGTGGGCTTTAGAAAGGATGCCACGGACTTATGGGCTTTGGAAAAGG
1 AAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGATGCCACTGACTTGTGGGCTTT-GAAAAGG
3915020 TGAGGAATGT
Statistics
Matches: 132, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
85 4 0.03
86 18 0.14
87 26 0.20
88 54 0.41
89 29 0.22
90 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (87 bp):
AAGGGTGCCACTGACTTGTGGGCTTTTGAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGC
CACTGACTTATGGGCTTTGAAA
Found at i:3916473 original size:15 final size:14
Alignment explanation
Indices: 3916455--3916540 Score: 68
Period size: 15 Copynumber: 5.8 Consensus size: 14
3916445 ATCCGGACCC
*
3916455 TTTTTGTTGTTGTTG
1 TTTTTGTT-TTTTTG
3916470 TTTTT-TTTTCTTTG
1 TTTTTGTTTT-TTTG
*
3916484 TTTTTTTGTTTTTTG
1 TTTTTGT-TTTTTTG
3916499 TTTTTTGTTCTTTTTTG
1 -TTTTTG-T-TTTTTTG
3916516 TTTTTTGTTTTTTTG
1 -TTTTTGTTTTTTTG
*
3916531 GTTTT-TTTTT
1 TTTTTGTTTTT
3916541 GTGGAGGATG
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
13 7 0.11
14 14 0.23
15 17 0.27
16 9 0.15
17 15 0.24
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (14 bp):
TTTTTGTTTTTTTG
Found at i:3916474 original size:1 final size:1
Alignment explanation
Indices: 3916470--3916540 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
3916460 GTTGTTGTTG
* * * * * * * * **
3916470 TTTTTTTTTCTTTGTTTTTTTGTTTTTTGTTTTTTGTTCTTTTTTGTTTTTTGTTTTTTTGGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3916535 TTTTTT
1 TTTTTT
3916541 GTGGAGGATG
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:3916484 original size:17 final size:15
Alignment explanation
Indices: 3916464--3916540 Score: 91
Period size: 16 Copynumber: 4.8 Consensus size: 15
3916454 CTTTTTGTTG
3916464 TTGTTGTTTTTTTTTCT
1 TTGTT-TTTTTTTTT-T
*
3916481 TTGTTTTTTTGTTTT
1 TTGTTTTTTTTTTTT
3916496 TTGTTTTTTGTTCTTTT
1 TTGTTTTTT-TT-TTTT
3916513 TTGTTTTTTGTTTTTT
1 TTGTTTTTT-TTTTTT
*
3916529 TGGTTTTTTTTT
1 TTGTTTTTTTTT
3916541 GTGGAGGATG
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
15 13 0.24
16 21 0.38
17 21 0.38
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (15 bp):
TTGTTTTTTTTTTTT
Found at i:3916523 original size:39 final size:39
Alignment explanation
Indices: 3916455--3916542 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
3916445 ATCCGGACCC
*
3916455 TTTTTGTTGTTGTTGTTTTTTTTTCTTTGTTTTTTT-GT
1 TTTTTGTTGTTGTTCTTTTTTTTTCTTTGTTTTTTTGGT
*
3916493 TTTTTGTTTTTTGTTCTTTTTTGTTT-TTTGTTTTTTTGGT
1 TTTTTG-TTGTTGTTCTTTTTT-TTTCTTTGTTTTTTTGGT
*
3916533 TTTTTTTTGT
1 TTTTTGTTGT
3916543 GGAGGATGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
38 6 0.14
39 27 0.63
40 10 0.23
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (39 bp):
TTTTTGTTGTTGTTCTTTTTTTTTCTTTGTTTTTTTGGT
Found at i:3916535 original size:14 final size:12
Alignment explanation
Indices: 3916464--3916540 Score: 66
Period size: 13 Copynumber: 6.0 Consensus size: 12
3916454 CTTTTTGTTG
3916464 TTGTTGTTTTTTT
1 TTGTT-TTTTTTT
* *
3916477 TTCTTTGTTTTT
1 TTGTTTTTTTTT
3916489 TTGTTTTTTGTTTT
1 TTG-TTTTT-TTTT
3916503 TTGTTCTTTTTTGT
1 TTGTT-TTTTTT-T
3916517 TT-TTTGTTTTTT
1 TTGTTT-TTTTTT
*
3916529 TGGTTTTTTTTT
1 TTGTTTTTTTTT
3916541 GTGGAGGATG
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
12 17 0.32
13 23 0.43
14 13 0.25
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (12 bp):
TTGTTTTTTTTT
Found at i:3916536 original size:7 final size:7
Alignment explanation
Indices: 3916455--3916528 Score: 78
Period size: 7 Copynumber: 9.7 Consensus size: 7
3916445 ATCCGGACCC
3916455 TTTTTGT
1 TTTTTGT
3916462 TGTTGTTGT
1 T-TT-TTGT
3916471 TTTTT-T
1 TTTTTGT
3916477 TTCTTTGTT
1 TT-TTTG-T
3916486 TTTTTGT
1 TTTTTGT
3916493 TTTTTGT
1 TTTTTGT
3916500 TTTTTGTTCT
1 TTTTTG---T
3916510 TTTTTGT
1 TTTTTGT
3916517 TTTTTGT
1 TTTTTGT
3916524 TTTTT
1 TTTTT
3916529 TGGTTTTTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
6 3 0.05
7 33 0.56
8 8 0.14
9 8 0.14
10 7 0.12
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.84
Consensus pattern (7 bp):
TTTTTGT
Found at i:3944628 original size:52 final size:52
Alignment explanation
Indices: 3944549--3944678 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
3944539 CCGAAATATG
*
3944549 AAAATTTGCCTGCCTGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAAA-TTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
3944602 AAAATTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAAATTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
3944654 AAATTTGCCTGCAAGTATCGATACA
1 AAAATTGCCTGCATGTATCGATACA
3944679 AAGATCAATG
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 70 0.95
53 4 0.05
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (52 bp):
AAAATTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:3944691 original size:52 final size:52
Alignment explanation
Indices: 3944549--3944698 Score: 187
Period size: 52 Copynumber: 2.9 Consensus size: 52
3944539 CCGAAATATG
** **
3944549 AAAATTTGCCTGCCTGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAAA-TTGCCTGCAAGTATCGATACAGATCATAGTGTATCGATACATCTGGGC
* **
3944602 AAAATTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAAATTGCCTGCAAGTATCGATACAGATCATAGTGTATCGATACATCTGGGC
*
3944654 AAATTTGCCTGCAAGTATCGATACAAAGATCA-A-TGTATCGATACA
1 AAAATTGCCTGCAAGTATCGATAC--AGATCATAGTGTATCGATACA
3944699 ATATATCGAT
Statistics
Matches: 90, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
52 81 0.90
53 5 0.06
54 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (52 bp):
AAAATTGCCTGCAAGTATCGATACAGATCATAGTGTATCGATACATCTGGGC
Found at i:3944788 original size:19 final size:19
Alignment explanation
Indices: 3944764--3944828 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
3944754 AGCGATAAAT
3944764 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
3944783 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
3944796 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
3944815 TGTATCGATACAAA
1 TGTATCGATACAAA
3944829 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:3944798 original size:32 final size:32
Alignment explanation
Indices: 3944756--3944826 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
3944746 AGCTTCGTAG
*
3944756 CGATAAATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
3944788 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
3944820 CGATACA
1 CGATACA
3944827 AATCGTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:3944801 original size:13 final size:13
Alignment explanation
Indices: 3944783--3944807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3944773 ACAAAACTTA
3944783 TGTATCGATACAT
1 TGTATCGATACAT
3944796 TGTATCGATACA
1 TGTATCGATACA
3944808 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3946594 original size:79 final size:79
Alignment explanation
Indices: 3946414--3946578 Score: 217
Period size: 79 Copynumber: 2.1 Consensus size: 79
3946404 AACAGGGCCA
* * * * *** *
3946414 GAGTATCCCCGATTATGGAAAATTGGTGTTCCAAAAATAAAACCGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAACCGGGGTTGAAGTATCCCCTCGG
3946479 AAATAACAGGGTTG
66 AAATAACAGGGTTG
*
3946493 GAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGGGGTTGAAGTATCCCCTC-G
1 GAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAACCGGGGTTGAAGTATCCCCTCGG
3946557 AAGATAAC-GAGGTTG
66 AA-ATAACAG-GGTTG
3946572 GAGTATC
1 GAGTATC
3946579 TTCGATTGTG
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 4 0.05
79 71 0.95
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (79 bp):
GAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAACCGGGGTTGAAGTATCCCCTCGG
AAATAACAGGGTTG
Found at i:3946610 original size:79 final size:79
Alignment explanation
Indices: 3946447--3946632 Score: 202
Period size: 79 Copynumber: 2.4 Consensus size: 79
3946437 TGGTGTTCCA
*
3946447 AAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCTGATTATAGA
1 AAAATAAAACCGGGGTTGAAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCTGATTATAGA
* *
3946512 AAATCGGTATTTTG
66 AAATCGATATTTAG
* * *
3946526 AAAATAAAATCGGGGTTGAAGTATCCCCTC-GAAGATAAC-GAGGTTGGAGTAT-CTTCGATTGT
1 AAAATAAAACCGGGGTTGAAGTATCCCCTCGGAA-ATAACAG-GGTTGGAGTATCCCT-GATTAT
*
3946588 -GAAAAATTGATGATTTAG
63 AG-AAAATCGAT-ATTTAG
** *
3946606 -AAATAAGGCCAGGGTTGAAGTATCCCC
1 AAAATAAAACCGGGGTTGAAGTATCCCC
3946633 GATTATGAGA
Statistics
Matches: 91, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
78 7 0.08
79 79 0.87
80 5 0.05
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (79 bp):
AAAATAAAACCGGGGTTGAAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCTGATTATAGA
AAATCGATATTTAG
Found at i:3946679 original size:51 final size:51
Alignment explanation
Indices: 3946619--3946734 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
3946609 TAAGGCCAGG
* **
3946619 GTTGAAGTATCCCCGATTAT-GAGAAATCAATATGTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGA-AAATCAATATGTTAAAAATAAAATCGGA
* *** * *
3946670 GTTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTAAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTATGGAAAATCAATATGTTAAAAATAAAATCGGA
3946721 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
3946735 TGAAAATAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 53 0.96
52 2 0.04
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATCAATATGTTAAAAATAAAATCGGA
Found at i:3946780 original size:28 final size:29
Alignment explanation
Indices: 3946717--3946792 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 29
3946707 AAAATAAAAT
3946717 CGGGGTTGGAGTATCCCC--TGAAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAAATAA
** *
3946744 TAGGATTGGAGTATCCCCGATG-AAATAA
1 CGGGGTTGGAGTATCCCCGATGAAAATAA
*
3946772 CGGGGTTGGAGTACCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
3946793 TATGAAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 15 0.38
28 23 0.57
29 2 0.05
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCGATGAAAATAA
Found at i:3949189 original size:20 final size:19
Alignment explanation
Indices: 3949160--3949234 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
3949150 AAAAATGCCT
*
3949160 AAATGTATCGATACAGTGTA
1 AAATGTATCGATACAATG-A
*
3949180 AAATGCATCGATACAATGA
1 AAATGTATCGATACAATGA
*
3949199 GCAATGTATCGATACAATGCA
1 -AAATGTATCGATACAATG-A
3949220 AAATGTATCGATACA
1 AAATGTATCGATACA
3949235 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (19 bp):
AAATGTATCGATACAATGA
Found at i:3949268 original size:13 final size:13
Alignment explanation
Indices: 3949250--3949279 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3949240 GTAAACCCAG
3949250 AATGTATCGATAC
1 AATGTATCGATAC
*
3949263 AATGTATCGATAT
1 AATGTATCGATAC
3949276 AATG
1 AATG
3949280 AACAATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:3949997 original size:41 final size:40
Alignment explanation
Indices: 3949898--3950125 Score: 122
Period size: 42 Copynumber: 5.7 Consensus size: 40
3949888 GTCCCTCTTT
* * *
3949898 TTGAGGACAAAGG-AAAAGAGAATGAAATAGGTCTTGCTCC
1 TTGAGGACAAAGGAAAAAGAAAAGGAAATA-GTCCTGCTCC
*
3949938 TTGAGGACAAAGGAAAAAAGAAAAGGAAAGTA-TCCTGCTTC
1 TTGAGGACAAAGG-AAAAAGAAAAGGAAA-TAGTCCTGCTCC
*
3949979 TTGAGGACAAAGTGAAAAAG---A-G---TACGTCCTGCT-T
1 TTGAGGACAAAG-GAAAAAGAAAAGGAAATA-GTCCTGCTCC
* *
3950013 TTCGAGGACAAAGGAAAAAAGGAAAACGAAAT-GCATCCTGCTCT
1 TT-GAGGACAAAGG-AAAAA-GAAAAGGAAATAG--TCCTGCTCC
* * * * * *
3950057 TTGAGGATAAAAGAAAGAGGAAAA-CAAAGTGCGTCCTGCTCT
1 TTGAGGACAAAGGAAA-AAGAAAAGGAAA-T-AGTCCTGCTCC
3950099 TTGAGGACAAAAGGAAAAAG-AAAGGAA
1 TTGAGGAC-AAAGGAAAAAGAAAAGGAA
3950126 TGAAGTGTGT
Statistics
Matches: 150, Mismatches: 13, Indels: 48
0.71 0.06 0.23
Matches are distributed among these distances:
33 2 0.01
34 3 0.02
35 22 0.15
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 14 0.09
41 32 0.21
42 42 0.28
43 27 0.18
44 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAGAAAAGGAAATAGTCCTGCTCC
Found at i:3950038 original size:42 final size:42
Alignment explanation
Indices: 3949987--3950168 Score: 183
Period size: 42 Copynumber: 4.2 Consensus size: 42
3949977 TCTTGAGGAC
* *
3949987 AAAGTGAAAAAG-AGTACGTCCTGCT-TTTCGAGGACAAAGGAAA
1 AAAG-GAAAAAGAAGTGCGTCCTGCTCTTT-GAGGACAAAAG-AA
* * * *
3950030 AAAGGAAAACGAAATGCATCCTGCTCTTTGAGGATAAAAGAA
1 AAAGGAAAAAGAAGTGCGTCCTGCTCTTTGAGGACAAAAGAA
*
3950072 AGAGGAAAACA-AAGTGCGTCCTGCTCTTTGAGGACAAAAGGAA
1 AAAGGAAAA-AGAAGTGCGTCCTGCTCTTTGAGGACAAAA-GAA
*
3950115 AAA-GAAAGGAATGAAGTGTGTCCTGCTCTTTGAGGACAAAAGAGA
1 AAAGGAAA--AA-GAAGTGCGTCCTGCTCTTTGAGGACAAAAGA-A
3950160 AAAGGAAAA
1 AAAGGAAAA
3950169 TGCATCCTGC
Statistics
Matches: 116, Mismatches: 13, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
42 45 0.39
43 29 0.25
44 7 0.06
45 31 0.27
46 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (42 bp):
AAAGGAAAAAGAAGTGCGTCCTGCTCTTTGAGGACAAAAGAA
Found at i:3950053 original size:43 final size:43
Alignment explanation
Indices: 3950005--3950189 Score: 163
Period size: 42 Copynumber: 4.4 Consensus size: 43
3949995 AAAGAGTACG
3950005 TCCTGCT-TTTCGAGGACAAAGGAAAAAAGGAAAACGAAA-TGCA
1 TCCTGCTCTTT-GAGGACAAAGGAAAAAAGGAAAAC-AAAGTGCA
* * * *
3950048 TCCTGCTCTTTGAGGATAAAAG-AAAGAGGAAAACAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAACAAAGTGCA
* ** **
3950090 TCCTGCTCTTTGAGGACAAAAGG-AAAAAGAAAGGAATGAAGTGTG
1 TCCTGCTCTTTGAGGAC-AAAGGAAAAAAGGAA--AACAAAGTGCA
* *
3950135 TCCTGCTCTTTGAGGACAAAAGAGAAAAGG---A-AAA-TGCA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAACAAAGTGCA
3950173 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
3950190 TAAAAAGTGC
Statistics
Matches: 119, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
38 19 0.16
39 2 0.02
40 1 0.01
41 3 0.03
42 30 0.25
43 27 0.23
44 7 0.06
45 30 0.25
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (43 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAACAAAGTGCA
Found at i:3950341 original size:60 final size:59
Alignment explanation
Indices: 3950159--3950345 Score: 243
Period size: 61 Copynumber: 3.1 Consensus size: 59
3950149 GACAAAAGAG
* * **
3950159 AAAAGGAAAATGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACACGTGTGGGCTTT
1 AAAA-GAAAAGGCATCCTGCTCTTTGAGGACT-AGAAGTGCCACCAACTTGTGTGGGCTTT
*
3950220 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTT
*
3950281 ACAAAGAGAAA-GCATCCTGCTCTTTGAGGAC-AGGAAGTGCCACCAACTTTTGTGGGCTTT
1 A-AAAGA-AAAGGCATCCTGCTCTTTGAGGACTA-GAAGTGCCACCAACTTGTGTGGGCTTT
3950341 AAAAG
1 AAAAG
3950346 GCGTCCTGCT
Statistics
Matches: 114, Mismatches: 7, Indels: 11
0.86 0.05 0.08
Matches are distributed among these distances:
59 4 0.04
60 29 0.25
61 74 0.65
62 7 0.06
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (59 bp):
AAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:3950453 original size:213 final size:209
Alignment explanation
Indices: 3950194--3950581 Score: 557
Period size: 213 Copynumber: 1.8 Consensus size: 209
3950184 GAGGACTAAA
* * **
3950194 AAGTGCCACCAACACGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGT
1 AAGTGCCACCAACACGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAAT
*
3950259 GCCACCAACTTGTGTGGGCTTTACAAAGAGAAAGCATCCTGCTCTTTGAGGACAGG-AAGTGCCA
66 GCCACCAACTTGTGTGGGCTTT-----GA-AAAGCATCCTGCTCTTTGAGGACAGGAAAATGCCA
* * *
3950323 CCAACTTTTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACT-AAAGGGCGAAAGGAGAGAGC
125 CCAACTTGTGTGAGCTTTAAAAGGCATCCTGCTCTTTAAGGACTGAAAGGGCGAAAGGAGAGAGC
3950387 GACCTGCTCTGAGGACTGGG
190 GACCTGCTCTGAGGACTGGG
** * *
3950407 AAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAAGCATCCTGCTCTTTGAGGATTGGAAAA
1 AAGTGCCACCAACACGTGTGGGCTTTGAAAA-GAAAAAGCATCCTGCTCTTTGAGGACTAGAAAA
* *
3950471 TGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
65 TGCCACCAACTTGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAGGACAGGAAAATGCCACCAAC
*
3950536 TTGTGTGAGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGG
130 TTGTGTGAGCTTTAAAAGGCATCCTGCTCTTTAAGGACTGAAAGGG
3950582 GCCACCAACT
Statistics
Matches: 157, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
207 24 0.15
208 49 0.31
209 6 0.04
212 4 0.03
213 74 0.47
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (209 bp):
AAGTGCCACCAACACGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAAT
GCCACCAACTTGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAGGACAGGAAAATGCCACCAACT
TGTGTGAGCTTTAAAAGGCATCCTGCTCTTTAAGGACTGAAAGGGCGAAAGGAGAGAGCGACCTG
CTCTGAGGACTGGG
Found at i:3950507 original size:55 final size:55
Alignment explanation
Indices: 3950389--3950682 Score: 281
Period size: 55 Copynumber: 5.2 Consensus size: 55
3950379 GAGAGAGCGA
* * *
3950389 CCTGCTC--TGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCAT
1 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCAT
*
3950448 CCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
1 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
* *
3950503 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTAAAAGGCAT
1 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
** **
3950558 CCTGCTCTTTGAGGACT-GAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGT
1 CCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCAT
* * * * * *
3950619 CCTGCTCTTGGAGGACTAGG-AAGTGCCACTAACTTGTATGGGCTTTAAAAGGCGT
1 CCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
*
3950674 ACTGCTCTT
1 CCTGCTCTT
3950683 AAAGGACTAA
Statistics
Matches: 204, Mismatches: 20, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
54 4 0.02
55 112 0.55
56 1 0.00
59 7 0.03
61 77 0.38
62 2 0.01
63 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (55 bp):
CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
Found at i:3950615 original size:116 final size:109
Alignment explanation
Indices: 3950389--3950935 Score: 416
Period size: 116 Copynumber: 5.0 Consensus size: 109
3950379 GAGAGAGCGA
3950389 CCTGCTC--TGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCATCCTG
1 CCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G-----GCATCCTG
* **
3950452 CTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
59 CTCTTTGAGGACT-GAAAGGGGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
* *
3950503 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTAAAAGGCATCCTGCTCTTT
1 CCTGCTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
**
3950568 GAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGT
65 GAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCAT
* * * * * *
3950619 CCTGCTCTTGGAGGACTAGGAAGTGCCACTAACTTGTATGGGCTTTAAAAGGCGTACTGCTCTTA
1 CCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
* * *** ** *
3950684 AAGGACT-AAA-GGGCGA--AA--------GG-AAAGAGCGTCAT
65 GAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
* * **
3950716 GCT-CT-TTGAGGACTA--GGAAGTGCCACCAACTTGTGTGGGCTTTAAAATGAGAAAGCATCCT
1 CCTGCTCTT--TGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTT-AAA--AG---GCATCCT
** *
3950777 GCTCTTTGAGGACTGGAAA-ATGCCACCAAGTTGTGTGGGCTTTGAAAGGCAT
58 GCTCTTTGAGGACT-GAAAGGGGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
* * * *
3950829 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTAGGCTTTAAGAGGCGTCCTGCTCTTT
1 CCTGCTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
*
3950894 GAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAGG
65 GAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTGAAAGG
3950936 AAAAGGCGTC
Statistics
Matches: 340, Mismatches: 55, Indels: 80
0.72 0.12 0.17
Matches are distributed among these distances:
94 26 0.08
95 5 0.01
96 2 0.01
97 11 0.03
98 1 0.00
100 17 0.05
102 6 0.02
104 4 0.01
109 8 0.02
110 88 0.26
112 4 0.01
113 13 0.04
114 14 0.04
115 13 0.04
116 126 0.37
117 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (109 bp):
CCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTG
AGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTGAAAGGCAT
Found at i:3950681 original size:171 final size:172
Alignment explanation
Indices: 3950411--3950967 Score: 701
Period size: 171 Copynumber: 3.4 Consensus size: 172
3950401 ACTGGGAAGT
* *
3950411 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCATCCTGCTCTTTGAGGA-TTGGAAAATGCC
1 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGGAAAATGCC
3950475 ACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
66 ACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
* *
3950540 GTGAGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGG
131 GTGAGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGAAAGGG
* ** * *
3950582 GCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCTGCTCTTGGAGGACTAGG-AAGTGCC
1 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGGAAAATGCC
* * * * * ** ** *
3950646 ACTAACTTGTATGGGCTTTAAAAGGCGTACTGCTCTTAAAGGACT--AAAGGGCGA--AA-----
66 ACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
* * *
3950702 G-GA-----AAGA-GCGTCATGCTCTTTGAGGACTAGGAA-GT
131 GTGAGCTTTAAGAGGCGTCCTGCTCTTTGAGGACT-GAAAGGG
*
3950737 GCCACCAACTTGTGTGGGCTTTAAAATGAGAAA-GCATCCTGCTCTTTGAGGACT-GGAAAATGC
1 GCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCCTGCTCTTTGAGGACTAGGAAAATGC
*
3950800 CACCAAGTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTG
65 CACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTG
3950865 TGT-AGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGAAAGGG
130 TGTGA-GCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGAAAGGG
*
3950908 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA-GAAAA
1 GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGGAAAA
3950968 GCTAAAAGAG
Statistics
Matches: 319, Mismatches: 43, Indels: 48
0.78 0.10 0.12
Matches are distributed among these distances:
154 2 0.01
155 109 0.34
156 9 0.03
157 6 0.02
159 2 0.01
161 2 0.01
162 1 0.00
164 2 0.01
167 2 0.01
169 6 0.02
170 10 0.03
171 165 0.52
172 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (172 bp):
GCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGGAAAATGCC
ACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
GTGAGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGAAAGGG
Found at i:3950760 original size:210 final size:208
Alignment explanation
Indices: 3950505--3950907 Score: 505
Period size: 210 Copynumber: 1.9 Consensus size: 208
3950495 AAAGGCATCC
3950505 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTT-AAA-AG-GCATCCTGCTCTT
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTAAAAGAGAGCATCCTGCTCTT
* **
3950567 TGAGGACT-GAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCTGCTCTTGGA
66 TGAGGACTGGAAA-AGGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATCCTGCTCTTGGA
* * *
3950631 GGACTAGG-AAGTGCCACTAACTTGTATGGGCTTTAAAAGGCGTACTGCTCTTAAAGGACT-AAA
124 GGACT-GGAAAATGCCACCAACTTGTATAGGCTTTAAAAGGCGTACTGCTCTTAAAGGACTGAAA
3950694 GGGCGAAAGGAAAGAGCGTCA
188 GGGCGAAAGGAAAGAGCGTCA
* *
3950715 TGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAATGAGAAAGCATCCTGC
1 TGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGAGCTTTAAAA-GAG--AGCATCCTGC
* * *
3950779 TCTTTGAGGACTGGAAAATGCCACCAAGTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGA
62 TCTTTGAGGACTGGAAAAGGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTGGAGGA
* * * **
3950844 CTGGAAAATGCCACCAACTTGTGTAGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGAAAGGG
127 CTGGAAAATGCCACCAACTTGTATAGGCTTTAAAAGGCGTACTGCTCTTAAAGGACTGAAAGGG
3950908 GCCACCAACT
Statistics
Matches: 167, Mismatches: 16, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
209 2 0.01
210 105 0.63
211 12 0.07
213 2 0.01
216 42 0.25
217 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (208 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTAAAAGAGAGCATCCTGCTCTT
TGAGGACTGGAAAAGGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTGGAGGACTGG
AAAATGCCACCAACTTGTATAGGCTTTAAAAGGCGTACTGCTCTTAAAGGACTGAAAGGGCGAAA
GGAAAGAGCGTCA
Found at i:3950784 original size:326 final size:324
Alignment explanation
Indices: 3950170--3950963 Score: 1220
Period size: 326 Copynumber: 2.4 Consensus size: 324
3950160 AAAGGAAAAT
* ** *
3950170 GCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACACGTGTGGGCTTTGAAAAGAAAAGGCG
1 GCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGAGCTTT------AAAAGGCG
* * *
3950234 TCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTACAAAGAGAAA-GCATC
59 TCCTGCTCTTTGAGGACTGA-AAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAAGGCGTC
* * * *
3950297 CTGCTCTTTGAGGAC-AGGAAGTGCCACCAACTTTTGTGGGCTTTAAAAGGCGTCCTGCTCTTTA
122 CTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTACTGCTCTTAA
* * *
3950361 AGGACTAAAGGGCGAAAGGAGAGAGCGACCTGCTCTGAGGACTGGGAAGTGCCACCAACTTGTGT
187 AGGACTAAAGGGCGAAAGGAAAGAGCGACATGCTCTGAGGACTAGGAAGTGCCACCAACTTGTGT
*
3950426 GGGCTTTAAAAGGAAAAAGCATCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGC
252 GGGCTTTAAAAGGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC
3950491 TTTGAAAG
317 TTTGAAAG
*
3950499 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTAAAAGGCATCCTGCT
1 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGCT
* *
3950564 CTTTGAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCTGCTCTTG
66 CTTTGAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTT
*
3950629 GAGGACTAGGAAGTGCCACTAACTTGTATGGGCTTTAAAAGGCGTACTGCTCTTAAAGGACTAAA
131 GAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTACTGCTCTTAAAGGACTAAA
*
3950694 GGGCGAAAGGAAAGAGCGTCATGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT
196 GGGCGAAAGGAAAGAGCGACATGCTC--TGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT
* * *
3950759 AAAATGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAAGTTGTGTGGGCTTTGAAA
259 AAAAGGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
3950824 G
324 G
*
3950825 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT-AGGCTTTAAGAGGCGTCCTGC
1 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGA-GCTTTAAAAGGCGTCCTGC
*
3950889 TCTTTGAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
65 TCTTTGAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTT
3950954 TGAGGACTAG
130 TGAGGACTAG
3950964 AAAAGCTAAA
Statistics
Matches: 430, Mismatches: 28, Indels: 17
0.91 0.06 0.04
Matches are distributed among these distances:
322 3 0.01
323 74 0.17
324 77 0.18
325 1 0.00
326 230 0.53
329 41 0.10
330 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (324 bp):
GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTT
GAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTACTGCTCTTAAAGGACTAAA
GGGCGAAAGGAAAGAGCGACATGCTCTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAA
AAGGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:3950844 original size:155 final size:155
Alignment explanation
Indices: 3950560--3950963 Score: 418
Period size: 155 Copynumber: 2.5 Consensus size: 155
3950550 AAAGGCATCC
**
3950560 TGCTCTTTGAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCTGCT
1 TGCTCTTTGAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCT
* * *
3950625 CTTGGAGGACTAGGAAGTGCCACTAACTTGTATGGGCTTTAAAAGGCGTACTGCTCTTAAAGGAC
66 CTTGGAGGACTAGGAAATGCCACCAACTTGTATGGGCTTTAAAAGGCATACTGCTCTTAAAGGAC
3950690 TAAAGGGCGAAAGGAAAGAGCGTCA
131 TAAAGGGCGAAAGGAAAGAGCGTCA
* * *
3950715 TGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAATGAGAAA-GCATCCTG
1 TGCTCTTTGAGGACT-GAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAAGGCATCCTG
* * * * * **
3950778 CTCTTTGAGGACT-GGAAAATGCCACCAAGTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAG
64 CTCTTGGAGGACTAGG-AAATGCCACCAACTTGTATGGGCTTTAAAAGGCATACTGCTCTTAAAG
** * *
3950842 GACTGGAAAATGCCACCAACTTGTGTAGGCTTTAAGAGGCGTCC
128 GACT--AAAGGGCGA--AA---G-G-A------AAGA-GCGTCA
* *
3950886 TGCTCTTTGAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCT
1 TGCTCTTTGAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCT
*
3950951 CTTTGAGGACTAG
66 CTTGGAGGACTAG
3950964 AAAAGCTAAA
Statistics
Matches: 204, Mismatches: 23, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
154 2 0.01
155 105 0.51
156 6 0.03
157 6 0.03
159 2 0.01
162 1 0.00
163 1 0.00
164 1 0.00
170 10 0.05
171 69 0.34
172 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (155 bp):
TGCTCTTTGAGGACTGAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCT
CTTGGAGGACTAGGAAATGCCACCAACTTGTATGGGCTTTAAAAGGCATACTGCTCTTAAAGGAC
TAAAGGGCGAAAGGAAAGAGCGTCA
Found at i:3950849 original size:55 final size:55
Alignment explanation
Indices: 3950766--3950967 Score: 248
Period size: 55 Copynumber: 3.6 Consensus size: 55
3950756 TTTAAAATGA
*
3950766 GAAA-GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAAGTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
*
3950820 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTAGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* **
3950875 -AAGAGGCGTCCTGCTCTTTGAGGACT-GAAAGGGGCCACCAACTTGTGTGGGCTTT
1 GAA-AGGCATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT
* *
3950930 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
1 -----G-AAAGGCATCCTGCTCTTTGAGGACTGGAAAA
3950968 GCTAAAAGAG
Statistics
Matches: 130, Mismatches: 7, Indels: 15
0.86 0.05 0.10
Matches are distributed among these distances:
54 10 0.08
55 91 0.70
61 23 0.18
62 6 0.05
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (55 bp):
GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:3950942 original size:116 final size:113
Alignment explanation
Indices: 3950715--3950967 Score: 300
Period size: 116 Copynumber: 2.2 Consensus size: 113
3950705 AAGAGCGTCA
* *
3950715 TGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAATGAGAAAGCATCCTGC
1 TGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTAGGCTTT-AAATGAG--AGCATCCTGC
* *
3950779 TCTTTGAGGACTGGAAAATGCCACCAAGTTGTGTGGGCTTTGAAAGGCATCC
62 TCTTTGAGGACTGGAAAAGGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
*
3950831 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTAGGCTTT-AA-GAG-GCGTCCTGCTCTT
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTAGGCTTTAAATGAGAGCATCCTGCTCTT
* *
3950893 TGAGGACT-GAAAGGGGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
66 TGAGGACTGGAAA-AGGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATCC
*
3950947 TGCTCTTTGAGGACTAGAAAA
1 TGCTCTTTGAGGACTGGAAAA
3950968 GCTAAAAGAG
Statistics
Matches: 121, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
109 4 0.03
110 41 0.34
113 3 0.02
114 2 0.02
115 3 0.02
116 68 0.56
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (113 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTAGGCTTTAAATGAGAGCATCCTGCTCTT
TGAGGACTGGAAAAGGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
Found at i:3957252 original size:79 final size:79
Alignment explanation
Indices: 3957104--3957252 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
3957094 TTGGTGTTCC
* * *
3957104 AAAAATAAAATCGGGGTTGGAGTATTCCCTCGGAAATAACAGGGTTAGAGTATCCCTGATTATAG
1 AAAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCTGATTATAA
3957169 AAAATCGATATTTT
66 AAAATCGATATTTT
* *
3957183 AAAAATAAAATCGGGATTGGAGTATCCCCTC-GAAGATAAC-GAGGTTGGAGTAT-CCTCGATTG
1 AAAAATAAAATCGGGATTGGAGTATCCCCTCGGAA-ATAACAG-GGTTAGAGTATCCCT-GATTA
3957245 TAAAAAAT
63 TAAAAAAT
3957253 TGATGATATA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
78 7 0.11
79 55 0.89
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (79 bp):
AAAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCTGATTATAA
AAAATCGATATTTT
Found at i:3957268 original size:79 final size:79
Alignment explanation
Indices: 3957104--3957269 Score: 196
Period size: 79 Copynumber: 2.1 Consensus size: 79
3957094 TTGGTGTTCC
* * *
3957104 AAAAATAAAATCGGGGTTGGAGTATTCCCTCGGAAATAACAGGGTTAGAGTATCCCTGATTATAG
1 AAAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCTGATTATAA
*
3957169 AAAATCGATATTTT
66 AAAATCGATATTAT
* *
3957183 AAAAATAAAATCGGGATTGGAGTATCCCCTC-GAAGATAAC-GAGGTTGGAGTAT-CCTCGATTG
1 AAAAATAAAATCGGGATTGGAGTATCCCCTCGGAA-ATAACAG-GGTTAGAGTATCCCT-GATTA
*
3957245 TAAAAAATTGATGA-TAT
63 TAAAAAATCGAT-ATTAT
*
3957262 AGAAATAA
1 AAAAATAA
3957270 GGCTGGGGTT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 7 0.09
79 67 0.89
80 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (79 bp):
AAAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCTGATTATAA
AAAATCGATATTAT
Found at i:3957337 original size:51 final size:51
Alignment explanation
Indices: 3957282--3957392 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 51
3957272 CTGGGGTTGA
* * *
3957282 AGTATCCTCGATTATGAGAAA-TCAATATTTTGGAAATAAAATTGGAGTCGG
1 AGTATCCCCGATTATGA-AAATTCAATATTTTAGAAATAAAATCGGAGTCGG
* *** * *
3957333 AGTATCCCCGATTGTGAAAATTTGGTATTTTAGAAATAAAATCGGGGTTGG
1 AGTATCCCCGATTATGAAAATTCAATATTTTAGAAATAAAATCGGAGTCGG
3957384 AGTATCCCC
1 AGTATCCCC
3957393 CCAAAAATAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 3 0.06
51 47 0.94
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (51 bp):
AGTATCCCCGATTATGAAAATTCAATATTTTAGAAATAAAATCGGAGTCGG
Found at i:3959585 original size:28 final size:28
Alignment explanation
Indices: 3959545--3959616 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
3959535 GAAATAAAGC
** *
3959545 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3959573 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3959601 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
3959617 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:3959660 original size:106 final size:108
Alignment explanation
Indices: 3959466--3959699 Score: 332
Period size: 106 Copynumber: 2.2 Consensus size: 108
3959456 AAAATAAAGT
* *
3959466 CGGGATTGGAGTAT-CCCGATGAAAATAATAGGGTTGGAGTATCCCCAATTATGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCGATGAAAATAAGAGGGTTGGAGTATCCCCAATTATGAGAAATCAATA
* * * *
3959530 TTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAA
66 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAA
* * *
3959573 CGGGGTTGGAGTATCCCCGATG-AAATAACGA-GGTTGGAGTATCCTCGATTGTGA-AAATCAAT
1 CGGGGTTGGAGTATCCCCGATGAAAATAA-GAGGGTTGGAGTATCCCCAATTATGAGAAATCAAT
*
3959635 ATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAA
65 ATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAA
*
3959679 CAGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
3959700 TATTAGAAAT
Statistics
Matches: 114, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
106 67 0.59
107 39 0.34
108 8 0.07
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (108 bp):
CGGGGTTGGAGTATCCCCGATGAAAATAAGAGGGTTGGAGTATCCCCAATTATGAGAAATCAATA
TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAA
Found at i:3959746 original size:79 final size:77
Alignment explanation
Indices: 3959573--3959784 Score: 273
Period size: 79 Copynumber: 2.7 Consensus size: 77
3959563 TCGGAAGTAA
* * * *
3959573 CGGGGTTGGAGTATCCCC-GATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCA-GAAATAACG-GGTTGGAGTATCCCCGATTATTAAAATCAATAT
*
3959637 TTTAGAAATAAAAT
64 TTTAGAAATAAAAC
3959651 CGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATTAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCAGAAATAAC-GGGTTGGAGTATCCCCGATTATTA-AAATCAATAT
* *
3959716 TTTAGGAATAAAGC
64 TTTAGAAATAAAAC
* * * *
3959730 CGGGGTTAGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCTCAGAAATAAC-GGGTTGGAGTATCCCCGATTATTAA
3959785 CGGGGTTGGA
Statistics
Matches: 119, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
78 47 0.39
79 72 0.61
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (77 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAACGGGTTGGAGTATCCCCGATTATTAAAATCAATATTT
TAGAAATAAAAC
Found at i:3959765 original size:28 final size:27
Alignment explanation
Indices: 3959730--3959804 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
3959720 GGAATAAAGC
**
3959730 CGGGGTTAGAGTATCCCCTCGGAAATAA
1 CGGGGTTAGAGTATCCCCGAGG-AATAA
* *
3959758 CGGGGTTAGAGTATCCCCGATGATTAA
1 CGGGGTTAGAGTATCCCCGAGGAATAA
*
3959785 CGGGGTTGGAGTATCCCCGA
1 CGGGGTTAGAGTATCCCCGA
3959805 TTATGAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (27 bp):
CGGGGTTAGAGTATCCCCGAGGAATAA
Found at i:3959772 original size:185 final size:186
Alignment explanation
Indices: 3959418--3959853 Score: 564
Period size: 185 Copynumber: 2.4 Consensus size: 186
3959408 ATAAGACAAG
* * * * *
3959418 GGTTGAAGTGTCCCCGATTAT-AGAAAAT-AGATG-TTTCAAAAATAAAGTCGGGATTGGAGTAT
1 GGTTGGAGTATCCCCGATTATGA-AAAATCA-ATGATTTTAGAAATAAAATCGGGATTGGAGTAT
* *
3959480 CCCGATGAAAATAATAGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGC
64 CCCGATCAAAATAACAGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGC
* * *
3959545 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGA
129 CGGGGTTAGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATG-AATAACGA
* * *
3959604 GGTTGGAGTATCCTCGATTGTG-AAAATCAAT-ATTTTAGAAATAAAATCGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTATGAAAAATCAATGATTTTAGAAATAAAATCGGGATTGGAGTATCC
* * *
3959667 C-CTCAGAAATAACAGGGTTGGAGTATCCCCGATTATTAGAAATCAATATTTTAGG-AATAAAGC
66 CGATCA-AAATAACAGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTT-GGAAATAAAGC
* *
3959730 CGGGGTTAGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGATTAACGG
129 CGGGGTTAGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGAATAACGA
* * * *
3959788 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGGAAATAAAATC-GGATTTGGAGTATC
1 GGTTGGAGTATCCCCGATTATGAAAAATCAATGATTTTAGAAATAAAATCGGGA-TTGGAGTATC
3959852 CC
65 CC
3959854 TGATTATGAA
Statistics
Matches: 217, Mismatches: 25, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
184 28 0.13
185 142 0.65
186 47 0.22
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (186 bp):
GGTTGGAGTATCCCCGATTATGAAAAATCAATGATTTTAGAAATAAAATCGGGATTGGAGTATCC
CGATCAAAATAACAGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCG
GGGTTAGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGAATAACGA
Found at i:3962245 original size:13 final size:13
Alignment explanation
Indices: 3962227--3962252 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3962217 ACAAAGATTG
3962227 ATGTATCGATACA
1 ATGTATCGATACA
3962240 ATGTATCGATACA
1 ATGTATCGATACA
3962253 TTTCCTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3962329 original size:19 final size:17
Alignment explanation
Indices: 3962301--3962399 Score: 70
Period size: 19 Copynumber: 5.9 Consensus size: 17
3962291 TCGTAGCGAT
3962301 ACATTGTATCGATACAAA
1 ACATTGTATCGATAC-AA
3962319 ACATATGTATCGAT----
1 ACAT-TGTATCGATACAA
3962333 ACATTGTATCGATACAA
1 ACATTGTATCGATACAA
*
3962350 CACTTATGTATCGAT----
1 -ACAT-TGTATCGATACAA
3962365 ACATTGTATCGATACAA
1 ACATTGTATCGATACAA
*
3962382 CACTTATGTATCGATACA
1 -ACAT-TGTATCGATACA
3962400 TTTTCTGTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 25
0.70 0.03 0.27
Matches are distributed among these distances:
13 18 0.28
14 7 0.11
18 10 0.15
19 30 0.46
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.32
Consensus pattern (17 bp):
ACATTGTATCGATACAA
Found at i:3962338 original size:32 final size:32
Alignment explanation
Indices: 3962297--3962401 Score: 192
Period size: 32 Copynumber: 3.3 Consensus size: 32
3962287 AGCTTCGTAG
* *
3962297 CGATACATTGTATCGATACAAAACATATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
3962329 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
3962361 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
3962393 CGATACATT
1 CGATACATT
3962402 TTCTGTTTGT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:3962342 original size:13 final size:14
Alignment explanation
Indices: 3962319--3962380 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 14
3962309 TCGATACAAA
3962319 ACATATGTATCGAT
1 ACATATGTATCGAT
3962333 ACAT-TGTATCGAT
1 ACATATGTATCGAT
3962346 ACAACACTTATGTATCGAT
1 ---ACA--TATGTATCGAT
3962365 ACAT-TGTATCGAT
1 ACATATGTATCGAT
3962378 ACA
1 ACA
3962381 ACACTTATGT
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.50
14 5 0.12
16 6 0.14
18 1 0.02
19 9 0.21
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (14 bp):
ACATATGTATCGAT
Found at i:3962429 original size:19 final size:19
Alignment explanation
Indices: 3962368--3962429 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
3962358 TATCGATACA
*
3962368 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ATTGT
* **
3962387 ATGTATCGATACATTTTCTGT
1 TTGTATCGATACA-AAT-TGT
3962408 TTGTATCGATACAAATTGT
1 TTGTATCGATACAAATTGT
3962427 TTG
1 TTG
3962430 AAATTCAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (19 bp):
TTGTATCGATACAAATTGT
Found at i:3964173 original size:20 final size:19
Alignment explanation
Indices: 3964148--3964222 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
3964138 AAAAGTGGCT
*
3964148 AAATGTATCGATACATTGTA
1 AAATGTATCGATACAATG-A
3964168 AAATGTATCGATACAATGA
1 AAATGTATCGATACAATGA
* * *
3964187 GCAATGTTTTGATACAATGCA
1 -AAATGTATCGATACAATG-A
3964208 AAATGTATCGATACA
1 AAATGTATCGATACA
3964223 TCTGGGTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (19 bp):
AAATGTATCGATACAATGA
Found at i:3969743 original size:13 final size:13
Alignment explanation
Indices: 3969725--3969749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3969715 ATGTTGCACA
3969725 GTATCGATACATT
1 GTATCGATACATT
3969738 GTATCGATACAT
1 GTATCGATACAT
3969750 GTTGCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:3969744 original size:33 final size:33
Alignment explanation
Indices: 3969702--3969767 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
3969692 TACACATTTA
3969702 ATTGTATCGATACATGTTGCACAGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
**
3969735 ATTGTATCGATACATGTTGCATTGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
3969768 TTGAAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACATGTTGCACAGTATCGATAC
Found at i:3969858 original size:13 final size:13
Alignment explanation
Indices: 3969840--3969865 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3969830 TACACAAAGT
3969840 ATGTATCGATACA
1 ATGTATCGATACA
3969853 ATGTATCGATACA
1 ATGTATCGATACA
3969866 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3969882 original size:33 final size:32
Alignment explanation
Indices: 3969822--3969885 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
3969812 TAGCCAAACT
*
3969822 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGAATGTATCGATACAA
3969854 TGTATCGATACACCATAA-AATGTATCGATACA
1 TGTATCGATACA-CA-AAGAATGTATCGATACA
3969886 TTGGCTTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 15 0.52
34 2 0.07
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGAATGTATCGATACAA
Found at i:3976065 original size:13 final size:13
Alignment explanation
Indices: 3976045--3976082 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3976035 CAGCATTCTC
3976045 TATATCGATACAT
1 TATATCGATACAT
*
3976058 TGTATCGATACAT
1 TATATCGATACAT
*
3976071 TATATCGTTACA
1 TATATCGATACA
3976083 AGGGGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (13 bp):
TATATCGATACAT
Found at i:3976257 original size:22 final size:21
Alignment explanation
Indices: 3976214--3976254 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3976204 CAAATTTCTT
3976214 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
3976236 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
3976255 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:3976553 original size:20 final size:21
Alignment explanation
Indices: 3976513--3976564 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
3976503 CCCCTAGGCA
*
3976513 GCACCCACCAGGTCACGACC-G
1 GCACCC-CCAGGTCACAACCGG
*
3976534 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCACAACCGG
3976555 GCAGCCCCCA
1 GCA-CCCCCA
3976565 CACTAGCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.21, C:0.50, G:0.25, T:0.04
Consensus pattern (21 bp):
GCACCCCCAGGTCACAACCGG
Found at i:3978675 original size:13 final size:13
Alignment explanation
Indices: 3978657--3978682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3978647 TACACAAAGT
3978657 ATGTATCGATACA
1 ATGTATCGATACA
3978670 ATGTATCGATACA
1 ATGTATCGATACA
3978683 TTGGCTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3985330 original size:18 final size:19
Alignment explanation
Indices: 3985307--3985345 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
3985297 TTGCCTTTTG
3985307 TTGCTTATA-TTTTTTTAA
1 TTGCTTATATTTTTTTTAA
3985325 TTGCTTATATTTTTTTTAA
1 TTGCTTATATTTTTTTTAA
3985344 TT
1 TT
3985346 TATGTTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (19 bp):
TTGCTTATATTTTTTTTAA
Found at i:3988165 original size:16 final size:16
Alignment explanation
Indices: 3988127--3988170 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
3988117 CATGGCCAGA
*
3988127 AAGCATTATTGTCAAT
1 AAGCATTATTGCCAAT
*
3988143 AAACATTATTGCCAAT
1 AAGCATTATTGCCAAT
* *
3988159 GAGCATTGTTGC
1 AAGCATTATTGC
3988171 TAAAGAATGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (16 bp):
AAGCATTATTGCCAAT
Found at i:3991859 original size:20 final size:20
Alignment explanation
Indices: 3991826--3991873 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
3991816 AAAAATAAAT
3991826 AAAATTAATTTAAAATTAATTA
1 AAAATTAA--TAAAATTAATTA
* * *
3991848 TAAATTAATAAATTTTATTA
1 AAAATTAATAAAATTAATTA
3991868 AAAATT
1 AAAATT
3991874 TTAAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 15 0.68
22 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATTAATAAAATTAATTA
Found at i:3991912 original size:2 final size:2
Alignment explanation
Indices: 3991905--3991933 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3991895 AGGCATAAAT
3991905 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3991934 GTGATAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3993177 original size:15 final size:15
Alignment explanation
Indices: 3993149--3993195 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
3993139 AAATTGATAA
3993149 TTTATG-TA-ATTAT
1 TTTATGATATATTAT
3993162 TTTATGATATATTAT
1 TTTATGATATATTAT
*
3993177 TTTAT-ATATTATAAT
1 TTTATGATA-TATTAT
3993192 TTTA
1 TTTA
3993196 ATTTAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
15 19 0.63
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (15 bp):
TTTATGATATATTAT
Found at i:3998255 original size:25 final size:26
Alignment explanation
Indices: 3998227--3998281 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 26
3998217 CTTTCTGTAC
*
3998227 AAATATCTTAAATAATTAGA-AAA-TA
1 AAATAT-TTAAATAATTAAACAAAGTA
3998252 AAAT-TTTAAATAATTAAACAAAGTA
1 AAATATTTAAATAATTAAACAAAGTA
3998277 AAATA
1 AAATA
3998282 ACAAAAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 12 0.46
24 4 0.15
25 10 0.38
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
AAATATTTAAATAATTAAACAAAGTA
Found at i:3999561 original size:2 final size:2
Alignment explanation
Indices: 3999554--3999581 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3999544 AAAAATATTC
3999554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3999582 GTTTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4000334 original size:2 final size:2
Alignment explanation
Indices: 4000327--4000360 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4000317 AACGATCCAA
4000327 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4000361 CAAAGTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4002441 original size:21 final size:20
Alignment explanation
Indices: 4002408--4002450 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
4002398 TATAAAATTA
*
4002408 TTTTTTTTGTAATTTTTATT
1 TTTTTTTTGTAATATTTATT
*
4002428 TTTTTATTTTTAATATTTATT
1 TTTTT-TTTGTAATATTTATT
4002449 TT
1 TT
4002451 GATATTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTTTGTAATATTTATT
Found at i:4002456 original size:21 final size:22
Alignment explanation
Indices: 4002412--4002457 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
4002402 AAATTATTTT
* **
4002412 TTTTGTAATTTTTATTTTTTTA
1 TTTTGTAATATTTATTTTGATA
4002434 TTTT-TAATATTTATTTTGATA
1 TTTTGTAATATTTATTTTGATA
4002455 TTT
1 TTT
4002458 ACTAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTTGTAATATTTATTTTGATA
Found at i:4003817 original size:11 final size:11
Alignment explanation
Indices: 4003788--4003835 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
4003778 AATCTTAAAG
4003788 ATTTTTAATT-
1 ATTTTTAATTA
*
4003798 ATATTTAATTA
1 ATTTTTAATTA
*
4003809 ATTTTTAATTT
1 ATTTTTAATTA
4003820 A-TTTTATATTA
1 ATTTTTA-ATTA
4003831 ATTTT
1 ATTTT
4003836 ATTTGTTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 14 0.45
11 14 0.45
12 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTTAATTA
Found at i:4003821 original size:22 final size:21
Alignment explanation
Indices: 4003788--4003835 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
4003778 AATCTTAAAG
4003788 ATTTTTAATTATATTTA-ATTA
1 ATTTTTAATTAT-TTTATATTA
4003809 ATTTTTAATTTATTTTATATTA
1 ATTTTTAA-TTATTTTATATTA
4003831 ATTTT
1 ATTTT
4003836 ATTTGTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTAATTATTTTATATTA
Found at i:4003824 original size:10 final size:10
Alignment explanation
Indices: 4003790--4003836 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
4003780 TCTTAAAGAT
4003790 TTTTAATT-A
1 TTTTAATTAA
4003799 TATTTAATTAA
1 T-TTTAATTAA
*
4003810 TTTTTAATTTA
1 -TTTTAATTAA
4003821 TTTTATATTAA
1 TTTTA-ATTAA
4003832 TTTTA
1 TTTTA
4003837 TTTGTTTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 1 0.03
10 12 0.38
11 18 0.56
12 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTAATTAA
Found at i:4004772 original size:16 final size:17
Alignment explanation
Indices: 4004746--4004778 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4004736 TGATCGTTTG
*
4004746 TTTGATTTTTATTTTAT
1 TTTGATTTTTAATTTAT
4004763 TTTG-TTTTTAATTTAT
1 TTTGATTTTTAATTTAT
4004779 AATTTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTGATTTTTAATTTAT
Found at i:4005575 original size:8 final size:8
Alignment explanation
Indices: 4005562--4005615 Score: 65
Period size: 8 Copynumber: 6.5 Consensus size: 8
4005552 TAAGGAAACC
4005562 AAAAAAGAA
1 AAAAAAG-A
4005571 AAAAAGAGA
1 AAAAA-AGA
4005580 AAAAAAGA
1 AAAAAAGA
4005588 AAAAAAGA
1 AAAAAAGA
4005596 AAAAAA-A
1 AAAAAAGA
*
4005603 AACAAAGGA
1 AA-AAAAGA
4005612 AAAA
1 AAAA
4005616 GAGAGTGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
7 3 0.07
8 22 0.54
9 14 0.34
10 2 0.05
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:4005585 original size:18 final size:17
Alignment explanation
Indices: 4005562--4005615 Score: 74
Period size: 18 Copynumber: 3.2 Consensus size: 17
4005552 TAAGGAAACC
4005562 AAAAAAGAAAAAAAGAGA
1 AAAAAAGAAAAAAAGA-A
4005580 AAAAAAGAAAAAAAGAA
1 AAAAAAGAAAAAAAGAA
* *
4005597 AAAAAA-AACAAAGGAA
1 AAAAAAGAAAAAAAGAA
4005613 AAA
1 AAA
4005616 GAGAGTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.32
17 7 0.21
18 16 0.47
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAAGAA
Found at i:4008401 original size:3 final size:3
Alignment explanation
Indices: 4008393--4008418 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4008383 TTTACGCTGT
4008393 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4008419 TGAAAGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4008879 original size:32 final size:30
Alignment explanation
Indices: 4008843--4008901 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
4008833 GAAATCAAAT
4008843 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
4008875 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
4008902 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:4009200 original size:13 final size:13
Alignment explanation
Indices: 4009182--4009207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4009172 AATTTTTTTG
4009182 TGTATCGATACAT
1 TGTATCGATACAT
4009195 TGTATCGATACAT
1 TGTATCGATACAT
4009208 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4009218 original size:32 final size:34
Alignment explanation
Indices: 4009161--4009225 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
4009151 TACAAGCCAA
*
4009161 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
4009195 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
4009226 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:4009302 original size:20 final size:20
Alignment explanation
Indices: 4009256--4009329 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
4009246 ATCCCAATGA
***
4009256 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
4009277 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
4009297 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
4009317 TATGTATCGATAC
1 CATGTATCGATAC
4009330 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:4009914 original size:39 final size:39
Alignment explanation
Indices: 4009839--4009919 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
4009829 TTTTATTTCT
4009839 CCCTTAACTAAAGTAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAATTCG-ACATTCTCC
* *
4009879 CCCTTAA-TAAGGTAATTTTAGCAAATTTACG-CATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAA-TT-CGACATTCTCC
4009918 CC
1 CC
4009920 TTTTATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
39 26 0.70
40 9 0.24
41 2 0.05
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (39 bp):
CCCTTAACTAAAGTAATTTTAACAAATTCGACATTCTCC
Found at i:4011782 original size:13 final size:13
Alignment explanation
Indices: 4011760--4011797 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
4011750 ATAATCCCCC
4011760 TGTATCGATACAG
1 TGTATCGATACAG
* *
4011773 TGTATTGATACAT
1 TGTATCGATACAG
4011786 TGTATCGATACA
1 TGTATCGATACA
4011798 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4013898 original size:15 final size:15
Alignment explanation
Indices: 4013878--4013908 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4013868 ATTTCGTTTG
*
4013878 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4013893 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4013908 G
1 G
4013909 GATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4015740 original size:21 final size:21
Alignment explanation
Indices: 4015711--4015755 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4015701 AAGTTTTTAT
*
4015711 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4015731 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4015753 TTT
1 TTT
4015756 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4017670 original size:32 final size:30
Alignment explanation
Indices: 4017634--4017692 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
4017624 GAAATCAAAT
4017634 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
4017666 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
4017693 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:4018009 original size:32 final size:34
Alignment explanation
Indices: 4017952--4018016 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
4017942 TACAAGCCAA
*
4017952 TGTATCGATACAATTTTTTTGTGTATCAATACAT
1 TGTATCGATACAATTATTTTGTGTATCAATACAT
*
4017986 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCAATACA
4018017 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 17 0.59
33 1 0.03
34 11 0.38
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCAATACAT
Found at i:4018093 original size:20 final size:20
Alignment explanation
Indices: 4018047--4018120 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
4018037 ATCCCAATGA
***
4018047 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
4018068 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
4018088 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
4018108 TATGTATCGATAC
1 CATGTATCGATAC
4018121 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:4021294 original size:13 final size:13
Alignment explanation
Indices: 4021276--4021302 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4021266 ACATTATGCT
4021276 TTGTATCGATACA
1 TTGTATCGATACA
4021289 TTGTATCGATACA
1 TTGTATCGATACA
4021302 T
1 T
4021303 GAGATTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4021368 original size:13 final size:13
Alignment explanation
Indices: 4021347--4021399 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
4021337 CGATACATGG
*
4021347 TACAATGTATCGA
1 TACATTGTATCGA
4021360 TACATTGTATCGA
1 TACATTGTATCGA
4021373 TACA-TG-AT-G-
1 TACATTGTATCGA
4021382 -A-ATTGTATCGA
1 TACATTGTATCGA
4021393 TACATTG
1 TACATTG
4021400 CTTGTAATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:4021373 original size:33 final size:33
Alignment explanation
Indices: 4021331--4021399 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
4021321 CTACCACTGT
*
4021331 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
4021364 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
4021397 TTG
1 TTG
4021400 CTTGTAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:4027583 original size:13 final size:13
Alignment explanation
Indices: 4027565--4027604 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
4027555 ACAACATTTC
4027565 TTGTATCGATACA
1 TTGTATCGATACA
*
4027578 TTGTATCAATACA
1 TTGTATCGATACA
4027591 TTGTATCGATACA
1 TTGTATCGATACA
4027604 T
1 T
4027605 GATTTACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4029501 original size:24 final size:24
Alignment explanation
Indices: 4029474--4029520 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4029464 TGAAAATAAA
4029474 TTTTTAGACAAAGGGGGAGAAATAT
1 TTTTTAGACAAA-GGGGAGAAATAT
**
4029499 TTTTTTTACAAAGGGGAGAAAT
1 TTTTTAGACAAAGGGGAGAAAT
4029521 CTTTGATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (24 bp):
TTTTTAGACAAAGGGGAGAAATAT
Found at i:4030175 original size:19 final size:19
Alignment explanation
Indices: 4030148--4030204 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
4030138 TGTATCGATA
* *
4030148 CATTATATCGATACATGTT
1 CATTGTATCGATACATGAT
4030167 CATTGTATCGATACATGGAT
1 CATTGTATCGATACAT-GAT
*
4030187 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
4030205 GATTGGCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Done.