Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 166 of 250
Found at i:53404288 original size:27 final size:27
Alignment explanation
Indices: 53404220--53404289 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
53404210 GTCACATCAT
* * *
53404220 GGTGTTGCCGGTGGCAGTGGCACCAGC
1 GGTGCTGCCAGTGGCACTGGCACCAGC
* * * *
53404247 AGTGCCGCCACTGGCACTGGCACCATC
1 GGTGCTGCCAGTGGCACTGGCACCAGC
*
53404274 GGTGCTGCCTGTGGCA
1 GGTGCTGCCAGTGGCA
53404290 GGCCCACCAC
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.13, C:0.31, G:0.37, T:0.19
Consensus pattern (27 bp):
GGTGCTGCCAGTGGCACTGGCACCAGC
Found at i:53410424 original size:19 final size:19
Alignment explanation
Indices: 53410390--53410437 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
53410380 AGAATTATCA
*
53410390 AATAATTATA-ACTATTTG
1 AATAATTGTATACTATTTG
53410408 AATAATTGTATACTATTTG
1 AATAATTGTATACTATTTG
53410427 AATAATTGTAT
1 AATAATTGTAT
53410438 CTTTTACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (19 bp):
AATAATTGTATACTATTTG
Found at i:53419016 original size:11 final size:11
Alignment explanation
Indices: 53419002--53419026 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53418992 CAAATTAGTC
53419002 AAAAATAATAA
1 AAAAATAATAA
53419013 AAAAATAATAA
1 AAAAATAATAA
53419024 AAA
1 AAA
53419027 TTTATTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:53419038 original size:22 final size:22
Alignment explanation
Indices: 53419013--53419056 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
53419003 AAAATAATAA
*
53419013 AAAAATAATAAAAATTTATTAT
1 AAAAATAATAAAAATTCATTAT
* *
53419035 AAAATTAATTAAAATTCATTAT
1 AAAAATAATAAAAATTCATTAT
53419057 TTTAATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAATAATAAAAATTCATTAT
Found at i:53423616 original size:7 final size:7
Alignment explanation
Indices: 53423604--53423639 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
53423594 TTTTTTATAC
53423604 TAATAAA
1 TAATAAA
53423611 TAATAAA
1 TAATAAA
53423618 TAATGAAA
1 TAAT-AAA
*
53423626 TAATATA
1 TAATAAA
53423633 TAATAAA
1 TAATAAA
53423640 AGGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:53423628 original size:15 final size:14
Alignment explanation
Indices: 53423604--53423639 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
53423594 TTTTTTATAC
53423604 TAATAAATAATAAA
1 TAATAAATAATAAA
*
53423618 TAATGAAATAATATA
1 TAAT-AAATAATAAA
53423633 TAATAAA
1 TAATAAA
53423640 AGGAAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:53423671 original size:10 final size:10
Alignment explanation
Indices: 53423624--53423729 Score: 58
Period size: 10 Copynumber: 10.2 Consensus size: 10
53423614 TAAATAATGA
53423624 AATAATATAT
1 AATAATATAT
* *
53423634 AATAAAAGGA-
1 AATAATA-TAT
53423644 AGATAATATAGGT
1 A-ATAATATA--T
53423657 AATAATATAT
1 AATAATATAT
53423667 AATAATATAT
1 AATAATATAT
* *
53423677 GAT-ATGTAAT
1 AATAATAT-AT
*
53423687 AA-AAAATAT
1 AATAATATAT
*
53423696 AAATAAAATAT
1 -AATAATATAT
53423707 AATGAA-ATAT
1 AAT-AATATAT
53423717 AATAATATGAT
1 AATAATAT-AT
53423728 AA
1 AA
53423730 CTATCATATA
Statistics
Matches: 75, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
9 7 0.09
10 40 0.53
11 19 0.25
12 8 0.11
13 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.31
Consensus pattern (10 bp):
AATAATATAT
Found at i:53423823 original size:26 final size:25
Alignment explanation
Indices: 53423784--53423836 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
53423774 AATTTAAAAA
**
53423784 AATAAAATTTTACACAATTAATGAAT
1 AATAAAATAATACACAATTAAT-AAT
* *
53423810 AATAAAATAATACATAATTTATAAT
1 AATAAAATAATACACAATTAATAAT
53423835 AA
1 AA
53423837 AATAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (25 bp):
AATAAAATAATACACAATTAATAAT
Found at i:53423952 original size:18 final size:18
Alignment explanation
Indices: 53423913--53423965 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
53423903 AAATAAAATG
*
53423913 TATAATAATAA-AAATAA
1 TATAATAATAATATATAA
53423930 TATAATGAATAATATATAA
1 TATAAT-AATAATATATAA
*
53423949 -ATAAAAAATAATATATA
1 TAT-AATAATAATATATA
53423966 TTATTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 6 0.19
18 18 0.58
19 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TATAATAATAATATATAA
Found at i:53425621 original size:44 final size:44
Alignment explanation
Indices: 53425569--53426229 Score: 781
Period size: 44 Copynumber: 15.5 Consensus size: 44
53425559 ACTTAAGAAT
* * * *
53425569 GCCAAATCTGTTATCTCCGACCTGCTCTCTGACTATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
53425613 GCCGAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
53425657 ACCAAATCTGTTATCTTCGATCTGCTTTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
53425701 GCCAAATCTGCCATCTTTGATCTGATCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
53425745 GCCAAATCTGCAACCTTCGATCTGCTCTCTAACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
53425789 GCCAAATCTGCTATCTTCGA-------TCTG-C--T-CAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
53425822 GCCAAATATGCTATCTTCGATCTGCTCCCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* **
53425866 GCCAAATCTGCTATTTTCGATCTGCTCTCTGACAATACAGAGGT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
53425910 GCCAAATCTGCTACCTTCGATCTGCTCTCTAACAATACAAAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
*
53425954 GCCAAATCTTCTATCTTCGA-------TCTG-C--T-CAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
*
53425987 GCCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
53426031 GCCAAATCTGCTATCTTCAATCTGCTCTCGGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
53426075 GTCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
** * * * * * *
53426119 GCCAAATCTATTCTCTTCAATTTGCTCTTTGACAATACAAAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
53426163 GCCAAATCTGTTCTCTTCGATCTACTCTCTGATAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
*
53426207 ACCAAATCTGCTATCTTCGATCT
1 GCCAAATCTGCTATCTTCGATCT
53426230 ATATTGTCTT
Statistics
Matches: 524, Mismatches: 71, Indels: 44
0.82 0.11 0.07
Matches are distributed among these distances:
33 51 0.10
34 2 0.00
36 2 0.00
37 6 0.01
40 7 0.01
41 2 0.00
43 2 0.00
44 452 0.86
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
Found at i:53425821 original size:33 final size:33
Alignment explanation
Indices: 53425782--53425848 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
53425772 TCTAACAATA
*
53425782 CAGAGACGCCAAATCTGCTATCTTCGATCTGCT
1 CAGAGACGCCAAATATGCTATCTTCGATCTGCT
53425815 CAGAGACGCCAAATATGCTATCTTCGATCTGCT
1 CAGAGACGCCAAATATGCTATCTTCGATCTGCT
53425848 C
1 C
53425849 CCTGACAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (33 bp):
CAGAGACGCCAAATATGCTATCTTCGATCTGCT
Found at i:53425940 original size:165 final size:165
Alignment explanation
Indices: 53425658--53426127 Score: 753
Period size: 165 Copynumber: 2.8 Consensus size: 165
53425648 TACAGAGATA
* * *
53425658 CCAAATCTGTTATCTTCGATCTGCTTTCTGACAATACAGAGACGCCAAATCTGCCATCTTT-GAT
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTAT-TTTCGAT
* *
53425722 CTGATCTCTGACAATACAGAGACGCCAAATCTGCAACCTTCGATCTGCTCTCTAACAATACAGAG
65 CTGCTCTCTGACAATACAGAGACGCCAAATCTGCTACCTTCGATCTGCTCTCTAACAATACAGAG
53425787 ACGCCAAATCTGCTATCTTCGATCTGCTCAGAGACG
130 ACGCCAAATCTGCTATCTTCGATCTGCTCAGAGACG
* *
53425823 CCAAATATGCTATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCTGCTATTTTCGATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATTTTCGATC
** *
53425888 TGCTCTCTGACAATACAGAGGTGCCAAATCTGCTACCTTCGATCTGCTCTCTAACAATACAAAGA
66 TGCTCTCTGACAATACAGAGACGCCAAATCTGCTACCTTCGATCTGCTCTCTAACAATACAGAGA
*
53425953 CGCCAAATCTTCTATCTTCGATCTGCTCAGAGACG
131 CGCCAAATCTGCTATCTTCGATCTGCTCAGAGACG
* * *
53425988 CCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATTTTCGATC
* * * *
53426053 TGCTCTCGGACAATACAGAGACGTCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGA
66 TGCTCTCTGACAATACAGAGACGCCAAATCTGCTACCTTCGATCTGCTCTCTAACAATACAGAGA
*
53426118 TGCCAAATCT
131 CGCCAAATCT
53426128 ATTCTCTTCA
Statistics
Matches: 280, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
164 3 0.01
165 277 0.99
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (165 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATTTTCGATC
TGCTCTCTGACAATACAGAGACGCCAAATCTGCTACCTTCGATCTGCTCTCTAACAATACAGAGA
CGCCAAATCTGCTATCTTCGATCTGCTCAGAGACG
Found at i:53438133 original size:7 final size:7
Alignment explanation
Indices: 53438121--53438158 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
53438111 AATTTTTTAT
53438121 AATAATA
1 AATAATA
53438128 AATAATA
1 AATAATA
53438135 AATAATGA
1 AATAAT-A
53438143 AATAATA
1 AATAATA
*
53438150 TATAATA
1 AATAATA
53438157 AA
1 AA
53438159 AGAAAGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:53438339 original size:26 final size:26
Alignment explanation
Indices: 53438290--53438362 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
53438280 ATTTAATAAT
* **
53438290 AATTAA-AAAAAATAAAATTTTACAC
1 AATTAATAATAAATAAAATAATACAC
*
53438315 AATTAATGAAT-AATAAAATAATACAT
1 AATTAAT-AATAAATAAAATAATACAC
*
53438341 AATTTATAATAAAATAAAATAA
1 AATTAATAAT-AAATAAAATAA
53438363 AAAAATGCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 9 0.23
26 18 0.46
27 12 0.31
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (26 bp):
AATTAATAATAAATAAAATAATACAC
Found at i:53438467 original size:18 final size:18
Alignment explanation
Indices: 53438428--53438480 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
53438418 AAATAAAACG
*
53438428 TATAATAATAA-AAATAA
1 TATAATAATAATATATAA
53438445 TATAATGAATAATATATAA
1 TATAAT-AATAATATATAA
*
53438464 -ATAAAAAATAATATATA
1 TAT-AATAATAATATATA
53438481 TTATTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 6 0.19
18 18 0.58
19 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TATAATAATAATATATAA
Found at i:53440800 original size:43 final size:44
Alignment explanation
Indices: 53440736--53440848 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 44
53440726 ATTGATCTGT
* ** *
53440736 GATTTTGTGTAAGACTGTGTCTGGGACACAGGCCTCGAT-TTGA
1 GATTTCGTGTAAGACCCTGTCTGGGACACAGGCCTCGATACTGA
* *
53440779 GATTTCGTGTAAGACCCTGTCTGGGACAGAGGCTTCGATACTGA
1 GATTTCGTGTAAGACCCTGTCTGGGACACAGGCCTCGATACTGA
* *
53440823 -ATTACATGTAAGACCACT-TCTGGGAC
1 GATTTCGTGTAAGACC-CTGTCTGGGAC
53440849 GTTGGCATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 55 0.92
44 5 0.08
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (44 bp):
GATTTCGTGTAAGACCCTGTCTGGGACACAGGCCTCGATACTGA
Found at i:53445144 original size:46 final size:46
Alignment explanation
Indices: 53445092--53445460 Score: 558
Period size: 46 Copynumber: 8.0 Consensus size: 46
53445082 AGTGTGCTCT
*
53445092 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
53445138 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
53445184 GTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
53445230 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
53445276 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
53445322 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
53445368 CTAACATGAAATGAGTAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
53445414 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
53445461 ATGACAGAAA
Statistics
Matches: 299, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
46 263 0.88
47 36 0.12
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:53449259 original size:22 final size:22
Alignment explanation
Indices: 53449232--53449275 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
53449222 GAAAATAATC
*
53449232 AAAATTAATGAAAATTTATTAT
1 AAAATTAATGAAAATTCATTAT
*
53449254 AAAATTAATTAAAATTCATTAT
1 AAAATTAATGAAAATTCATTAT
53449276 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATTAATGAAAATTCATTAT
Found at i:53451160 original size:10 final size:10
Alignment explanation
Indices: 53451145--53451184 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
53451135 CTGTTTTGTA
53451145 CATGATATGC
1 CATGATATGC
53451155 CATGATATGC
1 CATGATATGC
53451165 ACATGATATGC
1 -CATGATATGC
53451176 CATGATATG
1 CATGATATG
53451185 TTCATTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:53451170 original size:21 final size:21
Alignment explanation
Indices: 53451144--53451184 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
53451134 ACTGTTTTGT
53451144 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
53451165 ACATGATATGCCATGATATG
1 ACATGATATGCCATGATATG
53451185 TTCATTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:53451312 original size:24 final size:25
Alignment explanation
Indices: 53451230--53451299 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
53451220 GAGGAAGTGC
*
53451230 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
53451255 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
53451280 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53451300 ATTAAAAGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:53451323 original size:50 final size:50
Alignment explanation
Indices: 53451230--53451324 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
53451220 GAGGAAGTGC
**
53451230 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCA
**
53451280 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGTGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
53451325 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 24 0.62
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCA
Found at i:53451555 original size:31 final size:31
Alignment explanation
Indices: 53451520--53451586 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
53451510 CGTTTACAGT
53451520 AAAGGCTTCGGCCCAGTGATATAAATAATGA
1 AAAGGCTTCGGCCCAGTGATATAAATAATGA
* *
53451551 AAAGGCTTCGGCCTAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATAAATAATGA
53451582 AAAGG
1 AAAGG
53451587 GTTAGCCCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATAAATAATGA
Found at i:53459016 original size:25 final size:25
Alignment explanation
Indices: 53458988--53459038 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
53458978 CCCTTATAAT
* *
53458988 GTGAAAATGACCATTTTTCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
53459013 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
53459038 G
1 G
53459039 GATATGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:53459093 original size:10 final size:10
Alignment explanation
Indices: 53459078--53459117 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
53459068 CTATTTTGTA
53459078 CATGATATGC
1 CATGATATGC
53459088 CATGATATGC
1 CATGATATGC
53459098 ACATGATATGC
1 -CATGATATGC
53459109 CATGATATG
1 CATGATATG
53459118 TTCATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:53459103 original size:21 final size:21
Alignment explanation
Indices: 53459077--53459117 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
53459067 ACTATTTTGT
53459077 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
53459098 ACATGATATGCCATGATATG
1 ACATGATATGCCATGATATG
53459118 TTCATATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:53459441 original size:31 final size:31
Alignment explanation
Indices: 53459403--53459472 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
53459393 CGTTTACAGT
53459403 AAAGGCTTCGACCCAGTGATATAAATAATGA
1 AAAGGCTTCGACCCAGTGATATAAATAATGA
* *
53459434 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGACCCAGTGATATAAATAATGA
53459465 AAAGGCTT
1 AAAGGCTT
53459473 AGGCCAGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTGATATAAATAATGA
Found at i:53460847 original size:23 final size:24
Alignment explanation
Indices: 53460820--53460876 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
53460810 GTTCATAATA
53460820 AATTATTAATATAA-AATAATTAT
1 AATTATTAATATAACAATAATTAT
*
53460843 AATTA-TAACTATAACTATAATTAT
1 AATTATTAA-TATAACAATAATTAT
*
53460867 -TTTATTAATA
1 AATTATTAATA
53460877 ATGTTTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 3 0.10
23 15 0.52
24 11 0.38
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
AATTATTAATATAACAATAATTAT
Found at i:53461153 original size:3 final size:3
Alignment explanation
Indices: 53461108--53461134 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
53461098 AAAAAATATG
53461108 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
53461135 TGAGATGTTT
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:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:53467596 original size:100 final size:100
Alignment explanation
Indices: 53467414--53467607 Score: 264
Period size: 100 Copynumber: 1.9 Consensus size: 100
53467404 AATGAAGAAC
* * * * * *
53467414 TGCCCCTGTATATAGTTTAGTGTTCCTATTTGCACTTCGGTGCCACTGTATTCACTTCGGTGTCT
1 TGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATGCCACTGTATACACTTCGGTGTCT
* * *
53467479 ATATTTGCACGTTTGTGCCTCTTTTTGCACTTTGA
66 ATATTTGCACGTCTGTGCCCCTGTTTGCACTTTGA
*
53467514 TGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATG-CATCTGTATACACTTTGGTGTC
1 TGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATGCCA-CTGTATACACTTCGGTGTC
* *
53467578 TCTATTTGTACGTCTGTGCCCCTGTTTGCA
65 TATATTTGCACGTCTGTGCCCCTGTTTGCA
53467608 TTTAAGTGTC
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 2 0.02
100 79 0.98
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (100 bp):
TGCCCCTATATATACTTCAGTGTCCCTATTTGCACTTCGATGCCACTGTATACACTTCGGTGTCT
ATATTTGCACGTCTGTGCCCCTGTTTGCACTTTGA
Found at i:53471637 original size:24 final size:24
Alignment explanation
Indices: 53471610--53471687 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
53471600 AAGGCTGTCA
53471610 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
53471634 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
53471658 GGAAAAGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
53471682 GGAGAA
1 GGAGAA
53471688 CGGTGTTGGC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.37, C:0.04, G:0.40, T:0.19
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:53479658 original size:46 final size:46
Alignment explanation
Indices: 53479608--53479780 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
53479598 TGGTTGAGCA
*
53479608 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
53479654 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
53479701 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
53479747 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53479781 GGAGCAGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 60 0.58
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53479764 original size:93 final size:93
Alignment explanation
Indices: 53479605--53479775 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
53479595 GGATGGTTGA
* * *
53479605 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53479670 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
53479698 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
53479763 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
53479776 ACTTAGGAGC
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:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:53490940 original size:19 final size:19
Alignment explanation
Indices: 53490918--53490959 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
53490908 TCTCGTCGAC
*
53490918 TTCTTCTTTTTTCATTT-TT
1 TTCTTCTTCTTTC-TTTCTT
53490937 TTCTTCTTCTTTCTTTCTT
1 TTCTTCTTCTTTCTTTCTT
53490956 TTCT
1 TTCT
53490960 CATCTGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (19 bp):
TTCTTCTTCTTTCTTTCTT
Found at i:53494672 original size:27 final size:27
Alignment explanation
Indices: 53494642--53494819 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
53494632 ATATTAAGTC
* * *
53494642 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** *
53494669 CGCACACTTAGTGCCGCATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
53494697 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
53494724 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
53494751 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
53494778 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
53494805 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53494820 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:53494726 original size:55 final size:54
Alignment explanation
Indices: 53494642--53494819 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
53494632 ATATTAAGTC
* * *
53494642 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCGCATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAA-T
* * *
53494697 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
* ** **
53494751 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
53494805 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53494820 GTACAATTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 47 0.44
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
Found at i:53494808 original size:81 final size:82
Alignment explanation
Indices: 53494663--53494818 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 82
53494653 TGCTATATAA
* * *
53494663 TCAACTCGCACACTTAGTGCCGCATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCAGCATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
53494728 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * * **
53494745 TCAATTCGCACACTTAGTGCATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCAGCATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
53494809 CACTTAGTGC
66 CACTTAGTGC
53494819 TGTACAATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 41 0.62
82 25 0.38
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCAGCATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:53502744 original size:27 final size:27
Alignment explanation
Indices: 53502711--53502888 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
53502701 TATATTAGTC
* *
53502711 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* **
53502738 CACACACTTAGTGCCGCATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
53502766 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
53502793 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
53502820 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
53502847 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
53502874 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53502889 CAATATTCAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:53502799 original size:55 final size:54
Alignment explanation
Indices: 53502711--53502888 Score: 223
Period size: 54 Copynumber: 3.3 Consensus size: 54
53502701 TATATTAGTC
* * * *
53502711 CGCACACTCAGTGCTATATAATCAACTCACACACTTAGTGCCGCATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAA-T
* * *
53502766 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
* ** **
53502820 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
53502874 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53502889 CAATATTCAT
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAGTCAAAT
Found at i:53502850 original size:54 final size:53
Alignment explanation
Indices: 53502740--53502910 Score: 218
Period size: 54 Copynumber: 3.2 Consensus size: 53
53502730 AATCAACTCA
* * **
53502740 CACACTTAGTGCCGCATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCG
1 CACACTTAGTGCCGCATAGTCAAA-TCGCACACTTAGTGCT-CATATTCATTTCG
* *
53502795 CACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATATTCATTTCG
1 CACACTTAGTGCCGCATAGTCAAATCGCACACTTAGTGC-TCATATTCATTTCG
**
53502849 CACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTCAATATTCATTTC-
1 CACACTTAGTGCCGCATAGTCAAATCGCACACTTAGTGCTC-ATATTCATTTCG
*
53502902 CGCACTTAG
1 CACACTTAG
53502911 CGCCAATCTC
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
53 10 0.10
54 71 0.69
55 22 0.21
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (53 bp):
CACACTTAGTGCCGCATAGTCAAATCGCACACTTAGTGCTCATATTCATTTCG
Found at i:53515360 original size:25 final size:25
Alignment explanation
Indices: 53515310--53515360 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
53515300 CCATTATAAT
* *
53515310 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
*
53515335 GTGAAAATGACCATTATACCCGTAG
1 GTGAAAATGACCATTATACCCCTAG
53515360 G
1 G
53515361 GATATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:53515413 original size:10 final size:10
Alignment explanation
Indices: 53515400--53515439 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
53515390 CTGTTTTATA
53515400 CATGATATGC
1 CATGATATGC
53515410 CATGATATGC
1 CATGATATGC
53515420 ACATGATATGC
1 -CATGATATGC
53515431 CATGATATG
1 CATGATATG
53515440 TTCATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:53515425 original size:21 final size:21
Alignment explanation
Indices: 53515399--53515439 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
53515389 ACTGTTTTAT
53515399 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
53515420 ACATGATATGCCATGATATG
1 ACATGATATGCCATGATATG
53515440 TTCATATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:53515567 original size:24 final size:24
Alignment explanation
Indices: 53515484--53515554 Score: 115
Period size: 25 Copynumber: 2.9 Consensus size: 24
53515474 GGAGGAAGTG
*
53515484 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGCTTTGCCCCAGTTTAC
53515508 CGAAAAAGGCTTTGCCCCAGTTTAC
1 C-AAAAAGGCTTTGCCCCAGTTTAC
53515533 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAA-GGCTTTGCCCCAGTT
53515555 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
24 6 0.14
25 38 0.86
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (24 bp):
CAAAAAGGCTTTGCCCCAGTTTAC
Found at i:53515578 original size:50 final size:50
Alignment explanation
Indices: 53515485--53515579 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
53515475 GAGGAAGTGC
**
53515485 AAAAGGGCTTTGCCCCAGTTTACCGAAAAAGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAAGGCTAGGCCCCAGTTTACCA
**
53515535 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAA-AGGCTAGGCC-CCAGTT
53515580 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 4 0.10
49 11 0.28
50 24 0.62
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAAGGCTAGGCCCCAGTTTACCA
Found at i:53515810 original size:31 final size:31
Alignment explanation
Indices: 53515775--53515856 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
53515765 CGTTTACAGT
53515775 AAAGGCTTTGGCCCAGTGATATAAATAATGA
1 AAAGGCTTTGGCCCAGTGATATAAATAATGA
* *
53515806 AAAGGCTTCGGCCCTA-TGATATGAATAATGA
1 AAAGGCTTTGGCCC-AGTGATATAAATAATGA
*
53515837 AAAGGC-TTAGCCCAGT-ATAT
1 AAAGGCTTTGGCCCAGTGATAT
53515857 GTTAAGACTG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 5 0.11
30 6 0.13
31 33 0.73
32 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATAAATAATGA
Found at i:53517927 original size:48 final size:48
Alignment explanation
Indices: 53517870--53518084 Score: 246
Period size: 46 Copynumber: 4.6 Consensus size: 48
53517860 AAGCTAACAC
* *
53517870 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* ** *
53517918 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAA-TCCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCC-GATG
* * *
53517964 CATGTCCCAGACATGTCTTACATTGGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* *
53518012 CATGTCCCAGACATGTCTTACACTGGCTCTCGTA-ATGT---GGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-T-GTATATCTCAAGGCCGATG
*
53518058 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
53518085 ACACATATCA
Statistics
Matches: 144, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
45 2 0.01
46 68 0.47
47 4 0.03
48 61 0.42
49 6 0.04
50 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
Found at i:53517993 original size:94 final size:94
Alignment explanation
Indices: 53517870--53518084 Score: 306
Period size: 94 Copynumber: 2.3 Consensus size: 94
53517860 AAGCTAACAC
* *
53517870 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAGACATGTC
* *
53517935 TTACACTAGCTCTCGT-CTCAATCCTGATG
66 TTACACTAGCTCTCGTAATCAAGCC-GATG
* * *
53517964 CATGTCCCAGACATGTCTTACATTGGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAGACATGTC
* ***
53518029 TTACACTGGCTCTCGTAATGTGGCCGATG
66 TTACACTAGCTCTCGTAATCAAGCCGATG
*
53518058 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
53518085 ACACATATCA
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 103 0.97
95 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGTAATCAAGCCGATG
Found at i:53518770 original size:20 final size:18
Alignment explanation
Indices: 53518733--53518783 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
53518723 CTATAGCAAC
53518733 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
53518750 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
53518770 TTACAACTTTACAA
1 TCACAA-TTTACAA
53518784 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:53519949 original size:21 final size:21
Alignment explanation
Indices: 53519923--53519966 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
53519913 GGTTTGGGGT
*
53519923 GTTACATTTAGTGGTATCAGA
1 GTTACATTTAGTAGTATCAGA
53519944 GTTACATTTAGTAGTATCAGA
1 GTTACATTTAGTAGTATCAGA
53519965 GT
1 GT
53519967 CAGGTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (21 bp):
GTTACATTTAGTAGTATCAGA
Found at i:53528985 original size:17 final size:17
Alignment explanation
Indices: 53528963--53529002 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
53528953 CCTGTAATCA
53528963 TGTGAGCTAAAATATCG
1 TGTGAGCTAAAATATCG
53528980 TGTGAGCTAAAATATCG
1 TGTGAGCTAAAATATCG
53528997 TGTGAG
1 TGTGAG
53529003 TACCTCAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (17 bp):
TGTGAGCTAAAATATCG
Found at i:53534431 original size:34 final size:34
Alignment explanation
Indices: 53534385--53534452 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
53534375 ACATATTTGA
*
53534385 TACTGTATTGAAATG-GGCTAAGGCCC-AAACTGT
1 TACTGTACTGAAA-GAGGCTAAGGCCCAAAACTGT
*
53534418 TACTGATACTGAAAGAGGCTTAGGCCCAAAACTGT
1 TACTG-TACTGAAAGAGGCTAAGGCCCAAAACTGT
53534453 ATTTGACTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.20
34 17 0.57
35 7 0.23
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (34 bp):
TACTGTACTGAAAGAGGCTAAGGCCCAAAACTGT
Found at i:53536103 original size:21 final size:21
Alignment explanation
Indices: 53536079--53536141 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
53536069 ACTTTCATTT
53536079 ATTTAACTTTTCAACCCTTCA
1 ATTTAACTTTTCAACCCTTCA
*
53536100 ATTTAAAC-TTTC-A---TT-T
1 ATTT-AACTTTTCAACCCTTCA
*
53536116 ATTTGACTTTTCAACCCTTCA
1 ATTTAACTTTTCAACCCTTCA
53536137 ATTTA
1 ATTTA
53536142 CATATTTCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
15 2 0.06
16 8 0.26
17 3 0.10
20 3 0.10
21 12 0.39
22 3 0.10
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTAACTTTTCAACCCTTCA
Found at i:53536117 original size:37 final size:37
Alignment explanation
Indices: 53536067--53536141 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
53536057 TAGCAGCCCA
53536067 AAACTTTCATTTATTTAACTTTTCAACCCTTCAATTT
1 AAACTTTCATTTATTTAACTTTTCAACCCTTCAATTT
*
53536104 AAACTTTCATTTATTTGACTTTTCAACCCTTCAATTT
1 AAACTTTCATTTATTTAACTTTTCAACCCTTCAATTT
53536141 A
1 A
53536142 CATATTTCAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.21, G:0.01, T:0.48
Consensus pattern (37 bp):
AAACTTTCATTTATTTAACTTTTCAACCCTTCAATTT
Found at i:53539210 original size:43 final size:43
Alignment explanation
Indices: 53539083--53539210 Score: 150
Period size: 43 Copynumber: 3.0 Consensus size: 43
53539073 TATGATTTTT
** * *
53539083 GATATGTGATTATGTGTAAGACCACGTCTGGGACGTTGGCAAC
1 GATATGTGATTACATGTAAGACCACGTCTGGGACCTTGGCATC
* * * *
53539126 GATATGTGTTTACAAGTAAGACC-CTATCTGGAACCTTGGCATC
1 GATATGTGATTACATGTAAGACCAC-GTCTGGGACCTTGGCATC
* *
53539169 GATATGTGATTACATGTGAGACCACGTCTGGGACTTTGGCAT
1 GATATGTGATTACATGTAAGACCACGTCTGGGACCTTGGCAT
53539211 TGTACGATAT
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 67 0.97
44 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
GATATGTGATTACATGTAAGACCACGTCTGGGACCTTGGCATC
Found at i:53546693 original size:38 final size:38
Alignment explanation
Indices: 53546611--53546818 Score: 202
Period size: 38 Copynumber: 5.4 Consensus size: 38
53546601 AAACCCAAAC
* * * * * *
53546611 ATAACACCAGCACGAAGCCTACGAGACTTTAAACTCAGAT
1 ATAATACCAGCACAAAGCCTGCGGGA-TTT-AACCCGGAT
* *
53546651 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
*
53546689 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* *
53546727 ATATTACCAGCACAAAGCCTGCGGGATTTATCCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
*** * * *
53546765 ATAATTTTAGCATATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGG-ATTTAA-CCCGGAT
*
53546805 ACAAT-CTCAGCACA
1 ATAATAC-CAGCACA
53546819 GTTTATTTTA
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
38 97 0.69
39 7 0.05
40 37 0.26
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (38 bp):
ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
Found at i:53546747 original size:76 final size:78
Alignment explanation
Indices: 53546611--53546769 Score: 223
Period size: 76 Copynumber: 2.1 Consensus size: 78
53546601 AAACCCAAAC
* * * *
53546611 ATAACACCAGCACGAAGCCTACGAGACTTTAAACTCAGATATAATACCAGCACTAGGCCTGCGGG
1 ATAATACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACAAAGCCTGCGGG
53546676 ATTTAACCCGGAT
66 ATTTAACCCGGAT
* * * *
53546689 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATATTACCAGCACAAAGCCTGCGGG
1 ATAATACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACAAAGCCTGCGGG
*
53546752 ATTTATCCCGGAT
66 ATTTAACCCGGAT
53546765 ATAAT
1 ATAAT
53546770 TTTAGCATAT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
76 46 0.64
77 3 0.04
78 23 0.32
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (78 bp):
ATAATACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACAAAGCCTGCGGG
ATTTAACCCGGAT
Found at i:53551479 original size:43 final size:43
Alignment explanation
Indices: 53551351--53551482 Score: 171
Period size: 43 Copynumber: 3.1 Consensus size: 43
53551341 CATAGGATTT
* *
53551351 TTGATATGTGATTTCATGTAAGACCACGTCTGGGACGTTGCCA
1 TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
* * *
53551394 TCGATATGTGTTTATGA-GTAAGACC-CTGTCTGGGACAG-TGGCA
1 TTGATATGTGATTA-CATGTAAGACCAC-GTCTGGGAC-GTTGGCA
53551437 TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
53551480 TTG
1 TTG
53551483 TACGGTATGT
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.04
43 69 0.92
44 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
TTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:53559128 original size:15 final size:15
Alignment explanation
Indices: 53559108--53559150 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
53559098 TCTATACAAT
53559108 TTCAAATTAATCTCA
1 TTCAAATTAATCTCA
* *
53559123 TTCAAACATAATTTCA
1 TTCAAA-TTAATCTCA
*
53559139 TTCAATTTAATC
1 TTCAAATTAATC
53559151 CAACAACACA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (15 bp):
TTCAAATTAATCTCA
Found at i:53568313 original size:39 final size:39
Alignment explanation
Indices: 53568265--53568427 Score: 290
Period size: 39 Copynumber: 4.2 Consensus size: 39
53568255 CGAAGTTCGA
* *
53568265 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCCAG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
* *
53568304 ATATAATTCCTGCATATAGCCTACGGACCTTAAGTCCGA
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
53568343 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
53568382 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
53568421 ATATAAT
1 ATATAAT
53568428 CACCATATAT
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 118 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (39 bp):
ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
Found at i:53568323 original size:78 final size:78
Alignment explanation
Indices: 53568225--53568402 Score: 248
Period size: 78 Copynumber: 2.3 Consensus size: 78
53568215 TATTAGCCCG
* * * *
53568225 GATATAATTCCAGCACATAGCCGGCAAACCCGAAGTTCGAATATGATTCCCGCATATAGCCTACG
1 GATATAATTCCAGCATATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCTACG
53568290 GACCTTAAGTCCA
66 GACCTTAAGTCCA
* * ** **
53568303 GATATAATTCCTGCATATAGCCTACGGACCTTAAGTCCGAATATAATTCCCGCATATAGCCTACG
1 GATATAATTCCAGCATATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCTACG
*
53568368 GACCTTAAGTCCG
66 GACCTTAAGTCCA
*
53568381 GATATAATTCCCGCATATAGCC
1 GATATAATTCCAGCATATAGCC
53568403 TACGGACCTT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 88 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (78 bp):
GATATAATTCCAGCATATAGCCGACAAACCCGAAGTCCGAATATAATTCCCGCATATAGCCTACG
GACCTTAAGTCCA
Found at i:53568960 original size:6 final size:6
Alignment explanation
Indices: 53568940--53568985 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
53568930 AATATTATAA
53568940 TTTA-T TTTA-T TTTATT TTTATT TTTA-- TTTATT TTTATT TTT-TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
53568983 TTT
1 TTT
53568986 GTTGGGTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.11
5 14 0.37
6 20 0.53
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:53568961 original size:16 final size:15
Alignment explanation
Indices: 53568940--53568983 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 15
53568930 AATATTATAA
53568940 TTTATTTTATTTTATT
1 TTTATTTT-TTTTATT
53568956 TTTATTTTTATTTATT
1 TTTATTTTT-TTTATT
53568972 TTTATTTTTTTT
1 TTTATTTTTTTT
53568984 TTGTTGGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTATTTTTTTTATT
Found at i:53568984 original size:10 final size:10
Alignment explanation
Indices: 53568940--53568984 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
53568930 AATATTATAA
*
53568940 TTTATTTTAT
1 TTTATTTTTT
53568950 TTTATTTTTATT
1 TTTA-TTTT-TT
*
53568962 TTTATTTATT
1 TTTATTTTTT
53568972 TTTATTTTTT
1 TTTATTTTTT
53568982 TTT
1 TTT
53568985 TGTTGGGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 18 0.60
11 7 0.23
12 5 0.17
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:53576893 original size:39 final size:39
Alignment explanation
Indices: 53576845--53576968 Score: 230
Period size: 39 Copynumber: 3.2 Consensus size: 39
53576835 CGAAGTTCGA
*
53576845 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
*
53576884 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
53576923 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
53576962 ATATAAT
1 ATATAAT
53576969 CACCATATAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (39 bp):
ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
Found at i:53576903 original size:78 final size:78
Alignment explanation
Indices: 53576802--53576968 Score: 228
Period size: 78 Copynumber: 2.1 Consensus size: 78
53576792 GACTATTAGC
** *
53576802 CCGGATATAATTCCAGCACATAGCCGGTGAACCCGAAGT-TCGAATATGATTCCCGCATATAGCC
1 CCGGATATAATTCCAGCACATAGCCGACGAACCCGAAGTCT-GAATATAATTCCCGCATATAGCC
53576866 TACGGACCTTAAGT
65 TACGGACCTTAAGT
* * * * ** *
53576880 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGGATATAATTCCCGCATATAGCCT
1 CCGGATATAATTCCAGCACATAGCCGACGAACCCGAAGTCTGAATATAATTCCCGCATATAGCCT
53576945 ACGGACCTTAAGT
66 ACGGACCTTAAGT
53576958 CCGGATATAAT
1 CCGGATATAAT
53576969 CACCATATAT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 77 0.99
79 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (78 bp):
CCGGATATAATTCCAGCACATAGCCGACGAACCCGAAGTCTGAATATAATTCCCGCATATAGCCT
ACGGACCTTAAGT
Found at i:53578775 original size:27 final size:28
Alignment explanation
Indices: 53578758--53578883 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
53578748 ATATTAAGTC
*
53578758 CGCACACTCAGTGCTATATAATCAA-CT
1 CGCACACTTAGTGCTATATAATCAAGCT
*
53578785 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAGCT
*
53578813 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAGCT
*
53578841 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAGCT
53578869 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53578884 GTACAATTTA
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.25
28 71 0.75
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAGCT
Found at i:53578821 original size:28 final size:28
Alignment explanation
Indices: 53578758--53578908 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
53578748 ATATTAAGTC
*
53578758 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
53578785 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
53578813 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
53578841 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53578869 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53578898 CGCACACTTAG
1 CGCACACTTAG
53578909 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 76 0.67
29 15 0.13
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53579376 original size:14 final size:14
Alignment explanation
Indices: 53579357--53579384 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53579347 TGGGCATACT
53579357 TATGTATATATATA
1 TATGTATATATATA
53579371 TATGTATATATATA
1 TATGTATATATATA
53579385 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:53586959 original size:28 final size:28
Alignment explanation
Indices: 53586896--53587046 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
53586886 ATATTAAGTC
*
53586896 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
53586923 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
53586951 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
53586979 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53587007 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53587036 CGCACACTTAG
1 CGCACACTTAG
53587047 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 76 0.67
29 15 0.13
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53588978 original size:6 final size:6
Alignment explanation
Indices: 53588969--53589011 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
53588959 ATTAATATTA
*
53588969 TTTTAT TTTTAT TTTTAT TTTTAT TTTT-T TATTAT TTTT-T TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
53589012 GTTGGCCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 8 0.24
6 26 0.76
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:53588984 original size:12 final size:11
Alignment explanation
Indices: 53588966--53589011 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
53588956 ATAATTAATA
*
53588966 TTATTTTATTT
1 TTATTTTTTTT
53588977 TTATTTTTATTT
1 TTATTTTT-TTT
*
53588989 TTATTTTTTTA
1 TTATTTTTTTT
53589000 TTATTTTTTTT
1 TTATTTTTTTT
53589011 T
1 T
53589012 GTTGGCCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 20 0.65
12 11 0.35
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTATTTTTTTT
Found at i:53590514 original size:55 final size:55
Alignment explanation
Indices: 53590435--53590540 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
53590425 ACGGGCGTGT
* * * *
53590435 GACACGCCCGTGTGGAAGAACCGTGGTTGAAACTGAGAAACTAGCATGGGTATGA
1 GACACGCCCGTGTCGAACAACCGTGGTCGAAACTGAGAAACTACCATGGGTATGA
* * * * *
53590490 GACACGCCCGTGTCTAACACCCGTGGTCGAACCTGTGAAATTACCATGGGT
1 GACACGCCCGTGTCGAACAACCGTGGTCGAAACTGAGAAACTACCATGGGT
53590541 GTGGGGCTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (55 bp):
GACACGCCCGTGTCGAACAACCGTGGTCGAAACTGAGAAACTACCATGGGTATGA
Found at i:53609621 original size:24 final size:23
Alignment explanation
Indices: 53609571--53609675 Score: 86
Period size: 24 Copynumber: 4.5 Consensus size: 23
53609561 GAGACATGCC
* *
53609571 CAGTAAGCTTATAATGAGCTGATAA
1 CAGTAAGCTCA-ATTGAGCTGA-AA
*
53609596 CAGTAAGCTCGATTGAGCTGGAAA
1 CAGTAAGCTCAATTGAGCT-GAAA
* * *
53609620 CAGGAAGATCAATTGAG-TTAAA
1 CAGTAAGCTCAATTGAGCTGAAA
* ** *
53609642 CAATAAGCTCTTTTGAGCTGAAT
1 CAGTAAGCTCAATTGAGCTGAAA
53609665 CAGTAAGCTCA
1 CAGTAAGCTCA
53609676 TATGACTAGG
Statistics
Matches: 62, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
22 15 0.24
23 13 0.21
24 23 0.37
25 11 0.18
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (23 bp):
CAGTAAGCTCAATTGAGCTGAAA
Found at i:53611961 original size:22 final size:23
Alignment explanation
Indices: 53611936--53611991 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
53611926 TGTTGAAGTG
53611936 TCTTGAGACATTAAAGTC-CATA
1 TCTTGAGACATTAAAGTCTCATA
* * *
53611958 TCTTAAGAC--TAAAGTCTTCTTG
1 TCTTGAGACATTAAAGTC-TCATA
53611980 TCTTGAGACATT
1 TCTTGAGACATT
53611992 CTTTTCCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
20 7 0.27
22 18 0.69
24 1 0.04
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (23 bp):
TCTTGAGACATTAAAGTCTCATA
Found at i:53629716 original size:16 final size:17
Alignment explanation
Indices: 53629680--53629716 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
53629670 TTTTTAGAGG
53629680 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
* *
53629697 AAAACGAATTAATCTTA
1 AAAACAAATGAATCTTA
53629714 AAA
1 AAA
53629717 GCTTAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:53647308 original size:27 final size:27
Alignment explanation
Indices: 53647270--53647324 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
53647260 AGTTTATGAC
*
53647270 TAGAAGAAACCTATCAAGACCTCTACT
1 TAGAAGAAACCTAACAAGACCTCTACT
*
53647297 TAGAAGAAACCTAACATGACCTCTACT
1 TAGAAGAAACCTAACAAGACCTCTACT
53647324 T
1 T
53647325 TTTGATAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (27 bp):
TAGAAGAAACCTAACAAGACCTCTACT
Found at i:53651855 original size:6 final size:6
Alignment explanation
Indices: 53651840--53651919 Score: 97
Period size: 6 Copynumber: 13.3 Consensus size: 6
53651830 ATTGAGTCCA
* * *
53651840 TTTATC TTTATG TTTATT TTTATT TTTATT TTTATT TTTATT TTTATC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * *
53651888 TTGATC TTTAAT TTTATT TTTATG TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
53651920 GTCTTTATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:53655597 original size:7 final size:7
Alignment explanation
Indices: 53655574--53655637 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 7
53655564 TCCCTTTTCT
53655574 TTATTTAA
1 TTATTT-A
53655582 TTAATTTA
1 TT-ATTTA
53655590 TTATTTA
1 TTATTTA
*
53655597 TTATTTC
1 TTATTTA
53655604 TTA-TTA
1 TTATTTA
53655610 GTT-TATTA
1 -TTAT-TTA
53655618 TTTATTTA
1 -TTATTTA
*
53655626 TTGTTTA
1 TTATTTA
53655633 TTATT
1 TTATT
53655638 ATTTGTTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
6 2 0.04
7 26 0.57
8 13 0.28
9 5 0.11
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.69
Consensus pattern (7 bp):
TTATTTA
Found at i:53655616 original size:18 final size:19
Alignment explanation
Indices: 53655587--53655637 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
53655577 TTTAATTAAT
53655587 TTATTA-TTTATTATTT-C
1 TTATTAGTTTATTATTTAC
*
53655604 TTATTAGTTTATTATTTAT
1 TTATTAGTTTATTATTTAC
53655623 TTATT-GTTTATTATT
1 TTATTAGTTTATTATT
53655638 ATTTGTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 6 0.19
18 20 0.65
19 5 0.16
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (19 bp):
TTATTAGTTTATTATTTAC
Found at i:53658656 original size:6 final size:5
Alignment explanation
Indices: 53658631--53658691 Score: 59
Period size: 6 Copynumber: 10.8 Consensus size: 5
53658621 AGTCCATTTC
53658631 TTTTA TTTTA TTTTA TTTTTA GTTTTA GTTTTA TTTCTA TTTTTA TATTTA
1 TTTTA TTTTA TTTTA -TTTTA -TTTTA -TTTTA TTT-TA -TTTTA T-TTTA
53658682 TTGTTA TTTT
1 TT-TTA TTTT
53658692 CTTAGACTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
5 17 0.34
6 30 0.60
7 3 0.06
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:53658689 original size:18 final size:16
Alignment explanation
Indices: 53658631--53658691 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 16
53658621 AGTCCATTTC
53658631 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
53658647 TTTTAGTTTTAGTTTTAT
1 TTTTA-TTTTA-TTTTAT
*
53658665 TTCTATTTTTATATTTAT
1 TTTTA-TTTTAT-TTTAT
*
53658683 TGTTATTTT
1 TTTTATTTT
53658692 CTTAGACTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
16 5 0.13
17 10 0.26
18 23 0.61
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:53664396 original size:6 final size:6
Alignment explanation
Indices: 53664356--53664398 Score: 50
Period size: 6 Copynumber: 6.5 Consensus size: 6
53664346 GAAAACCAAA
53664356 AAAAATT AAAAAT AAAATAT AATAAAAT AAAAAT AAAAAT AAA
1 AAAAA-T AAAAAT AAAA-AT -A-AAAAT AAAAAT AAAAAT AAA
53664399 TAATTATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 19 0.58
7 8 0.24
8 3 0.09
9 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:53664401 original size:21 final size:22
Alignment explanation
Indices: 53664357--53664397 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
53664347 AAAACCAAAA
53664357 AAAATTAAAAATAAAATATAAT
1 AAAATTAAAAATAAAATATAAT
53664379 AAAA-TAAAAATAAAA-ATAA
1 AAAATTAAAAATAAAATATAA
53664398 ATAATTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAATTAAAAATAAAATATAAT
Found at i:53681452 original size:21 final size:22
Alignment explanation
Indices: 53681426--53681472 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
53681416 CTCTGCTCAA
*
53681426 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
53681447 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
53681469 ACTC
1 ACTC
53681473 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:53685200 original size:15 final size:15
Alignment explanation
Indices: 53685180--53685213 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
53685170 CTATTATCAA
53685180 TTATTTATT-TGTATC
1 TTATTTATTAT-TATC
53685195 TTATTTATTATTATC
1 TTATTTATTATTATC
53685210 TTAT
1 TTAT
53685214 CCTTATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.94
16 1 0.06
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.68
Consensus pattern (15 bp):
TTATTTATTATTATC
Found at i:53690020 original size:19 final size:20
Alignment explanation
Indices: 53689996--53690033 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
53689986 TAAATTTTCC
53689996 TTTTCTT-TTTCTTTCCCTT
1 TTTTCTTCTTTCTTTCCCTT
53690015 TTTTCTTCTTTCTTTCCCT
1 TTTTCTTCTTTCTTTCCCT
53690034 GCTATTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTCTTCTTTCTTTCCCTT
Found at i:53690023 original size:16 final size:17
Alignment explanation
Indices: 53689994--53690026 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
53689984 CCTAAATTTT
*
53689994 CCTTTTCTTTTTCTTTC
1 CCTTTTCTTCTTCTTTC
53690011 CCTTTT-TTCTTCTTTC
1 CCTTTTCTTCTTCTTTC
53690027 TTTCCCTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
CCTTTTCTTCTTCTTTC
Found at i:53690138 original size:19 final size:19
Alignment explanation
Indices: 53690086--53690139 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
53690076 TCTTTTATTT
* * *
53690086 ATTATAACTATTATATTAT
1 ATTATAATTATTATTTTAA
* *
53690105 ATCATTATTATTATTTTAA
1 ATTATAATTATTATTTTAA
53690124 ATTATAATTATTATTT
1 ATTATAATTATTATTT
53690140 CTTAAATATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATAATTATTATTTTAA
Found at i:53696023 original size:6 final size:6
Alignment explanation
Indices: 53696012--53696044 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
53696002 ATAATTTAAT
53696012 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
53696045 ATATATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:53696114 original size:9 final size:9
Alignment explanation
Indices: 53696064--53696113 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
53696054 TTTATACAAA
53696064 TAATTCGGT
1 TAATTCGGT
53696073 TAATTCGGT
1 TAATTCGGT
**
53696082 TAATTCAAT
1 TAATTCGGT
53696091 TAATTCGGT
1 TAATTCGGT
*
53696100 TAATTTGGT
1 TAATTCGGT
53696109 TAATT
1 TAATT
53696114 TTATACTTAT
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:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (9 bp):
TAATTCGGT
Found at i:53697112 original size:20 final size:20
Alignment explanation
Indices: 53697087--53697136 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
53697077 ATCACAGTAG
*
53697087 TCGACACATATAGTGTCTCA
1 TCGACACATATAGTGTATCA
53697107 TCGACACATATAGTGTATCA
1 TCGACACATATAGTGTATCA
53697127 TCGACACATA
1 TCGACACATA
53697137 GTCAGAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (20 bp):
TCGACACATATAGTGTATCA
Found at i:53697488 original size:19 final size:20
Alignment explanation
Indices: 53697464--53697501 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
53697454 TTCCTTTTCC
53697464 TTTTCTT-TTTCTTTCCCTT
1 TTTTCTTGTTTCTTTCCCTT
53697483 TTTTCTTGTTTCTTTCCCT
1 TTTTCTTGTTTCTTTCCCT
53697502 GCTACTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTTCTTGTTTCTTTCCCTT
Found at i:53700700 original size:5 final size:5
Alignment explanation
Indices: 53700690--53700717 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
53700680 ACTAGTTGTA
53700690 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
53700718 TATGAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:53701138 original size:27 final size:27
Alignment explanation
Indices: 53701100--53701152 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
53701090 TTATTACTGT
53701100 TAGCCCCAATTCCCAGAGGGCCGTGGG
1 TAGCCCCAATTCCCAGAGGGCCGTGGG
* *
53701127 TAGCCTCAATTCCCAGAGGGTCGTGG
1 TAGCCCCAATTCCCAGAGGGCCGTGG
53701153 ACTTCTCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (27 bp):
TAGCCCCAATTCCCAGAGGGCCGTGGG
Found at i:53702425 original size:26 final size:27
Alignment explanation
Indices: 53702368--53702426 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
53702358 TAATTTAGCC
* * *
53702368 ATTTTTAATTTTTATTTTAATATTTTT
1 ATTTTTAATTTTAATTTTAATATTCTA
* *
53702395 GTTTTTAA-TTTAATTTTTATATTCTA
1 ATTTTTAATTTTAATTTTAATATTCTA
53702421 ATTTTT
1 ATTTTT
53702427 CGTTTGTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (27 bp):
ATTTTTAATTTTAATTTTAATATTCTA
Found at i:53722174 original size:43 final size:43
Alignment explanation
Indices: 53722113--53722197 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
53722103 AGAGTTTAAA
53722113 TCAAAAGGGTCCAACCTATTTGTGGTAAAAA-TCGTTTTTCCAG
1 TCAAAAGGGTCCAACCTATTTGTGGTAAAAACT-GTTTTTCCAG
53722156 TCAAAAGGGTCCAACCTATTTGTGGTAAAAACTGTTTTTCCA
1 TCAAAAGGGTCCAACCTATTTGTGGTAAAAACTGTTTTTCCA
53722198 TACGGTACAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (43 bp):
TCAAAAGGGTCCAACCTATTTGTGGTAAAAACTGTTTTTCCAG
Found at i:53722508 original size:16 final size:17
Alignment explanation
Indices: 53722487--53722526 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
53722477 TAATAAAATT
*
53722487 GAAAAAAAATTTG-GAA
1 GAAAAAAAATTTGAAAA
53722503 G-AAAAAAATTTGAAAA
1 GAAAAAAAATTTGAAAA
53722519 GAAAAAAA
1 GAAAAAAA
53722527 TTCAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 11 0.52
16 4 0.19
17 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (17 bp):
GAAAAAAAATTTGAAAA
Found at i:53722509 original size:15 final size:16
Alignment explanation
Indices: 53722489--53722528 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
53722479 ATAAAATTGA
*
53722489 AAAAAAATTTG-GAAG
1 AAAAAAATTTGAAAAG
53722504 AAAAAAATTTGAAAAG
1 AAAAAAATTTGAAAAG
53722520 AAAAAAATT
1 AAAAAAATT
53722529 CAAAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (16 bp):
AAAAAAATTTGAAAAG
Found at i:53722534 original size:16 final size:16
Alignment explanation
Indices: 53722501--53722534 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
53722491 AAAAATTTGG
**
53722501 AAGAAAAAAATTTGAA
1 AAGAAAAAAATTCAAA
53722517 AAGAAAAAAATTCAAA
1 AAGAAAAAAATTCAAA
53722533 AA
1 AA
53722535 AATGATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.15
Consensus pattern (16 bp):
AAGAAAAAAATTCAAA
Found at i:53722953 original size:17 final size:16
Alignment explanation
Indices: 53722927--53722963 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
53722917 GAGTGATCTC
53722927 ATTTAGTTTTATATTTT
1 ATTTAGTTTTAT-TTTT
*
53722944 ATTTATTTTTATTTTT
1 ATTTAGTTTTATTTTT
53722960 ATTT
1 ATTT
53722964 TTATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
ATTTAGTTTTATTTTT
Found at i:53722954 original size:6 final size:6
Alignment explanation
Indices: 53722928--53722989 Score: 58
Period size: 6 Copynumber: 10.5 Consensus size: 6
53722918 AGTGATCTCA
* *
53722928 TTTAGT TTTATAT TTTA-- TTTATT TTTATT TTTATT TTTATAA TTT-TT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTAT-T TTTATT
*
53722975 TTTGTT TTTATT TTT
1 TTTATT TTTATT TTT
53722990 TCATTTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.09
5 3 0.06
6 32 0.68
7 8 0.17
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:53722959 original size:23 final size:22
Alignment explanation
Indices: 53722928--53722989 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
53722918 AGTGATCTCA
*
53722928 TTTAGTTTTATATTTTATTTATT
1 TTTATTTTTAT-TTTTATTTATT
*
53722951 TTTATTTTTATTTTTATAATTTTT
1 TTTATTTTTATTTTTAT--TTATT
*
53722975 TTTGTTTTTATTTTT
1 TTTATTTTTATTTTT
53722990 TCATTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.18
23 10 0.29
24 18 0.53
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (22 bp):
TTTATTTTTATTTTTATTTATT
Found at i:53722967 original size:29 final size:30
Alignment explanation
Indices: 53722928--53722989 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
53722918 AGTGATCTCA
53722928 TTTAGTTTTAT-ATTTTATTTATTTTTATT
1 TTTAGTTTTATAATTTTATTTATTTTTATT
* * *
53722957 TTTATTTTTATAATTTTTTTTGTTTTTATT
1 TTTAGTTTTATAATTTTATTTATTTTTATT
53722987 TTT
1 TTT
53722990 TCATTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (30 bp):
TTTAGTTTTATAATTTTATTTATTTTTATT
Found at i:53735046 original size:9 final size:9
Alignment explanation
Indices: 53735032--53735069 Score: 53
Period size: 8 Copynumber: 4.3 Consensus size: 9
53735022 AAAGTCATCC
53735032 AAATAAATA
1 AAATAAATA
53735041 AAATAAAT-
1 AAATAAATA
53735049 AAATAAATCA
1 AAATAAAT-A
53735059 AAATAAA-A
1 AAATAAATA
53735067 AAA
1 AAA
53735070 ACACACCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 12 0.44
9 8 0.30
10 7 0.26
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAATAAATA
Found at i:53735301 original size:25 final size:25
Alignment explanation
Indices: 53735259--53735310 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
53735249 CATAAGGCCT
** * *
53735259 AATAGCCCAATTTCAAAACTGACCC
1 AATAGCCCAAACTAAAAAATGACCC
53735284 AATAGCCCAAACTAAAAAATGACCC
1 AATAGCCCAAACTAAAAAATGACCC
53735309 AA
1 AA
53735311 ATGGCCCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.29, G:0.08, T:0.15
Consensus pattern (25 bp):
AATAGCCCAAACTAAAAAATGACCC
Found at i:53736895 original size:40 final size:40
Alignment explanation
Indices: 53736843--53737072 Score: 318
Period size: 40 Copynumber: 5.8 Consensus size: 40
53736833 ATAACCACAA
* * * *
53736843 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
53736883 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
53736923 TCACAAATGCCTTCGGGTCTTAGCCTGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
53736963 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
53737003 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
53737043 GCATAAATGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
53737073 GTATTCAAAT
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 168 0.98
41 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:53740417 original size:26 final size:29
Alignment explanation
Indices: 53740388--53740451 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
53740378 TACATAATCT
53740388 CTTTAAAATCTATT-TATATATA-TT-TC
1 CTTTAAAATCTATTGTATATATAGTTATC
* *
53740414 CTTTCAAATCTATTGTGTATATAGTTTATC
1 CTTTAAAATCTATTGTATATATAG-TTATC
53740444 CTTTAAAA
1 CTTTAAAA
53740452 AATATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 13 0.42
27 7 0.23
29 2 0.06
30 9 0.29
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (29 bp):
CTTTAAAATCTATTGTATATATAGTTATC
Found at i:53745556 original size:169 final size:169
Alignment explanation
Indices: 53745272--53745596 Score: 564
Period size: 169 Copynumber: 1.9 Consensus size: 169
53745262 AAACTTTACT
* * *
53745272 ATCATATCCAAAAAGGTATTTCAAACAATCTCGTCCATTAATTATGTTAATATAGAACCAAGAAG
1 ATCAAATCCAAAAAGGTATTCCAAACAATCTCGTCCATTAATTATGTTAATATAAAACCAAGAAG
**
53745337 ACTTTCGTTACATATATATTGTAACTAAATTCATCCCTGATCACGTATATTAACATAACCAAATG
66 ACTTTCGTTACATATATATCATAACTAAATTCATCCCTGATCACGTATATTAACATAACCAAATG
53745402 ACATAAATCAAGTATGGATGTGTAGACATAACCAAATCC
131 ACATAAATCAAGTATGGATGTGTAGACATAACCAAATCC
53745441 ATCAAATCCAAAAAGGTATTCCAAACAATCTCGTCCATTAATTATGTTAATATAAAACCAAGACA
1 ATCAAATCCAAAAAGGTATTCCAAACAATCTCGTCCATTAATTATGTTAATATAAAACCAAGA-A
*
53745506 -ACTTTCGTTATATATATATCATAACTAAA-TCTATCCCTGATCACGTATATTAACATAACCAAA
65 GACTTTCGTTACATATATATCATAACTAAATTC-ATCCCTGATCACGTATATTAACATAACCAAA
53745569 TGACATAAATCAAGTATGGATGTGTAGA
129 TGACATAAATCAAGTATGGATGTGTAGA
53745597 ATGAAAACTA
Statistics
Matches: 148, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
168 2 0.01
169 145 0.98
170 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (169 bp):
ATCAAATCCAAAAAGGTATTCCAAACAATCTCGTCCATTAATTATGTTAATATAAAACCAAGAAG
ACTTTCGTTACATATATATCATAACTAAATTCATCCCTGATCACGTATATTAACATAACCAAATG
ACATAAATCAAGTATGGATGTGTAGACATAACCAAATCC
Found at i:53746752 original size:61 final size:61
Alignment explanation
Indices: 53746630--53746765 Score: 166
Period size: 61 Copynumber: 2.2 Consensus size: 61
53746620 CTTAAAACAA
* * * * *
53746630 GGGACACATGCCCGTGTGGCCAGGCCGTGTGGAATGCCCCAGGCCTTATGACTCTCGAAGTT
1 GGGACACACGACCGTGT-CCCAGCCCGTGTGGAATGCCCCAGGCCTTATGACTCTCAAAGTT
* * *
53746692 GGGATACACGACCGTGTCCCAGCCCGTGTGGAATGCCCTAGG-CTGTGTGACTCTCAAAGTT
1 GGGACACACGACCGTGTCCCAGCCCGTGTGGAATGCCCCAGGCCT-TATGACTCTCAAAGTT
*
53746753 GGGACACATGACC
1 GGGACACACGACC
53746766 CTCACTGACT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 2 0.03
61 47 0.75
62 14 0.22
ACGTcount: A:0.20, C:0.29, G:0.31, T:0.21
Consensus pattern (61 bp):
GGGACACACGACCGTGTCCCAGCCCGTGTGGAATGCCCCAGGCCTTATGACTCTCAAAGTT
Found at i:53748314 original size:19 final size:18
Alignment explanation
Indices: 53748274--53748314 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
53748264 AATATTACAC
*
53748274 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
53748292 ATTTCAACTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
53748311 ATTT
1 ATTT
53748315 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:53765530 original size:34 final size:34
Alignment explanation
Indices: 53765465--53765530 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
53765455 TCCTATAAAT
* * *
53765465 AATCCTTATTATAATAAAATCCATTTAGCATAGA
1 AATCCTTATCATAAAAAAATCCAATTAGCATAGA
* *
53765499 AATCCTTATCATAAAAAAATCTAATTGGCATA
1 AATCCTTATCATAAAAAAATCCAATTAGCATA
53765531 AATTTTAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (34 bp):
AATCCTTATCATAAAAAAATCCAATTAGCATAGA
Found at i:53767524 original size:15 final size:15
Alignment explanation
Indices: 53767504--53767533 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
53767494 TAAATGTCTC
53767504 TTCTTCTTTTTCTTT
1 TTCTTCTTTTTCTTT
53767519 TTCTTCTTTTTCTTT
1 TTCTTCTTTTTCTTT
53767534 CTGATAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTCTTCTTTTTCTTT
Found at i:53768128 original size:63 final size:64
Alignment explanation
Indices: 53768049--53768206 Score: 232
Period size: 63 Copynumber: 2.5 Consensus size: 64
53768039 ATGTATCAGA
* *
53768049 CCGTGTAACTTACTATTTTGGAATTAGAA-TCACACAAGCTAGAGACACGGGCATGTGTCTAAG
1 CCGTGTAACTCACTATTTTGGAATTAGAAGTCACACAAGCTAGAGACACGGGCATGTGTCCAAG
** *
53768112 CCGTGTAACTCACTATTTTGGAATTA-AAGTCACACGGGCTAGAGACATGGGCATGTGTCCAAG
1 CCGTGTAACTCACTATTTTGGAATTAGAAGTCACACAAGCTAGAGACACGGGCATGTGTCCAAG
* *
53768175 CCGTATGACTCACTATTTTGGAATTAG-AGTCA
1 CCGTGTAACTCACTATTTTGGAATTAGAAGTCA
53768207 TATGGGCTAG
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
62 2 0.02
63 84 0.98
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (64 bp):
CCGTGTAACTCACTATTTTGGAATTAGAAGTCACACAAGCTAGAGACACGGGCATGTGTCCAAG
Found at i:53769061 original size:26 final size:26
Alignment explanation
Indices: 53769025--53769084 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
53769015 TCTTCTGTTC
53769025 TGTTATACGATCGTTATGAAAATCTA
1 TGTTATACGATCGTTATGAAAATCTA
* *
53769051 TGTTATACGATCGTTGTGAAAATCTC
1 TGTTATACGATCGTTATGAAAATCTA
*
53769077 TGTGATAC
1 TGTTATAC
53769085 TTTGATTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (26 bp):
TGTTATACGATCGTTATGAAAATCTA
Found at i:53770551 original size:21 final size:21
Alignment explanation
Indices: 53770525--53770580 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
53770515 AATGATTAGT
53770525 TAAGTTCAAGTGGTAAGACTC
1 TAAGTTCAAGTGGTAAGACTC
53770546 TAAGTTCAAGTGGTAAGACTC
1 TAAGTTCAAGTGGTAAGACTC
53770567 TAAGTTCAAGTGGT
1 TAAGTTCAAGTGGT
53770581 TTTAAAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (21 bp):
TAAGTTCAAGTGGTAAGACTC
Found at i:53771968 original size:40 final size:40
Alignment explanation
Indices: 53771868--53772022 Score: 222
Period size: 40 Copynumber: 3.9 Consensus size: 40
53771858 TTATACTCTT
53771868 TGTCTGGTGTGTTTCAGTTGGATTAGCTCCTATGAGCTTC
1 TGTCTGGTGTGTTTCAGTTGGATTAGCTCCTATGAGCTTC
* * * *
53771908 -CTCTAGTGTGTTTCAGTTGGATTAGCTCCTATAAGGTTC
1 TGTCTGGTGTGTTTCAGTTGGATTAGCTCCTATGAGCTTC
* *
53771947 TGTCTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCAGTTGGATTAGCTCCTATGAGCTTC
* * *
53771987 TATCTGGTGTGTTTCAGTTGGACTAGCTCTTATGAG
1 TGTCTGGTGTGTTTCAGTTGGATTAGCTCCTATGAG
53772023 AATCTGGTGT
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 35 0.35
40 66 0.65
ACGTcount: A:0.14, C:0.16, G:0.27, T:0.43
Consensus pattern (40 bp):
TGTCTGGTGTGTTTCAGTTGGATTAGCTCCTATGAGCTTC
Found at i:53772565 original size:5 final size:5
Alignment explanation
Indices: 53772557--53772593 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
53772547 AAATAAAAAG
53772557 ATTTT ATTTT -TTATT -TTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATT-TT ATTTT ATTTT ATTTT ATTTT ATT
53772594 AATTTAGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
ATTTT
Found at i:53772599 original size:18 final size:17
Alignment explanation
Indices: 53772565--53772599 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
53772555 AGATTTTATT
*
53772565 TTTTATTTTTTATTTTA
1 TTTTATTTTTTAATTTA
53772582 TTTTATTTTATTAATTTA
1 TTTTATTTT-TTAATTTA
53772600 GGTTAGGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTTTTAATTTA
Found at i:53777538 original size:12 final size:12
Alignment explanation
Indices: 53777523--53777547 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53777513 ATTGAAAGAC
53777523 AAATCATTGAAT
1 AAATCATTGAAT
53777535 AAATCATTGAAT
1 AAATCATTGAAT
53777547 A
1 A
53777548 GGGGCTGAAT
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:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
AAATCATTGAAT
Done.