Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 146 of 172
Found at i:47952762 original size:12 final size:12
Alignment explanation
Indices: 47952745--47952774 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47952735 GTACCGCTAC
47952745 TGTTACTGTTAT
1 TGTTACTGTTAT
47952757 TGTTACTGTTAT
1 TGTTACTGTTAT
*
47952769 CGTTAC
1 TGTTAC
47952775 GGTGTATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (12 bp):
TGTTACTGTTAT
Found at i:47956941 original size:46 final size:47
Alignment explanation
Indices: 47956882--47957141 Score: 346
Period size: 46 Copynumber: 5.6 Consensus size: 47
47956872 TTTGATATAG
* * *
47956882 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-A
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
* **
47956928 AATGAGTAAGACCATGGTTGAAGGATACCATGGCAACATGACGGGAA
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
* * *
47956975 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-A
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
* **
47957021 AATGAGTAAGACCATGGTTGAAGGATACCATGGCAACATGACGGGAA
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
*
47957068 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAA
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
** * *
47957114 AACAAGTAAAACCATAGTTGAAAGATAC
1 AATGAGTAAGACCATGGTTGAAAGATAC
47957142 TATGACATCA
Statistics
Matches: 186, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
46 105 0.56
47 81 0.44
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (47 bp):
AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
Found at i:47957141 original size:93 final size:93
Alignment explanation
Indices: 47956888--47957104 Score: 434
Period size: 93 Copynumber: 2.3 Consensus size: 93
47956878 ATAGAATGTG
47956888 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAGGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAGGA
47956953 TACCATGGCAACATGACGGGAAAATGAA
66 TACCATGGCAACATGACGGGAAAATGAA
47956981 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAGGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAGGA
47957046 TACCATGGCAACATGACGGGAAAATGAA
66 TACCATGGCAACATGACGGGAAAATGAA
47957074 TAAGACCATGGTTGAAAGATACCATGGCAAC
1 TAAGACCATGGTTGAAAGATACCATGGCAAC
47957105 ATGACAGAAA
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 124 1.00
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (93 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAGGA
TACCATGGCAACATGACGGGAAAATGAA
Found at i:47962426 original size:4 final size:4
Alignment explanation
Indices: 47962417--47962443 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
47962407 CTACTCAAAG
47962417 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
47962444 CATATAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:47970897 original size:21 final size:21
Alignment explanation
Indices: 47970872--47970913 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
47970862 ATTAGAAAAC
47970872 ATGTAAAAGTACAAGATAAAT
1 ATGTAAAAGTACAAGATAAAT
47970893 ATGTAAAAGTACAAGATAAAT
1 ATGTAAAAGTACAAGATAAAT
47970914 TACATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (21 bp):
ATGTAAAAGTACAAGATAAAT
Found at i:47974926 original size:27 final size:27
Alignment explanation
Indices: 47974889--47974958 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
47974879 CAAGCAAATG
47974889 AATAAAA-AAAATAAATAAAAGAAGG-
1 AATAAAATAAAATAAATAAAAGAAGGT
*
47974914 AATTAAAATAAAACAAATAAAAGAAGGT
1 AA-TAAAATAAAATAAATAAAAGAAGGT
47974942 AATAATAATAATAATAA
1 AATAA-AATAA-AATAA
47974959 TAATAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 2 0.05
26 5 0.13
27 20 0.53
28 7 0.18
29 4 0.11
ACGTcount: A:0.71, C:0.01, G:0.09, T:0.19
Consensus pattern (27 bp):
AATAAAATAAAATAAATAAAAGAAGGT
Found at i:47974949 original size:3 final size:3
Alignment explanation
Indices: 47974941--47974965 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47974931 TAAAAGAAGG
47974941 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
47974966 TTAAACTTCG
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:47976879 original size:12 final size:12
Alignment explanation
Indices: 47976862--47976893 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
47976852 TAGTTAGAAA
47976862 AAGAAATTATTG
1 AAGAAATTATTG
47976874 AAGAAATTATTG
1 AAGAAATTATTG
47976886 AAGAAATT
1 AAGAAATT
47976894 GGGTAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (12 bp):
AAGAAATTATTG
Found at i:47987510 original size:13 final size:13
Alignment explanation
Indices: 47987488--47987517 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47987478 CAAAGGGGTT
47987488 GAGAAAAAAAATA
1 GAGAAAAAAAATA
*
47987501 GAGAAGAAAAATA
1 GAGAAAAAAAATA
47987514 GAGA
1 GAGA
47987518 TAGGGAGAAT
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:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (13 bp):
GAGAAAAAAAATA
Found at i:47988641 original size:19 final size:19
Alignment explanation
Indices: 47988597--47988635 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47988587 TAGTGTATAG
* *
47988597 ATGAATTGAAATTTGGATG
1 ATGAATTGAAATTTGAATA
47988616 ATGAATTGAAATTTGAATA
1 ATGAATTGAAATTTGAATA
47988635 A
1 A
47988636 GTAATTTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.36
Consensus pattern (19 bp):
ATGAATTGAAATTTGAATA
Found at i:47992775 original size:46 final size:46
Alignment explanation
Indices: 47992725--47992900 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
47992715 TGGTTGAGCA
47992725 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47992771 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
47992816 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
47992864 CCCGAGCTCGTTGTGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47992901 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47992891 original size:93 final size:93
Alignment explanation
Indices: 47992722--47992893 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
47992712 GGATGGTTGA
* *
47992722 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47992787 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
47992815 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACGCCCGAGCTCGTTGTGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
47992880 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
47992894 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47996857 original size:29 final size:30
Alignment explanation
Indices: 47996808--47996871 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
47996798 TGTTTTATTA
* * *
47996808 TGGTA-TTTTACTTTTATAAATGTCCAATG
1 TGGTACTTGTACTTTGATAAATGTACAATG
*
47996837 TGGTACTTGTACTTTGA-AAATGTATAATG
1 TGGTACTTGTACTTTGATAAATGTACAATG
47996866 TGGTAC
1 TGGTAC
47996872 CTAAATTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (30 bp):
TGGTACTTGTACTTTGATAAATGTACAATG
Found at i:47998650 original size:64 final size:64
Alignment explanation
Indices: 47998549--47998678 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
47998539 TTTCTTTAGC
47998549 TTTTTAAAGCCTTAAGATAACTTTATTAGATAGTGATCTCATATCTTTTTTAATACTATTGAAT
1 TTTTTAAAGCCTTAAGATAACTTTATTAGATAGTGATCTCATATCTTTTTTAATACTATTGAAT
47998613 TTTTTAAAGCCTTAAGATAACTTTATTAGATAGTGATCTCATATCTTTTTTAATACTATTGAAT
1 TTTTTAAAGCCTTAAGATAACTTTATTAGATAGTGATCTCATATCTTTTTTAATACTATTGAAT
47998677 TT
1 TT
47998679 GATTACTCTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (64 bp):
TTTTTAAAGCCTTAAGATAACTTTATTAGATAGTGATCTCATATCTTTTTTAATACTATTGAAT
Found at i:48009062 original size:27 final size:27
Alignment explanation
Indices: 48009032--48009086 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
48009022 TAGGGAATTT
48009032 TTTGAAACCATTGAATTCAAATTATGG
1 TTTGAAACCATTGAATTCAAATTATGG
48009059 TTTGAAACCATTGAATTCAAATTATGG
1 TTTGAAACCATTGAATTCAAATTATGG
48009086 T
1 T
48009087 AAGGTAGCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (27 bp):
TTTGAAACCATTGAATTCAAATTATGG
Found at i:48014135 original size:30 final size:30
Alignment explanation
Indices: 48014096--48014158 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
48014086 ACTTGTTTTA
48014096 TTGTCAATTTTGTTATTATTTTAAAGACAT
1 TTGTCAATTTTGTTATTATTTTAAAGACAT
* * *
48014126 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTCAATTTTGTTATTATTTTAAAGACAT
48014156 TTG
1 TTG
48014159 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTCAATTTTGTTATTATTTTAAAGACAT
Found at i:48014351 original size:161 final size:161
Alignment explanation
Indices: 48014130--48014451 Score: 601
Period size: 161 Copynumber: 2.0 Consensus size: 161
48014120 AGACATTTGT
48014130 TAATTTTGTTATTATTTTAGAGGCATTTGCTTGTTAAGTTGCATCTATCTTAGTGTTATTTAAGT
1 TAATTTTGTTATTATTTTAGAGGCATTTGCTTGTTAAGTTGCATCTATCTTAGTGTTATTTAAGT
*
48014195 ATAAATATTTTTTAAAATTTATTTTCAATTTGTTG-GCAAATATTTATTTTGATGTTTTTAGTAT
66 ATAAATATTTTTAAAAATTTATTTTCAATTTGTTGAG-AAATATTTATTTTGATGTTTTTAGTAT
48014259 TTTTGATATATTATATATTTCAAAATTATATA
130 TTTTGATATATTATATATTTCAAAATTATATA
*
48014291 TAATTTTGTTATTATTTTAGAGGCATTTGCTTGTTAAGTTGCATCTATTTTAGTGTTATTTAAGT
1 TAATTTTGTTATTATTTTAGAGGCATTTGCTTGTTAAGTTGCATCTATCTTAGTGTTATTTAAGT
*
48014356 ATACATATTTTTAAAAATTTATTTTCAATTTGTTGAGAAATATTTATTTTGATGTTTTTAGTATT
66 ATAAATATTTTTAAAAATTTATTTTCAATTTGTTGAGAAATATTTATTTTGATGTTTTTAGTATT
48014421 TTTGATATATTATATATTTCAAAATTATATA
131 TTTGATATATTATATATTTCAAAATTATATA
48014452 AAAATAATAT
Statistics
Matches: 157, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
161 156 0.99
162 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (161 bp):
TAATTTTGTTATTATTTTAGAGGCATTTGCTTGTTAAGTTGCATCTATCTTAGTGTTATTTAAGT
ATAAATATTTTTAAAAATTTATTTTCAATTTGTTGAGAAATATTTATTTTGATGTTTTTAGTATT
TTTGATATATTATATATTTCAAAATTATATA
Found at i:48020387 original size:24 final size:24
Alignment explanation
Indices: 48020317--48020414 Score: 135
Period size: 24 Copynumber: 4.1 Consensus size: 24
48020307 GTCGCTGTCC
*
48020317 CCCTTGCCCTTACCATTGCTGTCG
1 CCCTTGCCCTTACCATTGCTGTTG
48020341 CCCTTGCCCTTACCATTGCTGTTG
1 CCCTTGCCCTTACCATTGCTGTTG
*
48020365 CCCTTGCTCTTACCATTGCTGTTG
1 CCCTTGCCCTTACCATTGCTGTTG
* * *
48020389 CCATAT-CCATTACCATTGTTGTTG
1 CCCT-TGCCCTTACCATTGCTGTTG
48020413 CC
1 CC
48020415 ATTCCCATTG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 66 0.99
25 1 0.01
ACGTcount: A:0.11, C:0.36, G:0.15, T:0.38
Consensus pattern (24 bp):
CCCTTGCCCTTACCATTGCTGTTG
Found at i:48020392 original size:12 final size:12
Alignment explanation
Indices: 48020329--48020392 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
48020319 CTTGCCCTTA
*
48020329 CCATTGCTGTCG
1 CCATTGCTGTTG
* ** *
48020341 CCCTTGCCCTTA
1 CCATTGCTGTTG
48020353 CCATTGCTGTTG
1 CCATTGCTGTTG
* * *
48020365 CCCTTGCTCTTA
1 CCATTGCTGTTG
48020377 CCATTGCTGTTG
1 CCATTGCTGTTG
48020389 CCAT
1 CCAT
48020393 ATCCATTACC
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.09, C:0.36, G:0.17, T:0.38
Consensus pattern (12 bp):
CCATTGCTGTTG
Found at i:48024225 original size:17 final size:18
Alignment explanation
Indices: 48024205--48024248 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
48024195 ATTTTTTATG
48024205 AAATTTTTAT-ATATTTT
1 AAATTTTTATAATATTTT
*
48024222 AAATTTTTTTGAATATTTT
1 AAATTTTTAT-AATATTTT
48024241 ATAATTTT
1 A-AATTTT
48024249 AAATTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 9 0.39
19 8 0.35
20 6 0.26
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
AAATTTTTATAATATTTT
Found at i:48024229 original size:28 final size:27
Alignment explanation
Indices: 48024197--48024253 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
48024187 TATATTTCAT
48024197 TTTTTATGAA-ATTTTTATATATTTTAAA
1 TTTTTATGAATA-TTTTATA-ATTTTAAA
*
48024225 TTTTTTTGAATATTTTATAATTTTAAA
1 TTTTTATGAATATTTTATAATTTTAAA
48024252 TT
1 TT
48024254 ATTTTTGACG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.37
28 16 0.59
29 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTTTATGAATATTTTATAATTTTAAA
Found at i:48025802 original size:31 final size:32
Alignment explanation
Indices: 48025711--48025800 Score: 130
Period size: 31 Copynumber: 2.9 Consensus size: 32
48025701 ATTGATGTAT
* **
48025711 AGGGTTTAATTG-TTATTTTAATTATTTTATG
1 AGGGTTTAATTGATTTTTTTAATTATTTTAAA
*
48025742 AGGGGTTAATTGA-TTTTTTAATTATTTTAAA
1 AGGGTTTAATTGATTTTTTTAATTATTTTAAA
48025773 AGGGTTTAATTGATTTTTTTAATTATTT
1 AGGGTTTAATTGATTTTTTTAATTATTT
48025801 AAGTCTAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
31 38 0.73
32 14 0.27
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.57
Consensus pattern (32 bp):
AGGGTTTAATTGATTTTTTTAATTATTTTAAA
Found at i:48026148 original size:29 final size:25
Alignment explanation
Indices: 48026095--48026144 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
48026085 TAAAATAAAA
48026095 AGCACACCACTCAATCAATTTTTCT
1 AGCACACCACTCAATCAATTTTTCT
48026120 AGCACACCACTCAATCAATTTTTCT
1 AGCACACCACTCAATCAATTTTTCT
48026145 TTCTTTGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.04, T:0.32
Consensus pattern (25 bp):
AGCACACCACTCAATCAATTTTTCT
Found at i:48028023 original size:19 final size:19
Alignment explanation
Indices: 48027993--48028029 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
48027983 TATACCATTT
48027993 ATTTTCTATAATTATTTTAG
1 ATTTTCTATAA-TATTTTAG
48028013 ATTTT-TATAATATTTTA
1 ATTTTCTATAATATTTTA
48028030 ATAATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 5 0.29
20 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTTCTATAATATTTTAG
Found at i:48030244 original size:3 final size:3
Alignment explanation
Indices: 48030236--48030270 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
48030226 TTGACTTCAT
48030236 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48030271 TTTGAATCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48039677 original size:23 final size:23
Alignment explanation
Indices: 48039646--48039690 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48039636 TTACTTTTTC
*
48039646 AAATTATTAATAATTTT-TAAAG
1 AAATTATTAAAAATTTTATAAAG
48039668 AAATTCATTAAAAATTTTATAAA
1 AAATT-ATTAAAAATTTTATAAA
48039691 AAACTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATTATTAAAAATTTTATAAAG
Found at i:48040989 original size:26 final size:28
Alignment explanation
Indices: 48040942--48040995 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
48040932 TTTTTTTATG
*
48040942 TTTAAAATTTTTTTTTCACAAG-TAATA
1 TTTAAAATATTTTTTTCACAAGTTAATA
*
48040969 TTTAAACTATTTTTTTC-CAAGTTAATA
1 TTTAAAATATTTTTTTCACAAGTTAATA
48040996 CCTCCATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (28 bp):
TTTAAAATATTTTTTTCACAAGTTAATA
Found at i:48041640 original size:12 final size:12
Alignment explanation
Indices: 48041623--48041648 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48041613 CAAAATAGGC
48041623 TTTTAGCGGCGT
1 TTTTAGCGGCGT
48041635 TTTTAGCGGCGT
1 TTTTAGCGGCGT
48041647 TT
1 TT
48041649 GGATAAAAAA
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:48041696 original size:41 final size:40
Alignment explanation
Indices: 48041637--48041759 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 40
48041627 AGCGGCGTTT
* *
48041637 TTAGCGGCG-TTTGGATAAAAAACGCCACTAAAAATCAAGCA
1 TTAGCGGCGCTTT-TAT-AAAAACGCCGCTAAAAATCAAGCA
* ** *
48041678 TTAGCGGCGCTTTTATAAAAACGCTGCTAAAGGTCGAGCA
1 TTAGCGGCGCTTTTATAAAAACGCCGCTAAAAATCAAGCA
* *
48041718 TTAGCGACGCTTTT-TGGAAAACGCCGCTAAAAAT-AAGCA
1 TTAGCGGCGCTTTTAT-AAAAACGCCGCTAAAAATCAAGCA
48041757 TTA
1 TTA
48041760 CCGACGTTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
39 8 0.12
40 46 0.68
41 11 0.16
42 3 0.04
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCGGCGCTTTTATAAAAACGCCGCTAAAAATCAAGCA
Found at i:48041881 original size:41 final size:41
Alignment explanation
Indices: 48041824--48042067 Score: 389
Period size: 41 Copynumber: 6.0 Consensus size: 41
48041814 TGAGTTTTTG
* * *
48041824 GGGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATTCAC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
48041865 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCACTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
48041906 GGGCCTTTAGCGGCGTTTGTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
48041947 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
48041988 GGGCCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
48042029 GGGCCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
48042068 CCGCTTTTGA
Statistics
Matches: 188, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 188 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:48042449 original size:14 final size:14
Alignment explanation
Indices: 48042432--48042468 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
48042422 AGGTTTAATA
*
48042432 TATACGGTTTAGGG
1 TATATGGTTTAGGG
*
48042446 TATATGATTTAGGG
1 TATATGGTTTAGGG
48042460 TATATGGTT
1 TATATGGTT
48042469 AATTTAGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.24, C:0.03, G:0.30, T:0.43
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:48046382 original size:43 final size:43
Alignment explanation
Indices: 48046322--48046412 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
48046312 CTTTGAGTTC
* * * * *
48046322 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGACTAAGAAAATGCATTATATATTTT
*
48046364 ATTACCAAGATTTACTTGACTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTTACTTGACTAAGAAAATGCATTATATATTTT
48046407 ATTACC
1 ATTACC
48046413 TTGCATATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGACTAAGAAAATGCATTATATATTTT
Found at i:48046676 original size:16 final size:16
Alignment explanation
Indices: 48046657--48046687 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48046647 TATTATTTGA
48046657 AAAAAATATATTTTTT
1 AAAAAATATATTTTTT
*
48046673 AAAAGATATATTTTT
1 AAAAAATATATTTTT
48046688 AGCGGCGTTT
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AAAAAATATATTTTTT
Found at i:48046814 original size:42 final size:43
Alignment explanation
Indices: 48046685--48046889 Score: 229
Period size: 42 Copynumber: 4.8 Consensus size: 43
48046675 AAGATATATT
* * * *
48046685 TTTAGCGGCGTTTGTGGGAAAAAGTGCCGCTAAAGCTCAAT-ATC
1 TTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAGGTC-TTGGTC
* *
48046729 TTTAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
48046772 TTTAGCGACGTTTGTGGG-GAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * * *
48046814 TTTAGTGGCATTTGTAGGG--AAGCACCGCTAAAGATCATGGTC
1 TTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
48046856 TTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
48046890 TTAGCGACGC
Statistics
Matches: 139, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.02
42 66 0.47
43 52 0.37
44 18 0.13
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:48046992 original size:22 final size:21
Alignment explanation
Indices: 48046960--48047004 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
48046950 TTAGTGGCGT
*
48046960 TAAAAAACGCCGCTAAAGGCC
1 TAAAAAACGCCGCTAAAAGCC
48046981 TAAAAAAGCGCCGCTAAAAGCC
1 TAAAAAA-CGCCGCTAAAAGCC
48047003 TA
1 TA
48047005 TTTTGGTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.44, C:0.27, G:0.18, T:0.11
Consensus pattern (21 bp):
TAAAAAACGCCGCTAAAAGCC
Found at i:48047102 original size:14 final size:12
Alignment explanation
Indices: 48047062--48047097 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
48047052 ATAAAGAGAG
*
48047062 AAAAATAATGTAA
1 AAAAATAAT-TTA
48047075 AAAAATAATTTA
1 AAAAATAATTTA
48047087 AAAAATAATTT
1 AAAAATAATTT
48047098 TTAAAGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
AAAAATAATTTA
Found at i:48047657 original size:18 final size:18
Alignment explanation
Indices: 48047630--48047667 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
48047620 AAATTTTAAC
48047630 TTTTACTCAAAAATA-TT
1 TTTTACTCAAAAATACTT
48047647 TTTTAACTCAAAAATACTT
1 TTTT-ACTCAAAAATACTT
48047666 TT
1 TT
48047668 AAAAAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTACTCAAAAATACTT
Found at i:48048150 original size:19 final size:20
Alignment explanation
Indices: 48048123--48048167 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
48048113 ATTATACACC
* *
48048123 AAAAAATAT-GAATTTAATT
1 AAAATATATAGAATTCAATT
48048142 AAAATATATAGAATTCAATT
1 AAAATATATAGAATTCAATT
*
48048162 TAAATA
1 AAAATA
48048168 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAATATATAGAATTCAATT
Found at i:48049036 original size:89 final size:89
Alignment explanation
Indices: 48048881--48049060 Score: 270
Period size: 89 Copynumber: 2.0 Consensus size: 89
48048871 AAAGCAAATG
* * *
48048881 AATTTTGATCATCAAACAGTCATGAACCAACATCCCAAATTCAGAAACATTTACATGTGAATCTG
1 AATTTTGATCATCAAACAATCATGAACCAACATCCCAAATTCAAAAACATTTACATGTGAACCTG
*
48048946 TCAAAGCAGAAATAATATTGTAGC
66 TCAAAGCAGAAATAACATTGTAGC
* * * * *
48048970 AATTTTGATTATCGAACAATCATGAACCAGCATCCCAAATTTAAAAAGATTTACATGTGAACCTG
1 AATTTTGATCATCAAACAATCATGAACCAACATCCCAAATTCAAAAACATTTACATGTGAACCTG
*
48049035 TCAAAGCAGAAATAGCATTGTAGC
66 TCAAAGCAGAAATAACATTGTAGC
48049059 AA
1 AA
48049061 ATGGAGTGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (89 bp):
AATTTTGATCATCAAACAATCATGAACCAACATCCCAAATTCAAAAACATTTACATGTGAACCTG
TCAAAGCAGAAATAACATTGTAGC
Found at i:48056067 original size:46 final size:46
Alignment explanation
Indices: 48055979--48056100 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 46
48055969 ATCTCAAGTC
48055979 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCT
* *
48056027 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGCT
* * *
48056073 GATGTATGTTCTAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
48056101 AGCCCTCATT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
45 2 0.03
46 47 0.70
47 14 0.21
48 4 0.06
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCT
Found at i:48056157 original size:48 final size:45
Alignment explanation
Indices: 48055969--48056157 Score: 148
Period size: 46 Copynumber: 4.0 Consensus size: 45
48055959 TTTGGCTCGT
* * *
48055969 ATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATC
1 ATCTCATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTC
* * *
48056016 ATCTCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT-TAC
1 ATCTCAT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-C
* * * * * * *
48056062 GTCTCGAGGCTGATGTATGTTCTAGACATGTCTTACACTAGCCCTC
1 ATCTC-ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC
* *
48056108 ATTTCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC
1 ATCTC-ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTC
48056156 AT
1 AT
48056158 AATGTGGTCA
Statistics
Matches: 113, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 58 0.51
47 31 0.27
48 23 0.20
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (45 bp):
ATCTCATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC
Found at i:48062339 original size:50 final size:50
Alignment explanation
Indices: 48062213--48062406 Score: 167
Period size: 51 Copynumber: 3.8 Consensus size: 50
48062203 GTTATGAGAA
* * *
48062213 CACATGTGTAGTACTATGTGCAGGCTACTATGTGT-TGAAGACGGTT-TTAGCT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAT-CAGA---TTGTTAGAT
* * * * *
48062265 CACGTGTCTAGTACTAAATGCAGGCTACTACGTGTATCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGTTAGAT
* * * * * *
48062315 CACATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTG-TTAGAT
* * * *
48062366 CACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA
48062407 GAGCTTCGGT
Statistics
Matches: 117, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 2 0.02
50 40 0.34
51 41 0.35
52 33 0.28
53 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGTTAGAT
Found at i:48062381 original size:51 final size:51
Alignment explanation
Indices: 48062264--48062414 Score: 178
Period size: 51 Copynumber: 3.0 Consensus size: 51
48062254 CGGTTTTAGC
* * * * * * * *
48062264 TCACGTGTCTAGTACTAAATGCAGGCTACTACGTGTATCAGATTG-TTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
* * *
48062314 TCACATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGATAGCTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
* *
48062365 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGAGAGCTTCG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCG
48062415 GTTACAAGGG
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 36 0.43
51 48 0.57
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (51 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
Found at i:48066351 original size:29 final size:30
Alignment explanation
Indices: 48066304--48066371 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
48066294 CGGCCCAAGA
* *
48066304 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
48066334 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
48066364 GCAAATAT
1 GTAAATAT
48066372 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:48068622 original size:46 final size:46
Alignment explanation
Indices: 48068570--48068797 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
48068560 AGTGTGCTCT
* *
48068570 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
48068616 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
48068662 CTGATATGAAATGAATAAGACCATGGTTGAAATATACTATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
48068708 GTGACATGAAATGAACAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
48068754 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
48068798 TCATGTCAAA
Statistics
Matches: 163, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 162 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:48077317 original size:20 final size:19
Alignment explanation
Indices: 48077274--48077317 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
48077264 AATGACTATT
*
48077274 TTTTAATATTTAAAATATA
1 TTTTAATATTTAAAATAAA
* *
48077293 GTTTATATATTTAAATTAAA
1 TTTTA-ATATTTAAAATAAA
48077313 TTTTA
1 TTTTA
48077318 CAAAAACTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTAATATTTAAAATAAA
Found at i:48077646 original size:29 final size:29
Alignment explanation
Indices: 48077592--48077649 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
48077582 TTATAAGGAT
*
48077592 TGTATCAAATTAGTCTCTCTATTATTAAA
1 TGTATCAAATTAGTCTCTCTACTATTAAA
* *
48077621 TGTATCAATTTAGTCTTTAC-ACTATTAAA
1 TGTATCAAATTAGTCTCT-CTACTATTAAA
48077650 AAGAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (29 bp):
TGTATCAAATTAGTCTCTCTACTATTAAA
Found at i:48078238 original size:20 final size:21
Alignment explanation
Indices: 48078195--48078242 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
48078185 AAATTAGAAA
48078195 AAAATAAATAAAAACTTTTAC
1 AAAATAAATAAAAACTTTTAC
48078216 AAAA-AAATAAAAACTTCTT-C
1 AAAATAAATAAAAACTT-TTAC
48078236 AAAATAA
1 AAAATAA
48078243 GTGAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATAAATAAAAACTTTTAC
Found at i:48078969 original size:8 final size:8
Alignment explanation
Indices: 48078953--48078995 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
48078943 ATCTTAAATT
48078953 TAAATATA
1 TAAATATA
*
48078961 TATATATA
1 TAAATATA
*
48078969 TAAATAAA
1 TAAATATA
*
48078977 TAAATATT
1 TAAATATA
48078985 TAAAATATA
1 T-AAATATA
48078994 TA
1 TA
48078996 TACTAATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAATATA
Found at i:48079014 original size:29 final size:31
Alignment explanation
Indices: 48078946--48079074 Score: 101
Period size: 29 Copynumber: 4.2 Consensus size: 31
48078936 TAATTTAATC
48078946 TTAAATTTAAATATATATATATATAAATAAA
1 TTAAATTTAAATATATATATATATAAATAAA
* *
48078977 TAAATATTTAAA-ATATATATA-CT-AATAAA
1 TTAA-ATTTAAATATATATATATATAAATAAA
*
48079006 TTTAAATTTAAAT-TTTATATTAATATTAATATTAAA
1 -TTAAATTTAAATATATATA-T-ATA-TAA-A-TAAA
*
48079042 -TAAATTTAATTATAT-TATAT-TAAATAAA
1 TTAAATTTAAATATATATATATATAAATAAA
*
48079070 ATAAA
1 TTAAA
48079075 AATCCCCCAC
Statistics
Matches: 79, Mismatches: 7, Indels: 26
0.71 0.06 0.23
Matches are distributed among these distances:
28 4 0.05
29 23 0.29
30 8 0.10
31 13 0.16
32 9 0.11
33 2 0.03
34 13 0.16
35 3 0.04
36 4 0.05
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (31 bp):
TTAAATTTAAATATATATATATATAAATAAA
Found at i:48079068 original size:24 final size:28
Alignment explanation
Indices: 48079014--48079069 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 28
48079004 AATTTAAATT
48079014 TAAATTTTATATTAATATTAATATTAAA
1 TAAATTTTATATTAATATTAATATTAAA
48079042 TAAA-TTTA-ATT-ATATT-ATATTAAA
1 TAAATTTTATATTAATATTAATATTAAA
48079066 TAAA
1 TAAA
48079070 ATAAAAATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.43
25 5 0.18
26 3 0.11
27 4 0.14
28 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TAAATTTTATATTAATATTAATATTAAA
Found at i:48079143 original size:26 final size:25
Alignment explanation
Indices: 48079112--48079169 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
48079102 CCACCACCGT
*
48079112 ACTTCAACAT-CCATCTTTCCATGCAA
1 ACTTCAACATGCCATC-GTCC-TGCAA
48079138 ACTTCAA-ATGCCATCGTCCTGCAA
1 ACTTCAACATGCCATCGTCCTGCAA
*
48079162 ATTTCAAC
1 ACTTCAAC
48079170 CTCCCATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 11 0.39
25 5 0.18
26 12 0.43
ACGTcount: A:0.31, C:0.33, G:0.07, T:0.29
Consensus pattern (25 bp):
ACTTCAACATGCCATCGTCCTGCAA
Found at i:48092524 original size:30 final size:30
Alignment explanation
Indices: 48092488--48092548 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
48092478 ATTTTATTGT
*
48092488 TAATTTTTTTATTATTTTAAAGACATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
* *
48092518 TAATTTTGTTATTATTTTAGAGGCATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
48092548 T
1 T
48092549 TGTTAAGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGACATTTGC
Found at i:48104192 original size:18 final size:17
Alignment explanation
Indices: 48104165--48104199 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48104155 TTACTATTAA
*
48104165 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48104183 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48104200 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48104328 original size:120 final size:120
Alignment explanation
Indices: 48104075--48104306 Score: 360
Period size: 120 Copynumber: 1.9 Consensus size: 120
48104065 AATGATCTTN
* * * *
48104075 AAAATTCTTAATAATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAA
1 AAAATTCTTAAT-ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAA
*
48104139 ATATAAATTAACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAAT
65 ATATAAATTAACATAATTACTATTAAATATAATTTAATTAAAATATATAATTTAAT
* *
48104195 AAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAA
1 AAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
* *
48104260 TATAATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
66 TATAAATTAACATAATTACTATTAAATATAATTTAATTAAAATATATA
48104307 TTTTCAATTA
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
119 14 0.14
120 88 0.86
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
TATAAATTAACATAATTACTATTAAATATAATTTAATTAAAATATATAATTTAAT
Found at i:48105291 original size:18 final size:17
Alignment explanation
Indices: 48105268--48105335 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
48105258 AATTATTATT
48105268 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
48105284 AAATATATAATTTAATA
1 AAATATATAATTTAATA
*
48105301 AAAT-TCTTAA--TAAT-
1 AAATAT-ATAATTTAATA
48105315 AAATATATAATTTAATA
1 AAATATATAATTTAATA
48105332 AAAT
1 AAAT
48105336 TCTCAATTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
14 7 0.16
15 5 0.12
16 13 0.30
17 14 0.33
18 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:48105298 original size:14 final size:15
Alignment explanation
Indices: 48105261--48105300 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
48105251 TTAACATAAT
48105261 TATT-ATTAAATATA
1 TATTAATTAAATATA
48105275 TATTAATTAAA-ATA
1 TATTAATTAAATATA
*
48105289 TA-TAATTTAATA
1 TATTAATTAAATA
48105301 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTAAATATA
Found at i:48105332 original size:16 final size:15
Alignment explanation
Indices: 48105267--48105333 Score: 50
Period size: 16 Copynumber: 4.3 Consensus size: 15
48105257 TAATTATTAT
48105267 TAAATATATA-TTAA
1 TAAATATATATTTAA
48105281 TTAAAATATATAATTTAA
1 -T-AAATATAT-ATTTAA
*
48105299 TAAA-AT-TCTTAATAA
1 TAAATATATATT--TAA
48105314 TAAATATATAATTTAA
1 TAAATATAT-ATTTAA
48105330 TAAA
1 TAAA
48105334 ATTCTCAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
13 2 0.05
14 1 0.02
15 10 0.24
16 20 0.48
17 3 0.07
18 6 0.14
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATATATATTTAA
Found at i:48115883 original size:37 final size:39
Alignment explanation
Indices: 48115841--48115916 Score: 111
Period size: 37 Copynumber: 2.0 Consensus size: 39
48115831 AAGGCAAAAT
* * *
48115841 TGACATTATATATTTT-TAA-TTATATTTTAAAATTTAA
1 TGACATTATATATTTTCAAAGTAATATATTAAAATTTAA
48115878 TGACATTATATATTTTCAAAGTAATATATTAAAATTTAA
1 TGACATTATATATTTTCAAAGTAATATATTAAAATTTAA
48115917 CAAATTTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 16 0.47
38 2 0.06
39 16 0.47
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (39 bp):
TGACATTATATATTTTCAAAGTAATATATTAAAATTTAA
Found at i:48118032 original size:23 final size:23
Alignment explanation
Indices: 48117997--48118049 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
48117987 AAAATTATAC
* *
48117997 CATCTTGGGTCTTACCATTTTCT
1 CATCTTTGGTCTTACCATTTGCT
* *
48118020 CATCTTTGTTCTTACTATTTGCT
1 CATCTTTGGTCTTACCATTTGCT
*
48118043 TATCTTT
1 CATCTTT
48118050 ATTATTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.09, T:0.55
Consensus pattern (23 bp):
CATCTTTGGTCTTACCATTTGCT
Found at i:48124966 original size:129 final size:132
Alignment explanation
Indices: 48124657--48125075 Score: 329
Period size: 131 Copynumber: 3.2 Consensus size: 132
48124647 GGCAATCGTG
* * * * ** * * * *
48124657 GAATCGTGCCCTAAT-GTGCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTCC
1 GAATCGTGCCCT-ATCGTGCTGGGTTGCGACTTCTCATTCGCCCAAAACAATCGAAGATCCCTTC
* * * * * * * * * * * * * *
48124721 AAAATTTCACGCATGTCTTCTAAAAATCATTTAAAATGAAGGCAA-TATTCGGTGATTGACAATT
65 GAAGTTTCACTCACGTTTTCTAAAAACCCTTTAAAACGAAAG-AAGTGTTCGATGTTTGGCAGTT
48124785 CGG-
129 CGGA
* * * * * * * *
48124788 GAATCATGCCCTATCGTGCTGGGTTGTGACTTCTCGTTTGCTCAAAACAATCGAATATTCCTT-T
1 GAATCGTGCCCTATCGTGCTGGGTTGCGACTTCTCATTCGCCCAAAACAATCGAAGATCCCTTCG
* * *
48124852 AGGTTTTCACTCATGTTTAT-TAAAAA-CCTTTCAAAAC-AAAGGA-TGTTCGATGTTTGGC-GA
66 AAG-TTTCACTCACGTTT-TCTAAAAACCCTTT-AAAACGAAAGAAGTGTTCGATGTTTGGCAG-
*
48124912 TT-TGA
127 TTCGGA
* *
48124917 GAATCGTGCCCTATCGTGCTGGGTTGCG-CTTTTTCATTCGCCCTAAACAATCGAAGATCCCTTC
1 GAATCGTGCCCTATCGTGCTGGGTTGCGAC-TTCTCATTCGCCCAAAACAATCGAAGATCCCTTC
*
48124981 GAAGTTTCATTCACGTTTTCTAAAAACCCTTTAAAACGAAAGAAGTGTTCGATGTTTGGCAGTTC
65 GAAGTTTCACTCACGTTTTCTAAAAACCCTTTAAAACGAAAGAAGTGTTCGATGTTTGGCAGTTC
*
48125046 GGG
130 GGA
*
48125049 GAATAGTGCCCTATCGTGCTGGGTTGC
1 GAATCGTGCCCTATCGTGCTGGGTTGC
48125076 AATCTCCTGT
Statistics
Matches: 233, Mismatches: 41, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
128 3 0.01
129 89 0.38
130 22 0.09
131 90 0.39
132 29 0.12
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (132 bp):
GAATCGTGCCCTATCGTGCTGGGTTGCGACTTCTCATTCGCCCAAAACAATCGAAGATCCCTTCG
AAGTTTCACTCACGTTTTCTAAAAACCCTTTAAAACGAAAGAAGTGTTCGATGTTTGGCAGTTCG
GA
Found at i:48127032 original size:26 final size:26
Alignment explanation
Indices: 48126985--48127058 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
48126975 TTTCTCACCC
**
48126985 CAATTTTACCGTA-GTAAAATTTTGA
1 CAATTTTACCCCAGGTAAAATTTTGA
*
48127010 TAATTTTACCCCAGGTAAAATTTTGA
1 CAATTTTACCCCAGGTAAAATTTTGA
* * *
48127036 CGATTTTACCCCTGATAAAATTT
1 CAATTTTACCCCAGGTAAAATTT
48127059 CGAGAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 10 0.24
26 31 0.76
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (26 bp):
CAATTTTACCCCAGGTAAAATTTTGA
Found at i:48127219 original size:12 final size:12
Alignment explanation
Indices: 48127202--48127235 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48127192 GGATTGTAAG
48127202 TTTCCATTTTCA
1 TTTCCATTTTCA
*
48127214 TTTCCATTTCCA
1 TTTCCATTTTCA
*
48127226 TTTTCATTTT
1 TTTCCATTTT
48127236 TGGAAACCTA
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:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTCCATTTTCA
Found at i:48129414 original size:21 final size:20
Alignment explanation
Indices: 48129380--48129426 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
48129370 CTAAAATGTG
*
48129380 AATTTAATTGAATTGAATATA
1 AATTTAATTAAATTGAAT-TA
* *
48129401 AATTTTATTAAATTGAGTTA
1 AATTTAATTAAATTGAATTA
48129421 AATTTA
1 AATTTA
48129427 CCCGTATAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.47
Consensus pattern (20 bp):
AATTTAATTAAATTGAATTA
Found at i:48129839 original size:24 final size:24
Alignment explanation
Indices: 48129774--48129839 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 24
48129764 GGAAAAAACG
* *
48129774 TCCCGTTATTAGCTCTCATGAGCT
1 TCCCGTTAATAGCTCTTATGAGCT
* * * * *
48129798 TTCCATTATATGGTTCTTGTGAGCT
1 TCCCGTTA-ATAGCTCTTATGAGCT
48129823 TCCCGTTAATAGCTCTT
1 TCCCGTTAATAGCTCTT
48129840 CGGAGCATCC
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.42
Consensus pattern (24 bp):
TCCCGTTAATAGCTCTTATGAGCT
Found at i:48129978 original size:25 final size:24
Alignment explanation
Indices: 48129924--48130018 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
48129914 GGCTCTTTGT
* *
48129924 GAGCATCCCGATTAATGGCTCTCC
1 GAGCTTCCCGATTAATGGCTCTCA
*
48129948 GAAGCTTCCTGATTAATGGCTCTTCA
1 G-AGCTTCCCGATTAATGGCTC-TCA
* * *
48129974 GAGCTACCCG-TTATTGGCTCACA
1 GAGCTTCCCGATTAATGGCTCTCA
*
48129997 TGAGCTTCTCGATT-ATGGCTCT
1 -GAGCTTCCCGATTAATGGCTCT
48130019 TATGAGTTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
23 2 0.04
24 24 0.43
25 27 0.48
26 3 0.05
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (24 bp):
GAGCTTCCCGATTAATGGCTCTCA
Found at i:48130079 original size:25 final size:25
Alignment explanation
Indices: 48129974--48130091 Score: 69
Period size: 25 Copynumber: 4.8 Consensus size: 25
48129964 TGGCTCTTCA
*
48129974 GAGCTACCCGTTAT-TGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * **
48129998 GAGCTTCTCGAT-TATGGCTCTTAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * *** * **
48130022 GAGTTTCCTGTTATACAACCCGGAT
1 GAGCTTCCCGTTATATGGCTCACAT
*
48130047 AAGCTTCCCGTTATATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * *
48130072 GAGTTTCCCATTATTTGGCT
1 GAGCTTCCCGTTATATGGCT
48130092 AGAGAGAGGG
Statistics
Matches: 64, Mismatches: 28, Indels: 3
0.67 0.29 0.03
Matches are distributed among these distances:
23 1 0.02
24 25 0.39
25 38 0.59
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:48146939 original size:16 final size:17
Alignment explanation
Indices: 48146918--48146955 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
48146908 TATTTTATAC
48146918 TTTCCT-TTCTCTTATT
1 TTTCCTATTCTCTTATT
*
48146934 TTTCCTATTCTTTTATT
1 TTTCCTATTCTCTTATT
48146951 TTTCC
1 TTTCC
48146956 ATAAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTCCTATTCTCTTATT
Found at i:48146981 original size:10 final size:9
Alignment explanation
Indices: 48146958--48147004 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 9
48146948 ATTTTTCCAT
48146958 AAATAAATA
1 AAATAAATA
48146967 GAAATAGAA-A
1 -AAATA-AATA
48146977 TAAATAATATA
1 -AAATAA-ATA
48146988 AAATAAATA
1 AAATAAATA
48146997 AAATAAAT
1 AAATAAAT
48147005 TTAAATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
9 12 0.36
10 18 0.55
11 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (9 bp):
AAATAAATA
Found at i:48150275 original size:17 final size:17
Alignment explanation
Indices: 48150253--48150288 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
48150243 ACACACTCTT
48150253 GAGGAACATTCAGGATA
1 GAGGAACATTCAGGATA
48150270 GAGGAACATTCAGGATA
1 GAGGAACATTCAGGATA
48150287 GA
1 GA
48150289 AAGAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (17 bp):
GAGGAACATTCAGGATA
Found at i:48150358 original size:44 final size:43
Alignment explanation
Indices: 48150303--48150389 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 43
48150293 AAAAATGAAT
48150303 CCTGCTCAAGCAAGAAAATTGAAAAAGAAAGAACAAACAGGTA
1 CCTGCTCAAGCAAGAAAATTGAAAAAGAAAGAACAAACAGGTA
* *
48150346 NCCTGCTGAAGCATGAAAATTGAAAAAGAAAGAACAAACAGGTA
1 -CCTGCTCAAGCAAGAAAATTGAAAAAGAAAGAACAAACAGGTA
48150390 TTTGACGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.52, C:0.15, G:0.20, T:0.13
Consensus pattern (43 bp):
CCTGCTCAAGCAAGAAAATTGAAAAAGAAAGAACAAACAGGTA
Found at i:48173617 original size:11 final size:11
Alignment explanation
Indices: 48173603--48173654 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
48173593 TCTTTCAATA
48173603 TTCTCTCAAAT
1 TTCTCTCAAAT
48173614 TTCTCTCAAA-
1 TTCTCTCAAAT
*
48173624 -TCACTCAAAT
1 TTCTCTCAAAT
*
48173634 TTCTCTTAAAT
1 TTCTCTCAAAT
*
48173645 TCCTCTCAAA
1 TTCTCTCAAA
48173655 ACTCTCGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
11 26 0.76
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:48173632 original size:20 final size:20
Alignment explanation
Indices: 48173607--48173644 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48173597 TCAATATTCT
48173607 CTCAAATTTCTCTCAAATCA
1 CTCAAATTTCTCTCAAATCA
*
48173627 CTCAAATTTCTCTTAAAT
1 CTCAAATTTCTCTCAAAT
48173645 TCCTCTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.39
Consensus pattern (20 bp):
CTCAAATTTCTCTCAAATCA
Found at i:48173711 original size:16 final size:15
Alignment explanation
Indices: 48173682--48173712 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48173672 TAAAAAAAAC
*
48173682 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
48173697 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
48173712 T
1 T
48173713 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:48175379 original size:30 final size:30
Alignment explanation
Indices: 48175329--48175392 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
48175319 ACGACGCAGA
*
48175329 CCCATCAACAGCACCCACACAATCACCCGG
1 CCCAGCAACAGCACCCACACAATCACCCGG
* * * *
48175359 CCCAGCAACAGGACCTACACAGTCACCGGG
1 CCCAGCAACAGCACCCACACAATCACCCGG
48175389 CCCA
1 CCCA
48175393 ACAGTTCAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (30 bp):
CCCAGCAACAGCACCCACACAATCACCCGG
Found at i:48175469 original size:18 final size:18
Alignment explanation
Indices: 48175446--48175488 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
48175436 TGCCAAGTAC
* *
48175446 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
48175464 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
48175482 GTTTCCT
1 GTATCCT
48175489 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:48176077 original size:116 final size:116
Alignment explanation
Indices: 48175873--48176354 Score: 883
Period size: 116 Copynumber: 4.2 Consensus size: 116
48175863 TATTTGTACA
* *
48175873 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
48175938 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
48175989 AACATTTTGAATATTTTTATATTGTTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
48176054 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
48176105 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTATTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
48176170 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAAGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * *
48176221 AACATTTTAAATATTTTTATATTATTTTATGTAATTAGATAAAAGGTTGTTTTAAATAAAATAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
48176286 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
48176337 AACATTTTGAATATTTTT
1 AACATTTTGAATATTTTT
48176355 GTCGAAACCA
Statistics
Matches: 352, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 352 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:48176215 original size:54 final size:54
Alignment explanation
Indices: 48176151--48176333 Score: 190
Period size: 54 Copynumber: 3.2 Consensus size: 54
48176141 AGATAAAAGG
48176151 TTATTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAA
1 TTATTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAA
* * * * * *
48176205 TTATTTTAAATAAAGCAACATTTTAA-ATATTTTTATATTATTTTATGTAATTAGAT-AAAA
1 TTATTTTAAATAAAG-TA-ATTGTAATTTACTTTTATA-T-TTTTA-ATAA--A-ATGGAAA
* *
48176265 GGTTGTTTTAAATAAAATAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAA
1 --TTATTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAA
48176321 TTATTTTAAATAA
1 TTATTTTAAATAA
48176334 GGCAACATTT
Statistics
Matches: 102, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
54 27 0.26
55 12 0.12
56 11 0.11
57 5 0.05
58 6 0.06
59 5 0.05
60 11 0.11
61 12 0.12
62 13 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (54 bp):
TTATTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAA
Found at i:48179335 original size:22 final size:21
Alignment explanation
Indices: 48179296--48179354 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
48179286 GGTTTGGGTA
48179296 TTATATTTGGGCTATTGGACTT
1 TTATATTTGGGCTATTGGA-TT
*
48179318 TTATATTT-GGTTATTTGGATT
1 TTATATTTGGGCTA-TTGGATT
*
48179339 TTGTTATATTGGGCTA
1 TT-ATAT-TTGGGCTA
48179355 GGGTTTGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 8 0.27
22 16 0.53
23 2 0.07
24 4 0.13
ACGTcount: A:0.19, C:0.05, G:0.22, T:0.54
Consensus pattern (21 bp):
TTATATTTGGGCTATTGGATT
Found at i:48182978 original size:125 final size:125
Alignment explanation
Indices: 48182571--48183233 Score: 1047
Period size: 126 Copynumber: 5.3 Consensus size: 125
48182561 GCCCAAGTTA
* * * * * *
48182571 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTAAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAA
* ** *
48182636 TGCAGCCTGCTTGAAGCGTTTTTGACACTATTTATGTAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTT-ACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
48182697 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAA
* *
48182762 TGCATCATGCTTGAAGCGTTTTTACCATTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
48182823 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAA
* * *
48182888 TGCATCCTGCTTGAAGCGTTTTTATACTATTTGCACAGACACGTCTTTTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
48182948 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAA
* * *
48183013 TGCATCCTGCTTGAAGCGTTTTTATACTATTTGCACAGACACGTCTTTTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
48183073 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAA
*
48183138 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTT-ACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
48183199 TTTTAGAGACTACTGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
48183234 AGAAGGTTTT
Statistics
Matches: 503, Mismatches: 32, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
125 243 0.48
126 260 0.52
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (125 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAA
TGCATCCTGCTTGAAGCGTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:48183017 original size:251 final size:251
Alignment explanation
Indices: 48182571--48183233 Score: 1067
Period size: 251 Copynumber: 2.6 Consensus size: 251
48182561 GCCCAAGTTA
* * * *
48182571 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTAAAAA
1 TTTCAGAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
* ** *
48182636 TGCAGCCTGCTTGAAGCGTTTTTGACACTATTTATGTAGACACGTCTTCTCAAAATTATTTTTTC
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTC
* *
48182701 AGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
131 AGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
* *
48182766 TCATGCTTGAAGCGTTTTTACCATTATTTGCGCAGACACGTCTTCTCAAAATTATTT
196 TCATGCTTGAAGCGTTTTTA-CACTATTTGCACAGACACGTCTTCTCAAAATTATTT
* *
48182823 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
* * *
48182888 TGCATCCTGCTTGAAGCGTTTTT-ATACTATTTGCACAGACACGTCTTTTCAAAATTATTTTTTC
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTC
* * *
48182952 AGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAATGCA
131 AGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
* * *
48183017 TCCTGCTTGAAGCGTTTTTATACTATTTGCACAGACACGTCTTTTCAAAATTATTT
196 TCATGCTTGAAGCGTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
* *
48183073 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTAATTTTGCTGACAA
1 TTTCAGAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
* *
48183138 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTTTTTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTC
48183203 AGAGACTACTGTAGCAAAAGAGCGTCCACGT
131 AGAGACTACTGTAGCAAAAGAGCGTCCACGT
48183234 AGAAGGTTTT
Statistics
Matches: 378, Mismatches: 32, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
250 117 0.31
251 180 0.48
252 81 0.21
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (251 bp):
TTTCAGAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTC
AGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
TCATGCTTGAAGCGTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
Found at i:48183444 original size:95 final size:96
Alignment explanation
Indices: 48183343--48183515 Score: 242
Period size: 96 Copynumber: 1.8 Consensus size: 96
48183333 CCTAAAATCC
* * * ** * *
48183343 TAATCTATTTTTTTAAATTTA-TAATTAATTTACTCAA-GTAACCTTAAACCCTAATTTATTTGA
1 TAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAACAAAAAC-TAAACCCTAATTTATTTAA
48183406 TTTTTTCCTTAAAAACCATAAGCACTAAACCA
65 TTTTTTCCTTAAAAACCATAAGCACTAAACCA
* *
48183438 TAATCTAATTTTTTAAAATTAGTAATTAATTTAATTAACAAAAACTAAACCTTAATTTATTTAAT
1 TAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAACAAAAACTAAACCCTAATTTATTTAAT
48183503 TTTTTCCTTAAAA
66 TTTTTCCTTAAAA
48183516 CCCTAAAATT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
95 19 0.28
96 45 0.67
97 3 0.04
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.44
Consensus pattern (96 bp):
TAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAACAAAAACTAAACCCTAATTTATTTAAT
TTTTTCCTTAAAAACCATAAGCACTAAACCA
Found at i:48183530 original size:15 final size:15
Alignment explanation
Indices: 48183510--48183541 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48183500 AATTTTTTCC
*
48183510 TTAAAACCCTAAAAT
1 TTAAAAACCTAAAAT
48183525 TTAAAAACCTAAAAT
1 TTAAAAACCTAAAAT
48183540 TT
1 TT
48183542 CCAAAATCCT
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:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAAAACCTAAAAT
Found at i:48185579 original size:3 final size:3
Alignment explanation
Indices: 48185571--48185605 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
48185561 ATATTGAAAT
48185571 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
48185606 GCAACACATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:48185580 original size:199 final size:201
Alignment explanation
Indices: 48185317--48185728 Score: 533
Period size: 217 Copynumber: 2.0 Consensus size: 201
48185307 TTTTCATTAT
* *
48185317 ATATAAATATATATTAAAAATATATAATAAAGAATGACACCGTAAAATTTG-A-AAT-TAATAAT
1 ATATAAATATATATTAAAAATATATAATAAACAATGACACCATAAAATTTGAATAATATAATAAT
* * *
48185379 AATAATAATAGCAACACTTTAATAAGGTTTAAAAATATTTTAAGATTATTTTAATAATTTAATTA
66 AATAATAATAGCAACACATCAATAAAGTTTAAAAATATTTTAAGATTATTTTAATAATTTAATTA
* * *
48185444 ATTAAGTTAGTGTTAAATTCACTCGTAACACAAATTTAATCATGCACTTAAATAATAATAATAAC
131 ACTAAGTTAGTGTT-AATTCACTCATAACACAAATTTAATCATGCAATTAAATAATAATAATAAC
48185509 AATAACA
195 AATAACA
* *
48185516 ATATAAATATATATTAGAAATATATAATAAACAATGACACCATAAATATTGAAATTAATAATAAT
1 ATATAAATATATATTAAAAATATATAATAAACAATGACACC----ATA---AAA-T--T--T--G
48185581 AATAATAATAATAATAATAATAATAGCAACACATCAATAAAGTTTAAAAATATTTTAAGATTATT
52 AATAAT-ATAATAATAATAATAATAGCAACACATCAATAAAGTTTAAAAATATTTTAAGATTATT
* * *
48185646 TTAATAATTTAATTAACTAAGTTGGTGTTGATTTACTCATAACACAAATTTAATCATGCAATTAA
116 TTAATAATTTAATTAACTAAGTTAGTGTTAATTCACTCATAACACAAATTTAATCATGCAATTAA
*
48185711 ATAATAATAATAATAATA
181 ATAATAATAATAACAATA
48185729 TTATGGATAC
Statistics
Matches: 181, Mismatches: 14, Indels: 19
0.85 0.07 0.09
Matches are distributed among these distances:
199 39 0.22
203 2 0.01
206 3 0.02
207 1 0.01
209 1 0.01
211 1 0.01
214 1 0.01
215 3 0.02
216 49 0.27
217 81 0.45
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (201 bp):
ATATAAATATATATTAAAAATATATAATAAACAATGACACCATAAAATTTGAATAATATAATAAT
AATAATAATAGCAACACATCAATAAAGTTTAAAAATATTTTAAGATTATTTTAATAATTTAATTA
ACTAAGTTAGTGTTAATTCACTCATAACACAAATTTAATCATGCAATTAAATAATAATAATAACA
ATAACA
Found at i:48186212 original size:16 final size:16
Alignment explanation
Indices: 48186191--48186223 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48186181 GATTAATTTA
48186191 TTTAAAACAAATAGAT
1 TTTAAAACAAATAGAT
*
48186207 TTTAAAATAAATAGAT
1 TTTAAAACAAATAGAT
48186223 T
1 T
48186224 AATTTACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (16 bp):
TTTAAAACAAATAGAT
Found at i:48199798 original size:26 final size:26
Alignment explanation
Indices: 48199767--48199826 Score: 93
Period size: 27 Copynumber: 2.3 Consensus size: 26
48199757 GTGTTTCTCA
*
48199767 ACAAGGGCCTATATGTGGACAACCTC
1 ACAAGGGCCTACATGTGGACAACCTC
*
48199793 ACAAGGGGTCTACATGTGGACAACCTC
1 ACAA-GGGCCTACATGTGGACAACCTC
48199820 ACAAGGG
1 ACAAGGG
48199827 GTGGTTGACC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.17
Consensus pattern (26 bp):
ACAAGGGCCTACATGTGGACAACCTC
Found at i:48201821 original size:23 final size:23
Alignment explanation
Indices: 48201780--48201832 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
48201770 TTAACTGACT
* * *
48201780 TATTTAAAATATTATAAAATATA
1 TATTTAAAATATGATAAAAAAAA
48201803 TATTTAAAATAATGA-AAAAAAAA
1 TATTTAAAAT-ATGATAAAAAAAA
48201826 TATTTAA
1 TATTTAA
48201833 GTGACTTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
TATTTAAAATATGATAAAAAAAA
Found at i:48207540 original size:12 final size:11
Alignment explanation
Indices: 48207523--48207555 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
48207513 CTATTCTTGC
48207523 TGTTTTTTTTCT
1 TGTTTTTTTT-T
48207535 TG-TTTTTTTT
1 TGTTTTTTTTT
48207545 TGTTTTTTTTT
1 TGTTTTTTTTT
48207556 CACTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.15
11 15 0.75
12 2 0.10
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (11 bp):
TGTTTTTTTTT
Found at i:48207553 original size:10 final size:10
Alignment explanation
Indices: 48207526--48207555 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
48207516 TTCTTGCTGT
48207526 TTTTTTTCTTG
1 TTTTTTT-TTG
48207537 TTTTTTTTTG
1 TTTTTTTTTG
48207547 TTTTTTTTT
1 TTTTTTTTT
48207556 CACTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:48207745 original size:18 final size:18
Alignment explanation
Indices: 48207719--48207761 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
48207709 TTTATTTTTA
*
48207719 ATTTATTGATGT-TTTTAGT
1 ATTT-TTGATGTATTATA-T
48207738 ATTTTTGATGTATTATAT
1 ATTTTTGATGTATTATAT
48207756 ATTTTT
1 ATTTTT
48207762 AAAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (18 bp):
ATTTTTGATGTATTATAT
Found at i:48207785 original size:13 final size:13
Alignment explanation
Indices: 48207761--48207797 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
48207751 TATATATTTT
48207761 TAAAAAATT-ATA
1 TAAAAAATTAATA
48207773 T-AAAAA-TAATA
1 TAAAAAATTAATA
48207784 TAAAAAATTAATA
1 TAAAAAATTAATA
48207797 T
1 T
48207798 GGGTGGAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.05
11 9 0.41
12 6 0.27
13 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:48209527 original size:31 final size:31
Alignment explanation
Indices: 48209492--48209558 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
48209482 CTTCCTGCAT
* *
48209492 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
48209523 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
48209554 TAAAA
1 TAAAA
48209559 AATACAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:48215462 original size:9 final size:9
Alignment explanation
Indices: 48215448--48215560 Score: 100
Period size: 9 Copynumber: 11.9 Consensus size: 9
48215438 ATGTATTAGT
48215448 TAAGTTATG
1 TAAGTTATG
48215457 TAAGTTGTTATG
1 TAA---GTTATG
*
48215469 TACGTTATG
1 TAAGTTATG
*
48215478 TGAGTTATG
1 TAAGTTATG
*
48215487 TAAATTATG
1 TAAGTTATG
48215496 TAAGTTATG
1 TAAGTTATG
*
48215505 TAAATTATG
1 TAAGTTATG
48215514 TAAGTTGTTATG
1 TAA---GTTATG
* *
48215526 TAAATTACG
1 TAAGTTATG
*
48215535 TAAGTTATA
1 TAAGTTATG
*
48215544 TGAGTTATG
1 TAAGTTATG
48215553 TAAGTTAT
1 TAAGTTAT
48215561 ATAATTTATT
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
9 66 0.80
12 16 0.20
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:48215516 original size:57 final size:57
Alignment explanation
Indices: 48215452--48215569 Score: 155
Period size: 57 Copynumber: 2.1 Consensus size: 57
48215442 ATTAGTTAAG
** * * * *
48215452 TTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTATATAAA
* * *
48215509 TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATGAGTTATGTAAGTTATATAAT
1 TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTATATAAA
48215566 TTAT
1 TTAT
48215570 TGAAGTAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (57 bp):
TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTATATAAA
Found at i:48215524 original size:39 final size:39
Alignment explanation
Indices: 48215481--48215558 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
48215471 CGTTATGTGA
* *
48215481 GTTATGTAAATTATGTAAGTTATGTAAATTATGTAAGTT
1 GTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTT
* *
48215520 GTTATGTAAATTACGTAAGTTATATGAGTTATGTAAGTT
1 GTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTT
48215559 ATATAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (39 bp):
GTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTT
Found at i:48216121 original size:241 final size:241
Alignment explanation
Indices: 48215695--48216339 Score: 1236
Period size: 241 Copynumber: 2.7 Consensus size: 241
48215685 TGAATATAGT
48215695 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
48215760 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
*
48215825 AGGTTGGATAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAACAAGCTACATGGTAATAAAT
131 AGGTTGGATAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAACAACCTACATGGTAATAAAT
48215890 ATTCAATAGTAAATGAGCTCGATAGAACTATTTTCAAGTCTTTTTA
196 ATTCAATAGTAAATGAGCTCGATAGAACTATTTTCAAGTCTTTTTA
48215936 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
48216001 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
*
48216066 AGGTTGGATAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAACCTACATGGTAATAAAT
131 AGGTTGGATAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAACAACCTACATGGTAATAAAT
48216131 ATTCAATAGTAAATGAGCTCGATAGAACTATTTTCAAGTCTTTTTA
196 ATTCAATAGTAAATGAGCTCGATAGAACTATTTTCAAGTCTTTTTA
48216177 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
*
48216242 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
* * *
48216307 ATGTTGGAGAGAAGGTCAGCTATTGTTTTAATT
131 AGGTTGGATAGAAGGTCAGCTATTGTTGTAATT
48216340 GCTTATAAAT
Statistics
Matches: 398, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 398 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
AGGTTGGATAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAACAACCTACATGGTAATAAAT
ATTCAATAGTAAATGAGCTCGATAGAACTATTTTCAAGTCTTTTTA
Found at i:48219183 original size:25 final size:25
Alignment explanation
Indices: 48219155--48219208 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
48219145 GCGGAGAGCA
*
48219155 ACGGCGAAGGGACACAGAAGAGACG
1 ACGGCGAAGAGACACAGAAGAGACG
*
48219180 ACGGCGAAGAGACGCAGAAGAGACG
1 ACGGCGAAGAGACACAGAAGAGACG
48219205 ACGG
1 ACGG
48219209 TGAACAACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.41, T:0.00
Consensus pattern (25 bp):
ACGGCGAAGAGACACAGAAGAGACG
Found at i:48219402 original size:27 final size:26
Alignment explanation
Indices: 48219371--48219425 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
48219361 GCCGTTTTGA
*
48219371 AAAAAAAATAACTGTTTGCGGCGCTTTC
1 AAAAAACA-AACT-TTTGCGGCGCTTTC
* *
48219399 AAAAAACAATCTTTTGCGGCGTTTTC
1 AAAAAACAAACTTTTGCGGCGCTTTC
48219425 A
1 A
48219426 GGTGAACGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.58
27 3 0.12
28 7 0.29
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (26 bp):
AAAAAACAAACTTTTGCGGCGCTTTC
Found at i:48219820 original size:158 final size:156
Alignment explanation
Indices: 48219474--48219821 Score: 377
Period size: 158 Copynumber: 2.2 Consensus size: 156
48219464 CCTATTAAGC
* * *
48219474 ACTAATGT-TTTTTGCGGCGTTTATTTAAAAAACGCCGCTAATCCCTATATACTCAACTAAAACG
1 ACTAATCTGTTTTTGCGGCGTTTTTTTAAAAAACGCCGCAAATCCCTATATACTCAACTAAAACG
* * * **
48219538 ACGACGTGTACTATAAACTTGAATTATTTTGCGGCGTTTTTGAAAGTGCCACTAATACCCGTATA
66 ACGACGTGTACCATAAACTTGAATTATGTTGCGGCGTTTTTAAAAACGCCACTAATACCCGTATA
*
48219603 TACTAAAACGGCGCCGTTTTCGTTAA
131 TACTAAAACGACGCCGTTTTCGTTAA
* * * *
48219629 ACTAATCTGTATTTTGTGGCG-TTTTCTATAAAAACGCCGCAAATCCCCTATATATTGAACTAAA
1 ACTAATCTGT-TTTTGCGGCGTTTTTTTA-AAAAACGCCGCAAAT-CCCTATATACTCAACTAAA
* * * * * *
48219693 ACGACGACGCT-T-CCAGTACACTTTACTTCTGTTGCGGCGTTTTTAAAAACGCCACTAGTACTC
63 ACGACGACG-TGTACCA-TAAACTTGAATTATGTTGCGGCGTTTTTAAAAACGCCACTAATACCC
* *
48219756 -TATCA-ATCTAAAACGACGCCGTTTTCTTTCA
126 GTAT-ATA-CTAAAACGACGCCGTTTTCGTTAA
48219787 ACT-ATACTGTTTTGTGCGGCGTTTTTTTAAAAAAC
1 ACTAAT-CTGTTTT-TGCGGCGTTTTTTTAAAAAAC
48219822 ACCACTAATC
Statistics
Matches: 159, Mismatches: 23, Indels: 19
0.79 0.11 0.09
Matches are distributed among these distances:
155 7 0.04
156 6 0.04
157 34 0.21
158 105 0.66
159 7 0.04
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (156 bp):
ACTAATCTGTTTTTGCGGCGTTTTTTTAAAAAACGCCGCAAATCCCTATATACTCAACTAAAACG
ACGACGTGTACCATAAACTTGAATTATGTTGCGGCGTTTTTAAAAACGCCACTAATACCCGTATA
TACTAAAACGACGCCGTTTTCGTTAA
Found at i:48220816 original size:14 final size:14
Alignment explanation
Indices: 48220796--48220898 Score: 86
Period size: 14 Copynumber: 7.2 Consensus size: 14
48220786 TCCTACACCT
48220796 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
48220810 TATACCCTAAA-TCA
1 TAAACCCTAAACT-A
*
48220824 TAAACCCTTAAATTA
1 TAAACCC-TAAACTA
** *
48220839 GTAATTCCTATACCT-
1 -TAAACCCTA-AACTA
48220854 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
48220868 TATACCCTAAA-TCA
1 TAAACCCTAAACT-A
48220882 TAAACCCTAAACTA
1 TAAACCCTAAACTA
48220896 TAA
1 TAA
48220899 TGATAATTAA
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
13 5 0.07
14 49 0.70
15 8 0.11
16 8 0.11
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:48220832 original size:58 final size:58
Alignment explanation
Indices: 48220768--48220889 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 58
48220758 ACATAATTGT
48220768 AACCCTTAAATTAGTAATTCCTACACCTTAAACCCTAAACTATATACCCTAAATCATA
1 AACCCTTAAATTAGTAATTCCTACACCTTAAACCCTAAACTATATACCCTAAATCATA
*
48220826 AACCCTTAAATTAGTAATTCCTATACCTTAAACCCTAAACTATATACCCTAAATCATA
1 AACCCTTAAATTAGTAATTCCTACACCTTAAACCCTAAACTATATACCCTAAATCATA
48220884 AACCCT
1 AACCCT
48220890 AAACTATAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.41, C:0.28, G:0.02, T:0.30
Consensus pattern (58 bp):
AACCCTTAAATTAGTAATTCCTACACCTTAAACCCTAAACTATATACCCTAAATCATA
Found at i:48220885 original size:21 final size:21
Alignment explanation
Indices: 48220847--48220886 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48220837 TAGTAATTCC
* *
48220847 TATACCTTAAACCCTAAACTA
1 TATACCCTAAACCATAAACTA
*
48220868 TATACCCTAAATCATAAAC
1 TATACCCTAAACCATAAAC
48220887 CCTAAACTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (21 bp):
TATACCCTAAACCATAAACTA
Found at i:48221183 original size:7 final size:7
Alignment explanation
Indices: 48221171--48221297 Score: 107
Period size: 7 Copynumber: 18.1 Consensus size: 7
48221161 AAAAATGCCA
48221171 CTAAACC
1 CTAAACC
48221178 CTAAACC
1 CTAAACC
48221185 CTAAACC
1 CTAAACC
48221192 CTAAACC
1 CTAAACC
48221199 CTAAACC
1 CTAAACC
*
48221206 CTAAACT
1 CTAAACC
48221213 CTAAACC
1 CTAAACC
*
48221220 CTTAACC
1 CTAAACC
* *
48221227 ATTAACC
1 CTAAACC
*
48221234 CCAAACAC
1 CTAAAC-C
* *
48221242 TTACACC
1 CTAAACC
*
48221249 TTAAACTC
1 CTAAAC-C
48221257 C--AACC
1 CTAAACC
48221262 CT-AACC
1 CTAAACC
48221268 CTTAAACC
1 C-TAAACC
*
48221276 CTAAATC
1 CTAAACC
* *
48221283 ATAATCC
1 CTAAACC
48221290 CTAAACC
1 CTAAACC
48221297 C
1 C
48221298 ATAATTCATC
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
5 2 0.02
6 8 0.08
7 77 0.79
8 10 0.10
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:48221366 original size:21 final size:21
Alignment explanation
Indices: 48221340--48221470 Score: 100
Period size: 21 Copynumber: 5.9 Consensus size: 21
48221330 ACTCCTAAAC
48221340 CTTAAACCCTAAACCATATAT
1 CTTAAACCCTAAACCATATAT
** * *
48221361 CTTAAACTTTAGTTAACTCATAAAC
1 CTTAAACCCTA---AAC-CATATAT
*
48221386 CTTAAACCCTAAACTATATAT
1 CTTAAACCCTAAACCATATAT
** * *
48221407 CTTAAACTATAGTTAACTCATAAAC
1 CTTAAACCCTA---AAC-CATATAT
48221432 CTTAAACCCTAAACCATATAT
1 CTTAAACCCTAAACCATATAT
*
48221453 CTTAAACCATAAACCATA
1 CTTAAACCCTAAACCATA
48221471 AACTATAGTG
Statistics
Matches: 83, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
21 44 0.53
22 6 0.07
24 6 0.07
25 27 0.33
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.31
Consensus pattern (21 bp):
CTTAAACCCTAAACCATATAT
Found at i:48221377 original size:46 final size:46
Alignment explanation
Indices: 48221324--48221459 Score: 245
Period size: 46 Copynumber: 3.0 Consensus size: 46
48221314 CTTCAAATAC
* *
48221324 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACTT
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
*
48221370 TAGTTAACTCATAAACCTTAAACCCTAAACTATATATCTTAAACTA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
48221416 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
48221460 CATAAACCAT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.42, C:0.24, G:0.02, T:0.32
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
Found at i:48221439 original size:7 final size:7
Alignment explanation
Indices: 48221425--48221473 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
48221415 ATAGTTAACT
48221425 CATAAAC
1 CATAAAC
*
48221432 CTTAAAC
1 CATAAAC
*
48221439 CCTAAAC
1 CATAAAC
* *
48221446 CATATAT
1 CATAAAC
*
48221453 CTTAAAC
1 CATAAAC
48221460 CATAAAC
1 CATAAAC
48221467 CATAAAC
1 CATAAAC
48221474 TATAGTGATA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (7 bp):
CATAAAC
Found at i:48221696 original size:41 final size:41
Alignment explanation
Indices: 48221635--48221812 Score: 218
Period size: 41 Copynumber: 4.4 Consensus size: 41
48221625 GTTATATGAC
48221635 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
48221676 TTTTAGCGGGGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
48221717 TTTTAGCGGCGTTTTGCCAGAAGCGCCGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
48221757 TTTTTGTGGCATTTTTTACTAAAA-CGCCGCTATTGCTCT-GT
1 TTTTAGCGGC--GTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
48221798 TTTTAGTGGCGTTTT
1 TTTTAGCGGCGTTTT
48221813 TGGTAAAACG
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
39 4 0.03
40 9 0.08
41 98 0.82
42 8 0.07
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:48221813 original size:41 final size:40
Alignment explanation
Indices: 48221635--48221843 Score: 199
Period size: 41 Copynumber: 5.1 Consensus size: 40
48221625 GTTATATGAC
48221635 TTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTACCAAAA-CGCCGCTAATGCTCT-GT
*
48221676 TTTTAGCGGGGTTTTT-CCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTACCAAAA-CGCCGCTAATGCTCT-GT
* * *
48221717 TTTTAGCGGCG-TTTTGCCAGAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCGTTTTTACCA-AAACGCCGCTAATGCTCTGT
* * * * *
48221757 TTTTTGTGGCATTTTTTACTAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGC-GTTTTTACCAAAACGCCGCTAATGCTCTGT
* *** * *
48221798 TTTTAGTGGCGTTTTTGGTAAAACGCCGCTATTGCTATGT
1 TTTTAGCGGCGTTTTTACCAAAACGCCGCTAATGCTCTGT
48221838 GTTTTA
1 -TTTTA
48221844 CAATTTTTGC
Statistics
Matches: 145, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
40 39 0.27
41 94 0.65
42 12 0.08
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTACCAAAACGCCGCTAATGCTCTGT
Found at i:48221986 original size:25 final size:25
Alignment explanation
Indices: 48221958--48222027 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
48221948 TGAGCTTTTA
*
48221958 GATTTACAGCTCGTATGAACTTCTC
1 GATTTACAGCTCGTATGAACTTCCC
** * * *
48221983 GATTTGTATCTCGTTTGAGCTTCCC
1 GATTTACAGCTCGTATGAACTTCCC
* *
48222008 GATTCACAGCTTGTATGAAC
1 GATTTACAGCTCGTATGAAC
48222028 ATACATGAAT
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (25 bp):
GATTTACAGCTCGTATGAACTTCCC
Found at i:48225016 original size:34 final size:34
Alignment explanation
Indices: 48224970--48225045 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
48224960 TAGCCTTGCC
48224970 CTTTAAAA--AATGGTAAATATGTTTCTTAGTCT
1 CTTTAAAATTAATGGTAAATATGTTTCTTAGTCT
48225002 CTTTAAAATTAATGGTAAATATGTTTCTTAGTCT
1 CTTTAAAATTAATGGTAAATATGTTTCTTAGTCT
48225036 CTTTAAAATT
1 CTTTAAAATT
48225046 TATGAAATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 8 0.19
34 34 0.81
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (34 bp):
CTTTAAAATTAATGGTAAATATGTTTCTTAGTCT
Found at i:48234295 original size:17 final size:18
Alignment explanation
Indices: 48234273--48234314 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
48234263 GATAAGATAT
48234273 AATAAAATGAAT-AAAG-A
1 AATAAAAT-AATCAAAGAA
48234290 AATAAAA-AATCAAAGAA
1 AATAAAATAATCAAAGAA
48234307 AATAAAAT
1 AATAAAAT
48234315 TATAAGTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 4 0.18
17 15 0.68
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (18 bp):
AATAAAATAATCAAAGAA
Found at i:48235225 original size:28 final size:29
Alignment explanation
Indices: 48235170--48235225 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
48235160 TACTTCTTTC
*
48235170 ATTAAATATAATTAAACATTTTGTTCATA
1 ATTAAATATAATTAAACATTTTATTCATA
*
48235199 ATTAAATATAATT-TACATTTTATTCAT
1 ATTAAATATAATTAAACATTTTATTCAT
48235226 TTTAGTCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (29 bp):
ATTAAATATAATTAAACATTTTATTCATA
Found at i:48241234 original size:204 final size:204
Alignment explanation
Indices: 48240884--48241295 Score: 815
Period size: 204 Copynumber: 2.0 Consensus size: 204
48240874 CCCTCCATTT
48240884 TTTTACTTGGTTGGATTTGGGCTGTTTTGCTTGGAAATTTAGTCGCTGTTAATCCAAGTTAGGGT
1 TTTTACTTGGTTGGATTTGGGCTGTTTTGCTTGGAAATTTAGTCGCTGTTAATCCAAGTTAGGGT
48240949 TTGGTATGGCCGCTAATGAATGTCATATACCTAATTCACTAATCTAGGGTTTAGGGTTCAAGGGG
66 TTGGTATGGCCGCTAATGAATGTCATATACCTAATTCACTAATCTAGGGTTTAGGGTTCAAGGGG
*
48241014 TTGATTTCTGGAAAATGTGAAATTTTGTTTTGAGAAATTGTGCCAATAATTTTTGTTATTATTTT
131 TTGATTTCTAGAAAATGTGAAATTTTGTTTTGAGAAATTGTGCCAATAATTTTTGTTATTATTTT
48241079 TTGCTGCAA
196 TTGCTGCAA
48241088 TTTTACTTGGTTGGATTTGGGCTGTTTTGCTTGGAAATTTAGTCGCTGTTAATCCAAGTTAGGGT
1 TTTTACTTGGTTGGATTTGGGCTGTTTTGCTTGGAAATTTAGTCGCTGTTAATCCAAGTTAGGGT
48241153 TTGGTATGGCCGCTAATGAATGTCATATACCTAATTCACTAATCTAGGGTTTAGGGTTCAAGGGG
66 TTGGTATGGCCGCTAATGAATGTCATATACCTAATTCACTAATCTAGGGTTTAGGGTTCAAGGGG
48241218 TTGATTTCTAGAAAATGTGAAATTTTGTTTTGAGAAATTGTGCCAATAATTTTTGTTATTATTTT
131 TTGATTTCTAGAAAATGTGAAATTTTGTTTTGAGAAATTGTGCCAATAATTTTTGTTATTATTTT
48241283 TTGCTGCAA
196 TTGCTGCAA
48241292 TTTT
1 TTTT
48241296 TCCTTACAAA
Statistics
Matches: 207, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 207 1.00
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.43
Consensus pattern (204 bp):
TTTTACTTGGTTGGATTTGGGCTGTTTTGCTTGGAAATTTAGTCGCTGTTAATCCAAGTTAGGGT
TTGGTATGGCCGCTAATGAATGTCATATACCTAATTCACTAATCTAGGGTTTAGGGTTCAAGGGG
TTGATTTCTAGAAAATGTGAAATTTTGTTTTGAGAAATTGTGCCAATAATTTTTGTTATTATTTT
TTGCTGCAA
Found at i:48244500 original size:19 final size:18
Alignment explanation
Indices: 48244465--48244516 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
48244455 TAAATTATTA
48244465 TTTAATAATTACAATAT-TT
1 TTTAA-AATTA-AATATGTT
48244484 GTTTAAAATTAATATATGTT
1 -TTTAAAATTAA-ATATGTT
*
48244504 TTTAATATTAAAT
1 TTTAAAATTAAAT
48244517 GAAAAGTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 3 0.10
19 19 0.66
20 7 0.24
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
TTTAAAATTAAATATGTT
Found at i:48256073 original size:25 final size:26
Alignment explanation
Indices: 48256045--48256093 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
48256035 TTTATTTATT
48256045 AAAATAATATAA-AAAATTAATTACA
1 AAAATAATATAACAAAATTAATTACA
* *
48256070 AAAATGATATAACTAAATTAATTA
1 AAAATAATATAACAAAATTAATTA
48256094 TAAATATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAATAATATAACAAAATTAATTACA
Found at i:48258294 original size:147 final size:147
Alignment explanation
Indices: 48258027--48258324 Score: 551
Period size: 147 Copynumber: 2.0 Consensus size: 147
48258017 GGGTAAAGTA
48258027 CAAAAATGGTCACTAAAATATTCAAAATTAAACTTTTTTGTTCACCTACCATTAACACTCATTTG
1 CAAAAATGGTCACTAAAATATTCAAAATTAAACTTTTTTGTTCACCTACCATTAACACTCATTTG
* *
48258092 TAAATTGACAGAAGTGTTGACGTGAAATTTTTTATTATTAATCTAATAATAAATTTAGTTTTTTA
66 TAAATTGACAGAAGTGTTGACATGAAATTTTTTATTATTAATCTAATAATAAATTTAATTTTTTA
48258157 AAATTTACACATTATAT
131 AAATTTACACATTATAT
48258174 CAAAAATGGTCACTAAAATATTCAAAATTAAACTTTTTTGTTCACCTACCATTAACACTCATTTG
1 CAAAAATGGTCACTAAAATATTCAAAATTAAACTTTTTTGTTCACCTACCATTAACACTCATTTG
* * *
48258239 TAATTTGACGGAAGTGTTGACATGAAATTTTTTATTATTAGTCTAATAATAAATTTAATTTTTTA
66 TAAATTGACAGAAGTGTTGACATGAAATTTTTTATTATTAATCTAATAATAAATTTAATTTTTTA
48258304 AAATTTACACATTATAT
131 AAATTTACACATTATAT
48258321 CAAA
1 CAAA
48258325 TTGATTTTAA
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (147 bp):
CAAAAATGGTCACTAAAATATTCAAAATTAAACTTTTTTGTTCACCTACCATTAACACTCATTTG
TAAATTGACAGAAGTGTTGACATGAAATTTTTTATTATTAATCTAATAATAAATTTAATTTTTTA
AAATTTACACATTATAT
Found at i:48264350 original size:24 final size:23
Alignment explanation
Indices: 48264321--48264375 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
48264311 TATTTCATGC
48264321 TATTTTTTAA-AAAATATTTTAAG
1 TATTTTTTAATAAAAT-TTTTAAG
**
48264344 TATTTTTTAATTTTAATTTTTAAG
1 TATTTTTTAA-TAAAATTTTTAAG
48264368 TATTTTTT
1 TATTTTTT
48264376 TAATTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 10 0.36
24 15 0.54
25 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
TATTTTTTAATAAAATTTTTAAG
Found at i:48264388 original size:24 final size:23
Alignment explanation
Indices: 48264336--48264389 Score: 90
Period size: 24 Copynumber: 2.3 Consensus size: 23
48264326 TTTAAAAAAT
48264336 ATTTTAAGTATTTTTTAATTTTA
1 ATTTTAAGTATTTTTTAATTTTA
48264359 ATTTTTAAGTATTTTTTTAATTTTA
1 A-TTTTAAGTA-TTTTTTAATTTTA
48264384 ATTTTA
1 ATTTTA
48264390 CTTTATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 1 0.03
24 14 0.48
25 14 0.48
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTTAAGTATTTTTTAATTTTA
Found at i:48264402 original size:25 final size:25
Alignment explanation
Indices: 48264337--48264388 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
48264327 TTAAAAAATA
48264337 TTTTAAGTA-TTTTTTAATTTTAAT
1 TTTTAAGTATTTTTTTAATTTTAAT
48264361 TTTTAAGTATTTTTTTAATTTTAAT
1 TTTTAAGTATTTTTTTAATTTTAAT
48264386 TTT
1 TTT
48264389 ACTTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTAAGTATTTTTTTAATTTTAAT
Done.