Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1261
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: 125843
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
File 1 of 2
Found at i:267 original size:24 final size:24
Alignment explanation
Indices: 239--284 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
229 AGAAGTAAAA
*
239 TTTAAATA-TCAAATTGTAAATTTT
1 TTTAAATACT-AAATTATAAATTTT
263 TTTAAATACTAAATTATAAATT
1 TTTAAATACTAAATTATAAATT
285 AAATTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTAAATACTAAATTATAAATTTT
Found at i:3631 original size:120 final size:121
Alignment explanation
Indices: 3417--3650 Score: 371
Period size: 120 Copynumber: 1.9 Consensus size: 121
3407 CCAAAATAAA
* *
3417 TCTAACTAAACCATCTCTGAGTGTCAAAATGTTTAGGGGTGCTGATTTTTAATCAAGTCAATTAC
1 TCTAACTAAACCATCTCAGAGTGTCAAAATGTTTAGGGGTGCTGATTTTTAATCAAATCAATTAC
*
3482 CGGAGAACTTGATCAATTGTGATCAATCATAATATAAGTAAATATTGATGAGTAAG
66 CGGAGAACCTGATCAATTGTGATCAATCATAATATAAGTAAATATTGATGAGTAAG
* * * * *
3538 TCTAACTTAAGCATCTCAGAGTGTGAAAATGTTT-TGGGTGCTGATTTTTAATCAAATTAATTAC
1 TCTAACTAAACCATCTCAGAGTGTCAAAATGTTTAGGGGTGCTGATTTTTAATCAAATCAATTAC
* *
3602 TGGATAACCTGATCAATTGTGATCAATCATAATATAAGTAAATATTGAT
66 CGGAGAACCTGATCAATTGTGATCAATCATAATATAAGTAAATATTGAT
3651 TTTTTAGTAG
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
120 73 0.71
121 30 0.29
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (121 bp):
TCTAACTAAACCATCTCAGAGTGTCAAAATGTTTAGGGGTGCTGATTTTTAATCAAATCAATTAC
CGGAGAACCTGATCAATTGTGATCAATCATAATATAAGTAAATATTGATGAGTAAG
Found at i:4279 original size:25 final size:21
Alignment explanation
Indices: 4251--4299 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 21
4241 ATTTATTCTT
4251 TATAAGATAAAAATTACATAATATA
1 TATAA-ATAAAAA--AC-TAATATA
*
4276 TATAAATATAAAACTAATATA
1 TATAAATAAAAAACTAATATA
4297 TAT
1 TAT
4300 TCTATAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 10 0.43
22 2 0.09
24 6 0.26
25 5 0.22
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
TATAAATAAAAAACTAATATA
Found at i:6503 original size:47 final size:47
Alignment explanation
Indices: 6434--6527 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
6424 ATCTGCAAAG
*
6434 ATCTTCAGTCCAATGATTAAATAAAATATTTGCTCAGACTTAATCGC
1 ATCTTCAGTCCAATGATTAAATAAAACATTTGCTCAGACTTAATCGC
6481 ATCTTCAGTCCAATGATTAAATAAAACATTTGCTCAGACTTAATCGC
1 ATCTTCAGTCCAATGATTAAATAAAACATTTGCTCAGACTTAATCGC
6528 TGCCTCATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (47 bp):
ATCTTCAGTCCAATGATTAAATAAAACATTTGCTCAGACTTAATCGC
Found at i:7741 original size:28 final size:28
Alignment explanation
Indices: 7701--7763 Score: 110
Period size: 28 Copynumber: 2.2 Consensus size: 28
7691 AATGTCACCA
7701 TTTGTATTTGTCAAATATGGTGGTT-TCT
1 TTTGTATTTGTCAAATATGGTGGTTAT-T
7729 TTTGTATTTGTCAAATATGGTGGTTATT
1 TTTGTATTTGTCAAATATGGTGGTTATT
7757 TTTGTAT
1 TTTGTAT
7764 GTAAAAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 33 0.97
29 1 0.03
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.56
Consensus pattern (28 bp):
TTTGTATTTGTCAAATATGGTGGTTATT
Found at i:7772 original size:28 final size:28
Alignment explanation
Indices: 7713--7772 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
7703 TGTATTTGTC
* ***
7713 AAATATGGTGGTTTCTTTTGTATTTGTC
1 AAATATGGTGGTTTCTTTTGTATGTAAA
7741 AAATATGGTGGTTAT-TTTTGTATGTAAA
1 AAATATGGTGGTT-TCTTTTGTATGTAAA
7769 AAAT
1 AAAT
7773 GGTGGCTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.48
Consensus pattern (28 bp):
AAATATGGTGGTTTCTTTTGTATGTAAA
Found at i:7794 original size:24 final size:24
Alignment explanation
Indices: 7735--7803 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
7725 TTCTTTTGTA
* * *
7735 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGGTGG--CTTGTTG
* *
7761 TATGTAAAAAATGGTGGCTTGTTG
1 TTTGTCAAAAATGGTGGCTTGTTG
*
7785 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAAATGGTGGCT
7804 AATTTTTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 21 0.60
26 14 0.40
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (24 bp):
TTTGTCAAAAATGGTGGCTTGTTG
Found at i:12307 original size:28 final size:28
Alignment explanation
Indices: 12275--12329 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
12265 CAAATGCCAC
12275 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
12303 CCTTTGTATTTGTCAAATATGGTGGTT
1 CCTTTGTATTTGTCAAATATGGTGGTT
12330 ATTTTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.11, G:0.22, T:0.49
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAATATGGTGGTTT
Found at i:12336 original size:28 final size:28
Alignment explanation
Indices: 12277--12365 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
12267 AATGCCACCC
*
12277 TTTGTATTTGTCAAATATGGTGGTT-TCC
1 TTTGTATTTGTCAAATATGGTGGTTAT-T
12305 TTTGTATTTGTCAAATATGGTGGTTATT
1 TTTGTATTTGTCAAATATGGTGGTTATT
* *
12333 TTTGTA--TGTAAAAAATGGTGGCTTATT
1 TTTGTATTTGTCAAATATGGTGG-TTATT
12360 GTTTGT
1 -TTTGT
12366 CAAAATTGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
26 13 0.24
27 5 0.09
28 36 0.65
29 1 0.02
ACGTcount: A:0.21, C:0.06, G:0.22, T:0.51
Consensus pattern (28 bp):
TTTGTATTTGTCAAATATGGTGGTTATT
Found at i:12370 original size:24 final size:25
Alignment explanation
Indices: 12283--12384 Score: 73
Period size: 28 Copynumber: 4.0 Consensus size: 25
12273 ACCCTTTGTA
* * *
12283 TTTGTCAAATATGGTGGTTTCCTTTG
1 TTTGTCAAAAATGGTGGCTT-ATTTG
*
12309 TATTTGTCAAATATGGTGG-TTATTTTTG
1 --TTTGTCAAAAATGGTGGCTTA--TTTG
* *
12337 TATGTAAAAAATGGTGGCTTA-TTG
1 TTTGTCAAAAATGGTGGCTTATTTG
* *
12361 TTTGTCAAAATTGGTGGCTAATTT
1 TTTGTCAAAAATGGTGGCTTATTT
12385 TTATTAGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
24 20 0.32
25 2 0.03
26 14 0.23
27 5 0.08
28 21 0.34
ACGTcount: A:0.24, C:0.07, G:0.23, T:0.47
Consensus pattern (25 bp):
TTTGTCAAAAATGGTGGCTTATTTG
Found at i:14928 original size:15 final size:16
Alignment explanation
Indices: 14908--14940 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14898 AATCGAATAA
*
14908 AATAAT-AATTTGCAG
1 AATAATAAAATTGCAG
14923 AATAATAAAATTGCAG
1 AATAATAAAATTGCAG
14939 AA
1 AA
14941 CAAGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (16 bp):
AATAATAAAATTGCAG
Found at i:15070 original size:2 final size:2
Alignment explanation
Indices: 15063--15099 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15053 TCTTGTTGTC
15063 TA 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 TA T
15100 TCTAGCTTTG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15647 original size:16 final size:17
Alignment explanation
Indices: 15628--15662 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15618 AATTCAGATC
15628 ATTTTGAGT-TTAAATT
1 ATTTTGAGTCTTAAATT
*
15644 ATTTTTAGTCTTAAATT
1 ATTTTGAGTCTTAAATT
15661 AT
1 AT
15663 GAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (17 bp):
ATTTTGAGTCTTAAATT
Found at i:19433 original size:12 final size:12
Alignment explanation
Indices: 19399--19437 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
19389 CAATGCCTGC
19399 AAAAAATTAAAT
1 AAAAAATTAAAT
19411 AAAGAAA-TAAAT
1 AAA-AAATTAAAT
19423 AAAAAATTAAA-
1 AAAAAATTAAAT
19434 AAAA
1 AAAA
19438 TTAATGTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 7 0.28
12 15 0.60
13 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (12 bp):
AAAAAATTAAAT
Found at i:20831 original size:16 final size:17
Alignment explanation
Indices: 20812--20878 Score: 59
Period size: 16 Copynumber: 4.0 Consensus size: 17
20802 TTAATTATTA
20812 AATATATAAT-TTTAAT
1 AATATATAATATTTAAT
* *
20828 AATAAATAAATATTAAAT
1 AATATAT-AATATTTAAT
*
20846 AAAATA-AATATTTAAT
1 AATATATAATATTTAAT
*
20862 AA-AAATATATATTTAAT
1 AATATATA-ATATTTAAT
20879 TAAGTGATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
15 2 0.05
16 18 0.44
17 12 0.29
18 9 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATATAATATTTAAT
Found at i:20842 original size:31 final size:33
Alignment explanation
Indices: 20807--20874 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
20797 AGAATTTAAT
*
20807 TATTAAAT-ATAT-AAT-TTTAATAATAAATAAA
1 TATTAAATAAAATAAATATTTAATAA-AAATAAA
*
20838 TATTAAATAAAATAAATATTTAATAAAAATATA
1 TATTAAATAAAATAAATATTTAATAAAAATAAA
20871 TATT
1 TATT
20875 TAATTAAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 8 0.25
32 3 0.09
33 13 0.41
34 8 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TATTAAATAAAATAAATATTTAATAAAAATAAA
Found at i:20878 original size:17 final size:17
Alignment explanation
Indices: 20822--20878 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
20812 AATATATAAT
20822 TTTAATAATAAATAAATA
1 TTTAATAA-AAATAAATA
*
20840 TTAAAT-AAAATAAATA
1 TTTAATAAAAATAAATA
*
20856 TTTAATAAAAATATATA
1 TTTAATAAAAATAAATA
20873 TTTAAT
1 TTTAAT
20879 TAAGTGATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
16 14 0.40
17 16 0.46
18 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAATAAAAATAAATA
Found at i:21711 original size:2 final size:2
Alignment explanation
Indices: 21704--21734 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21694 CATTATTTTC
21704 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 A
21735 ATTGTTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21795 original size:60 final size:60
Alignment explanation
Indices: 21675--21787 Score: 199
Period size: 60 Copynumber: 1.9 Consensus size: 60
21665 TTTTTAAAAG
* *
21675 ATTGTACATGCATGTAACACATTATTTTCATATATATATATATATATATATATATATATA
1 ATTGTACATGCATGTAACACATTACTTTCATATATACATATATATATATATATATATATA
*
21735 ATTGTTCATGCATGTAACACATTACTTTCATATATACATATATATATATATAT
1 ATTGTACATGCATGTAACACATTACTTTCATATATACATATATATATATATAT
21788 GTGTATAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (60 bp):
ATTGTACATGCATGTAACACATTACTTTCATATATACATATATATATATATATATATATA
Found at i:21902 original size:30 final size:30
Alignment explanation
Indices: 21868--21941 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
21858 AATAAAACCG
*
21868 TAATTTTTAATTTATATCTAAAT-AAGTTCT
1 TAATTTTTAATTTATA-CCAAATCAAGTTCT
* *
21898 TAATTTTTAAGTTATACCCAATCAAGTTCT
1 TAATTTTTAATTTATACCAAATCAAGTTCT
*
21928 TAAATTTTAATTTA
1 TAATTTTTAATTTA
21942 AACATAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.50
Consensus pattern (30 bp):
TAATTTTTAATTTATACCAAATCAAGTTCT
Found at i:22092 original size:15 final size:16
Alignment explanation
Indices: 22069--22103 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
22059 TAAATTAATG
22069 AAAATTAAAAAATTAT
1 AAAATTAAAAAATTAT
22085 AAAA-TAAAAAATTAT
1 AAAATTAAAAAATTAT
22100 AAAA
1 AAAA
22104 GTATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATTAAAAAATTAT
Found at i:22129 original size:28 final size:28
Alignment explanation
Indices: 22098--22176 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
22088 ATAAAAAATT
*
22098 ATAAAAGTATTTTTATAATTAAAATTAA
1 ATAAAAATATTTTTATAATTAAAATTAA
* *
22126 ATAAAAATATTTTAATAATTAAATTTAA
1 ATAAAAATATTTTTATAATTAAAATTAA
* *
22154 ATAAAAATATTTGTATTATTAAA
1 ATAAAAATATTTTTATAATTAAA
22177 TAGTAATTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
ATAAAAATATTTTTATAATTAAAATTAA
Found at i:22165 original size:14 final size:14
Alignment explanation
Indices: 22122--22165 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
22112 ATAATTAAAA
22122 TTAAATAAAAATAT
1 TTAAATAAAAATAT
* *
22136 TTTAATAATTAA-AT
1 TTAAATAA-AAATAT
22150 TTAAATAAAAATAT
1 TTAAATAAAAATAT
22164 TT
1 TT
22166 GTATTATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 2 0.08
14 20 0.83
15 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAATAAAAATAT
Found at i:27764 original size:15 final size:15
Alignment explanation
Indices: 27744--27775 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27734 TTATATTTTT
*
27744 AATTTATTTTTTTAA
1 AATTTATTTTTATAA
27759 AATTTATTTTTATAA
1 AATTTATTTTTATAA
27774 AA
1 AA
27776 AATTAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTATTTTTATAA
Found at i:27860 original size:2 final size:2
Alignment explanation
Indices: 27840--27883 Score: 65
Period size: 2 Copynumber: 22.5 Consensus size: 2
27830 ACTTAATGCT
27840 TA TA CTA TA -A TA T- 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
27881 TA T
1 TA T
27884 TTATTCTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 2 0.05
2 35 0.90
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27913 original size:25 final size:24
Alignment explanation
Indices: 27885--27936 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
27875 TATATATATT
*
27885 TATTCTTTAT-AATATAAAAATTACA
1 TATTCTATATAAATAT-AAAATTA-A
*
27910 TATTGTATATAAATATAAAATTAA
1 TATTCTATATAAATATAAAATTAA
27934 TAT
1 TAT
27937 ATAATATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.17
25 15 0.62
26 5 0.21
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (24 bp):
TATTCTATATAAATATAAAATTAA
Found at i:28865 original size:2 final size:2
Alignment explanation
Indices: 28858--28889 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
28848 CATATAAAAC
28858 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
28890 CTGACACTCA
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:29360 original size:15 final size:15
Alignment explanation
Indices: 29331--29372 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
29321 TCGTCTTTAT
*
29331 TATATTTTTT-CAAA
1 TATATTTTTTAAAAA
*
29345 TTTATTTTTTAAAAA
1 TATATTTTTTAAAAA
29360 TATATTTTTTAAA
1 TATATTTTTTAAA
29373 TTTAATCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATTTTTTAAAAA
Found at i:29874 original size:2 final size:2
Alignment explanation
Indices: 29867--29896 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
29857 GCCAGCATTT
29867 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29897 TCTCAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30716 original size:19 final size:19
Alignment explanation
Indices: 30692--30728 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30682 AGTTTTTTAG
* *
30692 TATAATAATTATATTAATA
1 TATAATAAATATAATAATA
30711 TATAATAAATATAATAAT
1 TATAATAAATATAATAAT
30729 TTAAATTTTG
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TATAATAAATATAATAATA
Found at i:35113 original size:20 final size:21
Alignment explanation
Indices: 35069--35111 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
35059 ATTTATGAAT
*
35069 AATCTCTTTTGAAAATGATCA
1 AATCTCTTTTAAAAATGATCA
35090 AATCTCTTTTAAAAATGATCA
1 AATCTCTTTTAAAAATGATCA
35111 A
1 A
35112 TCATATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (21 bp):
AATCTCTTTTAAAAATGATCA
Found at i:35124 original size:21 final size:20
Alignment explanation
Indices: 35080--35131 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
35070 ATCTCTTTTG
* *
35080 AAAATGATCAAATCTCTTTTA
1 AAAATGATC-AATCTATTTAA
35101 AAAATGATCAATCATATTTAA
1 AAAATGATCAATC-TATTTAA
*
35122 AAAAAGATCA
1 AAAATGATCA
35132 TTCCTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.31
Consensus pattern (20 bp):
AAAATGATCAATCTATTTAA
Found at i:35198 original size:22 final size:21
Alignment explanation
Indices: 35155--35203 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
35145 GACTAGTCCA
35155 TTTTAAAAGATGATCGATTTC
1 TTTTAAAAGATGATCGATTTC
*
35176 TTTTAAAA-ATGATTGA-TTC
1 TTTTAAAAGATGATCGATTTC
35195 TTCTTAAAA
1 TT-TTAAAA
35204 ATCTATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 13 0.50
21 8 0.31
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (21 bp):
TTTTAAAAGATGATCGATTTC
Found at i:35652 original size:19 final size:20
Alignment explanation
Indices: 35614--35649 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
35604 TTAATCAGAT
35614 TAAAATTATTATTTAATTAA
1 TAAAATTATTATTTAATTAA
35634 TAAAA-TATT-TTTAATT
1 TAAAATTATTATTTAATT
35650 TAAGTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 4 0.25
20 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAAATTATTATTTAATTAA
Found at i:35680 original size:45 final size:49
Alignment explanation
Indices: 35582--35687 Score: 112
Period size: 50 Copynumber: 2.2 Consensus size: 49
35572 TTAATTTAAA
**
35582 AATAAAATATTTATAATTTAAATTAATCAGATTAAAATTATTATTTAATT
1 AATAAAATATTTATAATTTAAATT-ATCAGATTAAAATTATTAAATAATT
* * *
35632 AATAAAATATTTTTAATTTAAGTT-T-A-ATTAAAA-TATGTAAATAATA
1 AATAAAATATTTATAATTTAAATTATCAGATTAAAATTAT-TAAATAATT
35678 ATATAAAATA
1 A-ATAAAATA
35688 ATTTTTTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
45 3 0.06
46 14 0.29
47 9 0.18
48 1 0.02
50 22 0.45
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (49 bp):
AATAAAATATTTATAATTTAAATTATCAGATTAAAATTATTAAATAATT
Found at i:36238 original size:2 final size:2
Alignment explanation
Indices: 36226--36258 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
36216 AGTCAACAAT
*
36226 TA TA TA AA 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 T
36259 GAAATCTTGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:37251 original size:19 final size:21
Alignment explanation
Indices: 37220--37259 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
37210 ATTTATGAAT
37220 AATCTCTTTTG-AAAATGATC
1 AATCTCTTTTGAAAAATGATC
37240 AATCTC-TTTGAAAAATGATC
1 AATCTCTTTTGAAAAATGATC
37260 GATCATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
AATCTCTTTTGAAAAATGATC
Found at i:37273 original size:20 final size:20
Alignment explanation
Indices: 37227--37274 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
37217 AATAATCTCT
*
37227 TTTG-AAAATGATCAATCTC
1 TTTGAAAAATGATCAATCTA
*
37246 TTTGAAAAATGATCGATCATA
1 TTTGAAAAATGATCAATC-TA
37267 TTT-AAAAA
1 TTTGAAAAA
37275 AAAAGATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
TTTGAAAAATGATCAATCTA
Found at i:37339 original size:20 final size:20
Alignment explanation
Indices: 37307--37357 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
37297 GACTAGTTCA
37307 TTTTAAAAGATGATCGATTTT
1 TTTTAAAA-ATGATCGATTTT
*
37328 TTTTAAAAATGATTGATTTT
1 TTTTAAAAATGATCGATTTT
37348 TTTTAAAAAT
1 TTTTAAAAAT
37358 TTATATTGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (20 bp):
TTTTAAAAATGATCGATTTT
Found at i:38001 original size:25 final size:26
Alignment explanation
Indices: 37973--38023 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
37963 AGATTGAGAG
37973 CACAAAGAGTTTGGATTT-TTTTCTA
1 CACAAAGAGTTTGGATTTCTTTTCTA
*
37998 CACAAAGTGTTTGGATTTCTTTTCTA
1 CACAAAGAGTTTGGATTTCTTTTCTA
38024 TCTTAAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (26 bp):
CACAAAGAGTTTGGATTTCTTTTCTA
Found at i:39247 original size:24 final size:25
Alignment explanation
Indices: 39220--39270 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
39210 TTATCACATT
*
39220 ATTACTTACTA-TTCAAAAAGTAAA
1 ATTAATTACTACTTCAAAAAGTAAA
* *
39244 ATTAATTATTATCTTCAAAAATTAAA
1 ATTAATTACTA-CTTCAAAAAGTAAA
39270 A
1 A
39271 AAAATGTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 9 0.41
26 13 0.59
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (25 bp):
ATTAATTACTACTTCAAAAAGTAAA
Found at i:39452 original size:30 final size:31
Alignment explanation
Indices: 39401--39467 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
39391 CAAAAAACTG
39401 TTTAAACTAAAAAAATCTGAA-TAAAAAT-A
1 TTTAAACTAAAAAAATCTGAATTAAAAATAA
** * *
39430 TTTAAACTTAAAATTATTTGAATTCAAAATAA
1 TTTAAAC-TAAAAAAATCTGAATTAAAAATAA
39462 TTTAAA
1 TTTAAA
39468 AGTGTATTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 7 0.23
30 11 0.35
31 6 0.19
32 7 0.23
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (31 bp):
TTTAAACTAAAAAAATCTGAATTAAAAATAA
Found at i:40650 original size:18 final size:19
Alignment explanation
Indices: 40627--40671 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
40617 TTAATATAAT
*
40627 TATAATATAAAATTTA-TA
1 TATAATATAAAATATATTA
40645 TATAAT-TAAAATATATTA
1 TATAATATAAAATATATTA
40663 TATACATAT
1 TATA-ATAT
40672 CATATCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 12 0.52
19 2 0.09
20 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TATAATATAAAATATATTA
Found at i:40671 original size:24 final size:24
Alignment explanation
Indices: 40620--40671 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
40610 AAATATATTA
* * *
40620 ATATAATTATAATATAAAATTTAT
1 ATATAATTAAAATATAAAATATAC
**
40644 ATATAATTAAAATATATTATATAC
1 ATATAATTAAAATATAAAATATAC
40668 ATAT
1 ATAT
40672 CATATCTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATAATTAAAATATAAAATATAC
Found at i:42358 original size:20 final size:20
Alignment explanation
Indices: 42310--42359 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
42300 AAAATTATTT
* *
42310 ATATATAAAATTTTAGATAA
1 ATATATAATATTTTAAATAA
42330 ATATATAATATTTTAAATATA
1 ATATATAATATTTTAAATA-A
42351 AT-TATAATA
1 ATATATAATA
42360 CATGAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
ATATATAATATTTTAAATAA
Found at i:43359 original size:16 final size:17
Alignment explanation
Indices: 43338--43369 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
43328 TTATTATAAA
43338 ATATATAAA-TATTTAT
1 ATATATAAATTATTTAT
43354 ATATATAAATTATTTA
1 ATATATAAATTATTTA
43370 ATTAAAATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATAAATTATTTAT
Found at i:44053 original size:25 final size:24
Alignment explanation
Indices: 44028--44107 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 24
44018 TCAAATGAAT
*
44028 ATTAGATATATATATTATTTAAAATA
1 ATTATATATATATATT-TTTAAAA-A
* *
44054 A-TATATTTA-ATTTTTTTAAAAA
1 ATTATATATATATATTTTTAAAAA
*
44076 ACTTTTATATATATATTTTTAAAAA
1 A-TTATATATATATATTTTTAAAAA
44101 ATTATAT
1 ATTATAT
44108 TCATATTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
22 2 0.05
23 7 0.16
24 15 0.34
25 19 0.43
26 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (24 bp):
ATTATATATATATATTTTTAAAAA
Found at i:44113 original size:22 final size:21
Alignment explanation
Indices: 44033--44115 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 21
44023 TGAATATTAG
44033 ATATATATATTATTTAAAATAA-T
1 ATAT-TATATT-TTTAAAA-AATT
*
44056 ATATTTAATTTTTTTAAAAAACTTTT
1 ATA-TT-ATATTTTTAAAAAA---TT
44082 ATATATATATTTTTAAAAAATT
1 ATAT-TATATTTTTAAAAAATT
44104 ATATTCATATTT
1 ATATT-ATATTT
44116 ATATTTGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
21 1 0.02
22 14 0.28
23 11 0.22
24 5 0.10
25 14 0.28
26 5 0.10
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTATATTTTTAAAAAATT
Found at i:44113 original size:24 final size:23
Alignment explanation
Indices: 44036--44113 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 23
44026 ATATTAGATA
44036 TATATATTATTTAAAATAA-TATAT
1 TATATATT-TTTAAAA-AATTATAT
* *
44060 T-TAATTTTTTTAAAAAACTTTTAT
1 TAT-ATATTTTTAAAAAA-TTATAT
44084 ATATATATTTTTAAAAAATTATAT
1 -TATATATTTTTAAAAAATTATAT
44108 TCATAT
1 T-ATAT
44114 TTATATTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
22 2 0.05
23 9 0.20
24 18 0.41
25 14 0.32
26 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
TATATATTTTTAAAAAATTATAT
Found at i:44279 original size:11 final size:10
Alignment explanation
Indices: 44260--44396 Score: 51
Period size: 10 Copynumber: 13.9 Consensus size: 10
44250 TTTGAAAATT
44260 TATATATTTA
1 TATATATTTA
44270 TATCATATTTA
1 TAT-ATATTTA
44281 TATAT-TTT-
1 TATATATTTA
*
44289 TATAT-GTTA
1 TATATATTTA
*
44298 TAATTGTATTTA
1 T-A-TATATTTA
*
44310 -AAATA-TTA
1 TATATATTTA
44318 TATAT-TTTA
1 TATATATTTA
*
44327 TATAAATTT-
1 TATATATTTA
** *
44336 TGATACGTTAA
1 T-ATATATTTA
44347 TA-ATTAATATTA
1 TATA-T-AT-TTA
44359 TATA-ATTT-
1 TATATATTTA
* *
44367 TTTATATTTT
1 TATATATTTA
44377 TATATATTTA
1 TATATATTTA
44387 TATCATATTT
1 TAT-ATATTT
44397 TGATTATTAT
Statistics
Matches: 94, Mismatches: 16, Indels: 33
0.66 0.11 0.23
Matches are distributed among these distances:
8 13 0.14
9 24 0.26
10 29 0.31
11 20 0.21
12 7 0.07
13 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (10 bp):
TATATATTTA
Found at i:44411 original size:19 final size:21
Alignment explanation
Indices: 44370--44420 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
44360 ATAATTTTTT
*
44370 ATATTTTTATATATTTATATC
1 ATATTTTGATATATTTATATC
*
44391 ATATTTTGAT-TA-TTATGTC
1 ATATTTTGATATATTTATATC
*
44410 ATAGTTT-ATAT
1 ATATTTTGATAT
44421 TGTAATAGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 13 0.50
20 2 0.08
21 9 0.35
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (21 bp):
ATATTTTGATATATTTATATC
Found at i:47993 original size:14 final size:15
Alignment explanation
Indices: 47962--47994 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
47952 AATGTTGTGG
47962 ATTGAAGATTCGAAT
1 ATTGAAGATTCGAAT
*
47977 ATTGATGATTC-AAT
1 ATTGAAGATTCGAAT
47991 ATTG
1 ATTG
47995 GGGATGATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.39
Consensus pattern (15 bp):
ATTGAAGATTCGAAT
Found at i:50585 original size:18 final size:18
Alignment explanation
Indices: 50562--50597 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50552 CCTTTATCTT
50562 AAATTTTAGATAGTTGAA
1 AAATTTTAGATAGTTGAA
*
50580 AAATTTTGGATAGTTGAA
1 AAATTTTAGATAGTTGAA
50598 GGAGCGACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (18 bp):
AAATTTTAGATAGTTGAA
Found at i:52139 original size:31 final size:29
Alignment explanation
Indices: 52091--52171 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 29
52081 AATATTTTTT
52091 AAAATAAAAATATAAAATTTAATTGATAA
1 AAAATAAAAATATAAAATTTAATTGATAA
* *
52120 AAAATATAAAATGTAAAAATTTGATTGAATAGATA
1 AAAATA-AAAATAT-AAAATTTAATTG-AT--A-A
*
52155 AAAATAAAAAAATAAAA
1 AAAATAAAAATATAAAA
52172 AAATAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
29 6 0.14
30 6 0.14
31 11 0.26
32 2 0.05
33 4 0.10
34 6 0.14
35 7 0.17
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (29 bp):
AAAATAAAAATATAAAATTTAATTGATAA
Found at i:52171 original size:7 final size:8
Alignment explanation
Indices: 52154--52183 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
52144 TTGAATAGAT
52154 AAAAATAA
1 AAAAATAA
52162 AAAAATAA
1 AAAAATAA
52170 AAAAATAA
1 AAAAATAA
52178 AAAAAT
1 AAAAAT
52184 TAATTATAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:52952 original size:13 final size:14
Alignment explanation
Indices: 52914--52949 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
52904 TTATTTTAGA
52914 ATTTTTAATTAAAT
1 ATTTTTAATTAAAT
*
52928 -TTATTAATTAAAT
1 ATTTTTAATTAAAT
52941 ATTTTTAAT
1 ATTTTTAAT
52950 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTTTAATTAAAT
Found at i:53308 original size:14 final size:14
Alignment explanation
Indices: 53270--53359 Score: 58
Period size: 14 Copynumber: 6.0 Consensus size: 14
53260 TTATTTTATA
*
53270 ATTTAAATATTAAT
1 ATTTAAAAATTAAT
53284 AATTTTAAAAAATTAAT
1 -A-TTT-AAAAATTAAT
*
53301 ATTTAAAATTTAAAT
1 ATTTAAAAATT-AAT
53316 ATTACATAAAAATTAAT
1 ATT---TAAAAATTAAT
*
53333 -TTTAAAAAAATAAT
1 ATTT-AAAAATTAAT
*
53347 -TTTATAAATTAAT
1 ATTTAAAAATTAAT
53360 TGTATTAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
13 9 0.15
14 18 0.29
15 10 0.16
16 6 0.10
17 12 0.19
18 7 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTAAAAATTAAT
Found at i:53661 original size:22 final size:25
Alignment explanation
Indices: 53632--53691 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 25
53622 ATTTAAATTA
53632 AAATTTAATTTAAAT-TTTTTA-TT
1 AAATTTAATTTAAATATTTTTATTT
*
53655 -AATTTAA--AAAATATTTTTATTT
1 AAATTTAATTTAAATATTTTTATTT
53677 AAATTTAATTATAAA
1 AAATTTAATT-TAAA
53692 AAATTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 9 0.31
23 7 0.24
26 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
AAATTTAATTTAAATATTTTTATTT
Found at i:53677 original size:34 final size:32
Alignment explanation
Indices: 53610--53682 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 32
53600 AATTTGGATA
*
53610 AAATATTTTATAATTTAAATTAAAATTTAATTT
1 AAATTTTTTATAATTTAAA-TAAAATTTAATTT
*
53643 AAATTTTTTATTAATTTAAA-AAATATTTTTATTT
1 AAATTTTTTA-TAATTTAAATAAA-A-TTTAATTT
53677 AAATTT
1 AAATTT
53683 AATTATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 3 0.09
33 10 0.29
34 22 0.63
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
AAATTTTTTATAATTTAAATAAAATTTAATTT
Found at i:58835 original size:17 final size:18
Alignment explanation
Indices: 58800--58835 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
58790 GTTGTGAATC
58800 GTGTTGATTGCTTTTTTTT
1 GTGTTGATTGC-TTTTTTT
58819 GTGTTGATTGCTTTTTT
1 GTGTTGATTGCTTTTTT
58836 CTCTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.06, C:0.06, G:0.22, T:0.67
Consensus pattern (18 bp):
GTGTTGATTGCTTTTTTT
Found at i:63652 original size:4 final size:4
Alignment explanation
Indices: 63633--63666 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
63623 ATTGAATCGG
*
63633 TAAA -AAA TATA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
63667 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:63762 original size:17 final size:16
Alignment explanation
Indices: 63742--63802 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 16
63732 ATATTATATA
63742 ATTAAATATATATTTTT
1 ATTAAATAT-TATTTTT
*
63759 ATTAAATATT-TATTAT
1 ATTAAATATTAT-TTTT
*
63775 ATTTAATACTTATTTATT
1 ATTAAATA-TTATTT-TT
63793 ATTAAA-ATTA
1 ATTAAATATTA
63803 CTTATTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
15 1 0.03
16 14 0.39
17 14 0.39
18 7 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTAAATATTATTTTT
Found at i:64113 original size:27 final size:28
Alignment explanation
Indices: 64079--64131 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
64069 TTCAATTTAA
* * *
64079 ATTATTTATA-TTGATTTTAAAAATACT
1 ATTATTTAAACTTAATTATAAAAATACT
64106 ATTATTTAAACTTAATTATAAAAATA
1 ATTATTTAAACTTAATTATAAAAATA
64132 TATAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTATTTAAACTTAATTATAAAAATACT
Found at i:64153 original size:19 final size:19
Alignment explanation
Indices: 64129--64166 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
64119 AATTATAAAA
64129 ATATATAAATTTTAATATT
1 ATATATAAATTTTAATATT
* *
64148 ATATATTATTTTTAATATT
1 ATATATAAATTTTAATATT
64167 TTTAATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATATAAATTTTAATATT
Found at i:65376 original size:20 final size:19
Alignment explanation
Indices: 65341--65404 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 19
65331 ATGTATATTT
65341 TTTAAAATA-TTA-TTATA
1 TTTAAAATATTTATTTATA
65358 TTTAATAATATTTATTTAT-
1 TTTAA-AATATTTATTTATA
65377 TATTAAAATTATTTATTTAATA
1 T-TTAAAA-TATTTATTT-ATA
65399 TTTAAA
1 TTTAAA
65405 TTTCATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.12
18 4 0.10
19 6 0.15
20 17 0.43
21 7 0.17
22 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAAAATATTTATTTATA
Found at i:65420 original size:37 final size:35
Alignment explanation
Indices: 65329--65421 Score: 82
Period size: 36 Copynumber: 2.5 Consensus size: 35
65319 TTAGATAACT
* *
65329 AAATGTATATTTTTTAAAATATTATTATATTTAATA
1 AAATTTAT-TTTTTTTAAATATTATTATATTTAATA
* *
65365 ATATTTATTTATTATTAAA-ATTATT-TATTTAATA
1 AAATTTATTT-TTTTTAAATATTATTATATTTAATA
65399 TTTAAATTTCATTTTTTTTAAAT
1 ---AAATTT-ATTTTTTTTAAAT
65422 CATCATGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
34 9 0.20
35 8 0.18
36 12 0.27
37 12 0.27
38 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (35 bp):
AAATTTATTTTTTTTAAATATTATTATATTTAATA
Found at i:66224 original size:28 final size:30
Alignment explanation
Indices: 66175--66256 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 30
66165 TTTTTATATA
*
66175 AAATTATTAAATTTAATCAATTTAA-TCAATT
1 AAATTATT--ATTTAATAAATTTAACTCAATT
*
66206 AAATTATTATTTAA-AAATTTAACTCTATT
1 AAATTATTATTTAATAAATTTAACTCAATT
* * *
66235 -AATTTTTATTTTATAATTTTAA
1 AAATTATTATTTAATAAATTTAA
66257 TATTGAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 18 0.41
29 18 0.41
31 8 0.18
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (30 bp):
AAATTATTATTTAATAAATTTAACTCAATT
Found at i:70087 original size:20 final size:20
Alignment explanation
Indices: 70062--70106 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
70052 GTACGACGTA
* *
70062 ATATATATGTGTTTATATAT
1 ATATATATATGTATATATAT
70082 ATATATATATGTATATATAT
1 ATATATATATGTATATATAT
70102 ATATA
1 ATATA
70107 GAGTAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (20 bp):
ATATATATATGTATATATAT
Found at i:70125 original size:2 final size:2
Alignment explanation
Indices: 70075--70106 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
70065 TATATGTGTT
*
70075 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70107 GAGTAAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71036 original size:25 final size:25
Alignment explanation
Indices: 70978--71043 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
70968 AAAATTAGCT
*
70978 ACCAATTTTGACAAA-CAACAAGCC
1 ACCAATTTTGACAAATAAACAAGCC
71002 ACCAATTTTGACAAATAAACAAGCC
1 ACCAATTTTGACAAATAAACAAGCC
*
71027 TCC-ATATTTGACAAATA
1 ACCAAT-TTTGACAAATA
71044 CAAAGGAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 17 0.45
25 21 0.55
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.23
Consensus pattern (25 bp):
ACCAATTTTGACAAATAAACAAGCC
Found at i:71089 original size:27 final size:27
Alignment explanation
Indices: 71028--71098 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
71018 AAACAAGCCT
* *
71028 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
71056 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
*
71083 CCATTTTTTACAAACA
1 CCATTTTTGACAAACA
71099 AATGGGTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.24
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:75751 original size:2 final size:2
Alignment explanation
Indices: 75744--75772 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
75734 ATTTGTACTG
75744 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75773 TGATCATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75794 original size:25 final size:25
Alignment explanation
Indices: 75764--75814 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
75754 TATATATATA
75764 TATATATATTGATCATAGATCTCAC
1 TATATATATTGATCATAGATCTCAC
*
75789 TATATATATTGATCATAGCTCTCAC
1 TATATATATTGATCATAGATCTCAC
75814 T
1 T
75815 TATCTCATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (25 bp):
TATATATATTGATCATAGATCTCAC
Found at i:77815 original size:2 final size:2
Alignment explanation
Indices: 77808--77841 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
77798 TGTACTCTGC
77808 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
77842 TGATCATAGC
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:80753 original size:1 final size:1
Alignment explanation
Indices: 80747--80778 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
80737 CATTTTGCGA
*
80747 GGGGGGGGGGGGGGGGGGGGGGGGGAGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
80779 AAGAAGGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:81226 original size:33 final size:33
Alignment explanation
Indices: 81184--81246 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
81174 TGGAGGATCG
* *
81184 ATCTTTTTCATGTAAGGATTAATATCGATGAGC
1 ATCTTTTTCATGCAAGGATCAATATCGATGAGC
81217 ATCTTTTTCATGCAAGGATCAATATCGATG
1 ATCTTTTTCATGCAAGGATCAATATCGATG
81247 GACTTAACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (33 bp):
ATCTTTTTCATGCAAGGATCAATATCGATGAGC
Found at i:85293 original size:20 final size:19
Alignment explanation
Indices: 85257--85295 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
85247 AGCTATGATT
* *
85257 TTTTTTCTTTTTTTTAAAA
1 TTTTTTATTTTTCTTAAAA
85276 TTTTTTATTTTTCCTTAAAA
1 TTTTTTATTTTT-CTTAAAA
85296 GTAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTATTTTTCTTAAAA
Found at i:86464 original size:19 final size:19
Alignment explanation
Indices: 86436--86475 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
86426 TATAATTGAA
*
86436 TTTAAATAAAATATATTAT
1 TTTAAATAAAAAATATTAT
*
86455 TTTAATTAAAAAATATTAT
1 TTTAAATAAAAAATATTAT
86474 TT
1 TT
86476 GTGGCCGACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAATAAAAAATATTAT
Found at i:86976 original size:13 final size:13
Alignment explanation
Indices: 86958--86988 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
86948 TAAGAAAAAT
86958 ATTTTATTATTTA
1 ATTTTATTATTTA
*
86971 ATTTTATTATTTT
1 ATTTTATTATTTA
86984 ATTTT
1 ATTTT
86989 TAATGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTATTATTTA
Found at i:88668 original size:34 final size:33
Alignment explanation
Indices: 88588--88670 Score: 98
Period size: 32 Copynumber: 2.5 Consensus size: 33
88578 TTTTATTTAA
*
88588 AATAT-TTTATATTTATATAAATTTTAATACATT
1 AATATATTTATA-TTATATAAATTTTAAAACATT
* *
88621 AATA-ATTTATATTATTTAAATTTTAAAATATTT
1 AATATATTTATATTATATAAATTTTAAAACA-TT
*
88654 GATATATTTATATTATA
1 AATATATTTATATTATA
88671 CTTGTATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
32 16 0.38
33 15 0.36
34 11 0.26
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (33 bp):
AATATATTTATATTATATAAATTTTAAAACATT
Found at i:89000 original size:25 final size:25
Alignment explanation
Indices: 88970--89021 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
88960 CGTAATAATG
*
88970 CTCAATTTCTTACATTCATAATTTT
1 CTCAATTTCATACATTCATAATTTT
* *
88995 CTCAATTTCATATATTTATAATTTT
1 CTCAATTTCATACATTCATAATTTT
89020 CT
1 CT
89022 TTTCTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (25 bp):
CTCAATTTCATACATTCATAATTTT
Found at i:89199 original size:2 final size:2
Alignment explanation
Indices: 89192--89219 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
89182 TTGCTATTTA
89192 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
89220 GAAAGAGCAA
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:89885 original size:22 final size:21
Alignment explanation
Indices: 89833--89886 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
89823 CTCAATTTAA
89833 ATTATTATTTAATAATAAAAAT
1 ATTATTA-TTAATAATAAAAAT
* *
89855 ATTGTTTATTAATATATGAAAAT
1 ATT-ATTATTAATA-ATAAAAAT
*
89878 CTTATTATT
1 ATTATTATT
89887 TCTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (21 bp):
ATTATTATTAATAATAAAAAT
Found at i:95386 original size:2 final size:2
Alignment explanation
Indices: 95379--95407 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
95369 CATTTCGTGC
95379 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
95408 AGCTCAGATT
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:96850 original size:2 final size:2
Alignment explanation
Indices: 96843--96872 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
96833 TTTGACTTGC
96843 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
96873 TAATATACGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:97293 original size:35 final size:33
Alignment explanation
Indices: 97232--97312 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 33
97222 TTTTTTAAAA
* **
97232 AATATATTTTTTATATTTAATTTAT-AATAATTT
1 AATATTTTTTTTATATTTAAAATATAAAT-ATTT
97265 AATATTTTTTATTATGATTTAAAATATAAATATTT
1 AATATTTTTT-TTAT-ATTTAAAATATAAATATTT
*
97300 AATATATTTTTTA
1 AATATTTTTTTTA
97313 ATGTTTACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 9 0.22
34 7 0.17
35 22 0.54
36 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (33 bp):
AATATTTTTTTTATATTTAAAATATAAATATTT
Found at i:97398 original size:2 final size:2
Alignment explanation
Indices: 97391--97427 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
97381 TACAATACTA
97391 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
97428 ACTTTCTAGA
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:97759 original size:2 final size:2
Alignment explanation
Indices: 97754--97803 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
97744 ACCTGTGTGC
97754 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
97796 AT AT AT AT
1 AT AT AT AT
97804 TGTGGTGGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98055 original size:24 final size:24
Alignment explanation
Indices: 98027--98072 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
98017 AATAAAAATT
98027 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
* *
98051 AGCCACCATTTTTTACAAACAA
1 AGCCACCAATTTTGACAAACAA
98073 AAAATAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.22
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:98095 original size:27 final size:26
Alignment explanation
Indices: 98029--98124 Score: 90
Period size: 28 Copynumber: 3.7 Consensus size: 26
98019 TAAAAATTAG
* *
98029 CCACCA-ATTTTGACAAAC--AACAAG
1 CCACCATA-TTTGACAAACAAAAAAAA
* *
98053 CCACCATTTTTTACAAACAAAAAATAA
1 CCACCATATTTGACAAACAAAAAA-AA
*
98080 CCACCATATTTGACAAATACAAAAGAAA
1 CCACCATATTTGAC-AA-ACAAAAAAAA
98108 CCACCATATTTGACAAA
1 CCACCATATTTGACAAA
98125 TACAAAGGAT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
24 15 0.25
26 4 0.07
27 15 0.25
28 18 0.31
29 7 0.12
ACGTcount: A:0.49, C:0.25, G:0.05, T:0.21
Consensus pattern (26 bp):
CCACCATATTTGACAAACAAAAAAAA
Found at i:98112 original size:28 final size:29
Alignment explanation
Indices: 98053--98130 Score: 108
Period size: 28 Copynumber: 2.8 Consensus size: 29
98043 AAACAACAAG
* *
98053 CCACCATTTTTTAC-AA-ACAAAAAATAA
1 CCACCATATTTGACAAATACAAAAAATAA
*
98080 CCACCATATTTGACAAATACAAAAGA-AA
1 CCACCATATTTGACAAATACAAAAAATAA
98108 CCACCATATTTGACAAATACAAA
1 CCACCATATTTGACAAATACAAA
98131 GGATGGAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 12 0.26
28 27 0.59
29 7 0.15
ACGTcount: A:0.51, C:0.23, G:0.04, T:0.22
Consensus pattern (29 bp):
CCACCATATTTGACAAATACAAAAAATAA
Found at i:102209 original size:27 final size:28
Alignment explanation
Indices: 102179--102244 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
102169 ACCATTGTTT
102179 ACAAATA-AAAA-ATAACCACCATATTTG
1 ACAAATACAAAAGA-AACCACCATATTTG
* *
102206 ACAAATACAAAAGAAACTACTATATTTG
1 ACAAATACAAAAGAAACCACCATATTTG
102234 ACAAATACAAA
1 ACAAATACAAA
102245 GAGTGGCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 7 0.20
28 27 0.77
29 1 0.03
ACGTcount: A:0.58, C:0.17, G:0.05, T:0.21
Consensus pattern (28 bp):
ACAAATACAAAAGAAACCACCATATTTG
Found at i:102315 original size:2 final size:2
Alignment explanation
Indices: 102301--102343 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
102291 CATCCACCAC
*
102301 AT AT AT A- AC 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
102342 AT
1 AT
102344 TCTGGAGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:103576 original size:2 final size:2
Alignment explanation
Indices: 103569--103598 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
103559 CTTTGACAGG
103569 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
103599 GCATATGGAT
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):
AT
Found at i:104544 original size:44 final size:44
Alignment explanation
Indices: 104481--104566 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
104471 AAGATTTACG
*
104481 TGAATAAAAGATAAAATACAATAGTCAAATTAAATAAATATGCT
1 TGAATAAAAGATAAAATACAATAGTAAAATTAAATAAATATGCT
* **
104525 TGAATAGAAGATGGAATACAATAGTAAAATTAAATAAATATG
1 TGAATAAAAGATAAAATACAATAGTAAAATTAAATAAATATG
104567 AATCTTATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.27
Consensus pattern (44 bp):
TGAATAAAAGATAAAATACAATAGTAAAATTAAATAAATATGCT
Found at i:105745 original size:2 final size:2
Alignment explanation
Indices: 105738--105778 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
105728 CAAGTACTGA
105738 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
105779 ATTTTATTTT
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:108497 original size:91 final size:91
Alignment explanation
Indices: 108305--108490 Score: 302
Period size: 91 Copynumber: 2.0 Consensus size: 91
108295 GTCAAGATTA
* * *
108305 AAAAAAATAAATTAGAGGTTAAGTTGGTAATACTTTCGGTTATCAATCTAATAAGTAGATTGGTT
1 AAAAAATTAAATTAGAAGTTAAGTTGGTAATACTTTCGGTTATCAATCTAATAAGTAGATCGGTT
*
108370 TAGTAGATCAATTATATTAAAATAAT
66 TAGTAGATCAATTACATTAAAATAAT
* *
108396 AAAAAATTAAATTAGAAGTTAAGTTGGTGATACTTTCGGTTATCAATCTAATAGGTTAGATCGGT
1 AAAAAATTAAATTAGAAGTTAAGTTGGTAATACTTTCGGTTATCAATCTAATAAG-TAGATCGGT
108461 TTAGTAGATCAATTACATTAAAATAA-
65 TTAGTAGATCAATTACATTAAAATAAT
108487 AAAA
1 AAAA
108491 TTTTAAAAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
91 55 0.62
92 33 0.38
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (91 bp):
AAAAAATTAAATTAGAAGTTAAGTTGGTAATACTTTCGGTTATCAATCTAATAAGTAGATCGGTT
TAGTAGATCAATTACATTAAAATAAT
Found at i:109157 original size:6 final size:6
Alignment explanation
Indices: 109148--109206 Score: 102
Period size: 6 Copynumber: 10.0 Consensus size: 6
109138 TTGAAATTGA
109148 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
*
109196 -ATTTT TATTTT
1 AATTTT AATTTT
109207 GTACGAATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.10
6 47 0.90
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
AATTTT
Found at i:109552 original size:30 final size:30
Alignment explanation
Indices: 109516--109574 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
109506 TATTGCATCC
* *
109516 AAATAAGACTTCAATTTTTAATTTATACTT
1 AAATAAGACTTCAACTTTTAAATTATACTT
* *
109546 AAATAAGCCTTTAACTTTTAAATTATACT
1 AAATAAGACTTCAACTTTTAAATTATACT
109575 CAAAAAAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATAAGACTTCAACTTTTAAATTATACTT
Found at i:109596 original size:30 final size:30
Alignment explanation
Indices: 109532--109596 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
109522 GACTTCAATT
* * * *
109532 TTTAATTTATACTTAAATAAGCCTTTAACT
1 TTTAAATTATACTCAAAAAAGCCTTTAACC
* *
109562 TTTAAATTATACTCAAAAAAGCTTTTGACC
1 TTTAAATTATACTCAAAAAAGCCTTTAACC
109592 TTTAA
1 TTTAA
109597 TTTAAACAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (30 bp):
TTTAAATTATACTCAAAAAAGCCTTTAACC
Found at i:111384 original size:28 final size:28
Alignment explanation
Indices: 111352--111428 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
111342 AATGCCACCC
111352 TTTGTATTTGTCAAATATGGTGGTT-TCT
1 TTTGTATTTGTCAAATATGGTGGTTAT-T
*
111380 TTTGTATTTATCAAATATGGTGGTTATT
1 TTTGTATTTGTCAAATATGGTGGTTATT
* *
111408 TTTG--TTTGTAAAAAATGGTGG
1 TTTGTATTTGTCAAATATGGTGG
111429 CTTGTTGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.32
28 29 0.66
29 1 0.02
ACGTcount: A:0.23, C:0.04, G:0.22, T:0.51
Consensus pattern (28 bp):
TTTGTATTTGTCAAATATGGTGGTTATT
Found at i:111439 original size:24 final size:24
Alignment explanation
Indices: 111409--111454 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
111399 GTGGTTATTT
111409 TTGTTTGTAAAAAATGGTGGCTTG
1 TTGTTTGTAAAAAATGGTGGCTTG
* *
111433 TTGTTTGTCAAAATTGGTGGCT
1 TTGTTTGTAAAAAATGGTGGCT
111455 AATTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.07, G:0.28, T:0.43
Consensus pattern (24 bp):
TTGTTTGTAAAAAATGGTGGCTTG
Found at i:114007 original size:21 final size:22
Alignment explanation
Indices: 113978--114023 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
113968 TGTTCAGACA
**
113978 AGTAGTACTCCGCAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
114000 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
114021 AGT
1 AGT
114024 TTCAACAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:115958 original size:28 final size:28
Alignment explanation
Indices: 115926--116014 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 28
115916 AATGCCACCC
115926 TTTGTATTTGTCAAATATGGTGGTT-TCT
1 TTTGTATTTGTCAAATATGGTGGTTAT-T
115954 TTTGTATTTGTCAAATATGGTGGTTATT
1 TTTGTATTTGTCAAATATGGTGGTTATT
* *
115982 TTTG--TTTGTAAAAAATGGTGGCTTATT
1 TTTGTATTTGTCAAATATGGTGG-TTATT
116009 GTTTGT
1 -TTTGT
116015 CAAAATTGGT
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
26 15 0.27
27 5 0.09
28 34 0.62
29 1 0.02
ACGTcount: A:0.20, C:0.04, G:0.22, T:0.53
Consensus pattern (28 bp):
TTTGTATTTGTCAAATATGGTGGTTATT
Found at i:116019 original size:24 final size:25
Alignment explanation
Indices: 115932--116032 Score: 82
Period size: 24 Copynumber: 4.0 Consensus size: 25
115922 ACCCTTTGTA
* * *
115932 TTTGTCAAATATGGTGGTTTCTTTTG
1 TTTGTCAAAAATGGTGGCTT-ATTTG
*
115958 TATTTGTCAAATATGGTGG-TTATTTTTG
1 --TTTGTCAAAAATGGTGGCTTA--TTTG
*
115986 TTTGTAAAAAATGGTGGCTTA-TTG
1 TTTGTCAAAAATGGTGGCTTATTTG
*
116010 TTTGTCAAAATTGGTGGC-TATTT
1 TTTGTCAAAAATGGTGGCTTATTT
116033 TTTATTAGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
23 2 0.03
24 21 0.33
26 15 0.23
27 5 0.08
28 21 0.33
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.50
Consensus pattern (25 bp):
TTTGTCAAAAATGGTGGCTTATTTG
Found at i:118026 original size:22 final size:22
Alignment explanation
Indices: 118001--118042 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
117991 AAGTATTCAA
118001 ATATTAA-ATATAAATAAAAATT
1 ATATTAATA-ATAAATAAAAATT
*
118023 ATATTTATAATAAATAAAAA
1 ATATTAATAATAAATAAAAA
118043 ATTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTAATAATAAATAAAAATT
Found at i:118190 original size:24 final size:25
Alignment explanation
Indices: 118139--118199 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
118129 AAAATTTTTA
*
118139 AAAATTTATTTTCAATAATTCAACT
1 AAAATTTATTTTCAATAATTAAACT
* *
118164 AAAA-TTATTTTGATTAATTAAA-T
1 AAAATTTATTTTCAATAATTAAACT
* *
118187 TAAATTTAATTTC
1 AAAATTTATTTTC
118200 CATCCAATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 4 0.14
24 21 0.72
25 4 0.14
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.48
Consensus pattern (25 bp):
AAAATTTATTTTCAATAATTAAACT
Found at i:119830 original size:25 final size:24
Alignment explanation
Indices: 119784--119830 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
119774 TATTTAATCA
* *
119784 TATTGTATTTATATTATCTTTTGG
1 TATTATATTTATATTATATTTTGG
119808 TATTATATTTAATATTATATTTT
1 TATTATATTT-ATATTATATTTT
119831 AATTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (24 bp):
TATTATATTTATATTATATTTTGG
Found at i:120768 original size:13 final size:13
Alignment explanation
Indices: 120750--120779 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
120740 TTTGAATATG
*
120750 TATTAAATATGAA
1 TATTAAACATGAA
120763 TATTAAACATGAA
1 TATTAAACATGAA
120776 TATT
1 TATT
120780 TTTAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (13 bp):
TATTAAACATGAA
Found at i:121055 original size:20 final size:20
Alignment explanation
Indices: 121030--121070 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
121020 ATTGATGTAT
*
121030 GCTATAAACTTGAGCAAGAG
1 GCTATAAACTAGAGCAAGAG
121050 GCTATAAACTAGAGCAAGAG
1 GCTATAAACTAGAGCAAGAG
121070 G
1 G
121071 TTGGACGTGT
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:0.41, C:0.15, G:0.27, T:0.17
Consensus pattern (20 bp):
GCTATAAACTAGAGCAAGAG
Found at i:121107 original size:11 final size:12
Alignment explanation
Indices: 121080--121105 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
121070 GTTGGACGTG
121080 TTTAATAAAAAA
1 TTTAATAAAAAA
121092 TTTAATAAAAAA
1 TTTAATAAAAAA
121104 TT
1 TT
121106 AAATTTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TTTAATAAAAAA
Found at i:121245 original size:36 final size:36
Alignment explanation
Indices: 121203--121289 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 36
121193 ATCTTAGAAT
* *
121203 AAAAATAAAAAAATTTAATTTAATTGA-AAAAATATA
1 AAAAATAAAAAAATTTAATTAAATAGATAAAAATA-A
* * *
121239 TAAAATATAAAAATTTGATTAAATAGATAAAAATAA
1 AAAAATAAAAAAATTTAATTAAATAGATAAAAATAA
121275 AAAAATAAAAAAATT
1 AAAAATAAAAAAATT
121290 GATTTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 36 0.84
37 7 0.16
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (36 bp):
AAAAATAAAAAAATTTAATTAAATAGATAAAAATAA
Found at i:121256 original size:27 final size:26
Alignment explanation
Indices: 121226--121277 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
121216 TTTAATTTAA
*
121226 TTGAAAAAATATATAAAATATAAAAAT
1 TTGAAAAAATAGATAAAA-ATAAAAAT
**
121253 TTGATTAAATAGATAAAAATAAAAA
1 TTGAAAAAATAGATAAAAATAAAAA
121278 AATAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (26 bp):
TTGAAAAAATAGATAAAAATAAAAAT
Found at i:121371 original size:31 final size:28
Alignment explanation
Indices: 121336--121417 Score: 76
Period size: 34 Copynumber: 2.7 Consensus size: 28
121326 AATTGAATAT
121336 TTAAATTCTAATATTTATTTTAAAAATTATA
1 TTAAATT-TAATATTTATTTTAAAAA-T-TA
121367 TTAAATAATTTAATATATT-TTATTAAAAATTA
1 TT--A-AATTTAATAT-TTATT-TTAAAAATTA
*
121399 TTATATTTAATATTTATTT
1 TTAAATTTAATATTTATTT
121418 ATTATTAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
28 3 0.07
29 11 0.25
30 1 0.02
31 2 0.05
32 4 0.09
33 10 0.23
34 13 0.30
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (28 bp):
TTAAATTTAATATTTATTTTAAAAATTA
Found at i:121405 original size:20 final size:22
Alignment explanation
Indices: 121365--121406 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
121355 TTAAAAATTA
121365 TATTAAATAATTTAATATATTT
1 TATTAAATAATTTAATATATTT
*
121387 TATTAAA-AA-TTATTATATTT
1 TATTAAATAATTTAATATATTT
121407 AATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTAAATAATTTAATATATTT
Found at i:121412 original size:22 final size:23
Alignment explanation
Indices: 121362--121412 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
121352 ATTTTAAAAA
121362 TTATATTAAATAATTTAATATAT
1 TTATATTAAATAATTTAATATAT
*
121385 TT-TATTAAA-AA-TTATTATAT
1 TTATATTAAATAATTTAATATAT
121405 TTAATATT
1 TT-ATATT
121413 TATTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 10 0.40
21 2 0.08
22 11 0.44
23 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATATTAAATAATTTAATATAT
Found at i:121431 original size:16 final size:16
Alignment explanation
Indices: 121386--121436 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
121376 TTAATATATT
121386 TTATTAAAAATTA-TTA
1 TTATT-AAAATTATTTA
*
121402 -TATTTAATATTTATTTA
1 TTA-TTAA-AATTATTTA
121419 TTATTAAAATTATTTA
1 TTATTAAAATTATTTA
121435 TT
1 TT
121437 CATTGTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 4 0.14
16 16 0.55
17 7 0.24
18 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATTAAAATTATTTA
Found at i:122359 original size:14 final size:13
Alignment explanation
Indices: 122341--122379 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
122331 AATTAAATCA
122341 TATATATTATTTT
1 TATATATTATTTT
*
122354 TCATATTTTATTTT
1 T-ATATATTATTTT
122368 TATATATATATT
1 TATATAT-TATT
122380 GAGTTCGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TATATATTATTTT
Found at i:122586 original size:39 final size:40
Alignment explanation
Indices: 122529--122611 Score: 141
Period size: 39 Copynumber: 2.1 Consensus size: 40
122519 TATATATCAT
*
122529 AAAATAAAATATAAAAATTTAATTAAATTGATAAAAATAA
1 AAAATAAAATATAAAAATTTAATTAAATTAATAAAAATAA
*
122569 AAAATAAAA-ATATAAATTTAATTAAATTAATAAAAATAA
1 AAAATAAAATATAAAAATTTAATTAAATTAATAAAAATAA
122608 AAAA
1 AAAA
122612 AAATTAAGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 32 0.78
40 9 0.22
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (40 bp):
AAAATAAAATATAAAAATTTAATTAAATTAATAAAAATAA
Found at i:122672 original size:12 final size:13
Alignment explanation
Indices: 122650--122717 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 13
122640 TTTAAAATCT
*
122650 AATATTTATATTA
1 AATAATTATATTA
122663 AA-AATTATATTA
1 AATAATTATATTA
*
122675 AATAATTA-AATA
1 AATAATTATATTA
* *
122687 TAT-ATTTTATTA
1 AATAATTATATTA
*
122699 AATATTATTATATTT
1 AATA--ATTATATTA
122714 AATA
1 AATA
122718 TTCATTTACT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
11 3 0.07
12 21 0.50
13 7 0.17
15 11 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATAATTATATTA
Done.