Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 61 of 173
Found at i:17338160 original size:18 final size:19
Alignment explanation
Indices: 17338123--17338162 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
17338113 TAAATAATCT
*
17338123 TAAAAAATTTAAAATGTTTA
1 TAAAAAATTCAAAA-GTTTA
17338143 TAAAAAATTCAAAA-TTTA
1 TAAAAAATTCAAAAGTTTA
17338161 TA
1 TA
17338163 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
20 13 0.68
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
TAAAAAATTCAAAAGTTTA
Found at i:17338398 original size:20 final size:20
Alignment explanation
Indices: 17338370--17338412 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17338360 CTAACATGAA
*
17338370 ATTAATTATACTGTAACAAG
1 ATTAATTATACTATAACAAG
* *
17338390 ATTAGTTATACTATTACAAG
1 ATTAATTATACTATAACAAG
17338410 ATT
1 ATT
17338413 TCATTTCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (20 bp):
ATTAATTATACTATAACAAG
Found at i:17343306 original size:19 final size:19
Alignment explanation
Indices: 17343284--17343325 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
17343274 CGAACACACC
*
17343284 AAAAAAAA-TATGAAATAAT
1 AAAAAAAACTA-GAAAAAAT
17343303 AAAAAAAACTAGAAAAAAT
1 AAAAAAAACTAGAAAAAAT
17343322 AAAA
1 AAAA
17343326 CTTATCAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAAAAACTAGAAAAAAT
Found at i:17344468 original size:6 final size:6
Alignment explanation
Indices: 17344457--17344484 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17344447 ATACCTTTTA
17344457 AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAA
17344485 ATAATGTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:17346240 original size:20 final size:20
Alignment explanation
Indices: 17346215--17346265 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
17346205 TCTGGAAAGA
*
17346215 AGTTGTGAATCATAACCGCC
1 AGTTGTGAATCATAACCACC
17346235 AGTTGTGAATCATAACCACC
1 AGTTGTGAATCATAACCACC
*
17346255 AGTTATGAATC
1 AGTTGTGAATC
17346266 GTATTCGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (20 bp):
AGTTGTGAATCATAACCACC
Found at i:17361656 original size:23 final size:23
Alignment explanation
Indices: 17361624--17361676 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
17361614 AATGTTATTG
*
17361624 ATCAGGGGTAGCTT-TGGCTACAT
1 ATCAGTGGTAGCTTCT-GCTACAT
*
17361647 TTCAGTGGTAGCTTCTGCTACAT
1 ATCAGTGGTAGCTTCTGCTACAT
17361670 ATCAGTG
1 ATCAGTG
17361677 TGACACTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCTGCTACAT
Found at i:17367911 original size:22 final size:22
Alignment explanation
Indices: 17367852--17367908 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
17367842 ATCTTCAAGA
17367852 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
17367871 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
17367893 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
17367909 GATTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 12 0.38
22 8 0.25
23 12 0.38
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:17368156 original size:23 final size:23
Alignment explanation
Indices: 17368112--17368156 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
17368102 TCTTATTTTG
* *
17368112 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
17368135 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
17368157 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:17368852 original size:3 final size:3
Alignment explanation
Indices: 17368846--17368874 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17368836 ATTATTATTA
17368846 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
17368875 CTTGATCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:17377064 original size:23 final size:23
Alignment explanation
Indices: 17377037--17377127 Score: 146
Period size: 23 Copynumber: 4.0 Consensus size: 23
17377027 TAAGTACCTG
17377037 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
*
17377060 ATACGACACGCGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
** *
17377083 ATACGACATGCGAGGTGCTTGAA
1 ATACGACACACGAGGTGCCTGAA
17377106 ATACGACACACGAGGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
17377128 TATGACACAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.32, C:0.24, G:0.29, T:0.15
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:17377160 original size:23 final size:23
Alignment explanation
Indices: 17377131--17377216 Score: 154
Period size: 23 Copynumber: 3.7 Consensus size: 23
17377121 TGCCTGATAT
17377131 GACACATAAAGTGCCTGGTGTAC
1 GACACATAAAGTGCCTGGTGTAC
*
17377154 GACACATAAAGTGCCTAGTGTAC
1 GACACATAAAGTGCCTGGTGTAC
*
17377177 GACACATAAAGTGCCTGATGTAC
1 GACACATAAAGTGCCTGGTGTAC
17377200 GACACATAAAGTGCCTG
1 GACACATAAAGTGCCTG
17377217 ATCGGCAAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (23 bp):
GACACATAAAGTGCCTGGTGTAC
Found at i:17404042 original size:13 final size:13
Alignment explanation
Indices: 17404026--17404056 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17404016 ATTTAACCAC
17404026 TTTAATTAATCAA
1 TTTAATTAATCAA
*
17404039 TTTAATTAATTAA
1 TTTAATTAATCAA
17404052 TTTAA
1 TTTAA
17404057 ACCCAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAATTAATCAA
Found at i:17420689 original size:33 final size:33
Alignment explanation
Indices: 17420644--17420710 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
17420634 TTCCAAACAA
17420644 ATTGGTTAAATAGACACAAATTTTCCAATTTTT
1 ATTGGTTAAATAGACACAAATTTTCCAATTTTT
*
17420677 ATTGGTTGAATAGACACAAATTTTCCAATTTTT
1 ATTGGTTAAATAGACACAAATTTTCCAATTTTT
17420710 A
1 A
17420711 AATAGAATGG
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:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (33 bp):
ATTGGTTAAATAGACACAAATTTTCCAATTTTT
Found at i:17422823 original size:20 final size:21
Alignment explanation
Indices: 17422798--17422843 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
17422788 ATGTATTATT
17422798 AGGGGCAAAATAC-CAAAAAA
1 AGGGGCAAAATACACAAAAAA
* *
17422818 AGGGGCAAATTACACATAAAA
1 AGGGGCAAAATACACAAAAAA
17422839 AGGGG
1 AGGGG
17422844 GGTATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.52, C:0.13, G:0.26, T:0.09
Consensus pattern (21 bp):
AGGGGCAAAATACACAAAAAA
Found at i:17429151 original size:21 final size:20
Alignment explanation
Indices: 17429100--17429151 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
17429090 AAAATTTTTT
* *
17429100 TCGAATCGAATTGAGTCGAG
1 TCGAATCAAATTGAGTCAAG
*
17429120 T-GAAATGAAATTCGAGTCAAG
1 TCG-AATCAAATT-GAGTCAAG
17429141 TCGAATCAAAT
1 TCGAATCAAAT
17429152 AAAATTGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 1 0.04
20 8 0.32
21 15 0.60
22 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (20 bp):
TCGAATCAAATTGAGTCAAG
Found at i:17429417 original size:18 final size:18
Alignment explanation
Indices: 17429380--17429418 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17429370 ATTTAGAATT
*
17429380 TTTTTTAAAAAATTATAA
1 TTTTTTAAAAAATTAAAA
17429398 TTTTTT-AAAAATATAAAA
1 TTTTTTAAAAAAT-TAAAA
17429416 TTT
1 TTT
17429419 GAAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTTTAAAAAATTAAAA
Found at i:17429445 original size:18 final size:19
Alignment explanation
Indices: 17429424--17429460 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17429414 AATTTGAAAT
*
17429424 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
17429442 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
17429461 ATCTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:17435963 original size:21 final size:20
Alignment explanation
Indices: 17435924--17435962 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
17435914 ACCTCTGAAG
17435924 TAATTTTGTTTTTTGTTTTC
1 TAATTTTGTTTTTTGTTTTC
17435944 TAATGTTTGTTTTTT-TTTT
1 TAAT-TTTGTTTTTTGTTTT
17435963 TGAATTCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.10, C:0.03, G:0.10, T:0.77
Consensus pattern (20 bp):
TAATTTTGTTTTTTGTTTTC
Found at i:17438062 original size:22 final size:22
Alignment explanation
Indices: 17438036--17438079 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17438026 CCCTTAATTT
*
17438036 TTACTAGAAGTTTATCTACAAA
1 TTACTAGAAGTTTATCCACAAA
**
17438058 TTACTAGTGGTTTATCCACAAA
1 TTACTAGAAGTTTATCCACAAA
17438080 GTGATGTGTA
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:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (22 bp):
TTACTAGAAGTTTATCCACAAA
Found at i:17439163 original size:7 final size:7
Alignment explanation
Indices: 17439151--17439189 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
17439141 AACTATAGTC
17439151 AAACTTT
1 AAACTTT
17439158 AAACTTT
1 AAACTTT
*
17439165 AAACTAT
1 AAACTTT
17439172 AAACTTT
1 AAACTTT
* *
17439179 AGACTAT
1 AAACTTT
17439186 AAAC
1 AAAC
17439190 ATTCAGAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (7 bp):
AAACTTT
Found at i:17439174 original size:14 final size:14
Alignment explanation
Indices: 17439151--17439189 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
17439141 AACTATAGTC
*
17439151 AAACTTTAAACTTT
1 AAACTATAAACTTT
17439165 AAACTATAAACTTT
1 AAACTATAAACTTT
*
17439179 AGACTATAAAC
1 AAACTATAAAC
17439190 ATTCAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (14 bp):
AAACTATAAACTTT
Found at i:17442433 original size:7 final size:7
Alignment explanation
Indices: 17442421--17442445 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17442411 TTAGACAAAT
17442421 TGAAGAA
1 TGAAGAA
17442428 TGAAGAA
1 TGAAGAA
17442435 TGAAGAA
1 TGAAGAA
17442442 TGAA
1 TGAA
17442446 TTATCACGAC
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:0.56, C:0.00, G:0.28, T:0.16
Consensus pattern (7 bp):
TGAAGAA
Found at i:17445698 original size:45 final size:45
Alignment explanation
Indices: 17445642--17445727 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
17445632 CAACAAAAAT
* * *
17445642 GTCACATATGGAATCTACATATAGCTGTGGGTACACAACAAGACC
1 GTCACAGATGGAATCTACATATAGCTATGAGTACACAACAAGACC
* *
17445687 GTCACAGATGGAATCTACCTATGGCTATGAGTACACAACAA
1 GTCACAGATGGAATCTACATATAGCTATGAGTACACAACAA
17445728 AAGAAATGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (45 bp):
GTCACAGATGGAATCTACATATAGCTATGAGTACACAACAAGACC
Found at i:17451791 original size:3 final size:3
Alignment explanation
Indices: 17451785--17451809 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17451775 ATGAAGCAAG
17451785 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
17451810 AATGGTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:17456369 original size:3 final size:3
Alignment explanation
Indices: 17456361--17456400 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
17456351 AATTTCAGTG
17456361 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17456401 TTGTTTTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:17458003 original size:44 final size:45
Alignment explanation
Indices: 17457952--17458044 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 45
17457942 TACAATATCT
* *
17457952 ATTCCATTCAACCAGACACAA-GAA-TAC-TATTACAGCTCTATTCC
1 ATTCCATTCAACCA-A-ACAACGAATTACTTATTACAACTCTATTAC
17457996 ATTCCATTCAACCAAACAACTGAATTACTTATTACAACTCTATTAC
1 ATTCCATTCAACCAAACAAC-GAATTACTTATTACAACTCTATTAC
17458042 ATT
1 ATT
17458045 ACAACTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
42 4 0.09
43 1 0.02
44 17 0.40
45 3 0.07
46 18 0.42
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (45 bp):
ATTCCATTCAACCAAACAACGAATTACTTATTACAACTCTATTAC
Found at i:17458070 original size:16 final size:16
Alignment explanation
Indices: 17458026--17458076 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
17458016 TGAATTACTT
*
17458026 ATTACAA-CTCTATTAC
1 ATTACAACCT-TATTCC
*
17458042 ATTACAACTTTATTCC
1 ATTACAACCTTATTCC
17458058 ATTACAACCTTATTCC
1 ATTACAACCTTATTCC
17458074 ATT
1 ATT
17458077 CCCTCCAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTACAACCTTATTCC
Found at i:17458167 original size:13 final size:13
Alignment explanation
Indices: 17458113--17458178 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
17458103 CTTAAACCAA
*
17458113 ACTTTTTAAAAGT
1 ACTTTTCAAAAGT
* * **
17458126 ACTTCTGAAAAAC
1 ACTTTTCAAAAGT
*
17458139 ACTTTTCCACAA-T
1 ACTTTT-CAAAAGT
*
17458152 ACTTTTTAAAAGT
1 ACTTTTCAAAAGT
17458165 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
17458178 A
1 A
17458179 ATACTAAACT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
12 3 0.08
13 34 0.85
14 3 0.08
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:17460611 original size:96 final size:97
Alignment explanation
Indices: 17460495--17460687 Score: 291
Period size: 97 Copynumber: 2.0 Consensus size: 97
17460485 GTAACATGAA
17460495 CCAAATCATAGAATGAAAACTTTAATCTTTCTTTCAGAAGAAA-AGTTA-ATTTTTTCTTTAATC
1 CCAAATCATAGAATGAAAACTTTAATCTTTCTTTCAGAAGAAAGA-TTATATTTTTTCTTTAATC
* * *
17460558 GGAAACTATACGTTATTTCCAGAAAATAAATTT
65 GAAAACTAAACATTATTTCCAGAAAATAAATTT
* * * *
17460591 CCAAATCATAGAATGGAAACTTTAATTTTTCTTTCAGTAGAAAGATTATTTTTTTTCTTTAATCG
1 CCAAATCATAGAATGAAAACTTTAATCTTTCTTTCAGAAGAAAGATTATATTTTTTCTTTAATCG
*
17460656 AAAACTAAACATTATTTCTAGAAAATAAATTT
66 AAAACTAAACATTATTTCCAGAAAATAAATTT
17460688 TCACTATTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
96 43 0.49
97 44 0.51
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (97 bp):
CCAAATCATAGAATGAAAACTTTAATCTTTCTTTCAGAAGAAAGATTATATTTTTTCTTTAATCG
AAAACTAAACATTATTTCCAGAAAATAAATTT
Found at i:17465694 original size:527 final size:525
Alignment explanation
Indices: 17464694--17465742 Score: 1656
Period size: 527 Copynumber: 2.0 Consensus size: 525
17464684 ACATAAAAGT
* **
17464694 ATATGAGTCACGAATACATAGTCCATCATCCACTCAGGATTAATGTATGTCACACTATGATTGTC
1 ATATGAGTCACGAATACATAGTCCATCATCCACTCAGGATTAAGGTATGTCACACTATGATCATC
17464759 ACAAGTGAATAAATCCATAATCAGATTTAGGATCTATTTTACTTGGGTCATGTTCGACGTACTAT
66 ACAAGTGAATAAATCCATAATCAGATTTAGGATCTATTTTACTTGGGTCATGTTCGACGTACTAT
*
17464824 AAATCCTGCCAGTCACATGTATGTCTCTATCTTCTAAGAGTCATTCGCTCCGATACCCATGACAA
131 AAATCCAGCCAGTCACATGTATGTCTCTATCTTCTAAGAGTCATTCGCTCCGATACCCATGACAA
* *
17464889 GGTATCTCCCCAATTTGGACTTGATAGACAATTTTAGTCTTTTAATTGATTTTCTCAATTTTGAT
196 GGTATCTCCCCAATTTAGACTTGATAGACAATATTAGTCTTTTAATTGATTTTCTCAATTTTGAT
* * * * * *
17464954 TTGACTAAGGATGTGTTTTGATTAACTACTAATATAAGCTGCCTTTTTATATTATGATTCGACCA
261 TAGACTAAGGACGTGTTTAGATTAACTACTAATATAAGCTGCCTTTCTATATTACGATCCGACCA
* * *
17465019 TACAATACCACTTAATATTAGTTAAATGTTAGATACACAGTGAGCCAATATTTGCTTTCATTTTA
326 CACAATACCACTTAATATTAGTTAAACGTTAGATACACAGTGAGCCAATATTTGCTTTCACTTTA
* ** *
17465084 ATTTTAGTGCAAAAACCTTTGAGGAAAATATACGGAGATATTAATGAAACTAATGGATATTTTAT
391 ATTTGAGTGCAAAAACCTTTGAGGAAAATATACAAAGATATTAATGAAACTAATGGATATTTTAA
*
17465149 TAAACCAATTTATTCGAAAAAAAAATACAAGTACATATAGAC-ATAAATACTACACTAAGGGCGT
456 TAAACCAATTTATTCG--AAAAAAATACAAGTACATATAGACGAT-AATACTACACTAAGGGCAT
17465213 TAGATTAC
518 TAGATTAC
*
17465221 ATATGAGTCACGAATACATAGTCCATCATCCACTCAGGATTAAGGTATGTCACATTATGATCATC
1 ATATGAGTCACGAATACATAGTCCATCATCCACTCAGGATTAAGGTATGTCACACTATGATCATC
* * *
17465286 ACAAGTGAATAAATCCATAATCAGATTTAGGATCTATTTTACTTTGGTTATGTTCGATGTACTAT
66 ACAAGTGAATAAATCCATAATCAGATTTAGGATCTATTTTACTTGGGTCATGTTCGACGTACTAT
* * * * *
17465351 AAGTCCAGTCAGTCACATGTATGTCTCTATCTTTTAGGAGTCATTCGCTTCGATACCCATGACAA
131 AAATCCAGCCAGTCACATGTATGTCTCTATCTTCTAAGAGTCATTCGCTCCGATACCCATGACAA
*
17465416 GGTATCTCCCCAA-TTAGACTTGATAGACATCATATTAGTCTTTTACTTGATTTGT-TCAATTTT
196 GGTATCTCCCCAATTTAGACTTGATAGACA--ATATTAGTCTTTTAATTGATTT-TCTCAATTTT
* * *
17465479 GATTAGACTAAGGACGTGTTTAGATTAACTACTAATATAAGTTGTCTTTCTATCTTACGATCCGA
258 GATTAGACTAAGGACGTGTTTAGATTAACTACTAATATAAGCTGCCTTTCTATATTACGATCCGA
* *
17465544 CCACATAATACCACTTAATATTAGTTAAACGTTAGATACACAGTGAGCCAGTATTTGCTTTCACT
323 CCACACAATACCACTTAATATTAGTTAAACGTTAGATACACAGTGAGCCAATATTTGCTTTCACT
* * *
17465609 TTACTTTGCGTGCAAAAACCTTTGAGGACAATATACAAAGAT-TTAATGAAACTAATGGATATTT
388 TTAATTTGAGTGCAAAAACCTTTGAGGAAAATATACAAAGATATTAATGAAACTAATGGATATTT
* *
17465673 TAATAAACCAATTTTTTCGAAAAAAATACAATTACATATAGACGATAATACTACACTAAGGGCAT
453 TAATAAACCAATTTATTCGAAAAAAATACAAGTACATATAGACGATAATACTACACTAAGGGCAT
17465738 TAGAT
518 TAGAT
17465743 CCAAACACAT
Statistics
Matches: 478, Mismatches: 40, Indels: 10
0.91 0.08 0.02
Matches are distributed among these distances:
525 46 0.10
526 17 0.04
527 234 0.49
528 180 0.38
529 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (525 bp):
ATATGAGTCACGAATACATAGTCCATCATCCACTCAGGATTAAGGTATGTCACACTATGATCATC
ACAAGTGAATAAATCCATAATCAGATTTAGGATCTATTTTACTTGGGTCATGTTCGACGTACTAT
AAATCCAGCCAGTCACATGTATGTCTCTATCTTCTAAGAGTCATTCGCTCCGATACCCATGACAA
GGTATCTCCCCAATTTAGACTTGATAGACAATATTAGTCTTTTAATTGATTTTCTCAATTTTGAT
TAGACTAAGGACGTGTTTAGATTAACTACTAATATAAGCTGCCTTTCTATATTACGATCCGACCA
CACAATACCACTTAATATTAGTTAAACGTTAGATACACAGTGAGCCAATATTTGCTTTCACTTTA
ATTTGAGTGCAAAAACCTTTGAGGAAAATATACAAAGATATTAATGAAACTAATGGATATTTTAA
TAAACCAATTTATTCGAAAAAAATACAAGTACATATAGACGATAATACTACACTAAGGGCATTAG
ATTAC
Found at i:17471178 original size:20 final size:20
Alignment explanation
Indices: 17471141--17471179 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17471131 TACTTTCTTC
*
17471141 TTTACTTACTCTCTTACTTG
1 TTTACTTACTCTCATACTTG
17471161 TTTACTTACT-TGCATACTT
1 TTTACTTACTCT-CATACTT
17471180 AAATAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTACTTACTCTCATACTTG
Found at i:17471508 original size:50 final size:50
Alignment explanation
Indices: 17471444--17471561 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 50
17471434 AAATGTCGTA
* * * ** * *
17471444 TCCCAGATAAGGTCTTACATGAAAGTTATCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACAGGAAACCTATCATATCGGTGCCAACGCCATG
** * *
17471494 TCCCAGACATGGTCTTACAGGGGACCTCTCATTTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACAGGAAACCTATCATATCGGTGCCAACGCCATG
*
17471544 TCCCAAACATGGTCTTAC
1 TCCCAGACATGGTCTTAC
17471562 GTGGGACCTC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACAGGAAACCTATCATATCGGTGCCAACGCCATG
Found at i:17471568 original size:50 final size:50
Alignment explanation
Indices: 17471472--17471573 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 50
17471462 ATGAAAGTTA
* * *
17471472 TCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC
1 TCATATCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGGGACCTC
*
17471522 TCATTTCGGTGCCAACGCCATGTCCCAAACATGGTCTTAC-GTGGGACCTC
1 TCATATCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAG-GGGACCTC
17471572 TC
1 TC
17471574 GTAACCTCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
49 1 0.02
50 46 0.98
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (50 bp):
TCATATCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGGGACCTC
Found at i:17474684 original size:113 final size:113
Alignment explanation
Indices: 17474485--17474695 Score: 262
Period size: 113 Copynumber: 1.9 Consensus size: 113
17474475 CACTGCCCAT
* *
17474485 GTGACTTTAATTCCAAAATAGTGAGTTAGATGGCCTGAACACACAACCATGTCCCTGGCCTATGT
1 GTGACTCTAATTCCAAAATAGTGAGCTAGATGGCCTGAACACACAACCATGTCCCTGGCCTATGT
*** * * *
17474550 GTTTCTAATTCCAAAATAGTGAGTTACACGGCCGGGACACATGCCTGC
66 GACCCTAATTACAAAACAGTGAGTGACACGGCCGGGACACATGCCTGC
** * * * ** *
17474598 GTGACTCTAATTCTGAAATAGTGAGCTATATGGTCTGGACACACGCCCATGTCCCTGGCCTGTGT
1 GTGACTCTAATTCCAAAATAGTGAGCTAGATGGCCTGAACACACAACCATGTCCCTGGCCTATGT
17474663 GACCCTAATTTAC-AAACAGTGAGTGACACGGCC
66 GACCCTAA-TTACAAAACAGTGAGTGACACGGCC
17474696 TGTCACATGA
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
113 78 0.96
114 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (113 bp):
GTGACTCTAATTCCAAAATAGTGAGCTAGATGGCCTGAACACACAACCATGTCCCTGGCCTATGT
GACCCTAATTACAAAACAGTGAGTGACACGGCCGGGACACATGCCTGC
Found at i:17475339 original size:16 final size:17
Alignment explanation
Indices: 17475320--17475353 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17475310 AAAAGGGGAG
*
17475320 AAAAA-GGAAAGAAATA
1 AAAAATGGAAACAAATA
17475336 AAAAATGGAAACAAATA
1 AAAAATGGAAACAAATA
17475353 A
1 A
17475354 GTTAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.74, C:0.03, G:0.15, T:0.09
Consensus pattern (17 bp):
AAAAATGGAAACAAATA
Found at i:17476842 original size:48 final size:48
Alignment explanation
Indices: 17476771--17476868 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
17476761 ATTGTTAAGT
17476771 TAACCACAATTTAACTGATGACAACGTCCCTATATTTCCAATGAGTAG
1 TAACCACAATTTAACTGATGACAACGTCCCTATATTTCCAATGAGTAG
17476819 TAACCACAATTTAACTGATGACAACGTCCCTATATTTCCAATGAGTAG
1 TAACCACAATTTAACTGATGACAACGTCCCTATATTTCCAATGAGTAG
17476867 TA
1 TA
17476869 TGTCATCGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (48 bp):
TAACCACAATTTAACTGATGACAACGTCCCTATATTTCCAATGAGTAG
Found at i:17477391 original size:232 final size:232
Alignment explanation
Indices: 17476985--17477450 Score: 905
Period size: 232 Copynumber: 2.0 Consensus size: 232
17476975 ATGAAATCTT
17476985 TGATCTCATGAGCGAGATGCTTACTTAAGTCTATATATGGATCTAAGCAGTTTGAAAACTTTATG
1 TGATCTCATGAGCGAGATGCTTACTTAAGTCTATATATGGATCTAAGCAGTTTGAAAACTTTATG
*
17477050 CTTGTTTCCTTTTGCTATATATCTGGTGGGTTGCATCATATAGACGCTCTCTTCAAGGTATTTGT
66 CTTGTTTCCTTTTACTATATATCTGGTGGGTTGCATCATATAGACGCTCTCTTCAAGGTATTTGT
*
17477115 TCAAGAATGTTGTCTTGACATCCATTTTCCAAATCTCGTAATCAAGAGTCGTCGCAATGGATAAC
131 TCAAGAATGTTGTCTTGACATCCATTTTCCAAATCTCGTAATCAAGAGTCATCGCAATGGATAAC
17477180 AGTATACGAATTGAATTGAACATGACAACCGAAGAGA
196 AGTATACGAATTGAATTGAACATGACAACCGAAGAGA
17477217 TGATCTCATGAGCGAGATGCTTACTTAAGTCTATATATGGATCTAAGCAGTTTGAAAACTTTATG
1 TGATCTCATGAGCGAGATGCTTACTTAAGTCTATATATGGATCTAAGCAGTTTGAAAACTTTATG
17477282 CTTGTTTCCTTTTACTATATATCTGGTGGGTTGCATCATATAGACGCTCTCTTCAAGGTATTTGT
66 CTTGTTTCCTTTTACTATATATCTGGTGGGTTGCATCATATAGACGCTCTCTTCAAGGTATTTGT
17477347 TCAAGAATGTTGTCTTGACATCCATTTTCCAAATCTCGTAATCAAGAGTCATCGCAATGGATAAC
131 TCAAGAATGTTGTCTTGACATCCATTTTCCAAATCTCGTAATCAAGAGTCATCGCAATGGATAAC
*
17477412 AGTATACGAATTGAATTGAGCATGACAACCGAAGAGA
196 AGTATACGAATTGAATTGAACATGACAACCGAAGAGA
17477449 TG
1 TG
17477451 GTTTCTTCGT
Statistics
Matches: 231, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
232 231 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (232 bp):
TGATCTCATGAGCGAGATGCTTACTTAAGTCTATATATGGATCTAAGCAGTTTGAAAACTTTATG
CTTGTTTCCTTTTACTATATATCTGGTGGGTTGCATCATATAGACGCTCTCTTCAAGGTATTTGT
TCAAGAATGTTGTCTTGACATCCATTTTCCAAATCTCGTAATCAAGAGTCATCGCAATGGATAAC
AGTATACGAATTGAATTGAACATGACAACCGAAGAGA
Found at i:17498624 original size:43 final size:42
Alignment explanation
Indices: 17498540--17498846 Score: 261
Period size: 43 Copynumber: 7.3 Consensus size: 42
17498530 AAAGGCGTCA
* * *
17498540 CTAAGTGTTGATTCCCCGAAT-TATTGATTCTAAAGGTGGTTG
1 CTAAGTGCTGATTCCCCGTATAT-TTGATTGTAAAGGTGGTTG
17498582 CTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGG-GGTTG
1 CTAAGTGCTGATTCC-CCGTATATTTGATTGT-AAAGGTGGTTG
* * *** * *
17498625 CTATGTGCTGATTCCCCATATCGCTGAATATAAAGGTGGTTG
1 CTAAGTGCTGATTCCCCGTATATTTGATTGTAAAGGTGGTTG
* * *
17498667 CTAAGTGCTGATTCCACCATATATTTTATTGTGAAATG-GGTTG
1 CTAAGTGCTGATTCC-CCGTATATTTGATTGT-AAAGGTGGTTG
* * * *
17498710 CTATGTGCTGATTCCCCGTATCA-CTGAATATAAAGGTGGTTG
1 CTAAGTGCTGATTCCCCGTAT-ATTTGATTGTAAAGGTGGTTG
*
17498752 CTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG-GGTTG
1 CTAAGTGCTGATTCC-CCGTATATTTGATTGT-AAAGGTGGTTG
* * * * *
17498795 CTATGTGCTGATTTCTCATATCA-CTGAATT-T-AAGGTGGTTG
1 CTAAGTGCTGATTCCCCGTAT-ATTTG-ATTGTAAAGGTGGTTG
17498836 CTAAGTGCTGA
1 CTAAGTGCTGA
17498847 ATCCACCGAG
Statistics
Matches: 214, Mismatches: 37, Indels: 29
0.76 0.13 0.10
Matches are distributed among these distances:
40 4 0.02
41 24 0.11
42 78 0.36
43 93 0.43
44 15 0.07
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.36
Consensus pattern (42 bp):
CTAAGTGCTGATTCCCCGTATATTTGATTGTAAAGGTGGTTG
Found at i:17498673 original size:85 final size:85
Alignment explanation
Indices: 17498570--17498854 Score: 473
Period size: 85 Copynumber: 3.4 Consensus size: 85
17498560 TTATTGATTC
17498570 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
*
17498635 ATTCCCCATATCGCTGAATA
66 ATTCCCCATATCACTGAATA
* * *
17498655 TAAAGGTGGTTGCTAAGTGCTGATTCCACCATATATTTTATTGTGAAATGGGTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
*
17498720 ATTCCCCGTATCACTGAATA
66 ATTCCCCATATCACTGAATA
*
17498740 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
* *
17498805 ATTTCTCATATCACTGAAT-
66 ATTCCCCATATCACTGAATA
* *
17498824 TTAAGGTGGTTGCTAAGTGCTGAATCCACCG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCG
17498855 AGTAACGGAT
Statistics
Matches: 186, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
84 29 0.16
85 157 0.84
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (85 bp):
TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
ATTCCCCATATCACTGAATA
Found at i:17504385 original size:26 final size:24
Alignment explanation
Indices: 17504349--17504398 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
17504339 CTTTCATAAT
*
17504349 TTCACTTTTTCACTATCTCAATTCCA
1 TTCAATTTTTCAC-ATCTC-ATTCCA
17504375 TTCAATTTTTCACATCTCATTCCA
1 TTCAATTTTTCACATCTCATTCCA
17504399 ATAGTTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 5 0.22
26 12 0.52
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (24 bp):
TTCAATTTTTCACATCTCATTCCA
Found at i:17504731 original size:51 final size:51
Alignment explanation
Indices: 17504623--17504907 Score: 240
Period size: 51 Copynumber: 5.6 Consensus size: 51
17504613 ACCCGGTTCA
** * *** * * *
17504623 CATAGTAGCCTGCACATAGTACTACACTTGTGA-CCATTTTAATCCGATACA
1 CATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCT-ATTCGGTACG
* * *
17504674 CGTAGTAGCATGTACATAGTACTACACACGTGATCGAAGCTATTCGGTACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCGGTACG
* * ** * *
17504725 CATAGTAGCCTGCACATAGTACTACACATGCGA-CCTATC-ATTCCGGTACA
1 CATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATT-CGGTACG
* *
17504775 CGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCGGTATG
1 CATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCGGTACG
* * * ** * *
17504826 CATAGTAGCCTGCACATAATACTACACATGCGA-CCTATC-ATTCTGGTACA
1 CATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTC-GGTACG
* *
17504876 CGTAGTA-CCTTCACATAGTACTACACACGTGA
1 CATAGTAGCCTGCACATAGTACTACACACGTGA
17504908 CCTAGCAACT
Statistics
Matches: 186, Mismatches: 43, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
49 28 0.15
50 52 0.28
51 100 0.54
52 6 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
CATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCGGTACG
Found at i:17504801 original size:101 final size:101
Alignment explanation
Indices: 17504623--17504907 Score: 446
Period size: 101 Copynumber: 2.8 Consensus size: 101
17504613 ACCCGGTTCA
* * * * * * * *
17504623 CATAGTAGCCTGCACATAGTACTACACTTGTGACCATTTTAATCCGATACACGTAGTAGCATGTA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
17504688 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
17504725 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTAGCCTGCAC
*
17504790 ATAGTACTACACACGTGATCGAAGCTATTCGGTATG
66 ATAGTACTACACACGTGATCGAAGCTATTCGGTACG
* * *
17504826 CATAGTAGCCTGCACATAATACTACACATGCGACCTATCATTCTGGTACACGTAGTA-CCTTCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTAGCCTGCAC
17504890 ATAGTACTACACACGTGA
66 ATAGTACTACACACGTGA
17504908 CCTAGCAACT
Statistics
Matches: 171, Mismatches: 12, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
100 24 0.14
101 114 0.67
102 33 0.19
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATTCGGTACG
Found at i:17507552 original size:25 final size:27
Alignment explanation
Indices: 17507488--17507558 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 27
17507478 TTTTCCATAG
*
17507488 TTTTAAGATTAGGTTTTCTTTTCTTTTCA
1 TTTTTAGATTAGGTTTTC--TTCTTTTCA
*
17507517 TTTTTATATTAGGTTTTC-TCTTTTC-
1 TTTTTAGATTAGGTTTTCTTCTTTTCA
*
17507542 TTTTTAGATTAGATTTT
1 TTTTTAGATTAGGTTTT
17507559 TTTTGTTTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 15 0.39
26 7 0.18
29 16 0.42
ACGTcount: A:0.17, C:0.08, G:0.10, T:0.65
Consensus pattern (27 bp):
TTTTTAGATTAGGTTTTCTTCTTTTCA
Found at i:17507749 original size:13 final size:13
Alignment explanation
Indices: 17507731--17507755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17507721 TAATTTATAT
17507731 GTGTGAAAATTTC
1 GTGTGAAAATTTC
17507744 GTGTGAAAATTT
1 GTGTGAAAATTT
17507756 TATAGGTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:17514655 original size:40 final size:40
Alignment explanation
Indices: 17514594--17514840 Score: 318
Period size: 40 Copynumber: 6.2 Consensus size: 40
17514584 CGGAATTTAG
* * * *
17514594 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
17514634 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
17514674 CCGGAT-ATATCAACTCGTACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
17514714 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
17514754 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
17514794 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
17514834 CCGGATA
1 CCGGATA
17514841 TCATTCAAAT
Statistics
Matches: 186, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 180 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:17523103 original size:40 final size:40
Alignment explanation
Indices: 17523038--17523288 Score: 337
Period size: 40 Copynumber: 6.3 Consensus size: 40
17523028 TCTTCGGAAT
* * * *
17523038 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
17523077 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
17523117 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
17523157 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
*
17523197 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
17523237 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
17523277 TTAGCCCGGATA
1 TTAGCCCGGATA
17523289 TCATTCAAAT
Statistics
Matches: 192, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 5 0.03
40 183 0.95
41 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:17528911 original size:44 final size:43
Alignment explanation
Indices: 17528852--17529002 Score: 150
Period size: 43 Copynumber: 3.5 Consensus size: 43
17528842 TGCGATATCA
17528852 TGTAAGACCACGTCTGGGACGTTGGCATCGATTTTAGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCG-TTTTAGATTTACG
* * * *
17528896 TGTAACACCATGTCTGGGACATTGGCATCG-TATATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTTTTA-GATTTACG
* *
17528939 TGTAAGACC-CTGTTTGGGACAG-TGGCATCGTTATTTA-A-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-T-TTTAGATTTACG
*
17528982 TGTAAGACCACGTCTAGGACG
1 TGTAAGACCACGTCTGGGACG
17529003 CTAGCATTGT
Statistics
Matches: 88, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
42 4 0.05
43 52 0.59
44 29 0.33
46 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGTTTTAGATTTACG
Found at i:17532172 original size:29 final size:27
Alignment explanation
Indices: 17532154--17532223 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
17532144 ATATTAAGTC
17532154 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
17532181 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
17532209 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
17532224 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:17532217 original size:28 final size:28
Alignment explanation
Indices: 17532154--17532251 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
17532144 ATATTAAGTC
*
17532154 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
17532181 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
17532209 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
17532238 CGCACACTTAGTGC
1 CGCACACTTAGTGC
17532252 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:17539376 original size:18 final size:19
Alignment explanation
Indices: 17539353--17539390 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
17539343 GGAAGCAAGC
*
17539353 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
17539371 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
17539390 A
1 A
17539391 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:17548302 original size:42 final size:42
Alignment explanation
Indices: 17548255--17548337 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
17548245 AATATGTGTG
17548255 AAACGTTTGAAATTCAAAAATTTGAACTCTTGTTCTTATCCA
1 AAACGTTTGAAATTCAAAAATTTGAACTCTTGTTCTTATCCA
*
17548297 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 AAACGTTTGAAATTCAAAAATTTGAACTCTTGTTCTTATCC
17548338 CTTTGAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.39
Consensus pattern (42 bp):
AAACGTTTGAAATTCAAAAATTTGAACTCTTGTTCTTATCCA
Found at i:17554793 original size:42 final size:42
Alignment explanation
Indices: 17554746--17554828 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
17554736 AATATGAGTG
17554746 AAACGTTTGAAATTCAAAAATTTAAACTCTTGTTCTTATCCA
1 AAACGTTTGAAATTCAAAAATTTAAACTCTTGTTCTTATCCA
* *
17554788 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 AAACGTTTGAAATTCAAAAATTTAAACTCTTGTTCTTATCC
17554829 CTTTGAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (42 bp):
AAACGTTTGAAATTCAAAAATTTAAACTCTTGTTCTTATCCA
Found at i:17567520 original size:28 final size:28
Alignment explanation
Indices: 17567440--17567525 Score: 100
Period size: 28 Copynumber: 3.1 Consensus size: 28
17567430 TGAACTTACC
* *
17567440 TTGTGTTTACTATCCCAGTGGACTATAT
1 TTGTGTTTACTATCCCAGTAGACTATCT
* * * *
17567468 TTGTGTTTATTGTCCTAGTAAACTATCT
1 TTGTGTTTACTATCCCAGTAGACTATCT
**
17567496 TTGTGTTTACTATCCCAACAGACTATCT
1 TTGTGTTTACTATCCCAGTAGACTATCT
17567524 TT
1 TT
17567526 ATGGATGTCA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (28 bp):
TTGTGTTTACTATCCCAGTAGACTATCT
Found at i:17567710 original size:58 final size:58
Alignment explanation
Indices: 17567648--17567958 Score: 159
Period size: 58 Copynumber: 5.6 Consensus size: 58
17567638 TGCCATAGCA
*
17567648 TCTTTCATCTATGGTCTTACACTATATACCTTATATCTTGTACCATACTATCATGGCG
1 TCTTTCATCTATGGTCTTACACTACATACCTTATATCTTGTACCATACTATCATGGCG
* * ** * *
17567706 TCTTTCA-CACATGGTCTTACACTACATACCTCATA-CCAG-A-C-TGCCT-T-A--GTG
1 TCTTTCATC-TATGGTCTTACACTACATACCTTATATCTTGTACCAT-ACTATCATGGCG
* * * * * * * ** * *
17567757 TCTTTCATCTATTGTCTTACGCCATATACCTTATACCTTGTTCGATGTTGTCATGGCA
1 TCTTTCATCTATGGTCTTACACTACATACCTTATATCTTGTACCATACTATCATGGCG
* * * * * * *
17567815 TCTTTCATCAATGGTCTTACGCTACGTACC-----TC--ATACCAGACTACCATAGCG
1 TCTTTCATCTATGGTCTTACACTACATACCTTATATCTTGTACCATACTATCATGGCG
* * * * * ** **
17567866 TCTTTCATCTATGGTCTTCCGCCATATGCCTTATATCTTGTACCATGTTGCCATGGCG
1 TCTTTCATCTATGGTCTTACACTACATACCTTATATCTTGTACCATACTATCATGGCG
* * *
17567924 TCTTTCATCCATAGTCTTACACTACATACATTATA
1 TCTTTCATCTATGGTCTTACACTACATACCTTATA
17567959 CCAAACTGCC
Statistics
Matches: 178, Mismatches: 57, Indels: 36
0.66 0.21 0.13
Matches are distributed among these distances:
51 62 0.35
52 3 0.02
53 2 0.01
54 3 0.02
55 5 0.03
56 4 0.02
57 3 0.02
58 96 0.54
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (58 bp):
TCTTTCATCTATGGTCTTACACTACATACCTTATATCTTGTACCATACTATCATGGCG
Found at i:17567787 original size:109 final size:110
Alignment explanation
Indices: 17567638--17568004 Score: 479
Period size: 109 Copynumber: 3.4 Consensus size: 110
17567628 TATACTTGGT
* * * ** *
17567638 TGCCATAGCATCTTTCATCTATGGTCTTACACTATATACCTTATATCTTGTACCATACTATCATG
1 TGCCATAGCGTCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACCATGTTGTCATG
17567703 GCGTCTTTCA-CACATGGTCTTACACTACATACCTCATACCAGAC
66 GCGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
* * * * * *
17567747 TGCCTTAGTGTCTTTCATCTATTGTCTTACGCCATATACCTTATACCTTGTTCGATGTTGTCATG
1 TGCCATAGCGTCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACCATGTTGTCATG
* * *
17567812 GCATCTTTCATCA-ATGGTCTTACGCTACGTACCTCATACCAGAC
66 GCGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
* * * *
17567856 TACCATAGCGTCTTTCATCTATGGTCTTCCGCCATATGCCTTATATCTTGTACCATGTTGCCATG
1 TGCCATAGCGTCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACCATGTTGTCATG
* * * *
17567921 GCGTCTTTCATC-CATAGTCTTACACTACATACATTATACCAAAC
66 GCGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
* * *
17567965 TGCCATAGCATCTTTTATCTATGGTTTTACGCCATATACC
1 TGCCATAGCGTCTTTCATCTATGGTCTTACGCCATATACC
17568005 ATCATCACGG
Statistics
Matches: 218, Mismatches: 38, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
109 216 0.99
110 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (110 bp):
TGCCATAGCGTCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACCATGTTGTCATG
GCGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
Found at i:17568470 original size:26 final size:27
Alignment explanation
Indices: 17568436--17568494 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
17568426 CGAAAATTTA
* **
17568436 GGGTTTTTCAGTTGAATTGTGAACTAG
1 GGGTTTTCCAGTTGAATTACGAACTAG
17568463 GGGTTTTCCAGTTGAATTACGAACTAG
1 GGGTTTTCCAGTTGAATTACGAACTAG
17568490 GGGTT
1 GGGTT
17568495 CGCCAGTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.37
Consensus pattern (27 bp):
GGGTTTTCCAGTTGAATTACGAACTAG
Found at i:17568500 original size:27 final size:27
Alignment explanation
Indices: 17568444--17568501 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
17568434 TAGGGTTTTT
** **
17568444 CAGTTGAATTGTGAACTAGGGGTTTTC
1 CAGTTGAATTACGAACTAGGGGTTCGC
17568471 CAGTTGAATTACGAACTAGGGGTTCGC
1 CAGTTGAATTACGAACTAGGGGTTCGC
17568498 CAGT
1 CAGT
17568502 CAAAGATTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (27 bp):
CAGTTGAATTACGAACTAGGGGTTCGC
Found at i:17581634 original size:57 final size:57
Alignment explanation
Indices: 17581562--17581701 Score: 181
Period size: 57 Copynumber: 2.5 Consensus size: 57
17581552 TTTGGAAAGG
* * * * *
17581562 CAAGCATTGGTGGTGAACCTGTTAAAGGATAACATTTGTGGCAAAACTCTCGAAACA
1 CAAGCCTTCGTGGTGAACCTATTAAAAGATAACATTTGTGGCAAAACTCTAGAAACA
* * **
17581619 CAAGCCTTTGTGGTGAACCTATTAAAAGATAGCATTTGTGGCAAAACTCTAGAAAGG
1 CAAGCCTTCGTGGTGAACCTATTAAAAGATAACATTTGTGGCAAAACTCTAGAAACA
* *
17581676 TAAGCCTTCGTGGTGAACCTCTTAAA
1 CAAGCCTTCGTGGTGAACCTATTAAA
17581702 TAACACACTT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 72 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (57 bp):
CAAGCCTTCGTGGTGAACCTATTAAAAGATAACATTTGTGGCAAAACTCTAGAAACA
Found at i:17581674 original size:28 final size:28
Alignment explanation
Indices: 17581589--17581674 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 28
17581579 CCTGTTAAAG
* *
17581589 GATAACATTTGTGGCAAAACTCTCGAAA
1 GATAGCATTTGTGGCAAAACTCTAGAAA
* * * ** * *
17581617 CACAAGCCTTTGTGGTGAACCTATTA-AAA
1 GA-TAGCATTTGTGGCAAAACT-CTAGAAA
17581646 GATAGCATTTGTGGCAAAACTCTAGAAA
1 GATAGCATTTGTGGCAAAACTCTAGAAA
17581674 G
1 G
17581675 GTAAGCCTTC
Statistics
Matches: 39, Mismatches: 16, Indels: 6
0.64 0.26 0.10
Matches are distributed among these distances:
27 2 0.05
28 19 0.49
29 17 0.44
30 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (28 bp):
GATAGCATTTGTGGCAAAACTCTAGAAA
Found at i:17581744 original size:28 final size:28
Alignment explanation
Indices: 17581710--17581766 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
17581700 AATAACACAC
17581710 TTGTGGCAATCTCTAAATAAGGAA-GCCT
1 TTGTGGCAATCTCTAAA-AAGGAATGCCT
*
17581738 TTGTGGCTATCTCTAAAAAGGAATGCCT
1 TTGTGGCAATCTCTAAAAAGGAATGCCT
17581766 T
1 T
17581767 CGTGACGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (28 bp):
TTGTGGCAATCTCTAAAAAGGAATGCCT
Found at i:17584925 original size:37 final size:37
Alignment explanation
Indices: 17584875--17584953 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
17584865 TTATTACGAA
* * *
17584875 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
17584912 GTCTTACCTGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17584949 GTCTT
1 GTCTT
17584954 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17585209 original size:47 final size:47
Alignment explanation
Indices: 17585072--17585209 Score: 195
Period size: 47 Copynumber: 2.9 Consensus size: 47
17585062 CCCTTCGGGA
* * * * * *
17585072 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17585119 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17585166 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
17585210 CGCCATACTA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 80 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17593580 original size:48 final size:48
Alignment explanation
Indices: 17593491--17593584 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
17593481 TTTCTTGGCT
* * *
17593491 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
17593539 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
17593585 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:17596094 original size:48 final size:48
Alignment explanation
Indices: 17596005--17596098 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
17595995 TTTCTTGGCT
* * *
17596005 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
17596053 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
17596099 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:17597928 original size:118 final size:119
Alignment explanation
Indices: 17597721--17597962 Score: 321
Period size: 118 Copynumber: 2.0 Consensus size: 119
17597711 GTTGTCAACA
* * *
17597721 ATGGCCTTTACAAAACTAAATACACTTCGTTTAGCCTAGCATGAGGGTTCCTACGTTTCTATATT
1 ATGGCCTTTACAAAACTAAATACACTTCATTTAACCTAGCATGAGGGTTCCTACGTTTCTACATT
* *
17597786 TTAGCAGATTACTCTCA-CCCC-CTCTC-GAAAATTTATCTACATGGTATCTTTG
66 TTAGCAGATTACTCTCACCCCCTCTCTCTG-AAATTTAGCAACATGGTATCTTTG
* * * * *
17597838 ATGGCCTTTTCAAAATTAAGTACACTTTCATTTAACCTAGTATGAGGGTTCCTACGTTTCTGCAT
1 ATGGCCTTTACAAAACTAAATACAC-TTCATTTAACCTAGCATGAGGGTTCCTACGTTTCTACAT
* *
17597903 TTTAGCTGCTTACTCT-ACCACCCTCTCTCTGAAATTTAGCAACATGGTATCTTTG
65 TTTAGCAGATTACTCTCACC-CCCTCTCTCTGAAATTTAGCAACATGGTATCTTTG
17597958 ATGGC
1 ATGGC
17597963 AGGGTAAATG
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
117 23 0.21
118 49 0.45
119 3 0.03
120 32 0.30
121 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (119 bp):
ATGGCCTTTACAAAACTAAATACACTTCATTTAACCTAGCATGAGGGTTCCTACGTTTCTACATT
TTAGCAGATTACTCTCACCCCCTCTCTCTGAAATTTAGCAACATGGTATCTTTG
Found at i:17603142 original size:45 final size:45
Alignment explanation
Indices: 17603062--17603148 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
17603052 CTATACGCCT
* * *
17603062 AAAATGAGTAAGACCATAGTTGAACGATGTTATGGCATCATGACG
1 AAAATGAGTAAGACCATAGCTGAACGACGTCATGGCATCATGACG
* *
17603107 AAAATGAGTAAGACCATGGCTGAAGGACGTCATGGCATCATG
1 AAAATGAGTAAGACCATAGCTGAACGACGTCATGGCATCATG
17603149 GTAAATAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTGAACGACGTCATGGCATCATGACG
Found at i:17608382 original size:28 final size:29
Alignment explanation
Indices: 17608320--17608382 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
17608310 CAATATCCAT
* *
17608320 CACTGGTACATAGTACCTACTAAATAAAA
1 CACTAGTACAGAGTACCTACTAAATAAAA
* *
17608349 CACTAGTACAGAGTGCCTACT-AATATAA
1 CACTAGTACAGAGTACCTACTAAATAAAA
17608377 CACTAG
1 CACTAG
17608383 CACGAAGCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (29 bp):
CACTAGTACAGAGTACCTACTAAATAAAA
Found at i:17613784 original size:27 final size:27
Alignment explanation
Indices: 17613754--17613808 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
17613744 TCCACAAGAA
* *
17613754 AGCCAGATGTATGCACATCAGAATCAG
1 AGCCAGATGCATCCACATCAGAATCAG
17613781 AGCCAGATGCATCCACATCAGAATCAG
1 AGCCAGATGCATCCACATCAGAATCAG
17613808 A
1 A
17613809 CGTAGCCACA
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:0.38, C:0.25, G:0.20, T:0.16
Consensus pattern (27 bp):
AGCCAGATGCATCCACATCAGAATCAG
Found at i:17620355 original size:25 final size:25
Alignment explanation
Indices: 17620321--17620368 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
17620311 AATTGAGTTG
17620321 GTTTATTTTAAGTTTTAGTTGTATA
1 GTTTATTTTAAGTTTTAGTTGTATA
17620346 GTTTATTTTAAGTTTTAGTTGTA
1 GTTTATTTTAAGTTTTAGTTGTA
17620369 GTATTCATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (25 bp):
GTTTATTTTAAGTTTTAGTTGTATA
Found at i:17621182 original size:16 final size:16
Alignment explanation
Indices: 17621163--17621194 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17621153 TTTTGTGTAT
17621163 TGTCGATGCAATATTC
1 TGTCGATGCAATATTC
17621179 TGTCGATGCAATATTC
1 TGTCGATGCAATATTC
17621195 AAGTTGCTAG
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:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (16 bp):
TGTCGATGCAATATTC
Found at i:17624695 original size:89 final size:92
Alignment explanation
Indices: 17624506--17624704 Score: 260
Period size: 89 Copynumber: 2.2 Consensus size: 92
17624496 AATTGGGTGC
*
17624506 AGCCAACAATTGAATAGAACCAATTGCAACAACCACCAATTGCCCAAAAAACAAAAAATAATAGC
1 AGCCAACAATTGAATAGAACCAATTGCAACAACCACCAAATGCCC-AAAAACAAAAAATAATAGC
*
17624571 AGTAGGGAACAATTGCAAAGACCTGAAG
65 AGCAGGGAACAATTGCAAAGACCTGAAG
* ** * *
17624599 AGCCAACAATTGAATAGAACCAATTGTATTAGCCACCAAATG-CC-GAAA-AAAAAATAATAGCA
1 AGCCAACAATTGAATAGAACCAATTGCAACAACCACCAAATGCCCAAAAACAAAAAATAATAGCA
* * * **
17624661 GCAGGGAATAGTTGCAGAGATGTGAAG
66 GCAGGGAACAATTGCAAAGACCTGAAG
17624688 AGCCAACAATTGAATAG
1 AGCCAACAATTGAATAG
17624705 TAAAGCAGTT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
89 52 0.55
90 3 0.03
92 2 0.02
93 37 0.39
ACGTcount: A:0.47, C:0.19, G:0.18, T:0.16
Consensus pattern (92 bp):
AGCCAACAATTGAATAGAACCAATTGCAACAACCACCAAATGCCCAAAAACAAAAAATAATAGCA
GCAGGGAACAATTGCAAAGACCTGAAG
Found at i:17625249 original size:19 final size:20
Alignment explanation
Indices: 17625226--17625298 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
17625216 AAAATCACAA
17625226 AAAAATTCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
17625246 AAAAATTCAAAATAATTTT-
1 AAAAATTCAAAATAATTTTC
* * *
17625265 TAAAATTCAGAAT-ATTTATA
1 AAAAATTCAAAATAATTT-TC
17625285 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
17625299 TTTTATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
18 4 0.09
19 12 0.26
20 25 0.54
21 5 0.11
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:17627104 original size:14 final size:14
Alignment explanation
Indices: 17627085--17627112 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17627075 CACTGTACAA
17627085 ATATGAAATGGAAT
1 ATATGAAATGGAAT
17627099 ATATGAAATGGAAT
1 ATATGAAATGGAAT
17627113 GCAAGCAACT
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:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (14 bp):
ATATGAAATGGAAT
Found at i:17639903 original size:574 final size:576
Alignment explanation
Indices: 17638683--17641739 Score: 4930
Period size: 576 Copynumber: 5.3 Consensus size: 576
17638673 ATAGCAAAGG
* *
17638683 ATGCTCACGACGTTGTTCATACGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGTAACAAA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
*
17638748 TTAAAGGTTCACGATAATTATCAAATTCATCCCACCAAACCATTT-ATATACTAAAATAAACAGC
66 TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACC-TTTAATATACTAAAATAAACAGC
* *
17638812 AACACTCATAGTCTTGGTTTGCTCACAATGATTAATATTTGCTTAGTAAGTCAATTTATGCACTC
130 AACACTCATAGTCTTAGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTC
* *
17638877 TCCAATAGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCATTTAGCA
195 TCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCA
*
17638942 AGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGTTTATACAGATGCAGATTGGGCA
260 AGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATTGGGCA
*
17639007 GGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGGGAC
325 GGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGTGAC
* * *
17639072 TTGGTAAAGCAAAAAATAAAGTGTTGTAGTAAGAAGTAGTGTAAAGGCTGAGTTTAGATCAATGG
390 TTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAATGG
17639137 CTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACT
455 CTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACT
*
17639202 TCACCAATGAAGTTGTATCGTGATAGAAAAGCTGCCATGACGTTGATGAAGCCGGTC
520 TCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
* * *
17639259 ATGCTCACGATGTTGTTCATGCGCCTTCTCTAAGTTACATAAACACTTTCCACACTTGCAACACA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
* * *
17639324 TTAAAGGTTCACGATAATTA-CGTAATTCATCCCACTAAACCTTTAATTTACTAAAATAAATAGC
66 TTAAAGGTTCACGATAATTATC-TAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGC
* *
17639388 AACACTCATAGTCTTAGTTTGCTCACAACGATTAATATTTACTTCGTAAGTCAATTTATGCACTC
130 AACACTCATAGTCTTAGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTC
** *
17639453 TCCAATGGAGGAACATGAAGAAATAGTGTTTTGGATTCTGAGATACTTGAAGAGTTCACTTAGCA
195 TCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCA
* *
17639518 AGGTCTTATTCTTTAAAAAATTCGAACAAAAAGGAATTTAAGCTTATACA-ATGCAGATTGGGCA
260 AGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATTGGGCA
** * * * *
17639582 GGCTCAATAATGGATAGGAGATCTACATCAAGATACTGTACATTTGTTT-GGGAAACCTTATGAC
325 GGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGTGAC
17639646 TTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAATGG
390 TTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAATGG
* * * * * * *
17639711 CTCAAGAAATTTGTGAAATGATATGGTTAAAAAGAGTTATAGAAGAGTTTAGGAAATCGATAACT
455 CTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACT
* * *
17639776 GT-ACTAATGAAGTTGTATTGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCAGTC
520 -TCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
* * *
17639833 ATGCTCACGACGTTGTTTATGCGCCTTCCCTAAGTTACATAAACACTTTTCACACTTGAAACAAA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
* * *
17639898 TTAAAGGTTCACGATTATTATCTAATTCATCCCACCAAAACTTTAATATACTAAAATAAATAGCA
66 TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
* * * *
17639963 ACACTCATATTC-TAGGTTTTCTCACAATGATTAATATTTGTTTAGTAAGTCAATTTATGCACTC
131 ACACTCATAGTCTTA-GTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTC
* * *
17640027 TCTAATAGAGGAACATGAAGAAGCAATGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCA
195 TCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCA
* * * * * *
17640092 AGGTCTTATTCTTTGAAAAAGTCAAACAAATAGGAATTTAAGCTTATATAGATGCAGATTGGGCA
260 AGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATTGGGCA
*
17640157 GGCTCAATAACAGATAGAAGATCTATATCAGGATACTATACATTTGTTTGGGGAAACCTTGTGAC
325 GGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGTGAC
* * * *
17640222 TTGGCAAAGCAAAAAATAAAGTGTTGTACCAAGAAGTAGTGTAAAGGCTGAGTTTAGATTAATAG
390 TTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAATGG
*
17640287 CTCAACGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACT
455 CTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACT
*
17640352 TCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCAGTC
520 TCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
* *
17640409 ATGCTCATGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGTAACAAA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
* *
17640474 TTAAAGTTTCACGATAATTATCTAATTAATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
66 TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
* * * *
17640539 ACACTGATAGTCTTGGTTTGCTCACAATGATTAATATTTGCTTAGTAAGTCAATTTATGTACTCT
131 ACACTCATAGTCTTAGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTCT
* * *
17640604 CCAATGGAGGAACATGAAGAAGCAGTGCTTCAGATTCTGAGATACTTGAAGAGTTCAGTTAGCAA
196 CCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCAA
* * *
17640669 TGGCTTATTCTTTAAAAAATTGGAACAAAGAGGAATTTAAGCTTATACAGATGCAAATTGGGCAG
261 GGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATT--G--G
* *
17640734 GCAGGCTCAATAACAAATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTAT
322 GCAGGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGT
*
17640799 GACTTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCCGAGTTTAGATCAA
387 GACTTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAA
** *
17640864 CAGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATA
452 TGGCTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATA
17640929 ACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
517 ACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
* *
17640989 ATGCTCACGACGTTGTTCATGCGCCTTCTCTAAGTTACATAAACACTTTCCACACTTGCAACACA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
* * *
17641054 TTAAAGGTTCACGATAATTA-CGTAATTCATCCCACTAAACCTTTAATTTACTAAAATAAATAGC
66 TTAAAGGTTCACGATAATTATC-TAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGC
* *
17641118 AACACTCATAGTCTTAGTTTGCTCACAACGATTAATATTTGCTTCGTAAGTCAATATATGCACTC
130 AACACTCATAGTCTTAGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTC
* ** *
17641183 TCCAATGGAGGAACATAAAGAAATAGTGTTTTGGATTCTGAGATACTTGAAGAGTTCACTTAGCA
195 TCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCA
*
17641248 AGGGCTTATTCTTTAAAAAAATT-GAACAAAGAGGAATTGAAGCTTATACAGATGCAGATTGGGC
260 AGGGCTTATTCTTT-AAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATT--G-
17641312 AGGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTT
321 -GGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTT
* * *
17641377 GTAACTTGGAAAAAGCAAAAAATGAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGAT
385 GTGACTTGG-CAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGAT
17641442 CAATGGCTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCA
449 CAATGGCTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCA
*
17641507 ATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGGTGCCATGACGTTGATGAAGCCGGTC
514 ATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
17641570 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
17641635 TTAAAGGTTCACG---ATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
66 TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
* * * *
17641697 ACACTCATAGTCTTGGTGTGCTCACAACAATTAGTATTTGCTT
131 ACACTCATAGTCTTAGTTTGCTCACAACGATTAATATTTGCTT
17641740 TTAATTGTTG
Statistics
Matches: 2289, Mismatches: 175, Indels: 32
0.92 0.07 0.01
Matches are distributed among these distances:
573 2 0.00
574 461 0.20
575 122 0.05
576 754 0.33
577 1 0.00
578 84 0.04
579 2 0.00
580 603 0.26
581 260 0.11
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (576 bp):
ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
ACACTCATAGTCTTAGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTCT
CCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCAA
GGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATTGGGCAG
GCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGTGACT
TGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAATGGC
TCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACTT
CACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
Found at i:17646350 original size:23 final size:23
Alignment explanation
Indices: 17646320--17646371 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
17646310 CGTGTGGGCC
*
17646320 CTGTAATATCCCAAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
*
17646343 CTGTAATACCCCGAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
*
17646366 CAGTAA
1 CTGTAA
17646372 GAAAGTATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (23 bp):
CTGTAATACCCCAAAAATTACTA
Found at i:17648837 original size:27 final size:27
Alignment explanation
Indices: 17648750--17648836 Score: 147
Period size: 27 Copynumber: 3.2 Consensus size: 27
17648740 AAAAGGTTGT
*
17648750 TAAAATAACCGAAATACCCCCATAGGG
1 TAAAATAACCAAAATACCCCCATAGGG
*
17648777 TAAAATAACCAAAATACCCTCATAGGG
1 TAAAATAACCAAAATACCCCCATAGGG
*
17648804 TAAAATGACCAAAATACCCCCATAGGG
1 TAAAATAACCAAAATACCCCCATAGGG
17648831 TAAAAT
1 TAAAAT
17648837 GGCTGTTATA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.47, C:0.23, G:0.13, T:0.17
Consensus pattern (27 bp):
TAAAATAACCAAAATACCCCCATAGGG
Found at i:17657654 original size:16 final size:16
Alignment explanation
Indices: 17657633--17657665 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
17657623 TGAGAAATTG
17657633 ATGCTCAAAGTAAGCT
1 ATGCTCAAAGTAAGCT
17657649 ATGCTCAAAGTAAGCT
1 ATGCTCAAAGTAAGCT
17657665 A
1 A
17657666 CTTGGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (16 bp):
ATGCTCAAAGTAAGCT
Found at i:17658467 original size:329 final size:329
Alignment explanation
Indices: 17657860--17658522 Score: 1236
Period size: 329 Copynumber: 2.0 Consensus size: 329
17657850 GTGGGCAACA
*
17657860 TGAAATGTCTGGACCGGTCGGACACAAATGGGCCTACAGATATTTTAGCCCAACACGAATTTATT
1 TGAAATGTCTGGACCGGTCGGACACAAATGGGCCTACAAATATTTTAGCCCAACACGAATTTATT
*
17657925 TTCCTCAGTAGAAAAAATTTGCTTATATATGAAAACTTAACTTATTGAATTGATTCCAATAAATC
66 TTCCTCAGTAGAAAAAAATTGCTTATATATGAAAACTTAACTTATTGAATTGATTCCAATAAATC
17657990 TATTTAAATATTTGATTTAATGACAAATTTTGGGGCTATTTCTCCATAATTACAACACTCTCCAT
131 TATTTAAATATTTGATTTAATGACAAATTTTGGGGCTATTTCTCCATAATTACAACACTCTCCAT
17658055 GCCTATAAAAGGCCATGATTCTGAATGGTTTTTTGGTACACTTTCATACTTTCTAAGAATTTCTC
196 GCCTATAAAAGGCCATGATTCTGAATGGTTTTTTGGTACACTTTCATACTTTCTAAGAATTTCTC
* * * *
17658120 TTACCGAAATTTTGTTATTCTAAAAAATCTCCTTTTCCGTCTTTCGTGTTTTCTAAATATTCTGA
261 TTACCAAAATTCTGTTATTCTAAAAAATCTCCTTTTCCATCTTTCGTGTTTTCTAAATATTCCGA
17658185 TGAT
326 TGAT
*
17658189 TGAAATGTCTGGACCGGTCGGACACAAATGGGCCTGCAAATATTTTAGCCCAACACGAATTTATT
1 TGAAATGTCTGGACCGGTCGGACACAAATGGGCCTACAAATATTTTAGCCCAACACGAATTTATT
*
17658254 TTCCTCAGTAGAAAAAAATTGCTTATATATGAAAACTTATCTTATTGAATTGATTCCAATAAATC
66 TTCCTCAGTAGAAAAAAATTGCTTATATATGAAAACTTAACTTATTGAATTGATTCCAATAAATC
*
17658319 TATTTAAATATTTGATTTAATGACAAATTTTGGGGCTATTTTTCCATAATTACAACACTCTCCAT
131 TATTTAAATATTTGATTTAATGACAAATTTTGGGGCTATTTCTCCATAATTACAACACTCTCCAT
17658384 GCCTATAAAAGGCCATGATTCTGAATGGTTTTTTGGTACACTTTCATACTTTCTAAGAATTTCTC
196 GCCTATAAAAGGCCATGATTCTGAATGGTTTTTTGGTACACTTTCATACTTTCTAAGAATTTCTC
17658449 TTACCAAAATTCTGTTATTCTAAAAAATCTCCTTTTCCATCTTTCGTGTTTTCTAAATATTCCGA
261 TTACCAAAATTCTGTTATTCTAAAAAATCTCCTTTTCCATCTTTCGTGTTTTCTAAATATTCCGA
17658514 TGAT
326 TGAT
*
17658518 AGAAA
1 TGAAA
17658523 AAGACATTGT
Statistics
Matches: 324, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
329 324 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (329 bp):
TGAAATGTCTGGACCGGTCGGACACAAATGGGCCTACAAATATTTTAGCCCAACACGAATTTATT
TTCCTCAGTAGAAAAAAATTGCTTATATATGAAAACTTAACTTATTGAATTGATTCCAATAAATC
TATTTAAATATTTGATTTAATGACAAATTTTGGGGCTATTTCTCCATAATTACAACACTCTCCAT
GCCTATAAAAGGCCATGATTCTGAATGGTTTTTTGGTACACTTTCATACTTTCTAAGAATTTCTC
TTACCAAAATTCTGTTATTCTAAAAAATCTCCTTTTCCATCTTTCGTGTTTTCTAAATATTCCGA
TGAT
Found at i:17662601 original size:78 final size:78
Alignment explanation
Indices: 17662403--17662756 Score: 394
Period size: 78 Copynumber: 4.6 Consensus size: 78
17662393 GGGAAATTAA
*
17662403 AAGT-AAAT-AAAATCATTTCAGGATTGATTCCCG-CGTTCAACGATTTTATTCCAAATTTGTTT
1 AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
*
17662465 TA-TTCAAAAAAC
66 TATTTCCAAAAAC
* ** ** * * *
17662477 AAGTAAAATAAAAAAAATTATTTCGATATTGATTCCCGTTGTTCAACGATTTTATTTCAAAATTC
1 AAGTAAAAT---AAAAATCATTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTG
**
17662542 TTTTATTTTTAAAAAC
63 TTTTATTTCCAAAAAC
* *
17662558 GAGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
1 AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
*
17662623 TATTTCCAAAAAT
66 TATTTCCAAAAAC
* * * ** * *
17662636 GAGTAAAATAAAAATCATTTCTGGATTGGTTCCCTTCATTCAACGATTTCATTCCAAATTTGTTT
1 AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
17662701 TATTTCCAAAAAC
66 TATTTCCAAAAAC
* * * * *
17662714 AAGTAACAT-AGAATCCTTTTCGGGATTGATTGCCACCGTTCAA
1 AAGTAAAATAAAAAT-CATTTCGGGATTGATTCCCGCCGTTCAA
17662757 TGGATTTATT
Statistics
Matches: 231, Mismatches: 41, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
74 4 0.02
75 4 0.02
77 4 0.02
78 155 0.67
79 21 0.09
80 27 0.12
81 16 0.07
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (78 bp):
AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
TATTTCCAAAAAC
Found at i:17662896 original size:84 final size:84
Alignment explanation
Indices: 17662808--17663027 Score: 261
Period size: 84 Copynumber: 2.6 Consensus size: 84
17662798 TTAAATACAG
* *
17662808 TAAAATCTATCTCGGGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTTT-ATGTTGTTTC
1 TAAAATCTATTTCGGGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTTTGGT-TTGTTTC
* *
17662872 CAAATTCAAA-CT-AAATTAAA
65 CAAA--CAAAGATGAAATCAAA
* *
17662892 TAAAATCTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTGGTTTGTTTCC
1 TAAAATCTATTTCGGGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTTTGGTTTGTTTCC
*
17662957 AAACAAAGATGTAATCAAA
66 AAACAAAGATGAAATCAAA
* * * * *
17662976 T-AATTCTATTTCGGGATTTATTCCTGTCATTTGA-TAGATTTTATTTTGATTT
1 TAAAATCTATTTCGGGATTTATTCCTGCCGTTTAACAAGATTTTA-TTTGATTT
17663028 AATGATATAA
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
82 12 0.10
83 36 0.31
84 69 0.58
85 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (84 bp):
TAAAATCTATTTCGGGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTTTGGTTTGTTTCC
AAACAAAGATGAAATCAAA
Found at i:17672551 original size:7 final size:7
Alignment explanation
Indices: 17672541--17672567 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17672531 GAGATGAGAA
17672541 GGATGAG
1 GGATGAG
17672548 GGATGAG
1 GGATGAG
17672555 GGATGAG
1 GGATGAG
17672562 GGATGA
1 GGATGA
17672568 TTGAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GGATGAG
Found at i:17678399 original size:10 final size:10
Alignment explanation
Indices: 17678384--17678476 Score: 119
Period size: 10 Copynumber: 9.9 Consensus size: 10
17678374 TATATTTTCT
17678384 TTATATATTA
1 TTATATATTA
17678394 -T-TATATTA
1 TTATATATTA
*
17678402 TTA-ACATTA
1 TTATATATTA
17678411 TTTATATATTA
1 -TTATATATTA
17678422 TTATATATTA
1 TTATATATTA
17678432 TTATATATTA
1 TTATATATTA
17678442 TTATATATTA
1 TTATATATTA
17678452 TTATATA-T-
1 TTATATATTA
17678460 TTATAT-TTA
1 TTATATATTA
17678469 -TATATATT
1 TTATATATT
17678477 TAAATGATAA
Statistics
Matches: 74, Mismatches: 2, Indels: 15
0.81 0.02 0.16
Matches are distributed among these distances:
8 19 0.26
9 10 0.14
10 40 0.54
11 5 0.07
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (10 bp):
TTATATATTA
Found at i:17678650 original size:21 final size:21
Alignment explanation
Indices: 17678610--17678648 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17678600 AAATCATGGA
17678610 TAAATCCAAGCGATTCTTTCT
1 TAAATCCAAGCGATTCTTTCT
17678631 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGATTCTTT
17678649 TCATAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (21 bp):
TAAATCCAAGCGATTCTTTCT
Found at i:17680589 original size:15 final size:15
Alignment explanation
Indices: 17680569--17680605 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
17680559 AAGAAGAAAG
17680569 ATTAAATCAATCTTA
1 ATTAAATCAATCTTA
**
17680584 ATTAAATTGATCTTA
1 ATTAAATCAATCTTA
17680599 ATTAAAT
1 ATTAAAT
17680606 TGTGGATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (15 bp):
ATTAAATCAATCTTA
Found at i:17680606 original size:15 final size:15
Alignment explanation
Indices: 17680578--17680607 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17680568 GATTAAATCA
17680578 ATCTTAATTAAATTG
1 ATCTTAATTAAATTG
17680593 ATCTTAATTAAATTG
1 ATCTTAATTAAATTG
17680608 TGGATTGGTG
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:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
ATCTTAATTAAATTG
Found at i:17685624 original size:560 final size:559
Alignment explanation
Indices: 17684561--17685649 Score: 1634
Period size: 560 Copynumber: 1.9 Consensus size: 559
17684551 TATTTTTAAG
17684561 CTATAAAGTGGGTCATGCATGATTAAATTAAATAATAAAAATATAAAGTTATATTTAATAATTCA
1 CTATAAAGTGGGTCATGCATGATTAAATTAAATAATAAAAATATAAAGTTATATTTAATAATTCA
* * *
17684626 TTTTTAATATTTCATTACTAAATTGAGTTTTAATTAATTAAATAAATTAATTAATTAAAGTGGTT
66 TTTTAAATATTTCATTAATAAATTGAGGTTTAATTAATTAAATAAATTAATTAATTAAAGTGGTT
*
17684691 AAATTCTATTATTTGGTCATCTAAACTATCTACTATTTTTGGACAGGGCTAAGAGTTTTCTTCTA
131 AAATTCAATTATTTGGTCATCTAAACTATCTACTATTTTTGGACAGGGCTAAGAGTTTTCTTCTA
* * * *
17684756 ATTGCAAAACCGTCCAAATTGGGGACCAATTCAACCCAATTTTTGGCTGCACATGGATGTCATAA
196 ATTGCAAAACCGTCCAAAGTGGGGACCAAGTCAAACCAATTTTCGGCTGCACATGGATGTCATAA
* * *
17684821 ACCATTTTTTGGTTTAATTATATAAAGTACTTGAAGAGTTAAAGAAATCAGAGATTTTCTCGAAG
261 ACCAATTTTTGGTTTAATTACATAAAGCACTTGAAGAGTTAAAGAAATCAGAGATTTTCTCGAAG
* * * *
17684886 ATTTACTGATGACCGATTTAGTGCTGAGTTGTTGTGACACTCAAATTGACCAAAAATCAAGGAAA
326 ATTTACTGATGACCGATTTAATCCTGAGTTGTTGTGACACTCAAATTGAACAAAAATCAAGAAAA
* * * *
17684951 AATCAGCCACCTTTCCTCAATTCATGGCCGGCCACTCTTGGAGGAAGTTTCAAAGGATGGGCACT
391 AATCAGCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAAGTTTCAAAGGATAGACACT
*
17685016 CCTATTTTTAGCAAACTAGCTCCCTTGCCTCACCTATAAATAAGAGCTCATTTCTCACTTTTTCA
456 CCTAATTTTAGCAAACTAGCTCCCTTGCCTCACCTATAAATAAGAGCTCATTTCTCACTTTTTCA
17685081 ATCATCCCTCATCTCATCATCTCTCACTCATTCATCATT
521 ATCATCCCTCATCTCATCATCTCTCACTCATTCATCATT
* **
17685120 CTATGAAGTGGGTCATGCATGATTAAATTAAATAAT-AAAATATAATTTTATATTTTAATAATTC
1 CTATAAAGTGGGTCATGCATGATTAAATTAAATAATAAAAATATAAAGTTATA-TTTAATAATTC
* *
17685184 ATTTTAAATATTTCATTAATAAAATT-AGGTTTAATTAATTAAGTAAATTGATTAATTAAAGTGG
65 ATTTTAAATATTTCATTAAT-AAATTGAGGTTTAATTAATTAAATAAATTAATTAATTAAAGTGG
* ** * * * *
17685248 TTAAATT-AATTCATTTGGTCCTCTAAACTATCTGTTATTTTT-TATAGGTCTGAGAGTTTT-TT
129 TTAAATTCAATT-ATTTGGTCATCTAAACTATCTACTATTTTTGGACAGGGCTAAGAGTTTTCTT
*** *
17685310 CTAATTGCAAAACCGTCCAAAGTGGGGACCAAGTCAAACCAATTTTCGGCTGCACATTTCTGATT
193 CTAATTGCAAAACCGTCCAAAGTGGGGACCAAGTCAAACCAATTTTCGGCTGCACATGGATG-TC
* * * *
17685375 ATAAACCAATTTTTGGTTTAATTACATAAGGCCCTTGAAGAGTTAAAGAAATCATATATTTAT-T
257 ATAAACCAATTTTTGGTTTAATTACATAAAGCACTTGAAGAGTTAAAGAAATCAGAGATTT-TCT
* * * *
17685439 TGAAGATTTGCTGGA-GACCGAGTCTTAATCCTGAGTTGTTGTGGCATTCAAATTGAACAAAAAT
321 CGAAGATTTACT-GATGACCGA-T-TTAATCCTGAGTTGTTGTGACACTCAAATTGAACAAAAAT
* *
17685503 CAAGAAAAAATTAGCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAGGTTTCAAAGGA
383 CAAGAAAAAATCAGCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAAGTTTCAAAGGA
*
17685568 TAGACACTCCTAATTTTAGCAAACTAGTTCCCTTGCCTCACCTATAAATAAGAGCTCATTTCTCA
448 TAGACACTCCTAATTTTAGCAAACTAGCTCCCTTGCCTCACCTATAAATAAGAGCTCATTTCTCA
17685633 CTTTTTCAATCATCCCT
513 CTTTTTCAATCATCCCT
17685650 AATCCCTCAT
Statistics
Matches: 475, Mismatches: 47, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
557 57 0.12
558 103 0.22
559 137 0.29
560 178 0.37
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (559 bp):
CTATAAAGTGGGTCATGCATGATTAAATTAAATAATAAAAATATAAAGTTATATTTAATAATTCA
TTTTAAATATTTCATTAATAAATTGAGGTTTAATTAATTAAATAAATTAATTAATTAAAGTGGTT
AAATTCAATTATTTGGTCATCTAAACTATCTACTATTTTTGGACAGGGCTAAGAGTTTTCTTCTA
ATTGCAAAACCGTCCAAAGTGGGGACCAAGTCAAACCAATTTTCGGCTGCACATGGATGTCATAA
ACCAATTTTTGGTTTAATTACATAAAGCACTTGAAGAGTTAAAGAAATCAGAGATTTTCTCGAAG
ATTTACTGATGACCGATTTAATCCTGAGTTGTTGTGACACTCAAATTGAACAAAAATCAAGAAAA
AATCAGCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAAGTTTCAAAGGATAGACACT
CCTAATTTTAGCAAACTAGCTCCCTTGCCTCACCTATAAATAAGAGCTCATTTCTCACTTTTTCA
ATCATCCCTCATCTCATCATCTCTCACTCATTCATCATT
Found at i:17685656 original size:7 final size:7
Alignment explanation
Indices: 17685642--17685684 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
17685632 ACTTTTTCAA
17685642 TCATCCC
1 TCATCCC
*
17685649 TAATCCC
1 TCATCCC
17685656 TCATCCC
1 TCATCCC
17685663 TCATCCTTC
1 TCATCC--C
*
17685672 TCATCTC
1 TCATCCC
17685679 TCATCC
1 TCATCC
17685685 TCTCTCTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 24 0.80
9 6 0.20
ACGTcount: A:0.16, C:0.49, G:0.00, T:0.35
Consensus pattern (7 bp):
TCATCCC
Found at i:17685676 original size:16 final size:16
Alignment explanation
Indices: 17685642--17685690 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
17685632 ACTTTTTCAA
*
17685642 TCATCCCTAATCC--C
1 TCATCCCTCATCCTTC
17685656 TCATCCCTCATCCTTC
1 TCATCCCTCATCCTTC
*
17685672 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCT-TC
17685689 TC
1 TC
17685691 TCAACTCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 12 0.40
16 14 0.47
17 4 0.13
ACGTcount: A:0.14, C:0.49, G:0.00, T:0.37
Consensus pattern (16 bp):
TCATCCCTCATCCTTC
Found at i:17694833 original size:15 final size:15
Alignment explanation
Indices: 17694815--17694854 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
17694805 TTCTCACTTT
17694815 TTCAATCATCCCTCA
1 TTCAATCATCCCTCA
*
17694830 TTCAATCATCTCTCA
1 TTCAATCATCCCTCA
* *
17694845 CTCATTCATC
1 TTCAATCATC
17694855 ATTCTCTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (15 bp):
TTCAATCATCCCTCA
Found at i:17694848 original size:19 final size:19
Alignment explanation
Indices: 17694826--17694863 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
17694816 TCAATCATCC
17694826 CTCATTCAATCA-TCTCTCA
1 CTCATTC-ATCATTCTCTCA
17694845 CTCATTCATCATTCTCTCA
1 CTCATTCATCATTCTCTCA
17694864 ACTCTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.24, C:0.37, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATTCATCATTCTCTCA
Found at i:17696087 original size:35 final size:35
Alignment explanation
Indices: 17696041--17696191 Score: 214
Period size: 35 Copynumber: 4.3 Consensus size: 35
17696031 GATAATCCAA
* *
17696041 CTCATAAGAGCTAATCCATCCGGAACACATCAATG
1 CTCATAAGAGCTAATCCATCCGAAACACACCAATG
17696076 CTCATAAGAGCTAATCCATCCGAAACACACCAATG
1 CTCATAAGAGCTAATCCATCCGAAACACACCAATG
*
17696111 CTCATAAGAGCTAATCCATCCGAAACACACCAACG
1 CTCATAAGAGCTAATCCATCCGAAACACACCAATG
* * * * *
17696146 CTTATAAAAG-TTATCCATCCGAAACAGATCAATG
1 CTCATAAGAGCTAATCCATCCGAAACACACCAATG
*
17696180 CTCATCAGAGCT
1 CTCATAAGAGCT
17696192 TAACATGAGA
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
34 27 0.26
35 76 0.74
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20
Consensus pattern (35 bp):
CTCATAAGAGCTAATCCATCCGAAACACACCAATG
Found at i:17709315 original size:27 final size:27
Alignment explanation
Indices: 17709288--17709561 Score: 248
Period size: 27 Copynumber: 10.0 Consensus size: 27
17709278 TATCCCATTT
* *
17709288 ATAGATCACCACGAAGGCTTCCTTTTT
1 ATAGATCACCACAAAGGCTTCCTTTTC
*
17709315 ATAGATCACCACAAAGGCTTCCTTTTT
1 ATAGATCACCACAAAGGCTTCCTTTTC
* * * * *
17709342 AGAGATCGCCACAAATGTTTCCTATTC
1 ATAGATCACCACAAAGGCTTCCTTTTC
* *
17709369 ATAGATCGCTACAAAGGCTTCCTTTTC
1 ATAGATCACCACAAAGGCTTCCTTTTC
* *
17709396 ATAGATAGCCACACCACAAAGGCTTTCTTTTT
1 ATAGAT-----CACCACAAAGGCTTCCTTTTC
* * *
17709428 ATAGATCGCCACAAATGCTTTCTTTTC
1 ATAGATCACCACAAAGGCTTCCTTTTC
* *
17709455 ATTGAT-AGCTACAAAGGCTTCCTTTTC
1 ATAGATCA-CCACAAAGGCTTCCTTTTC
*
17709482 ATAGATCGCCACAAAGGCTTCCTTTTC
1 ATAGATCACCACAAAGGCTTCCTTTTC
* * *
17709509 ATTGAT-AGCCACAAATGATTCC-TTTC
1 ATAGATCA-CCACAAAGGCTTCCTTTTC
* *
17709535 AATAGATCACCATAAAGGCTTTCTTTT
1 -ATAGATCACCACAAAGGCTTCCTTTT
17709562 ATGATGTATT
Statistics
Matches: 200, Mismatches: 36, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
26 4 0.02
27 169 0.85
28 4 0.02
32 23 0.12
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (27 bp):
ATAGATCACCACAAAGGCTTCCTTTTC
Found at i:17709439 original size:86 final size:80
Alignment explanation
Indices: 17709301--17709561 Score: 315
Period size: 81 Copynumber: 3.2 Consensus size: 80
17709291 GATCACCACG
* *
17709301 AAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTTAGAGATCGCCACAAATGTTTCCTA
1 AAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTTATAGATCGCCACAAATGTTTCCT-
17709366 TTCATAGATCGCTACA
65 TTCATAGATCGCTACA
*
17709382 AAGGCTTCCTTTTCATAGATAGCCACACCACAAAGGCTTTCTTTTTATAGATCGCCACAAATGCT
1 AAGGCTTCCTTTTCATAGAT-----CACCACAAAGGCTTCCTTTTTATAGATCGCCACAAATG-T
* * *
17709447 TTCTTTTCATTGATAGCTACA
60 TTCCTTTCATAGATCGCTACA
* * * * *
17709468 AAGGCTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTCATTGATAGCCACAAATGATTCCTT
1 AAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTTATAGATCGCCACAAATGTTTCCTT
* * *
17709533 TCAATAGATCACCATA
66 TC-ATAGATCGCTACA
*
17709549 AAGGCTTTCTTTT
1 AAGGCTTCCTTTT
17709562 ATGATGTATT
Statistics
Matches: 154, Mismatches: 19, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
80 7 0.05
81 72 0.47
86 70 0.45
87 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (80 bp):
AAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTTATAGATCGCCACAAATGTTTCCTT
TCATAGATCGCTACA
Found at i:17709496 original size:113 final size:113
Alignment explanation
Indices: 17709294--17709521 Score: 321
Period size: 113 Copynumber: 2.0 Consensus size: 113
17709284 ATTTATAGAT
* * * *
17709294 CACCACGAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTTAGAGATCGCCACAAATG
1 CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATAGCCACAAAGG
* *
17709359 TTTCCTATTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATAGCCA
66 CTTCCTATTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATAGCCA
* * * * ** *
17709407 CACCACAAAGGCTTTCTTTTTATAGATCGCCACAAATGCTTTCTTTTCATTGATAGCTACAAAGG
1 CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATAGCCACAAAGG
* *
17709472 CTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTCATTGATAGCCA
66 CTTCCTATTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATAGCCA
17709520 CA
1 CA
17709522 AATGATTCCT
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
113 100 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (113 bp):
CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATAGCCACAAAGG
CTTCCTATTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATAGCCA
Found at i:17718432 original size:20 final size:20
Alignment explanation
Indices: 17718397--17718445 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
17718387 TATCATTTCT
*
17718397 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
17718416 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
17718436 TTGCTTACTT
1 TTGCTTACTT
17718446 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:17718774 original size:50 final size:50
Alignment explanation
Indices: 17718711--17718833 Score: 129
Period size: 50 Copynumber: 2.5 Consensus size: 50
17718701 GATGCCATAT
* ** * * *
17718711 CCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCTATGC
1 CCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGC
** * * *
17718761 CCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCTAACGCCATGT
1 CCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGC
* *
17718811 CCCAAACATGGTCTTACTTGGGA
1 CCCAGACATGGTCTTACATGGGA
17718834 TCTCATTCCC
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.27
Consensus pattern (50 bp):
CCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGC
Found at i:17721939 original size:30 final size:30
Alignment explanation
Indices: 17721903--17722101 Score: 114
Period size: 30 Copynumber: 6.7 Consensus size: 30
17721893 TGGTTGACCC
* *
17721903 ATCCCTTTTCGTAATTCGATAACCGAAGTT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* *
17721933 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* * **** * *
17721963 ATCTCTTTTCATAATTTGATGGTTGTCATC-
1 ATCCCTTTTCATAATTCGATAACCG-AAGCT
** * ***
17721993 ATCCCTTTTCATTGTT-GCTGGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
** * * * *
17722022 ATAGCTTTTCATAGTTCGATAGCTGAAGCC
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* * * * *
17722052 ATCCCTTTTCATATTTTGATAGCTGAAGCC
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
17722082 ATCCCTTTTCATAATTCGAT
1 ATCCCTTTTCATAATTCGAT
17722102 GGTCGTCACC
Statistics
Matches: 133, Mismatches: 33, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
28 2 0.02
29 19 0.14
30 110 0.83
31 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAACCGAAGCT
Found at i:17722141 original size:29 final size:30
Alignment explanation
Indices: 17722080--17722155 Score: 127
Period size: 29 Copynumber: 2.6 Consensus size: 30
17722070 ATAGCTGAAG
17722080 CCATCCCTTTTCATAATTCGATGGTCGTCA
1 CCATCCCTTTTCATAATTCGATGGTCGTCA
**
17722110 CCATCCCTTTTCATTGTT-GATGGTCGTCA
1 CCATCCCTTTTCATAATTCGATGGTCGTCA
17722139 CCATCCCTTTTCATAAT
1 CCATCCCTTTTCATAAT
17722156 CGACAGCCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 26 0.62
30 16 0.38
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTCGATGGTCGTCA
Found at i:17722149 original size:119 final size:118
Alignment explanation
Indices: 17721901--17722189 Score: 355
Period size: 119 Copynumber: 2.4 Consensus size: 118
17721891 GATGGTTGAC
* * * *
17721901 CCATCCCTTTTCGTAATTCGATAACCGAAGTTATCCCTTTTCATAGTTCGATAGCCGAAGCTATC
1 CCATCCCTTTTCAT-ATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAGCCATC
* * * * *
17721966 TCTTTTCATAATTTGATGGTTGTCATCATCCCTTTTCATTGTTGCTGGTCGAAG
65 CCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGAAG
* ** * * * * *
17722020 CTATAGCTTTTCATAGTTCGATAGCTGAAGCCATCCCTTTTCATATTTTGATAGCTGAAGCCATC
1 CCATCCCTTTTCATA-TTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAGCCATC
*
17722085 CCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGTCA-
65 CCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCG-AAG
* * *
17722139 CCATCCCTTTTCATAATCGACAGCCAAAGCTATCCCTTTTCATAGTTCGAT
1 CCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGAT
17722190 GATTGACATT
Statistics
Matches: 140, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
118 30 0.21
119 109 0.78
120 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (118 bp):
CCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAGCCATCC
CTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGAAG
Found at i:17722154 original size:59 final size:60
Alignment explanation
Indices: 17721933--17722155 Score: 190
Period size: 59 Copynumber: 3.8 Consensus size: 60
17721923 AACCGAAGTT
* * * * * * * *
17721933 ATCCCTTTTCATAGTTCGATAGCCG-AAGCTATCTCTTTTCATAATTTGATGGTTGTCATC
1 ATCCCTTTTCATTGTT-GATGGTCGTAAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
* * ** * * *
17721993 ATCCCTTTTCATTGTTGCTGGTCG-AAGCTATAGCTTTTCATAGTTCGATAG-C-TGAAGCC
1 ATCCCTTTTCATTGTTGATGGTCGTAAGCCATCCCTTTTCATAATTCGATGGTCGT-CA-CC
* *
17722052 ATCCCTTTTCATATTTTGATAG-C-TGAAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
1 ATCCCTTTTCAT-TGTTGATGGTCGT-AAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
*
17722112 ATCCCTTTTCATTGTTGATGGTCGTCA-CCATCCCTTTTCATAAT
1 ATCCCTTTTCATTGTTGATGGTCGTAAGCCATCCCTTTTCATAAT
17722156 CGACAGCCAA
Statistics
Matches: 130, Mismatches: 24, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
57 1 0.01
58 1 0.01
59 65 0.50
60 59 0.45
61 3 0.02
62 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (60 bp):
ATCCCTTTTCATTGTTGATGGTCGTAAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
Found at i:17734218 original size:50 final size:50
Alignment explanation
Indices: 17734151--17734445 Score: 392
Period size: 50 Copynumber: 5.9 Consensus size: 50
17734141 TTTCCTGTAC
* * * * ** *
17734151 TGCCAATGCCATATCCCAAATATGATCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
17734201 TGCCTATGCCATGTCCCAGACATGGTCTTACGGGGGATCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
17734251 TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* *
17734301 TGCCAACGCCATGTCCCAAACATGGTCTTACATAGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
*
17734351 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
17734401 TGTCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT
17734446 AATTTCAATA
Statistics
Matches: 217, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 217 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:17734468 original size:56 final size:50
Alignment explanation
Indices: 17734208--17734488 Score: 328
Period size: 50 Copynumber: 5.5 Consensus size: 50
17734198 CGGTGCCTAT
** * ** *
17734208 GCCATGTCCCAGACATGGTCTTACGGGGGATCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATGTCAAC
* * *
17734258 GACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATGTCAAC
* * *** *
17734308 GCCATGTCCCAAACATGGTCTTACATAGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATGTCAAC
* *
17734358 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCAGTGTCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATGTCAAC
* * *
17734408 GCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATTTCAATAATGTCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---AATGTCAAC
17734464 GCCATGTCCCAGACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
17734489 CTGGCTCACA
Statistics
Matches: 205, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
50 170 0.83
53 4 0.02
56 31 0.15
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATGTCAAC
Found at i:17742970 original size:17 final size:17
Alignment explanation
Indices: 17742948--17743005 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 17
17742938 TCAAGATAAG
17742948 TATTAAATATAATTTAA
1 TATTAAATATAATTTAA
*
17742965 TATTAAAATGATTATCTTAA
1 TATT-AAAT-ATAAT-TTAA
*
17742985 TATTAAATTTAATTTAA
1 TATTAAATATAATTTAA
17743002 TATT
1 TATT
17743006 TATCTTGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 12 0.34
18 7 0.20
19 8 0.23
20 8 0.23
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TATTAAATATAATTTAA
Found at i:17743038 original size:69 final size:68
Alignment explanation
Indices: 17742913--17743047 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 68
17742903 TTTAATAAAT
17742913 TTAATATTAAATTAATATAATACTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGATT
1 TTAATATTAAATTAATATAATACTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGATT
17742978 ATC
66 ATC
* * ** * * * *
17742981 TTAATATTAAATTTAATTTAATATTTATCTTGATAAGTATTATAT-TTATTTAGTATTAAAGTGA
1 TTAATATTAAA-TTAATATAATA-CTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGA
17743045 TTA
64 TTA
17743048 AGTTTGATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
68 11 0.19
69 29 0.51
70 17 0.30
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (68 bp):
TTAATATTAAATTAATATAATACTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGATT
ATC
Found at i:17756308 original size:12 final size:12
Alignment explanation
Indices: 17756291--17756324 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
17756281 TGCCAGAAGT
17756291 AAATTAAAACAA
1 AAATTAAAACAA
17756303 AAATTAGAAAACAA
1 AAATT--AAAACAA
17756317 AAATTAAA
1 AAATTAAA
17756325 CTAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.40
14 12 0.60
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.18
Consensus pattern (12 bp):
AAATTAAAACAA
Found at i:17756315 original size:14 final size:14
Alignment explanation
Indices: 17756296--17756322 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17756286 GAAGTAAATT
17756296 AAAACAAAAATTAG
1 AAAACAAAAATTAG
17756310 AAAACAAAAATTA
1 AAAACAAAAATTA
17756323 AACTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAACAAAAATTAG
Found at i:17756595 original size:14 final size:14
Alignment explanation
Indices: 17756576--17756606 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17756566 TGATTGTTTT
*
17756576 TAATCTAAATTTAC
1 TAATCTAAATTAAC
17756590 TAATCTAAATTAAC
1 TAATCTAAATTAAC
17756604 TAA
1 TAA
17756607 GAACGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:17767149 original size:3 final size:3
Alignment explanation
Indices: 17767141--17767170 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17767131 TGAGTACCTA
17767141 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17767171 ATGGTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17775254 original size:24 final size:24
Alignment explanation
Indices: 17775199--17775251 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
17775189 TCTCATCAAA
17775199 TTTTTTT-TTGTTTTTTCATCAGT
1 TTTTTTTATTGTTTTTTCATCAGT
*
17775222 TTTATTTATTG-TTTTTCATCAGT
1 TTTTTTTATTGTTTTTTCATCAGT
17775245 TTTTTTT
1 TTTTTTT
17775252 TATCAGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.11, C:0.08, G:0.08, T:0.74
Consensus pattern (24 bp):
TTTTTTTATTGTTTTTTCATCAGT
Found at i:17775276 original size:14 final size:14
Alignment explanation
Indices: 17775233--17775266 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
17775223 TTATTTATTG
*
17775233 TTTTTCATCAGTTT
1 TTTTTTATCAGTTT
17775247 TTTTTTATCAGTTT
1 TTTTTTATCAGTTT
17775261 TTTTTT
1 TTTTTT
17775267 CTTTGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.74
Consensus pattern (14 bp):
TTTTTTATCAGTTT
Found at i:17775381 original size:17 final size:17
Alignment explanation
Indices: 17775361--17775394 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17775351 AAACATAGCC
* *
17775361 ATTTTATTTTTTTTTAA
1 ATTTTATATTATTTTAA
17775378 ATTTTATATTATTTTAA
1 ATTTTATATTATTTTAA
17775395 TAAAAAACCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTATATTATTTTAA
Found at i:17780099 original size:25 final size:25
Alignment explanation
Indices: 17780071--17780118 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17780061 GTGAGACTTT
* *
17780071 TGATTTACAGCTCATGTGAGCATCC
1 TGATTCACAACTCATGTGAGCATCC
*
17780096 TGATTCACAACTCGTGTGAGCAT
1 TGATTCACAACTCATGTGAGCAT
17780119 ACATGTACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
TGATTCACAACTCATGTGAGCATCC
Found at i:17781806 original size:101 final size:102
Alignment explanation
Indices: 17781689--17781881 Score: 318
Period size: 101 Copynumber: 1.9 Consensus size: 102
17781679 AAAGTGATGG
*
17781689 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCG-AATGATAATGGTCACATGTGTAGT
* *
17781752 ACTATGTGCAGGCTACTATGTGTACCGAATAGTTTCAA
65 ACTATGTGCAAGCTACTATGTGAACCGAATAGTTTCAA
* *
17781790 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
17781855 CTATGTGCAAGCTACTATGTGAACCGA
66 CTATGTGCAAGCTACTATGTGAACCGA
17781882 GCATCATTGA
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
100 5 0.06
101 40 0.47
102 40 0.47
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAAGCTACTATGTGAACCGAATAGTTTCAA
Found at i:17781819 original size:51 final size:51
Alignment explanation
Indices: 17781688--17781881 Score: 232
Period size: 51 Copynumber: 3.8 Consensus size: 51
17781678 GAAAGTGATG
* *
17781688 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA-A-TGATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTAATA
* * *
17781737 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGT-TTCA
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTAAT-A
* * * * *
17781789 ATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTAATA
* * *
17781840 GTCACATGTGTAGTACTATGTGCAAGCTACTATGTGAACCGA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA
17781882 GCATCATTGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 40 0.33
51 79 0.65
52 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTAATA
Found at i:17782116 original size:8 final size:8
Alignment explanation
Indices: 17782103--17782127 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17782093 ATTGTGATTG
17782103 AAAGTGAA
1 AAAGTGAA
17782111 AAAGTGAA
1 AAAGTGAA
17782119 AAAGTGAA
1 AAAGTGAA
17782127 A
1 A
17782128 TTATGAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (8 bp):
AAAGTGAA
Found at i:17790139 original size:30 final size:31
Alignment explanation
Indices: 17790084--17790151 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
17790074 ACCCTTAAAA
** * **
17790084 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
17790115 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
17790145 TATTTAC
1 TATTTAC
17790152 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:17792531 original size:50 final size:50
Alignment explanation
Indices: 17792468--17792759 Score: 288
Period size: 50 Copynumber: 5.9 Consensus size: 50
17792458 CATTTGGGTA
* * *
17792468 AAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGACATCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* * *
17792518 AAGAGATCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* * *
17792568 AAGAGGTCCCATATAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* * *** * *
17792618 GAGAGTTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACC-A-AT
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* * * * * *
17792666 ATGAGAACTCCCATGTAAGACTATATCTAGGATATGGCATTGGTAGTAC-AGA-
1 AAGAG-A-TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA--CCGAGAT
* * *
17792718 AA-ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
17792760 TGTTATTATC
Statistics
Matches: 199, Mismatches: 38, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
48 5 0.03
49 32 0.16
50 157 0.79
51 1 0.01
52 3 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.22
Consensus pattern (50 bp):
AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
Found at i:17796916 original size:36 final size:36
Alignment explanation
Indices: 17796869--17797015 Score: 204
Period size: 36 Copynumber: 4.1 Consensus size: 36
17796859 AAAAAAAAGA
17796869 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
** *
17796905 TTTGTATACATAATAGGGTTTGCATACATGTAAGGA
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
* *
17796941 TTTGTATACATAATAGGGTTTACATACATGTAAGTG
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
* * * *
17796977 TTCGCATACATAATAAGGTTCACATACATGACAAGGG
1 TTTGTATACATAATAGGGTTCACATACATG-TAAGGG
17797014 TT
1 TT
17797016 CGTAGAAATA
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
36 92 0.94
37 6 0.06
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (36 bp):
TTTGTATACATAATAGGGTTCACATACATGTAAGGG
Found at i:17797005 original size:18 final size:18
Alignment explanation
Indices: 17796869--17796996 Score: 91
Period size: 18 Copynumber: 7.1 Consensus size: 18
17796859 AAAAAAAAGA
* *
17796869 TTTGTATACATAATAGGG
1 TTTGCATACATAATAAGG
** *
17796887 TTCACATACAT-GTAAGGG
1 TTTGCATACATAATAA-GG
* *
17796905 TTTGTATACATAATAGGG
1 TTTGCATACATAATAAGG
*
17796923 TTTGCATACAT-GTAAGG
1 TTTGCATACATAATAAGG
* *
17796940 ATTTGTATACATAATAGGG
1 -TTTGCATACATAATAAGG
* *
17796959 TTTACATACAT-GTAAGTG
1 TTTGCATACATAATAAG-G
*
17796977 TTCGCATACATAATAAGG
1 TTTGCATACATAATAAGG
17796995 TT
1 TT
17796997 CACATACATG
Statistics
Matches: 81, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
17 9 0.11
18 62 0.77
19 10 0.12
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (18 bp):
TTTGCATACATAATAAGG
Found at i:17797012 original size:18 final size:18
Alignment explanation
Indices: 17796874--17797012 Score: 68
Period size: 18 Copynumber: 7.7 Consensus size: 18
17796864 AAAGATTTGT
* *
17796874 ATACATAATAGGGTTCAC
1 ATACATGATAAGGTTCAC
***
17796892 ATACATG-TAAGGGTTTGT
1 ATACATGATAA-GGTTCAC
* * **
17796910 ATACATAATAGGGTTTGC
1 ATACATGATAAGGTTCAC
***
17796928 ATACATG-TAAGGATTTGT
1 ATACATGATAAGG-TTCAC
* * *
17796946 ATACATAATAGGGTTTAC
1 ATACATGATAAGGTTCAC
*
17796964 ATACATG-TAAGTGTTCGC
1 ATACATGATAAG-GTTCAC
*
17796982 ATACATAATAAGGTTCAC
1 ATACATGATAAGGTTCAC
*
17797000 ATACATGACAAGG
1 ATACATGATAAGG
17797013 GTTCGTAGAA
Statistics
Matches: 92, Mismatches: 23, Indels: 12
0.72 0.18 0.09
Matches are distributed among these distances:
17 9 0.10
18 73 0.79
19 10 0.11
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (18 bp):
ATACATGATAAGGTTCAC
Done.