Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 41 of 65
Found at i:8359519 original size:13 final size:13
Alignment explanation
Indices: 8359489--8359517 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8359479 TATAATTTTG
8359489 TTTTATTTTTATA
1 TTTTATTTTTATA
8359502 TTTTATTTTT-TA
1 TTTTATTTTTATA
8359514 TTTT
1 TTTT
8359518 TAGGGTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTATA
Found at i:8359620 original size:19 final size:19
Alignment explanation
Indices: 8359593--8359636 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8359583 TATGTACATT
* * *
8359593 TTAAAAAAATTAATATAAA
1 TTAATAAAATAAAAATAAA
8359612 TTAATAAAATAAAAATAAA
1 TTAATAAAATAAAAATAAA
*
8359631 TAAATA
1 TTAATA
8359637 TCAACTGGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TTAATAAAATAAAAATAAA
Found at i:8360113 original size:28 final size:25
Alignment explanation
Indices: 8360088--8360160 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
8360078 CGGTTATTAG
8360088 ATATATAATTTATTTATTTTAGTATT
1 ATATAT-ATTTATTTATTTTAGTATT
* *
8360114 ATATAT-TTTATTTAATATTAGTGTTT
1 ATATATATTTATTT-ATTTTAGT-ATT
*
8360140 ATATATATTTTTTTATTTTAG
1 ATATATATTTATTTATTTTAG
8360161 CATGTGGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 7 0.17
25 7 0.17
26 20 0.50
27 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (25 bp):
ATATATATTTATTTATTTTAGTATT
Found at i:8360119 original size:26 final size:26
Alignment explanation
Indices: 8360088--8360160 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 26
8360078 CGGTTATTAG
8360088 ATATATAATTTATTTATTTTAGTATT
1 ATATATAATTTATTTATTTTAGTATT
* *
8360114 ATATAT--TTTATTTAATATTAGTGTT
1 ATATATAATTTATTT-ATTTTAGTATT
*
8360139 -TATATATATTTTTTTATTTTAG
1 ATATATA-ATTTATTTATTTTAG
8360161 CATGTGGCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 12 0.31
25 9 0.23
26 12 0.31
27 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (26 bp):
ATATATAATTTATTTATTTTAGTATT
Found at i:8369846 original size:13 final size:14
Alignment explanation
Indices: 8369828--8369860 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8369818 CAAGTCAAAG
8369828 AAGAAAAA-TTTAA
1 AAGAAAAAGTTTAA
8369841 AAGAAAAAGTTTAA
1 AAGAAAAAGTTTAA
*
8369855 ATGAAA
1 AAGAAA
8369861 TGGGAGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (14 bp):
AAGAAAAAGTTTAA
Found at i:8372674 original size:26 final size:25
Alignment explanation
Indices: 8372635--8372686 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
8372625 CCATAAATAA
8372635 ATTTATAAATATATGAATTTTATTTT
1 ATTTATAAATATATGAATTTT-TTTT
*
8372661 ATTTATTAAA-ATATTAATTTTTTTT
1 ATTTA-TAAATATATGAATTTTTTTT
8372686 A
1 A
8372687 CTTCTAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 5 0.21
26 15 0.62
27 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
ATTTATAAATATATGAATTTTTTTT
Found at i:8373722 original size:15 final size:15
Alignment explanation
Indices: 8373702--8373731 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8373692 AGTTTTCCAC
*
8373702 GTAAAATCTTTGTGT
1 GTAAAATCTCTGTGT
8373717 GTAAAATCTCTGTGT
1 GTAAAATCTCTGTGT
8373732 CTATTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (15 bp):
GTAAAATCTCTGTGT
Found at i:8379017 original size:24 final size:23
Alignment explanation
Indices: 8378987--8379045 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
8378977 TTGATTAAAA
8378987 GTATAAACTTTATTTTCCCTTTAT
1 GTATAAACTTTATTTT-CCTTTAT
* *
8379011 GTATAAACCTTATTTTTCTTTAT
1 GTATAAACTTTATTTTCCTTTAT
* *
8379034 GTAGAAAATTTA
1 GTATAAACTTTA
8379046 CTTTAGATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.51
Consensus pattern (23 bp):
GTATAAACTTTATTTTCCTTTAT
Found at i:8379035 original size:23 final size:24
Alignment explanation
Indices: 8378987--8379036 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
8378977 TTGATTAAAA
*
8378987 GTATAAACTTTATTTTCCCTTTAT
1 GTATAAACCTTATTTTCCCTTTAT
*
8379011 GTATAAACCTTATTTT-TCTTTAT
1 GTATAAACCTTATTTTCCCTTTAT
8379034 GTA
1 GTA
8379037 GAAAATTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (24 bp):
GTATAAACCTTATTTTCCCTTTAT
Found at i:8379371 original size:64 final size:65
Alignment explanation
Indices: 8379238--8379359 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 65
8379228 TTTTCCGGAG
* * * * * *
8379238 AAAAGTTTGTTCATTTCAATAAAAAAAATATCAATTTAATTTATAACAGAACGATGATTCCATCC
1 AAAATTTTGCTCATTTCAATAAAAAAAATATCAATTTAATTTATAACAAAACAATCATTCCATCA
* * * *
8379303 AAAATTTTGCTCATTTTAAT-AAAAATATATCAATTTAATTTATAATAAAATAATCAT
1 AAAATTTTGCTCATTTCAATAAAAAAAATATCAATTTAATTTATAACAAAACAATCAT
8379360 CCGGTCAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
64 31 0.65
65 17 0.35
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.38
Consensus pattern (65 bp):
AAAATTTTGCTCATTTCAATAAAAAAAATATCAATTTAATTTATAACAAAACAATCATTCCATCA
Found at i:8379621 original size:16 final size:16
Alignment explanation
Indices: 8379600--8379631 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8379590 CCCTAGGACC
*
8379600 ACCCCAATACCCCAAA
1 ACCCCAACACCCCAAA
8379616 ACCCCAACACCCCAAA
1 ACCCCAACACCCCAAA
8379632 TTCCAGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.53, G:0.00, T:0.03
Consensus pattern (16 bp):
ACCCCAACACCCCAAA
Found at i:8379995 original size:29 final size:31
Alignment explanation
Indices: 8379929--8379995 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
8379919 TGAATTATAA
*
8379929 TATATTGATTTATATGCATTTATCCTTTATTT
1 TATATT-ATTTATATGCATTTATACTTTATTT
8379961 T-T-TTATTTATATGCATTTA-ACTTT-TTT
1 TATATTATTTATATGCATTTATACTTTATTT
8379988 TATATTAT
1 TATATTAT
8379996 AATTTTAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 4 0.12
28 5 0.16
29 19 0.59
30 2 0.06
31 1 0.03
32 1 0.03
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.63
Consensus pattern (31 bp):
TATATTATTTATATGCATTTATACTTTATTT
Found at i:8380686 original size:26 final size:27
Alignment explanation
Indices: 8380651--8380716 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
8380641 TGAACTATAA
* *
8380651 AAACAACAAACCA-TAAACATTACATT
1 AAACAACAAACCATTAAACATGACATG
*
8380677 AAACAACAAACTATTAAACATGACATG
1 AAACAACAAACCATTAAACATGACATG
* *
8380704 AAATACCAAACCA
1 AAACAACAAACCA
8380717 ACGAACCAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.58, C:0.23, G:0.03, T:0.17
Consensus pattern (27 bp):
AAACAACAAACCATTAAACATGACATG
Found at i:8381894 original size:24 final size:23
Alignment explanation
Indices: 8381850--8381907 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 23
8381840 AATATAAATG
**
8381850 AACACAAAAAACTAATGTAAACA
1 AACACAAAAAAAAAATGTAAACA
*
8381873 AACACAAATAAAAAAATGTAAACG
1 AACACAAA-AAAAAAATGTAAACA
8381897 AACACAAAAAA
1 AACACAAAAAA
8381908 TGAACATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.69, C:0.16, G:0.05, T:0.10
Consensus pattern (23 bp):
AACACAAAAAAAAAATGTAAACA
Found at i:8381920 original size:10 final size:10
Alignment explanation
Indices: 8381905--8381931 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
8381895 CGAACACAAA
8381905 AAATGAACAT
1 AAATGAACAT
8381915 AAATGAACAT
1 AAATGAACAT
8381925 AAATGAA
1 AAATGAA
8381932 AATAGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.11, T:0.19
Consensus pattern (10 bp):
AAATGAACAT
Found at i:8383502 original size:2 final size:2
Alignment explanation
Indices: 8383495--8383549 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
8383485 CCTATTTAAA
8383495 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
8383537 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
8383550 AAAATAATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8384766 original size:14 final size:14
Alignment explanation
Indices: 8384747--8384777 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8384737 CAAAATTATT
8384747 TAAATAAATTCAAA
1 TAAATAAATTCAAA
*
8384761 TAAATAAATTCTAA
1 TAAATAAATTCAAA
8384775 TAA
1 TAA
8384778 TTTAAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAATAAATTCAAA
Found at i:8390913 original size:2 final size:2
Alignment explanation
Indices: 8390908--8390936 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8390898 AGTGTGTGTG
8390908 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
8390937 TGTTTCTTAC
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:8393057 original size:3 final size:3
Alignment explanation
Indices: 8393049--8393117 Score: 95
Period size: 3 Copynumber: 23.0 Consensus size: 3
8393039 TTTTATTTAT
* * *
8393049 TTA TTA TTA TTA TTA TAA TTA TTA TAA TTA TTA TAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8393097 -TA TATA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA
8393118 AAAAAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.03
3 53 0.91
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:8393072 original size:18 final size:18
Alignment explanation
Indices: 8393049--8393117 Score: 113
Period size: 18 Copynumber: 3.8 Consensus size: 18
8393039 TTTTATTTAT
8393049 TTATTATTATTATTATAA
1 TTATTATTATTATTATAA
*
8393067 TTATTATAATTATTATAA
1 TTATTATTATTATTATAA
8393085 TTATTATTATTA-TATATA
1 TTATTATTATTATTATA-A
8393103 TTATTATTATTATTA
1 TTATTATTATTATTA
8393118 AAAAAAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
17 4 0.09
18 41 0.87
19 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATTATTATTATAA
Found at i:8394706 original size:14 final size:14
Alignment explanation
Indices: 8394684--8394729 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
8394674 TTTCTAAATA
8394684 AATAAATAT-TTTT
1 AATAAATATATTTT
*
8394697 -ATAAATATATTTA
1 AATAAATATATTTT
*
8394710 AATTAATATATTTT
1 AATAAATATATTTT
*
8394724 ATTAAA
1 AATAAA
8394730 AATTATAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
12 8 0.31
13 3 0.12
14 15 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAAATATATTTT
Found at i:8399741 original size:5 final size:5
Alignment explanation
Indices: 8399731--8399756 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8399721 TTTTTGGTCC
8399731 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
8399757 AAACAATGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:8399790 original size:44 final size:44
Alignment explanation
Indices: 8399738--8399838 Score: 157
Period size: 44 Copynumber: 2.3 Consensus size: 44
8399728 TCCACCCGAC
8399738 CCGACCCGACCCGACCCGAAAACAATGACTAATCCACCCGAAAT
1 CCGACCCGACCCGACCCGAAAACAATGACTAATCCACCCGAAAT
* * ** *
8399782 CCGACCCGACTCGACCCGAGAACAATGACTCCTTCACCCGAAAT
1 CCGACCCGACCCGACCCGAAAACAATGACTAATCCACCCGAAAT
8399826 CCGACCCGACCCG
1 CCGACCCGACCCG
8399839 TATCATATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.31, C:0.44, G:0.16, T:0.10
Consensus pattern (44 bp):
CCGACCCGACCCGACCCGAAAACAATGACTAATCCACCCGAAAT
Found at i:8401896 original size:17 final size:18
Alignment explanation
Indices: 8401874--8401913 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8401864 GAATTTTTAT
* *
8401874 TTAAATAA-ATTCAATTA
1 TTAAATAATAATCAATCA
8401891 TTAAATAATAATCAATCA
1 TTAAATAATAATCAATCA
8401909 TTAAA
1 TTAAA
8401914 ATTATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAATAATAATCAATCA
Found at i:8402180 original size:45 final size:45
Alignment explanation
Indices: 8402110--8402217 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
8402100 TACCTAAAAC
* *
8402110 ATTATT-TTTTTTTACCGGAAATGTTAATATTGGACGCTACCTAA
1 ATTATTATTTTTCTACCGAAAATGTTAATATTGGACGCTACCTAA
* * *
8402154 ATTATTATTTTTCTACTGAAAATGTTAATATTGGGCGTTACCTAA
1 ATTATTATTTTTCTACCGAAAATGTTAATATTGGACGCTACCTAA
* * *
8402199 AATGTTATTTTTTTACCGA
1 ATTATTATTTTTCTACCGA
8402218 TTTTTAAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 6 0.11
45 48 0.89
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (45 bp):
ATTATTATTTTTCTACCGAAAATGTTAATATTGGACGCTACCTAA
Found at i:8406947 original size:3 final size:3
Alignment explanation
Indices: 8406941--8407052 Score: 134
Period size: 3 Copynumber: 37.0 Consensus size: 3
8406931 TTTATCCATT
* * * *
8406941 TTA TTA TCA TTA TTA TTA ATA TTA TTA TTA TCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
8406989 TCA TTA TTA TTT TTA TTA TTT TTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* *
8407035 TTA TTT TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
8407053 AATATATTAA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
3 89 0.97
4 3 0.03
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8406947 original size:12 final size:11
Alignment explanation
Indices: 8406926--8407038 Score: 56
Period size: 12 Copynumber: 9.9 Consensus size: 11
8406916 TGAAGATACT
*
8406926 ATTTTTTTATCC
1 ATTTTATTAT-C
8406938 ATTTTATTATC
1 ATTTTATTATC
8406949 ATTATTATTAAT-
1 ATT-TTATT-ATC
8406961 ATTATTATTATC
1 ATT-TTATTATC
* *
8406973 ATTATTAATATT
1 ATT-TTATTATC
* *
8406985 ATTATCATTATT
1 ATT-TTATTATC
8406997 ATTTTTATTAT-
1 A-TTTTATTATC
8407008 -TTTTATTAT-
1 ATTTTATTATC
*
8407017 -TTATTATTATT
1 ATT-TTATTATC
8407028 ATTATTATTAT
1 ATT-TTATTAT
8407039 TTTTTTTATT
Statistics
Matches: 88, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
9 11 0.12
10 7 0.08
11 6 0.07
12 60 0.68
13 4 0.05
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATTATC
Found at i:8408381 original size:19 final size:20
Alignment explanation
Indices: 8408357--8408395 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8408347 AATAATTAGT
*
8408357 AATTAGTT-TTATTTTTATA
1 AATTAGTTATTAATTTTATA
8408376 AATTAGTTATTAATTTTATA
1 AATTAGTTATTAATTTTATA
8408396 TGTCTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
AATTAGTTATTAATTTTATA
Found at i:8408478 original size:21 final size:20
Alignment explanation
Indices: 8408445--8408488 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
8408435 ATAGAATTAT
* **
8408445 TATTTTATTATATTGTTAAA
1 TATTTGATTATATTCATAAA
8408465 TATTTGATATATATTCATAAA
1 TATTTGAT-TATATTCATAAA
8408486 TAT
1 TAT
8408489 ATAATAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTTGATTATATTCATAAA
Found at i:8408499 original size:21 final size:21
Alignment explanation
Indices: 8408461--8408500 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8408451 ATTATATTGT
* * *
8408461 TAAATATTTGATATATATTCA
1 TAAATATATAATAAATATTCA
8408482 TAAATATATAATAAATATT
1 TAAATATATAATAAATATT
8408501 AACTCTTAAA
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:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
TAAATATATAATAAATATTCA
Found at i:8419752 original size:17 final size:16
Alignment explanation
Indices: 8419732--8419805 Score: 87
Period size: 17 Copynumber: 4.6 Consensus size: 16
8419722 ATGCTTGAAG
*
8419732 AAGAAAAAAAGAGAAAA
1 AAGAAAAAAA-AAAAAA
8419749 AAGAAAAAGAAAAAAAA
1 AAGAAAAA-AAAAAAAA
8419766 AAGAAAAAAAAAAAAA
1 AAGAAAAAAAAAAAAA
***
8419782 AA-AAAAGGGAAAAAA
1 AAGAAAAAAAAAAAAA
8419797 AAGAAAAAA
1 AAGAAAAAA
8419806 GAGGGGTCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
15 12 0.24
16 14 0.29
17 21 0.43
18 2 0.04
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAAAAAAAA
Found at i:8419758 original size:26 final size:25
Alignment explanation
Indices: 8419729--8419804 Score: 95
Period size: 24 Copynumber: 3.1 Consensus size: 25
8419719 ATTATGCTTG
8419729 AAGAAGAAAAAAAGAGAAAAAAGAAA
1 AAGAA-AAAAAAAGAGAAAAAAGAAA
8419755 AAGAAAAAAAAA-AGAAAAAA-AAA
1 AAGAAAAAAAAAGAGAAAAAAGAAA
* *
8419778 AA-AAAAAAAAGGGAAAAAAAAGAAA
1 AAGAAAAAAAA-AGAGAAAAAAGAAA
8419803 AA
1 AA
8419805 AGAGGGGTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.18
23 5 0.11
24 15 0.33
25 12 0.27
26 5 0.11
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (25 bp):
AAGAAAAAAAAAGAGAAAAAAGAAA
Found at i:8419805 original size:1 final size:1
Alignment explanation
Indices: 8419735--8419787 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
8419725 CTTGAAGAAG
* * * * *
8419735 AAAAAAAGAGAAAAAAGAAAAAGAAAAAAAAAAGAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8419788 GGGAAAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:8419805 original size:24 final size:23
Alignment explanation
Indices: 8419735--8419805 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
8419725 CTTGAAGAAG
8419735 AAAAAAAGAGAAAAAAGAAAAAGAA
1 AAAAAAAGAGAAAAAA-AAAAA-AA
8419760 AAAAAAA-AG-AAAAAAAAAAAA
1 AAAAAAAGAGAAAAAAAAAAAAA
* *
8419781 AAAAAAAGGGAAAAAAAAGAAAA
1 AAAAAAAGAGAAAAAAAAAAAAA
8419804 AA
1 AA
8419806 GAGGGGTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.21
22 6 0.14
23 18 0.43
24 2 0.05
25 7 0.17
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (23 bp):
AAAAAAAGAGAAAAAAAAAAAAA
Found at i:8419810 original size:20 final size:18
Alignment explanation
Indices: 8419732--8419808 Score: 78
Period size: 16 Copynumber: 4.7 Consensus size: 18
8419722 ATGCTTGAAG
*
8419732 AAGAAAAAA-AGAGAAAA
1 AAGAAAAAAGAGAAAAAA
8419749 AAG-AAAAAGA-AAAAAA
1 AAGAAAAAAGAGAAAAAA
*
8419765 AA-AGAAAA-A-AAAAAA
1 AAGAAAAAAGAGAAAAAA
*
8419780 AA-AAAAAAGGGAAAAAA
1 AAGAAAAAAGAGAAAAAA
8419797 AAGAAAAAAGAG
1 AAGAAAAAAGAG
8419809 GGGTCAAGGT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
15 14 0.28
16 16 0.32
17 12 0.24
18 8 0.16
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAGAGAAAAAA
Found at i:8420859 original size:52 final size:51
Alignment explanation
Indices: 8420735--8420980 Score: 447
Period size: 52 Copynumber: 4.8 Consensus size: 51
8420725 TATGTGCTCA
8420735 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
8420786 ATAGCATCTTCTGGAAGTGTTCTTTGAGGTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
*
8420838 ATAGCATCTTCTGGAAGTGTTCTTTGAGGTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
8420890 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
8420941 ATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
8420981 ATTGGACATA
Statistics
Matches: 191, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
51 89 0.47
52 102 0.53
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (51 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
Found at i:8420940 original size:103 final size:103
Alignment explanation
Indices: 8420735--8420980 Score: 449
Period size: 103 Copynumber: 2.4 Consensus size: 103
8420725 TATGTGCTCA
8420735 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
8420800 AAGTGTTCTTTGAGGTATCTGATCTGGTTAGACAGAAC
66 AAGTGTTCTTTGAGGTATCTGATCTGGTTAGACAGAAC
*
8420838 ATAGCATCTTCTGGAAGTGTTCTTTGAGGTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCTG
*
8420903 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
65 GAAGTGTTCTTTGAGGTATCTGATCTGGTTAGACAGAAC
*
8420941 ATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
8420981 ATTGGACATA
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
103 88 0.64
104 50 0.36
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
AAGTGTTCTTTGAGGTATCTGATCTGGTTAGACAGAAC
Found at i:8421102 original size:52 final size:52
Alignment explanation
Indices: 8421024--8421174 Score: 259
Period size: 51 Copynumber: 2.9 Consensus size: 52
8421014 AAATTTGCCA
8421024 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
8421076 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* * *
8421127 ATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGATTGGACA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
8421175 TAATCAAGCA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 47 0.51
52 46 0.49
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:8421133 original size:134 final size:134
Alignment explanation
Indices: 8420890--8421134 Score: 413
Period size: 134 Copynumber: 1.8 Consensus size: 134
8420880 TAGACAGAAC
*
8420890 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATTTTCTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
* *
8420955 AAGTGTTCTTTGAGTTATCTGATCTGATTGGACATAATCAAGCATTGAATTTAGAAAATAAATTT
66 AAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATCAAGCATTGAATTTAGAAAATAAATTT
8421020 GCCA
131 GCCA
*
8421024 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCTG
*
8421089 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAA-CATAGCATT
65 GAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATCA-AGCATT
8421135 TTCTGGAAGT
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
133 2 0.02
134 54 0.52
135 48 0.46
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (134 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATCAAGCATTGAATTTAGAAAATAAATTT
GCCA
Found at i:8421147 original size:51 final size:52
Alignment explanation
Indices: 8421024--8421163 Score: 255
Period size: 52 Copynumber: 2.7 Consensus size: 52
8421014 AAATTTGCCA
*
8421024 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
8421076 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
*
8421127 ATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
8421164 TTGATTGGAC
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
51 41 0.48
52 45 0.52
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.39
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
Found at i:8421152 original size:186 final size:186
Alignment explanation
Indices: 8420838--8421247 Score: 784
Period size: 186 Copynumber: 2.2 Consensus size: 186
8420828 TAGACAGAAC
*
8420838 ATAGCATCTTCTGGAAGTGTTCTTTGAGGTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
8420903 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATTTTCTGGAAGTGTTCTTTGA
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATTTTCTGGAAGTGTTCTTTGA
8420968 GTTATCTGATCTGATTGGACATAATCAAGCATTGAATTTAGAAAATAAATTTGCCA
131 GTTATCTGATCTGATTGGACATAATCAAGCATTGAATTTAGAAAATAAATTTGCCA
*
8421024 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
8421089 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATTTTCTGGAAGTGTTCTTTGA
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATTTTCTGGAAGTGTTCTTTGA
*
8421154 GTTATCTGATTTGATTGGACATAATCAAGCATTGAATTTAGAAAATAAATTTGCCA
131 GTTATCTGATCTGATTGGACATAATCAAGCATTGAATTTAGAAAATAAATTTGCCA
*
8421210 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
8421248 CGAAGAAATG
Statistics
Matches: 220, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 220 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (186 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATTTTCTGGAAGTGTTCTTTGA
GTTATCTGATCTGATTGGACATAATCAAGCATTGAATTTAGAAAATAAATTTGCCA
Found at i:8422026 original size:119 final size:119
Alignment explanation
Indices: 8421802--8422254 Score: 722
Period size: 119 Copynumber: 3.8 Consensus size: 119
8421792 CAAAGATTCA
* * *
8421802 AATTCATCAATTTGATGGATCATTCTTTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCATCAT
1 AATTCATCAAATTGATGGATCA-TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
*
8421867 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTG
65 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * *
8421922 AATTCATC-ACTTGATAGATCATTCTTTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
1 AATTCATCAAATTGATGGATCA-TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
8421986 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
65 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
8422041 AATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATC
1 AATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATC
*
8422106 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTG
66 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * * *
8422160 AATTCATC-AGTTGATGGATCAACATTACCAG-GTAA-AGTTCATAATGAGAAGAA--C-TCATC
1 AATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATC
*
8422219 TGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
66 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
8422255 CATCAAGAGC
Statistics
Matches: 318, Mismatches: 14, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
113 39 0.12
114 1 0.00
116 18 0.06
117 3 0.01
118 20 0.06
119 218 0.69
120 19 0.06
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (119 bp):
AATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATC
TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
Found at i:8422510 original size:3 final size:3
Alignment explanation
Indices: 8422504--8422615 Score: 134
Period size: 3 Copynumber: 37.0 Consensus size: 3
8422494 TTTATCCATT
* * * *
8422504 TTA TTA TCA TTA TTA TTA ATA TTA TTA TTA TCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
8422552 TCA TTA TTA TTT TTA TTA TTT TTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* *
8422598 TTA TTT TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
8422616 AATATATTAA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
3 89 0.97
4 3 0.03
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8422510 original size:12 final size:11
Alignment explanation
Indices: 8422489--8422601 Score: 56
Period size: 12 Copynumber: 9.9 Consensus size: 11
8422479 TGAAGATACT
*
8422489 ATTTTTTTATCC
1 ATTTTATTAT-C
8422501 ATTTTATTATC
1 ATTTTATTATC
8422512 ATTATTATTAAT-
1 ATT-TTATT-ATC
8422524 ATTATTATTATC
1 ATT-TTATTATC
* *
8422536 ATTATTAATATT
1 ATT-TTATTATC
* *
8422548 ATTATCATTATT
1 ATT-TTATTATC
8422560 ATTTTTATTAT-
1 A-TTTTATTATC
8422571 -TTTTATTAT-
1 ATTTTATTATC
*
8422580 -TTATTATTATT
1 ATT-TTATTATC
8422591 ATTATTATTAT
1 ATT-TTATTAT
8422602 TTTTTTTATT
Statistics
Matches: 88, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
9 11 0.12
10 7 0.08
11 6 0.07
12 60 0.68
13 4 0.05
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATTATC
Found at i:8423956 original size:19 final size:20
Alignment explanation
Indices: 8423932--8423970 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8423922 AATAATTAGT
*
8423932 AATTAGTT-TTATTTTTATA
1 AATTAGTTATTAATTTTATA
8423951 AATTAGTTATTAATTTTATA
1 AATTAGTTATTAATTTTATA
8423971 TGTCTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
AATTAGTTATTAATTTTATA
Found at i:8435329 original size:23 final size:25
Alignment explanation
Indices: 8435278--8435329 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
8435268 TATATTTTCA
8435278 ATTTTGTAAAAAAAATTATATAAAT
1 ATTTTGTAAAAAAAATTATATAAAT
*
8435303 -TTTT-TAAAGAAAA-TATATAAAT
1 ATTTTGTAAAAAAAATTATATAAAT
8435325 ATTTT
1 ATTTT
8435330 CCAACTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 9 0.36
23 12 0.48
24 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
ATTTTGTAAAAAAAATTATATAAAT
Found at i:8435489 original size:16 final size:18
Alignment explanation
Indices: 8435468--8435512 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
8435458 AACATTCTCA
8435468 GTAATCTTATT-CC-CTG
1 GTAATCTTATTCCCACTG
8435484 GTAATCTTACATTCCCACTG
1 GTAATCTT--ATTCCCACTG
8435504 GTAATCTTA
1 GTAATCTTA
8435513 CATTCCGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.32
18 4 0.16
19 2 0.08
20 11 0.44
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.40
Consensus pattern (18 bp):
GTAATCTTATTCCCACTG
Found at i:8435506 original size:20 final size:20
Alignment explanation
Indices: 8435481--8435518 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8435471 ATCTTATTCC
8435481 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
8435501 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
8435519 GTGAACCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:8436755 original size:42 final size:43
Alignment explanation
Indices: 8436709--8436794 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 43
8436699 GTTTTATCCT
*
8436709 TTAAAACACTATATTTTCAAGACTTGGATAAAAATATCT-CCC
1 TTAAAACACTATATTTTCAAGACTTAGATAAAAATATCTACCC
*
8436751 TTAAAACACTATATTTTCAAGACTTAGATAAAAATCTCTACCC
1 TTAAAACACTATATTTTCAAGACTTAGATAAAAATATCTACCC
8436794 T
1 T
8436795 GTCATTTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 37 0.90
43 4 0.10
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.34
Consensus pattern (43 bp):
TTAAAACACTATATTTTCAAGACTTAGATAAAAATATCTACCC
Found at i:8439637 original size:13 final size:13
Alignment explanation
Indices: 8439619--8439650 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8439609 GTCATAAATC
*
8439619 TATGACGCGCATT
1 TATGACGCGCATG
8439632 TATGACGCGCATG
1 TATGACGCGCATG
8439645 TATGAC
1 TATGAC
8439651 TTACATTGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (13 bp):
TATGACGCGCATG
Found at i:8439901 original size:85 final size:85
Alignment explanation
Indices: 8439629--8440096 Score: 769
Period size: 85 Copynumber: 5.5 Consensus size: 85
8439619 TATGACGCGC
* * *
8439629 ATTTATGACGCGCATGTATGACTTACATTGCGCGTCATTGAAGCTCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAAATGA
*
8439694 CACACATTTGTGCGTCATAA
66 CATACATTTGTGCGTCATAA
* *
8439714 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAG-TCCCGTCATAAATTAAAATTA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAAATGA
*
8439778 CACACATTTGTGCGTCATAA
66 CATACATTTGTGCGTCATAA
8439798 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAAATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAAATGA
8439863 CATACATTTGTGCGTCATAA
66 CATACATTTGTGCGTCATAA
* *
8439883 ATTTATGACACGCATGTATGACTTACATTACGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAAATGA
8439948 CATACATTTGTGCGTCATAA
66 CATACATTTGTGCGTCATAA
***
8439968 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATCT-GCTTG
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAAT-TAAAATG
**
8440032 ACATACATTTGTATGTCATAA
65 ACATACATTTGTGCGTCATAA
* *
8440053 ATTTATGACACGCATATATGACTTACATTGCGTGTCATTGAAGC
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGC
8440097 ACACATCATT
Statistics
Matches: 365, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
84 82 0.22
85 282 0.77
86 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (85 bp):
ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAAATGA
CATACATTTGTGCGTCATAA
Found at i:8442393 original size:2 final size:2
Alignment explanation
Indices: 8442386--8442412 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8442376 TCAATCTACA
8442386 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 A
8442413 ATTTCCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8442558 original size:85 final size:84
Alignment explanation
Indices: 8442469--8442767 Score: 429
Period size: 85 Copynumber: 3.5 Consensus size: 84
8442459 AATGATGTGT
* * * * *
8442469 GCTTCAATGACACGCAATGTAAATCATATATGCGTGTCATAAATTTATGACACACAAATGTATGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
*
8442534 CAAGC-AGATTTATGACGGGG
66 C-ATCTA-ATTTATGACGGGG
* * * *
8442554 GCTTCAATGACGCACAATGTAAGTCATACATGTGTGTCATAAATTTATGACGCACAAATGCGTGC
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
8442619 CATCTTAATTTATGACGGGG
66 CATC-TAATTTATGACGGGG
*
8442639 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGATGCACAAATGTGTGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
*
8442704 CATCTTAATTTATGACGGGT
66 CATC-TAATTTATGACGGGG
**
8442724 GCTTCAATGACGCGCAATGTAAGTCATACATGCACGTCATAAAT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAAT
8442768 GCGCGTCATA
Statistics
Matches: 194, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
84 2 0.01
85 191 0.98
86 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (84 bp):
GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
CATCTAATTTATGACGGGG
Found at i:8444539 original size:136 final size:136
Alignment explanation
Indices: 8444338--8444590 Score: 434
Period size: 136 Copynumber: 1.9 Consensus size: 136
8444328 AAAAAAATTA
* *
8444338 AAACTCCTACCTCAAAACCCTAATTTAGATTCTTTGGTTAAAATTATCGATAATCCCCACAAAAA
1 AAACTCCTACCTCAAAACCCTAAGTTAGATTCTCTGGTTAAAATTATCGATAATCCCCACAAAAA
8444403 TTCATAAAATCAAGTAAAAGAATACTTCAAGATGACTTAAAACTCCTAATACATCAAGAGTAAGA
66 TTCATAAAATCAAGTAAAAGAATACTTCAAGATGACTTAAAACTCCTAATACATCAAGAGTAAGA
8444468 GTTTTG
131 GTTTTG
* ** *
8444474 AAACTCTTACCTTGAAACCCTAAGTTAGATTCTCTGGTTAAAATTATTGATAATCCCCACAAAAA
1 AAACTCCTACCTCAAAACCCTAAGTTAGATTCTCTGGTTAAAATTATCGATAATCCCCACAAAAA
* *
8444539 TTCATAAAATCAAGTATAAGAATGCTTCAAGATGACTTAAAACTCCTAATAC
66 TTCATAAAATCAAGTAAAAGAATACTTCAAGATGACTTAAAACTCCTAATAC
8444591 TCATTCAAAA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
136 109 1.00
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (136 bp):
AAACTCCTACCTCAAAACCCTAAGTTAGATTCTCTGGTTAAAATTATCGATAATCCCCACAAAAA
TTCATAAAATCAAGTAAAAGAATACTTCAAGATGACTTAAAACTCCTAATACATCAAGAGTAAGA
GTTTTG
Found at i:8445302 original size:21 final size:20
Alignment explanation
Indices: 8445277--8445351 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
8445267 TTTTTTAGAG
8445277 TTAAGGTTTAGGATTTAGGAT
1 TTAAGGTTTAGGATTTAGG-T
* *
8445298 TTAAGATTTAGAATTTATGGT
1 TTAAGGTTTAGGATTTA-GGT
* * *
8445319 TTATGGTTTATGATTTGATGT
1 TTAAGGTTTAGGATTT-AGGT
*
8445340 TTAGGGTTTAGG
1 TTAAGGTTTAGG
8445352 GTTTGAGACA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
21 40 0.93
22 3 0.07
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (20 bp):
TTAAGGTTTAGGATTTAGGT
Found at i:8445356 original size:21 final size:20
Alignment explanation
Indices: 8445317--8445400 Score: 62
Period size: 21 Copynumber: 4.0 Consensus size: 20
8445307 AGAATTTATG
* * *
8445317 GTTTATGGTTTATGATTTGA
1 GTTTAGGGTTTAGGGTTTGA
8445337 TGTTTAGGGTTTAGGGTTTGA
1 -GTTTAGGGTTTAGGGTTTGA
** *
8445358 G-ACATGTGTTTTAGGGTTTGA
1 GTTTA-G-GGTTTAGGGTTTGA
8445379 GATTTTAGGGTTTAGGGTTTGA
1 G--TTTAGGGTTTAGGGTTTGA
8445401 AATTTGGGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 31 0.63
22 13 0.27
23 1 0.02
24 1 0.02
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.48
Consensus pattern (20 bp):
GTTTAGGGTTTAGGGTTTGA
Found at i:8452690 original size:30 final size:30
Alignment explanation
Indices: 8452654--8452715 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
8452644 ACTACGGTAC
8452654 TCATACGCATCATGAAGAAACTCACCTGCA
1 TCATACGCATCATGAAGAAACTCACCTGCA
8452684 TCATACGCATCATGAAGAAACTCACCTGCA
1 TCATACGCATCATGAAGAAACTCACCTGCA
8452714 TC
1 TC
8452716 CTGTGACACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.31, G:0.13, T:0.21
Consensus pattern (30 bp):
TCATACGCATCATGAAGAAACTCACCTGCA
Found at i:8453904 original size:39 final size:39
Alignment explanation
Indices: 8453861--8453937 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
8453851 AGGTGTAGCC
8453861 ACTGAACCCGAAAGAG-AAGAAACACGCTCATCCAGTCCT
1 ACTGAACCCGAAAGAGCAA-AAACACGCTCATCCAGTCCT
** * *
8453900 ACTGAACCCGAGCGAGCAAAAGCATGCTCATCCAGTCC
1 ACTGAACCCGAAAGAGCAAAAACACGCTCATCCAGTCC
8453938 AGTTGAAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 31 0.94
40 2 0.06
ACGTcount: A:0.35, C:0.32, G:0.19, T:0.13
Consensus pattern (39 bp):
ACTGAACCCGAAAGAGCAAAAACACGCTCATCCAGTCCT
Found at i:8464705 original size:21 final size:21
Alignment explanation
Indices: 8464679--8464727 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
8464669 ATGGGCATGA
*
8464679 GATCCGAGTTCAACGGGTTTC
1 GATCCGAGTTCAACGGGTTCC
8464700 GATCCGAGTTCAACGGGTTCC
1 GATCCGAGTTCAACGGGTTCC
8464721 GATCCGA
1 GATCCGA
8464728 TTAGGTTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (21 bp):
GATCCGAGTTCAACGGGTTCC
Found at i:8465879 original size:9 final size:9
Alignment explanation
Indices: 8465865--8465899 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
8465855 GAAATCGGTT
8465865 AATTAACCG
1 AATTAACCG
*
8465874 AATTAACTG
1 AATTAACCG
8465883 AATTAACCG
1 AATTAACCG
8465892 AATTAACC
1 AATTAACC
8465900 TTTAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:8466036 original size:17 final size:17
Alignment explanation
Indices: 8466014--8466052 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
8466004 TGAATCAAAT
8466014 TAATTAGATATGATTTA
1 TAATTAGATATGATTTA
*
8466031 TAATTAGATATTATTTA
1 TAATTAGATATGATTTA
8466048 -AATTA
1 TAATTA
8466053 ATTGTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (17 bp):
TAATTAGATATGATTTA
Found at i:8468674 original size:29 final size:27
Alignment explanation
Indices: 8468641--8468705 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 27
8468631 TTTAAATTTG
*
8468641 ATTTCTTAAACAT-CTTAGTTTTCGTTTT
1 ATTTCTTAAA-ATACTTAGTTTAC-TTTT
8468669 AATTTCTTAAAATACTTAGTTTACTTTT
1 -ATTTCTTAAAATACTTAGTTTACTTTT
8468697 -TTTCTTAAA
1 ATTTCTTAAA
8468706 TTTGATTGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
26 9 0.26
28 6 0.18
29 19 0.56
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (27 bp):
ATTTCTTAAAATACTTAGTTTACTTTT
Found at i:8469902 original size:42 final size:43
Alignment explanation
Indices: 8469793--8470094 Score: 335
Period size: 43 Copynumber: 7.1 Consensus size: 43
8469783 TGAGAAAGAA
* * * * * *
8469793 AAACGTCGCAATAGGTCAAGATCTATAACGGAGTTTTTTGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * *
8469836 AAATGCCACAAAAGGTCGAGATCTATAGCGGGGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * * *
8469879 AAACGTCGAAAAAGGTC-ATATC--TAGTGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * **
8469919 AAACGCCCCAAAAGGTC-ATATCTATAGCAACGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* *
8469961 AAACGTCGCAAAAGGTCGAGATCTATAGCGGCATTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* *
8470004 AAACACCGCAAAAGGTC-ATATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * *
8470046 AAATGCCGCAAAAGGTCGAGATCTATAACAGCGTTTTTTGGATAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCG-TTTTTGGA-AC
8470091 AAAC
1 AAAC
8470095 ACCCTTAATT
Statistics
Matches: 216, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
40 35 0.16
42 72 0.33
43 96 0.44
44 8 0.04
45 5 0.02
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
Found at i:8470028 original size:85 final size:85
Alignment explanation
Indices: 8469793--8470097 Score: 350
Period size: 85 Copynumber: 3.6 Consensus size: 85
8469783 TGAGAAAGAA
* * * ** *
8469793 AAACGTCGCAATAGGTCAAGATCTATAACGG-AGTTTTTTGAACAAATGCCACAAAAGGTCGAGA
1 AAACGTCGCAAAAGGTCGAGATCTATAACGGCA-TTTTTGGAACAAACACCACAAAAGGTC-ATA
*
8469857 TCTATAGCGGGGTTTTTGGAAC
64 TCTATAGCGGCGTTTTTGGAAC
* * * * *
8469879 AAACGTCGAAAAAGGTC-ATATCTAGT---GGCGTTTTTGGAACAAACGCCCCAAAAGGTCATAT
1 AAACGTCGCAAAAGGTCGAGATCTA-TAACGGCATTTTTGGAACAAACACCACAAAAGGTCATAT
**
8469940 CTATAGCAACGTTTTTGGAAC
65 CTATAGCGGCGTTTTTGGAAC
* *
8469961 AAACGTCGCAAAAGGTCGAGATCTATAGCGGCATTTTTGGAACAAACACCGCAAAAGGTCATATC
1 AAACGTCGCAAAAGGTCGAGATCTATAACGGCATTTTTGGAACAAACACCACAAAAGGTCATATC
8470026 TATAGCGGCGTTTTTGGAAC
66 TATAGCGGCGTTTTTGGAAC
* * * *
8470046 AAATGCCGCAAAAGGTCGAGATCTATAACAGCGTTTTTTGGATACAAACACC
1 AAACGTCGCAAAAGGTCGAGATCTATAACGGC-ATTTTTGGA-ACAAACACC
8470098 CTTAATTACC
Statistics
Matches: 188, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
82 38 0.20
83 32 0.17
85 85 0.45
86 24 0.13
87 9 0.05
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (85 bp):
AAACGTCGCAAAAGGTCGAGATCTATAACGGCATTTTTGGAACAAACACCACAAAAGGTCATATC
TATAGCGGCGTTTTTGGAAC
Found at i:8472965 original size:40 final size:40
Alignment explanation
Indices: 8472921--8473001 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
8472911 ACAAGTTCGT
*
8472921 TCTAATTTGGTTTTTGATCCCTTGTTTTGTTTTAAATAAG
1 TCTAATTTGGTTTTTGATCCCTTATTTTGTTTTAAATAAG
8472961 TCTAATTTGGTTTTTGATCCCTTATTTTGTTTTAAATAAG
1 TCTAATTTGGTTTTTGATCCCTTATTTTGTTTTAAATAAG
8473001 T
1 T
8473002 TTTGAATGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.56
Consensus pattern (40 bp):
TCTAATTTGGTTTTTGATCCCTTATTTTGTTTTAAATAAG
Found at i:8476081 original size:11 final size:11
Alignment explanation
Indices: 8476063--8476092 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8476053 CAACACCTTG
8476063 TATTGCATTCA
1 TATTGCATTCA
*
8476074 TCTTGCATTCA
1 TATTGCATTCA
8476085 TATTGCAT
1 TATTGCAT
8476093 CTACATTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (11 bp):
TATTGCATTCA
Found at i:8479705 original size:4 final size:4
Alignment explanation
Indices: 8479696--8479749 Score: 60
Period size: 4 Copynumber: 13.8 Consensus size: 4
8479686 TTTCCATTCT
*
8479696 TTTA TTTA TTTA TTTA TTTA TTTA TTT- TTTA TATA -TTA -TTA TTTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A
8479742 TTCTA TTT
1 TT-TA TTT
8479750 TGATATGGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 8 0.18
4 29 0.66
5 6 0.14
6 1 0.02
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:8479737 original size:25 final size:29
Alignment explanation
Indices: 8479695--8479750 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
8479685 CTTTCCATTC
*
8479695 TTTTATTTATTTATTTATTT-ATT-TATT
1 TTTTATATATTTATTTATTTCATTCTATT
8479722 TTTTATATA-TTA-TTATTTCATTCTATT
1 TTTTATATATTTATTTATTTCATTCTATT
8479749 TT
1 TT
8479751 GATATGGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 6 0.23
26 6 0.23
27 14 0.54
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTTATATATTTATTTATTTCATTCTATT
Found at i:8483316 original size:27 final size:27
Alignment explanation
Indices: 8483270--8483331 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 27
8483260 GTATTTCTCC
8483270 TGAAAAAAAAGAGATTAAAAAATGAAAAA
1 TGAAAAAAAAGAGA-TAAAAAAT-AAAAA
*
8483299 TGAAAAAAATGAGA-AAAAAATAAAAA
1 TGAAAAAAAAGAGATAAAAAATAAAAA
8483325 -GAAAAAA
1 TGAAAAAA
8483332 TAAAAGGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 7 0.22
26 5 0.16
27 7 0.22
29 13 0.41
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (27 bp):
TGAAAAAAAAGAGATAAAAAATAAAAA
Found at i:8484635 original size:113 final size:113
Alignment explanation
Indices: 8484432--8484766 Score: 483
Period size: 113 Copynumber: 3.0 Consensus size: 113
8484422 TTCAGGTTCG
* * ***
8484432 ATCCCGATTCAATGGATCAATTCCTTTAGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCT
1 ATCCTGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCT
* *
8484497 CTTTTATCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCT
66 CTTTTATCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCT
* * * *
8484545 ATCCTGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTCAGAGTAAGCGGAACATGACT
1 ATCCTGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCT
* *
8484610 CTTTTTTCTAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCT
66 CTTTTATCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCT
* * * *
8484658 -GCTTCGATTCAATGGATCAACTTCCCCAGATCTGATAATCCCTTCAGAGTAAGTGGAACAGGTC
1 ATCCT-GATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTC
* *
8484722 TCTCTTCTCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAA
65 TCTTTTATCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAA
8484767 ATCTCTCTTC
Statistics
Matches: 198, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
112 2 0.01
113 196 0.99
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (113 bp):
ATCCTGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCT
CTTTTATCAAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCT
Found at i:8484764 original size:48 final size:48
Alignment explanation
Indices: 8484685--8484794 Score: 159
Period size: 48 Copynumber: 2.3 Consensus size: 48
8484675 CAACTTCCCC
* * * **
8484685 AGATCTGATAATCCCTTCAGAGTAAGTGGAACAGGTCTCTCTTC-TCAA
1 AGATTTGATATTCCCTTCAGAGTAAGCGGAACAAATCTCTCTTCTTC-A
8484733 AGATTTGATATTCCCTTCAGAGTAAGCGGAACAAATCTCTCTTCTTCA
1 AGATTTGATATTCCCTTCAGAGTAAGCGGAACAAATCTCTCTTCTTCA
8484781 AGATTTGATATTCC
1 AGATTTGATATTCC
8484795 TTGAGTGACA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 54 0.96
49 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (48 bp):
AGATTTGATATTCCCTTCAGAGTAAGCGGAACAAATCTCTCTTCTTCA
Found at i:8484829 original size:48 final size:47
Alignment explanation
Indices: 8484732--8484829 Score: 110
Period size: 48 Copynumber: 2.0 Consensus size: 47
8484722 TCTCTTCTCA
* **
8484732 AAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAATCTCTCTTCTTC
1 AAGATTTGATATTCCCTT-AGAGTAAGCGGAACAAATCTCCCTGATTC
*
8484780 AAGATTTGATATT-CCTT-GAGTGACAGCGGAACAAGTCTACCCTGATTC
1 AAGATTTGATATTCCCTTAGAGT-A-AGCGGAACAAATCT-CCCTGATTC
8484828 AA
1 AA
8484830 TCTTCCCTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
45 4 0.09
46 1 0.02
47 17 0.40
48 21 0.49
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (47 bp):
AAGATTTGATATTCCCTTAGAGTAAGCGGAACAAATCTCCCTGATTC
Found at i:8490771 original size:81 final size:81
Alignment explanation
Indices: 8490636--8490796 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 81
8490626 TGTGTAGAGG
*
8490636 TCAAAGCGATCCTCGTACATTGATACAATAGCCTCCAGATTTTGATACAACCACTGGTTTAATGG
1 TCAAAGCGATCCTCATACATTGATACAATAGCCTCCAGATTTTGATACAACCACTGGTTTAATGG
8490701 AACAGTCGTCCACATT
66 AACAGTCGTCCACATT
8490717 TCAAAGCGATCCTCATACATTGATACAATAGCCTCCAGATTTTGATACAACCACTGGTTTAATGG
1 TCAAAGCGATCCTCATACATTGATACAATAGCCTCCAGATTTTGATACAACCACTGGTTTAATGG
8490782 AACAGTCGTCCACAT
66 AACAGTCGTCCACAT
8490797 ACAGGCAGTG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAAAGCGATCCTCATACATTGATACAATAGCCTCCAGATTTTGATACAACCACTGGTTTAATGG
AACAGTCGTCCACATT
Found at i:8491916 original size:41 final size:41
Alignment explanation
Indices: 8491813--8491916 Score: 97
Period size: 41 Copynumber: 2.6 Consensus size: 41
8491803 TGTACAACTC
* * * * *
8491813 TATAGCGGCGTTTTT-CCAAAACGTCAGTAATGCATGCGTT
1 TATAGCGGCGTTTTTACAAAAACGCCAGTAAAGCACGAGTT
* * *
8491853 TATACCGGCATTTTTA-ATAAAACGCCAGTAAAGTACGAGATT
1 TATAGCGGCGTTTTTACA-AAAACGCCAGTAAAGCACGAG-TT
8491895 T-TAGCGGCGTTTTTACAAAAAC
1 TATAGCGGCGTTTTTACAAAAAC
8491917 ACCACAATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
40 13 0.26
41 33 0.66
42 4 0.08
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (41 bp):
TATAGCGGCGTTTTTACAAAAACGCCAGTAAAGCACGAGTT
Found at i:8492022 original size:80 final size:81
Alignment explanation
Indices: 8491858--8492026 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 81
8491848 GCGTTTATAC
* * * *
8491858 CGGCATTTTTAATAAAACGCCAGTAAAGTACGAGATTTTAGCGGCGTTTTTACAAAAACACCACA
1 CGGCGTTTTTAATAAAACGCCACTAAAGTACGAGATTTTAGCGGCATTTTCACAAAAACACCACA
* *
8491923 ATATATCTGGCTATCG
66 ATATATCTAGATATCG
* * * *
8491939 CGGCGTTTTT-ATATAAACGCCACTAAAGTACGTG-TTTTAGTGGCATTTTCCCAAAAACGCCAC
1 CGGCGTTTTTAATA-AAACGCCACTAAAGTACGAGATTTTAGCGGCATTTTCACAAAAACACCAC
* * *
8492002 TATATATTTAGATATTG
65 AATATATCTAGATATCG
8492019 CGGCGTTT
1 CGGCGTTT
8492027 GTCCAAAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
80 47 0.64
81 27 0.36
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (81 bp):
CGGCGTTTTTAATAAAACGCCACTAAAGTACGAGATTTTAGCGGCATTTTCACAAAAACACCACA
ATATATCTAGATATCG
Found at i:8496429 original size:21 final size:21
Alignment explanation
Indices: 8496403--8496460 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
8496393 AGTGTAAGGT
*
8496403 CAGTATCAATACTCTCCCCAG
1 CAGTATCAATACTCCCCCCAG
**
8496424 CAGTATTGATACTCCCCCCAG
1 CAGTATCAATACTCCCCCCAG
* **
8496445 TAGTATTGATACTCCC
1 CAGTATCAATACTCCC
8496461 TAGTCGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.26, C:0.34, G:0.12, T:0.28
Consensus pattern (21 bp):
CAGTATCAATACTCCCCCCAG
Found at i:8496440 original size:19 final size:19
Alignment explanation
Indices: 8496416--8496460 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
8496406 TATCAATACT
8496416 CTCCCCAGCAGTATTGATA
1 CTCCCCAGCAGTATTGATA
*
8496435 CTCCCCCCAGTAGTATTGATA
1 CT--CCCCAGCAGTATTGATA
8496456 CTCCC
1 CTCCC
8496461 TAGTCGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
21 18 0.78
ACGTcount: A:0.22, C:0.38, G:0.13, T:0.27
Consensus pattern (19 bp):
CTCCCCAGCAGTATTGATA
Found at i:8501376 original size:2 final size:2
Alignment explanation
Indices: 8501369--8501401 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8501359 ATTAGGGTAT
8501369 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 T
8501402 TAAGGATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8501660 original size:115 final size:115
Alignment explanation
Indices: 8501458--8501669 Score: 352
Period size: 115 Copynumber: 1.8 Consensus size: 115
8501448 ACAGAGTTAA
* * * *
8501458 GACCGTTGGATGAATAAAAATAGATGGTTGAGATTAACAATAGGAAATGAGAAGAAATTCACTGG
1 GACCGTTGAATGAATAAAAATAAATGGTTGAAATTAACAATAGGAAATGAGAAGAAATTCACTAG
*
8501523 AAAAAAAATGAGTCAATCTGTGTAAAACTAAAGAGTAAAACTAGATTTAG
66 AAAAAAAATAAGTCAATCTGTGTAAAACTAAAGAGTAAAACTAGATTTAG
* * *
8501573 GACCGTTGAATGAATTAAAATAAATTGTTGAAATTAACAGTAGGAAATGAGAAGAAATTCACTAG
1 GACCGTTGAATGAATAAAAATAAATGGTTGAAATTAACAATAGGAAATGAGAAGAAATTCACTAG
8501638 AAAAAAAATAAGTCAATCTGTGTAAAACTAAA
66 AAAAAAAATAAGTCAATCTGTGTAAAACTAAA
8501670 AAGTTTTACA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
115 89 1.00
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (115 bp):
GACCGTTGAATGAATAAAAATAAATGGTTGAAATTAACAATAGGAAATGAGAAGAAATTCACTAG
AAAAAAAATAAGTCAATCTGTGTAAAACTAAAGAGTAAAACTAGATTTAG
Found at i:8505068 original size:30 final size:30
Alignment explanation
Indices: 8505033--8505152 Score: 109
Period size: 30 Copynumber: 3.9 Consensus size: 30
8505023 GAAGGACCTA
*
8505033 TCCATATGTTCTGAAGAACATAGGTAATTG
1 TCCATATGTCCTGAAGAACATAGGTAATTG
* * *
8505063 TCCATATGTCCCGAAGGACATAGGTAATACTA
1 TCCATATGTCCTGAAGAACATAGGTAAT--TG
* *
8505095 TACATATGT-CTCGAA-AGACATAGGTAAACTG
1 TCCATATGTCCT-GAAGA-ACATAGGT-AATTG
* *
8505126 TCCATATGTCCTGAGGGACATAGGTAA
1 TCCATATGTCCTGAAGAACATAGGTAA
8505153 CCCTCGACTC
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
30 27 0.38
31 20 0.28
32 22 0.31
33 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (30 bp):
TCCATATGTCCTGAAGAACATAGGTAATTG
Found at i:8505115 original size:32 final size:30
Alignment explanation
Indices: 8505030--8505152 Score: 104
Period size: 31 Copynumber: 4.0 Consensus size: 30
8505020 CCCGAAGGAC
* * *
8505030 CTATCCATATGTTCTGAAGAACATAGGT-AA
1 CTATACATATG-TCCGAAGGACATAGGTAAA
* * *
8505060 TTGTCCATATGTCCCGAAGGACATAGGTAATA
1 CTATACATATGT-CCGAAGGACATAGGTAA-A
*
8505092 CTATACATATGTCTCGAAAGACATAGGTAAA
1 CTATACATATGTC-CGAAGGACATAGGTAAA
* * *
8505123 CTGTCCATATGTCCTGAGGGACATAGGTAA
1 CTATACATATGTCC-GAAGGACATAGGTAA
8505153 CCCTCGACTC
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
29 1 0.01
30 23 0.30
31 27 0.36
32 25 0.33
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (30 bp):
CTATACATATGTCCGAAGGACATAGGTAAA
Found at i:8505491 original size:3 final size:3
Alignment explanation
Indices: 8505483--8505588 Score: 205
Period size: 3 Copynumber: 35.7 Consensus size: 3
8505473 ATTCTTAATC
8505483 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8505531 ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8505578 ATT ATT ATT AT
1 ATT ATT ATT AT
8505589 ATATATATAT
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 100 0.98
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8505760 original size:44 final size:44
Alignment explanation
Indices: 8505709--8505803 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
8505699 AGCACACATA
*
8505709 AACTCATATCATTTCTCAATTAATCACATAGGTTATTATCGGGT
1 AACTCATATCATTTCTCAATTAATCACATAGCTTATTATCGGGT
*
8505753 AACTCATATCATTTCTCATTTAATCACATAGCTTATTATCGGGT
1 AACTCATATCATTTCTCAATTAATCACATAGCTTATTATCGGGT
8505797 AACTCAT
1 AACTCAT
8505804 GTCAAGTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (44 bp):
AACTCATATCATTTCTCAATTAATCACATAGCTTATTATCGGGT
Found at i:8510083 original size:31 final size:31
Alignment explanation
Indices: 8510045--8510170 Score: 191
Period size: 31 Copynumber: 4.0 Consensus size: 31
8510035 CCCGAAGGAC
* *
8510045 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
8510076 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
8510107 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
8510138 CAGTCCATATGTTCCGAAGAAACATAGGTAAA
1 CAGTCCATATGTTCCGAAG-AACATAGGTAAA
8510170 C
1 C
8510171 CCTCGACCCT
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
31 73 0.84
32 14 0.16
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:8510371 original size:23 final size:24
Alignment explanation
Indices: 8510345--8510391 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
8510335 ATATACTTGT
*
8510345 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
8510368 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
8510392 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:8510975 original size:21 final size:21
Alignment explanation
Indices: 8510945--8510989 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8510935 ATTCTGTCGT
* *
8510945 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
8510966 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
8510987 TTG
1 TTG
8510990 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:8512018 original size:30 final size:30
Alignment explanation
Indices: 8511983--8512040 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8511973 GAAGGACCTA
* *
8511983 TCCATATGTTCCAAAGAACATAGGTAACTG
1 TCCATATGTCCCAAAGAACATAGATAACTG
* *
8512013 TCCATATGTCCCGAAGGACATAGATAAC
1 TCCATATGTCCCAAAGAACATAGATAAC
8512041 CCTCGACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (30 bp):
TCCATATGTCCCAAAGAACATAGATAACTG
Found at i:8512725 original size:15 final size:16
Alignment explanation
Indices: 8512705--8512734 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8512695 CTATAATACA
8512705 TATCACATAA-ATGTC
1 TATCACATAACATGTC
8512720 TATCACATAACATGT
1 TATCACATAACATGT
8512735 AATACAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (16 bp):
TATCACATAACATGTC
Found at i:8516574 original size:14 final size:14
Alignment explanation
Indices: 8516551--8516580 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8516541 GTAAAGAAGA
8516551 TGATACGCTATTAT
1 TGATACGCTATTAT
*
8516565 TGATATGCTATTAT
1 TGATACGCTATTAT
8516579 TG
1 TG
8516581 GCTTGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (14 bp):
TGATACGCTATTAT
Found at i:8522175 original size:11 final size:11
Alignment explanation
Indices: 8522159--8522192 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
8522149 CAACAACATG
*
8522159 AATCAAAAAGA
1 AATCAAGAAGA
8522170 AATCAAGAAGA
1 AATCAAGAAGA
8522181 AATCAAGAAGA
1 AATCAAGAAGA
8522192 A
1 A
8522193 GACGTGTGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.68, C:0.09, G:0.15, T:0.09
Consensus pattern (11 bp):
AATCAAGAAGA
Found at i:8523217 original size:12 final size:12
Alignment explanation
Indices: 8523200--8523227 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8523190 GCCACGATAG
8523200 TTATGCTATTAA
1 TTATGCTATTAA
8523212 TTATGCTATTAA
1 TTATGCTATTAA
8523224 TTAT
1 TTAT
8523228 TTATGAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (12 bp):
TTATGCTATTAA
Found at i:8526416 original size:31 final size:31
Alignment explanation
Indices: 8526368--8526554 Score: 313
Period size: 31 Copynumber: 6.0 Consensus size: 31
8526358 CCCGAATGAC
* *
8526368 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
8526399 CAGTCTATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
8526430 TAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
8526461 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
8526492 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
8526523 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
8526554 C
1 C
8526555 CCTCGACCCT
Statistics
Matches: 148, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
31 147 0.99
32 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:8527426 original size:21 final size:21
Alignment explanation
Indices: 8527400--8527455 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
8527390 TTTAACCTTG
8527400 ATGCATCGATGCACAATGAAT
1 ATGCATCGATGCACAATGAAT
8527421 ATGCATCGATGCACAATGAAT
1 ATGCATCGATGCACAATGAAT
8527442 ATGCATCGATGCAC
1 ATGCATCGATGCAC
8527456 TCTGCCCAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (21 bp):
ATGCATCGATGCACAATGAAT
Found at i:8530501 original size:31 final size:31
Alignment explanation
Indices: 8530463--8530525 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
8530453 CCCGAAGGAC
*
8530463 CAGTCCATA-GATTCCGAAGAACATAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
8530494 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
8530525 C
1 C
8530526 CCTCGACCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:8531333 original size:64 final size:64
Alignment explanation
Indices: 8531182--8531338 Score: 160
Period size: 64 Copynumber: 2.5 Consensus size: 64
8531172 CAATAAGGGT
** * * ** *
8531182 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTATTGGG
1 ATGCATCGATGCACTACCAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* * *
8531246 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-
1 ATGCATCGATGCACTACC-AATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAG
8531307 AG
63 AG
8531309 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACCAATGCATCGAT
8531339 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 4 0.05
64 63 0.82
65 10 0.13
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACCAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:8533607 original size:20 final size:20
Alignment explanation
Indices: 8533585--8533653 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
8533575 TTCCATAAGG
* * *
8533585 TTCTAGATCTTTCTATTATG
1 TTCTAGAACTTTCTGTTATA
*
8533605 TTCTAGAACTTTATGTTATA
1 TTCTAGAACTTTCTGTTATA
8533625 TTCTAGAACTTTCTGTTATA
1 TTCTAGAACTTTCTGTTATA
8533645 TTCTAGAAC
1 TTCTAGAAC
8533654 ACTCCACCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.49
Consensus pattern (20 bp):
TTCTAGAACTTTCTGTTATA
Found at i:8538195 original size:16 final size:16
Alignment explanation
Indices: 8538174--8538206 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8538164 AAAATCGTAA
8538174 CGTTTGTAATGTTAGG
1 CGTTTGTAATGTTAGG
8538190 CGTTTGTAATGTTAGG
1 CGTTTGTAATGTTAGG
8538206 C
1 C
8538207 ATCGGGATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.30, T:0.42
Consensus pattern (16 bp):
CGTTTGTAATGTTAGG
Found at i:8546379 original size:24 final size:26
Alignment explanation
Indices: 8546343--8546413 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 26
8546333 TTTATATATG
*
8546343 AACGTAAACGAACGTAAACGAAA-ATA
1 AACGTAAACGAACATAAAC-AAACATA
8546369 AACG-AAA-GAACATAAACAAACAT-
1 AACGTAAACGAACATAAACAAACATA
* *
8546392 AA--TAAATGAACATAAACGAACA
1 AACGTAAACGAACATAAACAAACA
8546414 CAATAAATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 3 0.08
23 19 0.47
24 11 0.28
25 3 0.08
26 4 0.10
ACGTcount: A:0.62, C:0.15, G:0.11, T:0.11
Consensus pattern (26 bp):
AACGTAAACGAACATAAACAAACATA
Found at i:8546406 original size:23 final size:23
Alignment explanation
Indices: 8546376--8546436 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
8546366 ATAAACGAAA
* *
8546376 GAACATAAACAAACATAATAAAT
1 GAACATAAACGAACACAATAAAT
8546399 GAACATAAACGAACACAATAAAT
1 GAACATAAACGAACACAATAAAT
8546422 GAACATAAACGAACA
1 GAACATAAACGAACA
8546437 ACACAAACAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.62, C:0.16, G:0.08, T:0.13
Consensus pattern (23 bp):
GAACATAAACGAACACAATAAAT
Found at i:8547782 original size:21 final size:21
Alignment explanation
Indices: 8547756--8547806 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
8547746 TGATTGCGGT
*
8547756 CGTCGCGGGCACTATTACGGC
1 CGTCGCGGACACTATTACGGC
* *
8547777 CGTCGCGGACGCTATTGCGGC
1 CGTCGCGGACACTATTACGGC
*
8547798 CGCCGCGGA
1 CGTCGCGGA
8547807 TAATTTGGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.35, G:0.37, T:0.16
Consensus pattern (21 bp):
CGTCGCGGACACTATTACGGC
Found at i:8549238 original size:18 final size:18
Alignment explanation
Indices: 8549217--8549255 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
8549207 AGAAGAAAAT
8549217 GAAATATAAGAATAGAGA
1 GAAATATAAGAATAGAGA
*
8549235 GAAATATAATAATAGAGA
1 GAAATATAAGAATAGAGA
8549253 GAA
1 GAA
8549256 TTTTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (18 bp):
GAAATATAAGAATAGAGA
Found at i:8549336 original size:10 final size:10
Alignment explanation
Indices: 8549321--8549361 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
8549311 TTTTAAAAAT
8549321 TATTTTTATG
1 TATTTTTATG
8549331 TATTTTTATG
1 TATTTTTATG
8549341 TA-TTTTAT-
1 TATTTTTATG
8549349 TATTTTTATG
1 TATTTTTATG
8549359 TAT
1 TAT
8549362 CGTTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.07
9 12 0.41
10 15 0.52
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (10 bp):
TATTTTTATG
Found at i:8549354 original size:18 final size:19
Alignment explanation
Indices: 8549324--8549361 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
8549314 TAAAAATTAT
8549324 TTTTATGTATTTTTATGTA
1 TTTTATGTATTTTTATGTA
8549343 TTTTAT-TATTTTTATGTA
1 TTTTATGTATTTTTATGTA
8549361 T
1 T
8549362 CGTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (19 bp):
TTTTATGTATTTTTATGTA
Found at i:8549368 original size:17 final size:18
Alignment explanation
Indices: 8549331--8549371 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8549321 TATTTTTATG
**
8549331 TATTTTTATGTATTTTAT
1 TATTTTTATGTATCGTAT
8549349 TATTTTTATGTATCGT-T
1 TATTTTTATGTATCGTAT
8549366 TATTTT
1 TATTTT
8549372 GAATATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (18 bp):
TATTTTTATGTATCGTAT
Found at i:8553550 original size:36 final size:33
Alignment explanation
Indices: 8553482--8553549 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
8553472 CAAGGTGGAG
8553482 GACCCAACTTTATTCATCATCAGAGAAGAAGAA
1 GACCCAACTTTATTCATCATCAGAGAAGAAGAA
8553515 GACCCAACTTTATTCATCATCAGAGAAGAAGAA
1 GACCCAACTTTATTCATCATCAGAGAAGAAGAA
8553548 GA
1 GA
8553550 ATCATTGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.21
Consensus pattern (33 bp):
GACCCAACTTTATTCATCATCAGAGAAGAAGAA
Found at i:8555475 original size:29 final size:29
Alignment explanation
Indices: 8555442--8555502 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
8555432 TAATATTCTC
*
8555442 TTTAA-AAACATTCGAGGACTAAATTGAAT
1 TTTAATAAA-ATTCGAGGACTAAAGTGAAT
**
8555471 TTTAATTTAATTCGAGGACTAAAGTGAAT
1 TTTAATAAAATTCGAGGACTAAAGTGAAT
8555500 TTT
1 TTT
8555503 TAATTAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (29 bp):
TTTAATAAAATTCGAGGACTAAAGTGAAT
Found at i:8555509 original size:29 final size:29
Alignment explanation
Indices: 8555451--8555507 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
8555441 CTTTAAAAAC
*
8555451 ATTCGAGGACTAAATTGAATTTTAATTTA
1 ATTCGAGGACTAAAGTGAATTTTAATTTA
8555480 ATTCGAGGACTAAAGTGAATTTTTAATT
1 ATTCGAGGACTAAAGTGAA-TTTTAATT
8555508 AAACTTGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (29 bp):
ATTCGAGGACTAAAGTGAATTTTAATTTA
Found at i:8555921 original size:5 final size:5
Alignment explanation
Indices: 8555911--8555948 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
8555901 AATGTTTCCA
*
8555911 ACCCG ACCCG ACCCG ACCCG A--TG ACCCG ACCCG ACCCG
1 ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG
8555949 GTCCAACATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 2 0.07
5 27 0.93
ACGTcount: A:0.21, C:0.55, G:0.21, T:0.03
Consensus pattern (5 bp):
ACCCG
Found at i:8555938 original size:13 final size:13
Alignment explanation
Indices: 8555920--8555944 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8555910 AACCCGACCC
8555920 GACCCGACCCGAT
1 GACCCGACCCGAT
8555933 GACCCGACCCGA
1 GACCCGACCCGA
8555945 CCCGGTCCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.48, G:0.24, T:0.04
Consensus pattern (13 bp):
GACCCGACCCGAT
Found at i:8556163 original size:19 final size:19
Alignment explanation
Indices: 8556139--8556179 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
8556129 ATGCTTAGTC
8556139 TTTTTAGCATTTTTGCTTA
1 TTTTTAGCATTTTTGCTTA
8556158 TTTTTAGCATTTTTGCTTA
1 TTTTTAGCATTTTTGCTTA
8556177 TTT
1 TTT
8556180 ATTTGAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.15, C:0.10, G:0.10, T:0.66
Consensus pattern (19 bp):
TTTTTAGCATTTTTGCTTA
Found at i:8556840 original size:39 final size:39
Alignment explanation
Indices: 8556797--8556970 Score: 163
Period size: 39 Copynumber: 4.5 Consensus size: 39
8556787 CCGCTTTCCG
*
8556797 CAGGCTCCTTGGCTTTGTACTTAAGGTAAGTCCTTACTA
1 CAGGCTCCTTGGCTTTGTACTCAAGGTAAGTCCTTACTA
*** * *
8556836 CAGGCTCCTCAACTTTGTACTCATA-GTAAGTCTTTACTG
1 CAGGCTCCTTGGCTTTGTACTCA-AGGTAAGTCCTTACTA
** * * *
8556875 CAAACTCTTTGGCTTTGTGCTCAGGGTAAGTCCTTACTA
1 CAGGCTCCTTGGCTTTGTACTCAAGGTAAGTCCTTACTA
* * * * *
8556914 CAGACTCATCGGCTTTGTGCTCATGGTAAGTCCTTACTA
1 CAGGCTCCTTGGCTTTGTACTCAAGGTAAGTCCTTACTA
*
8556953 TAGGCTCCTAT-GCTTTGT
1 CAGGCTCCT-TGGCTTTGT
8556971 GCACAGGGTA
Statistics
Matches: 108, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
39 107 0.99
40 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (39 bp):
CAGGCTCCTTGGCTTTGTACTCAAGGTAAGTCCTTACTA
Found at i:8556968 original size:78 final size:78
Alignment explanation
Indices: 8556797--8556983 Score: 214
Period size: 78 Copynumber: 2.4 Consensus size: 78
8556787 CCGCTTTCCG
* * * * *
8556797 CAGGCTCCTTGGCTTTGTACTTAAGGTAAGTCCTTACTACAGGCTCCTCAACTTTGTACTCATAG
1 CAGGCTCCTTGGCTTTGTGCTCAGGGTAAGTCCTTACTACAGACTCATCAACTTTGTACTCATAG
* *
8556862 TAAGTCTTTACTG
66 TAAGTCCTTACTA
** * ** * *
8556875 CAAACTCTTTGGCTTTGTGCTCAGGGTAAGTCCTTACTACAGACTCATCGGCTTTGTGCTCATGG
1 CAGGCTCCTTGGCTTTGTGCTCAGGGTAAGTCCTTACTACAGACTCATCAACTTTGTACTCATAG
8556940 TAAGTCCTTACTA
66 TAAGTCCTTACTA
* *
8556953 TAGGCTCCTAT-GCTTTGTGCACAGGGTAAGT
1 CAGGCTCCT-TGGCTTTGTGCTCAGGGTAAGT
8556984 ACATACTAGG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 88 0.99
79 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (78 bp):
CAGGCTCCTTGGCTTTGTGCTCAGGGTAAGTCCTTACTACAGACTCATCAACTTTGTACTCATAG
TAAGTCCTTACTA
Found at i:8561137 original size:29 final size:30
Alignment explanation
Indices: 8561091--8561152 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
8561081 CTTAAAATTT
* * * *
8561091 TTTGAGGACTAAATTG-AATTTTTATTTAA
1 TTTGAGGACCAAAGTGAAATTTTGATTAAA
*
8561120 TTTGGGGACCAAAGTGAAATTTTGATTAAA
1 TTTGAGGACCAAAGTGAAATTTTGATTAAA
8561150 TTT
1 TTT
8561153 AGATCCTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.44
Consensus pattern (30 bp):
TTTGAGGACCAAAGTGAAATTTTGATTAAA
Found at i:8562302 original size:97 final size:97
Alignment explanation
Indices: 8562097--8562311 Score: 263
Period size: 97 Copynumber: 2.2 Consensus size: 97
8562087 ATAGAAAACA
*
8562097 ATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCAGGAACAATTCATATTTTCCAGTGAA
1 ATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCAGGAACAATTCATAGTTTCCAGTGAA
* * * **
8562162 AACAGAAAACCCGATAACATATTTCAGGTACC
66 AACACAAAACCAGATAACACATACCAGGTACC
* * *
8562194 ATAATTTATAAACCAGTAAATTCCATGATTCCATAAATCATGAACAATTCATAGTTTCC-GATGA
1 ATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCAGGAACAATTCATAGTTTCCAG-TGA
* * * * *
8562258 AAAC-CAAAATCATATATCACATACCATGTTGCC
65 AAACACAAAACCAGATAACACATACCA-GGTACC
*
8562291 ATGGTTCATAAACCAGTAAAT
1 ATAGTTCATAAACCAGTAAAT
8562312 CAATTCTTTC
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
96 15 0.15
97 84 0.85
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (97 bp):
ATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCAGGAACAATTCATAGTTTCCAGTGAA
AACACAAAACCAGATAACACATACCAGGTACC
Found at i:8566899 original size:23 final size:23
Alignment explanation
Indices: 8566869--8566916 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
8566859 CACTACAGTG
*
8566869 CAATTCTACGCGGTACTTCGGTA
1 CAATTCTACGCGGCACTTCGGTA
*
8566892 CAATTCTACGTGGCACTTCGGTA
1 CAATTCTACGCGGCACTTCGGTA
8566915 CA
1 CA
8566917 TTTATACGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (23 bp):
CAATTCTACGCGGCACTTCGGTA
Found at i:8573098 original size:19 final size:19
Alignment explanation
Indices: 8573071--8573141 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
8573061 GAATGCCATC
*
8573071 AGTGTATCGATGCACAAGT
1 AGTGCATCGATGCACAAGT
8573090 AGTGCATCGAATGC-C-A-T
1 AGTGCATCG-ATGCACAAGT
* *
8573107 CAATGAATCGATGCACAAGT
1 -AGTGCATCGATGCACAAGT
8573127 AGTGCATCGATGCAC
1 AGTGCATCGATGCAC
8573142 CCCCTTAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
17 5 0.12
18 9 0.21
19 23 0.55
20 5 0.12
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (19 bp):
AGTGCATCGATGCACAAGT
Found at i:8573107 original size:37 final size:37
Alignment explanation
Indices: 8573057--8573136 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
8573047 AAAATAAAAA
* *
8573057 CATCGAATGCCATCAGTGTATCGATGCACAAGTAGTG
1 CATCGAATGCCATCAATGAATCGATGCACAAGTAGTG
8573094 CATCGAATGCCATCAATGAATCGATGCACAAGTAGTG
1 CATCGAATGCCATCAATGAATCGATGCACAAGTAGTG
8573131 CATCGA
1 CATCGA
8573137 TGCACCCCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.23
Consensus pattern (37 bp):
CATCGAATGCCATCAATGAATCGATGCACAAGTAGTG
Found at i:8573901 original size:23 final size:23
Alignment explanation
Indices: 8573849--8573908 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
8573839 AATCTTATAT
* * *
8573849 GGCACTACAGTGCAATTTTACGC
1 GGCACTTCGGTGCAATTCTACGC
8573872 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
8573895 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
8573909 TTTATACGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.28, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:8573916 original size:23 final size:22
Alignment explanation
Indices: 8573849--8573916 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
8573839 AATCTTATAT
* *
8573849 GGCACTACAGTGCAATTTTACGC
1 GGCACTTCGGTGC-ATTTTACGC
*
8573872 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGC-ATTTTACGC
8573895 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTT-TACG
8573917 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 3 0.08
23 37 0.93
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (22 bp):
GGCACTTCGGTGCATTTTACGC
Found at i:8574895 original size:19 final size:17
Alignment explanation
Indices: 8574871--8574921 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
8574861 TGAATGTGCC
8574871 TCCATACACCAAAATCCTA
1 TCCATACA--AAAATCCTA
*
8574890 TCCATATAAAAATCCTA
1 TCCATACAAAAATCCTA
*
8574907 TCCATATAAAAATCC
1 TCCATACAAAAATCC
8574922 AATAGAAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 24 0.77
19 7 0.23
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.25
Consensus pattern (17 bp):
TCCATACAAAAATCCTA
Done.