Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold74
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: 4633657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 25 characters in sequence are not A, C, G, or T
File 22 of 24
Found at i:4190575 original size:16 final size:16
Alignment explanation
Indices: 4190551--4190581 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4190541 TTTTTAATTT
4190551 ATTAAAATAAAATAAA
1 ATTAAAATAAAATAAA
*
4190567 ATTATAATAAAATAA
1 ATTAAAATAAAATAA
4190582 TTATGTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTAAAATAAAATAAA
Found at i:4190596 original size:38 final size:39
Alignment explanation
Indices: 4190549--4190623 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
4190539 TATTTTTAAT
* *
4190549 TTATTAAAATAAAATAAAATTATAATAAAATA-ATTATG
1 TTATAAAAATAAAATAAAATTACAATAAAATAGATTATG
* *
4190587 TTATAAAAATAAAATAAATTTACAATAGAATAGATTA
1 TTATAAAAATAAAATAAAATTACAATAAAATAGATTA
4190624 ATTATGACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 28 0.88
39 4 0.12
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (39 bp):
TTATAAAAATAAAATAAAATTACAATAAAATAGATTATG
Found at i:4199680 original size:23 final size:23
Alignment explanation
Indices: 4199654--4199707 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
4199644 TAAAAATTAT
*
4199654 TAAATATGATAAA-ATTTTAAATA
1 TAAATATGATAAATATATT-AATA
4199677 TAAATATGATAAATATATTAATA
1 TAAATATGATAAATATATTAATA
4199700 TAATATAT
1 TAA-ATAT
4199708 TAATTATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (23 bp):
TAAATATGATAAATATATTAATA
Found at i:4199766 original size:13 final size:12
Alignment explanation
Indices: 4199689--4199772 Score: 56
Period size: 11 Copynumber: 7.3 Consensus size: 12
4199679 AATATGATAA
4199689 ATATATTAATAT
1 ATATATTAATAT
4199701 AATATATTAAT-T
1 -ATATATTAATAT
*
4199713 ATAT-TTAAAAT
1 ATATATTAATAT
*
4199724 -TATAGT-ATCAT
1 ATATATTAAT-AT
*
4199735 ATTTATT-ATAT
1 ATATATTAATAT
*
4199746 A-ATTTTAATAAT
1 ATATATTAAT-AT
4199758 ATATATTAA-AT
1 ATATATTAATAT
4199769 ATAT
1 ATAT
4199773 TTTATTTATA
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
10 11 0.20
11 19 0.34
12 10 0.18
13 16 0.29
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (12 bp):
ATATATTAATAT
Found at i:4201445 original size:13 final size:15
Alignment explanation
Indices: 4201418--4201451 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
4201408 AATTTTATGA
4201418 TATTAAAATTTAAAT
1 TATTAAAATTTAAAT
4201433 T-TTAAAA-TTAAAT
1 TATTAAAATTTAAAT
4201446 TATTAA
1 TATTAA
4201452 GTTTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.39
14 10 0.56
15 1 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAAAATTTAAAT
Found at i:4202650 original size:13 final size:13
Alignment explanation
Indices: 4202632--4202657 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4202622 TAACTTATAA
4202632 GTCTATTTTTATT
1 GTCTATTTTTATT
4202645 GTCTATTTTTATT
1 GTCTATTTTTATT
4202658 TGGTGACTCT
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:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
GTCTATTTTTATT
Found at i:4204019 original size:2 final size:2
Alignment explanation
Indices: 4204012--4204043 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4204002 TTATTCATAC
4204012 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
4204044 TTCAATATAC
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:4205260 original size:8 final size:8
Alignment explanation
Indices: 4205247--4205315 Score: 50
Period size: 8 Copynumber: 8.1 Consensus size: 8
4205237 ATATAATAAA
4205247 AAATATAT
1 AAATATAT
4205255 AAATATAT
1 AAATATAT
*
4205263 -AATATTTT
1 AAATA-TAT
4205271 AAATATAATT
1 AAATAT-A-T
*
4205281 ATAACATAT
1 A-AATATAT
4205290 AAATATAT
1 AAATATAT
* *
4205298 AAATGTGAC
1 AAATAT-AT
4205307 AAATATAT
1 AAATATAT
4205315 A
1 A
4205316 GATTTTTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
7 4 0.09
8 24 0.51
9 12 0.26
10 3 0.06
11 4 0.09
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (8 bp):
AAATATAT
Found at i:4205264 original size:35 final size:34
Alignment explanation
Indices: 4205224--4205301 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 34
4205214 AATTTATGTA
*
4205224 ATATAAATTATT-AATATAATAAAAAATATATAAAT
1 ATATAAATT-TTAAATATAAT-AAAAACATATAAAT
* *
4205259 ATATAATATTTTAAATATAATTATAACATATAAAT
1 ATATAA-ATTTTAAATATAATAAAAACATATAAAT
4205294 ATATAAAT
1 ATATAAAT
4205302 GTGACAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
34 2 0.05
35 25 0.66
36 11 0.29
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (34 bp):
ATATAAATTTTAAATATAATAAAAACATATAAAT
Found at i:4205273 original size:27 final size:29
Alignment explanation
Indices: 4205224--4205301 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 29
4205214 AATTTATGTA
4205224 ATATAAAT-TATTAATATAATAAA-A-AAT
1 ATATAAATATA-TAATATAATAAATATAAT
**
4205251 ATATAAATATATAATATTTTAAATATAAT
1 ATATAAATATATAATATAATAAATATAAT
4205280 -TATAACATATA-AATAT-ATAAAT
1 ATATAA-ATATATAATATAATAAAT
4205302 GTGACAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
27 23 0.52
28 13 0.30
29 8 0.18
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (29 bp):
ATATAAATATATAATATAATAAATATAAT
Found at i:4205467 original size:3 final size:3
Alignment explanation
Indices: 4205459--4205484 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4205449 ACTCCATTTT
4205459 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
4205485 GTAGGTTAGT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4205716 original size:2 final size:2
Alignment explanation
Indices: 4205711--4205747 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4205701 TCTCTCTCTC
*
4205711 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4205748 TATTTTTTAG
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:4210360 original size:2 final size:2
Alignment explanation
Indices: 4210353--4210388 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4210343 AAATTTCTTT
4210353 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
4210389 AGTCATGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4210973 original size:33 final size:35
Alignment explanation
Indices: 4210918--4210983 Score: 84
Period size: 33 Copynumber: 1.9 Consensus size: 35
4210908 GATTTAACTC
*
4210918 AAATTATTATTTAATAATAAAAAT-T-AATATTTT
1 AAATTAATATTTAATAATAAAAATATAAATATTTT
*
4210951 AAATTAAT-TTTAATTATAAAAAATATAAATATT
1 AAATTAATATTTAATAAT-AAAAATATAAATATT
4210984 AATATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 8 0.29
33 13 0.46
34 1 0.04
35 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
AAATTAATATTTAATAATAAAAATATAAATATTTT
Found at i:4212239 original size:14 final size:15
Alignment explanation
Indices: 4212210--4212240 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4212200 TTATATTAAA
4212210 ATATTAAATATTTAT
1 ATATTAAATATTTAT
4212225 ATATTAAAT-TTTAT
1 ATATTAAATATTTAT
4212239 AT
1 AT
4212241 TATATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTAAATATTTAT
Found at i:4212268 original size:35 final size:35
Alignment explanation
Indices: 4212200--4212269 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
4212190 TTTATCTTAA
*
4212200 TTATATTAAAATATTAAATATTTATATATTAAATT
1 TTATATTAAAATATTAAATATTTATATAGTAAATT
* * *
4212235 TTATATT-ATATATTAATTATTTTTTATAGTAAATT
1 TTATATTAAAATATTAAATA-TTTATATAGTAAATT
4212270 ACAAGAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 10 0.33
35 20 0.67
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (35 bp):
TTATATTAAAATATTAAATATTTATATAGTAAATT
Found at i:4212970 original size:21 final size:23
Alignment explanation
Indices: 4212935--4212983 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 23
4212925 AAGATTATTT
4212935 TATTATTTATTATATT-ATTAAAA
1 TATTATTTATTATATTAATT-AAA
4212958 TATTA-TT-TTATATTAATTAAA
1 TATTATTTATTATATTAATTAAA
4212979 TATTA
1 TATTA
4212984 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 15 0.60
22 5 0.20
23 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTATTTATTATATTAATTAAA
Found at i:4213717 original size:7 final size:7
Alignment explanation
Indices: 4213707--4213740 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
4213697 AAAGAACCAG
4213707 CATCAAT
1 CATCAAT
4213714 CATCAAT
1 CATCAAT
*
4213721 CACCAAT
1 CATCAAT
*
4213728 CATCAAG
1 CATCAAT
4213735 CATCAA
1 CATCAA
4213741 CTAATCTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.44, C:0.32, G:0.03, T:0.21
Consensus pattern (7 bp):
CATCAAT
Found at i:4214267 original size:14 final size:14
Alignment explanation
Indices: 4214248--4214286 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4214238 TTTAAGTTTG
4214248 ATAAATATTTAAAT
1 ATAAATATTTAAAT
*
4214262 ATAAATATATAAAT
1 ATAAATATTTAAAT
* *
4214276 TTATATATTTA
1 ATAAATATTTA
4214287 TATCTAATAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAAATATTTAAAT
Found at i:4217087 original size:21 final size:21
Alignment explanation
Indices: 4217027--4217088 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
4217017 TTTATTTTTA
* *
4217027 TAAATTTTAATTAATTATTAA-
1 TAAAATTT-ATTAATTAATAAT
4217048 TAAAAGTTTATT--TT-A-AAT
1 TAAAA-TTTATTAATTAATAAT
4217066 TAAAATTTATTAATTAATAAT
1 TAAAATTTATTAATTAATAAT
4217087 TA
1 TA
4217089 TATACTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 4 0.12
20 1 0.03
21 12 0.36
22 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TAAAATTTATTAATTAATAAT
Found at i:4219209 original size:15 final size:16
Alignment explanation
Indices: 4219189--4219218 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4219179 GTATGCTAAG
4219189 TTAAAATT-ATAATAT
1 TTAAAATTGATAATAT
4219204 TTAAAATTGATAATA
1 TTAAAATTGATAATA
4219219 AATGACATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TTAAAATTGATAATAT
Found at i:4219459 original size:14 final size:15
Alignment explanation
Indices: 4219442--4219479 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
4219432 ATAGTCTTTG
4219442 AAATAAAAAAT-AAA
1 AAATAAAAAATAAAA
4219456 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
4219471 AAATAAAAA
1 AAATAAAAA
4219480 CAAGTAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATAAAAAATAAAA
Found at i:4219464 original size:8 final size:7
Alignment explanation
Indices: 4219442--4219479 Score: 67
Period size: 7 Copynumber: 5.3 Consensus size: 7
4219432 ATAGTCTTTG
4219442 AAATAAA
1 AAATAAA
4219449 AAATAAA
1 AAATAAA
4219456 AAATAAA
1 AAATAAA
4219463 AAATAAAA
1 AAAT-AAA
4219471 AAATAAA
1 AAATAAA
4219478 AA
1 AA
4219480 CAAGTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:4220271 original size:2 final size:2
Alignment explanation
Indices: 4220264--4220301 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4220254 AATGATGTTA
4220264 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
4220302 CCAACGTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4220843 original size:16 final size:16
Alignment explanation
Indices: 4220824--4220880 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
4220814 TTAATATTAC
*
4220824 AAATAAAATTTATTTT
1 AAATTAAATTTATTTT
4220840 AAATTAAA-TTATTTT
1 AAATTAAATTTATTTT
* * *
4220855 -GA-TAGATTTATATT
1 AAATTAAATTTATTTT
4220869 AAATTAAATTTA
1 AAATTAAATTTA
4220881 AAATAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
13 3 0.09
14 7 0.22
15 8 0.25
16 14 0.44
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (16 bp):
AAATTAAATTTATTTT
Found at i:4220903 original size:34 final size:35
Alignment explanation
Indices: 4220860--4220927 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
4220850 ATTTTGATAG
*
4220860 ATTTATATTAAATTA-AATTTAAA-ATAAATATTTT
1 ATTTATATTAAAATATAATTTAAATATAAA-ATTTT
* *
4220894 ATTTGTATTAAAATATTATTTAAATATAAAATTT
1 ATTTATATTAAAATATAATTTAAATATAAAATTT
4220928 AATTATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 13 0.45
35 11 0.38
36 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (35 bp):
ATTTATATTAAAATATAATTTAAATATAAAATTTT
Found at i:4220923 original size:18 final size:18
Alignment explanation
Indices: 4220876--4220925 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
4220866 ATTAAATTAA
*
4220876 ATTTAAA-ATAAATATTTT
1 ATTTAAATATAAA-ATATT
**
4220894 ATTTGTAT-TAAAATATT
1 ATTTAAATATAAAATATT
4220911 ATTTAAATATAAAAT
1 ATTTAAATATAAAAT
4220926 TTAATTATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTTAAATATAAAATATT
Found at i:4221312 original size:4 final size:4
Alignment explanation
Indices: 4221303--4221345 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
4221293 ATAAAATGTA
* * *
4221303 ATAT ATAT ATAT ATAT ATAT ATAT ATAT GTAT GTAT ATGT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
4221346 GTTGAGGAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (4 bp):
ATAT
Found at i:4221314 original size:6 final size:6
Alignment explanation
Indices: 4221303--4221345 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
4221293 ATAAAATGTA
* * *
4221303 ATATAT ATATAT ATATAT ATATAT ATATGT ATGTAT ATGTAT A
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT A
4221346 GTTGAGGAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (6 bp):
ATATAT
Found at i:4221318 original size:10 final size:10
Alignment explanation
Indices: 4221303--4221345 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
4221293 ATAAAATGTA
4221303 ATATATATAT
1 ATATATATAT
4221313 ATATATATAT
1 ATATATATAT
*
4221323 ATATATATGT
1 ATATATATAT
* *
4221333 ATGTATATGT
1 ATATATATAT
4221343 ATA
1 ATA
4221346 GTTGAGGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (10 bp):
ATATATATAT
Found at i:4222662 original size:16 final size:16
Alignment explanation
Indices: 4222603--4222663 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
4222593 TTTAAGAGAG
* *
4222603 CTATTCTAAATAACAG
1 CTATTCTAAATAATAA
* *
4222619 CTATTCTTAACAATAA
1 CTATTCTAAATAATAA
*
4222635 -TAATTATAAATAATAA
1 CT-ATTCTAAATAATAA
*
4222651 CTATTCTTAATAA
1 CTATTCTAAATAA
4222664 AAATTATTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.38
Consensus pattern (16 bp):
CTATTCTAAATAATAA
Found at i:4223860 original size:29 final size:30
Alignment explanation
Indices: 4223815--4223886 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
4223805 TTTATGATGA
4223815 TTTATATATT-TATATTATGTATT-AATAT
1 TTTATATATTATATATTATGTATTAAATAT
*
4223843 TTTATTATATTATA-ATTATGTTTTAAATAT
1 TTTA-TATATTATATATTATGTATTAAATAT
4223873 TTTATA-ATTATATA
1 TTTATATATTATATA
4223887 AATTTTAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 10 0.26
29 18 0.46
30 11 0.28
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTATATATTATATATTATGTATTAAATAT
Found at i:4223912 original size:49 final size:49
Alignment explanation
Indices: 4223818--4223939 Score: 133
Period size: 49 Copynumber: 2.4 Consensus size: 49
4223808 ATGATGATTT
* * *
4223818 ATATATTTATATTATGTATTAATATTTTATTATATTATAATTATGTTTTAA
1 ATAT-TTTATAATATATA-TAATATTTTAATATATTATAATTATGTTTTAA
*
4223869 ATATTTTATAAT-TATATAA-ATTTTAATATATTTATAATTTATGTTATATA
1 ATATTTTATAATATATATAATATTTTAATATA-TTATAA-TTATGTTTTA-A
*
4223919 A-ATTTTAAAATATATATAATA
1 ATATTTTATAATATATATAATA
4223940 GTATTATGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
47 10 0.16
48 9 0.15
49 21 0.34
50 16 0.26
51 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (49 bp):
ATATTTTATAATATATATAATATTTTAATATATTATAATTATGTTTTAA
Found at i:4223934 original size:18 final size:17
Alignment explanation
Indices: 4223871--4223937 Score: 52
Period size: 18 Copynumber: 4.0 Consensus size: 17
4223861 TGTTTTAAAT
*
4223871 ATTTTATAATTATATAA
1 ATTTTAAAATTATATAA
4223888 ATTTTAATATATT-TAT-A
1 ATTTTAA-A-ATTATATAA
**
4223905 A-TTT-ATGTTATATAA
1 ATTTTAAAATTATATAA
4223920 ATTTTAAAATATATATAA
1 ATTTTAAAAT-TATATAA
4223938 TAGTATTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 13
0.68 0.09 0.23
Matches are distributed among these distances:
13 2 0.05
14 3 0.08
15 3 0.08
16 6 0.16
17 10 0.26
18 11 0.29
19 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (17 bp):
ATTTTAAAATTATATAA
Found at i:4223947 original size:36 final size:32
Alignment explanation
Indices: 4223880--4223949 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
4223870 TATTTTATAA
*
4223880 TTATATAAATTTTAATATATTTATAATTTATG
1 TTATATAAATTTTAATATATTAATAATTTATG
*
4223912 TTATATAAATTTTAAAATATATATAATAGTATTATG
1 TTATATAAATTTT--AATATAT-TAATAAT-TTATG
4223948 TT
1 TT
4223950 TATTTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 13 0.41
34 7 0.22
35 5 0.16
36 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (32 bp):
TTATATAAATTTTAATATATTAATAATTTATG
Found at i:4223952 original size:49 final size:48
Alignment explanation
Indices: 4223848--4223952 Score: 108
Period size: 49 Copynumber: 2.2 Consensus size: 48
4223838 AATATTTTAT
* * **
4223848 TATA-TTATAATTATGTTTTAAATATTTTATAATTATATAAATTTTAA
1 TATATTTATAATTATGTTATAAATATTTTAAAATTATATAAATAGTAA
*
4223895 TATATTTATAATTTATGTTATATAA-ATTTTAAAA-TATATATAATAGTAT
1 TATATTTATAA-TTATGTTATA-AATATTTTAAAATTATATA-AATAGTAA
*
4223944 TATGTTTAT
1 TATATTTAT
4223953 TTTTTTACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
47 4 0.08
48 12 0.25
49 30 0.62
50 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (48 bp):
TATATTTATAATTATGTTATAAATATTTTAAAATTATATAAATAGTAA
Found at i:4229860 original size:37 final size:37
Alignment explanation
Indices: 4229819--4229889 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
4229809 TTAATATAAA
4229819 AATTTTAATCATTATTTAATATAAAA-AATATTTTAGT
1 AATTTTAATCATTATTTAATA-AAAATAATATTTTAGT
* *
4229856 AATTTTAATTATTATTTAATAAAAATATTATTTT
1 AATTTTAATCATTATTTAATAAAAATAATATTTT
4229890 TATTATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (37 bp):
AATTTTAATCATTATTTAATAAAAATAATATTTTAGT
Found at i:4229929 original size:19 final size:19
Alignment explanation
Indices: 4229870--4229951 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
4229860 TTAATTATTA
* *
4229870 TTTAATAAAAATATTA-TT
1 TTTAATATAAATATAATTT
* * * * *
4229888 TTTATTATATATTTTATTA
1 TTTAATATAAATATAATTT
**
4229907 TTTAATATGTATATAATTT
1 TTTAATATAAATATAATTT
4229926 TTTAATATAAATATAATTT
1 TTTAATATAAATATAATTT
4229945 TATTAAT
1 T-TTAAT
4229952 GTTTAATTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
18 12 0.24
19 33 0.66
20 5 0.10
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (19 bp):
TTTAATATAAATATAATTT
Found at i:4229938 original size:56 final size:54
Alignment explanation
Indices: 4229870--4229973 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
4229860 TTAATTATTA
* * *
4229870 TTTAATAAAAATATTATTTTTATTATATATTTTATTATTTAATATGTATATAATTT
1 TTTAATAAAAATA-TAATTTTATTA-ATATTTAATTATTTAATATATATATAATTT
* * *
4229926 TTTAATATAAATATAATTTTATTAATGTTTAATTATTTATTATATATA
1 TTTAATAAAAATATAATTTTATTAATATTTAATTATTTAATATATATA
4229974 CACACATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 20 0.48
55 10 0.24
56 12 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (54 bp):
TTTAATAAAAATATAATTTTATTAATATTTAATTATTTAATATATATATAATTT
Found at i:4231948 original size:2 final size:2
Alignment explanation
Indices: 4231941--4231972 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4231931 TTTGTAATAC
4231941 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
4231973 GCACACACAC
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:4238899 original size:15 final size:16
Alignment explanation
Indices: 4238876--4238908 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4238866 AACGGCCTCC
4238876 TCCTCCCCTTC-CCTT
1 TCCTCCCCTTCACCTT
*
4238891 TCCTTCCCTTCACCTT
1 TCCTCCCCTTCACCTT
4238907 TC
1 TC
4238909 TTTGCTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.03, C:0.55, G:0.00, T:0.42
Consensus pattern (16 bp):
TCCTCCCCTTCACCTT
Found at i:4239836 original size:19 final size:18
Alignment explanation
Indices: 4239810--4239864 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
4239800 TATATCTTAT
4239810 TTAT-TTATTTTTATAAA
1 TTATATTATTTTTATAAA
*
4239827 TTATAATTATATTTATAATA
1 TTAT-ATTATTTTTATAA-A
*
4239847 TTATATT-TTTATATAAA
1 TTATATTATTTTTATAAA
4239864 T
1 T
4239865 ATTGATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 6 0.19
18 7 0.22
19 14 0.44
20 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATATTATTTTTATAAA
Found at i:4239879 original size:34 final size:33
Alignment explanation
Indices: 4239811--4239879 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 33
4239801 ATATCTTATT
*
4239811 TATTTATTTTTATAAATTATAATTATATTTATAA
1 TATTTATTTTTATAAA-TATAATTATATTAATAA
4239845 TATTATATTTTTATATAA-AT-ATTGATATTAATAA
1 TATT-TATTTTTATA-AATATAATT-ATATTAATAA
4239879 T
1 T
4239880 TGATATTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
33 3 0.10
34 16 0.52
35 10 0.32
36 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (33 bp):
TATTTATTTTTATAAATATAATTATATTAATAA
Found at i:4240958 original size:21 final size:21
Alignment explanation
Indices: 4240933--4240972 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4240923 ATATTTTGAA
4240933 AATTA-TAATAAATAAAAAAAT
1 AATTATTAAT-AATAAAAAAAT
*
4240954 AATTATTAATATTAAAAAA
1 AATTATTAATAATAAAAAA
4240973 TTATTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTATTAATAATAAAAAAAT
Found at i:4240976 original size:17 final size:17
Alignment explanation
Indices: 4240949--4241001 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 17
4240939 AATAAATAAA
4240949 AAAATAATTATTAATATT
1 AAAA-AATTATTAATATT
4240967 AAAAAATTATTTAAATATTT
1 AAAAAATTA-TT-AATA-TT
*
4240987 ATAAAA-TATTAATAT
1 AAAAAATTATTAATAT
4241002 ATTTATGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 1 0.03
17 9 0.29
18 8 0.26
19 6 0.19
20 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAAAATTATTAATATT
Found at i:4240983 original size:19 final size:20
Alignment explanation
Indices: 4240933--4240985 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
4240923 ATATTTTGAA
* *
4240933 AATTATAATAAATAAAAAAAT
1 AATTATAA-ATATTAAAAAAT
*
4240954 AATTATTAATATTAAAAAAT
1 AATTATAAATATTAAAAAAT
*
4240974 TATT-TAAATATT
1 AATTATAAATATT
4240986 TATAAAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 7 0.26
20 13 0.48
21 7 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTATAAATATTAAAAAAT
Found at i:4240992 original size:20 final size:20
Alignment explanation
Indices: 4240968--4241033 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
4240958 ATTAATATTA
4240968 AAAAATTATTTAAATATTTAT
1 AAAAA-TATTTAAATATTTAT
4240989 -AAAATA-TTAATATATTTAT
1 AAAAATATTTAA-ATATTTAT
** *
4241008 GTAAAT-TTTAAATTTTATAT
1 AAAAATATTTAAATATT-TAT
4241028 AAAAAT
1 AAAAAT
4241034 TATTCAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
18 4 0.11
19 14 0.38
20 19 0.51
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AAAAATATTTAAATATTTAT
Found at i:4240996 original size:19 final size:19
Alignment explanation
Indices: 4240969--4241026 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
4240959 TTAATATTAA
4240969 AAAATTATTTAAATATTTAT
1 AAAA-TATTTAAATATTTAT
4240989 AAAATA-TTAATATATTTAT
1 AAAATATTTAA-ATATTTAT
*
4241008 GTAAAT-TTTAAAT-TTTAT
1 -AAAATATTTAAATATTTAT
4241026 A
1 A
4241027 TAAAAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 9 0.27
19 12 0.36
20 12 0.36
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AAAATATTTAAATATTTAT
Found at i:4241030 original size:18 final size:19
Alignment explanation
Indices: 4240976--4241030 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
4240966 TAAAAAATTA
4240976 TTTAAATATTTATA-AAAT
1 TTTAAATATTTATATAAAT
* *
4240994 ATTAATATATTTATGTAAAT
1 TTTAA-ATATTTATATAAAT
4241014 TTTAAAT-TTTATATAAA
1 TTTAAATATTTATATAAA
4241031 AATTATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 13 0.42
19 10 0.32
20 8 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTAAATATTTATATAAAT
Found at i:4241216 original size:29 final size:29
Alignment explanation
Indices: 4241153--4241216 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
4241143 ATAATTTTTA
*
4241153 AAATAT-AAAATTAAAATATTAATCTTAAT
1 AAATATAAAAATTAAAATATT-ATCTTATT
*
4241182 -AATATAAAAATTAAAATATT-TTTTATT
1 AAATATAAAAATTAAAATATTATCTTATT
4241209 AAAGTATA
1 AAA-TATA
4241217 GGACTTCTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
27 5 0.17
28 7 0.23
29 18 0.60
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (29 bp):
AAATATAAAAATTAAAATATTATCTTATT
Found at i:4242497 original size:7 final size:7
Alignment explanation
Indices: 4242481--4242511 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4242471 CATTGATACA
4242481 AAAATA-
1 AAAATAT
4242487 AAAATAT
1 AAAATAT
4242494 AAAATAT
1 AAAATAT
4242501 AAAATAT
1 AAAATAT
4242508 AAAA
1 AAAA
4242512 AAAAAATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATAT
Found at i:4242504 original size:14 final size:13
Alignment explanation
Indices: 4242481--4242518 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
4242471 CATTGATACA
4242481 AAAATAAAAATAT
1 AAAATAAAAATAT
4242494 AAAATATAAAATAT
1 AAAATA-AAAATAT
*
4242508 AAAAAAAAAAT
1 AAAATAAAAAT
4242519 CTCACTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAAAATAT
Found at i:4243328 original size:24 final size:24
Alignment explanation
Indices: 4243307--4243359 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
4243297 CTTATAATTT
*
4243307 TAATAAAATTAAAAATAATAATAA
1 TAATAAAACTAAAAATAATAATAA
* *
4243331 TAATAAAACTAAATATTATAATAA
1 TAATAAAACTAAAAATAATAATAA
4243355 TAATA
1 TAATA
4243360 GACATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
TAATAAAACTAAAAATAATAATAA
Found at i:4248828 original size:24 final size:23
Alignment explanation
Indices: 4248794--4248839 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
4248784 AGAAGCGTTA
4248794 GATTTGATTGTTGAATGACAAAG
1 GATTTGATTGTTGAATGACAAAG
* *
4248817 GATTTGGATTGTTGGATGTCAAA
1 GATTT-GATTGTTGAATGACAAA
4248840 TACACAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.37
Consensus pattern (23 bp):
GATTTGATTGTTGAATGACAAAG
Found at i:4256173 original size:2 final size:2
Alignment explanation
Indices: 4256166--4256202 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4256156 CAACAAGGAC
4256166 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 A
4256203 CACACACTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4257876 original size:65 final size:65
Alignment explanation
Indices: 4257796--4257926 Score: 183
Period size: 65 Copynumber: 2.0 Consensus size: 65
4257786 TTCAAACCGG
* * * *
4257796 TTTGGTAAGTATTATAAGAA-ACGAAGTTCGTGTGTTTTGGCTCATTATTGTCTTCGGCGGGGGA
1 TTTGGTAAGTATTATAA-AACACGAAATTCATGTGTTCTGGCTCATTACTGTCTTCGGCGGGGGA
4257860 A
65 A
* * *
4257861 TTTGGTAAGTATTATAAAACCCGAAATTCATGTGTTCTGGCTCATTACTGTCTTTGGTGGGGGAA
1 TTTGGTAAGTATTATAAAACACGAAATTCATGTGTTCTGGCTCATTACTGTCTTCGGCGGGGGAA
4257926 T
1 T
4257927 CAAAACAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 2 0.03
65 56 0.97
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (65 bp):
TTTGGTAAGTATTATAAAACACGAAATTCATGTGTTCTGGCTCATTACTGTCTTCGGCGGGGGAA
Found at i:4261640 original size:65 final size:64
Alignment explanation
Indices: 4261523--4261653 Score: 149
Period size: 65 Copynumber: 2.0 Consensus size: 64
4261513 AATTCATTTG
* * * * *
4261523 ATTTTTATTAGATTAAATTTTAATACGAGATTTTAAAATTCAAAACAGTTAAAAGTTAAATTTTT
1 ATTTATATTAAATTAAATTTTAATAAGAGATTTAAAAATTCAAAACAGTT-AAACTTAAATTTTT
* * *
4261588 ATTTATATTAAATTAAATTTTAATAAGA-AGTTTAAAAATTCAGAA-GGATTAAACTTAGATTTT
1 ATTTATATTAAATTAAATTTTAATAAGAGA-TTTAAAAATTCAAAACAG-TTAAACTTAAATTTT
4261651 T
64 T
4261652 AT
1 AT
4261654 ATAAATAATA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
64 16 0.29
65 40 0.71
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (64 bp):
ATTTATATTAAATTAAATTTTAATAAGAGATTTAAAAATTCAAAACAGTTAAACTTAAATTTTT
Found at i:4261723 original size:15 final size:15
Alignment explanation
Indices: 4261703--4261745 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
4261693 AATATTAATA
*
4261703 TAAAAATAATTTTTT
1 TAAAAATAATTATTT
*
4261718 TAAAAAAAAATTATTT
1 T-AAAAATAATTATTT
*
4261734 TAATAATAATTA
1 TAAAAATAATTA
4261746 AATTAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAAATAATTATTT
Found at i:4261756 original size:21 final size:21
Alignment explanation
Indices: 4261725--4261771 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
4261715 TTTTAAAAAA
4261725 AAATTATTTTAATAA-TAA-TT
1 AAATTATTTTAA-AATTAATTT
4261745 AAATTAATTTTAAAATTAATTT
1 AAATT-ATTTTAAAATTAATTT
4261767 AAATT
1 AAATT
4261772 TAAATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.29
21 10 0.42
22 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATTATTTTAAAATTAATTT
Found at i:4261763 original size:17 final size:17
Alignment explanation
Indices: 4261741--4261775 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4261731 TTTTAATAAT
*
4261741 AATTAAATTAATTTTAA
1 AATTAAATTAAATTTAA
*
4261758 AATTAATTTAAATTTAA
1 AATTAAATTAAATTTAA
4261775 A
1 A
4261776 TAAAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATTAAATTTAA
Found at i:4262730 original size:13 final size:13
Alignment explanation
Indices: 4262685--4262730 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
4262675 ATTAAAAAGT
4262685 ATTAATTTA-AAA
1 ATTAATTTATAAA
**
4262697 AAAAATTTATAAA
1 ATTAATTTATAAA
4262710 A-TATATTTATAAA
1 ATTA-ATTTATAAA
4262723 ATTAATTT
1 ATTAATTT
4262731 TAACTAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 8 0.29
13 18 0.64
14 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTAATTTATAAA
Found at i:4269097 original size:5 final size:5
Alignment explanation
Indices: 4269084--4269117 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
4269074 ATAAATGTGA
* *
4269084 TTATA TTATT TTATA TTATT TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTAT
4269118 ATAAATCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:4269099 original size:10 final size:10
Alignment explanation
Indices: 4269084--4269119 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
4269074 ATAAATGTGA
4269084 TTATATTATT
1 TTATATTATT
4269094 TTATATTATT
1 TTATATTATT
*
4269104 TTATTTTATT
1 TTATATTATT
4269114 TTATAT
1 TTATAT
4269120 AAATCATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATATTATT
Found at i:4269595 original size:28 final size:27
Alignment explanation
Indices: 4269542--4269596 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
4269532 TATAATATTG
**
4269542 AAAAAATAATTAAAATATGACGTGATA
1 AAAAAATAATTAAAATAACACGTGATA
4269569 AAAAAATAATATAAACATAACAC-TGATA
1 AAAAAATAAT-TAAA-ATAACACGTGATA
4269597 TATAAATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.42
28 9 0.38
29 5 0.21
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (27 bp):
AAAAAATAATTAAAATAACACGTGATA
Found at i:4270051 original size:17 final size:18
Alignment explanation
Indices: 4270016--4270063 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
4270006 ATATATACAA
*
4270016 ATTTTCTATTTTTTCCCAT
1 ATTTTCT-TTTCTTCCCAT
4270035 ATTTTCTTTTCTT-CCAT
1 ATTTTCTTTTCTTCCCAT
*
4270052 -CTTTCTTTTCTT
1 ATTTTCTTTTCTT
4270064 TCTTTCCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 11 0.41
17 4 0.15
18 5 0.19
19 7 0.26
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTCTTTTCTTCCCAT
Found at i:4271783 original size:15 final size:14
Alignment explanation
Indices: 4271763--4271797 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
4271753 ACTTTTTTAA
4271763 AATTTAATATTTATT
1 AATTTAATATTT-TT
*
4271778 AATTTATTATTTTT
1 AATTTAATATTTTT
4271792 AATTTA
1 AATTTA
4271798 TTAAGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTAATATTTTT
Found at i:4271793 original size:14 final size:15
Alignment explanation
Indices: 4271763--4271800 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
4271753 ACTTTTTTAA
*
4271763 AATTTAATATTTATT
1 AATTTATTATTTATT
4271778 AATTTATTATTT-TT
1 AATTTATTATTTATT
4271792 AATTTATTA
1 AATTTATTA
4271801 AGTTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
AATTTATTATTTATT
Found at i:4272317 original size:21 final size:21
Alignment explanation
Indices: 4272292--4272331 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4272282 AATTTTTATT
*
4272292 TAAATTTTATTATAAAATATA
1 TAAATTTTAATATAAAATATA
4272313 TAAATTTTAATATAAAATA
1 TAAATTTTAATATAAAATA
4272332 AATTTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATTTTAATATAAAATATA
Found at i:4272375 original size:19 final size:19
Alignment explanation
Indices: 4272353--4272389 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4272343 TTTAAATAAT
4272353 ATAAAAAAAATTAAATTTG
1 ATAAAAAAAATTAAATTTG
**
4272372 ATAAATTAAATTAAATTT
1 ATAAAAAAAATTAAATTT
4272390 AAATAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
ATAAAAAAAATTAAATTTG
Found at i:4273449 original size:3 final size:3
Alignment explanation
Indices: 4273435--4273491 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
4273425 CTTCTATCGA
*
4273435 AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4273483 AAT AAT AAT
1 AAT AAT AAT
4273492 GGCACCATAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4273725 original size:2 final size:2
Alignment explanation
Indices: 4273718--4273743 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4273708 AAACAAAAAT
4273718 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
4273744 ATAAGTTCAG
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):
TA
Found at i:4278215 original size:21 final size:21
Alignment explanation
Indices: 4278166--4278225 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 21
4278156 TTAAATTTAA
* *
4278166 TTATTAAATTTATAAAAAAAAT
1 TTATT-AATTTTTAAAAAAAAC
4278188 TTATTAATTTTTAAAAAATAAC
1 TTATTAATTTTTAAAAAA-AAC
4278210 TT-TTAATATATTTAAA
1 TTATTAAT-T-TTTAAA
4278226 TTTTTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 17 0.52
22 10 0.30
23 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTATTAATTTTTAAAAAAAAC
Found at i:4278700 original size:3 final size:3
Alignment explanation
Indices: 4278692--4278726 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
4278682 AGAATAAACA
4278692 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
4278727 TAGAATTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4279573 original size:20 final size:20
Alignment explanation
Indices: 4279548--4279586 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4279538 TATTAAAAAA
4279548 AATTTTAT-ATTAATATTTAT
1 AATTTTATAATTAA-ATTTAT
4279568 AATTTTATAATTAAATTTA
1 AATTTTATAATTAAATTTA
4279587 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTTATAATTAAATTTAT
Found at i:4279611 original size:19 final size:21
Alignment explanation
Indices: 4279583--4279623 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
4279573 TATAATTAAA
4279583 TTTAAATAAAA-ATAT-ATTT
1 TTTAAATAAAATATATCATTT
*
4279602 TTTAATTAAAATATATCATTT
1 TTTAAATAAAATATATCATTT
4279623 T
1 T
4279624 GAATTGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 4 0.21
21 5 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAAATAAAATATATCATTT
Found at i:4280777 original size:15 final size:15
Alignment explanation
Indices: 4280757--4280798 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
4280747 GACTGTTGGG
4280757 ATTAATTTTAAGTCA
1 ATTAATTTTAAGTCA
* * *
4280772 ATTAATTTAAATTTA
1 ATTAATTTTAAGTCA
4280787 ATTAA-TTTAAGT
1 ATTAATTTTAAGT
4280799 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (15 bp):
ATTAATTTTAAGTCA
Found at i:4280967 original size:15 final size:15
Alignment explanation
Indices: 4280947--4281052 Score: 121
Period size: 15 Copynumber: 7.0 Consensus size: 15
4280937 TAAGATATTT
4280947 TTAAATTTAAATTAA
1 TTAAATTTAAATTAA
4280962 TTAAATTTAAATT-A
1 TTAAATTTAAATTAA
*
4280976 TTAATTTTTTATAATTAAA
1 TTAA--ATTTA-AATT-AA
4280995 TTAAA-TTAAATTAAA
1 TTAAATTTAAATT-AA
4281010 TTAAATTTAAATTAA
1 TTAAATTTAAATTAA
4281025 TTAAATTTAAATT--
1 TTAAATTTAAATTAA
*
4281038 TTGAATTTAAATTAA
1 TTAAATTTAAATTAA
4281053 GATGGACAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 16
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.15
14 5 0.06
15 40 0.50
16 14 0.17
17 4 0.05
19 5 0.06
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
TTAAATTTAAATTAA
Found at i:4280968 original size:5 final size:5
Alignment explanation
Indices: 4280947--4281037 Score: 80
Period size: 5 Copynumber: 17.4 Consensus size: 5
4280937 TAAGATATTT
**
4280947 TTAAA TTTAAA TT-AA TTAAA TTTAAA TTATTAA TT-TT TTATAA TTAAA
1 TTAAA -TTAAA TTAAA TTAAA -TTAAA TTA--AA TTAAA TTA-AA TTAAA
4280995 TTAAA TTAAA TTAAA TTAAA TTTAAA TT-AA TTAAA TTTAAA TT
1 TTAAA TTAAA TTAAA TTAAA -TTAAA TTAAA TTAAA -TTAAA TT
4281038 TTGAATTTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
4 10 0.14
5 35 0.49
6 23 0.32
7 4 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (5 bp):
TTAAA
Found at i:4281547 original size:34 final size:34
Alignment explanation
Indices: 4281509--4281627 Score: 148
Period size: 34 Copynumber: 3.5 Consensus size: 34
4281499 TATCTTTTAG
* * *
4281509 CCATTTAGTTAACAATAGCAAACTACCAAATCAC
1 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
* * *
4281543 CCATTTAATCAATAATGGCAAACCACTAAATCAC
1 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
*
4281577 CCATTTAGTCAACCATGGCAAACCACCAAAATCAC
1 CCATTTAGTCAACAATGGCAAACCACC-AAATCAC
* *
4281612 CCATTTATTTAACAAT
1 CCATTTAGTCAACAAT
4281628 TCTCCTACTT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
34 51 0.72
35 20 0.28
ACGTcount: A:0.42, C:0.28, G:0.06, T:0.24
Consensus pattern (34 bp):
CCATTTAGTCAACAATGGCAAACCACCAAATCAC
Found at i:4286100 original size:34 final size:32
Alignment explanation
Indices: 4286061--4286177 Score: 110
Period size: 34 Copynumber: 3.5 Consensus size: 32
4286051 TATCTTTTAG
* *
4286061 CCATTTAGTCAACAATGACAAATTAACAAATCA
1 CCATTTAGTCAATAATGATAAA-TAACAAATCA
* * *
4286094 TCCATTTAATTAATAATTG-TAAACTATCAAATCA
1 -CCATTTAGTCAATAA-TGATAAA-TAACAAATCA
*
4286128 CCTATTTAGTCAATAATAATAAATAACTAAATCA
1 CC-ATTTAGTCAATAATGATAAATAAC-AAATCA
4286162 CCCATTTAGTCAATAA
1 -CCATTTAGTCAATAA
4286178 AAATTGATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
33 6 0.09
34 58 0.85
35 4 0.06
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (32 bp):
CCATTTAGTCAATAATGATAAATAACAAATCA
Found at i:4286597 original size:19 final size:20
Alignment explanation
Indices: 4286573--4286616 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
4286563 TGAATCGAGT
* *
4286573 TTAAAAGTA-TATATTATTA
1 TTAAAAATATTATATTAGTA
4286592 TTAAAAATATTTATATTAGTA
1 TTAAAAATA-TTATATTAGTA
4286613 TTAA
1 TTAA
4286617 TATATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
TTAAAAATATTATATTAGTA
Found at i:4286867 original size:32 final size:32
Alignment explanation
Indices: 4286831--4286900 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
4286821 TATGATTTAT
* **
4286831 TTATATAAAATTTAATATGTTAATAATTCATA
1 TTATATAAAATTTAAAAAATTAATAATTCATA
* * *
4286863 TTATATAAATTTTAAAAAATTATTTATTCATA
1 TTATATAAAATTTAAAAAATTAATAATTCATA
4286895 TTATAT
1 TTATAT
4286901 TTTTATTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (32 bp):
TTATATAAAATTTAAAAAATTAATAATTCATA
Found at i:4286924 original size:22 final size:22
Alignment explanation
Indices: 4286880--4286939 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
4286870 AATTTTAAAA
*
4286880 AATTATTTATTCATATTATATTTT
1 AATTATTT-TT-ATACTATATTTT
*
4286904 TATTATTTTTATACTATATTTT
1 AATTATTTTTATACTATATTTT
4286926 AATTATTTTATATA
1 AATTATTTT-TATA
4286940 TACCATCCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.59
23 6 0.19
24 7 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (22 bp):
AATTATTTTTATACTATATTTT
Found at i:4288141 original size:5 final size:6
Alignment explanation
Indices: 4288125--4288151 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4288115 GATGGTAGGG
4288125 ATTTTT ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT
4288152 GATTTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:4288585 original size:3 final size:3
Alignment explanation
Indices: 4288577--4288619 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
4288567 CACAAAAAAC
4288577 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4288620 GGTTAATATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4288965 original size:2 final size:2
Alignment explanation
Indices: 4288958--4289008 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
4288948 CATTATCAAA
* *
4288958 AT AT AT AT AG AT AT AG 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
4289000 AT AT AT AT A
1 AT AT AT AT A
4289009 ACGAACTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4289492 original size:5 final size:5
Alignment explanation
Indices: 4289468--4289638 Score: 66
Period size: 5 Copynumber: 36.2 Consensus size: 5
4289458 TTAAGTGTTA
*
4289468 AATAT AAT-T -ATAT AAATAT AATAT AAGTAA AATA- AATAT AATAT AATAT
1 AATAT AATAT AATAT -AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT
* * ** * * * *
4289517 GATAT AA-AT ATTAT TTTAA AAT-T TATAT AATAT AA-AT TAT-T TATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
* * * * *
4289563 ATTA- AAT-T TATAT AA-AT -ATAA AATAT ATTA- AATAT AATTAT GATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AA-TAT AATAT
4289609 AATA- AA-AT -ATAT AATTAT AATAT AAATAT A
1 AATAT AATAT AATAT AA-TAT AATAT -AATAT A
4289639 TGAATCGATA
Statistics
Matches: 123, Mismatches: 23, Indels: 40
0.66 0.12 0.22
Matches are distributed among these distances:
3 5 0.04
4 32 0.26
5 64 0.52
6 22 0.18
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (5 bp):
AATAT
Found at i:4289493 original size:11 final size:11
Alignment explanation
Indices: 4289477--4289638 Score: 74
Period size: 11 Copynumber: 15.0 Consensus size: 11
4289467 AAATATAATT
4289477 ATATAAATATA
1 ATATAAATATA
*
4289488 ATATAAGTA-A
1 ATATAAATATA
4289498 A-ATAAATATA
1 ATATAAATATA
*
4289508 ATAT-AATATG
1 ATATAAATATA
4289518 ATATAAATATTA
1 ATATAAATA-TA
* *
4289530 TTTTAAA-AT-
1 ATATAAATATA
*
4289539 TTATATAATATA
1 ATATA-AATATA
* *
4289551 A-AT-TATTTA
1 ATATAAATATA
*
4289560 TATATTAAAT-TT
1 -ATA-TAAATATA
4289572 ATATAAATATA
1 ATATAAATATA
* *
4289583 AAATATAT-TAA
1 ATATAAATAT-A
* *
4289594 ATATAATTATG
1 ATATAAATATA
*
4289605 ATAT-AATAAA
1 ATATAAATATA
4289615 ATATATAATTATA
1 ATATA-AA-TATA
4289628 ATATAAATATA
1 ATATAAATATA
4289639 TGAATCGATA
Statistics
Matches: 111, Mismatches: 23, Indels: 34
0.66 0.14 0.20
Matches are distributed among these distances:
9 14 0.13
10 30 0.27
11 44 0.40
12 13 0.12
13 10 0.09
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
ATATAAATATA
Found at i:4289521 original size:10 final size:10
Alignment explanation
Indices: 4289468--4289638 Score: 66
Period size: 9 Copynumber: 18.1 Consensus size: 10
4289458 TTAAGTGTTA
4289468 AATATAAT-T
1 AATATAATAT
4289477 -ATATAAATAT
1 AATAT-AATAT
*
4289487 AATATAAGTAA
1 AATATAA-TAT
4289498 AATA-AATAT
1 AATATAATAT
4289507 AATATAATAT
1 AATATAATAT
*
4289517 GATATAA-AT
1 AATATAATAT
* ** *
4289526 ATTATTTTAA
1 AATATAATAT
*
4289536 AAT-TTATAT
1 AATATAATAT
4289545 AATATAA-AT
1 AATATAATAT
* *
4289554 TAT-TTATAT
1 AATATAATAT
*
4289563 ATTA-AAT-T
1 AATATAATAT
*
4289571 TATATAA-AT
1 AATATAATAT
*
4289580 -ATAAAATAT
1 AATATAATAT
*
4289589 ATTA-AATAT
1 AATATAATAT
*
4289598 AATTATGATAT
1 AA-TATAATAT
4289609 AATA-AA-AT
1 AATATAATAT
4289617 -ATATAATTAT
1 AATATAA-TAT
4289627 AATATAAATAT
1 AATAT-AATAT
4289638 A
1 A
4289639 TGAATCGATA
Statistics
Matches: 118, Mismatches: 24, Indels: 38
0.66 0.13 0.21
Matches are distributed among these distances:
7 3 0.03
8 18 0.15
9 42 0.36
10 29 0.25
11 24 0.20
12 2 0.02
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
AATATAATAT
Found at i:4289649 original size:21 final size:18
Alignment explanation
Indices: 4289607--4289653 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
4289597 TAATTATGAT
*
4289607 ATAATAAAATATATAATT
1 ATAATAAAATATATAATG
4289625 ATAATATAAATATATGAATCG
1 ATAATA-AAATATAT-AAT-G
4289646 ATAATAAA
1 ATAATAAA
4289654 TTTAGCAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 6 0.24
19 8 0.32
20 5 0.20
21 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (18 bp):
ATAATAAAATATATAATG
Found at i:4289914 original size:2 final size:2
Alignment explanation
Indices: 4289907--4289936 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4289897 CTTCAAAAAT
4289907 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
4289937 ACATTATAAC
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:4290284 original size:20 final size:20
Alignment explanation
Indices: 4290259--4290299 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4290249 TGGGTTTTCC
4290259 TTAACTTTTCACTATTATGG
1 TTAACTTTTCACTATTATGG
*
4290279 TTAACTTTTCACTATTTTGG
1 TTAACTTTTCACTATTATGG
4290299 T
1 T
4290300 AAATTCCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.15, G:0.10, T:0.54
Consensus pattern (20 bp):
TTAACTTTTCACTATTATGG
Found at i:4290519 original size:17 final size:17
Alignment explanation
Indices: 4290497--4290530 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4290487 ATAGGTTTAA
*
4290497 TTAATTTTATATAAATT
1 TTAATTATATATAAATT
*
4290514 TTAATTATATTTAAATT
1 TTAATTATATATAAATT
4290531 ATGATCAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAATTATATATAAATT
Found at i:4290641 original size:17 final size:16
Alignment explanation
Indices: 4290594--4290641 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
4290584 AATTTGATTT
*
4290594 AATTTAATTTATAAATA
1 AATTTAATTTA-AAAGA
*
4290611 AATATAATTATAAAAGA
1 AATTTAATT-TAAAAGA
4290628 AATTTAAGTTTAAA
1 AATTTAA-TTTAAA
4290642 TATTGGTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
AATTTAATTTAAAAGA
Found at i:4291186 original size:18 final size:19
Alignment explanation
Indices: 4291157--4291193 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
4291147 TTGATGAGGT
4291157 ATAAATTTATATAATATTA
1 ATAAATTTATATAATATTA
4291176 ATAAA-TTATATAATATTA
1 ATAAATTTATATAATATTA
4291194 TTTTATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAAATTTATATAATATTA
Found at i:4292661 original size:16 final size:16
Alignment explanation
Indices: 4292642--4292680 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
4292632 ATATATAATT
*
4292642 TTTATAATAATTTAAA
1 TTTAAAATAATTTAAA
4292658 TTTAAAATAATTTAAA
1 TTTAAAATAATTTAAA
4292674 TTTAAAA
1 TTTAAAA
4292681 ATGTCCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTAAAATAATTTAAA
Found at i:4292930 original size:22 final size:20
Alignment explanation
Indices: 4292896--4292939 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
4292886 TTTCATCAAA
4292896 AATTTTAAAAATAAATATAAAT
1 AATTTTAAAAAT-AATA-AAAT
**
4292918 AATTTTATTAATAATAAAAT
1 AATTTTAAAAATAATAAAAT
4292938 AA
1 AA
4292940 CAACATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 4 0.20
22 10 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTTTAAAAATAATAAAAT
Found at i:4294485 original size:12 final size:12
Alignment explanation
Indices: 4294452--4294485 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4294442 CCGGTACCTA
*
4294452 TGCCTATGCATG
1 TGCCTATGCCTG
*
4294464 TGCCTGTGCCTG
1 TGCCTATGCCTG
4294476 TGCCTATGCC
1 TGCCTATGCC
4294486 GATGGGGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.32, G:0.26, T:0.32
Consensus pattern (12 bp):
TGCCTATGCCTG
Found at i:4304991 original size:15 final size:15
Alignment explanation
Indices: 4304971--4305023 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
4304961 ATATATTTTA
*
4304971 ATATATTTATTAAAT
1 ATATATTTATTATAT
*
4304986 ATATATTAATATTATTT
1 ATATATT--TATTATAT
4305003 ATATACTTTA-TATAT
1 ATATA-TTTATTATAT
4305018 ATATAT
1 ATATAT
4305024 GTATATTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 1 0.03
15 16 0.50
16 2 0.06
17 11 0.34
18 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATTTATTATAT
Found at i:4305007 original size:32 final size:32
Alignment explanation
Indices: 4304962--4305031 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
4304952 ATATTTTTGA
4304962 TATATT-TTAATATA-TTTATTAAATATATAT-
1 TATATTATTAATATACTTTA-TAAATATATATG
* *
4304992 TAATATTATTTATATACTTTATATATATATATG
1 T-ATATTATTAATATACTTTATAAATATATATG
4305025 TATATTA
1 TATATTA
4305032 CATATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 1 0.03
31 5 0.15
32 23 0.68
33 5 0.15
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (32 bp):
TATATTATTAATATACTTTATAAATATATATG
Found at i:4306072 original size:15 final size:16
Alignment explanation
Indices: 4306040--4306073 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4306030 TAATTTTTAA
4306040 TATAAAATTAAAAGTT
1 TATAAAATTAAAAGTT
*
4306056 TATAAATTTAAAA-TT
1 TATAAAATTAAAAGTT
4306071 TAT
1 TAT
4306074 CACTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TATAAAATTAAAAGTT
Found at i:4307059 original size:32 final size:35
Alignment explanation
Indices: 4306995--4307066 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 35
4306985 AATATAAATA
*
4306995 AAATTATATTTATGTTGAACAATAATTAAAAATTATT
1 AAATTATATTTATATT-AACAATAA-TAAAAATTATT
4307032 AAATTATATTTATATT-A-AATAA-AAAAATTATT
1 AAATTATATTTATATTAACAATAATAAAAATTATT
4307064 AAA
1 AAA
4307067 ATTTATACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
32 13 0.38
34 5 0.15
35 1 0.03
37 15 0.44
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (35 bp):
AAATTATATTTATATTAACAATAATAAAAATTATT
Found at i:4318233 original size:25 final size:23
Alignment explanation
Indices: 4318188--4318243 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
4318178 TGTAATGTTA
4318188 TAAATATACCTAAAATATAAATTAT
1 TAAATATACCTAAAATATAAA--AT
* *
4318213 TAAATATATC-AAAATTTTAAAAT
1 TAAATATACCTAAAA-TATAAAAT
4318236 TAAATATA
1 TAAATATA
4318244 ATATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 10 0.36
24 4 0.14
25 14 0.50
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATATACCTAAAATATAAAAT
Found at i:4318757 original size:25 final size:25
Alignment explanation
Indices: 4318724--4318771 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
4318714 TATTTTTAAT
4318724 AAATATAAATAATAATTAAAATTTAC
1 AAATATAAAT-ATAATTAAAATTTAC
* *
4318750 AAAT-TAAATTTAATTTAAATTT
1 AAATATAAATATAATTAAAATTT
4318772 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 5 0.25
26 4 0.20
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATATAAATATAATTAAAATTTAC
Found at i:4319327 original size:16 final size:16
Alignment explanation
Indices: 4319292--4319356 Score: 78
Period size: 16 Copynumber: 4.1 Consensus size: 16
4319282 AAACAGATTG
*
4319292 AATTATTTTTAAATTAA
1 AATTA-TTTTAAATTTA
**
4319309 AATTATTTTATTTTTA
1 AATTATTTTAAATTTA
*
4319325 AATAATTTTAAATTTA
1 AATTATTTTAAATTTA
4319341 AATT-TTTTAAATTTA
1 AATTATTTTAAATTTA
4319356 A
1 A
4319357 TTTTTTTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
15 12 0.29
16 24 0.59
17 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTATTTTAAATTTA
Found at i:4319358 original size:14 final size:15
Alignment explanation
Indices: 4319297--4319364 Score: 73
Period size: 16 Copynumber: 4.4 Consensus size: 15
4319287 GATTGAATTA
*
4319297 TTTTTAAATTAAAAT
1 TTTTTAAATTTAAAT
**
4319312 TATTTTATTTTTAAAT
1 T-TTTTAAATTTAAAT
*
4319328 AATTTTAAATTTAAAT
1 -TTTTTAAATTTAAAT
*
4319344 TTTTTAAATTTAATT
1 TTTTTAAATTTAAAT
4319359 TTTTTA
1 TTTTTA
4319365 TTTCGAATTA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 20 0.47
16 23 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTAAATTTAAAT
Found at i:4319425 original size:16 final size:17
Alignment explanation
Indices: 4319404--4319441 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
4319394 AGATATAATC
*
4319404 TTATTTTAAATT-GAAA
1 TTATTTTAAATTAAAAA
*
4319420 TTATTTTCAATTAAAAA
1 TTATTTTAAATTAAAAA
4319437 TTATT
1 TTATT
4319442 CAAGTTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TTATTTTAAATTAAAAA
Found at i:4320046 original size:22 final size:22
Alignment explanation
Indices: 4320018--4320059 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4320008 AATTTCATTT
*
4320018 TATTTATTAGATGTTTTTAATC
1 TATTTATTAGAAGTTTTTAATC
*
4320040 TATTTATTATAAGTTTTTAA
1 TATTTATTAGAAGTTTTTAA
4320060 GATTGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTTATTAGAAGTTTTTAATC
Found at i:4320237 original size:23 final size:23
Alignment explanation
Indices: 4320196--4320242 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4320186 ATTATTCATA
*
4320196 ATTTTTATAAATTTAAAATTTAT
1 ATTTTTATAAATTTAAAATATAT
** *
4320219 ATTTTTATATCTTTCAAATATAT
1 ATTTTTATAAATTTAAAATATAT
4320242 A
1 A
4320243 ATTATACTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTTATAAATTTAAAATATAT
Found at i:4322108 original size:17 final size:18
Alignment explanation
Indices: 4322073--4322134 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
4322063 ATATTTTTTA
4322073 TATATTAATAATTTAAAT
1 TATATTAATAATTTAAAT
*
4322091 TATA-TAATAATATTAATT
1 TATATTAATAAT-TTAAAT
* * *
4322109 TTTATATATTATATTTTAAT
1 TATAT-TAATA-ATTTAAAT
4322129 TATATT
1 TATATT
4322135 TATATTAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 7 0.21
18 12 0.35
19 1 0.03
20 12 0.35
21 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATTAATAATTTAAAT
Found at i:4322116 original size:40 final size:36
Alignment explanation
Indices: 4322054--4322145 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 36
4322044 TTTTAATTCA
* *
4322054 TATATTTATA-TATTTTTTATATATTAATAATTTAAAT
1 TATATTAATATTAATTTTTATATATT-AT-ATTTAAAT
*
4322091 TATATAATAATATTAATTTTTATATATTATATTTTAAT
1 TATAT--TAATATTAATTTTTATATATTATATTTAAAT
*
4322129 TATATTTATATTAATTT
1 TATATTAATATTAATTT
4322146 AATTAAATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 11 0.23
37 5 0.10
38 12 0.25
39 6 0.12
40 14 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (36 bp):
TATATTAATATTAATTTTTATATATTATATTTAAAT
Found at i:4322148 original size:20 final size:20
Alignment explanation
Indices: 4322045--4322150 Score: 84
Period size: 20 Copynumber: 5.4 Consensus size: 20
4322035 TACCTTTACT
4322045 TTTAATTCATATATT-TATATA
1 TTTAATT-ATATATTATATA-A
*
4322066 TTT-TTTATATATTA-ATAA
1 TTTAATTATATATTATATAA
*
4322084 TTTAAATTATATAATAATATTAA
1 TTT-AATTATAT-ATTATA-TAA
4322107 TTT--TTATATATTATAT--
1 TTTAATTATATATTATATAA
4322123 TTTAATTATAT-TTATATTAA
1 TTTAATTATATATTATA-TAA
4322143 TTTAATTA
1 TTTAATTA
4322151 AATTATGTTC
Statistics
Matches: 70, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
16 3 0.04
17 5 0.07
18 12 0.17
19 15 0.21
20 22 0.31
21 6 0.09
22 1 0.01
23 6 0.09
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTAATTATATATTATATAA
Found at i:4322948 original size:18 final size:20
Alignment explanation
Indices: 4322920--4322957 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4322910 TATGATAATA
4322920 TTTATATTA-TTTTTATATT
1 TTTATATTATTTTTTATATT
4322939 TTTA-ATTATTTTTTATATT
1 TTTATATTATTTTTTATATT
4322958 ACATAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATATTATTTTTTATATT
Found at i:4324522 original size:36 final size:36
Alignment explanation
Indices: 4324482--4324672 Score: 328
Period size: 36 Copynumber: 5.3 Consensus size: 36
4324472 ACCACCTTCA
*
4324482 CCACCTCCTCCTCCAATACCCTGCATTCCCTCTGCT
1 CCACCACCTCCTCCAATACCCTGCATTCCCTCTGCT
4324518 CCACCACCTCCTCCAATACCCTGCATTCCCTCTGCT
1 CCACCACCTCCTCCAATACCCTGCATTCCCTCTGCT
* *
4324554 CCACCGCCTCCTCCAATACCCTGCGTTCCCTCTGCT
1 CCACCACCTCCTCCAATACCCTGCATTCCCTCTGCT
* *
4324590 CCACCACCTCCTCCAATACCCTGCGTTCCCTCTGTT
1 CCACCACCTCCTCCAATACCCTGCATTCCCTCTGCT
4324626 CCACCACCTCCTCCAATACCCTGCATTCCCTCTGCT
1 CCACCACCTCCTCCAATACCCTGCATTCCCTCTGCT
*
4324662 CCACCGCCTCC
1 CCACCACCTCC
4324673 ATTGAATTCT
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 147 1.00
ACGTcount: A:0.14, C:0.53, G:0.07, T:0.25
Consensus pattern (36 bp):
CCACCACCTCCTCCAATACCCTGCATTCCCTCTGCT
Found at i:4333537 original size:12 final size:11
Alignment explanation
Indices: 4333520--4333549 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
4333510 ACACACGCAC
4333520 ACAAAAAAAAA
1 ACAAAAAAAAA
4333531 ACAAAAAAAAA
1 ACAAAAAAAAA
4333542 ACAAAAAA
1 ACAAAAAA
4333550 CCACCTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:4337296 original size:22 final size:21
Alignment explanation
Indices: 4337254--4337300 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
4337244 GTTTTTTTTT
4337254 TAAATTATTTATTATTATTAA
1 TAAATTATTTATTATTATTAA
* *
4337275 TAAATTTTTTATATTTTATTAA
1 TAAATTATTTAT-TATTATTAA
4337297 TAAA
1 TAAA
4337301 ATCAGATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAATTATTTATTATTATTAA
Found at i:4339880 original size:3 final size:3
Alignment explanation
Indices: 4339872--4339896 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4339862 ATCATGTCCA
4339872 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
4339897 CATATCGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:4340122 original size:24 final size:24
Alignment explanation
Indices: 4340090--4340146 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
4340080 GTTATATATA
4340090 TATATATATATATATATAAGTATG
1 TATATATATATATATATAAGTATG
4340114 TATATATATATATATATAAGTATG
1 TATATATATATATATATAAGTATG
4340138 TAT-TATATA
1 TATATATATA
4340147 GATTAGAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 6 0.18
24 27 0.82
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (24 bp):
TATATATATATATATATAAGTATG
Found at i:4340146 original size:2 final size:2
Alignment explanation
Indices: 4340082--4340131 Score: 75
Period size: 2 Copynumber: 25.0 Consensus size: 2
4340072 AATGAATTGT
*
4340082 TA TA TA TA TA TA TA TA TA TA TA TA TA -A GTA TG 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
4340124 TA TA TA TA
1 TA TA TA TA
4340132 AGTATGTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.95
3 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4342823 original size:21 final size:21
Alignment explanation
Indices: 4342794--4342834 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4342784 AAATTAAAAA
*
4342794 TTATTTTAT-ATTAATATTTAT
1 TTATATTATAATTAA-ATTTAT
4342815 TTATATTATAATTAAATTTA
1 TTATATTATAATTAAATTTA
4342835 AATAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATATTATAATTAAATTTAT
Done.