Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 11 of 173
Found at i:3068805 original size:6 final size:6
Alignment explanation
Indices: 3068746--3068826 Score: 63
Period size: 6 Copynumber: 13.0 Consensus size: 6
3068736 CAAGCCGTTG
* * * * * * *
3068746 CCTCCA CTTCCA CCACCT CCTCCT CCTCCT CCACCA CCTCCT CCTCCA
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA
*
3068794 CCTCCA CCTCCA CCACTACCA CCTCCA CTTCCA
1 CCTCCA CCTCCA -C-CT-CCA CCTCCA CCTCCA
3068827 TATCCGGACC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
6 52 0.85
7 3 0.05
8 3 0.05
9 3 0.05
ACGTcount: A:0.16, C:0.63, G:0.00, T:0.21
Consensus pattern (6 bp):
CCTCCA
Found at i:3068866 original size:3 final size:3
Alignment explanation
Indices: 3068860--3068908 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
3068850 TCCTCCATTG
* * * * *
3068860 CCA CCA CCA CCT CCA CCA CCA CCA CCT CCT CCA CCA CCT CCA CCT CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
3068908 C
1 C
3068909 TTCCATATCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.22, C:0.67, G:0.00, T:0.10
Consensus pattern (3 bp):
CCA
Found at i:3068877 original size:9 final size:9
Alignment explanation
Indices: 3068863--3068903 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
3068853 TCCATTGCCA
3068863 CCACCACCT
1 CCACCACCT
*
3068872 CCACCACCA
1 CCACCACCT
*
3068881 CCACCTCCT
1 CCACCACCT
3068890 CCACCACCT
1 CCACCACCT
3068899 CCACC
1 CCACC
3068904 TCCACTTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.22, C:0.68, G:0.00, T:0.10
Consensus pattern (9 bp):
CCACCACCT
Found at i:3068880 original size:15 final size:15
Alignment explanation
Indices: 3068860--3068897 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
3068850 TCCTCCATTG
3068860 CCACCACCACCTCCA
1 CCACCACCACCTCCA
*
3068875 CCACCACCACCTCCT
1 CCACCACCACCTCCA
3068890 CCACCACC
1 CCACCACC
3068898 TCCACCTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.68, G:0.00, T:0.08
Consensus pattern (15 bp):
CCACCACCACCTCCA
Found at i:3068890 original size:18 final size:18
Alignment explanation
Indices: 3068860--3068906 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
3068850 TCCTCCATTG
*
3068860 CCACCACCACCTCCACCA
1 CCACCACCTCCTCCACCA
3068878 CCACCACCTCCTCCACCA
1 CCACCACCTCCTCCACCA
*
3068896 CCTCCACCTCC
1 CCACCACCTCC
3068907 ACTTCCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.21, C:0.68, G:0.00, T:0.11
Consensus pattern (18 bp):
CCACCACCTCCTCCACCA
Found at i:3068905 original size:15 final size:15
Alignment explanation
Indices: 3068863--3068908 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
3068853 TCCATTGCCA
*
3068863 CCACCACCTCCACCA
1 CCACCACCTCCACCT
3068878 CCACCACCT---CCT
1 CCACCACCTCCACCT
3068890 CCACCACCTCCACCT
1 CCACCACCTCCACCT
3068905 CCAC
1 CCAC
3068909 TTCCATATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 11 0.41
15 16 0.59
ACGTcount: A:0.22, C:0.67, G:0.00, T:0.11
Consensus pattern (15 bp):
CCACCACCTCCACCT
Found at i:3068919 original size:18 final size:18
Alignment explanation
Indices: 3068898--3068936 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3068888 CTCCACCACC
*
3068898 TCCACCTCCACTTCCATA
1 TCCACATCCACTTCCATA
*
3068916 TCCAGATCCACTTCCATA
1 TCCACATCCACTTCCATA
3068934 TCC
1 TCC
3068937 GGACCCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.46, G:0.03, T:0.28
Consensus pattern (18 bp):
TCCACATCCACTTCCATA
Found at i:3068982 original size:12 final size:12
Alignment explanation
Indices: 3068965--3069027 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
3068955 TCCTCTATTG
*
3068965 CCACCACCGCCT
1 CCACCACCACCT
* *
3068977 CCACCACCTCCA
1 CCACCACCACCT
3068989 CCACCACCACCT
1 CCACCACCACCT
*
3069001 CCTCCACCACCT
1 CCACCACCACCT
* *
3069013 CCACCTCCACTT
1 CCACCACCACCT
3069025 CCA
1 CCA
3069028 TATCCAGATC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.21, C:0.65, G:0.02, T:0.13
Consensus pattern (12 bp):
CCACCACCACCT
Found at i:3068986 original size:9 final size:9
Alignment explanation
Indices: 3068968--3069017 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
3068958 TCTATTGCCA
*
3068968 CCACCGCCT
1 CCACCACCT
3068977 CCACCACCT
1 CCACCACCT
*
3068986 CCACCACCA
1 CCACCACCT
*
3068995 CCACCTCCT
1 CCACCACCT
3069004 CCACCACCT
1 CCACCACCT
3069013 CCACC
1 CCACC
3069018 TCCACTTCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.20, C:0.68, G:0.02, T:0.10
Consensus pattern (9 bp):
CCACCACCT
Found at i:3068995 original size:15 final size:15
Alignment explanation
Indices: 3068965--3069022 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
3068955 TCCTCTATTG
* *
3068965 CCACCACCGCCTCCA
1 CCACCACCTCCACCA
* *
3068980 CCACCTCCACCACCA
1 CCACCACCTCCACCA
*
3068995 CCACCTCCTCCACCA
1 CCACCACCTCCACCA
*
3069010 CCTCCACCTCCAC
1 CCACCACCTCCAC
3069023 TTCCATATCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.21, C:0.67, G:0.02, T:0.10
Consensus pattern (15 bp):
CCACCACCTCCACCA
Found at i:3069127 original size:3 final size:3
Alignment explanation
Indices: 3069121--3069169 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
3069111 TCCTCTACTG
* * * * *
3069121 CCA CCA CCT CCA CCG CCA CCT CCT CCT CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
3069169 C
1 C
3069170 TAGCACTACC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.22, C:0.67, G:0.02, T:0.08
Consensus pattern (3 bp):
CCA
Found at i:3069188 original size:12 final size:12
Alignment explanation
Indices: 3069067--3069169 Score: 55
Period size: 12 Copynumber: 8.3 Consensus size: 12
3069057 TTCTCCATTG
3069067 CCACCACCACCT
1 CCACCACCACCT
*
3069079 CCACCACCACCG
1 CCACCACCACCT
* **
3069091 CCTCCACTTCCT
1 CCACCACCACCT
* *
3069103 CCA-AACCCTCCT
1 CCACCA-CCACCT
*
3069115 CTACTGCCACCACCT
1 C--C-ACCACCACCT
*
3069130 CCACCGCCACCT
1 CCACCACCACCT
* * *
3069142 CCTCCTCCACCA
1 CCACCACCACCT
*
3069154 CCACCACCACCA
1 CCACCACCACCT
3069166 CCAC
1 CCAC
3069170 TAGCACTACC
Statistics
Matches: 68, Mismatches: 18, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
11 1 0.01
12 58 0.85
13 1 0.01
14 1 0.01
15 6 0.09
16 1 0.01
ACGTcount: A:0.21, C:0.63, G:0.03, T:0.13
Consensus pattern (12 bp):
CCACCACCACCT
Found at i:3069204 original size:18 final size:18
Alignment explanation
Indices: 3069183--3069218 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3069173 CACTACCACC
3069183 TCCACTTCCATATCCAGA
1 TCCACTTCCATATCCAGA
*
3069201 TCCACTTCCGTATCCAGA
1 TCCACTTCCATATCCAGA
3069219 CCCTTCTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.39, G:0.08, T:0.28
Consensus pattern (18 bp):
TCCACTTCCATATCCAGA
Found at i:3069239 original size:3 final size:3
Alignment explanation
Indices: 3069226--3069268 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
3069216 AGACCCTTCT
* * * *
3069226 CCA CTA CCA CCA CCT CCA CCA CCA CCA CCT CCT CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
3069269 TAGAAATACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.26, C:0.65, G:0.00, T:0.09
Consensus pattern (3 bp):
CCA
Found at i:3069244 original size:15 final size:15
Alignment explanation
Indices: 3069224--3069268 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
3069214 CCAGACCCTT
*
3069224 CTCCACTACCACCAC
1 CTCCACCACCACCAC
3069239 CTCCACCACCACCAC
1 CTCCACCACCACCAC
*
3069254 CTCCTCCACCACCAC
1 CTCCACCACCACCAC
3069269 TAGAAATACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.24, C:0.64, G:0.00, T:0.11
Consensus pattern (15 bp):
CTCCACCACCACCAC
Found at i:3069252 original size:18 final size:18
Alignment explanation
Indices: 3069226--3069268 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
3069216 AGACCCTTCT
*
3069226 CCACTACCACCACCTCCA
1 CCACCACCACCACCTCCA
*
3069244 CCACCACCACCTCCTCCA
1 CCACCACCACCACCTCCA
3069262 CCACCAC
1 CCACCAC
3069269 TAGAAATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.65, G:0.00, T:0.09
Consensus pattern (18 bp):
CCACCACCACCACCTCCA
Found at i:3069358 original size:3 final size:3
Alignment explanation
Indices: 3069352--3069386 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
3069342 TCCATTGCCG
*
3069352 CCA CCA CCA CCA CCT CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
3069387 TCCTCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.69, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:3069365 original size:99 final size:99
Alignment explanation
Indices: 3069136--3069327 Score: 249
Period size: 99 Copynumber: 1.9 Consensus size: 99
3069126 ACCTCCACCG
* * * *
3069136 CCACCTCCTCCTCCACCACCACCACCACCACCACTAGCACTACCACCTCCACTTCCATATCCAGA
1 CCACCTCCACCACCACCACCACCACCACCACCACTAGAAATACCACCTCCACTTCCATATCCAGA
* * ****
3069201 TCCACTTCCGTATCCAGACCCTTCTCCACTACCA
66 CCCACTTCCATATCCAGACCCGAAACCACTACCA
* * *
3069235 CCACCTCCACCACCACCACCTCCTCCACCACCACTAGAAATACCACCTTCACTTCCATATCCAGA
1 CCACCTCCACCACCACCACCACCACCACCACCACTAGAAATACCACCTCCACTTCCATATCCAGA
* *
3069300 CCCACTTCCATATCCGGATCCGAAACCA
66 CCCACTTCCATATCCAGACCCGAAACCA
3069328 TATCCCGATC
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
99 78 1.00
ACGTcount: A:0.27, C:0.51, G:0.05, T:0.18
Consensus pattern (99 bp):
CCACCTCCACCACCACCACCACCACCACCACCACTAGAAATACCACCTCCACTTCCATATCCAGA
CCCACTTCCATATCCAGACCCGAAACCACTACCA
Found at i:3070964 original size:18 final size:19
Alignment explanation
Indices: 3070937--3070981 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
3070927 AAATATTAAT
*
3070937 TTTTTTATAATTTTTA-T-A
1 TTTTTAATAA-TTTTAGTGA
3070955 TTTTTAATAATTTTAGTGA
1 TTTTTAATAATTTTAGTGA
3070974 TTTTTAAT
1 TTTTTAAT
3070982 TCTATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 10 0.42
19 9 0.38
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTAATAATTTTAGTGA
Found at i:3075142 original size:21 final size:21
Alignment explanation
Indices: 3075101--3075165 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
3075091 CCATTGCCTT
* *
3075101 CACCTCCGCCTCCTCCACCTC
1 CACCTCCACCACCTCCACCTC
*
3075122 CA-CTGCCACCACCTCCTCCTC
1 CACCT-CCACCACCTCCACCTC
* *
3075143 CACCTCTACCACCTCCACTTC
1 CACCTCCACCACCTCCACCTC
3075164 CA
1 CA
3075166 TTCCCACTCC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 2 0.06
21 32 0.89
22 2 0.06
ACGTcount: A:0.15, C:0.62, G:0.03, T:0.20
Consensus pattern (21 bp):
CACCTCCACCACCTCCACCTC
Found at i:3075262 original size:30 final size:30
Alignment explanation
Indices: 3075226--3075284 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
3075216 TCCCGACCCT
3075226 CCTCCA-TGACCACCACCTCCGCCACCACCA
1 CCTCCATTG-CCACCACCTCCGCCACCACCA
* *
3075256 CCTCCATTGCCACCACCTCCTCCTCCACC
1 CCTCCATTGCCACCACCTCCGCCACCACC
3075285 TCTACCTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.61, G:0.05, T:0.15
Consensus pattern (30 bp):
CCTCCATTGCCACCACCTCCGCCACCACCA
Found at i:3075267 original size:18 final size:15
Alignment explanation
Indices: 3075234--3075284 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
3075224 CTCCTCCATG
3075234 ACCACCACCTCCGCC
1 ACCACCACCTCCGCC
3075249 ACCACCACCTCCATTGCC
1 ACCACCACCTCC---GCC
* *
3075267 ACCACCTCCTCCTCC
1 ACCACCACCTCCGCC
3075282 ACC
1 ACC
3075285 TCTACCTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 17 0.55
18 14 0.45
ACGTcount: A:0.20, C:0.63, G:0.04, T:0.14
Consensus pattern (15 bp):
ACCACCACCTCCGCC
Found at i:3075324 original size:18 final size:18
Alignment explanation
Indices: 3075301--3075340 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
3075291 TCTACCACCT
3075301 CCACTTCCATATCCAGAC
1 CCACTTCCATATCCAGAC
*
3075319 CCACTTCCATATCCCGAC
1 CCACTTCCATATCCAGAC
3075337 CCAC
1 CCAC
3075341 CTCCGTTGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.25, C:0.50, G:0.05, T:0.20
Consensus pattern (18 bp):
CCACTTCCATATCCAGAC
Found at i:3075385 original size:15 final size:15
Alignment explanation
Indices: 3075337--3075386 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
3075327 ATATCCCGAC
**
3075337 CCACCTCCGTTGCCA
1 CCACCTCCACTGCCA
** *
3075352 CCACCTCCACCACCG
1 CCACCTCCACTGCCA
3075367 CCACCTCCACTGCCA
1 CCACCTCCACTGCCA
3075382 CCACC
1 CCACC
3075387 ACCTCCTCCA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.18, C:0.62, G:0.08, T:0.12
Consensus pattern (15 bp):
CCACCTCCACTGCCA
Found at i:3075397 original size:15 final size:15
Alignment explanation
Indices: 3075349--3075400 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
3075339 ACCTCCGTTG
*
3075349 CCACCACCTCCACCA
1 CCACCACCTCCTCCA
*
3075364 CCGCCACCTCCACTGCCA
1 CCACCACCT-C-CT-CCA
3075382 CCACCACCTCCTCCA
1 CCACCACCTCCTCCA
3075397 CCAC
1 CCAC
3075401 TTCCTATCCC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 15 0.48
16 3 0.10
17 2 0.06
18 11 0.35
ACGTcount: A:0.21, C:0.65, G:0.04, T:0.10
Consensus pattern (15 bp):
CCACCACCTCCTCCA
Found at i:3076795 original size:25 final size:25
Alignment explanation
Indices: 3076761--3076811 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
3076751 ATGCTGACAA
3076761 TTTATTGAACGGTATTTATGGATTG
1 TTTATTGAACGGTATTTATGGATTG
3076786 TTTATTGAACGGTATTTATGGATTG
1 TTTATTGAACGGTATTTATGGATTG
3076811 T
1 T
3076812 GTTAAGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.49
Consensus pattern (25 bp):
TTTATTGAACGGTATTTATGGATTG
Found at i:3079643 original size:21 final size:20
Alignment explanation
Indices: 3079619--3079676 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
3079609 ACCTCTGCCT
3079619 CCTCCACCTCCACTGCCACCA
1 CCTCCACCTCCACT-CCACCA
* *
3079640 CCTCCTCCTCCACCTCTACCA
1 CCTCCACCTCCA-CTCCACCA
* *
3079661 CTTCCACTTCCACTCC
1 CCTCCACCTCCACTCC
3079677 CACTCCCACT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 3 0.10
21 25 0.83
22 2 0.07
ACGTcount: A:0.16, C:0.60, G:0.02, T:0.22
Consensus pattern (20 bp):
CCTCCACCTCCACTCCACCA
Found at i:3079739 original size:18 final size:17
Alignment explanation
Indices: 3079718--3079774 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 17
3079708 ATATCCTGAC
3079718 CCTCCTCCATGACCACCA
1 CCTCCTCC-TGACCACCA
*
3079736 CCTCCGCC--ACCACCA
1 CCTCCTCCTGACCACCA
*
3079751 CCTCC-ACTG-CCACCA
1 CCTCCTCCTGACCACCA
3079766 CCTCCTCCT
1 CCTCCTCCT
3079775 CCACCTCTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 1 0.03
15 23 0.70
16 2 0.06
18 7 0.21
ACGTcount: A:0.18, C:0.61, G:0.05, T:0.16
Consensus pattern (17 bp):
CCTCCTCCTGACCACCA
Found at i:3079866 original size:18 final size:18
Alignment explanation
Indices: 3079843--3079895 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
3079833 CACCTCCGTT
*
3079843 GCCACCACCTCCACCACC
1 GCCACCTCCTCCACCACC
* **
3079861 GCCACCTCCGCTGCCACC
1 GCCACCTCCTCCACCACC
*
3079879 ACCACCTCCTCCACCAC
1 GCCACCTCCTCCACCAC
3079896 TTCCTATCCC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.19, C:0.64, G:0.08, T:0.09
Consensus pattern (18 bp):
GCCACCTCCTCCACCACC
Found at i:3079880 original size:15 final size:15
Alignment explanation
Indices: 3079832--3079881 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
3079822 ATATCCCGAC
*
3079832 CCACCTCCGTTGCCA
1 CCACCTCCGCTGCCA
* ** *
3079847 CCACCTCCACCACCG
1 CCACCTCCGCTGCCA
3079862 CCACCTCCGCTGCCA
1 CCACCTCCGCTGCCA
3079877 CCACC
1 CCACC
3079882 ACCTCCTCCA
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.16, C:0.62, G:0.10, T:0.12
Consensus pattern (15 bp):
CCACCTCCGCTGCCA
Found at i:3079892 original size:15 final size:15
Alignment explanation
Indices: 3079844--3079895 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
3079834 ACCTCCGTTG
*
3079844 CCACCACCTCCACCA
1 CCACCACCTCCTCCA
*
3079859 CCGCCACCTCCGCTGCCA
1 CCACCACCT-C-CT-CCA
3079877 CCACCACCTCCTCCA
1 CCACCACCTCCTCCA
3079892 CCAC
1 CCAC
3079896 TTCCTATCCC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 15 0.48
16 3 0.10
17 2 0.06
18 11 0.35
ACGTcount: A:0.19, C:0.65, G:0.06, T:0.10
Consensus pattern (15 bp):
CCACCACCTCCTCCA
Found at i:3079929 original size:114 final size:114
Alignment explanation
Indices: 3079706--3079932 Score: 276
Period size: 114 Copynumber: 2.0 Consensus size: 114
3079696 GGACCCTGAT
* * * *
3079706 CCATATCCTGACCCTCCTCCATGACCACCACCTCCGCCACCACCACCTCCACTGCCACCACCTCC
1 CCATATCCCGACCCACCTCCATGACCACCACCTCCACCACCACCACCTCCACTGCCACCACCACC
* * * ** *
3079771 TCCTCCACCTCTACCTCTACCACCTCCACTTCCATATCCAGATCCAGAC
66 TCCTCCACCACTACCTATACCACCACCACACCCATACCCAGATCCAGAC
* * *
3079820 CCATATCCCGACCCACCTCCGTTG-CCACCACCTCCACCACCGCCACCTCCGCTGCCACCACCAC
1 CCATATCCCGACCCACCTCC-ATGACCACCACCTCCACCACCACCACCTCCACTGCCACCACCAC
* * * * *
3079884 CTCCTCCACCACTTCCTATCCCACCACCAGACCCATGCCCTGATCCAGA
65 CTCCTCCACCACTACCTATACCACCACCACACCCATACCCAGATCCAGA
3079933 TCCTGACCCA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
114 92 0.98
115 2 0.02
ACGTcount: A:0.21, C:0.55, G:0.07, T:0.17
Consensus pattern (114 bp):
CCATATCCCGACCCACCTCCATGACCACCACCTCCACCACCACCACCTCCACTGCCACCACCACC
TCCTCCACCACTACCTATACCACCACCACACCCATACCCAGATCCAGAC
Found at i:3084719 original size:18 final size:18
Alignment explanation
Indices: 3084692--3084742 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
3084682 TCCACTACTA
*
3084692 CCATAACCTGACCCACTT
1 CCATAACCTGAACCACTT
*
3084710 CCATATCCTGAACCACTT
1 CCATAACCTGAACCACTT
3084728 CCATAACCTGAACCA
1 CCATAACCTGAACCA
3084743 TTGCCTCCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.41, G:0.06, T:0.22
Consensus pattern (18 bp):
CCATAACCTGAACCACTT
Found at i:3084813 original size:12 final size:12
Alignment explanation
Indices: 3084746--3084801 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
3084736 TGAACCATTG
3084746 CCTCCACCACCT
1 CCTCCACCACCT
*
3084758 CCTCCTCCACCT
1 CCTCCACCACCT
* * *
3084770 CCACCGCCACCG
1 CCTCCACCACCT
* *
3084782 CCACCACCTCCT
1 CCTCCACCACCT
3084794 CCTCCACC
1 CCTCCACC
3084802 TCTACCACCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.14, C:0.68, G:0.04, T:0.14
Consensus pattern (12 bp):
CCTCCACCACCT
Found at i:3084914 original size:18 final size:18
Alignment explanation
Indices: 3084878--3084930 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
3084868 TCCTCCATTG
3084878 CCACCACCTCCACCACCA
1 CCACCACCTCCACCACCA
* * *
3084896 CCACCTCCTCTACCGCCA
1 CCACCACCTCCACCACCA
*
3084914 CCACCACCACCACCACC
1 CCACCACCTCCACCACC
3084931 TCCTATCCCA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.25, C:0.66, G:0.02, T:0.08
Consensus pattern (18 bp):
CCACCACCTCCACCACCA
Found at i:3084925 original size:27 final size:27
Alignment explanation
Indices: 3084881--3084946 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 27
3084871 TCCATTGCCA
*
3084881 CCACCTCCACCACCACCACCTCCTCTACC
1 CCACCACCACCACCACCACCT-C-CTACC
*
3084910 GCCACCACCACCACCACCACCTCCTATC
1 -CCACCACCACCACCACCACCTCCTACC
3084938 CCACCACCA
1 CCACCACCA
3084947 GACCCATACC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 9 0.26
28 4 0.12
29 1 0.03
30 20 0.59
ACGTcount: A:0.24, C:0.64, G:0.02, T:0.11
Consensus pattern (27 bp):
CCACCACCACCACCACCACCTCCTACC
Found at i:3084945 original size:15 final size:15
Alignment explanation
Indices: 3084878--3084933 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
3084868 TCCTCCATTG
3084878 CCACCACCTCCACCA
1 CCACCACCTCCACCA
* *
3084893 CCACCACCTCCTCTA
1 CCACCACCTCCACCA
* *
3084908 CCGCCACCACCACCA
1 CCACCACCTCCACCA
3084923 CCACCACCTCC
1 CCACCACCTCC
3084934 TATCCCACCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.23, C:0.66, G:0.02, T:0.09
Consensus pattern (15 bp):
CCACCACCTCCACCA
Found at i:3084946 original size:3 final size:3
Alignment explanation
Indices: 3084878--3084930 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
3084868 TCCTCCATTG
* * * * *
3084878 CCA CCA CCT CCA CCA CCA CCA CCT CCT CTA CCG CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
3084926 CCA CC
1 CCA CC
3084931 TCCTATCCCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.25, C:0.66, G:0.02, T:0.08
Consensus pattern (3 bp):
CCA
Found at i:3085019 original size:6 final size:6
Alignment explanation
Indices: 3085010--3085053 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
3085000 AGAGCTGCCA
* * * *
3085010 CCACCT CCACCT CCACCT CCGCCC CCACCA CCCCCT CCACCT CC
1 CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CC
3085054 TCCACTACCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.14, C:0.73, G:0.02, T:0.11
Consensus pattern (6 bp):
CCACCT
Found at i:3085124 original size:12 final size:12
Alignment explanation
Indices: 3085073--3085125 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
3085063 ATAAGCTCCC
3085073 GAACCATATCCT
1 GAACCATATCCT
* *
3085085 GAGCCACT-TCCG
1 GAACCA-TATCCT
*
3085097 GAACCATACCCT
1 GAACCATATCCT
*
3085109 GAACCATATCCA
1 GAACCATATCCT
3085121 GAACC
1 GAACC
3085126 TGAGCCTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.32, C:0.38, G:0.13, T:0.17
Consensus pattern (12 bp):
GAACCATATCCT
Found at i:3085124 original size:24 final size:24
Alignment explanation
Indices: 3085073--3085125 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
3085063 ATAAGCTCCC
* * *
3085073 GAACCATATCCTGAGCCACTTCCG
1 GAACCATACCCTGAACCACTTCCA
3085097 GAACCATACCCTGAACCA-TATCCA
1 GAACCATACCCTGAACCACT-TCCA
3085121 GAACC
1 GAACC
3085126 TGAGCCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.32, C:0.38, G:0.13, T:0.17
Consensus pattern (24 bp):
GAACCATACCCTGAACCACTTCCA
Found at i:3089210 original size:27 final size:28
Alignment explanation
Indices: 3089174--3089243 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 28
3089164 AAAAAATAAT
3089174 CAAAATATTATAAATTTTT-TTATTTAC
1 CAAAATATTATAAATTTTTATTATTTAC
3089201 CAAAATATTATAATTATTTTTATTATTTAC
1 CAAAATATTATAA--ATTTTTATTATTTAC
*
3089231 AAAAATA-TATAAA
1 CAAAATATTATAAA
3089244 AAAACCAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 14 0.36
29 11 0.28
30 14 0.36
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (28 bp):
CAAAATATTATAAATTTTTATTATTTAC
Found at i:3089317 original size:27 final size:26
Alignment explanation
Indices: 3089287--3089363 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 26
3089277 AGCTGATCAG
3089287 GCCAATGACATTGGCGGCACCAAAGGT
1 GCCAA-GACATTGGCGGCACCAAAGGT
* *
3089314 GCCAAAGCCATTGGCGGCACCAATGGT
1 GCC-AAGACATTGGCGGCACCAAAGGT
*
3089341 GCCAAAACCATTGGCGGCACCAA
1 GCCAAGA-CATTGGCGGCACCAA
3089364 TGCCATAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.05
27 40 0.91
28 2 0.05
ACGTcount: A:0.30, C:0.30, G:0.27, T:0.13
Consensus pattern (26 bp):
GCCAAGACATTGGCGGCACCAAAGGT
Found at i:3089364 original size:27 final size:27
Alignment explanation
Indices: 3089295--3089365 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
3089285 AGGCCAATGA
* *
3089295 CATTGGCGGCACCAAAGGTGCCAAAGC
1 CATTGGCGGCACCAATGGTGCCAAAAC
3089322 CATTGGCGGCACCAATGGTGCCAAAAC
1 CATTGGCGGCACCAATGGTGCCAAAAC
3089349 CATTGGCGGCACCAATG
1 CATTGGCGGCACCAATG
3089366 CCATAATAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.14
Consensus pattern (27 bp):
CATTGGCGGCACCAATGGTGCCAAAAC
Found at i:3089412 original size:4 final size:4
Alignment explanation
Indices: 3089405--3089523 Score: 50
Period size: 4 Copynumber: 28.0 Consensus size: 4
3089395 GGAGGAGAGG
* * *
3089405 GAAA GAAA GAAA GAAA GGAAG GAGAG GAAA GAAA G-AA -AAA GAAG GAAA
1 GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA
* *
3089453 GAAAA GGAAA TGAGAA GAGAA AAAA AAAA GGAAA G-AA G-AA GAAGA GGAAA
1 G-AAA -GAAA -GA-AA GA-AA GAAA GAAA -GAAA GAAA GAAA GAA-A -GAAA
3089503 GGAGAA GAAA -AAA GAAA GAAA
1 -GA-AA GAAA GAAA GAAA GAAA
3089524 AGGAAAGGAG
Statistics
Matches: 95, Mismatches: 7, Indels: 26
0.74 0.05 0.20
Matches are distributed among these distances:
3 13 0.14
4 43 0.45
5 31 0.33
6 8 0.08
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:3089427 original size:27 final size:27
Alignment explanation
Indices: 3089397--3089552 Score: 86
Period size: 27 Copynumber: 5.9 Consensus size: 27
3089387 TGGGGGGGGG
*
3089397 AGGAGAGGGAAAGAAAGAAAGA-AAGGA
1 AGGAGA-GGAAAGAAAGAAAAAGAAGGA
3089424 AGGAGAGGAAAGAAAGAAAAAGAAGGAA
1 AGGAGAGGAAAGAAAGAAAAAGAAGG-A
* *
3089452 AGAAAAGGAAATGAGAAGAGAAAA-AA--A
1 AGGAGAGGAAA-GA-AAGA-AAAAGAAGGA
*
3089479 A--A-AGGAAAG-AAGAAGAAG-AGGAA
1 AGGAGAGGAAAGAAAGAAAAAGAAGG-A
*
3089502 AGGAGAAGAAA-AAAGAAAGAA-AAGGAA
1 AGGAGAGGAAAGAAAGAAA-AAGAAGG-A
*
3089529 AGGAGAAGAGAA-AAA-AAAAAGAAG
1 AGGAGAGGA-AAGAAAGAAAAAGAAG
3089553 AAGAGGGAAG
Statistics
Matches: 106, Mismatches: 6, Indels: 34
0.73 0.04 0.23
Matches are distributed among these distances:
20 4 0.04
21 4 0.04
23 3 0.03
24 6 0.06
25 2 0.02
26 26 0.25
27 34 0.32
28 15 0.14
29 2 0.02
30 6 0.06
31 4 0.04
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.01
Consensus pattern (27 bp):
AGGAGAGGAAAGAAAGAAAAAGAAGGA
Found at i:3089434 original size:22 final size:18
Alignment explanation
Indices: 3089409--3089514 Score: 71
Period size: 19 Copynumber: 5.8 Consensus size: 18
3089399 GAGAGGGAAA
3089409 GAAAGAAAGAAAGGAAGGAGAG
1 GAAAGAAAGAAA--AA-GA-AG
3089431 GAAAGAAAGAAAAAGAAG
1 GAAAGAAAGAAAAAGAAG
* *
3089449 GAAAGAAAAGGAAATG-A-
1 GAAAG-AAAGAAAAAGAAG
3089466 GAAGAGAAA-AAAAA-AAG
1 GAA-AGAAAGAAAAAGAAG
*
3089483 GAAAG-AAGAAGAAG-AG
1 GAAAGAAAGAAAAAGAAG
3089499 GAAAGGAGAAGAAAAA
1 GAAA-GA-AAGAAAAA
3089515 AGAAAGAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
15 2 0.03
16 16 0.23
17 10 0.14
18 10 0.14
19 17 0.25
20 2 0.03
22 12 0.17
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (18 bp):
GAAAGAAAGAAAAAGAAG
Found at i:3089436 original size:18 final size:19
Alignment explanation
Indices: 3089406--3089462 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
3089396 GAGGAGAGGG
*
3089406 AAAGAAAGAAAGAAAGGAA
1 AAAGAAGGAAAGAAAGGAA
**
3089425 GGAG-AGGAAAGAAA-GAA
1 AAAGAAGGAAAGAAAGGAA
3089442 AAAGAAGGAAAGAAAAGGAA
1 AAAGAAGGAAAG-AAAGGAA
3089462 A
1 A
3089463 TGAGAAGAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 5 0.17
18 16 0.53
19 5 0.17
20 4 0.13
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (19 bp):
AAAGAAGGAAAGAAAGGAA
Found at i:3089446 original size:32 final size:31
Alignment explanation
Indices: 3089410--3089583 Score: 113
Period size: 32 Copynumber: 5.2 Consensus size: 31
3089400 AGAGGGAAAG
3089410 AAAGAAAGAAAGGAAGGAGAGGAAAGAAAGAA
1 AAAGAAAGAAAGGAAGGAGAGGAAAGAAA-AA
* * *
3089442 AAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAAAA
1 AAAGAAAGAAAG-GAAGGAGA-G-GAA-AGAAAAA
* *
3089477 AAA-AAGGAAAGAAGAAGAAGAGGAAAGGAGAAGAAA
1 AAAGAAAGAAAG--GAAGGAGAGG-AA--AGAA-AAA
*
3089513 AAAGAAAGAAAAGGAAAGGAGAAGAGAA-AAAAA
1 AAAGAAAG-AAAGG-AAGGAGAGGA-AAGAAAAA
*
3089546 AAAG-AAGAAGAGGGAAGGA-AGGAAGGAAAAA
1 AAAGAAAGAA-A-GGAAGGAGAGGAAAGAAAAA
3089577 AAAGAAA
1 AAAGAAA
3089584 AAAAAAGGTA
Statistics
Matches: 115, Mismatches: 11, Indels: 32
0.73 0.07 0.20
Matches are distributed among these distances:
30 1 0.01
31 14 0.12
32 22 0.19
33 16 0.14
34 14 0.12
35 20 0.17
36 13 0.11
37 11 0.10
38 4 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (31 bp):
AAAGAAAGAAAGGAAGGAGAGGAAAGAAAAA
Found at i:3089484 original size:34 final size:34
Alignment explanation
Indices: 3089480--3089579 Score: 79
Period size: 33 Copynumber: 3.0 Consensus size: 34
3089470 AGAAAAAAAA
*
3089480 AAGGAAAGAAGAA-GAAGAGGA-AAG-GAGAAGAAAA
1 AAGGAAAGAA-AAGGAA-AGGAGAAGAGA-AAAAAAA
3089514 AA-GAAAGAAAAGGAAAGGAGAAGAGAAAAAAAA
1 AAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAA
* *
3089547 AA-G-AAGAAGAGGGAAGGAAGGAAG-GAAAAAAAA
1 AAGGAAAGAAAAGGAAAGG-A-GAAGAGAAAAAAAA
3089580 GAAAAAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
32 18 0.31
33 32 0.55
34 8 0.14
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (34 bp):
AAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAA
Found at i:3089495 original size:40 final size:43
Alignment explanation
Indices: 3089432--3089537 Score: 123
Period size: 40 Copynumber: 2.6 Consensus size: 43
3089422 GAAGGAGAGG
* * * *
3089432 AAAGAAAGAAAAAG-AAGGA-AAGAAAAGGAAATGAGAAG-AG
1 AAAGAAAGAAAAGGAAAGAAGAAGAAAAGGAAAGGAGAAGAAA
*
3089472 AAA-AAA-AAAAGGAAAGAAGAAGAAGAGGAAAGGAGAAGAAA
1 AAAGAAAGAAAAGGAAAGAAGAAGAAAAGGAAAGGAGAAGAAA
*
3089513 AAAGAAAGAAAAGGAAAGGAGAAGA
1 AAAGAAAGAAAAGGAAAGAAGAAGA
3089538 GAAAAAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
38 5 0.09
39 7 0.13
40 20 0.36
41 4 0.07
42 3 0.05
43 16 0.29
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (43 bp):
AAAGAAAGAAAAGGAAAGAAGAAGAAAAGGAAAGGAGAAGAAA
Found at i:3089535 original size:67 final size:67
Alignment explanation
Indices: 3089410--3089591 Score: 203
Period size: 67 Copynumber: 2.7 Consensus size: 67
3089400 AGAGGGAAAG
* *
3089410 AAAGAAAGAAAGGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAA
1 AAAGAAAG-AA-GAAGAAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAA
3089475 AAAA
64 AAAA
3089479 AAAGGAAAGAAGAAGAAGAGGAAAGGAGAAG-AAAA-AA-GAAAGAAAAGGAAAGGAGAAGAGAA
1 AAA-GAAAGAAGAAGAAGAGGAAA-GA-AAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAA
3089541 AAAAA
63 AAAAA
* * * * * * *
3089546 AAAG-AAGAAGAGGGA-AGGAAGGAAGGAAAAAAAAGAAAAAAAAAGG
1 AAAGAAAGAAGAAGAAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGG
3089592 TAATTTTTTT
Statistics
Matches: 99, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
62 2 0.02
63 6 0.06
64 7 0.07
65 18 0.18
66 1 0.01
67 32 0.32
68 14 0.14
69 11 0.11
70 8 0.08
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (67 bp):
AAAGAAAGAAGAAGAAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAA
AA
Found at i:3089553 original size:16 final size:15
Alignment explanation
Indices: 3089432--3089551 Score: 53
Period size: 17 Copynumber: 7.4 Consensus size: 15
3089422 GAAGGAGAGG
*
3089432 AAAGAAAG-AAAAAG
1 AAAGAAAGAAAAAAA
*
3089446 AAGGAAAGAAAAGGAAA
1 AAAGAAAGAAAA--AAA
**
3089463 TGAGAAGAGAAAAAAA
1 AAAGAA-AGAAAAAAA
*
3089479 AAAGGAAAGAAGAAGAA
1 AAA-GAAAGAA-AAAAA
* * *
3089496 GAGGAAAGGAGAAGAAA
1 AAAGAAA-GA-AAAAAA
3089513 AAAGAAAGAAAAGGAAA
1 AAAGAAAGAAAA--AAA
**
3089530 GGAGAAGAGAAAAAAA
1 AAAGAA-AGAAAAAAA
3089546 AAAGAA
1 AAAGAA
3089552 GAAGAGGGAA
Statistics
Matches: 76, Mismatches: 19, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
14 7 0.09
15 5 0.07
16 21 0.28
17 30 0.39
18 13 0.17
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (15 bp):
AAAGAAAGAAAAAAA
Found at i:3090144 original size:16 final size:15
Alignment explanation
Indices: 3090118--3090147 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3090108 GTACTGAAAT
3090118 AATATAAAATAATAA
1 AATATAAAATAATAA
3090133 AATATGAAAATAATA
1 AATAT-AAAATAATA
3090148 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:3090350 original size:27 final size:27
Alignment explanation
Indices: 3090320--3090375 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
3090310 AAAGAGAGTG
*
3090320 ATGGAGGGGAATAAAAAAGCGGCACCA
1 ATGGAGAGGAATAAAAAAGCGGCACCA
*
3090347 ATGGAGAGGAATAAAAAGGCGGCACCA
1 ATGGAGAGGAATAAAAAAGCGGCACCA
3090374 AT
1 AT
3090376 ATGTGGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.14, G:0.32, T:0.09
Consensus pattern (27 bp):
ATGGAGAGGAATAAAAAAGCGGCACCA
Found at i:3095325 original size:18 final size:18
Alignment explanation
Indices: 3095302--3095346 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
3095292 ATCCCAATGA
*
3095302 TCGCCACCACCTTCTTCT
1 TCGCCACCACATTCTTCT
*
3095320 TCGCCAGCACATTCTTCT
1 TCGCCACCACATTCTTCT
*
3095338 TCACCACCA
1 TCGCCACCA
3095347 ACCATATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.47, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACATTCTTCT
Found at i:3096073 original size:19 final size:18
Alignment explanation
Indices: 3096045--3096080 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3096035 TATATTGGTA
3096045 AATAAAAATAATAACTAAC
1 AATAAAAATAAT-ACTAAC
*
3096064 AATAATAATAATACTAA
1 AATAAAAATAATACTAA
3096081 AAAAATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (18 bp):
AATAAAAATAATACTAAC
Found at i:3096498 original size:438 final size:437
Alignment explanation
Indices: 3095641--3096511 Score: 1697
Period size: 438 Copynumber: 2.0 Consensus size: 437
3095631 TGAAAACTTG
3095641 TAAAAAAAATTTGATATCCTTCTCTCACAACGTCTAAGTATTTTTGCATTAATCCTTGCCTTTAT
1 TAAAAAAAATTTGATATCCTTCTCTCACAACGTCTAAGTATTTTTGCATTAATCCTTGCCTTTAT
* *
3095706 TTCATCGAACGATACATTTCTATTAAATCTCATTGCTATTTGTTGTCGACATTCAAATACACTTC
66 TTCATCAAACAATACATTTCTATTAAATCTCATTGCTATTTGTTGTCGACATTCAAATACACTTC
3095771 CAACACTTGTTGTCAAGATGACTCCATCGAAATAAACACATACAAGAAACTTAGCATCCATCTTC
131 CAACACTTGTTGTCAAGATGACTCCATCGAAATAAACACATACAAGAAACTTAGCATCCATCTTC
3095836 AATATTTAATCTGTAAAAAAACAAAATCTCATAAAAATTCTCGAACGGTAAATAAATTACTAATC
196 AATATTTAATCTGTAAAAAAACAAAATCTCATAAAAATTCTCGAACGGTAAATAAATTACTAATC
3095901 CTAATAACTAACACAATAATAATATTAATAATTTTATACTCAAAATAATACACACTAAAATTATT
261 CTAATAACTAACACAATAATAATATTAATAATTTTATACTCAAAATAATACACACTAAAATTATT
3095966 AATTAGGGTTTTACTAAAAATAATAACTAACTAACTATAATAATAATACTAGTTTTTTACTAACT
326 AATTAGGGTTTTACTAAAAATAATAACTAACTAACTATAATAATAATACTAGTTTTTTACTAACT
3096031 AGTTTATATTGGTAAATAAAAATAATAACTAACAATAATAATAATAC
391 AGTTTATATTGGTAAATAAAAATAATAACTAACAATAATAATAATAC
*
3096078 TAAAAAAATTTTGATATCCTTCTCTCACAACGTCTAAGTATTTTTGCATTAATCCTTGCCTTTAT
1 TAAAAAAAATTTGATATCCTTCTCTCACAACGTCTAAGTATTTTTGCATTAATCCTTGCCTTTAT
3096143 TTCATCAAACAATACATTTCTATTAAATCTCATTGCTATTTGTTGTCGACATTCAAATACACTTC
66 TTCATCAAACAATACATTTCTATTAAATCTCATTGCTATTTGTTGTCGACATTCAAATACACTTC
3096208 CAACACTTGTTGTCAAGATGACTCCATCGAAATAAACACATACAAGAAACTTAGCATCCATCTTC
131 CAACACTTGTTGTCAAGATGACTCCATCGAAATAAACACATACAAGAAACTTAGCATCCATCTTC
*
3096273 AATATTTAATCTGTAAAAAAAATAAAATCTCATAAAAATTCTCGAACGGTAAATAAATTACTAAT
196 AATATTTAATCTGT-AAAAAAACAAAATCTCATAAAAATTCTCGAACGGTAAATAAATTACTAAT
3096338 CCTAATAACTAACACAATAATAATATTAATAATTTTATACTCAAAATAATACACACTAAAATTAT
260 CCTAATAACTAACACAATAATAATATTAATAATTTTATACTCAAAATAATACACACTAAAATTAT
3096403 TAATTAGGGTTTTACTAAAAATAATAACTAACTAACTATAATAATAATACTAGTTTTTTACTAAC
325 TAATTAGGGTTTTACTAAAAATAATAACTAACTAACTATAATAATAATACTAGTTTTTTACTAAC
3096468 TAGTTTATATTGGTAAATAAAAATAATAACTAACAATAATAATA
390 TAGTTTATATTGGTAAATAAAAATAATAACTAACAATAATAATA
3096512 CTAGTTTTTT
Statistics
Matches: 429, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
437 206 0.48
438 223 0.52
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (437 bp):
TAAAAAAAATTTGATATCCTTCTCTCACAACGTCTAAGTATTTTTGCATTAATCCTTGCCTTTAT
TTCATCAAACAATACATTTCTATTAAATCTCATTGCTATTTGTTGTCGACATTCAAATACACTTC
CAACACTTGTTGTCAAGATGACTCCATCGAAATAAACACATACAAGAAACTTAGCATCCATCTTC
AATATTTAATCTGTAAAAAAACAAAATCTCATAAAAATTCTCGAACGGTAAATAAATTACTAATC
CTAATAACTAACACAATAATAATATTAATAATTTTATACTCAAAATAATACACACTAAAATTATT
AATTAGGGTTTTACTAAAAATAATAACTAACTAACTATAATAATAATACTAGTTTTTTACTAACT
AGTTTATATTGGTAAATAAAAATAATAACTAACAATAATAATAATAC
Found at i:3096765 original size:11 final size:11
Alignment explanation
Indices: 3096728--3096767 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
3096718 TTAAAAATAC
3096728 CTTCTTTTTCT
1 CTTCTTTTTCT
**
3096739 CTTCTCCTTCT
1 CTTCTTTTTCT
3096750 C-TCTTTTTCT
1 CTTCTTTTTCT
3096760 CTTCTTTT
1 CTTCTTTT
3096768 CCGTAGCACC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:3096887 original size:27 final size:27
Alignment explanation
Indices: 3096849--3096921 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
3096839 AACACGGGTA
3096849 GTGCCGCCAATGCCTTTGGCACCATTG
1 GTGCCGCCAATGCCTTTGGCACCATTG
** *
3096876 GTGCCGCCAATGGTTTTGGCACCTTTG
1 GTGCCGCCAATGCCTTTGGCACCATTG
*
3096903 GTGCCGCCAATGCCATTGG
1 GTGCCGCCAATGCCTTTGG
3096922 TCTGATCAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.14, C:0.30, G:0.29, T:0.27
Consensus pattern (27 bp):
GTGCCGCCAATGCCTTTGGCACCATTG
Found at i:3097005 original size:30 final size:27
Alignment explanation
Indices: 3096966--3097037 Score: 110
Period size: 27 Copynumber: 2.6 Consensus size: 27
3096956 TTTTTGTTTT
3096966 TTTAT-ATATTTTGGTAAATAATAAAAA
1 TTTATAATATTTTGGTAAATAA-AAAAA
3096993 TAATTATAATATTTTGGTAAATAAAAAAA
1 T--TTATAATATTTTGGTAAATAAAAAAA
3097022 TTTATAATATTTTGGT
1 TTTATAATATTTTGGT
3097038 TATTTTTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
27 16 0.38
29 10 0.24
30 16 0.38
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (27 bp):
TTTATAATATTTTGGTAAATAAAAAAA
Found at i:3104651 original size:20 final size:20
Alignment explanation
Indices: 3104614--3104652 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3104604 AAGTAGAAGT
* *
3104614 AATAAATAAATAATATAAAC
1 AATAAATAAACAACATAAAC
3104634 AATAAATAAACAACATAAA
1 AATAAATAAACAACATAAA
3104653 ATGATAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
AATAAATAAACAACATAAAC
Found at i:3106158 original size:19 final size:21
Alignment explanation
Indices: 3106120--3106159 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3106110 GTTTAATTTT
*
3106120 GATATTAATTTTAAATTTTGA
1 GATATTAATTTTAAAGTTTGA
3106141 GATATTAA-TTT-AAGTTTGA
1 GATATTAATTTTAAAGTTTGA
3106160 TGCTTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (21 bp):
GATATTAATTTTAAAGTTTGA
Found at i:3106626 original size:40 final size:40
Alignment explanation
Indices: 3106561--3106654 Score: 161
Period size: 40 Copynumber: 2.3 Consensus size: 40
3106551 ATAATTTTTA
*
3106561 AAATTAATAAATATATGCAACAAATTTGTGGCACACTTCTCT
1 AAATTAAT-AA-ATATGCAACAAATTTGTGGCACACTTATCT
3106603 AAATTAATAAATATGCAACAAATTTGTGGCACACTTATCT
1 AAATTAATAAATATGCAACAAATTTGTGGCACACTTATCT
3106643 AAATTAATAAAT
1 AAATTAATAAAT
3106655 TTGTGCCACG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 41 0.80
41 2 0.04
42 8 0.16
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (40 bp):
AAATTAATAAATATGCAACAAATTTGTGGCACACTTATCT
Found at i:3112357 original size:32 final size:31
Alignment explanation
Indices: 3112321--3112381 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
3112311 CCTTGTTATA
3112321 TATATATACATACATACATACATACATTTTGT
1 TATATATACATACATACATACATA-ATTTTGT
* * *
3112353 TATATATATATGCATACGTACATAATTTT
1 TATATATACATACATACATACATAATTTT
3112382 TTTAATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 5 0.19
32 21 0.81
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.43
Consensus pattern (31 bp):
TATATATACATACATACATACATAATTTTGT
Found at i:3115130 original size:85 final size:85
Alignment explanation
Indices: 3114987--3115251 Score: 458
Period size: 85 Copynumber: 3.1 Consensus size: 85
3114977 GATGAGAAAA
*
3114987 TAGAAGAATGTTGCATTGAAATTACCTCAAAACATAGAGGGCAACCATGGTGGACTGCTCCTACC
1 TAGAAGAATGTTGCATTGAAATTACCTCAAAACATAGAGGACAACCATGGTGGACTGCTCCTACC
* *
3115052 ACACACGGATGGTACTTTTT
66 ACACATGGATGGTATTTTTT
*
3115072 TAGAAGAATGTTGCATTGAAATTACCTCAAAACATAGAGGACAACCATGGTGGACTGCTACTACC
1 TAGAAGAATGTTGCATTGAAATTACCTCAAAACATAGAGGACAACCATGGTGGACTGCTCCTACC
3115137 ACACATGGATGGTATTTTTT
66 ACACATGGATGGTATTTTTT
* * *
3115157 TAGAAGAATGTTGCATTGAAATTACCTCAAAACATAGAGGACAACCACGGTGGATTACTCCTACC
1 TAGAAGAATGTTGCATTGAAATTACCTCAAAACATAGAGGACAACCATGGTGGACTGCTCCTACC
3115222 ACACATGGATGGTCATTTTTT
66 ACACATGGATGGT-ATTTTTT
3115243 TAGAAGAAT
1 TAGAAGAAT
3115252 TGAATGACTA
Statistics
Matches: 171, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
85 155 0.91
86 16 0.09
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (85 bp):
TAGAAGAATGTTGCATTGAAATTACCTCAAAACATAGAGGACAACCATGGTGGACTGCTCCTACC
ACACATGGATGGTATTTTTT
Found at i:3115296 original size:34 final size:35
Alignment explanation
Indices: 3115252--3115321 Score: 88
Period size: 37 Copynumber: 2.0 Consensus size: 35
3115242 TTAGAAGAAT
*
3115252 TGAATGACT-ACATTTTCGTACAATAAATGCGAAC
1 TGAATAACTAACATTTTCGTACAATAAATGCGAAC
* *
3115286 TGAATAACTACAACATTTTCTTACAATGAATGCGAA
1 TGAATAACT--AACATTTTCGTACAATAAATGCGAA
3115322 AGGAAATTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 8 0.27
37 22 0.73
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (35 bp):
TGAATAACTAACATTTTCGTACAATAAATGCGAAC
Found at i:3121055 original size:41 final size:42
Alignment explanation
Indices: 3120995--3121082 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 42
3120985 TTCATTTCAA
* *
3120995 GTTTGGGGTTTGAAGTTTGA-GCTTGAAGTTTAGGG-TTTAAG
1 GTTTGGGGTTTGAAATTTGATG-TTGAAGGTTAGGGTTTTAAG
* * *
3121036 GTTTGGTGTTTGAAATTTGATGTTTAAGGTTAGGGTTTTGAG
1 GTTTGGGGTTTGAAATTTGATGTTGAAGGTTAGGGTTTTAAG
3121078 GTTTG
1 GTTTG
3121083 AGATTTGAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
41 29 0.73
42 11 0.28
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.45
Consensus pattern (42 bp):
GTTTGGGGTTTGAAATTTGATGTTGAAGGTTAGGGTTTTAAG
Found at i:3121084 original size:7 final size:7
Alignment explanation
Indices: 3120995--3121120 Score: 64
Period size: 7 Copynumber: 18.1 Consensus size: 7
3120985 TTCATTTCAA
*
3120995 GTTTGGG
1 GTTTGAG
*
3121002 GTTTGAA
1 GTTTGAG
3121009 GTTTGA-
1 GTTTGAG
* *
3121015 GCTTGAA
1 GTTTGAG
3121022 GTTT-AGG
1 GTTTGA-G
*
3121029 GTTTAAG
1 GTTTGAG
3121036 GTTTG-G
1 GTTTGAG
*
3121042 TGTTTGAA
1 -GTTTGAG
* *
3121050 ATTTGAT
1 GTTTGAG
*
3121057 GTTTAAG
1 GTTTGAG
*
3121064 GTTAG-G
1 GTTTGAG
3121070 GTTTTGAG
1 G-TTTGAG
3121078 GTTTGAG
1 GTTTGAG
*
3121085 ATTTGAG
1 GTTTGAG
3121092 GTTTGAG
1 GTTTGAG
*
3121099 GTTTAAG
1 GTTTGAG
*
3121106 ATTTTG-G
1 -GTTTGAG
3121113 GTTTGAG
1 GTTTGAG
3121120 G
1 G
3121121 GTTAGGGTTA
Statistics
Matches: 89, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
6 13 0.15
7 70 0.79
8 6 0.07
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.44
Consensus pattern (7 bp):
GTTTGAG
Found at i:3121096 original size:21 final size:21
Alignment explanation
Indices: 3121072--3121120 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
3121062 AGGTTAGGGT
*
3121072 TTTGAGGTTTGAGA-TTTGAGG
1 TTTGAGGTTTAAGATTTTG-GG
3121093 TTTGAGGTTTAAGATTTTGGG
1 TTTGAGGTTTAAGATTTTGGG
3121114 TTTGAGG
1 TTTGAGG
3121121 GTTAGGGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (21 bp):
TTTGAGGTTTAAGATTTTGGG
Found at i:3121612 original size:20 final size:20
Alignment explanation
Indices: 3121579--3121640 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
3121569 AAAAATACTA
*
3121579 AATTTCTTATAGAATTATTG
1 AATTTCTTACAGAATTATTG
*
3121599 AATTTTTTACAGAATTATTG
1 AATTTCTTACAGAATTATTG
* * *
3121619 AATCTCTTACAAAATTCTTG
1 AATTTCTTACAGAATTATTG
3121639 AA
1 AA
3121641 CCTCTTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (20 bp):
AATTTCTTACAGAATTATTG
Found at i:3121645 original size:20 final size:20
Alignment explanation
Indices: 3121591--3121647 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
3121581 TTTCTTATAG
** * *
3121591 AATTATTGAATTTTTTACAG
1 AATTATTGAACCTCTTACAA
*
3121611 AATTATTGAATCTCTTACAA
1 AATTATTGAACCTCTTACAA
*
3121631 AATTCTTGAACCTCTTA
1 AATTATTGAACCTCTTA
3121648 TAACATTGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (20 bp):
AATTATTGAACCTCTTACAA
Found at i:3124984 original size:15 final size:14
Alignment explanation
Indices: 3124959--3125001 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
3124949 TGAAAATATA
*
3124959 TTTTTATATATCAT
1 TTTTTAAATATCAT
*
3124973 TATTTTAAATATAAAT
1 T-TTTTAAATAT-CAT
3124989 TTTTTAAATATCA
1 TTTTTAAATATCA
3125002 ACTATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 2 0.08
15 19 0.79
16 3 0.12
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTTAAATATCAT
Found at i:3125451 original size:13 final size:14
Alignment explanation
Indices: 3125424--3125452 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3125414 AAAATAACGA
3125424 TTTTTGAAATAATT
1 TTTTTGAAATAATT
3125438 TTTTTGAAAT-ATT
1 TTTTTGAAATAATT
3125451 TT
1 TT
3125453 AATATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (14 bp):
TTTTTGAAATAATT
Found at i:3127490 original size:15 final size:13
Alignment explanation
Indices: 3127448--3127497 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
3127438 AAGATAATGG
3127448 AAAATAAAGAAAA
1 AAAATAAAGAAAA
3127461 AAAATAAAGTTAAAA
1 AAAATAAAG--AAAA
*
3127476 AACATAAAAGAAAA
1 AAAAT-AAAGAAAA
*
3127490 AAATTAAA
1 AAAATAAA
3127498 TTGCTCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 12 0.39
14 7 0.23
15 8 0.26
16 4 0.13
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (13 bp):
AAAATAAAGAAAA
Found at i:3135807 original size:3 final size:3
Alignment explanation
Indices: 3135799--3135823 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3135789 GATATGCATC
3135799 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
3135824 TTTTTCAATT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:3139739 original size:20 final size:20
Alignment explanation
Indices: 3139714--3139754 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
3139704 CAGTTTGCTA
3139714 GTATCTCGCAGAATCAGTGT
1 GTATCTCGCAGAATCAGTGT
3139734 GTATCTCGCAGAATCAGTGT
1 GTATCTCGCAGAATCAGTGT
3139754 G
1 G
3139755 GACTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (20 bp):
GTATCTCGCAGAATCAGTGT
Found at i:3160316 original size:46 final size:46
Alignment explanation
Indices: 3160252--3160520 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
3160242 TTTGAGTACT
* *
3160252 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
3160298 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
3160344 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
3160396 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
3160448 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
3160494 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
3160521 GCTACACTTA
Statistics
Matches: 207, Mismatches: 10, Indels: 12
0.90 0.04 0.05
Matches are distributed among these distances:
46 113 0.55
52 94 0.45
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:3160371 original size:98 final size:92
Alignment explanation
Indices: 3160252--3160557 Score: 351
Period size: 98 Copynumber: 3.3 Consensus size: 92
3160242 TTTGAGTACT
* * *
3160252 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
3160317 GATAAGTGATAGCTTCAGCTACACTTA
66 GATAAGTGATAGCTTCAGCTACACTTA
*
3160344 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGAGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
3160409 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 C------AAAGTGATAAGTGATAGCTTCAGCTACACTTA
** *
3160448 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
3160513 GATAA--G-T-G-----GCTACACTTA
66 GATAAGTGATAGCTTCAGCTACACTTA
*
3160531 TCTGATCAAGAAACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
3160558 GCTACACTTA
Statistics
Matches: 192, Mismatches: 10, Indels: 33
0.82 0.04 0.14
Matches are distributed among these distances:
83 35 0.18
88 1 0.01
89 1 0.01
90 1 0.01
92 23 0.12
98 88 0.46
104 43 0.22
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (92 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGATAGCTTCAGCTACACTTA
Found at i:3160377 original size:52 final size:51
Alignment explanation
Indices: 3160312--3160520 Score: 293
Period size: 52 Copynumber: 4.1 Consensus size: 51
3160302 ATCAAGTGAC
*
3160312 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
3160364 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
3160415 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
3160462 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
3160514 ATAAGTG
1 A-AAGTG
3160521 GCTACACTTA
Statistics
Matches: 143, Mismatches: 6, Indels: 15
0.87 0.04 0.09
Matches are distributed among these distances:
46 43 0.30
51 1 0.01
52 94 0.66
53 5 0.03
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:3160528 original size:37 final size:37
Alignment explanation
Indices: 3160484--3160629 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
3160474 GATAGCTTTA
*
3160484 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
3160521 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
3160558 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
3160595 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
3160630 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:3167491 original size:7 final size:6
Alignment explanation
Indices: 3167467--3167529 Score: 65
Period size: 6 Copynumber: 10.2 Consensus size: 6
3167457 TATTGTTGAT
* * *
3167467 AATGGG AATGGG AATGGG AAATGGG AAATGGG AATGGG TAT-TG CATGGG
1 AATGGG AATGGG AATGGG -AATGGG -AATGGG AATGGG AATGGG AATGGG
3167516 AATGGG AAATGGG A
1 AATGGG -AATGGG A
3167530 GGAGGGCACG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
5 3 0.06
6 27 0.55
7 19 0.39
ACGTcount: A:0.35, C:0.02, G:0.44, T:0.19
Consensus pattern (6 bp):
AATGGG
Found at i:3167577 original size:60 final size:59
Alignment explanation
Indices: 3167511--3167701 Score: 219
Period size: 60 Copynumber: 3.2 Consensus size: 59
3167501 TGGGTATTGC
3167511 ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATCGATGGAAGAGGGGAG
1 ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAAT-GATGGAAGAGGGGAG
* * * * * *
3167571 ATGGGAATGGGAAATGGGAGGACGGCACGGTGGAA-TGTGAAAT--TGGAA-TGGGTATTG
1 ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGA--G
* * * *
3167628 CATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAGGGGAATGAGGGAAGATGGGAG
1 -ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
3167688 ATGGGAGATGGGAA
1 ATGGGA-ATGGGAA
3167702 TGGAGAAATT
Statistics
Matches: 106, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
55 4 0.04
56 5 0.05
57 1 0.01
58 32 0.30
59 16 0.15
60 41 0.39
61 4 0.04
62 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.50, T:0.14
Consensus pattern (59 bp):
ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
Found at i:3167606 original size:28 final size:28
Alignment explanation
Indices: 3167514--3167613 Score: 85
Period size: 28 Copynumber: 3.4 Consensus size: 28
3167504 GTATTGCATG
3167514 GGAATGGGAAATGGGAGGAGGGCACGGT
1 GGAATGGGAAATGGGAGGAGGGCACGGT
* * * * *
3167542 GGAAGAGGGGAATCGATGGAAGAGGGGA-GAT
1 GGAA-TGGGAAAT-G--GGAGGAGGGCACGGT
*
3167573 GGGAATGGGAAATGGGAGGACGGCACGGT
1 -GGAATGGGAAATGGGAGGAGGGCACGGT
*
3167602 GGAATGTGAAAT
1 GGAATGGGAAAT
3167614 TGGAATGGGT
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
28 23 0.43
29 8 0.15
30 2 0.04
31 8 0.15
32 13 0.24
ACGTcount: A:0.32, C:0.06, G:0.50, T:0.12
Consensus pattern (28 bp):
GGAATGGGAAATGGGAGGAGGGCACGGT
Found at i:3167699 original size:118 final size:118
Alignment explanation
Indices: 3167486--3167701 Score: 362
Period size: 118 Copynumber: 1.8 Consensus size: 118
3167476 GGGAATGGGA
* *
3167486 AATGGGAAATGGGAATGGGTATTGCATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGG
1 AATGGGAAATGGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAGGG
*
3167551 GAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGACGGCACGGTGG
66 GAATCGAGGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGACGGCACGGTGG
* *
3167604 AATGTGAAATTGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAGGG
1 AATGGGAAATGGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAGGG
*
3167669 GAAT-GAGGGAAGATGGGAGATGGGAGATGGGAA
66 GAATCGAGGGAAGAGGGGAGATGGGA-ATGGGAA
3167702 TGGAGAAATT
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
117 19 0.21
118 72 0.79
ACGTcount: A:0.32, C:0.04, G:0.49, T:0.15
Consensus pattern (118 bp):
AATGGGAAATGGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAGGG
GAATCGAGGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGACGGCACGGTGG
Found at i:3167776 original size:31 final size:31
Alignment explanation
Indices: 3167738--3168043 Score: 358
Period size: 31 Copynumber: 10.3 Consensus size: 31
3167728 TTTAGAAATT
**
3167738 AAAAAATACGTGTAGTGTATTTTAAAAATAA
1 AAAAAATATATGTAGTGTATTTTAAAAATAA
3167769 AAAAAATATATGTAGTGTATTTTAAAAATAAA
1 AAAAAATATATGTAGTGTATTTTAAAAAT-AA
* *
3167801 AAAAAATATATGTACTATATTTTAAAAATAA
1 AAAAAATATATGTAGTGTATTTTAAAAATAA
*
3167832 AAAATATATATGTAGTGTATTTT-AAAAT--
1 AAAAAATATATGTAGTGTATTTTAAAAATAA
* *
3167860 ---ATATATATGTAGTGTATTTTAAAAGTAA
1 AAAAAATATATGTAGTGTATTTTAAAAATAA
3167888 AAAAAATATATGTAGTGTATTTTAAAAATAA
1 AAAAAATATATGTAGTGTATTTTAAAAATAA
*
3167919 AAAATATATATGTAGTGTATTTT--AAAT--
1 AAAAAATATATGTAGTGTATTTTAAAAATAA
*
3167946 -----ATATATGTAGTGTATTTTAAAAGTAAA
1 AAAAAATATATGTAGTGTATTTTAAAAAT-AA
*
3167973 AAAAATATATATGTAGTGAATTTTAAAAAT--
1 AAAAA-ATATATGTAGTGTATTTTAAAAATAA
*
3168003 AAAAAATATATGTAGTATATTTTAAAAATAA
1 AAAAAATATATGTAGTGTATTTTAAAAATAA
*
3168034 AAAATATATA
1 AAAAAATATA
3168044 AAGAAGTCAA
Statistics
Matches: 238, Mismatches: 17, Indels: 40
0.81 0.06 0.14
Matches are distributed among these distances:
22 18 0.08
24 3 0.01
25 20 0.08
26 4 0.02
29 26 0.11
30 10 0.04
31 106 0.45
32 29 0.12
33 22 0.09
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.38
Consensus pattern (31 bp):
AAAAAATATATGTAGTGTATTTTAAAAATAA
Found at i:3167869 original size:56 final size:56
Alignment explanation
Indices: 3167806--3167914 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
3167796 ATAAAAAAAA
*
3167806 ATATATGTACTATATTTTAAAAATAAAAAATATATATGTAGTGTATTTTAAAATAT
1 ATATATGTACTATATTTTAAAAATAAAAAAAATATATGTAGTGTATTTTAAAATAT
* * *
3167862 ATATATGTAGTGTATTTTAAAAGTAAAAAAAATATATGTAGTGTATTTTAAAA
1 ATATATGTACTATATTTTAAAAATAAAAAAAATATATGTAGTGTATTTTAAAA
3167915 ATAAAAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (56 bp):
ATATATGTACTATATTTTAAAAATAAAAAAAATATATGTAGTGTATTTTAAAATAT
Found at i:3167949 original size:20 final size:22
Alignment explanation
Indices: 3167920--3167966 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
3167910 TAAAAATAAA
3167920 AAATATATATGTAGTGTATTTT
1 AAATATATATGTAGTGTATTTT
3167942 AAATATATATGTAGTGTATTTT
1 AAATATATATGTAGTGTATTTT
3167964 AAA
1 AAA
3167967 AGTAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (22 bp):
AAATATATATGTAGTGTATTTT
Found at i:3167969 original size:84 final size:85
Alignment explanation
Indices: 3167774--3168028 Score: 408
Period size: 87 Copynumber: 3.0 Consensus size: 85
3167764 AATAAAAAAA
* * *
3167774 ATATATGTAGTGTATTTTAAAAATAAAAAAAAATATATGTACTATATTTTAAAAATAAAAAATAT
1 ATATATGTAGTGTATTTTAAAAGTAAAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATAT
3167839 ATATGTAGTGTATTTTAAAATAT
66 ATATGTAGTGTATTTT--AA-AT
3167862 ATATATGTAGTGTATTTTAAAAGT-AAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATAT
1 ATATATGTAGTGTATTTTAAAAGTAAAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATAT
3167926 ATATGTAGTGTATTTTAAAT
66 ATATGTAGTGTATTTTAAAT
*
3167946 ATATATGTAGTGTATTTTAAAAGTAAAAAAAATATATATGTAGTGAATTTTAAAAAT-AAAAA-A
1 ATATATGTAGTGTATTTTAAAAGTAAAAAAAA-ATATATGTAGTGTATTTTAAAAATAAAAAATA
*
3168009 TATATGTAGTATATTTTAAA
65 TATATGTAGTGTATTTTAAA
3168029 AATAAAAAAT
Statistics
Matches: 160, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
84 46 0.29
85 14 0.09
86 23 0.14
87 54 0.34
88 23 0.14
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (85 bp):
ATATATGTAGTGTATTTTAAAAGTAAAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATAT
ATATGTAGTGTATTTTAAAT
Found at i:3171647 original size:21 final size:22
Alignment explanation
Indices: 3171605--3171647 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
3171595 TTATCATTGT
**
3171605 TATAAAAAAATTTTAATTATAAC
1 TATAAAAAAA-TTTAAAAATAAC
3171628 TATAAAAAAA-TTAAAAATAA
1 TATAAAAAAATTTAAAAATAA
3171648 TTATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TATAAAAAAATTTAAAAATAAC
Found at i:3171913 original size:21 final size:21
Alignment explanation
Indices: 3171889--3171941 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
3171879 CATTATTTCT
*
3171889 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
3171910 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
3171931 AATCTCACCGC
1 AATCTCACCGC
3171942 CACCACTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:3175906 original size:30 final size:32
Alignment explanation
Indices: 3175846--3175907 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
3175836 AGAAAACAAA
*
3175846 TATATATAATTGTATATCTTAATTATTCTATT
1 TATATATAATTGTATATCTAAATTATTCTATT
*
3175878 TATATATATTTGT-TA-CTAAAGTTA-TCTATT
1 TATATATAATTGTATATCTAAA-TTATTCTATT
3175908 GCTACTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 10 0.37
31 5 0.19
32 12 0.44
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (32 bp):
TATATATAATTGTATATCTAAATTATTCTATT
Found at i:3177615 original size:42 final size:42
Alignment explanation
Indices: 3177565--3177664 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
3177555 TTATATGAAC
3177565 GGCACTAAGTGTGCGAAACTAAAAT-GACGAGGTTGAATAAAG
1 GGCACTAAGTGTGCGAAACTAAAATAGA-GAGGTTGAATAAAG
* * *
3177607 GGCACTAAGTGTGCGAAATTAAAATAGAGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATAGAGAGGTTGAATAAAG
3177649 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
3177665 TACCGAGAGC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 52 0.96
43 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATAGAGAGGTTGAATAAAG
Found at i:3179361 original size:31 final size:30
Alignment explanation
Indices: 3179301--3179362 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
3179291 AGTAAATCTC
* *
3179301 AAATTTATATATCAATTTTGATTTAATGTA
1 AAATTTATATATCAACTTTAATTTAATGTA
* *
3179331 AAATTGTATATATGAACTTTAATTTGATGTA
1 AAATT-TATATATCAACTTTAATTTAATGTA
3179362 A
1 A
3179363 TTAAACATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (30 bp):
AAATTTATATATCAACTTTAATTTAATGTA
Found at i:3179601 original size:29 final size:30
Alignment explanation
Indices: 3179568--3179638 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
3179558 AAATCAAAAT
3179568 TTCATGTATAAAATT-ACATAAAATTAAAG
1 TTCATGTATAAAATTCACATAAAATTAAAG
* * * * *
3179597 TTCATATGTACAATTGCACATTAAATTACAG
1 TTCATGTATAAAATT-CACATAAAATTAAAG
3179628 TTCATGTATAA
1 TTCATGTATAA
3179639 TTTTGAGATT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
29 12 0.38
31 20 0.62
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (30 bp):
TTCATGTATAAAATTCACATAAAATTAAAG
Found at i:3180553 original size:24 final size:25
Alignment explanation
Indices: 3180493--3180554 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
3180483 AATTTTGGAA
3180493 ATTTTTATATTTTAAAAATATTTTT
1 ATTTTTATATTTTAAAAATATTTTT
*
3180518 ATTTTTGA-ATTTTAAAGAGT-TTTTT
1 ATTTTT-ATATTTTAAA-AATATTTTT
*
3180543 -TTTTCATATTTT
1 ATTTTTATATTTT
3180555 TAGTTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
23 1 0.03
24 9 0.28
25 19 0.59
26 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (25 bp):
ATTTTTATATTTTAAAAATATTTTT
Found at i:3182805 original size:3 final size:3
Alignment explanation
Indices: 3182799--3182844 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
3182789 CCTCCTACTC
3182799 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
3182845 ATGAATTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:3195322 original size:17 final size:17
Alignment explanation
Indices: 3195302--3195378 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
3195292 TCAAACCTTT
3195302 AACTTAAGCATGTTTTG
1 AACTTAAGCATGTTTTG
**
3195319 AACTTAAAG-AAATTTTG
1 AACTT-AAGCATGTTTTG
**
3195336 GGCTTAAGCAAAT-TTTTG
1 AACTTAAGC--ATGTTTTG
**
3195354 AACTTAAATATGTTTTG
1 AACTTAAGCATGTTTTG
3195371 AACTTAAG
1 AACTTAAG
3195379 TAAATTCTGA
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
16 5 0.11
17 26 0.58
18 13 0.29
19 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (17 bp):
AACTTAAGCATGTTTTG
Found at i:3195370 original size:35 final size:34
Alignment explanation
Indices: 3195302--3195392 Score: 92
Period size: 35 Copynumber: 2.6 Consensus size: 34
3195292 TCAAACCTTT
**
3195302 AACTTAAGCATGTTTTGAACTTAAAGAAATTTTG
1 AACTTAAGCAAATTTTGAACTTAAAGAAATTTTG
** * **
3195336 GGCTTAAGCAAATTTTTGAACTTAAATATGTTTTG
1 AACTTAAGCAAA-TTTTGAACTTAAAGAAATTTTG
* *
3195371 AACTTAAGTAAATTCTGAACTT
1 AACTTAAGCAAATTTTGAACTT
3195393 GAGTAAACTT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
34 17 0.38
35 28 0.62
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (34 bp):
AACTTAAGCAAATTTTGAACTTAAAGAAATTTTG
Found at i:3197565 original size:13 final size:13
Alignment explanation
Indices: 3197547--3197571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3197537 TGTAAATCCG
3197547 AATTCATTTTAAA
1 AATTCATTTTAAA
3197560 AATTCATTTTAA
1 AATTCATTTTAA
3197572 CCAAATTATT
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTCATTTTAAA
Found at i:3197649 original size:26 final size:24
Alignment explanation
Indices: 3197611--3197664 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
3197601 CTTTCTAAAC
*
3197611 TTAATTTTTTTTAATT-CTAATTTT
1 TTAATTTTTTTT-ATTCCTAATTAT
3197635 TTAATATTTTATTTATTCCTAATTAT
1 TTAAT-TTTT-TTTATTCCTAATTAT
3197661 TTAA
1 TTAA
3197665 ATTATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.19
25 7 0.27
26 14 0.54
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (24 bp):
TTAATTTTTTTTATTCCTAATTAT
Found at i:3200537 original size:48 final size:48
Alignment explanation
Indices: 3200449--3200540 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
3200439 CCAAGTTTGC
* * * *
3200449 TTCTTTTCTCATTTCTATCTCGAATCCATTGACCCGTTTTATATTTAT
1 TTCTTTTCTCATTTCTATCTCAAATCCACTAACCCATTTTATATTTAT
* **
3200497 TTCTTTTCTCATTTCTATTTCAAATCCACTAATTCATTTTATAT
1 TTCTTTTCTCATTTCTATCTCAAATCCACTAACCCATTTTATAT
3200541 CCATATCAGC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.22, C:0.22, G:0.03, T:0.53
Consensus pattern (48 bp):
TTCTTTTCTCATTTCTATCTCAAATCCACTAACCCATTTTATATTTAT
Found at i:3200761 original size:28 final size:31
Alignment explanation
Indices: 3200712--3200772 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 31
3200702 ACACTTTTGT
3200712 TTGATCAATTTTAGCCTTTATACTTTT-AAA
1 TTGATCAATTTTAGCCTTTATACTTTTCAAA
3200742 TTGATC-A-TTTAGTCC-TTATACTTTTCAAA
1 TTGATCAATTTTAG-CCTTTATACTTTTCAAA
3200771 TT
1 TT
3200773 TTAAAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 15 0.52
29 8 0.28
30 6 0.21
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.51
Consensus pattern (31 bp):
TTGATCAATTTTAGCCTTTATACTTTTCAAA
Found at i:3209674 original size:9 final size:9
Alignment explanation
Indices: 3209649--3209689 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
3209639 TTATTTATCG
3209649 AATTAATTA
1 AATTAATTA
* *
3209658 AATAAATTT
1 AATTAATTA
3209667 AATTAATTA
1 AATTAATTA
*
3209676 ACTTAATTA
1 AATTAATTA
3209685 AATTA
1 AATTA
3209690 TATTCTCAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTAATTA
Found at i:3221846 original size:29 final size:30
Alignment explanation
Indices: 3221759--3221847 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 30
3221749 AACGGCTCAG
* * *
3221759 TGACTAAAATGTTACAACGTGATAACGTAAA
1 TGACTAAAATGTAAC-ATGTGATAACATAAA
* * *
3221790 TGACTAAAACGTAACATTTCA-AACATAAA
1 TGACTAAAATGTAACATGTGATAACATAAA
*
3221819 TGACTAAAATGTAACATGAGATAA-ATAAA
1 TGACTAAAATGTAACATGTGATAACATAAA
3221848 AATGACTTTG
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 29 0.62
30 5 0.11
31 13 0.28
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (30 bp):
TGACTAAAATGTAACATGTGATAACATAAA
Found at i:3226887 original size:41 final size:41
Alignment explanation
Indices: 3226842--3226997 Score: 226
Period size: 41 Copynumber: 3.8 Consensus size: 41
3226832 AAATTGTTTA
* *
3226842 GACTATACGTCTAGTAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAATCG
3226883 GACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAATCG
* * *
3226924 GATTATATGTCCAGCAGGCTAAGTGCCGGTGAACTGAATCAG
1 GACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAATC-G
*
3226966 GA-TATA-GGCCTAGCAGGCTAAGTGCCGGTGAA
1 GACTATACGTCC-AGCAGGCTAAGTGCCGGTGAA
3226998 CGGAATTAGA
Statistics
Matches: 107, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
40 3 0.03
41 101 0.94
42 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (41 bp):
GACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAATCG
Found at i:3226998 original size:41 final size:41
Alignment explanation
Indices: 3226842--3227038 Score: 220
Period size: 41 Copynumber: 4.8 Consensus size: 41
3226832 AAATTGTTTA
* * *
3226842 GACTATACGTCTAGTAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCCAGCAGGCTAAGTGCCGGTGAACTGAATCG
*
3226883 GACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCCAGCAGGCTAAGTGCCGGTGAACTGAATCG
* *
3226924 GATTATATGTCCAGCAGGCTAAGTGCCGGTGAACTGAATCAG
1 GACTATACGTCCAGCAGGCTAAGTGCCGGTGAACTGAATC-G
* * **
3226966 GA-TATA-GGCCTAGCAGGCTAAGTGCCGGTGAACGGAATTA
1 GACTATACGTCC-AGCAGGCTAAGTGCCGGTGAACTGAATCG
* * * *
3227006 GACTATAAGTCTATCAGG-TGAAGTGCCAGTGAA
1 GACTATACGTCCAGCAGGCT-AAGTGCCGGTGAA
3227039 TCTGTTTAAA
Statistics
Matches: 138, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
40 6 0.04
41 127 0.92
42 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (41 bp):
GACTATACGTCCAGCAGGCTAAGTGCCGGTGAACTGAATCG
Found at i:3232643 original size:25 final size:25
Alignment explanation
Indices: 3232581--3232689 Score: 101
Period size: 25 Copynumber: 4.4 Consensus size: 25
3232571 CGCTCTTATG
* *
3232581 AGCTTCCCGATATTTAACTCACATG
1 AGCTTCCCGATATTTAGCTCACATA
* * **
3232606 AGATTTCTAATATTTAGCTCACATA
1 AGCTTCCCGATATTTAGCTCACATA
*
3232631 AGCTTCCCGATATTTAGCTCATATA
1 AGCTTCCCGATATTTAGCTCACATA
** * * *
3232656 AGCTTTTCGATACTTAGCTCGCATG
1 AGCTTCCCGATATTTAGCTCACATA
*
3232681 AGTTTCCCG
1 AGCTTCCCG
3232690 TTATACAACT
Statistics
Matches: 64, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (25 bp):
AGCTTCCCGATATTTAGCTCACATA
Found at i:3232673 original size:50 final size:50
Alignment explanation
Indices: 3232581--3232689 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 50
3232571 CGCTCTTATG
* *
3232581 AGCTTCCCGATATTTAACTCACATGAGATTTCTAATATTTAGCTCACATA
1 AGCTTCCCGATATTTAACTCACATAAGATTTCTAATACTTAGCTCACATA
* * * * * *
3232631 AGCTTCCCGATATTTAGCTCATATAAGCTTT-TCGATACTTAGCTCGCATG
1 AGCTTCCCGATATTTAACTCACATAAGATTTCT-AATACTTAGCTCACATA
*
3232681 AGTTTCCCG
1 AGCTTCCCG
3232690 TTATACAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 1 0.02
50 48 0.98
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (50 bp):
AGCTTCCCGATATTTAACTCACATAAGATTTCTAATACTTAGCTCACATA
Found at i:3235519 original size:23 final size:22
Alignment explanation
Indices: 3235476--3235519 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
3235466 TTTCAAGTCA
3235476 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
3235499 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
3235520 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:3239717 original size:20 final size:20
Alignment explanation
Indices: 3239692--3239737 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
3239682 TATTTATTAA
3239692 GAAAGAATCACTAGACTTGT
1 GAAAGAATCACTAGACTTGT
3239712 GAAAGAATCACTAGACTTGT
1 GAAAGAATCACTAGACTTGT
3239732 GAAAGA
1 GAAAGA
3239738 TGACGCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (20 bp):
GAAAGAATCACTAGACTTGT
Found at i:3241400 original size:18 final size:18
Alignment explanation
Indices: 3241374--3241410 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3241364 TAAATTTTCA
*
3241374 AATTCGAATAACTTAAAT
1 AATTCGAATAAATTAAAT
*
3241392 AATTTGAATAAATTAAAT
1 AATTCGAATAAATTAAAT
3241410 A
1 A
3241411 TTAAACTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (18 bp):
AATTCGAATAAATTAAAT
Found at i:3244067 original size:21 final size:21
Alignment explanation
Indices: 3244013--3244095 Score: 98
Period size: 21 Copynumber: 3.9 Consensus size: 21
3244003 ATCAGTATAT
3244013 GACACAT-AAGTGCCTG-TAAC
1 GACACATAAAGTGCCTGAT-AC
** *
3244033 GACACACGAGGTGCCTGATAC
1 GACACATAAAGTGCCTGATAC
3244054 GACACATAAAGTGCCTGAGATAC
1 GACACATAAAGTGCCT--GATAC
3244077 GACACATAAAGTGCCTGAT
1 GACACATAAAGTGCCTGAT
3244096 CGGCAAAGCC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
20 6 0.11
21 26 0.48
22 1 0.02
23 21 0.39
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (21 bp):
GACACATAAAGTGCCTGATAC
Found at i:3244091 original size:44 final size:41
Alignment explanation
Indices: 3244013--3244095 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 41
3244003 ATCAGTATAT
* * *
3244013 GACACATAAGTGCCTGTAACGACACACGAGGTGCCTGATAC
1 GACACATAAGTGCCTGGAACGACACACAAAGTGCCTGATAC
*
3244054 GACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTGAT
1 GACACAT-AAGTGCCTG-GA-ACGACACACAAAGTGCCTGAT
3244096 CGGCAAAGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 7 0.20
42 9 0.26
43 1 0.03
44 18 0.51
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (41 bp):
GACACATAAGTGCCTGGAACGACACACAAAGTGCCTGATAC
Found at i:3245300 original size:15 final size:16
Alignment explanation
Indices: 3245282--3245313 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3245272 TTAATTAATA
3245282 TAATTT-ATAATATTT
1 TAATTTAATAATATTT
3245297 TAATTTAATAATATTT
1 TAATTTAATAATATTT
3245313 T
1 T
3245314 TATAGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTAATAATATTT
Found at i:3245941 original size:19 final size:21
Alignment explanation
Indices: 3245902--3245942 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
3245892 CTCGTGCTTT
*
3245902 TATATATATTATAAATTAAAA
1 TATATATATTATAAATAAAAA
3245923 TATATAT-TTATAAA-AAAAA
1 TATATATATTATAAATAAAAA
3245942 T
1 T
3245943 TTAAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATATATATTATAAATAAAAA
Found at i:3249845 original size:17 final size:15
Alignment explanation
Indices: 3249805--3249848 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
3249795 ATTATTGATT
*
3249805 AATTAATATTTTTAA
1 AATTAAAATTTTTAA
3249820 AATTTAAAATTTTATAGA
1 AA-TTAAAATTTT-TA-A
3249838 AATTAAAATTT
1 AATTAAAATTT
3249849 CTGGTCTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 9 0.36
17 11 0.44
18 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
AATTAAAATTTTTAA
Found at i:3270085 original size:3 final size:3
Alignment explanation
Indices: 3270077--3270103 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3270067 TCTTGTGAGA
3270077 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
3270104 CAGTTAGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:3277661 original size:97 final size:97
Alignment explanation
Indices: 3277495--3277690 Score: 356
Period size: 97 Copynumber: 2.0 Consensus size: 97
3277485 TTTCTTAAAA
* * *
3277495 TATAATAGATTTTGTAGTAAGCTTTTGAGGGTAAACTACAAAAATAGTCACTTTTGTTTGCCTCA
1 TATAACAGATTTTGTAGTAAACTTTTAAGGGTAAACTACAAAAATAGTCACTTTTGTTTGCCTCA
3277560 GATTACATTTTAGTCACTTATGTTTGAAATGT
66 GATTACATTTTAGTCACTTATGTTTGAAATGT
*
3277592 TATAACAGATTTTGTAGTAAACTTTTAAGGGTAAACTACAAAAATAGTTACTTTTGTTTGCCTCA
1 TATAACAGATTTTGTAGTAAACTTTTAAGGGTAAACTACAAAAATAGTCACTTTTGTTTGCCTCA
3277657 GATTACATTTTAGTCACTTATGTTTGAAATGT
66 GATTACATTTTAGTCACTTATGTTTGAAATGT
3277689 TA
1 TA
3277691 GGTTTTAGTC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.41
Consensus pattern (97 bp):
TATAACAGATTTTGTAGTAAACTTTTAAGGGTAAACTACAAAAATAGTCACTTTTGTTTGCCTCA
GATTACATTTTAGTCACTTATGTTTGAAATGT
Found at i:3278104 original size:23 final size:23
Alignment explanation
Indices: 3278070--3278113 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3278060 TTTATCCAAT
*
3278070 TTTTAATAAATAAATTTAATATA
1 TTTTAATAAATAAATATAATATA
* *
3278093 TTTTAATTAATATATATAATA
1 TTTTAATAAATAAATATAATA
3278114 CAAATAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTTAATAAATAAATATAATATA
Done.