Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold243
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: 726772
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 2 of 5
Found at i:158144 original size:2 final size:2
Alignment explanation
Indices: 158132--158169 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
158122 TTACTTTAAT
*
158132 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
158170 CACACACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:158585 original size:28 final size:27
Alignment explanation
Indices: 158558--158636 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 27
158548 TACGAATATA
158558 ATATATATAAAATTATTAAAATATTAT
1 ATATATATAAAATTATTAAAATATTAT
*
158585 ATA-ATATAAATATATTTTAAAA-ATT-T
1 ATATATATAAA-AT-TATTAAAATATTAT
* *
158611 ATATA-ATATAAATTATCAAAGTATTA
1 ATATATATA-AAATTATTAAAATATTA
158637 AAATTAATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
25 5 0.12
26 19 0.45
27 11 0.26
28 7 0.17
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (27 bp):
ATATATATAAAATTATTAAAATATTAT
Found at i:165342 original size:2 final size:2
Alignment explanation
Indices: 165335--165373 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
165325 CTTTGAGGAC
165335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
165374 ATGTATGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:166083 original size:2 final size:2
Alignment explanation
Indices: 166076--166100 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
166066 AAGAAACGTT
166076 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
166101 AACCTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:172796 original size:2 final size:2
Alignment explanation
Indices: 172782--172817 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
172772 TTATTTGATC
172782 CT CT CT C- CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
172818 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:172822 original size:2 final size:2
Alignment explanation
Indices: 172817--172870 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
172807 TCTCTCTCTC
172817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
172859 TA TA TA TA TA TA
1 TA TA TA TA TA TA
172871 AATAACAGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:173120 original size:3 final size:3
Alignment explanation
Indices: 173112--173140 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
173102 TGTTATTTAT
173112 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
173141 TGGGGCTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:184226 original size:6 final size:6
Alignment explanation
Indices: 184215--184239 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
184205 ATCCTATCAT
184215 ATATTC ATATTC ATATTC ATATTC A
1 ATATTC ATATTC ATATTC ATATTC A
184240 ATTGATACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTC
Found at i:186742 original size:3 final size:3
Alignment explanation
Indices: 186734--186759 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
186724 GGGCTGTGGT
186734 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
186760 GTGAGGTAAA
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:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:188019 original size:52 final size:52
Alignment explanation
Indices: 187958--188056 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
187948 TTTAGAGGTA
*
187958 GTAATGGTAATTTTGAAAACTTGGCACCGAATACAATTTCCAAATGAAATCT
1 GTAATGGTAAATTTGAAAACTTGGCACCGAATACAATTTCCAAATGAAATCT
* * * *
188010 GTAATGGTAAATTTGAAAACTTGGGACTGGATATAATTTCCAAATGA
1 GTAATGGTAAATTTGAAAACTTGGCACCGAATACAATTTCCAAATGA
188057 CAGAGTCAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (52 bp):
GTAATGGTAAATTTGAAAACTTGGCACCGAATACAATTTCCAAATGAAATCT
Found at i:192515 original size:2 final size:2
Alignment explanation
Indices: 192508--192537 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
192498 TCTTTGGACC
192508 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
192538 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:192542 original size:2 final size:2
Alignment explanation
Indices: 192537--192563 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
192527 TCTCTCTCTC
192537 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 T
192564 CATAAGCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:196089 original size:5 final size:5
Alignment explanation
Indices: 196079--196106 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
196069 AGTGGGGGAA
196079 GAGAG GAGAG GAGAG GAGAG GAGAG GAG
1 GAGAG GAGAG GAGAG GAGAG GAGAG GAG
196107 GGAAGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (5 bp):
GAGAG
Found at i:196527 original size:23 final size:22
Alignment explanation
Indices: 196501--196550 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
196491 TTAAAAATTA
196501 ATTAAGATATTATTTATAATAAT
1 ATTAAGATATTATTTATAAT-AT
** *
196524 ATTATTATATTATTTTTAATAT
1 ATTAAGATATTATTTATAATAT
196546 ATTAA
1 ATTAA
196551 ATAAAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
ATTAAGATATTATTTATAATAT
Found at i:197351 original size:21 final size:21
Alignment explanation
Indices: 197312--197352 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
197302 TATATTTATA
*
197312 TATAAATATAAATTTTAAAAT
1 TATAAATATAAATTATAAAAT
197333 TATAAATATATAA-TATAAAA
1 TATAAATATA-AATTATAAAA
197353 AATTTTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TATAAATATAAATTATAAAAT
Found at i:198066 original size:14 final size:14
Alignment explanation
Indices: 198047--198085 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
198037 TTAAGTAAAA
198047 ATATAAATTTAGAT
1 ATATAAATTTAGAT
198061 ATATAAATTTAGAT
1 ATATAAATTTAGAT
*
198075 ACTAAAAATTT
1 A-TATAAATTT
198086 TTTATAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (14 bp):
ATATAAATTTAGAT
Found at i:199250 original size:18 final size:18
Alignment explanation
Indices: 199227--199263 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
199217 ACTATATTTA
199227 ATTAATATAGTAT-TAAAT
1 ATTAATATA-TATATAAAT
199245 ATTAATATATATATAAAT
1 ATTAATATATATATAAAT
199263 A
1 A
199264 AATTATGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAATATATATATAAAT
Found at i:199512 original size:2 final size:2
Alignment explanation
Indices: 199505--199536 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
199495 TAAATCAAAA
199505 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
199537 GAAAATGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:209103 original size:14 final size:14
Alignment explanation
Indices: 209080--209112 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
209070 AATTTGTGAT
209080 TAAA-TTAAATAAA
1 TAAATTTAAATAAA
209093 TAAATTTAAATAAA
1 TAAATTTAAATAAA
*
209107 TTAATT
1 TAAATT
209113 GAATAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAATTTAAATAAA
Found at i:210120 original size:2 final size:2
Alignment explanation
Indices: 210113--210137 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
210103 TTACCCATTT
210113 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 T
210138 TGAATTCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:213681 original size:50 final size:50
Alignment explanation
Indices: 213606--213702 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
213596 TTTCTTTAAT
*
213606 ATATATATATATATATATATATCCTACTCAATCAAGGGTGTAGATTTTTA
1 ATATATATATATATATATATATCCTACTCAATCAAGGGAGTAGATTTTTA
213656 ATATATATATATATATATATATCCTACTCAATCAAGGGAGTAGATTT
1 ATATATATATATATATATATATCCTACTCAATCAAGGGAGTAGATTT
213703 GTTTTCGTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (50 bp):
ATATATATATATATATATATATCCTACTCAATCAAGGGAGTAGATTTTTA
Found at i:213903 original size:13 final size:13
Alignment explanation
Indices: 213885--213910 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
213875 ATACAAGTTC
213885 TTTGTTATTTTTA
1 TTTGTTATTTTTA
213898 TTTGTTATTTTTA
1 TTTGTTATTTTTA
213911 GTACTTGGTA
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TTTGTTATTTTTA
Found at i:219350 original size:2 final size:2
Alignment explanation
Indices: 219343--219367 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
219333 CATCAATAGG
219343 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 A
219368 AACATATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:233324 original size:51 final size:51
Alignment explanation
Indices: 233248--233345 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
233238 TCTGATCCTA
* *
233248 TAATTTTGAAAGAGTGAGTTAATAAACATATTTGACATATTTGTCTTTGTT
1 TAATTTTGAAAGAATGAGTTAATAAACATATTTCACATATTTGTCTTTGTT
*
233299 TAATTTTGAAAGAATGAGTTAATAAATATATTTCACATATTTGTCTT
1 TAATTTTGAAAGAATGAGTTAATAAACATATTTCACATATTTGTCTT
233346 GTTAATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (51 bp):
TAATTTTGAAAGAATGAGTTAATAAACATATTTCACATATTTGTCTTTGTT
Found at i:233356 original size:51 final size:51
Alignment explanation
Indices: 233249--233356 Score: 164
Period size: 51 Copynumber: 2.1 Consensus size: 51
233239 CTGATCCTAT
* * *
233249 AATTTTGAAAGAGTGAGTTAATAAACATATTTGACATATTTGTCTTTGTTT
1 AATTTTGAAAGAATGAGTTAATAAACATATTTCACATATTTGTCTTTGTTA
*
233300 AATTTTGAAAGAATGAGTTAATAAATATATTTCACATATTTGTC-TTGTTA
1 AATTTTGAAAGAATGAGTTAATAAACATATTTCACATATTTGTCTTTGTTA
233350 ATATTTT
1 A-ATTTT
233357 ATTTTGTAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 6 0.12
51 46 0.88
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (51 bp):
AATTTTGAAAGAATGAGTTAATAAACATATTTCACATATTTGTCTTTGTTA
Found at i:247421 original size:33 final size:33
Alignment explanation
Indices: 247384--247513 Score: 113
Period size: 33 Copynumber: 4.0 Consensus size: 33
247374 GGATTCTGCA
* *
247384 GGCCGTGGTGGTATGAGGGACAGTGGCTTTGCT
1 GGCCGAGGTGGTATGAGGGATAGTGGCTTTGCT
* *
247417 GGCCGAGGTGGAATGAGGG--A-TGGCTTTGGT
1 GGCCGAGGTGGTATGAGGGATAGTGGCTTTGCT
* ** * * * * *
247447 GGACGAGCAGGTATCAGAGATGGTGGTTTTGGT
1 GGCCGAGGTGGTATGAGGGATAGTGGCTTTGCT
* *
247480 GGGCGTGGTGGTATGAGGGATAGTGGCTTTGCT
1 GGCCGAGGTGGTATGAGGGATAGTGGCTTTGCT
247513 G
1 G
247514 CTCCTGGAGG
Statistics
Matches: 74, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
30 22 0.30
31 1 0.01
33 51 0.69
ACGTcount: A:0.15, C:0.11, G:0.47, T:0.27
Consensus pattern (33 bp):
GGCCGAGGTGGTATGAGGGATAGTGGCTTTGCT
Found at i:249032 original size:3 final size:3
Alignment explanation
Indices: 249024--249068 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
249014 ATTGATTCAA
*
249024 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
249069 AAAGAAAGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:268430 original size:2 final size:2
Alignment explanation
Indices: 268419--268476 Score: 75
Period size: 2 Copynumber: 30.0 Consensus size: 2
268409 GCCCAATGCA
* * *
268419 AT AT -T AT AT AT AT CT -T GT AT AT AT CT 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 AT AT AT AT
268459 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
268477 CTTACATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
1 2 0.04
2 48 0.96
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:269871 original size:12 final size:12
Alignment explanation
Indices: 269854--269883 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
269844 CTAAATTGTT
269854 AAAAAAAAAAGA
1 AAAAAAAAAAGA
269866 AAAAAAAAAAGA
1 AAAAAAAAAAGA
269878 AAAAAA
1 AAAAAA
269884 GAACCAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:270978 original size:15 final size:15
Alignment explanation
Indices: 270958--270988 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
270948 GAAAAAAAGG
270958 GAAGGAAGATGAAAT
1 GAAGGAAGATGAAAT
270973 GAAGGAAGATGAAAT
1 GAAGGAAGATGAAAT
270988 G
1 G
270989 TCCAGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.35, T:0.13
Consensus pattern (15 bp):
GAAGGAAGATGAAAT
Found at i:274734 original size:12 final size:11
Alignment explanation
Indices: 274690--274736 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
274680 TATATGTATT
*
274690 TATT-TATTCA
1 TATTATATTTA
274700 TATTATATTATA
1 TATTATATT-TA
274712 TAATTATATTTA
1 T-ATTATATTTA
274724 TATTATGATTTA
1 TATTAT-ATTTA
274736 T
1 T
274737 TGAGTTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 4 0.12
11 9 0.28
12 11 0.34
13 8 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
TATTATATTTA
Found at i:275291 original size:29 final size:29
Alignment explanation
Indices: 275258--275316 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
275248 AAACGAGTTA
275258 AAATTTATTAATTGTAAAAATATTTTATT
1 AAATTTATTAATTGTAAAAATATTTTATT
*
275287 AAATTTATTAATTTTAAAAATATTTTATT
1 AAATTTATTAATTGTAAAAATATTTTATT
275316 A
1 A
275317 TAAATCAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
AAATTTATTAATTGTAAAAATATTTTATT
Found at i:276100 original size:21 final size:21
Alignment explanation
Indices: 276052--276100 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
276042 ATATAATAAT
*
276052 ATTTTAAATTAATTAAATTTA
1 ATTTTAAAATAATTAAATTTA
* *
276073 ATCTTAAAAT-ATTACATTTAA
1 ATTTTAAAATAATTAAATTT-A
276094 ATTTTAA
1 ATTTTAA
276101 CTCAAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTAAAATAATTAAATTTA
Found at i:278320 original size:32 final size:32
Alignment explanation
Indices: 278284--278345 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
278274 TGTTTCTGAT
278284 GCTCTCCACATGTGCTCTGATTTTCTTGTAAC
1 GCTCTCCACATGTGCTCTGATTTTCTTGTAAC
278316 GCTCTCCACATGTGCTCTGATTTTCTTGTA
1 GCTCTCCACATGTGCTCTGATTTTCTTGTA
278346 CTTACTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.15, C:0.27, G:0.16, T:0.42
Consensus pattern (32 bp):
GCTCTCCACATGTGCTCTGATTTTCTTGTAAC
Found at i:280023 original size:21 final size:23
Alignment explanation
Indices: 279985--280026 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
279975 TTTCTCAAGA
*
279985 AAAAATGACATTTGCGTTTGAAC
1 AAAAATGACATTTCCGTTTGAAC
280008 AAAAA-GA-ATTTCCGTTTGA
1 AAAAATGACATTTCCGTTTGA
280027 TTACTGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (23 bp):
AAAAATGACATTTCCGTTTGAAC
Found at i:283607 original size:10 final size:10
Alignment explanation
Indices: 283592--283632 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
283582 TATACATTTA
*
283592 TGTATGTATG
1 TGTATGTGTG
283602 TGTATGTGTG
1 TGTATGTGTG
*
283612 TGTGTGTGTG
1 TGTATGTGTG
*
283622 TGTGTGTGTG
1 TGTATGTGTG
283632 T
1 T
283633 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.51
Consensus pattern (10 bp):
TGTATGTGTG
Found at i:283613 original size:2 final size:2
Alignment explanation
Indices: 283600--283632 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
283590 TATGTATGTA
*
283600 TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
283633 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:292795 original size:1 final size:1
Alignment explanation
Indices: 292789--292813 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
292779 GGTTAAGTGC
292789 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
292814 CCATACTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:297021 original size:2 final size:2
Alignment explanation
Indices: 297009--297045 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
296999 CAAGATGTGT
*
297009 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
297046 TAGCATAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:297627 original size:2 final size:2
Alignment explanation
Indices: 297620--297660 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
297610 AGTATCAGTA
297620 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
297661 AATTTTTTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:311136 original size:77 final size:77
Alignment explanation
Indices: 310989--311147 Score: 187
Period size: 77 Copynumber: 2.1 Consensus size: 77
310979 TTTAATTTCC
* * * * * *
310989 TTTTCTGATTTATTTGCCAGGACCTTGAAGCCTGTCTAATGATGATGGATTTGATAAATGTTTAT
1 TTTTCTGATTTATTTGCCAGCACCTAGAAGCATGTCTAACGATGATGGAATTAATAAATGTTTAT
*
311054 AACAGAACGGAA
66 AACAGAACAGAA
** *
311066 TTTTCTTGATTTATTTGCTTGCACCTAAGAAGCATGTCTAACG-TGATGGAATTAAT-ATTGTTT
1 TTTTC-TGATTTATTTGCCAGCACCT-AGAAGCATGTCTAACGATGATGGAATTAATAAATGTTT
311129 ATAACAGAACAGAA
64 ATAACAGAACAGAA
*
311143 ATTTC
1 TTTTC
311148 CAGTTAGAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 28 0.41
78 28 0.41
79 13 0.19
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (77 bp):
TTTTCTGATTTATTTGCCAGCACCTAGAAGCATGTCTAACGATGATGGAATTAATAAATGTTTAT
AACAGAACAGAA
Found at i:311146 original size:78 final size:77
Alignment explanation
Indices: 310989--311146 Score: 185
Period size: 78 Copynumber: 2.0 Consensus size: 77
310979 TTTAATTTCC
* * * * * *
310989 TTTTCTGATTTATTTGCCAGGACCTTGAAGCCTGTCTAATGATGATGGATTTGATAAATGTTTAT
1 TTTTCTGATTTATTTGCCAGCACCTAGAAGCATGTCTAACGATGATGGAATTAATAAATGTTTAT
*
311054 AACAGAACGGAA
66 AACAGAACGAAA
** *
311066 TTTTCTTGATTTATTTGCTTGCACCTAAGAAGCATGTCTAACG-TGATGGAATTAAT-ATTGTTT
1 TTTTC-TGATTTATTTGCCAGCACCT-AGAAGCATGTCTAACGATGATGGAATTAATAAATGTTT
311129 ATAACAGAACAGAAA
64 ATAACAGAAC-GAAA
311144 TTT
1 TTT
311147 CCAGTTAGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 21 0.31
78 34 0.50
79 13 0.19
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (77 bp):
TTTTCTGATTTATTTGCCAGCACCTAGAAGCATGTCTAACGATGATGGAATTAATAAATGTTTAT
AACAGAACGAAA
Found at i:314085 original size:3 final size:3
Alignment explanation
Indices: 314077--314104 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
314067 ATGAATTGAC
314077 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
314105 GTACATCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:320432 original size:23 final size:25
Alignment explanation
Indices: 320404--320461 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
320394 CTAATCAGCC
* *
320404 AAAAAAGTTTG-GCCCAAAAA-AAA
1 AAAAAAGATTGAGCCAAAAAAGAAA
320427 AAAAAA-ATTGAGCCAAAAAAGAAA
1 AAAAAAGATTGAGCCAAAAAAGAAA
320451 ACAAAAAGATT
1 A-AAAAAGATT
320462 AGACCCTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 3 0.10
23 14 0.48
24 4 0.14
25 5 0.17
26 3 0.10
ACGTcount: A:0.66, C:0.10, G:0.12, T:0.12
Consensus pattern (25 bp):
AAAAAAGATTGAGCCAAAAAAGAAA
Found at i:320955 original size:2 final size:2
Alignment explanation
Indices: 320948--320973 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
320938 CATGATGTTG
320948 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
320974 CTTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:321576 original size:20 final size:20
Alignment explanation
Indices: 321539--321587 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
321529 ATATTTTGAG
*
321539 TATAATTTAATCATATAAAA
1 TATAATTTAATCAAATAAAA
*
321559 TATAATTATAAT-AAATAAAT
1 TATAATT-TAATCAAATAAAA
321579 TATATATTT
1 TATA-ATTT
321588 TAAAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TATAATTTAATCAAATAAAA
Found at i:330519 original size:18 final size:18
Alignment explanation
Indices: 330492--330557 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
330482 TATTTAAAAT
*
330492 ATTTTTATATTTATATAA
1 ATTTTGATATTTATATAA
330510 ATTTTGATATATTA-AT-A
1 ATTTTGATAT-TTATATAA
330527 A-TTT-ATA-TTATATAA
1 ATTTTGATATTTATATAA
330542 ATTTTATGATATTTAT
1 A-TTT-TGATATTTAT
330558 GTATTATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 3 0.08
14 2 0.05
15 5 0.13
16 3 0.08
17 4 0.10
18 12 0.31
19 6 0.15
20 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATTTTGATATTTATATAA
Found at i:330817 original size:7 final size:7
Alignment explanation
Indices: 330807--330831 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
330797 CTTCACCACC
330807 ATTAATT
1 ATTAATT
330814 ATTAATT
1 ATTAATT
330821 ATTAATT
1 ATTAATT
330828 ATTA
1 ATTA
330832 TGATTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTAATT
Found at i:331208 original size:11 final size:11
Alignment explanation
Indices: 331188--331297 Score: 63
Period size: 11 Copynumber: 10.4 Consensus size: 11
331178 GCACCATAAC
331188 TAAA-ATAATA
1 TAAATATAATA
*
331198 TTAATATAATA
1 TAAATATAATA
* *
331209 AAAATATTAAAA
1 TAAATA-TAATA
331221 TAAATATAATA
1 TAAATATAATA
331232 T-AA-AT-ATA
1 TAAATATAATA
*
331240 TAAATAT-TTA
1 TAAATATAATA
* * *
331250 AAAAT-TTACA
1 TAAATATAATA
*
331260 TAAATATAAAA
1 TAAATATAATA
*
331271 T-ATTATAAATA
1 TAAATAT-AATA
331282 TAAATATAATAA
1 TAAATATAAT-A
331294 TAAA
1 TAAA
331298 AATTATAAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
8 4 0.05
9 5 0.07
10 22 0.29
11 26 0.35
12 18 0.24
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAATATAATA
Found at i:331221 original size:28 final size:30
Alignment explanation
Indices: 331188--331302 Score: 99
Period size: 28 Copynumber: 4.1 Consensus size: 30
331178 GCACCATAAC
331188 TAAAATAATATTAATATAATA-A-AAATAT
1 TAAAATAATATTAATATAATATATAAATAT
331216 TAAAATAA-ATATAATATAAATATATAAATAT
1 TAAAATAATAT-TAATAT-AATATATAAATAT
*
331247 TTAAA-AAT-TTACATA-AATATA-AAATAT
1 TAAAATAATATTA-ATATAATATATAAATAT
*
331274 TATAAAT-ATA--AATATAATA-ATAAAAAT
1 TA-AAATAATATTAATATAATATATAAATAT
331301 TA
1 TA
331303 TAAAAACACA
Statistics
Matches: 73, Mismatches: 3, Indels: 23
0.74 0.03 0.23
Matches are distributed among these distances:
26 4 0.05
27 21 0.29
28 25 0.34
29 6 0.08
30 7 0.10
31 10 0.14
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (30 bp):
TAAAATAATATTAATATAATATATAAATAT
Found at i:331231 original size:17 final size:17
Alignment explanation
Indices: 331188--331246 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
331178 GCACCATAAC
*
331188 TAAA-ATAATATTAATA
1 TAAATATAATATTAAAA
*
331204 T-AATAAAAATATTAAAA
1 TAAAT-ATAATATTAAAA
*
331221 TAAATATAATATAAATATA
1 TAAATATAATATTAA-A-A
331240 TAAATAT
1 TAAATAT
331247 TTAAAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
15 2 0.06
16 1 0.03
17 19 0.56
18 4 0.12
19 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATATAATATTAAAA
Found at i:331239 original size:6 final size:6
Alignment explanation
Indices: 331194--331290 Score: 51
Period size: 6 Copynumber: 16.2 Consensus size: 6
331184 TAACTAAAAT
* *
331194 AATATT AATAT- AATAAA AATATTA AA-ATA AATAT- AATATAA ATATATA
1 AATATA AATATA AATATA AATA-TA AATATA AATATA AATAT-A A-ATATA
* * * * *
331242 AATATTTA AAAATT TACATA AATATA AA-AT- ATTATA AATATA AATATA
1 AATA--TA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
331290 A
1 A
331291 TAATAAAAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
4 1 0.01
5 17 0.24
6 37 0.53
7 6 0.09
8 9 0.13
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (6 bp):
AATATA
Found at i:341321 original size:4 final size:4
Alignment explanation
Indices: 341312--341336 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
341302 TTAAGTTGCC
341312 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
341337 TGGTTCCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:341983 original size:2 final size:2
Alignment explanation
Indices: 341976--342005 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
341966 TTTATTTCTT
341976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
342006 CATTTACTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:342127 original size:2 final size:2
Alignment explanation
Indices: 342120--342160 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
342110 ATCATCAACC
342120 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
342161 ATCCCATGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:342951 original size:3 final size:3
Alignment explanation
Indices: 342943--342974 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
342933 CTAACTTCTG
342943 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
342975 CTTAACCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:343319 original size:19 final size:18
Alignment explanation
Indices: 343294--343346 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
343284 TTTTAAAGTA
343294 ATATTTAAATTTAATTTT
1 ATATTTAAATTTAATTTT
* *
343312 TTACTTTATA-TTAATATTT
1 ATA-TTTAAATTTAAT-TTT
*
343331 ATAATTAAATTTAATT
1 ATATTTAAATTTAATT
343347 AAAATATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTTAAATTTAATTTT
Found at i:343407 original size:25 final size:22
Alignment explanation
Indices: 343348--343398 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
343338 AATTTAATTA
* *
343348 AAAT-ATATTATTTTATTTTAT
1 AAATAATATTAATTTATTATAT
343369 AAATAATATTAATTTATTATAT
1 AAATAATATTAATTTATTATAT
343391 AAATAATA
1 AAATAATA
343399 ATTTGAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATAATATTAATTTATTATAT
Found at i:347571 original size:16 final size:15
Alignment explanation
Indices: 347550--347581 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
347540 AGTAAGTATC
347550 ATATTTTTTTATATAA
1 ATATTTTTTT-TATAA
347566 ATATTTTTTTTATAA
1 ATATTTTTTTTATAA
347581 A
1 A
347582 GGACAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTTTTTTATAA
Found at i:347722 original size:5 final size:5
Alignment explanation
Indices: 347712--347744 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
347702 TATATATATT
347712 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
347745 CGTGTGGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:348894 original size:34 final size:33
Alignment explanation
Indices: 348820--348884 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
348810 ATTGAAAATG
*
348820 TTATTTTATTTTTTATTATATAATTATTAAAAA
1 TTATTTTATTTATTATTATATAATTATTAAAAA
348853 TTATTTTATATTATTATT-TATAAATT-TTAAAA
1 TTATTTTAT-TTATTATTATAT-AATTATTAAAA
348885 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (33 bp):
TTATTTTATTTATTATTATATAATTATTAAAAA
Found at i:348907 original size:13 final size:13
Alignment explanation
Indices: 348873--348898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
348863 TTATTATTTA
348873 TAAATTTTAAAAT
1 TAAATTTTAAAAT
348886 TAAATTTTAAAAT
1 TAAATTTTAAAAT
348899 AATTTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATTTTAAAAT
Found at i:349310 original size:2 final size:2
Alignment explanation
Indices: 349303--349338 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
349293 GCTTTGTTCT
349303 TC TC TC TC TC TC TC TC TC TC -C ATC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC -TC TC TC TC TC TC TC
349339 ACATGCTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.94
3 1 0.03
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:350181 original size:2 final size:2
Alignment explanation
Indices: 350174--350207 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
350164 CAACTCATGA
350174 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
350208 GGAATAGACG
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:351573 original size:17 final size:19
Alignment explanation
Indices: 351532--351570 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
351522 AATATTTATG
351532 TTTT-TTTTATAAAATAAA
1 TTTTATTTTATAAAATAAA
351550 TTTTATTTTA-AAAATAAA
1 TTTTATTTTATAAAATAAA
351568 TTT
1 TTT
351571 ATTCATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTATTTTATAAAATAAA
Found at i:351579 original size:18 final size:18
Alignment explanation
Indices: 351533--351579 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
351523 ATATTTATGT
*
351533 TTTTTTTAT-AAAATAAA
1 TTTTATTATAAAAATAAA
*
351550 TTTTATTTTAAAAATAAA
1 TTTTATTATAAAAATAAA
351568 -TTTATTCATAAA
1 TTTTATT-ATAAA
351580 TTAAATTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTATTATAAAAATAAA
Found at i:351701 original size:28 final size:28
Alignment explanation
Indices: 351657--351710 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
351647 AATTGATTTA
*
351657 TAAATTTATTTTATTAT-TTAAATAATAT
1 TAAATTTAATTTATTATATT-AATAATAT
351685 TAAATTTTAATTT-TTATATTAATAAT
1 TAAA-TTTAATTTATTATATTAATAAT
351711 TATAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TAAATTTAATTTATTATATTAATAATAT
Found at i:351703 original size:19 final size:19
Alignment explanation
Indices: 351681--351730 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
351671 TATTTAAATA
*
351681 ATATTAAATTTTAATTTTT
1 ATATTAAATTTTAATTTAT
*
351700 ATATTAATAATTATAATTTAT
1 ATATT-A-AATTTTAATTTAT
351721 A-ATTAAATTT
1 ATATTAAATTT
351731 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 4 0.15
19 6 0.23
20 4 0.15
21 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTAAATTTTAATTTAT
Found at i:353147 original size:15 final size:15
Alignment explanation
Indices: 353117--353158 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
353107 TTATTAAATT
353117 ATTTAATTTATTAATAA
1 ATTTAA-TT-TTAATAA
353134 ATTTAATTTTAATAA
1 ATTTAATTTTAATAA
353149 ATTTAATTTT
1 ATTTAATTTT
353159 TATTTAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 17 0.68
16 2 0.08
17 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTAATTTTAATAA
Found at i:354523 original size:13 final size:13
Alignment explanation
Indices: 354505--354532 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
354495 ATTTAAATGT
354505 ATATTAAATATAA
1 ATATTAAATATAA
354518 ATATTAAATATAA
1 ATATTAAATATAA
354531 AT
1 AT
354533 TTTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATTAAATATAA
Found at i:355552 original size:16 final size:15
Alignment explanation
Indices: 355527--355556 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
355517 TCGATTCAAG
355527 TTTAAATTTAAACTT
1 TTTAAATTTAAACTT
355542 TTTATAATTTAAACT
1 TTTA-AATTTAAACT
355557 CAGTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAATTTAAACTT
Found at i:357897 original size:21 final size:22
Alignment explanation
Indices: 357863--357918 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
357853 AACTTGTATG
* *
357863 ATTTGAAATTTAATTGATTTAAT
1 ATTT-AAAATTAATTAATTTAAT
*
357886 A-TTAAAATTAA-TAATTTTAT
1 ATTTAAAATTAATTAATTTAAT
357906 ATTTAAAA-TAATT
1 ATTTAAAATTAATT
357919 TAAATTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 11 0.39
21 14 0.50
22 2 0.07
23 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
ATTTAAAATTAATTAATTTAAT
Found at i:357925 original size:16 final size:16
Alignment explanation
Indices: 357895--357967 Score: 71
Period size: 16 Copynumber: 4.7 Consensus size: 16
357885 TATTAAAATT
*
357895 AATAATTTTATATTTAA
1 AATAA-TTTAAATTTAA
**
357912 AATAATTTAAATTTGT
1 AATAATTTAAATTTAA
357928 AA-AATTTAAATTTAA
1 AATAATTTAAATTTAA
* *
357943 AATTATTTCAATTT--
1 AATAATTTAAATTTAA
357957 AATAATTTAAA
1 AATAATTTAAA
357968 CACAAATTCA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
14 9 0.20
15 13 0.28
16 19 0.41
17 5 0.11
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (16 bp):
AATAATTTAAATTTAA
Found at i:363352 original size:13 final size:14
Alignment explanation
Indices: 363321--363347 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
363311 TTGAATAATA
363321 AAATATTTTTATTG
1 AAATATTTTTATTG
363335 AAATATTTTTATT
1 AAATATTTTTATT
363348 TAATAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
AAATATTTTTATTG
Found at i:363495 original size:29 final size:26
Alignment explanation
Indices: 363443--363495 Score: 61
Period size: 29 Copynumber: 1.9 Consensus size: 26
363433 TATTATTTAA
* *
363443 TAATTAAAAATATTTTTATTTAAATT
1 TAATTAAAAATATTTTAATATAAATT
363469 TAATTATAAAATATATGTTAATATAAA
1 TAATTA-AAAATAT-T-TTAATATAAA
363496 AATAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 6 0.27
27 7 0.32
28 1 0.05
29 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TAATTAAAAATATTTTAATATAAATT
Found at i:377018 original size:16 final size:17
Alignment explanation
Indices: 376997--377031 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
376987 TTGAATTGGC
*
376997 TTTTT-AAATTTAATTT
1 TTTTTAAAATTAAATTT
377013 TTTTTAAAATTAAATTT
1 TTTTTAAAATTAAATTT
377030 TT
1 TT
377032 ATTTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAAATTAAATTT
Found at i:377038 original size:20 final size:20
Alignment explanation
Indices: 377007--377058 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
376997 TTTTTAAATT
* *
377007 TAATTTTTTTTAAAATTAAA
1 TAATTATTTTTAAAATAAAA
** *
377027 TTTTTATTTTTAATATAAAA
1 TAATTATTTTTAAAATAAAA
377047 TAATTATTTTTA
1 TAATTATTTTTA
377059 TTTATAATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTATTTTTAAAATAAAA
Found at i:377592 original size:40 final size:40
Alignment explanation
Indices: 377548--377623 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
377538 ATAAAATTAT
*
377548 TATTTGAATT-ATTATTTAAAATATAAT-AAAATATTAAAAA
1 TATTT-AATTAATAATTTAAAATA-AATAAAAATATTAAAAA
**
377588 TATTTAATTAATAATTTAATTTAAATAAAAATATTA
1 TATTTAATTAATAATTTAAAATAAATAAAAATATTA
377624 TTTAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
39 7 0.23
40 24 0.77
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (40 bp):
TATTTAATTAATAATTTAAAATAAATAAAAATATTAAAAA
Found at i:377626 original size:17 final size:16
Alignment explanation
Indices: 377588--377630 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
377578 ATATTAAAAA
* *
377588 TATTTAATTAATAATT
1 TATTTAAATAAAAATT
377604 TAATTTAAATAAAAATAT
1 T-ATTTAAATAAAAAT-T
377622 TATTTAAAT
1 TATTTAAAT
377631 TTAAATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 20 0.87
18 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTTAAATAAAAATT
Found at i:384014 original size:2 final size:2
Alignment explanation
Indices: 384007--384038 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
383997 CAAATTAAAA
384007 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
384039 TTTTCCCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:385513 original size:21 final size:23
Alignment explanation
Indices: 385487--385529 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
385477 TATTCAGTTA
385487 TTATTTT-TAT-ATTTTAATAAT
1 TTATTTTATATAATTTTAATAAT
385508 TTATTTTATATAAATTTTAATA
1 TTATTTTATAT-AATTTTAATA
385530 CGTATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
24 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTATTTTATATAATTTTAATAAT
Found at i:385585 original size:32 final size:36
Alignment explanation
Indices: 385506--385600 Score: 108
Period size: 33 Copynumber: 2.7 Consensus size: 36
385496 TATTTTAATA
*
385506 ATTTATTTTATATAAATTTTAATACGTATTTAAAATATT
1 ATTTATTTTATATAAATTTTAATAC--AATT-AAATATT
*
385545 ATATATTTT-TATAAATTTTAATA-AATT-AAT-TT
1 ATTTATTTTATATAAATTTTAATACAATTAAATATT
*
385577 ATTTATTTTATATAATTTTTAATA
1 ATTTATTTTATATAAATTTTAATA
385601 TATTTATATA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
32 10 0.20
33 16 0.31
35 3 0.06
38 14 0.27
39 8 0.16
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (36 bp):
ATTTATTTTATATAAATTTTAATACAATTAAATATT
Found at i:385650 original size:29 final size:30
Alignment explanation
Indices: 385592--385653 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
385582 TTTTATATAA
*
385592 TTTTTAATATATTTATATATCATATAATAT
1 TTTTTAATATATTTATATATCAAATAATAT
* * *
385622 TTTTTTAT-TATTTTTATATCAAATCATAT
1 TTTTTAATATATTTATATATCAAATAATAT
385651 TTT
1 TTT
385654 ATATTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTTAATATATTTATATATCAAATAATAT
Found at i:385665 original size:29 final size:28
Alignment explanation
Indices: 385592--385666 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 28
385582 TTTTATATAA
* *
385592 TTTTTAATATATTTATATATCATATAATAT
1 TTTTTTAT-TATTT-TATATCAAATAATAT
*
385622 TTTTTTATTATTTTTATATCAAATCATAT
1 TTTTTTATTA-TTTTATATCAAATAATAT
385651 TTTATATT-TTATTTTA
1 TTT-T-TTATTATTTTA
385667 ATTATTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 23 0.59
30 14 0.36
31 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTTTATTATTTTATATCAAATAATAT
Found at i:390429 original size:14 final size:14
Alignment explanation
Indices: 390410--390482 Score: 60
Period size: 14 Copynumber: 5.3 Consensus size: 14
390400 TTTTTTATTA
390410 AATTAAATATAAAT
1 AATTAAATATAAAT
*
390424 AATTAAAT-TTAA-
1 AATTAAATATAAAT
*
390436 AATTAAATATATAAA
1 AATTAAATATA-AAT
* **
390451 AATTAAATTTATTT
1 AATTAAATATAAAT
* *
390465 TATTAAATAAAAAT
1 AATTAAATATAAAT
390479 AATT
1 AATT
390483 TTTTAATTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
12 8 0.18
13 4 0.09
14 22 0.50
15 10 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTAAATATAAAT
Found at i:390441 original size:26 final size:27
Alignment explanation
Indices: 390409--390461 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
390399 ATTTTTTATT
*
390409 AAATTAAATATA-AATAATTAAATTTA
1 AAATTAAATATATAAAAATTAAATTTA
390435 AAATTAAATATATAAAAATTAAATTTA
1 AAATTAAATATATAAAAATTAAATTTA
390462 TTTTATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
AAATTAAATATATAAAAATTAAATTTA
Found at i:390458 original size:20 final size:19
Alignment explanation
Indices: 390409--390459 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
390399 ATTTTTTATT
*
390409 AAATTAAATATAAATAATTA
1 AAATTAAAT-TAAATAATAA
*
390429 AATTTAAAATTAAATATATAA
1 AAATT-AAATTAAATA-ATAA
390450 AAATTAAATT
1 AAATTAAATT
390460 TATTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTAAATTAAATAATAA
Found at i:390501 original size:23 final size:23
Alignment explanation
Indices: 390446--390494 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
390436 AATTAAATAT
*
390446 ATAAAAATTAAATTTATTTTATTAA
1 ATAAAAA-T-AATTTATTTAATTAA
390471 ATAAAAATAATTT-TTTAATTAA
1 ATAAAAATAATTTATTTAATTAA
390493 AT
1 AT
390495 TTAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.43
23 5 0.22
24 1 0.04
25 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATAAAAATAATTTATTTAATTAA
Found at i:391689 original size:13 final size:12
Alignment explanation
Indices: 391647--391707 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 12
391637 AAATATTTAT
*
391647 ATTT-AATATTA
1 ATTTAAATATAA
*
391658 ATTTATAATATAT
1 ATTTA-AATATAA
391671 ATTTAAATATAA
1 ATTTAAATATAA
391683 ATATTAAA-ATAA
1 AT-TTAAATATAA
391695 TATTTTAAATATA
1 -A-TTTAAATATA
391708 TTAAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
11 4 0.10
12 12 0.29
13 21 0.51
14 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAAATATAA
Found at i:391701 original size:26 final size:26
Alignment explanation
Indices: 391633--391707 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
391623 GATTTATTGT
* *
391633 TTTAAAATATTTATATTT-AATATTAA
1 TTTAAAATA-ATATATTTAAATATAAA
*
391659 TTTATAAT-ATATATTTAAATATAAA
1 TTTAAAATAATATATTTAAATATAAA
391684 TATTAAAATAATAT-TTTAAATATA
1 T-TTAAAATAATATATTTAAATATA
391708 TTAAAAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
24 7 0.17
25 8 0.19
26 23 0.55
27 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTAAAATAATATATTTAAATATAAA
Found at i:391926 original size:19 final size:21
Alignment explanation
Indices: 391888--391927 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
391878 TTTTACGTTA
391888 AAAAATATAATCTAAAAATAT
1 AAAAATATAATCTAAAAATAT
*
391909 AAAAATA-AAT-TATAAATAT
1 AAAAATATAATCTAAAAATAT
391928 TAAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATATAATCTAAAAATAT
Found at i:392468 original size:2 final size:2
Alignment explanation
Indices: 392461--392546 Score: 61
Period size: 2 Copynumber: 43.5 Consensus size: 2
392451 ATATCGTATG
* * * *
392461 TA TA TA TA TA TA TA TA TA TA TA TA TT TA T- TT TT TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
392502 TT TA -A AA AA TA TA TCG TA TA T- TCA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA T-A TA TA TA TA TA TA TA TA TA
392544 TA T
1 TA T
392547 TAAATATGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
1 3 0.04
2 66 0.93
3 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (2 bp):
TA
Found at i:392560 original size:57 final size:58
Alignment explanation
Indices: 392460--392569 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 58
392450 AATATCGTAT
* ** * *
392460 GTATATATATATATATATATATATATTTATTTTTTTTATATA-TTTAAAAAATATATC
1 GTATATATATATATATATATATATATATATTAATATGATATATTTTAAAAAATATATC
392517 GTATAT-TCATATATATATATATATATATATTAAATATGA-ATATTTTAAAAAAT
1 GTATATAT-ATATATATATATATATATATATT-AATATGATATATTTTAAAAAAT
392570 TAACGGTGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
56 1 0.02
57 31 0.69
58 13 0.29
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (58 bp):
GTATATATATATATATATATATATATATATTAATATGATATATTTTAAAAAATATATC
Found at i:395220 original size:3 final size:3
Alignment explanation
Indices: 395212--395242 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
395202 ATGGCAACGG
395212 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC C
395243 CAAGACTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:397295 original size:4 final size:4
Alignment explanation
Indices: 397271--397388 Score: 137
Period size: 4 Copynumber: 29.5 Consensus size: 4
397261 ATTTGATTCT
* * *
397271 TATA TATA CATA TATA CATA TATA TATA TATA TATA CATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * *
397319 TACA TACA TATA TATA TATA TACA TACA TACA TACA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* *
397367 TATA CATA CATA TATA TATA TA
1 TATA TATA TATA TATA TATA TA
397389 GTTGGTGATG
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 102 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (4 bp):
TATA
Found at i:400598 original size:27 final size:27
Alignment explanation
Indices: 400546--400598 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
400536 TGTTTATGCA
* *
400546 TATAACTGAAATGGTTTTCCATTCTCT
1 TATAACTGAAATGGTTTTACAATCTCT
400573 TATAACTGAAATGGTTTTACAATCTC
1 TATAACTGAAATGGTTTTACAATCTC
400599 ATTGACATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (27 bp):
TATAACTGAAATGGTTTTACAATCTCT
Found at i:401514 original size:181 final size:181
Alignment explanation
Indices: 401210--401570 Score: 704
Period size: 181 Copynumber: 2.0 Consensus size: 181
401200 ATCTCTTTAT
*
401210 TTATCTGTACCTTCTATTATCCTCTGTTGTGGAGGACACAGGGGATGGGGGATTATCCTTCATTA
1 TTATCTGTACCTTCTATAATCCTCTGTTGTGGAGGACACAGGGGATGGGGGATTATCCTTCATTA
401275 TACAGAATGTTGCATGCTTATGCTTCTTATCCATATATCTTCTAATTTTTTCGTAACAGGTTTTG
66 TACAGAATGTTGCATGCTTATGCTTCTTATCCATATATCTTCTAATTTTTTCGTAACAGGTTTTG
401340 TTTCCTTATGACAGGTGCAGTTGAGTACAAATTGTTTGTTGGGTCACTGAG
131 TTTCCTTATGACAGGTGCAGTTGAGTACAAATTGTTTGTTGGGTCACTGAG
401391 TTATCTGTACCTTCTATAATCCTCTGTTGTGGAGGACACAGGGGATGGGGGATTATCCTTCATTA
1 TTATCTGTACCTTCTATAATCCTCTGTTGTGGAGGACACAGGGGATGGGGGATTATCCTTCATTA
*
401456 TACAGAATGTTGCATGCTTATGCTTCTTATCCATATATCTTTTAATTTTTTCGTAACAGGTTTTG
66 TACAGAATGTTGCATGCTTATGCTTCTTATCCATATATCTTCTAATTTTTTCGTAACAGGTTTTG
401521 TTTCCTTATGACAGGTGCAGTTGAGTACAAATTGTTTGTTGGGTCACTGA
131 TTTCCTTATGACAGGTGCAGTTGAGTACAAATTGTTTGTTGGGTCACTGA
401571 ATAAACAAGC
Statistics
Matches: 178, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 178 1.00
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.40
Consensus pattern (181 bp):
TTATCTGTACCTTCTATAATCCTCTGTTGTGGAGGACACAGGGGATGGGGGATTATCCTTCATTA
TACAGAATGTTGCATGCTTATGCTTCTTATCCATATATCTTCTAATTTTTTCGTAACAGGTTTTG
TTTCCTTATGACAGGTGCAGTTGAGTACAAATTGTTTGTTGGGTCACTGAG
Found at i:410639 original size:2 final size:2
Alignment explanation
Indices: 410632--410660 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
410622 ATAATAGTCA
410632 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 A
410661 AGAAAAAACT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:414494 original size:15 final size:15
Alignment explanation
Indices: 414474--414503 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
414464 TTTCTATTTT
414474 TTATAATATAAAAAA
1 TTATAATATAAAAAA
*
414489 TTATAATCTAAAAAA
1 TTATAATATAAAAAA
414504 AATTATGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
TTATAATATAAAAAA
Found at i:414520 original size:18 final size:17
Alignment explanation
Indices: 414474--414520 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
414464 TTTCTATTTT
414474 TTATAATAT--AAAAAA
1 TTATAATATAAAAAAAA
*
414489 TTATAATCTAAAAAAAA
1 TTATAATATAAAAAAAA
414506 TTATGAATATTAAAA
1 TTAT-AATA-TAAAA
414521 TTCATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 8 0.31
17 10 0.38
18 3 0.12
19 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
TTATAATATAAAAAAAA
Found at i:415136 original size:27 final size:27
Alignment explanation
Indices: 415106--415160 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
415096 AATTATATTT
415106 AATAT-ATTAT-TTTTATTAATTTTAAAA
1 AATATAATTATATTTTATT--TTTTAAAA
415133 AATATCAATTATATTTTATTTTTTAAAA
1 AATAT-AATTATATTTTATTTTTTAAAA
415161 TATTATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 5 0.20
28 8 0.32
29 5 0.20
30 7 0.28
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
AATATAATTATATTTTATTTTTTAAAA
Found at i:415152 original size:36 final size:35
Alignment explanation
Indices: 415073--415155 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 35
415063 AATTAATGAT
* *
415073 TATTTTATTATTATTTTTAAAAAAATTATATTTAA
1 TATTTTATTTTTATTTTTAAAAAAATTATAATTAA
* *
415108 TATATTATTTTTATTAATTTTAAAAAA-TATCAATT-A
1 TATTTTATTTTTATT--TTTAAAAAAATTAT-AATTAA
415144 TATTTTATTTTT
1 TATTTTATTTTT
415156 TAAAATATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
35 13 0.32
36 15 0.38
37 12 0.30
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (35 bp):
TATTTTATTTTTATTTTTAAAAAAATTATAATTAA
Found at i:415156 original size:37 final size:39
Alignment explanation
Indices: 415063--415157 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 39
415053 AATATGTCCA
* *
415063 AATTAAT-GATTATTTTATTATTATTTTTAAAAAAATTAT
1 AATTAATATATTATTTT-TTATTAATTTTAAAAAAATTAT
*
415102 ATTTAATATATTA-TTTTTATTAATTTT-AAAAAA-TAT
1 AATTAATATATTATTTTTTATTAATTTTAAAAAAATTAT
*
415138 CAATT-ATATTTTATTTTTTA
1 -AATTAATATATTATTTTTTA
415158 AAATATTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 10 0.21
37 15 0.31
38 10 0.21
39 9 0.19
40 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (39 bp):
AATTAATATATTATTTTTTATTAATTTTAAAAAAATTAT
Found at i:415937 original size:23 final size:25
Alignment explanation
Indices: 415897--415943 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
415887 ATATAATATA
*
415897 ATATAAATAAATATATTA-AAATTT
1 ATATAAATAAATAAATTATAAATTT
*
415921 ATAT-AATATATAAATTATAAATT
1 ATATAAATAAATAAATTATAAATT
415944 ATTAATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATAAATAAATAAATTATAAATTT
Found at i:415981 original size:19 final size:17
Alignment explanation
Indices: 415927--415978 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
415917 ATTTATATAA
415927 TATATAAATTAT-AAAT
1 TATATAAATTATAAAAT
415943 TAT-T-AATTAATTAAAAT
1 TATATAAATT-A-TAAAAT
415960 TATATAAATTGATAAAAT
1 TATATAAATT-ATAAAAT
415978 T
1 T
415979 TATTACTCGT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 4 0.13
15 2 0.07
16 4 0.13
17 7 0.23
18 8 0.27
19 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TATATAAATTATAAAAT
Found at i:416380 original size:23 final size:21
Alignment explanation
Indices: 416341--416387 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 21
416331 ATTTGATATA
416341 TTAATAATTTATATTATATAAAT
1 TTAATAATTTATATTAT-T-AAT
416364 TTAATATATTTAT-TTATTAAT
1 TTAATA-ATTTATATTATTAAT
416385 TTA
1 TTA
416388 TGTCATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.26
22 1 0.04
23 10 0.43
24 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAATAATTTATATTATTAAT
Found at i:417753 original size:5 final size:5
Alignment explanation
Indices: 417743--417789 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
417733 TAATTATAAA
* *
417743 AATAT AATAT AA-AT AAAAT AATTAA AATAT AATAT AATAT AAATAT A
1 AATAT AATAT AATAT AATAT AA-TAT AATAT AATAT AATAT -AATAT A
417790 TATTAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 4 0.11
5 24 0.67
6 8 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:417763 original size:14 final size:14
Alignment explanation
Indices: 417732--417787 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
417722 ATAACATTAG
*
417732 ATAATTATAAA-AAT
1 ATAA-TATAAATAAA
417746 ATAATATAAATAAA
1 ATAATATAAATAAA
417760 ATAAT-TAAAATATAA
1 ATAATAT-AAATA-AA
417775 TATAATATAAATA
1 -ATAATATAAATA
417788 TATATTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 7 0.19
14 16 0.44
15 2 0.06
16 10 0.28
17 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATATAAATAAA
Found at i:417779 original size:30 final size:29
Alignment explanation
Indices: 417743--417839 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 29
417733 TAATTATAAA
417743 AATATAATATAAATAAAATAATTAAAATAT
1 AATATAATATAAATAAAAT-ATTAAAATAT
*
417773 AATATAATATAAAT-ATATATTAAAA-AT
1 AATATAATATAAATAAAATATTAAAATAT
* *
417800 TAT-TAATATATTAA-AAATTATATAAAATAT
1 AATATAATATA--AATAAAATAT-TAAAATAT
*
417830 AATAGAATAT
1 AATATAATAT
417840 GACAAGATAC
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
26 7 0.13
27 4 0.07
28 13 0.24
29 8 0.15
30 18 0.33
31 5 0.09
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (29 bp):
AATATAATATAAATAAAATATTAAAATAT
Found at i:417807 original size:20 final size:20
Alignment explanation
Indices: 417787--417829 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
417777 TAATATAAAT
417787 ATATATTAAAAATTAT-T-A
1 ATATATTAAAAATTATATAA
417805 ATATATTAAAAATTATATAA
1 ATATATTAAAAATTATATAA
417825 A-ATAT
1 ATATAT
417830 AATAGAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 16 0.70
19 5 0.22
20 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATATTAAAAATTATATAA
Found at i:418894 original size:17 final size:18
Alignment explanation
Indices: 418872--418909 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
418862 TTATTTCTCT
*
418872 TTAATTTAATTA-CAAAA
1 TTAATTTAAGTATCAAAA
418889 TTAATTTAAGTATCAAAA
1 TTAATTTAAGTATCAAAA
418907 TTA
1 TTA
418910 TATAACAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (18 bp):
TTAATTTAAGTATCAAAA
Found at i:419309 original size:2 final size:2
Alignment explanation
Indices: 419302--419333 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
419292 AAGTCACCTA
419302 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
419334 GCATGTGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:419564 original size:9 final size:9
Alignment explanation
Indices: 419523--419564 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
419513 TATTTATAAA
419523 AATATATTT
1 AATATATTT
*
419532 AATATTTTTT
1 AATA-TATTT
419542 AATA-ATTT
1 AATATATTT
*
419550 AATATATTA
1 AATATATTT
419559 AATATA
1 AATATA
419565 CATTTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.25
9 13 0.46
10 8 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
AATATATTT
Found at i:419688 original size:2 final size:2
Alignment explanation
Indices: 419681--419708 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
419671 AATTTTGCAC
419681 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
419709 GGATAATTAA
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:420548 original size:17 final size:17
Alignment explanation
Indices: 420512--420544 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
420502 AATTTTTATA
*
420512 ATTTTTATACAATTAAT
1 ATTTTAATACAATTAAT
420529 ATTTTAATA-AATTAAT
1 ATTTTAATACAATTAAT
420545 TATTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTAATACAATTAAT
Found at i:425320 original size:3 final size:3
Alignment explanation
Indices: 425312--425350 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
425302 AGTTCCAAAG
425312 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
425351 AAAAAAAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:429694 original size:2 final size:2
Alignment explanation
Indices: 429687--429718 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
429677 CCCTTCACTG
429687 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
429719 TAAGATTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:431833 original size:2 final size:2
Alignment explanation
Indices: 431826--431876 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
431816 TGCCATGCCC
431826 AT AT AT AT 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 AT AT AT AT
431868 AT AT AT AT A
1 AT AT AT AT A
431877 AAAGGCCATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:433623 original size:18 final size:19
Alignment explanation
Indices: 433576--433623 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
433566 TTTATAATTT
*
433576 TTTTATATATTTTATATAAA
1 TTTTAT-TATATTATATAAA
433596 TTTTGA-TATATTA-ATAAA
1 TTTT-ATTATATTATATAAA
433614 TTTTATTATA
1 TTTTATTATA
433624 AAAAATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 1 0.04
18 13 0.52
19 6 0.24
20 4 0.16
21 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTATTATATTATATAAA
Found at i:435007 original size:2 final size:2
Alignment explanation
Indices: 434954--434988 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
434944 TTAAACTCAT
434954 TA TA TA 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 TA TA TA T
434989 TTGCGTCTAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.