Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 174 of 253
Found at i:56470281 original size:89 final size:89
Alignment explanation
Indices: 56470120--56470283 Score: 229
Period size: 89 Copynumber: 1.8 Consensus size: 89
56470110 CAATCTCTAC
* * * * *
56470120 CTTGACACGAATTCTCACAACGTCATCTGTGCCAAAACTCGCCACTGGCTTATCTTGAACTGTAC
1 CTTGACACGAATTCTCACAACGCCATCTGTGCCAAAACTAGCCACGGGCCTATCCTGAACTGTAC
56470185 AACGAATTAACAGAGTCGAATCTG
66 AACGAATTAACAGAGTCGAATCTG
* * * * *
56470209 CTTGACATGAATTCTCACAACGCCATCTTTGCCAAAGCTAGCCACGGGCCTATCCTGAATTGTGC
1 CTTGACACGAATTCTCACAACGCCATCTGTGCCAAAACTAGCCACGGGCCTATCCTGAACTGTAC
*
56470274 AAGGAATTAA
66 AACGAATTAA
56470284 TTGAGTTAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 64 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (89 bp):
CTTGACACGAATTCTCACAACGCCATCTGTGCCAAAACTAGCCACGGGCCTATCCTGAACTGTAC
AACGAATTAACAGAGTCGAATCTG
Found at i:56472067 original size:24 final size:24
Alignment explanation
Indices: 56472034--56472085 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
56472024 TTCGTAGGTC
* * *
56472034 AAATAAATTATGCTTATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
56472058 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
56472082 AAAT
1 AAAT
56472086 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:56481413 original size:12 final size:12
Alignment explanation
Indices: 56481396--56481420 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56481386 TTTTGGATGA
56481396 ATTTGATTAAAT
1 ATTTGATTAAAT
56481408 ATTTGATTAAAT
1 ATTTGATTAAAT
56481420 A
1 A
56481421 AGTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATTTGATTAAAT
Found at i:56481791 original size:43 final size:43
Alignment explanation
Indices: 56481739--56481907 Score: 198
Period size: 43 Copynumber: 3.9 Consensus size: 43
56481729 ATAGGATTTT
*
56481739 GATATGTGATTTCATGTAAGACCACGTCTGAGACATTGGCATC
1 GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
* * * *
56481782 GATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGTATC
1 GATATGTGATTT-CATGTAAGACCACGTCTGGGACATTGGCATC
* * * * *
56481826 G-TATATGAGTTCGTGTAAGACC-CTATCTGGGACAGTGGCATC
1 GATATGTGATTTCATGTAAGACCAC-GTCTGGGACATTGGCATC
* *
56481868 GATATGTGATTACATGTAAGACCACGTCTGGGACTTTGGC
1 GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGC
56481908 GTTGTACAAG
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 27 0.26
43 47 0.46
44 29 0.28
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:56481855 original size:42 final size:41
Alignment explanation
Indices: 56481753--56481901 Score: 118
Period size: 42 Copynumber: 3.5 Consensus size: 41
56481743 TGTGATTTCA
** * * * *
56481753 TGTAAGACCACGTCTGAGACATTGGCATCGATTTGTGATTTACG
1 TGTAAGACCATATCTGGGACAGTGGCATCGA--TATGAGTT-CG
* * *
56481797 TGTAAGACCATGTCTGGGACATTGGTATCGTATATGAGTTCG
1 TGTAAGACCATATCTGGGACAGTGGCATCG-ATATGAGTTCG
* * *
56481839 TGTAAGACCCTATCTGGGACAGTGGCATCGATATGTGATTACA
1 TGTAAGACCATATCTGGGACAGTGGCATCGATATGAG-TT-CG
**
56481882 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATATCTGGGAC
56481902 TTTGGCGTTG
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
41 6 0.07
42 30 0.34
43 24 0.27
44 27 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGATATGAGTTCG
Found at i:56488257 original size:10 final size:10
Alignment explanation
Indices: 56488238--56488284 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
56488228 AAACCTGTCG
56488238 AAAA-TAATC
1 AAAATTAATC
56488247 AAAATTAATC
1 AAAATTAATC
*
56488257 AAAATTAATTAT
1 AAAATTAA-T-C
*
56488269 AAAATTAATT
1 AAAATTAATC
56488279 AAAATT
1 AAAATT
56488285 CAACATGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 4 0.12
10 20 0.59
11 2 0.06
12 8 0.24
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTAATC
Found at i:56489837 original size:12 final size:12
Alignment explanation
Indices: 56489822--56489851 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
56489812 ACAATAATAC
56489822 TATATATAAATG
1 TATATATAAATG
*
56489834 TATATATATATG
1 TATATATAAATG
56489846 TATATA
1 TATATA
56489852 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATATATAAATG
Found at i:56489957 original size:19 final size:17
Alignment explanation
Indices: 56489933--56489979 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
56489923 AATTAAAGTA
*
56489933 ATAAAAAATAATACTATAT
1 ATAAAAAAT-ATA-TATAC
*
56489952 ATAAAATATATATATAC
1 ATAAAAAATATATATAC
56489969 AT-AAAAATATA
1 ATAAAAAATATA
56489980 CACTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 3 0.12
19 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATATATATAC
Found at i:56489975 original size:18 final size:19
Alignment explanation
Indices: 56489936--56489984 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
56489926 TAAAGTAATA
*
56489936 AAAAATA-ATACTATATAT
1 AAAAATATATACTATACAT
56489954 -AAAATATATA-TATACAT
1 AAAAATATATACTATACAT
*
56489971 AAAAATATACACTA
1 AAAAATATATACTA
56489985 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATATACTATACAT
Found at i:56490210 original size:3 final size:3
Alignment explanation
Indices: 56490197--56490278 Score: 57
Period size: 3 Copynumber: 27.3 Consensus size: 3
56490187 GAGGGCATAT
*
56490197 ATA AT- ATA ATA ATA AT- ATA AAA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
56490243 ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
56490279 AACAAAGCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
2 9 0.14
3 45 0.71
4 7 0.11
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:56490213 original size:11 final size:11
Alignment explanation
Indices: 56490197--56490278 Score: 71
Period size: 11 Copynumber: 7.4 Consensus size: 11
56490187 GAGGGCATAT
56490197 ATAATATAATA
1 ATAATATAATA
*
56490208 ATAATATAAAA
1 ATAATATAATA
56490219 ATAATAT-ATA
1 ATAATATAATA
*
56490229 CATGAGAAATAATA
1 -AT-A-ATATAATA
56490243 ATAATAT-A-A
1 ATAATATAATA
*
56490252 ATAATAGTAAAA
1 ATAATA-TAATA
*
56490264 ATAATAAAATA
1 ATAATATAATA
56490275 ATAA
1 ATAA
56490279 AACAAAGCTC
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
9 7 0.12
10 4 0.07
11 30 0.52
12 9 0.16
13 5 0.09
14 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (11 bp):
ATAATATAATA
Found at i:56490243 original size:27 final size:28
Alignment explanation
Indices: 56490213--56490279 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
56490203 TAATAATAAT
* *
56490213 ATAAAAATAATATATACAT-G-AGAAATA
1 ATAAAAATAATAAATA-ATAGTAAAAATA
*
56490240 ATAATAAT-ATAAATAATAGTAAAAATA
1 ATAAAAATAATAAATAATAGTAAAAATA
56490267 AT-AAAATAATAAA
1 ATAAAAATAATAAA
56490280 ACAAAGCTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 2 0.06
26 11 0.33
27 20 0.61
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (28 bp):
ATAAAAATAATAAATAATAGTAAAAATA
Found at i:56490266 original size:24 final size:24
Alignment explanation
Indices: 56490197--56490275 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
56490187 GAGGGCATAT
56490197 ATAATATAATAATAATA-TAAAAATA
1 ATAATAT-A-AATAATAGTAAAAATA
* *
56490222 AT-ATATACAT--GAG-AAATAATA
1 ATAATATAAATAATAGTAAA-AATA
56490243 ATAATATAAATAATAGTAAAAATA
1 ATAATATAAATAATAGTAAAAATA
*
56490267 ATAAAATAA
1 ATAATATAA
56490276 TAAAACAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
20 4 0.09
21 6 0.14
22 9 0.21
23 1 0.02
24 18 0.42
25 5 0.12
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (24 bp):
ATAATATAAATAATAGTAAAAATA
Found at i:56490634 original size:22 final size:20
Alignment explanation
Indices: 56490610--56490650 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
56490600 CTTTTTTCCA
56490610 AAAAAACAAAAAAACACCTCC
1 AAAAAACAAAAAAA-ACCTCC
56490631 AAAAAACAAAAAAAACCTCC
1 AAAAAACAAAAAAAACCTCC
56490651 TCCAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.68, C:0.27, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAAAACAAAAAAAACCTCC
Found at i:56490643 original size:23 final size:22
Alignment explanation
Indices: 56490606--56490657 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
56490596 TAACCTTTTT
*
56490606 TCCAAAAAAACAAAAAAACACC
1 TCCAAAAAAAAAAAAAAACACC
* *
56490628 TCCAAAAAACAAAAAAAACCTCC
1 TCCAAAAAA-AAAAAAAAACACC
56490651 TCCAAAA
1 TCCAAAA
56490658 CAAAGAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (22 bp):
TCCAAAAAAAAAAAAAAACACC
Found at i:56490676 original size:23 final size:21
Alignment explanation
Indices: 56490612--56490680 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
56490602 TTTTTCCAAA
**
56490612 AAAACAAAAAAACACCTCC-AA
1 AAAACAAAAAAA-ACCTCCTCC
56490633 AAAACAAAAAAAACCTCCTCC
1 AAAACAAAAAAAACCTCCTCC
* *
56490654 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAA-AA-AAACCTCCTCC
56490677 AAAA
1 AAAA
56490681 AACCAAAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.15
21 20 0.49
22 2 0.05
23 13 0.32
ACGTcount: A:0.59, C:0.29, G:0.01, T:0.10
Consensus pattern (21 bp):
AAAACAAAAAAAACCTCCTCC
Found at i:56491631 original size:44 final size:45
Alignment explanation
Indices: 56491486--56491931 Score: 302
Period size: 44 Copynumber: 10.1 Consensus size: 45
56491476 GGGAGGTAAA
* * * * * * *
56491486 ATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTGGATCTACTTCACTACC-AATATAGGAAGACAAG
* ** * * *
56491532 ATCTGCAATCTTCAATCTACTTCACCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
56491577 ATCTGC-ATCTTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
56491620 ACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
56491664 ATCTACTTTC-TGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTG-GATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
56491709 ATCTAC-ATATTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
56491752 ACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
56491796 ATCTGCTTTC-TGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTG-GATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
56491841 ATCTGC-ATCCTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * ** * * *
56491884 ACCTGCTATCTTCGATCTGTTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
56491928 ATCT
1 ATCT
56491932 ACTTTAATGA
Statistics
Matches: 303, Mismatches: 85, Indels: 26
0.73 0.21 0.06
Matches are distributed among these distances:
43 63 0.21
44 151 0.50
45 67 0.22
46 22 0.07
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (45 bp):
ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
Found at i:56491753 original size:132 final size:132
Alignment explanation
Indices: 56491546--56491936 Score: 710
Period size: 132 Copynumber: 3.0 Consensus size: 132
56491536 GCAATCTTCA
* *
56491546 ATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAG
1 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAG
56491611 GAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTG
66 GAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTG
56491676 CG
131 CG
* *
56491678 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTACATATTGGATCCACTTCCTATCAATATAG
1 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAG
*
56491743 GAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTG
66 GAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTG
56491808 CG
131 CG
*
56491810 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCCTGGATCCACTTCCTATCAATATAG
1 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAG
**
56491875 GAAGATAGGACCTGCTATCTTCGATCTGTTTCACGCCAATACATGAAGACAAGATCTACTTT
66 GAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTT
56491937 AATGACTTCA
Statistics
Matches: 248, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 248 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (132 bp):
ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAG
GAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTG
CG
Found at i:56505058 original size:27 final size:27
Alignment explanation
Indices: 56505028--56505258 Score: 279
Period size: 27 Copynumber: 8.6 Consensus size: 27
56505018 ATATTGAGTC
* * * *
56505028 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
56505055 CGCACACTTAGTGCTACGTAATC-AAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
56505081 CGCACACTTAGTGCTACAT-GATCAATCT
1 CGCACACTTAGTGCTACATAG-TCAA-AT
* * *
56505109 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
** **
56505136 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56505163 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56505190 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56505217 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56505244 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56505259 GTACAATTTA
Statistics
Matches: 181, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
26 23 0.13
27 133 0.73
28 24 0.13
29 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56508117 original size:16 final size:16
Alignment explanation
Indices: 56508098--56508140 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
56508088 AATTAAAGTA
*
56508098 ATAAAAATA-ATACTAT
1 ATAAAAATATATA-TAC
*
56508114 ATAAATATATATATAC
1 ATAAAAATATATATAC
56508130 ATAAAAATATA
1 ATAAAAATATA
56508141 CACTAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAAATATATATAC
Found at i:56508372 original size:3 final size:3
Alignment explanation
Indices: 56508359--56508444 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
56508349 GAGGGCATAT
56508359 ATA AT- ATA ATA ATA AT- ATA A-A A-A ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA
* *
56508403 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
56508445 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 13 0.19
3 46 0.68
4 7 0.10
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:56508385 original size:18 final size:18
Alignment explanation
Indices: 56508364--56508444 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
56508354 CATATATAAT
56508364 ATAATAATAATATAAAAA
1 ATAATAATAATATAAAAA
* *
56508382 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-ATAAAAA
*
56508403 ATAATAATAATATAAATA
1 ATAATAATAATATAAAAA
*
56508421 ATAGTAA-AA-ATAATAAA
1 ATAATAATAATATAA-AAA
56508438 ATAATAA
1 ATAATAA
56508445 AACAAAGCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
16 4 0.08
17 10 0.19
18 18 0.34
19 5 0.09
20 5 0.09
21 11 0.21
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (18 bp):
ATAATAATAATATAAAAA
Found at i:56508804 original size:19 final size:20
Alignment explanation
Indices: 56508776--56508814 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
56508766 TTTTTTCCAA
*
56508776 AAAAACAAAAAAACACCTCC
1 AAAAACAAAAAAAAACCTCC
56508796 AAAAA-AAAAAAAAACCTCC
1 AAAAACAAAAAAAAACCTCC
56508815 TCCAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.69, C:0.26, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAAACAAAAAAAAACCTCC
Found at i:56508843 original size:23 final size:22
Alignment explanation
Indices: 56508771--56508846 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 22
56508761 TAACCTTTTT
*
56508771 TCCAAAAAAACAAAAAAA-CACC
1 TCCAAAAAAA-AAAAAAACCTCC
56508793 TCCAAAAAAAAAAAAAACCTCC
1 TCCAAAAAAAAAAAAAACCTCC
* * * *
56508815 TCCAAAACAAAGAACAATCCTTC
1 TCCAAAA-AAAAAAAAAACCTCC
56508838 TCCAAAAAA
1 TCCAAAAAA
56508847 CCAAAAACCC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 7 0.15
22 22 0.47
23 18 0.38
ACGTcount: A:0.61, C:0.28, G:0.01, T:0.11
Consensus pattern (22 bp):
TCCAAAAAAAAAAAAAACCTCC
Found at i:56513784 original size:3 final size:3
Alignment explanation
Indices: 56513770--56513874 Score: 81
Period size: 3 Copynumber: 35.7 Consensus size: 3
56513760 AATGAGAACG
* * *
56513770 ATA ATA AGA ATA ATA ATA AT- ATAA ATA ATA ATA GTA GTA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
56513813 ATA CTA ATG ATA ATA ATA ATA GTC ATA ATA AGA ATA TTA ATG ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56513861 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
56513875 GGTAAATAGA
Statistics
Matches: 79, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
2 6 0.08
3 71 0.90
4 2 0.03
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:56514153 original size:3 final size:3
Alignment explanation
Indices: 56514142--56514210 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
56514132 AAAAAAAGAA
* * * *
56514142 AAT AA- AAT AAT AAT AAT AAT AGT AAT AAT -AC AAT AGT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
56514188 AAT AAC GA- AAT ATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
56514211 GTATTAAATG
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:56514168 original size:23 final size:23
Alignment explanation
Indices: 56514142--56514218 Score: 57
Period size: 26 Copynumber: 3.3 Consensus size: 23
56514132 AAAAAAAGAA
56514142 AATAAAATAATAATAATAATAGT
1 AATAAAATAATAATAATAATAGT
* * *
56514165 AATAATACAATAGTGATAATAATAAT
1 AAT-A-A-AATAATAATAATAATAGT
** *
56514191 AACGAAATATTAATAATAAT-GT
1 AATAAAATAATAATAATAATAGT
*
56514213 ATTAAA
1 AATAAA
56514219 TGGTAAAAGA
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
22 4 0.10
23 16 0.40
24 2 0.05
25 1 0.03
26 17 0.43
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (23 bp):
AATAAAATAATAATAATAATAGT
Found at i:56514330 original size:12 final size:12
Alignment explanation
Indices: 56514275--56514357 Score: 57
Period size: 12 Copynumber: 7.0 Consensus size: 12
56514265 CGAAATAAGA
56514275 TAATAATAATA-
1 TAATAATAATAG
*
56514286 TAAATAAAAATAAG
1 T-AATAATAAT-AG
56514300 -AATAA-AA-AG
1 TAATAATAATAG
*
56514309 ATAGTAATAATAG
1 -TAATAATAATAG
56514322 TAATAATAATAG
1 TAATAATAATAG
* * *
56514334 TGATAGTAAAAG
1 TAATAATAATAG
*
56514346 GAATAATAATAG
1 TAATAATAATAG
56514358 CAGTAATAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 13
0.71 0.13 0.17
Matches are distributed among these distances:
9 2 0.04
11 7 0.13
12 43 0.78
13 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:56514388 original size:12 final size:12
Alignment explanation
Indices: 56514313--56514401 Score: 53
Period size: 12 Copynumber: 7.7 Consensus size: 12
56514303 AAAAAGATAG
*
56514313 TAATAATAGTAA
1 TAATAATAGGAA
56514325 TAATAATAGTG-A
1 TAATAATAG-GAA
* *
56514337 TAGTAAAAGGAA
1 TAATAATAGGAA
* *
56514349 TAATAATAGCAG
1 TAATAATAGGAA
* **
56514361 TAATAA-GGGCGT
1 TAATAATAGG-AA
56514373 TAATAATAGGAA
1 TAATAATAGGAA
56514385 TAAT-ATA--AA
1 TAATAATAGGAA
56514394 TAATAATA
1 TAATAATA
56514402 TATGTGTATG
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
9 6 0.10
10 3 0.05
11 5 0.09
12 42 0.72
13 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.16, T:0.28
Consensus pattern (12 bp):
TAATAATAGGAA
Found at i:56514575 original size:3 final size:3
Alignment explanation
Indices: 56514567--56514601 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
56514557 ATGTGTATGT
56514567 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
56514602 GGAAATAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:56521817 original size:5 final size:5
Alignment explanation
Indices: 56521807--56521832 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
56521797 AGAATAGTAT
56521807 TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA T
56521833 CCAATAATAA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:56529807 original size:3 final size:3
Alignment explanation
Indices: 56529780--56529877 Score: 76
Period size: 3 Copynumber: 33.3 Consensus size: 3
56529770 GATAATGTGT
* * * * *
56529780 TAA TAA GAA TAA TAG TAG TAG TAA TAA TAA -AA -AGA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * *
56529824 TAA AAA TAA AAA TAA AAA TAA TAG TAA T-A TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
56529871 TAA TAA T
1 TAA TAA T
56529878 GTAGTAAAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
2 5 0.07
3 70 0.92
4 1 0.01
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:56529826 original size:17 final size:16
Alignment explanation
Indices: 56529804--56529888 Score: 76
Period size: 15 Copynumber: 5.6 Consensus size: 16
56529794 GTAGTAGTAA
56529804 TAATAAAAAGATAATAG
1 TAATAAAAA-ATAATAG
56529821 TAAT-AAAAATAA-A-
1 TAATAAAAAATAATAG
56529834 -AAT-AAAAATAATAG
1 TAATAAAAAATAATAG
*
56529848 TAATATAAAAATAATAA
1 TAATA-AAAAATAATAG
*
56529865 TAAT-AATAATAAT-G
1 TAATAAAAAATAATAG
*
56529879 TAGTAAAAAA
1 TAATAAAAAA
56529889 ATGAAAAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
12 11 0.19
13 1 0.02
14 4 0.07
15 19 0.33
16 4 0.07
17 18 0.32
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
TAATAAAAAATAATAG
Found at i:56529838 original size:29 final size:28
Alignment explanation
Indices: 56529805--56529904 Score: 96
Period size: 29 Copynumber: 3.3 Consensus size: 28
56529795 TAGTAGTAAT
56529805 AATAAAAAGATAATAGTAATAAAAATAAA
1 AATAAAAA-ATAATAGTAATAAAAATAAA
*
56529834 AAT-AAAAATAATAGTAATATAAAAATAAT
1 AATAAAAAATAATAGT-A-ATAAAAATAAA
56529863 AATAATAATAATAATGTAGTAA-AAAAATGAAA
1 AATAA-AA-AATAA--TAGTAATAAAAAT-AAA
56529895 AATATAAAAA
1 AATA-AAAAA
56529905 AAATGATAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
27 8 0.13
28 5 0.08
29 16 0.27
30 1 0.02
31 10 0.17
32 14 0.23
33 2 0.03
34 4 0.07
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (28 bp):
AATAAAAAATAATAGTAATAAAAATAAA
Found at i:56529855 original size:23 final size:23
Alignment explanation
Indices: 56529781--56529875 Score: 82
Period size: 23 Copynumber: 3.8 Consensus size: 23
56529771 ATAATGTGTT
* * *
56529781 AATAAGAATAATAGTAGTAGTAAT
1 AATAAAAATAATAGTAATA-TAAA
56529805 AATAAAAAGATAATAGTAATAAAAATAAA
1 AAT-AAAA-ATAATAGTAAT----ATAAA
56529834 AATAAAAATAATAGTAATATAAA
1 AATAAAAATAATAGTAATATAAA
* *
56529857 AATAATAATAATAATAATA
1 AATAAAAATAATAGTAATA
56529876 ATGTAGTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
23 22 0.37
24 3 0.05
25 3 0.05
26 10 0.17
27 11 0.18
28 4 0.07
29 6 0.10
30 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.26
Consensus pattern (23 bp):
AATAAAAATAATAGTAATATAAA
Found at i:56529958 original size:8 final size:8
Alignment explanation
Indices: 56529945--56529978 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
56529935 CATAGTAGGC
56529945 AAATAAAA
1 AAATAAAA
56529953 AAATAAAA
1 AAATAAAA
*
56529961 AATAAAAAA
1 AA-ATAAAA
56529970 AAATAAAA
1 AAATAAAA
56529978 A
1 A
56529979 TAGTGGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:56530048 original size:3 final size:3
Alignment explanation
Indices: 56530042--56530074 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
56530032 AATGATGATG
56530042 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56530075 TATTAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56530744 original size:17 final size:17
Alignment explanation
Indices: 56530722--56530760 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
56530712 ATGTTAGTAG
*
56530722 ATAAAAAAGAAAATAAA
1 ATAAAAAAGAAAAGAAA
56530739 ATAAAAAAGAAAAGAAA
1 ATAAAAAAGAAAAGAAA
56530756 A-AAAA
1 ATAAAA
56530761 TACCCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (17 bp):
ATAAAAAAGAAAAGAAA
Found at i:56538426 original size:26 final size:26
Alignment explanation
Indices: 56538380--56538432 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
56538370 TCAAACATGC
*
56538380 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
56538406 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
56538432 A
1 A
56538433 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:56539951 original size:26 final size:26
Alignment explanation
Indices: 56539921--56539976 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
56539911 TGAAATGCCC
56539921 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56539947 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56539973 ATCA
1 ATCA
56539977 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:56543399 original size:93 final size:93
Alignment explanation
Indices: 56543285--56543457 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
56543275 CGCCCATAAG
* *
56543285 CGAACTCGGACTCAACTCAACGAGATCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56543350 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
56543378 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
56543443 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
56543458 CAAACATCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:56543453 original size:46 final size:46
Alignment explanation
Indices: 56543278--56543453 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
56543268 CGTAACCCGC
* * * *
56543278 CCATAAGCGAACTCGGACTCAACTCAACGAGATCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
56543324 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
56543370 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56543417 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56543454 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56543472 original size:46 final size:46
Alignment explanation
Indices: 56543286--56543472 Score: 145
Period size: 46 Copynumber: 4.0 Consensus size: 46
56543276 GCCCATAAGC
* ** *
56543286 GAACTCGGACTCAACTCAACGAGATCGG--G-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAT-ACATCC-T-AGT
* * *
56543332 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CTAGT
* * * *
56543379 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCTAGT
*
56543425 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGT
56543471 GA
1 GA
56543473 CATGTCACTT
Statistics
Matches: 112, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
44 8 0.07
46 60 0.54
47 31 0.28
48 1 0.01
49 5 0.04
50 5 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGT
Found at i:56548141 original size:25 final size:27
Alignment explanation
Indices: 56548104--56548153 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
56548094 TCAAACATGC
56548104 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
56548130 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
56548154 ATAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:56549550 original size:26 final size:26
Alignment explanation
Indices: 56549520--56549575 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
56549510 TGAAATGCCC
*
56549520 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56549546 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56549572 ATCA
1 ATCA
56549576 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:56550067 original size:13 final size:13
Alignment explanation
Indices: 56550049--56550079 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
56550039 ATATTTTAAT
56550049 ATTTTGTGTGAAA
1 ATTTTGTGTGAAA
56550062 ATTTTGTGTGAAA
1 ATTTTGTGTGAAA
56550075 ATTTT
1 ATTTT
56550080 ATCGTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (13 bp):
ATTTTGTGTGAAA
Found at i:56551299 original size:42 final size:43
Alignment explanation
Indices: 56551196--56551352 Score: 165
Period size: 42 Copynumber: 3.7 Consensus size: 43
56551186 TATGTGATTT
* * * * *
56551196 CGTGTAAGACCATGTCCGGGACGTTGGCATCGATTTGTGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGAGTTA
*
56551240 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGAGTT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGAGTTA
* * * *
56551282 CGTGTAAGACCGTGTCTGGGACACTGGCATC-CATATGTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGAG-TTA
* * *
56551325 CATGTAAGACCACGTCTGGGACGTTGGC
1 CGTGTAAGACCATGTCTGGGACATTGGC
56551353 GTTGTATGAG
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
41 6 0.06
42 30 0.32
43 30 0.32
44 29 0.31
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGAGTTA
Found at i:56551345 original size:43 final size:44
Alignment explanation
Indices: 56551185--56551352 Score: 182
Period size: 43 Copynumber: 3.9 Consensus size: 44
56551175 TAGGATTCGG
* * * *
56551185 ATATGTGA-TTTCGTGTAAGACCATGTCCGGGACGTTGGCATCG
1 ATATGTGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCC
* * *
56551228 ATTTGTGATTTATGTGTAAGACCATGTCTGGGACATTGGCAT-C
1 ATATGTGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCC
* * * *
56551271 GTATATGAGTT-CGTGTAAGACCGTGTCTGGGACACTGGCATCC
1 ATATGTGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCC
* * *
56551314 ATATGTGA-TTACATGTAAGACCACGTCTGGGACGTTGGC
1 ATATGTGAGTTACGTGTAAGACCATGTCTGGGACATTGGC
56551353 GTTGTATGAG
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
42 29 0.28
43 44 0.43
44 29 0.28
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (44 bp):
ATATGTGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCC
Found at i:56555654 original size:43 final size:43
Alignment explanation
Indices: 56555606--56555728 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 43
56555596 ATTGAGATGT
* *
56555606 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-A
* * *
56555649 GATTACGTGTAAGACCATGTCTGGGGCATTGGCATCGTTAATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATA
* * *
56555692 GATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG
56555729 ATAGGTGATA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
43 66 0.96
44 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATA
Found at i:56555745 original size:43 final size:41
Alignment explanation
Indices: 56555612--56555768 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 41
56555602 ATGTGATTAC
* * *
56555612 ATGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATT
1 ATGTAAGACCATGTCTGGGACATTGGCATCGTAATGATATT
*
56555653 ACGTGTAAGACCATGTCTGGGGCATTGGCATCGTTAATCGAT-TT
1 A--TGTAAGACCATGTCTGGGACATTGGCATCG-TAAT-GATATT
* * * *
56555697 CATGTAAGACCTTGTCTGGGACAGTGGCATCGATAGGTGATAAT
1 -ATGTAAGACCATGTCTGGGACATTGGCATCG-TA-ATGATATT
** *
56555741 ATGTAAGACCACATCTGGGATA-TGGCAT
1 ATGTAAGACCATGTCTGGGACATTGGCAT
56555769 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 6 0.06
43 78 0.82
44 7 0.07
45 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (41 bp):
ATGTAAGACCATGTCTGGGACATTGGCATCGTAATGATATT
Found at i:56561177 original size:3 final size:3
Alignment explanation
Indices: 56561154--56561261 Score: 74
Period size: 3 Copynumber: 36.3 Consensus size: 3
56561144 AATTTTAAAA
* * * * * * *
56561154 TAT TTT TAT TTT TAC TAT TAT TAT TAT CAT TAC TAT TAC TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** * * * *
56561202 TAT TAT TAC TAC TAT TAT TAT TGC TAC TAT T-G TAT TTT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56561249 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
56561262 GCTATTTTAT
Statistics
Matches: 78, Mismatches: 26, Indels: 2
0.74 0.25 0.02
Matches are distributed among these distances:
2 1 0.01
3 77 0.99
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:56561177 original size:15 final size:15
Alignment explanation
Indices: 56561154--56561261 Score: 101
Period size: 15 Copynumber: 7.3 Consensus size: 15
56561144 AATTTTAAAA
* *
56561154 TATTTTTATTTTTAC
1 TATTATTATTATTAC
* *
56561169 TATTATTATTATCAT
1 TATTATTATTATTAC
* *
56561184 TACTATTACTATTAC
1 TATTATTATTATTAC
*
56561199 TATTATTATTACTAC
1 TATTATTATTATTAC
**
56561214 TATTATTATTGCTAC
1 TATTATTATTATTAC
* *
56561229 TATT-GTATTTTTAC
1 TATTATTATTATTAC
*
56561243 TATTATTATTATTAT
1 TATTATTATTATTAC
56561258 TATT
1 TATT
56561262 GCTATTTTAT
Statistics
Matches: 74, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
14 11 0.15
15 63 0.85
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:56561270 original size:29 final size:29
Alignment explanation
Indices: 56561183--56561269 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
56561173 ATTATTATCA
* * *
56561183 TTACTATTACTATTACTATTA-T-TATTA
1 TTACTATTATTATTACTACTATTGTATTT
* *
56561210 CTACTATTATTATTGCTACTATTGTATTT
1 TTACTATTATTATTACTACTATTGTATTT
* *
56561239 TTACTATTATTATTATTATTATTGCTATTT
1 TTACTATTATTATTACTACTATTG-TATTT
56561269 T
1 T
56561270 ATTTTCTCTC
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 17 0.35
28 1 0.02
29 24 0.50
30 6 0.12
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (29 bp):
TTACTATTATTATTACTACTATTGTATTT
Found at i:56565820 original size:15 final size:15
Alignment explanation
Indices: 56565771--56565840 Score: 86
Period size: 15 Copynumber: 4.7 Consensus size: 15
56565761 GAGATGACAT
*
56565771 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* * *
56565786 GAAGTCCAGGACAAA
1 GAAATCCAAGATAAA
*
56565801 AAAATCCAAGATAAA
1 GAAATCCAAGATAAA
*
56565816 GAAATCCAAGATACA
1 GAAATCCAAGATAAA
56565831 GAAATCCAAG
1 GAAATCCAAG
56565841 TTACAATGTC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.57, C:0.17, G:0.16, T:0.10
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:56565836 original size:30 final size:30
Alignment explanation
Indices: 56565762--56565840 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
56565752 TACATAATAG
* *
56565762 AGATGACATGAAAACCAAGATAAAGAAGTCCA
1 AGAT-ACA-GAAATCCAAGATAAAGAAATCCA
* * * *
56565794 GGACAAAAAAATCCAAGATAAAGAAATCCA
1 AGATACAGAAATCCAAGATAAAGAAATCCA
56565824 AGATACAGAAATCCAAG
1 AGATACAGAAATCCAAG
56565841 TTACAATGTC
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
30 33 0.89
31 2 0.05
32 2 0.05
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.11
Consensus pattern (30 bp):
AGATACAGAAATCCAAGATAAAGAAATCCA
Found at i:56565845 original size:15 final size:15
Alignment explanation
Indices: 56565802--56565845 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
56565792 CAGGACAAAA
*
56565802 AAATCCAAGATAAAG
1 AAATCCAAGATACAG
56565817 AAATCCAAGATACAG
1 AAATCCAAGATACAG
*
56565832 AAATCCAAGTTACA
1 AAATCCAAGATACA
56565846 ATGTCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.55, C:0.18, G:0.11, T:0.16
Consensus pattern (15 bp):
AAATCCAAGATACAG
Found at i:56567542 original size:18 final size:19
Alignment explanation
Indices: 56567518--56567560 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
56567508 CGTGAGTAGG
*
56567518 CCGTGTGG-TCACACACGC
1 CCGTGTGGCTCAAACACGC
*
56567536 TCGTGTGGCTCAAACACGC
1 CCGTGTGGCTCAAACACGC
56567555 CCGTGT
1 CCGTGT
56567561 CCTCAGCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.16, C:0.35, G:0.28, T:0.21
Consensus pattern (19 bp):
CCGTGTGGCTCAAACACGC
Found at i:56567574 original size:13 final size:13
Alignment explanation
Indices: 56567553--56567586 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
56567543 GCTCAAACAC
56567553 GCCCGTGTCCTCA
1 GCCCGTGTCCTCA
*
56567566 GCTCGTGTCCTCA
1 GCCCGTGTCCTCA
56567579 GCCCGTGT
1 GCCCGTGT
56567587 AACTATCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.41, G:0.26, T:0.26
Consensus pattern (13 bp):
GCCCGTGTCCTCA
Found at i:56571709 original size:32 final size:32
Alignment explanation
Indices: 56571673--56571737 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
56571663 ATTTGATGTA
56571673 AATGCTCAATTTTTTGCATACCATATAATATT
1 AATGCTCAATTTTTTGCATACCATATAATATT
56571705 AATGCTCAATTTTTTGCATACCATATAATATT
1 AATGCTCAATTTTTTGCATACCATATAATATT
56571737 A
1 A
56571738 TATGTTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.43
Consensus pattern (32 bp):
AATGCTCAATTTTTTGCATACCATATAATATT
Found at i:56571781 original size:16 final size:16
Alignment explanation
Indices: 56571760--56571791 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56571750 ACATCATACA
56571760 TAAATTTGGAATATCT
1 TAAATTTGGAATATCT
56571776 TAAATTTGGAATATCT
1 TAAATTTGGAATATCT
56571792 AAGCATATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
TAAATTTGGAATATCT
Found at i:56573758 original size:42 final size:43
Alignment explanation
Indices: 56573711--56573832 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 43
56573701 TACAGTACCA
*
56573711 ATGCCATATCCCAGATATGGTCTTACATGTGA-TCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAAGTCTCATATCG
** * *
56573753 ATGCCAATAGACCAGCTATGGTCTTACATG-AAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAAGTCTCATATCG
*
56573796 ATGCCATATCCCAGATATGGTCTTACATGTAAATCTC
1 ATGCCATATCCCAGATATGGTCTTACATGTAAGTCTC
56573833 GATAGCCCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
42 27 0.40
43 41 0.60
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (43 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAAGTCTCATATCG
Found at i:56580970 original size:42 final size:43
Alignment explanation
Indices: 56580923--56581036 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
56580913 ATGTGTTTTT
* *
56580923 GTGTAAGACCACGTCTGGGACATTGGCATTG-TATTTGATTTC
1 GTGTAAGACCACGTCTAGGACATTGGCATTGATATTTGATTAC
* *
56580965 GTGTAAGACC-CTGTCTAGGATAGTGGCA-TGATATTTGATTAC
1 GTGTAAGACCAC-GTCTAGGACATTGGCATTGATATTTGATTAC
* * *
56581007 ATGTAAGACCACGTCTAGGACGTTCGCATT
1 GTGTAAGACCACGTCTAGGACATTGGCATT
56581037 ATACGAGCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.05
42 54 0.92
43 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTCTAGGACATTGGCATTGATATTTGATTAC
Found at i:56585953 original size:29 final size:29
Alignment explanation
Indices: 56585911--56585967 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
56585901 AAGATGATTG
56585911 TCTGAGATTCCAAGATCGGATCTATGTTT
1 TCTGAGATTCCAAGATCGGATCTATGTTT
56585940 TCTGAGATTCCAAGATCGGATCTATGTT
1 TCTGAGATTCCAAGATCGGATCTATGTT
56585968 CTGAGAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (29 bp):
TCTGAGATTCCAAGATCGGATCTATGTTT
Found at i:56588427 original size:42 final size:43
Alignment explanation
Indices: 56588357--56588462 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
56588347 TATGTGTTTT
* * * * * *
56588357 CATGTAAGACGACGTCTAGGACATTGGCATC-ATATTTGATTT
1 CATGTAAGACCACATCTGGGAAAATGGCATCGATATTTGATTA
**
56588399 TGTGTAAGACC-CTATCTGGGAAAATGGCATCGATATTTGATTA
1 CATGTAAGACCAC-ATCTGGGAAAATGGCATCGATATTTGATTA
56588442 CATGTAAGACCACATCTGGGA
1 CATGTAAGACCACATCTGGGA
56588463 CATTTTTATT
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 22 0.43
43 27 0.53
44 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACATCTGGGAAAATGGCATCGATATTTGATTA
Found at i:56591838 original size:40 final size:40
Alignment explanation
Indices: 56591794--56592021 Score: 352
Period size: 40 Copynumber: 5.7 Consensus size: 40
56591784 GCTACTTGCT
*
56591794 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
56591834 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
56591874 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
56591914 CAAATGCCTTCGGGACTTAGCCCGGATGTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
56591954 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
56591993 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
56592022 CATCCGAATA
Statistics
Matches: 171, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 33 0.19
40 137 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:56591893 original size:80 final size:80
Alignment explanation
Indices: 56591761--56592017 Score: 369
Period size: 80 Copynumber: 3.2 Consensus size: 80
56591751 AAACCAAGTA
* * * * *
56591761 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTTGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
56591824 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
56591840 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
*
56591905 TAACTCACACAAATG
66 TAACTCGCACAAATG
* * *
56591920 CCTTCGGGACTTAGCCCGGATGTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGG-AATTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TA
* *
56591983 GTCACTAGCACAAATG
65 GTAACTCGCACAAATG
56591999 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56592018 TTATCATCCG
Statistics
Matches: 163, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 57 0.35
80 105 0.64
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:56605605 original size:39 final size:39
Alignment explanation
Indices: 56605551--56605676 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
56605541 TTCAGTGATG
* *
56605551 TATATCCGGACTTAGGGTCCGCAGGCTATGTGTTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
56605590 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
* * * *
56605629 TATATTCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
*
56605668 TATGTCCGG
1 TATATCCGG
56605677 GCTAAAGTCC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
Found at i:56605690 original size:78 final size:78
Alignment explanation
Indices: 56605551--56605694 Score: 182
Period size: 78 Copynumber: 1.8 Consensus size: 78
56605541 TTCAGTGATG
* * * * **
56605551 TATATCCGGACTTAGGGTCCGCAGGCTATGTGTTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
56605616 TACGTGCTGGAAT
66 TACGTGCTGGAAT
* * * *
56605629 TATATTCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
56605693 CT
65 CT
56605695 TTGAGTTGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
77 4 0.07
78 51 0.93
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TACGTGCTGGAAT
Found at i:56605692 original size:39 final size:39
Alignment explanation
Indices: 56605551--56605694 Score: 155
Period size: 39 Copynumber: 3.7 Consensus size: 39
56605541 TTCAGTGATG
** * * *
56605551 TATATCCGGACTTAGGGTCCGCAGGCTATGTGTTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
** *
56605590 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* * *
56605629 TATATTCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* *
56605668 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAAGT-CCGCAGGCT
56605695 TTGAGTTGGT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 5 0.05
39 88 0.95
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:56612547 original size:42 final size:42
Alignment explanation
Indices: 56612441--56612554 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
56612431 ACCAATGTCG
* * *
56612441 TATCCCAAATATGGTCTTACATGAAATCTCGTATCGATGCCAA
1 TATCCC-AATATGGTCTTACACGAAATCTCGAATCGATACCAA
* *
56612484 TAGCCCAACTATGGTCTTACACGAAGTCTCGAATCGATACC-A
1 TATCCCAA-TATGGTCTTACACGAAATCTCGAATCGATACCAA
*
56612526 TATCCCAGATATGGTCTTACACGTAATCT
1 TATCCCA-ATATGGTCTTACACGAAATCT
56612555 TAGTAACCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
TATCCCAATATGGTCTTACACGAAATCTCGAATCGATACCAA
Found at i:56614538 original size:16 final size:17
Alignment explanation
Indices: 56614512--56614543 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
56614502 AATTCAACCC
56614512 AAAATTTACATTTTTGT
1 AAAATTTACATTTTTGT
56614529 AAAA-TTACATTTTTG
1 AAAATTTACATTTTTG
56614544 CCCCCTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
AAAATTTACATTTTTGT
Found at i:56617604 original size:20 final size:20
Alignment explanation
Indices: 56617579--56617628 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
56617569 GTATCGATAC
* *
56617579 GGTATCGATACATTTTATTT
1 GGTATCGATACAATTTACTT
* * *
56617599 GGTATCGGTAGAATTTCCTT
1 GGTATCGATACAATTTACTT
56617619 GGTATCGATA
1 GGTATCGATA
56617629 TTGATGGTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (20 bp):
GGTATCGATACAATTTACTT
Found at i:56618896 original size:24 final size:25
Alignment explanation
Indices: 56618868--56618921 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
56618858 AGTAAGCCAC
56618868 ATTTCCAAATG-ATTCCATTTCTCT
1 ATTTCCAAATGTATTCCATTTCTCT
** *
56618892 ATTTCTGAATGTTTTCCATTTCTCT
1 ATTTCCAAATGTATTCCATTTCTCT
56618917 ATTTC
1 ATTTC
56618922 TATTCATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.20, C:0.22, G:0.06, T:0.52
Consensus pattern (25 bp):
ATTTCCAAATGTATTCCATTTCTCT
Found at i:56621323 original size:26 final size:26
Alignment explanation
Indices: 56621293--56621342 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
56621283 CACAATGCTT
56621293 TTGTTTCTG-TTTTGTAATTTTTCTTC
1 TTGTTTCTGCTTTTG-AATTTTTCTTC
* *
56621319 TTGTTTTTGCTTTTGACTTTTTCT
1 TTGTTTCTGCTTTTGAATTTTTCT
56621343 AAATTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.70
Consensus pattern (26 bp):
TTGTTTCTGCTTTTGAATTTTTCTTC
Found at i:56621580 original size:14 final size:14
Alignment explanation
Indices: 56621563--56621609 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
56621553 TGGTTGGTTC
56621563 ATCAAAAAGGAGTT
1 ATCAAAAAGGAGTT
*
56621577 ATC-AAAATG-GTT
1 ATCAAAAAGGAGTT
56621589 CATCAAAAAGGAGTT
1 -ATCAAAAAGGAGTT
56621604 ATCAAA
1 ATCAAA
56621610 CTCAAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 3 0.11
13 8 0.29
14 14 0.50
15 3 0.11
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (14 bp):
ATCAAAAAGGAGTT
Found at i:56621595 original size:27 final size:27
Alignment explanation
Indices: 56621557--56621609 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
56621547 TCAATTTGGT
56621557 TGGTTCATCAAAAAGGAGTTATCAAAA
1 TGGTTCATCAAAAAGGAGTTATCAAAA
56621584 TGGTTCATCAAAAAGGAGTTATCAAA
1 TGGTTCATCAAAAAGGAGTTATCAAA
56621610 CTCAAATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.26
Consensus pattern (27 bp):
TGGTTCATCAAAAAGGAGTTATCAAAA
Found at i:56625239 original size:46 final size:46
Alignment explanation
Indices: 56625172--56625347 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
56625162 TGTAACCCGC
* *
56625172 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
56625218 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * *
56625264 ACATTCCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-T-AAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
56625311 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56625348 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 34 0.32
48 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:56625295 original size:93 final size:93
Alignment explanation
Indices: 56625180--56625350 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
56625170 GCCCATAAGT
* *
56625180 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56625245 CGAGTTCAGATGCCTAGTTACATTCCAC
66 CGAGTTCAGATGCCTAGTTACATTCCAC
* *
56625273 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56625338 CGAGTTCGGATGC
66 CGAGTTCAGATGC
56625351 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTCCAC
Found at i:56632912 original size:45 final size:46
Alignment explanation
Indices: 56632747--56632916 Score: 144
Period size: 45 Copynumber: 3.8 Consensus size: 46
56632737 TGTAACCCGC
* * *
56632747 CCATAAGTG-ACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
56632792 CCATAAGTGAACTCGGACTC-ACTCAACGAGTTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* * * *
56632837 ACATTCA-CGAACTCGAGACT-AA--AAACGAGTTCGGACATTCGCAT
1 CCA-TAAGTGAACTCG-GACTCAACTCAACGAGTTCGGACATTCGCAT
56632881 CCATAAGTGAACT-GGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56632917 TGCTCAACCA
Statistics
Matches: 96, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
42 5 0.05
43 8 0.08
44 17 0.18
45 43 0.45
46 22 0.23
47 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56665434 original size:104 final size:104
Alignment explanation
Indices: 56665254--56665477 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
56665244 TTGTATATAA
** * *
56665254 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
56665319 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
56665358 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
56665422 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
56665462 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
56665478 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:56665542 original size:26 final size:26
Alignment explanation
Indices: 56665507--56665558 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
56665497 AAATGAAAAG
* *
56665507 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
56665533 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
56665559 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:56665545 original size:70 final size:72
Alignment explanation
Indices: 56665396--56665546 Score: 243
Period size: 72 Copynumber: 2.1 Consensus size: 72
56665386 TCATTGGTGG
* *
56665396 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
56665461 GAGGGGT
66 GAGGGGT
***
56665468 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
56665531 GAGGGGT
66 GAGGGGT
56665538 TGCTAAGTG
1 TGCTAAGTG
56665547 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 20 0.27
71 24 0.32
72 30 0.41
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:56670206 original size:46 final size:46
Alignment explanation
Indices: 56670026--56670287 Score: 189
Period size: 46 Copynumber: 5.6 Consensus size: 46
56670016 TTATTTTTGT
* * *
56670026 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCAT-ATTAT-AAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CATGA-GATGTAGA
* * * * *
56670072 GCCAGTGTAAGAACATGTCTGGGACATGGTATCGGCATTAAGACG-AGA
1 GCTAGTGTAAG-ACATGTCTGGGACAT-GCATCGACA-TGAGATGTAGA
* * * * *
56670120 GCTAGTGTAAGACATATTTGAGACATGCATCGGCCTTGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACATGAGATGTAGA
*
56670166 GCTAGTGTAAGACATGTCTGGGACATGCATCTACTATGAGATGT-G-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGAC-ATGAGATGTAGA
* * *
56670211 TC-AGTGTAAGACCATGTCTGGGACATGGCATC-AGCACCGATATGTGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGA-CA-TGAGATGT-AGA
*
56670260 GCTAGTGTAAGACCATGTCTAGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
56670288 GCGTCGGCCT
Statistics
Matches: 173, Mismatches: 26, Indels: 31
0.75 0.11 0.13
Matches are distributed among these distances:
44 9 0.05
45 18 0.10
46 68 0.39
47 32 0.18
48 20 0.12
49 3 0.02
50 23 0.13
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATGAGATGTAGA
Found at i:56670334 original size:49 final size:50
Alignment explanation
Indices: 56670210--56670345 Score: 170
Period size: 49 Copynumber: 2.7 Consensus size: 50
56670200 TATGAGATGT
56670210 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGATATGTGAGA
* * * * *
56670260 G-CTAGTGTAAGACCATGTCTAGGACATGGCGTCGGC-CTCGAT-TTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-CGATATGTGAGA
* *
56670309 GTCAATGTAAGACCATTTCTGGGACATGGCATCAGCA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
56670346 TTATACCCTA
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
49 36 0.50
50 36 0.50
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGATATGTGAGA
Found at i:56670871 original size:40 final size:40
Alignment explanation
Indices: 56670816--56670897 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
56670806 AGGCCAACGT
56670816 TTTGACTCATTTTGTACAAGGCCATGAAAAATGGCTAATA
1 TTTGACTCATTTTGTACAAGGCCATGAAAAATGGCTAATA
56670856 TTTGACTCATTTTGTACAAGGCCATGAAAAATGGCTAATA
1 TTTGACTCATTTTGTACAAGGCCATGAAAAATGGCTAATA
56670896 TT
1 TT
56670898 GAAAGTTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (40 bp):
TTTGACTCATTTTGTACAAGGCCATGAAAAATGGCTAATA
Found at i:56685218 original size:13 final size:15
Alignment explanation
Indices: 56685190--56685221 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
56685180 TTACTCTTAA
56685190 AAAAGAGTTAAAAAG
1 AAAAGAGTTAAAAAG
56685205 AAAAGA-TT-AAAAG
1 AAAAGAGTTAAAAAG
56685218 AAAA
1 AAAA
56685222 AATATGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (15 bp):
AAAAGAGTTAAAAAG
Found at i:56690058 original size:16 final size:16
Alignment explanation
Indices: 56689994--56690062 Score: 54
Period size: 16 Copynumber: 4.3 Consensus size: 16
56689984 GTATGATTTT
*
56689994 ATTTAAATTGTTT-TG
1 ATTTGAATTGTTTGTG
*
56690009 TATTTGAATTATATATGT-
1 -ATTTGAATTGT-T-TGTG
* *
56690027 ATTTG-TTTGGTTGTG
1 ATTTGAATTGTTTGTG
56690042 ATTTGAATTGTTTGTG
1 ATTTGAATTGTTTGTG
56690058 ATTTG
1 ATTTG
56690063 GTACAAATGA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
14 3 0.07
15 6 0.15
16 24 0.59
17 6 0.15
18 1 0.02
19 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (16 bp):
ATTTGAATTGTTTGTG
Found at i:56693071 original size:10 final size:10
Alignment explanation
Indices: 56693056--56693089 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
56693046 TGACCATGAG
*
56693056 ATTATGGTAT
1 ATTATGTTAT
56693066 ATTATGTTAT
1 ATTATGTTAT
*
56693076 CTTATGTTAT
1 ATTATGTTAT
56693086 ATTA
1 ATTA
56693090 CTTGCATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (10 bp):
ATTATGTTAT
Found at i:56697988 original size:13 final size:13
Alignment explanation
Indices: 56697948--56697981 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
56697938 TTTGAGTAGG
56697948 GTCACACGATCGT
1 GTCACACGATCGT
56697961 GTCACACGATCGT
1 GTCACACGATCGT
56697974 GTCACACG
1 GTCACACG
56697982 CCTGTGTGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (13 bp):
GTCACACGATCGT
Found at i:56702083 original size:22 final size:22
Alignment explanation
Indices: 56702058--56702106 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
56702048 AAGCGTATCA
56702058 GTTGTGTAAAGCAGATTGCTTC
1 GTTGTGTAAAGCAGATTGCTTC
56702080 GTTGTGTAAAGCAGATTGCTTC
1 GTTGTGTAAAGCAGATTGCTTC
*
56702102 CTTGT
1 GTTGT
56702107 TGTACGTCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (22 bp):
GTTGTGTAAAGCAGATTGCTTC
Found at i:56705000 original size:196 final size:196
Alignment explanation
Indices: 56704661--56705059 Score: 755
Period size: 196 Copynumber: 2.0 Consensus size: 196
56704651 AATAGCCTCG
56704661 ACCTT-GTGAGAAAACTTAAAACCTAAGTTAGCAATAATCTCATCAACTTTAAAACCACTTACCC
1 ACCTTAGTGAGAAAACTTAAAACCTAAGTTAGCAATAATCTCATCAACTTTAAAACCACTTACCC
56704725 TTGTTTTTAGAAAACTAACAATATCAAGTTTGTACTCTCTATTATATTCACGAAAGATACGAGAA
66 TTGTTTTTAGAAAACTAACAATATCAAGTTTGTACTCTCTATTATATTCACGAAAGATACGAGAA
56704790 AATTTTAGATTCGCGCATCCGTAACAATTCCGAGAGAAAACTGTTAAATTCAGAGGAAATTGTTA
131 AATTTTAGATTCGCGCATCCGTAACAATTCCGAGAGAAAACTGTTAAATTCAGAGGAAATTGTTA
56704855 A
196 A
* *
56704856 ACCTTAGTGAGAAAACTTAAAACCTAGGTTAGCAATAATCTTATCAACTTTAAAACCACTTACCC
1 ACCTTAGTGAGAAAACTTAAAACCTAAGTTAGCAATAATCTCATCAACTTTAAAACCACTTACCC
* *
56704921 TTGTTTTTAGAAAACTAACAATATCAGGTTTGTACTCTCTATTATATTGACGAAAGATACGAGAA
66 TTGTTTTTAGAAAACTAACAATATCAAGTTTGTACTCTCTATTATATTCACGAAAGATACGAGAA
56704986 AATTTTAGATTCGCGCATCCGTAACAATTCCGAGAGAAAACTGTTAAATTCAGAGGAAATTGTTA
131 AATTTTAGATTCGCGCATCCGTAACAATTCCGAGAGAAAACTGTTAAATTCAGAGGAAATTGTTA
56705051 A
196 A
56705052 ACCTTAGT
1 ACCTTAGT
56705060 ATTCTTTAGG
Statistics
Matches: 199, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
195 5 0.03
196 194 0.97
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (196 bp):
ACCTTAGTGAGAAAACTTAAAACCTAAGTTAGCAATAATCTCATCAACTTTAAAACCACTTACCC
TTGTTTTTAGAAAACTAACAATATCAAGTTTGTACTCTCTATTATATTCACGAAAGATACGAGAA
AATTTTAGATTCGCGCATCCGTAACAATTCCGAGAGAAAACTGTTAAATTCAGAGGAAATTGTTA
A
Found at i:56708069 original size:13 final size:13
Alignment explanation
Indices: 56708051--56708079 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
56708041 ATGACCCATT
56708051 TGAAATGAGTAGA
1 TGAAATGAGTAGA
56708064 TGAAATGAGTAGA
1 TGAAATGAGTAGA
56708077 TGA
1 TGA
56708080 CATGGGAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (13 bp):
TGAAATGAGTAGA
Found at i:56713995 original size:80 final size:80
Alignment explanation
Indices: 56713862--56714022 Score: 313
Period size: 80 Copynumber: 2.0 Consensus size: 80
56713852 GAAATTTCTC
*
56713862 AATTTGAAACAAGGCTGCATGTCAGTTACTGAGTACAAAAGAAAGTTTGTTTGGCTTAGTAAATA
1 AATTTGAAACAAGGCTGCATGTCAGTTACTGAGTACAAAAGAAAGTTTGTTTGGCTCAGTAAATA
56713927 TGCTCGAAAATGTGT
66 TGCTCGAAAATGTGT
56713942 AATTTGAAACAAGGCTGCATGTCAGTTACTGAGTACAAAAGAAAGTTTGTTTGGCTCAGTAAATA
1 AATTTGAAACAAGGCTGCATGTCAGTTACTGAGTACAAAAGAAAGTTTGTTTGGCTCAGTAAATA
56714007 TGCTCGAAAATGTGT
66 TGCTCGAAAATGTGT
56714022 A
1 A
56714023 TCTTTTGAGA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (80 bp):
AATTTGAAACAAGGCTGCATGTCAGTTACTGAGTACAAAAGAAAGTTTGTTTGGCTCAGTAAATA
TGCTCGAAAATGTGT
Found at i:56721202 original size:11 final size:11
Alignment explanation
Indices: 56721183--56721218 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
56721173 TAAAACTACC
56721183 TTTTATTTTAT
1 TTTTATTTTAT
*
56721194 TTTTCTTTTAT
1 TTTTATTTTAT
*
56721205 TTTAATTTTAT
1 TTTTATTTTAT
56721216 TTT
1 TTT
56721219 ATCCTTAGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:56721203 original size:16 final size:16
Alignment explanation
Indices: 56721182--56721220 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
56721172 TTAAAACTAC
*
56721182 CTTTTATTTTATTTTT
1 CTTTTATTTTAATTTT
56721198 CTTTTATTTTAATTTT
1 CTTTTATTTTAATTTT
*
56721214 ATTTTAT
1 CTTTTAT
56721221 CCTTAGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTTATTTTAATTTT
Found at i:56731817 original size:21 final size:19
Alignment explanation
Indices: 56731770--56731818 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
56731760 ATGCACAAAT
*
56731770 ATCTATAAATTTAATCTAA
1 ATCTATAAATATAATCTAA
*
56731789 AACATATAAATGATAATCATAA
1 ATC-TATAAAT-ATAATC-TAA
56731811 ATCTATAA
1 ATCTATAA
56731819 GAATTCATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.08
20 7 0.29
21 10 0.42
22 5 0.21
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (19 bp):
ATCTATAAATATAATCTAA
Found at i:56733901 original size:5 final size:5
Alignment explanation
Indices: 56733852--56733883 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
56733842 CAAAAAAGGA
56733852 AAAT- AAAT- AAATG AAATG AAATG AAATG AAAT
1 AAATG AAATG AAATG AAATG AAATG AAATG AAAT
56733884 AAAAAACAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (5 bp):
AAATG
Found at i:56734728 original size:30 final size:30
Alignment explanation
Indices: 56734694--56734756 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
56734684 CCAGGCCGTA
* *
56734694 TGGTCCACACAACCATGTCACACGTTCCTG
1 TGGTCCACACAACCATATCACACGCTCCTG
* *
56734724 TGGTCCACACAACCGTATCACACGCTCGTG
1 TGGTCCACACAACCATATCACACGCTCCTG
56734754 TGG
1 TGG
56734757 ACTGGTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (30 bp):
TGGTCCACACAACCATATCACACGCTCCTG
Found at i:56741781 original size:16 final size:16
Alignment explanation
Indices: 56741757--56741789 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56741747 CCCCAAGTTT
56741757 TATTCTTCTGAACTTC
1 TATTCTTCTGAACTTC
*
56741773 TATTTTTCTGAACTTC
1 TATTCTTCTGAACTTC
56741789 T
1 T
56741790 TCAATTTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.55
Consensus pattern (16 bp):
TATTCTTCTGAACTTC
Found at i:56743343 original size:16 final size:16
Alignment explanation
Indices: 56743313--56743358 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
56743303 TATGAACCAC
*
56743313 TCCATTT-ACTTACTT
1 TCCATTTCATTTACTT
56743328 TCCATTTCATTTACTT
1 TCCATTTCATTTACTT
*
56743344 TCCATTCCATTTACT
1 TCCATTTCATTTACT
56743359 ATGCATAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.52
Consensus pattern (16 bp):
TCCATTTCATTTACTT
Found at i:56745658 original size:29 final size:29
Alignment explanation
Indices: 56745615--56745680 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
56745605 TACAAAACTC
*
56745615 AACCCATCTCATCAAAATTATTTCTTCAA
1 AACCCATCTCATCAAAACTATTTCTTCAA
* * *
56745644 AACCCATC-CAGTCAAAACTATTTTTTTAG
1 AACCCATCTCA-TCAAAACTATTTCTTCAA
56745673 AACCCATC
1 AACCCATC
56745681 ATGTACAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.32
Consensus pattern (29 bp):
AACCCATCTCATCAAAACTATTTCTTCAA
Found at i:56749680 original size:25 final size:25
Alignment explanation
Indices: 56749652--56749703 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
56749642 AGGACTATAT
56749652 GAGGTAAACAAATTTAACCTAAAGA
1 GAGGTAAACAAATTTAACCTAAAGA
56749677 GAGGTAAACAAATTTAACCTAAAGA
1 GAGGTAAACAAATTTAACCTAAAGA
56749702 GA
1 GA
56749704 TATTTAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (25 bp):
GAGGTAAACAAATTTAACCTAAAGA
Found at i:56757988 original size:18 final size:18
Alignment explanation
Indices: 56757965--56758001 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
56757955 GGAAAAGGAA
*
56757965 ACATATAAGAGTTATGAT
1 ACATATAAGAGCTATGAT
*
56757983 ACATATAAGGGCTATGAT
1 ACATATAAGAGCTATGAT
56758001 A
1 A
56758002 TGCACCTGGC
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:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (18 bp):
ACATATAAGAGCTATGAT
Found at i:56761907 original size:7 final size:7
Alignment explanation
Indices: 56761897--56761921 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56761887 TTATATACAT
56761897 AATACTA
1 AATACTA
56761904 AATACTA
1 AATACTA
56761911 AATACTA
1 AATACTA
56761918 AATA
1 AATA
56761922 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:56762896 original size:25 final size:24
Alignment explanation
Indices: 56762847--56762898 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
56762837 ACTATTATAA
*
56762847 AAAATTACAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAAATAATT
56762871 AAAATTACATAAATAAAAAA-ATATT
1 AAAATTACA-AAATAAAAAATA-ATT
56762896 AAA
1 AAA
56762899 TAATATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAATTACAAAATAAAAAATAATT
Found at i:56763103 original size:30 final size:30
Alignment explanation
Indices: 56763068--56763136 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
56763058 ATTAATTAAA
56763068 GAGAGCTTTGAGAAATTTAAAGAGAAATAT
1 GAGAGCTTTGAGAAATTTAAAGAGAAATAT
* ** *
56763098 GAGAGCTTTGATAAATTTAGGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAAGAGAAATAT
56763128 GAGAGCTTT
1 GAGAGCTTT
56763137 TTTGCCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.30
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAAGAGAAATAT
Found at i:56767854 original size:75 final size:75
Alignment explanation
Indices: 56767726--56767932 Score: 292
Period size: 75 Copynumber: 2.8 Consensus size: 75
56767716 ATGTCCACAG
* * *
56767726 TTGCCCTCACATGATGAGCAATTAAGAGATGCTCTATGTAAACCCAACTTCATGAAACATGTCCA
1 TTGCCCTAACATGATGAGCAATTAAGAGATGCTCTATGTAAAACCAACATCATGAAACATGTCCA
56767791 CAATTTAGAC
66 CAATTTAGAC
* *
56767801 TTGCCCTAACATGATGAGCAATTAAGAGATGCTCTATGTAAAACCAGCATCATGAAACATGTCTA
1 TTGCCCTAACATGATGAGCAATTAAGAGATGCTCTATGTAAAACCAACATCATGAAACATGTCCA
*
56767866 CACTTTAGAC
66 CAATTTAGAC
* * * *
56767876 TTGCCCTACCATGATGAGCAATTAAGATG-TGCTC-ATCTGAAATCCAACTTCATGAAA
1 TTGCCCTAACATGATGAGCAATTAAGA-GATGCTCTATGT-AAAACCAACATCATGAAA
56767933 ATAGATATTA
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
74 3 0.03
75 115 0.97
76 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (75 bp):
TTGCCCTAACATGATGAGCAATTAAGAGATGCTCTATGTAAAACCAACATCATGAAACATGTCCA
CAATTTAGAC
Found at i:56772133 original size:120 final size:120
Alignment explanation
Indices: 56771920--56772146 Score: 280
Period size: 120 Copynumber: 1.9 Consensus size: 120
56771910 AAAGTTTTTC
* * * * *
56771920 AAAATAAGGCAATATTTCGTGTTTAGGAGTTCGAGAAATCGTGCCATACCTTGCTGGGTTTCGAT
1 AAAATAAGGCAATATTTCGTGTTTAGAAATTCGAGAAATCATGCCATACCGTGCTGGGTTTCGAC
* **
56771985 TTTTCGTTCAACCGAATAACTGAATATCCTTTTGAAATTTCATCCATGTTTTCTT
66 TTATCGTTCAACCGAATAACCAAATATCCTTTTGAAATTTCATCCATGTTTTCTT
* * *
56772040 AAAATGAGGCAATATTTTGTGTTT-GAAAATTCGAGAAATCATGCCCA-ATCGTGCTGGGTTTCG
1 AAAATAAGGCAATATTTCGTGTTTAG-AAATTCGAGAAATCATG-CCATACCGTGCTGGGTTTCG
** *
56772103 ACTTATCGTTTGACC-AGATAGCCAAATATCCTTTTGAAATTTCA
64 ACTTATCGTTCAACCGA-ATAACCAAATATCCTTTTGAAATTTCA
56772147 AATGCATGAG
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
119 2 0.02
120 85 0.94
121 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (120 bp):
AAAATAAGGCAATATTTCGTGTTTAGAAATTCGAGAAATCATGCCATACCGTGCTGGGTTTCGAC
TTATCGTTCAACCGAATAACCAAATATCCTTTTGAAATTTCATCCATGTTTTCTT
Found at i:56776571 original size:40 final size:41
Alignment explanation
Indices: 56776527--56776620 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 41
56776517 CTAGAAAACC
56776527 AAAAGATAAAAAAAA-AAA-ACCCAAAATATAGTAAGTATAG
1 AAAAGA-AAAAAAAATAAAGACCCAAAATATAGTAAGTATAG
** *
56776567 AAAAGAAAAAAAAATAAAGTATTCAAAATATAGTAAGTATAT
1 AAAAGAAAAAAAAATAAAG-ACCCAAAATATAGTAAGTATAG
56776609 AAAAGAAAAAAA
1 AAAAGAAAAAAA
56776621 TAAAGTTGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
39 8 0.17
40 9 0.19
42 31 0.65
ACGTcount: A:0.69, C:0.04, G:0.10, T:0.17
Consensus pattern (41 bp):
AAAAGAAAAAAAAATAAAGACCCAAAATATAGTAAGTATAG
Found at i:56777125 original size:44 final size:44
Alignment explanation
Indices: 56777055--56777145 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
56777045 CCTGGGATTG
*
56777055 TAGGGGATTGGGCAACTCGAGTTTTATTTTCCACGTTTAAACTT
1 TAGGGGATTGGGCAACTCGAGCTTTATTTTCCACGTTTAAACTT
**
56777099 TAGGGGATTGGGCAACTACGA-CTTTATTTTCCTTGTTTAAACTT
1 TAGGGGATTGGGCAACT-CGAGCTTTATTTTCCACGTTTAAACTT
56777143 TAG
1 TAG
56777146 TTCATGCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 40 0.93
45 3 0.07
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (44 bp):
TAGGGGATTGGGCAACTCGAGCTTTATTTTCCACGTTTAAACTT
Found at i:56779027 original size:57 final size:56
Alignment explanation
Indices: 56778963--56779074 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
56778953 ATGGTGAAAA
* * * * *
56778963 TGGAGAAACGGGAAA-CATTTGGAAATGATTATGGTTTTCTTCAAAATGAATATGAAG
1 TGGAGAAA--GGAAATCATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATGAAG
*
56779020 TGGAGAAATGAAATCATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATGAA
1 TGGAGAAAGGAAATCATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATGAA
56779075 AATAAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 4 0.08
56 36 0.75
57 8 0.17
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (56 bp):
TGGAGAAAGGAAATCATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATGAAG
Found at i:56779083 original size:7 final size:7
Alignment explanation
Indices: 56779061--56779149 Score: 148
Period size: 7 Copynumber: 13.1 Consensus size: 7
56779051 AGTTTTCTCC
56779061 AAAAT-A
1 AAAATGA
56779067 AAAATG-
1 AAAATGA
*
56779073 AAAATAA
1 AAAATGA
56779080 AAAATGA
1 AAAATGA
56779087 AAAATGA
1 AAAATGA
56779094 AAAATGA
1 AAAATGA
56779101 AAAATGA
1 AAAATGA
56779108 AAAATGA
1 AAAATGA
56779115 AAAATGA
1 AAAATGA
56779122 AAAATGA
1 AAAATGA
56779129 AAAATGA
1 AAAATGA
56779136 AAAATG-
1 AAAATGA
56779142 AAAATGA
1 AAAATGA
56779149 A
1 A
56779150 TTTATGTTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
6 16 0.21
7 62 0.79
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (7 bp):
AAAATGA
Found at i:56779085 original size:56 final size:55
Alignment explanation
Indices: 56778974--56779088 Score: 133
Period size: 56 Copynumber: 2.1 Consensus size: 55
56778964 GGAGAAACGG
* * * * * * * *
56778974 GAAACATTTGGAAATGATTATGGTTTTCTTCAAAATGAATATGAAGTGGAGAAAT
1 GAAACATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATGAAATGAAAAAAT
56779029 GAAATCATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATGAAAAT-AAAAAAT
1 GAAA-CATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATG-AAATGAAAAAAT
56779085 GAAA
1 GAAA
56779089 AATGAAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
55 4 0.08
56 43 0.86
57 3 0.06
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.30
Consensus pattern (55 bp):
GAAACATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATGAAATGAAAAAAT
Found at i:56781533 original size:22 final size:22
Alignment explanation
Indices: 56781508--56781552 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
56781498 ATGTCAATCA
56781508 TGGTTTATCCATCAAATTCCCT
1 TGGTTTATCCATCAAATTCCCT
*
56781530 TGGTTTATCCATCGAATTCCCT
1 TGGTTTATCCATCAAATTCCCT
56781552 T
1 T
56781553 TTAACCTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.42
Consensus pattern (22 bp):
TGGTTTATCCATCAAATTCCCT
Found at i:56796724 original size:34 final size:35
Alignment explanation
Indices: 56796647--56796742 Score: 113
Period size: 34 Copynumber: 2.8 Consensus size: 35
56796637 ATTGATATTT
* * **
56796647 TCGGTTCATTTGACTAGCGCTGGGCACAACTTTAG
1 TCGGTTTATCTGACTAGCGCTGGGCACAACAGTAG
**
56796682 TCAATTTATCTGACTAGCGCTGGGCAC-ACAGTAG
1 TCGGTTTATCTGACTAGCGCTGGGCACAACAGTAG
* *
56796716 TCGGTTTATCCGACTAGTGCTGGGCAC
1 TCGGTTTATCTGACTAGCGCTGGGCAC
56796743 GAATATCGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 28 0.55
35 23 0.45
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (35 bp):
TCGGTTTATCTGACTAGCGCTGGGCACAACAGTAG
Found at i:56801123 original size:46 final size:46
Alignment explanation
Indices: 56801073--56801248 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
56801063 TGATTGAGCA
56801073 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56801119 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56801164 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
56801212 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56801249 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56801229 original size:93 final size:93
Alignment explanation
Indices: 56801070--56801241 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
56801060 GGATGATTGA
*
56801070 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
56801135 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56801163 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
56801227 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
56801242 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56806008 original size:23 final size:24
Alignment explanation
Indices: 56805970--56806017 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
56805960 AGACACCTTA
56805970 TACTTAGAAATTTTTTCATGAAAC
1 TACTTAGAAATTTTTTCATGAAAC
56805994 TACTTAG-AATTTTTTCATGAAAC
1 TACTTAGAAATTTTTTCATGAAAC
56806017 T
1 T
56806018 TTAACACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (24 bp):
TACTTAGAAATTTTTTCATGAAAC
Found at i:56810160 original size:40 final size:40
Alignment explanation
Indices: 56810113--56810190 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
56810103 ACACACCATG
* *
56810113 TGGGGATAAAATCGACCCACCCATCCCTGCACACCATATA
1 TGGGGATAAAATCGACCCACCCATCCATACACACCATATA
* * *
56810153 TGGGGATAAAGTCGTCCCATCCATCCATACACACCATA
1 TGGGGATAAAATCGACCCACCCATCCATACACACCATA
56810191 AGGTACCACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.19
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCATCCATACACACCATATA
Found at i:56815954 original size:26 final size:26
Alignment explanation
Indices: 56815924--56815974 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
56815914 ACCAATGAAC
*
56815924 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
56815950 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
56815975 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Done.