Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 14 of 318
Found at i:5223215 original size:22 final size:22
Alignment explanation
Indices: 5223187--5223229 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
5223177 CATTTTCTAA
5223187 TAGATTTAATGAATAAATTCAC
1 TAGATTTAATGAATAAATTCAC
5223209 TAGATTTAATGAATAAATTCA
1 TAGATTTAATGAATAAATTCA
5223230 ATATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (22 bp):
TAGATTTAATGAATAAATTCAC
Found at i:5223846 original size:33 final size:33
Alignment explanation
Indices: 5223804--5223866 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
5223794 AAAAAAAAAT
*
5223804 TAACCATGGATTACAAATTTAATTATGGTAAAC
1 TAACCATGGATTACAAATTCAATTATGGTAAAC
5223837 TAACCATGGATTACAAATTCAATTATGGTA
1 TAACCATGGATTACAAATTCAATTATGGTA
5223867 CTATAACTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (33 bp):
TAACCATGGATTACAAATTCAATTATGGTAAAC
Found at i:5230508 original size:6 final size:6
Alignment explanation
Indices: 5230493--5230523 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
5230483 CTGTGTACCG
*
5230493 TACTGC TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
5230524 CTGGCTTCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:5230661 original size:18 final size:18
Alignment explanation
Indices: 5230640--5230830 Score: 167
Period size: 18 Copynumber: 10.6 Consensus size: 18
5230630 TAACTGATTA
*
5230640 TTACTGAATAATTTACTG
1 TTACTGAATAATTGACTG
* *
5230658 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
* *
5230676 TTACTGGAT-ATTAAACTG
1 TTACTGAATAATT-GACTG
* * *
5230694 TTACTAAATAATTGAATA
1 TTACTGAATAATTGACTG
*
5230712 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
*
5230730 TTACTGAATAATTGATTG
1 TTACTGAATAATTGACTG
*
5230748 TCACTGAATGAATT-ACTG
1 TTACTGAAT-AATTGACTG
* *
5230766 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
5230785 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
5230802 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
5230820 TTACTGGATAA
1 TTACTGAATAA
5230831 CCGATCAATT
Statistics
Matches: 143, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
17 20 0.14
18 103 0.72
19 20 0.14
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:5230744 original size:72 final size:73
Alignment explanation
Indices: 5230627--5230829 Score: 204
Period size: 72 Copynumber: 2.8 Consensus size: 73
5230617 TAAAGGTATA
* * * * * * *
5230627 AAATAACTGATTATTACTGAATAATTTA-CTGTTACCGGATAATTGACTGTTACTGGATATTAA-
1 AAATAATTGAATATTACTGAATAATTGATC-ATTACTGAATAATTGACTGTTACTGGATATGAAT
5230690 ACTGTTACT
65 ACTGTTACT
* *
5230699 AAATAATTGAATATTACTGAATAATTGATCATTACTGAATAATTGATTGTCACT-GA-ATGAATT
1 AAATAATTGAATATTACTGAATAATTGATCATTACTGAATAATTGACTGTTACTGGATATGAA-T
5230762 ACTGTTACT
65 ACTGTTACT
* * *
5230771 GAATAACTT-AATTGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACTGTTACTGGATA
1 AAATAA-TTGAA-TATTACTGAATAAT-TGATCATTACTGAATAATTGACTGTTACTGGATA
5230830 ACCGATCAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
70 4 0.04
71 2 0.02
72 83 0.76
73 19 0.17
74 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (73 bp):
AAATAATTGAATATTACTGAATAATTGATCATTACTGAATAATTGACTGTTACTGGATATGAATA
CTGTTACT
Found at i:5230877 original size:36 final size:36
Alignment explanation
Indices: 5230837--5230910 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
5230827 ATAACCGATC
* **
5230837 AATTGATCGATACTGAATAACTGGTTATTATTGAAT
1 AATTGATCGATACCGAATAACTGACTATTATTGAAT
* * *
5230873 AATTGATTGTTACCGAATAATTGACTATTATTGAAT
1 AATTGATCGATACCGAATAACTGACTATTATTGAAT
5230909 AA
1 AA
5230911 ATAATTGTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (36 bp):
AATTGATCGATACCGAATAACTGACTATTATTGAAT
Found at i:5230908 original size:18 final size:18
Alignment explanation
Indices: 5230862--5230910 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
5230852 AATAACTGGT
*
5230862 TATTATTGAATAATTGAT
1 TATTATTGAATAATTGAC
* **
5230880 TGTTACCGAATAATTGAC
1 TATTATTGAATAATTGAC
5230898 TATTATTGAATAA
1 TATTATTGAATAA
5230911 ATAATTGTTC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (18 bp):
TATTATTGAATAATTGAC
Found at i:5232471 original size:16 final size:16
Alignment explanation
Indices: 5232450--5232481 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5232440 ATGATTCCAG
*
5232450 ATAAACATGTACGAAA
1 ATAAACAGGTACGAAA
5232466 ATAAACAGGTACGAAA
1 ATAAACAGGTACGAAA
5232482 GCTATAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (16 bp):
ATAAACAGGTACGAAA
Found at i:5242012 original size:24 final size:23
Alignment explanation
Indices: 5241974--5242020 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
5241964 TATTTTATTT
*
5241974 AATTATATTCTAAATTTAATTTTA
1 AATTATATTCTAAA-TAAATTTTA
5241998 AATTATATATC-AAATAAATTTTA
1 AATTATAT-TCTAAATAAATTTTA
5242021 TAACTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 11 0.52
25 2 0.10
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTATATTCTAAATAAATTTTA
Found at i:5245072 original size:30 final size:30
Alignment explanation
Indices: 5245038--5245097 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
5245028 ATAATTAGAG
5245038 ATAGTTTAAAATTTTTGAGATTTTTTCTTC
1 ATAGTTTAAAATTTTTGAGATTTTTTCTTC
5245068 ATAGTTTAAAATTTTTGAGATTTTTTCTTC
1 ATAGTTTAAAATTTTTGAGATTTTTTCTTC
5245098 TTTTTTTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (30 bp):
ATAGTTTAAAATTTTTGAGATTTTTTCTTC
Found at i:5258929 original size:17 final size:15
Alignment explanation
Indices: 5258902--5258935 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
5258892 CAGATAATTT
5258902 AATATTTAAAAAAATA
1 AATATTT-AAAAAATA
5258918 AATATGTTAAAAAATA
1 AATAT-TTAAAAAATA
5258934 AA
1 AA
5258936 AGTATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
AATATTTAAAAAATA
Found at i:5260490 original size:13 final size:13
Alignment explanation
Indices: 5260472--5260497 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5260462 TCTTTTTTTC
5260472 CTCGTTTATAGTT
1 CTCGTTTATAGTT
5260485 CTCGTTTATAGTT
1 CTCGTTTATAGTT
5260498 AGACTTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (13 bp):
CTCGTTTATAGTT
Found at i:5265142 original size:4 final size:4
Alignment explanation
Indices: 5265127--5265170 Score: 70
Period size: 4 Copynumber: 10.8 Consensus size: 4
5265117 TATGTCAAGA
*
5265127 TATG TCATG TATG TATG TATG TATG TATA TATG TATG TATG TAT
1 TATG T-ATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
5265171 AATTTGAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:5269893 original size:19 final size:19
Alignment explanation
Indices: 5269869--5269905 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5269859 TTATTATTGT
*
5269869 GTTTGTTTTATAAAAAATA
1 GTTTGTTTAATAAAAAATA
*
5269888 GTTTGTTTAATAGAAAAT
1 GTTTGTTTAATAAAAAAT
5269906 TACTTATAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (19 bp):
GTTTGTTTAATAAAAAATA
Found at i:5270110 original size:13 final size:14
Alignment explanation
Indices: 5270094--5270135 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
5270084 TTTTAATTTT
5270094 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
5270107 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
5270122 ATTTTAATTAATAT
1 ATTTTAA-TAATAT
5270136 TCTTTACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:5270126 original size:15 final size:16
Alignment explanation
Indices: 5270099--5270128 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5270089 ATTTTATTTT
5270099 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
5270115 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
5270129 TTAATATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:5270134 original size:16 final size:16
Alignment explanation
Indices: 5270087--5270134 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
5270077 TTTAATATTT
*
5270087 TAATTTTATTTTAATAA
1 TAATTTTA-ATTAATAA
*
5270104 TAAATTTTAA-AAATAA
1 T-AATTTTAATTAATAA
5270120 TAATTTTAATTAATA
1 TAATTTTAATTAATA
5270135 TTCTTTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 8 0.31
16 10 0.38
17 1 0.04
18 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTTTAATTAATAA
Found at i:5270187 original size:15 final size:15
Alignment explanation
Indices: 5270167--5270223 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
5270157 ATTCAATATT
5270167 AATATTTTAATAATA
1 AATATTTTAATAATA
*
5270182 AATATTTATTTCAATTATA
1 AATA--T-TTT-AATAATA
*
5270201 AATATATTAATAATA
1 AATATTTTAATAATA
*
5270216 AATGTTTT
1 AATATTTT
5270224 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 2 0.06
18 3 0.09
19 10 0.30
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:5270201 original size:19 final size:19
Alignment explanation
Indices: 5270169--5270205 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5270159 TCAATATTAA
*
5270169 TATTTTAATAATAAATATT
1 TATTTCAATAATAAATATT
*
5270188 TATTTCAATTATAAATAT
1 TATTTCAATAATAAATAT
5270206 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTTCAATAATAAATATT
Found at i:5305161 original size:20 final size:20
Alignment explanation
Indices: 5305136--5305177 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
5305126 AACTAAAAAG
5305136 TTAATTCAAACCATGGTATC
1 TTAATTCAAACCATGGTATC
5305156 TTAATTCAAACCATGGTATC
1 TTAATTCAAACCATGGTATC
5305176 TT
1 TT
5305178 TGAAAATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (20 bp):
TTAATTCAAACCATGGTATC
Found at i:5325670 original size:121 final size:121
Alignment explanation
Indices: 5325456--5325691 Score: 445
Period size: 121 Copynumber: 2.0 Consensus size: 121
5325446 GACGTTCATA
5325456 AGAATTGGATTACCTTGAAATCGCCCTCTTGCGTACTGATTCCTACATGTCAGCTAGGTTTGGCA
1 AGAATTGGATTACCTTGAAATCGCCCTCTTGCGTACTGATTCCTACATGTCAGCTAGGTTTGGCA
5325521 TGACATAGTACTGAGACAAATTAGATTTACCCTGAAATCAGTCCAAATATACCATG
66 TGACATAGTACTGAGACAAATTAGATTTACCCTGAAATCAGTCCAAATATACCATG
* *
5325577 AGAATTGGATTACCTTGAAATCGCCCTCTTGTGTACTGATTCCTACATGTTAGCTAGGTTTGGCA
1 AGAATTGGATTACCTTGAAATCGCCCTCTTGCGTACTGATTCCTACATGTCAGCTAGGTTTGGCA
*
5325642 TGACATAGTACTGTGACAAATTAGATTTACCCTGAAATCAGTCCAAATAT
66 TGACATAGTACTGAGACAAATTAGATTTACCCTGAAATCAGTCCAAATAT
5325692 GTGACGTAAA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 112 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (121 bp):
AGAATTGGATTACCTTGAAATCGCCCTCTTGCGTACTGATTCCTACATGTCAGCTAGGTTTGGCA
TGACATAGTACTGAGACAAATTAGATTTACCCTGAAATCAGTCCAAATATACCATG
Found at i:5332654 original size:14 final size:14
Alignment explanation
Indices: 5332635--5332661 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5332625 AGTGATAAGT
5332635 GACAAGCGACAAGC
1 GACAAGCGACAAGC
5332649 GACAAGCGACAAG
1 GACAAGCGACAAG
5332662 TGATAAGTGG
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:0.44, C:0.26, G:0.30, T:0.00
Consensus pattern (14 bp):
GACAAGCGACAAGC
Found at i:5332725 original size:51 final size:51
Alignment explanation
Indices: 5332649--5332762 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
5332639 AGCGACAAGC
* * *
5332649 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACATTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
5332700 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
5332751 AACAAGTGATAA
1 GACAAGTGATAA
5332763 ATGTGATCAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:5340375 original size:14 final size:14
Alignment explanation
Indices: 5340331--5340376 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
5340321 TTATCTGATC
5340331 AGTGATAAGTGACA
1 AGTGATAAGTGACA
* * *
5340345 AGCGACAAGCGACA
1 AGTGATAAGTGACA
*
5340359 AGTGATAAGTGATA
1 AGTGATAAGTGACA
5340373 AGTG
1 AGTG
5340377 GTAGCTTTAG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.17
Consensus pattern (14 bp):
AGTGATAAGTGACA
Found at i:5340431 original size:51 final size:51
Alignment explanation
Indices: 5340355--5340468 Score: 210
Period size: 51 Copynumber: 2.2 Consensus size: 51
5340345 AGCGACAAGC
*
5340355 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACATTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
5340406 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
5340457 GACAAGTGATAA
1 GACAAGTGATAA
5340469 ATGTGATCAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:5341786 original size:49 final size:49
Alignment explanation
Indices: 5341725--5341988 Score: 202
Period size: 49 Copynumber: 5.6 Consensus size: 49
5341715 ACATTAAAGT
*
5341725 CGATGCCGTGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * *
5341774 CGATGCCATGTCCCAGACAGGTCTTACACTG-GTTCTCATCTATCG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTT-TCATATATCGAG-GC
* * *
5341823 CGATGCCATGTCCCAGACAGGTCTTACACTGAC--GC-----GC-AAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * * * * *
5341864 TGACGCCATGTCTCAGATAGGTCTTACACT-AGC-TTCTATATCTCAAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTC-ATATATCGAGGC
* * *
5341913 CGATG-CATGTCCCAGACATGTCTTACACTAACTCTT-ATA-AT-GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCGAGGC
* *
5341959 CGATG-CATGTCTCAGACATGTCTTACACTG
1 CGATGCCATGTCCCAGACAGGTCTTACACTG
5341989 GCTCACATAC
Statistics
Matches: 173, Mismatches: 26, Indels: 35
0.74 0.11 0.15
Matches are distributed among these distances:
40 1 0.01
41 28 0.16
42 2 0.01
46 31 0.18
47 2 0.01
48 29 0.17
49 78 0.45
50 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
Found at i:5341941 original size:48 final size:46
Alignment explanation
Indices: 5341870--5341987 Score: 141
Period size: 46 Copynumber: 2.5 Consensus size: 46
5341860 AAGCTGACGC
* * *
5341870 CATGTCTCAGATAGGTCTTACACTAGCT-TCTAT-ATCTCAAGGCCGATG
1 CATGTCTCAGACATGTCTTACACTAACTCT-TATAATCT---GGCCGATG
* *
5341918 CATGTCCCAGACATGTCTTACACTAACTCTTATAATGTGGCCGATG
1 CATGTCTCAGACATGTCTTACACTAACTCTTATAATCTGGCCGATG
5341964 CATGTCTCAGACATGTCTTACACT
1 CATGTCTCAGACATGTCTTACACT
5341988 GGCTCACATA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 31 0.50
48 27 0.44
49 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (46 bp):
CATGTCTCAGACATGTCTTACACTAACTCTTATAATCTGGCCGATG
Found at i:5352081 original size:12 final size:12
Alignment explanation
Indices: 5352066--5352127 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
5352056 TGTTATCAAT
5352066 TTATTATTATAA
1 TTATTATTATAA
**
5352078 TTATTATTATGG
1 TTATTATTATAA
*
5352090 TTTTTATT-TAA
1 TTATTATTATAA
*
5352101 ATATTATTATTAA
1 TTATTATTA-TAA
5352114 -TATTATTAT-A
1 TTATTATTATAA
5352124 TTAT
1 TTAT
5352128 GAAATAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
10 1 0.03
11 11 0.28
12 25 0.62
13 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (12 bp):
TTATTATTATAA
Found at i:5352400 original size:24 final size:23
Alignment explanation
Indices: 5352373--5352429 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
5352363 TATGTATTTG
5352373 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
* *
5352397 TTATTATTATAGTTTTATATTAAA
1 TTATTA-AATAGTATTATATTAAA
5352421 TTATTAAAT
1 TTATTAAAT
5352430 TATGATTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.07
24 17 0.61
25 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:5352534 original size:3 final size:3
Alignment explanation
Indices: 5352520--5352586 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
5352510 ATATTTATGA
5352520 ATT ATAT ATT ATT A-T ATT A-T ATT A-T ATT A-T ATT A-T ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
5352561 ATA ATGT ATT ATT ATT ATT AAT ATT A
1 ATT AT-T ATT ATT ATT ATT ATT ATT A
5352587 GTAAGTAACA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
2 10 0.19
3 38 0.72
4 5 0.09
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:5352535 original size:10 final size:10
Alignment explanation
Indices: 5352520--5352586 Score: 58
Period size: 10 Copynumber: 7.1 Consensus size: 10
5352510 ATATTTATGA
5352520 ATTATATATT
1 ATTATATATT
5352530 A-T-TATATT
1 ATTATATATT
5352538 A-TATTATATT
1 ATTA-TATATT
5352548 A-TATTATATT
1 ATTA-TATATT
5352558 ATTATA-ATGT
1 ATTATATAT-T
5352568 ATTAT-TATT
1 ATTATATATT
5352577 ATTA-ATATT
1 ATTATATATT
5352586 A
1 A
5352587 GTAAGTAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
8 8 0.16
9 13 0.25
10 28 0.55
11 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (10 bp):
ATTATATATT
Found at i:5352539 original size:5 final size:5
Alignment explanation
Indices: 5352520--5352559 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
5352510 ATATTTATGA
5352520 ATTAT A-TATT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
5352560 TATAATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.06
5 29 0.88
6 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:5352540 original size:13 final size:13
Alignment explanation
Indices: 5352524--5352586 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
5352514 TTATGAATTA
5352524 TATATTATTATAT
1 TATATTATTATAT
5352537 TATATTATATTATAT
1 TATA-T-TATTATAT
*
5352552 TATATTATTATAA
1 TATATTATTATAT
*
5352565 TGTATTATTATTAT
1 TATATTATTA-TAT
5352579 TAATATTA
1 T-ATATTA
5352587 GTAAGTAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
13 20 0.48
14 5 0.12
15 17 0.40
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TATATTATTATAT
Found at i:5353509 original size:70 final size:75
Alignment explanation
Indices: 5353422--5353597 Score: 193
Period size: 70 Copynumber: 2.3 Consensus size: 75
5353412 ATGTGAAGAA
* *
5353422 ATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTGAATT-AT-G-AATTATGTGAATATTTGA
1 ATTGGAAACTAAAAGTGATTTGAATTGAA-TAAATTGAATTAATAGAAAATATGTGAATATTTGA
5353482 AA-GTATATTG
65 AATGTATATTG
* *
5353492 ATTGGAAACTAAGAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATT
1 ATTGGAAACTAAAAGTGATTTGAATTGAAT-AAATTGAATT-AAT--AGAAAATATGTGAATATT
5353557 TGAAATGTATATTG
62 TGAAATGTATATTG
* * *
5353571 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAACTAA-AAGTGATTTGAATT
5353598 TGATTGGAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
70 25 0.28
71 2 0.02
72 9 0.10
74 2 0.02
77 1 0.01
78 18 0.20
79 18 0.20
80 13 0.15
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.38
Consensus pattern (75 bp):
ATTGGAAACTAAAAGTGATTTGAATTGAATAAATTGAATTAATAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:5353821 original size:18 final size:18
Alignment explanation
Indices: 5353761--5353835 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 18
5353751 GAAAGTGGAG
5353761 AAGTG-AATTTGAATTG-
1 AAGTGAAATTTGAATTGA
5353777 AA-TGAGAA-TTGAATTGA
1 AAGTGA-AATTTGAATTGA
*
5353794 ATTGTG-AATTTGAATTGA
1 A-AGTGAAATTTGAATTGA
* *
5353812 AAGTGAAATTGGCATTGA
1 AAGTGAAATTTGAATTGA
5353830 AAGTGA
1 AAGTGA
5353836 TTTGAAATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
15 2 0.04
16 10 0.21
17 8 0.17
18 26 0.54
19 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.33
Consensus pattern (18 bp):
AAGTGAAATTTGAATTGA
Found at i:5353839 original size:34 final size:33
Alignment explanation
Indices: 5353761--5353841 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 33
5353751 GAAAGTGGAG
5353761 AAGTGAATTTGAATTGAATGAGAATTGAATTGA
1 AAGTGAATTTGAATTGAATGAGAATTGAATTGA
* *
5353794 ATTGTGAATTTGAATTGAAAGTGA-AATTGGCATTGA
1 A-AGTGAATTTGAATTG-AA-TGAGAATT-GAATTGA
5353830 AAGTG-ATTTGAA
1 AAGTGAATTTGAA
5353842 ATGTGAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
33 1 0.02
34 21 0.51
35 9 0.22
36 10 0.24
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.35
Consensus pattern (33 bp):
AAGTGAATTTGAATTGAATGAGAATTGAATTGA
Found at i:5355768 original size:23 final size:22
Alignment explanation
Indices: 5355719--5355770 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
5355709 TAACTTTTAA
* * *
5355719 AATTTTATTATAAATGAGTAAT
1 AATTTTTTTATAAATAAATAAT
5355741 AATTTTTTTATAAATAAATACAT
1 AATTTTTTTATAAATAAATA-AT
*
5355764 TATTTTT
1 AATTTTT
5355771 GTAATAAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (22 bp):
AATTTTTTTATAAATAAATAAT
Found at i:5355874 original size:16 final size:16
Alignment explanation
Indices: 5355833--5355865 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5355823 TATAAATAAA
*
5355833 TATATTATAAAATTTT
1 TATAATATAAAATTTT
5355849 TATAATATAAAATTTT
1 TATAATATAAAATTTT
5355865 T
1 T
5355866 TGATGATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAATATAAAATTTT
Found at i:5360016 original size:3 final size:3
Alignment explanation
Indices: 5360008--5360046 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
5359998 TACTCCAATT
5360008 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5360047 AAATTTCGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5363853 original size:45 final size:45
Alignment explanation
Indices: 5363752--5363858 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
5363742 GTAGCAGTAG
* * *
5363752 CAGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
* *
5363797 CAGTAGCGGTAACAGTATTCGACACACAAAGTG-TCGAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGCT-GAATCGGTAA
* *
5363842 CGGTAATGGTAACAGTA
1 CAGTAACGGTAACAGTA
5363859 ACAGTAGTCG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 1 0.02
45 52 0.98
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
Found at i:5365173 original size:33 final size:32
Alignment explanation
Indices: 5365115--5365177 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 32
5365105 ATTATTTAAT
*
5365115 TAATAAATATTTCTTAATTATAATAATAATAAA
1 TAATAAATATTACTTAATTATAATAA-AATAAA
5365148 TAATAAATATCTAC-TAATT-TAAATAAAATA
1 TAATAAATAT-TACTTAATTAT-AATAAAATA
5365178 TTATAATTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 5 0.19
33 20 0.74
34 2 0.07
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (32 bp):
TAATAAATATTACTTAATTATAATAAAATAAA
Found at i:5365739 original size:15 final size:15
Alignment explanation
Indices: 5365719--5365749 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5365709 TAGACACACC
5365719 ACTAGGCTCATAAAT
1 ACTAGGCTCATAAAT
5365734 ACTAGGCTCATAAAT
1 ACTAGGCTCATAAAT
5365749 A
1 A
5365750 TTTTTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (15 bp):
ACTAGGCTCATAAAT
Found at i:5382739 original size:81 final size:81
Alignment explanation
Indices: 5382602--5382763 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 81
5382592 CTCTATGATA
* *
5382602 GAGGCATATCTGTTACCCTCTATTACCACTGGTTTTATTTTGTACATTTCTTACCGAACCAATTT
1 GAGGCATATCTGTTACCCTCTATTACCACTAGTTTTATTTTGTACATTTCTAACCGAACCAATTT
5382667 CATGAATGTACAATGC
66 CATGAATGTACAATGC
* *
5382683 GAGGCATATCTGTTACCCTCTCTTACCATTAGTTTTATTTTGTACATTTCTAACCGAACCAATTT
1 GAGGCATATCTGTTACCCTCTATTACCACTAGTTTTATTTTGTACATTTCTAACCGAACCAATTT
5382748 CATGAATGTACAATGC
66 CATGAATGTACAATGC
5382764 AGTGTTAAAC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (81 bp):
GAGGCATATCTGTTACCCTCTATTACCACTAGTTTTATTTTGTACATTTCTAACCGAACCAATTT
CATGAATGTACAATGC
Found at i:5389133 original size:77 final size:77
Alignment explanation
Indices: 5389003--5389164 Score: 297
Period size: 77 Copynumber: 2.1 Consensus size: 77
5388993 CTAGTGAAAT
*
5389003 AAAGACACAAAGCTTATATGACTGCAAAGCATATATAATAGCAAATAGCATGCAGCTCCAGCCCA
1 AAAGACACAAAGCTTACATGACTGCAAAGCATATATAATAGCAAATAGCATGCAGCTCCAGCCCA
5389068 TGCAGTTTCAGC
66 TGCAGTTTCAGC
* *
5389080 AAAGACACAAAGCTTACATGACTGCAAAGCATATATAATAGCAAATAGTATGCAGGTCCAGCCCA
1 AAAGACACAAAGCTTACATGACTGCAAAGCATATATAATAGCAAATAGCATGCAGCTCCAGCCCA
5389145 TGCAGTTTCAGC
66 TGCAGTTTCAGC
5389157 AAAGACAC
1 AAAGACAC
5389165 CTGCCGTTCT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (77 bp):
AAAGACACAAAGCTTACATGACTGCAAAGCATATATAATAGCAAATAGCATGCAGCTCCAGCCCA
TGCAGTTTCAGC
Found at i:5394003 original size:61 final size:61
Alignment explanation
Indices: 5393906--5394044 Score: 172
Period size: 61 Copynumber: 2.2 Consensus size: 61
5393896 TGTAAGAATG
* * * * *
5393906 TAAATTTTTTTGTTTTTTATAATTATTTTAAAATTAATTTGTCAATAATTT-AGTGTTATGTTA
1 TAAATTGTTTTG--TTTTATAATTATTCTAAAATTAATTTATCAATAATTTAAG-ATTATATTA
* *
5393969 TAAATTGTTTTGTTTTGTAATTATTCTAAAATTAATTTATTAATAATTTAAGATTATATTA
1 TAAATTGTTTTGTTTTATAATTATTCTAAAATTAATTTATCAATAATTTAAGATTATATTA
*
5394030 TAAATTGTTGTGTTT
1 TAAATTGTTTTGTTT
5394045 AGTTTAGTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
61 54 0.81
62 2 0.03
63 11 0.16
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (61 bp):
TAAATTGTTTTGTTTTATAATTATTCTAAAATTAATTTATCAATAATTTAAGATTATATTA
Found at i:5404960 original size:9 final size:9
Alignment explanation
Indices: 5404946--5404984 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
5404936 ATAGTTTAAT
5404946 AATAAAAGA
1 AATAAAAGA
5404955 AATAAAAGA
1 AATAAAAGA
*
5404964 AATAAAACA
1 AATAAAAGA
*
5404973 ATAGAAAAGA
1 A-ATAAAAGA
5404983 AA
1 AA
5404985 CAGAGAAGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (9 bp):
AATAAAAGA
Found at i:5405014 original size:17 final size:14
Alignment explanation
Indices: 5405006--5405032 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5404996 AAGAAATAGG
5405006 AAAGAAAAAGAAAT
1 AAAGAAAAAGAAAT
5405020 AAAGAAAAAGAAA
1 AAAGAAAAAGAAA
5405033 GGGAGAAACT
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:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (14 bp):
AAAGAAAAAGAAAT
Found at i:5408243 original size:52 final size:48
Alignment explanation
Indices: 5408181--5408373 Score: 187
Period size: 47 Copynumber: 4.0 Consensus size: 48
5408171 GAAATGTGAT
* *
5408181 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* * *
5408233 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGACATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
5408280 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * * *
5408326 ATCCGTTTAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
5408374 ACTATGTGCA
Statistics
Matches: 120, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
46 26 0.22
47 52 0.43
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:5411214 original size:15 final size:15
Alignment explanation
Indices: 5411194--5411229 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
5411184 GAGCAGGGGA
*
5411194 AAGAAAGAAGGAAGG
1 AAGAAAGAAAGAAGG
5411209 AAGAAAGAAAGAAGG
1 AAGAAAGAAAGAAGG
5411224 AA-AAAG
1 AAGAAAG
5411230 GGAAAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
AAGAAAGAAAGAAGG
Found at i:5411815 original size:51 final size:53
Alignment explanation
Indices: 5411739--5411854 Score: 146
Period size: 51 Copynumber: 2.2 Consensus size: 53
5411729 ATCTGTCGAC
* *
5411739 TACTGTGACCGTTCCGGATTCGTTCCGAAGAGGTAC-TCTGTACC-TGACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTTCTGTACCGTGACTGT
* * * *
5411790 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTTTGTGTACCGTTACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTAC-TTCTGTACCGTGACTGT
*
5411844 TACTATTACTG
1 TACTGTTACTG
5411855 ATACAGTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
51 32 0.58
53 7 0.13
54 16 0.29
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (53 bp):
TACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTTCTGTACCGTGACTGT
Found at i:5419184 original size:16 final size:16
Alignment explanation
Indices: 5419163--5419196 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5419153 TTGTTGGATA
*
5419163 TGAATGTGTTTAGTAC
1 TGAATGTGCTTAGTAC
5419179 TGAATGTGCTTAGTAC
1 TGAATGTGCTTAGTAC
5419195 TG
1 TG
5419197 TTATCAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (16 bp):
TGAATGTGCTTAGTAC
Found at i:5424695 original size:27 final size:27
Alignment explanation
Indices: 5424665--5424768 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
5424655 ATTTATAGTA
5424665 TATTAGTTTTGTTATATAAATTTAATT
1 TATTAGTTTTGTTATATAAATTTAATT
* * * *
5424692 TATTTA-TTTAGTTATATCAACTCAATT
1 TA-TTAGTTTTGTTATATAAATTTAATT
* * *
5424719 AATT-GTTTTATT-TAT-AATATTAATA
1 TATTAGTTTTGTTATATAAAT-TTAATT
* * *
5424744 TATTAATTATGTTACATAAATTTAA
1 TATTAGTTTTGTTATATAAATTTAA
5424769 AAAAAATTCA
Statistics
Matches: 56, Mismatches: 15, Indels: 12
0.67 0.18 0.14
Matches are distributed among these distances:
24 2 0.04
25 10 0.18
26 12 0.21
27 26 0.46
28 6 0.11
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (27 bp):
TATTAGTTTTGTTATATAAATTTAATT
Found at i:5424783 original size:10 final size:11
Alignment explanation
Indices: 5424761--5424790 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5424751 TATGTTACAT
*
5424761 AAATTTAAAAA
1 AAATTCAAAAA
5424772 AAATTCAAAAA
1 AAATTCAAAAA
5424783 AAATTCAA
1 AAATTCAA
5424791 CTTATTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:5429153 original size:46 final size:45
Alignment explanation
Indices: 5429086--5429258 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
5429076 TTGGGCATCT
*
5429086 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*** * *
5429132 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
*
5429179 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
* *
5429224 TGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
5429259 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 63 0.59
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:5429238 original size:93 final size:93
Alignment explanation
Indices: 5429079--5429251 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
5429069 AGGATATTTG
* * *
5429079 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
5429144 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
5429172 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
5429236 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
5429252 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:5431763 original size:3 final size:3
Alignment explanation
Indices: 5431755--5431801 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
5431745 AAATAGCCTC
* * * *
5431755 AAT AAT AAT AAT AAT AAT AAT GAT GAT AAT ATT AAT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5431802 GTAGTCTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5432135 original size:13 final size:11
Alignment explanation
Indices: 5432106--5432145 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
5432096 AAATGGTTTT
5432106 ATAATAATAATA
1 ATAATAATAA-A
5432118 ATAATAAGGTAAA
1 ATAATAA--TAAA
5432131 ATAATAATAAA
1 ATAATAATAAA
5432142 ATAA
1 ATAA
5432146 CAAAAGCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 8 0.31
12 7 0.27
13 8 0.31
14 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:5432150 original size:19 final size:21
Alignment explanation
Indices: 5432108--5432150 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
5432098 ATGGTTTTAT
*
5432108 AATAATAATAATAATAAGGTAA
1 AATAATAATAATAATAA-GCAA
5432130 AATAATAATAA-AATAA-CAA
1 AATAATAATAATAATAAGCAA
5432149 AA
1 AA
5432151 GCACTATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (21 bp):
AATAATAATAATAATAAGCAA
Found at i:5432230 original size:3 final size:3
Alignment explanation
Indices: 5432219--5432280 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
5432209 ATAGTAAATG
* *
5432219 TAA TAAA TAA TAA TAA TAA TAG TAA TAA -AA TAA TAA TAA TAC TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
5432264 T-A TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
5432281 AAACAGCACT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:5432233 original size:22 final size:23
Alignment explanation
Indices: 5432205--5432259 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 23
5432195 TATTATATAG
*
5432205 AATAATAGTAA-ATGTAAT-AAAT
1 AATAATAATAATA-GTAATAAAAT
5432227 AATAATAATAATAGTAATAAAAT
1 AATAATAATAATAGTAATAAAAT
5432250 AATAATAATA
1 AATAATAATA
5432260 CTAATATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (23 bp):
AATAATAATAATAGTAATAAAAT
Found at i:5433744 original size:21 final size:21
Alignment explanation
Indices: 5433713--5433938 Score: 178
Period size: 21 Copynumber: 11.0 Consensus size: 21
5433703 TTTTACTTTA
5433713 TGTTCAGCTCTTATGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
* * *
5433734 TATTCAACTCTTATGAGTTTC
1 TGTTCAGCTCTTATGAGCTTC
* *
5433755 TGTTTAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
* * * *
5433776 TATTTAGCT-TT-CGAGCTTT
1 TGTTCAGCTCTTATGAGCTTC
* *
5433795 TGTTCAACTCTTATGAGTTTC
1 TGTTCAGCTCTTATGAGCTTC
* * * *
5433816 TGTTTAGCTTTTACGAGCTTA
1 TGTTCAGCTCTTATGAGCTTC
*
5433837 TGTTCAACT-TT-TGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
* * *
5433856 TGTTCAACTCTTATGAGTTTT
1 TGTTCAGCTCTTATGAGCTTC
* *
5433877 TGTTTAGCTATTATGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
* *
5433898 TATTCAG-T-TT-TCGAGTTTC
1 TGTTCAGCTCTTAT-GAGCTTC
*
5433917 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
5433938 T
1 T
5433939 ATTGGTGTAT
Statistics
Matches: 158, Mismatches: 39, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
18 1 0.01
19 42 0.27
20 10 0.06
21 105 0.66
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.47
Consensus pattern (21 bp):
TGTTCAGCTCTTATGAGCTTC
Found at i:5433822 original size:40 final size:42
Alignment explanation
Indices: 5433710--5433938 Score: 155
Period size: 40 Copynumber: 5.6 Consensus size: 42
5433700 GTGTTTTACT
* * * * * * *
5433710 TTATGTTCAGCTCTTATGAGCTTCTATTCAACTCTTATGAGT
1 TTATGTTCAACTCTTATGAGCTTCTGTTTAGCTTTTACGAGC
* * * * *
5433752 TTCTGTTTAGCTCTTACGAGCTTCTATTTAGC-TTT-CGAGC
1 TTATGTTCAACTCTTATGAGCTTCTGTTTAGCTTTTACGAGC
* *
5433792 TTTTGTTCAACTCTTATGAGTTTCTGTTTAGCTTTTACGAGC
1 TTATGTTCAACTCTTATGAGCTTCTGTTTAGCTTTTACGAGC
* * * * *
5433834 TTATGTTCAACT-TT-TGAGCTTCTGTTCAACTCTTATGAGT
1 TTATGTTCAACTCTTATGAGCTTCTGTTTAGCTTTTACGAGC
* * * * * * *
5433874 TTTTGTTTAGCTATTATGAGCTTCTATTCAG-TTTT-CGAGT
1 TTATGTTCAACTCTTATGAGCTTCTGTTTAGCTTTTACGAGC
* * *
5433914 TTCTGTTCAGCTCTTACGAGCTTCT
1 TTATGTTCAACTCTTATGAGCTTCT
5433939 ATTGGTGTAT
Statistics
Matches: 151, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
40 83 0.55
41 12 0.08
42 56 0.37
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (42 bp):
TTATGTTCAACTCTTATGAGCTTCTGTTTAGCTTTTACGAGC
Found at i:5433822 original size:61 final size:61
Alignment explanation
Indices: 5433727--5433938 Score: 280
Period size: 61 Copynumber: 3.5 Consensus size: 61
5433717 CAGCTCTTAT
* * *
5433727 GAGCTTCTATTCAACTCTTATGAGTTTCTGTTTAGCTCTTACGAGCTTCTATTTAGCTTTC
1 GAGCTTCTGTTCAACTCTTATGAGTTTCTGTTTAGCTATTACGAGCTTCTATTCAGCTTTC
* * * * * *
5433788 GAGCTTTTGTTCAACTCTTATGAGTTTCTGTTTAGCTTTTACGAGCTTATGTTCAACTTTT
1 GAGCTTCTGTTCAACTCTTATGAGTTTCTGTTTAGCTATTACGAGCTTCTATTCAGCTTTC
* * *
5433849 GAGCTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTATTATGAGCTTCTATTCAGTTTTC
1 GAGCTTCTGTTCAACTCTTATGAGTTTCTGTTTAGCTATTACGAGCTTCTATTCAGCTTTC
* * * *
5433910 GAGTTTCTGTTCAGCTCTTACGAGCTTCT
1 GAGCTTCTGTTCAACTCTTATGAGTTTCT
5433939 ATTGGTGTAT
Statistics
Matches: 129, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 129 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (61 bp):
GAGCTTCTGTTCAACTCTTATGAGTTTCTGTTTAGCTATTACGAGCTTCTATTCAGCTTTC
Found at i:5437066 original size:8 final size:9
Alignment explanation
Indices: 5437062--5437098 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
5437052 TTTAATAATA
5437062 AAAT-AAAT
1 AAATAAAAT
5437070 AAATAAAAT
1 AAATAAAAT
5437079 AAAT-AAAT
1 AAATAAAAT
*
5437087 AAATGAAAT
1 AAATAAAAT
5437096 AAA
1 AAA
5437099 AGAAATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:5437071 original size:4 final size:4
Alignment explanation
Indices: 5437062--5437098 Score: 56
Period size: 4 Copynumber: 8.8 Consensus size: 4
5437052 TTTAATAATA
5437062 AAAT AAAT AAAT AAAAT AAAT AAAT AAAT GAAAT AAA
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT -AAAT AAA
5437099 AGAAATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 23 0.74
5 8 0.26
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:5437076 original size:13 final size:13
Alignment explanation
Indices: 5437058--5437098 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
5437048 ATAGTTTAAT
5437058 AATAAAATAAATA
1 AATAAAATAAATA
5437071 AATAAAATAAATA
1 AATAAAATAAATA
5437084 AAT-AAATGAAATA
1 AATAAAAT-AAATA
5437097 AA
1 AA
5437099 AGAAATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 4 0.15
13 23 0.85
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
AATAAAATAAATA
Found at i:5437084 original size:17 final size:17
Alignment explanation
Indices: 5437062--5437098 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
5437052 TTTAATAATA
5437062 AAATAAATAAATAAAAT
1 AAATAAATAAATAAAAT
*
5437079 AAATAAATAAATGAAAT
1 AAATAAATAAATAAAAT
5437096 AAA
1 AAA
5437099 AGAAATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAATAAATAAATAAAAT
Found at i:5438384 original size:15 final size:15
Alignment explanation
Indices: 5438361--5438413 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
5438351 TTTATCAAAT
5438361 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* *
5438376 TTATTTTGATTGAAT
1 TTATATTGATTGAAA
*
5438391 TTATATTGACTGAAA
1 TTATATTGATTGAAA
5438406 TATATATT
1 T-TATATT
5438414 ATATATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 26 0.81
16 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:5439069 original size:18 final size:19
Alignment explanation
Indices: 5439046--5439086 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
5439036 AATGAAATGA
5439046 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
5439064 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
5439083 GAAA
1 GAAA
5439087 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:5441240 original size:35 final size:35
Alignment explanation
Indices: 5441201--5441269 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
5441191 ACTTGCCTCT
5441201 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
*
5441236 TCCCACTCTCTCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
5441270 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:5441805 original size:11 final size:11
Alignment explanation
Indices: 5441791--5441824 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
5441781 CCCTTCCCCT
5441791 TCCCTTCTCTC
1 TCCCTTCTCTC
5441802 TCCCTTCTCTC
1 TCCCTTCTCTC
5441813 TTCCC-TCTCTC
1 -TCCCTTCTCTC
5441824 T
1 T
5441825 TCTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 17 0.77
12 4 0.18
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:5441807 original size:22 final size:22
Alignment explanation
Indices: 5441781--5441824 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5441771 GGCCGGATTC
5441781 CCCTTC-CCCTTCCCTTCTCTCT
1 CCCTTCTCCCTTCCC-TCTCTCT
*
5441803 CCCTTCTCTCTTCCCTCTCTCT
1 CCCTTCTCCCTTCCCTCTCTCT
5441825 TCTTTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (22 bp):
CCCTTCTCCCTTCCCTCTCTCT
Found at i:5441825 original size:11 final size:11
Alignment explanation
Indices: 5441789--5441826 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
5441779 TCCCCTTCCC
5441789 CTTCCCT-TCT
1 CTTCCCTCTCT
5441799 CTCTCCCTTCTCT
1 CT-TCCC-TCTCT
5441812 CTTCCCTCTCT
1 CTTCCCTCTCT
5441823 CTTC
1 CTTC
5441827 TTTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.08
11 13 0.52
12 5 0.20
13 5 0.20
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
CTTCCCTCTCT
Found at i:5442310 original size:3 final size:3
Alignment explanation
Indices: 5442302--5442329 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
5442292 TTTATTTCAA
5442302 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
5442330 GTTCATTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:5447753 original size:20 final size:20
Alignment explanation
Indices: 5447728--5447767 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
5447718 CTCACTACTT
5447728 TGACAAAAGGGACGGGGCTA
1 TGACAAAAGGGACGGGGCTA
*
5447748 TGACAAAAGGGATGGGGCTA
1 TGACAAAAGGGACGGGGCTA
5447768 GTAAAAGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.40, T:0.12
Consensus pattern (20 bp):
TGACAAAAGGGACGGGGCTA
Found at i:5452469 original size:13 final size:13
Alignment explanation
Indices: 5452451--5452475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5452441 TATACTTCTT
5452451 TAAAAAAGTCCTA
1 TAAAAAAGTCCTA
5452464 TAAAAAAGTCCT
1 TAAAAAAGTCCT
5452476 GTCTATTTAA
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:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
TAAAAAAGTCCTA
Found at i:5466954 original size:26 final size:26
Alignment explanation
Indices: 5466925--5466976 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
5466915 AAATTTATTA
5466925 CTTTTAAAAATAATTTAAAAAAAAAT
1 CTTTTAAAAATAATTTAAAAAAAAAT
*
5466951 CTTTTAAAAATAATTTTAAAAAAAAT
1 CTTTTAAAAATAATTTAAAAAAAAAT
5466977 TATAAATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (26 bp):
CTTTTAAAAATAATTTAAAAAAAAAT
Found at i:5466959 original size:12 final size:13
Alignment explanation
Indices: 5466926--5466982 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 13
5466916 AATTTATTAC
5466926 TTTT-AAAAATAA
1 TTTTAAAAAATAA
*
5466938 -TTTAAAAAAAAA
1 TTTTAAAAAATAA
*
5466950 TCTTTTAAAAATAA
1 T-TTTAAAAAATAA
5466964 TTTTAAAAAA-AA
1 TTTTAAAAAATAA
*
5466976 TTATAAA
1 TTTTAAA
5466983 TCAAATTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
11 3 0.08
12 15 0.41
13 8 0.22
14 11 0.30
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TTTTAAAAAATAA
Found at i:5467364 original size:23 final size:24
Alignment explanation
Indices: 5467338--5467387 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
5467328 TATTATTATA
5467338 ATTCACCAAA-AAATTAAATTTGT
1 ATTCACCAAATAAATTAAATTTGT
** *
5467361 ATTCAGTAAATTAATTAAATTTGT
1 ATTCACCAAATAAATTAAATTTGT
5467385 ATT
1 ATT
5467388 TAGTAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (24 bp):
ATTCACCAAATAAATTAAATTTGT
Found at i:5467377 original size:24 final size:24
Alignment explanation
Indices: 5467349--5467397 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
5467339 TTCACCAAAA
5467349 AATTAAATTTGTATTCAGTAAATT
1 AATTAAATTTGTATTCAGTAAATT
*
5467373 AATTAAATTTGTATTTAGTAAATT
1 AATTAAATTTGTATTCAGTAAATT
5467397 A
1 A
5467398 GTGATGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (24 bp):
AATTAAATTTGTATTCAGTAAATT
Found at i:5476514 original size:19 final size:20
Alignment explanation
Indices: 5476474--5476514 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
5476464 AGAAACCTTT
*
5476474 TTCCCCATATTTTCTTGTTA
1 TTCCCCATATTATCTTGTTA
5476494 TTCCCC-TATTAT-TTGTATA
1 TTCCCCATATTATCTTGT-TA
5476513 TT
1 TT
5476515 GTGTTGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.17, C:0.22, G:0.05, T:0.56
Consensus pattern (20 bp):
TTCCCCATATTATCTTGTTA
Found at i:5477335 original size:29 final size:29
Alignment explanation
Indices: 5477293--5477348 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
5477283 CTACAAATAA
5477293 TGTTTTAACTCTATAGTTATTCAGGATTG
1 TGTTTTAACTCTATAGTTATTCAGGATTG
5477322 TGTTTTAACTCTATAGTTATTCAGGAT
1 TGTTTTAACTCTATAGTTATTCAGGAT
5477349 AACCAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (29 bp):
TGTTTTAACTCTATAGTTATTCAGGATTG
Found at i:5482273 original size:24 final size:24
Alignment explanation
Indices: 5482239--5482289 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
5482229 GTGGCTGAAG
5482239 CTCTTCCTCTTCATCCTCATCTTC
1 CTCTTCCTCTTCATCCTCATCTTC
* * *
5482263 CTCTTCTTCTTCTTCCTCCTCTTC
1 CTCTTCCTCTTCATCCTCATCTTC
5482287 CTC
1 CTC
5482290 ACCATCATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.04, C:0.47, G:0.00, T:0.49
Consensus pattern (24 bp):
CTCTTCCTCTTCATCCTCATCTTC
Found at i:5482332 original size:15 final size:15
Alignment explanation
Indices: 5482312--5482340 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5482302 GTCGTCATCG
5482312 TCATCATCCTCGTCC
1 TCATCATCCTCGTCC
5482327 TCATCATCCTCGTC
1 TCATCATCCTCGTC
5482341 TCCACTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.45, G:0.07, T:0.34
Consensus pattern (15 bp):
TCATCATCCTCGTCC
Found at i:5482459 original size:21 final size:21
Alignment explanation
Indices: 5482406--5482460 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
5482396 TCACCAGATG
*
5482406 CATCCTCCTCATCTGCATCTT
1 CATCTTCCTCATCTGCATCTT
** *
5482427 CATCTTGATCATCT-CCTGCTT
1 CATCTTCCTCATCTGCAT-CTT
5482448 CATCTTCCTCATC
1 CATCTTCCTCATC
5482461 CTCATCATCC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.15, C:0.40, G:0.05, T:0.40
Consensus pattern (21 bp):
CATCTTCCTCATCTGCATCTT
Found at i:5492444 original size:18 final size:17
Alignment explanation
Indices: 5492402--5492450 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 17
5492392 AAAAAGTTCA
5492402 TAAATATTTTTAAAAATT
1 TAAAT-TTTTTAAAAATT
*
5492420 AATAATTTTTTAAAAATTT
1 TA-AATTTTTTAAAAA-TT
5492439 TAAATTATTTTA
1 TAAATT-TTTTA
5492451 CCATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATTTTTTAAAAATT
Found at i:5498952 original size:17 final size:17
Alignment explanation
Indices: 5498930--5498962 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5498920 ATTTTTTTAA
5498930 TAAATAATTA-TTAAATT
1 TAAAT-ATTAGTTAAATT
5498947 TAAATATTAGTTAAAT
1 TAAATATTAGTTAAAT
5498963 CAGATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAATATTAGTTAAATT
Found at i:5500229 original size:24 final size:24
Alignment explanation
Indices: 5500197--5500245 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
5500187 ATAAAAGAAG
5500197 TTGAAGAGTAAAAAGCTTTACCTA
1 TTGAAGAGTAAAAAGCTTTACCTA
5500221 TTGAAGAGTAAAAAGCTTTACCTA
1 TTGAAGAGTAAAAAGCTTTACCTA
5500245 T
1 T
5500246 CTTAGTAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (24 bp):
TTGAAGAGTAAAAAGCTTTACCTA
Found at i:5516994 original size:39 final size:40
Alignment explanation
Indices: 5516951--5517062 Score: 104
Period size: 39 Copynumber: 2.8 Consensus size: 40
5516941 TCGGATAGTT
*
5516951 CGAAGTAATAGTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGC
** * ** * *
5516990 CGAAGTAA-AGTTGGTACCCGGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGC
*
5517029 CGAAGAAATA-TAGTGACACCCAGTGTCTCATCGA
1 CGAAGTAATAGT--TGACACCCAGTGTCTCATCGA
5517063 CTCGAGGTCG
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
38 18 0.33
39 20 0.36
40 1 0.02
41 16 0.29
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:5518642 original size:5 final size:5
Alignment explanation
Indices: 5518624--5518664 Score: 73
Period size: 5 Copynumber: 8.0 Consensus size: 5
5518614 TTTCTTTTAT
5518624 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA
5518665 CTTAATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 30 0.86
6 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:5522265 original size:19 final size:20
Alignment explanation
Indices: 5522229--5522268 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5522219 AAAATAATAT
*
5522229 AAAATTTTAAAGTATTTATA
1 AAAATTTCAAAGTATTTATA
*
5522249 AAAATTTCAAA-TTTTTATA
1 AAAATTTCAAAGTATTTATA
5522268 A
1 A
5522269 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
AAAATTTCAAAGTATTTATA
Found at i:5524901 original size:16 final size:16
Alignment explanation
Indices: 5524882--5524932 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
5524872 AGAGTGAAAT
5524882 AAAATTAGAAAAATAA
1 AAAATTAGAAAAATAA
**
5524898 AAAATT-GAAAGGTTAA
1 AAAATTAGAAA-AATAA
5524914 AAAA-TAGAAAAATAA
1 AAAATTAGAAAAATAA
5524929 AAAA
1 AAAA
5524933 ATTTCATCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (16 bp):
AAAATTAGAAAAATAA
Found at i:5524934 original size:16 final size:15
Alignment explanation
Indices: 5524878--5524932 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
5524868 TGATAGAGTG
*
5524878 AAAT-AAAATTAGAA
1 AAATAAAAAATAGAA
*
5524892 AAATAAAAAATTGAA
1 AAATAAAAAATAGAA
**
5524907 AGGTTAAAAAATAGAA
1 A-AATAAAAAATAGAA
5524923 AAATAAAAAA
1 AAATAAAAAA
5524933 ATTTCATCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
14 4 0.12
15 16 0.50
16 12 0.38
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (15 bp):
AAATAAAAAATAGAA
Found at i:5535110 original size:13 final size:15
Alignment explanation
Indices: 5535092--5535123 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
5535082 CGAGGGTGCC
5535092 TTTTTCTCT-TTTT-
1 TTTTTCTCTCTTTTA
5535105 TTTTTCTCTCTTTTA
1 TTTTTCTCTCTTTTA
5535120 TTTT
1 TTTT
5535124 GATTTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTCTCTCTTTTA
Found at i:5538060 original size:20 final size:19
Alignment explanation
Indices: 5538014--5538066 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
5538004 TCATTTCAAA
*
5538014 CCAACTTATACAT-ATATT
1 CCAACATATACATGATATT
*
5538032 CAAATCATATACATGATATT
1 CCAA-CATATACATGATATT
5538052 GCCAACATATA-ATGA
1 -CCAACATATACATGA
5538067 CATACCATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 11 0.38
21 3 0.10
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (19 bp):
CCAACATATACATGATATT
Found at i:5544030 original size:39 final size:37
Alignment explanation
Indices: 5543962--5544055 Score: 100
Period size: 39 Copynumber: 2.5 Consensus size: 37
5543952 ACCAATATGG
*
5543962 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGCTAG--CGAAGTAATAGTTGA
* *
5544001 CACCCAGTGTCTCATCGGCCTAGCGGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGC-GAAGTAATAGTTGA
* *
5544039 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
5544056 AATCTATCCG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
38 20 0.43
39 24 0.51
40 3 0.06
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGCTAGCGAAGTAATAGTTGA
Found at i:5545330 original size:5 final size:5
Alignment explanation
Indices: 5545320--5545347 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
5545310 TTTATATATA
5545320 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
5545348 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:5549964 original size:6 final size:6
Alignment explanation
Indices: 5549955--5549982 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
5549945 ATAGTCTTAG
5549955 TCTTTC TCTTTC TCTTTC TCTTTC TCTT
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTT
5549983 GTCAGTCATA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTTTC
Found at i:5560193 original size:16 final size:17
Alignment explanation
Indices: 5560172--5560206 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
5560162 TAATGTCTAG
5560172 GAAAATTA-TTAATTGA
1 GAAAATTACTTAATTGA
5560188 GAAAATTATCTTAATTGA
1 GAAAATTA-CTTAATTGA
5560206 G
1 G
5560207 GGGTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (17 bp):
GAAAATTACTTAATTGA
Found at i:5561339 original size:50 final size:50
Alignment explanation
Indices: 5561264--5561540 Score: 455
Period size: 50 Copynumber: 5.5 Consensus size: 50
5561254 CCATGGCAAC
* *
5561264 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
5561314 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
5561364 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
5561414 AAGTGGTAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
5561464 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
5561515 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
5561541 CTGATCAATG
Statistics
Matches: 212, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
50 189 0.89
51 23 0.11
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:5561558 original size:31 final size:31
Alignment explanation
Indices: 5561520--5561578 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
5561510 ATGGCAAGTA
5561520 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
5561551 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
5561579 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:5561586 original size:46 final size:46
Alignment explanation
Indices: 5561533--5561624 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
5561523 AGTGGTAGCT
* *
5561533 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
* * *
5561579 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
5561625 GTGAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
Found at i:5561628 original size:31 final size:31
Alignment explanation
Indices: 5561580--5561648 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
5561570 ACCTGATCAT
* * *
5561580 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
5561611 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
5561642 CGGCTAC
1 CGGCTAC
5561649 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:5563742 original size:38 final size:39
Alignment explanation
Indices: 5563658--5563792 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
5563648 ACAAATATGG
*
5563658 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
5563697 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
5563735 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
5563776 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
5563793 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:5578750 original size:36 final size:36
Alignment explanation
Indices: 5578710--5578783 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
5578700 TCATTACAGT
5578710 AGTAATCAACGTATATATGGTAGCTAAAAGGGTCAG
1 AGTAATCAACGTATATATGGTAGCTAAAAGGGTCAG
5578746 AGTAATCAACGTATATATGGTAGCTAAAAGGGTCAG
1 AGTAATCAACGTATATATGGTAGCTAAAAGGGTCAG
5578782 AG
1 AG
5578784 AAACAAAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (36 bp):
AGTAATCAACGTATATATGGTAGCTAAAAGGGTCAG
Found at i:5607632 original size:96 final size:96
Alignment explanation
Indices: 5607468--5607660 Score: 305
Period size: 96 Copynumber: 2.0 Consensus size: 96
5607458 TCAAGTTTAG
* * * *
5607468 TGAAGGTGAAAACTTAGCTATGGAACCATCAGTTATTGAAAAGGAAGGGTATCTTATGGTCCAAC
1 TGAAGATGAAAACTTAGCAATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
*
5607533 CTAGTCGACAGGGAAGTTACATTCCTGATAA
66 CTAGGCGACAGGGAAGTTACATTCCTGATAA
* *
5607564 TGAAGATGAAAACTTTGCAATGGAACCATCGGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
1 TGAAGATGAAAACTTAGCAATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
* *
5607629 CTAGGCGACAGGGAAGTTATATTCCTGGTAA
66 CTAGGCGACAGGGAAGTTACATTCCTGATAA
5607660 T
1 T
5607661 CTTGGCTCAT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (96 bp):
TGAAGATGAAAACTTAGCAATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
CTAGGCGACAGGGAAGTTACATTCCTGATAA
Found at i:5627200 original size:4 final size:4
Alignment explanation
Indices: 5627191--5627224 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
5627181 TTGTCAATTG
5627191 CATA CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CA
5627225 ATCAAAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:5634330 original size:20 final size:21
Alignment explanation
Indices: 5634305--5634344 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
5634295 CGTTGAGTTT
*
5634305 GTGGCA-GGGTCTCAAGGATA
1 GTGGCATGGATCTCAAGGATA
5634325 GTGGCATTGGATCTCAAGGA
1 GTGGCA-TGGATCTCAAGGA
5634345 ATCACCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.25, C:0.15, G:0.38, T:0.23
Consensus pattern (21 bp):
GTGGCATGGATCTCAAGGATA
Found at i:5636750 original size:21 final size:19
Alignment explanation
Indices: 5636725--5636763 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
5636715 AAATTATATG
5636725 AATAAAAAATGATCTTTTAAT
1 AATAAAAAATG-T-TTTTAAT
*
5636746 AATAAATAATGTTTTTAA
1 AATAAAAAATGTTTTTAA
5636764 CTATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (19 bp):
AATAAAAAATGTTTTTAAT
Found at i:5637248 original size:59 final size:58
Alignment explanation
Indices: 5637172--5637284 Score: 208
Period size: 59 Copynumber: 1.9 Consensus size: 58
5637162 ATGTTTTTCT
*
5637172 ATAACCAATTAGGAGTAAACAATTATTAAATACCCCGTCAATCATCTTGTTCATAATC
1 ATAACCAATTAGGAGTAAACAATTATTAAATACCCCGTCAATCATCTTCTTCATAATC
5637230 ATAACCAAATTAGGAGTAAACAATTATTAAATACCCCGTCAATCATCTTCTTCAT
1 ATAACC-AATTAGGAGTAAACAATTATTAAATACCCCGTCAATCATCTTCTTCAT
5637285 GTCAATTATG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
58 6 0.11
59 47 0.89
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (58 bp):
ATAACCAATTAGGAGTAAACAATTATTAAATACCCCGTCAATCATCTTCTTCATAATC
Found at i:5685954 original size:21 final size:21
Alignment explanation
Indices: 5685928--5685971 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
5685918 ATAAGAACAA
5685928 AAACTAGTATTTAATTCAAAC
1 AAACTAGTATTTAATTCAAAC
5685949 AAACTAGTATTTAATTCAAAC
1 AAACTAGTATTTAATTCAAAC
5685970 AA
1 AA
5685972 CTGATTGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.32
Consensus pattern (21 bp):
AAACTAGTATTTAATTCAAAC
Found at i:5690935 original size:12 final size:12
Alignment explanation
Indices: 5690918--5690943 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5690908 CAAAACAGGC
5690918 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5690930 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5690942 TT
1 TT
5690944 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:5691129 original size:73 final size:72
Alignment explanation
Indices: 5691010--5691178 Score: 239
Period size: 73 Copynumber: 2.3 Consensus size: 72
5691000 AAAAAAAGCA
* * * *
5691010 TTAGCGGCGTTTTTGAGCAAAGCGCCGCAAATAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTG-GTAAAGCGCCGCAAAAAACCCAAGCCCAACGACGCCGTTTTCTGAACTT
* *
5691075 TCGGGGAT
65 TCAGAGAT
* *
5691083 TTAGCGACGTTTTTGGTAAAGCGCCGCAAAAAAACCCAAGCCCAACGATGCCGTTTTCTGAACTT
1 TTAGCGGCGTTTTTGGTAAAGCGCCGC-AAAAAACCCAAGCCCAACGACGCCGTTTTCTGAACTT
5691148 TCAGAGAT
65 TCAGAGAT
*
5691156 TTAGCGGCGTTTTTTGTAAAGCG
1 TTAGCGGCGTTTTTGGTAAAGCG
5691179 TCGCTAAAGG
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
72 11 0.13
73 74 0.87
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (72 bp):
TTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAACCCAAGCCCAACGACGCCGTTTTCTGAACTTT
CAGAGAT
Found at i:5691403 original size:20 final size:20
Alignment explanation
Indices: 5691368--5691405 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5691358 AAAACGCCGC
**
5691368 AAAAAATAAATCAATTTATA
1 AAAAAATAAAAAAATTTATA
5691388 AAAAAATAAAAAAATTTA
1 AAAAAATAAAAAAATTTA
5691406 GAATAGCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAATAAAAAAATTTATA
Found at i:5691613 original size:147 final size:146
Alignment explanation
Indices: 5691174--5691977 Score: 1416
Period size: 147 Copynumber: 5.5 Consensus size: 146
5691164 GTTTTTTGTA
*
5691174 AAGCGTCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
*
5691239 TATAAAAAAAT-AAAAAATTTTAGAATAGCAAAGCGGCGTCGTTTTGTTCAAAATGAAAAAATTT
66 TATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
*
5691303 TGCGGCGCTTTATATG
131 TGCGGCGCTTTATAAG
5691319 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
*
5691384 TATAAAAAAATAAAAAAA-TTTAGAATAGCAAAAAGGCGTCGTTTTGTTCAAAATGAAAAAATTT
66 TATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
*
5691448 TGCGGCTCTTTATAAG
131 TGCGGCGCTTTATAAG
*
5691464 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATATAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
5691529 TATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
66 TAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
5691594 TTGCGGCGCTTTATAAG
130 TTGCGGCGCTTTATAAG
* *
5691611 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATCAACT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
* * *
5691676 TATAAAAAAAT-AAAAAATTGTTAGAATAGCAGAATGGCGTCGTTTTTTTCAAAATGAAAAAATT
66 TATAAAAAAATAAAAAAATT-TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
5691740 TTGCGGCGCTTTATAAG
130 TTGCGGCGCTTTATAAG
*
5691757 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATATAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
* **
5691822 TATAAAAAAAAAAATAAAAAATTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
66 TATAAAAAAATAAA-AAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
5691887 TTGCGGCGCTTTATAAG
130 TTGCGGCGCTTTATAAG
*
5691904 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
5691969 TATAAAAAA
66 TATAAAAAA
5691978 TTTCCCAAAT
Statistics
Matches: 628, Mismatches: 25, Indels: 10
0.95 0.04 0.02
Matches are distributed among these distances:
145 208 0.33
146 159 0.25
147 257 0.41
148 4 0.01
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (146 bp):
AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
TATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
TGCGGCGCTTTATAAG
Found at i:5691854 original size:293 final size:291
Alignment explanation
Indices: 5691174--5691977 Score: 1448
Period size: 293 Copynumber: 2.8 Consensus size: 291
5691164 GTTTTTTGTA
* *
5691174 AAGCGTCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATATAAACGCCGCAAAAAATAAATCAATT
* *
5691239 TAT-AAAAAAATAAAAAATTTTAGAATAGCAAAGCGGCGTCGTTTTGTTCAAAATGAAAAAATTT
66 TATAAAAAAAAAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
* *
5691303 TGCGGCGCTTTATATGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGC
131 TGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGC
5691368 AAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTAGAATAGCAAAAAGGCGTCGTTTTGTTC
196 AAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTAGAATAGCAAAAAGGCGTCGTTTTGTTC
*
5691433 AAAATGAAAAAATTTTGCGGCTCTTTATAAG
261 AAAATGAAAAAATTTTGCGGCGCTTTATAAG
5691464 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATATAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATATAAACGCCGCAAAAAATAAATCAATT
5691529 TATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
66 TATAAAAAAAA-AAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
5691594 TTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCG
130 TTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCG
* * * * *
5691659 CAAAAAATAAATCAACTTATAAAAAAATAAAAAATTGTTAGAATAGCAGAATGGCGTCGTTTTTT
195 CAAAAAATAAATCAATTTATAAAAAAATAAAAAAAT-TTAGAATAGCAAAAAGGCGTCGTTTTGT
5691724 TCAAAATGAAAAAATTTTGCGGCGCTTTATAAG
259 TCAAAATGAAAAAATTTTGCGGCGCTTTATAAG
5691757 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATATAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATATAAACGCCGCAAAAAATAAATCAATT
**
5691822 TATAAAAAAAAAAATAAAAAATTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
66 TATAAAAAAAAAAA-AAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
5691887 TTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCG
130 TTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCG
5691952 CAAAAAATAAATCAATTTATAAAAAA
195 CAAAAAATAAATCAATTTATAAAAAA
5691978 TTTCCCAAAT
Statistics
Matches: 495, Mismatches: 15, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
290 66 0.13
291 7 0.01
292 151 0.31
293 271 0.55
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (291 bp):
AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATATAAACGCCGCAAAAAATAAATCAATT
TATAAAAAAAAAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
TGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGC
AAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTAGAATAGCAAAAAGGCGTCGTTTTGTTC
AAAATGAAAAAATTTTGCGGCGCTTTATAAG
Found at i:5692572 original size:14 final size:15
Alignment explanation
Indices: 5692544--5692576 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
5692534 AAGTTTTATA
5692544 GATTATGGAATTAGG
1 GATTATGGAATTAGG
5692559 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
5692573 GATT
1 GATT
5692577 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:5692618 original size:14 final size:14
Alignment explanation
Indices: 5692599--5692634 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5692589 TTAATGTGAT
* *
5692599 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
5692613 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
5692627 TTAAGGGT
1 TTAAGGGT
5692635 CAAGTTAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:5692950 original size:21 final size:21
Alignment explanation
Indices: 5692926--5693004 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
5692916 TGGGTTTAAA
*
5692926 GGTTAGGATTTAAGGTTTAGG
1 GGTTAGGAGTTAAGGTTTAGG
* *
5692947 GGTTAGTG-GTTAGGGGTTAGG
1 GGTTAG-GAGTTAAGGTTTAGG
* *
5692968 GGTTAAGAGTTAGGGATTTAGG
1 GGTTAGGAGTTAAGG-TTTAGG
* *
5692990 GGTTATGACTTAAGG
1 GGTTAGGAGTTAAGG
5693005 ATTCAAGGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
20 1 0.02
21 28 0.60
22 18 0.38
ACGTcount: A:0.23, C:0.01, G:0.42, T:0.34
Consensus pattern (21 bp):
GGTTAGGAGTTAAGGTTTAGG
Found at i:5692952 original size:7 final size:7
Alignment explanation
Indices: 5692942--5692994 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
5692932 GATTTAAGGT
5692942 TTAGGGG
1 TTAGGGG
*
5692949 TTAGTGG
1 TTAGGGG
5692956 TTAGGGG
1 TTAGGGG
5692963 TTAGGGG
1 TTAGGGG
* *
5692970 TTAAGAG
1 TTAGGGG
*
5692977 TTAGGGAT
1 TTAGGG-G
5692985 TTAGGGG
1 TTAGGGG
5692992 TTA
1 TTA
5692995 TGACTTAAGG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Done.