Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 156 of 204
Found at i:47421214 original size:25 final size:23
Alignment explanation
Indices: 47421165--47421215 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
47421155 TATATTTTTA
* *
47421165 TATTTTTCTTATGTTCATAAGTG
1 TATTTTTCTTATATTCATAAATG
*
47421188 TATTTTTTTTATATTCATATTAATG
1 TATTTTTCTTATATTCATA--AATG
47421213 TAT
1 TAT
47421216 ATATTATGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
25 6 0.26
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (23 bp):
TATTTTTCTTATATTCATAAATG
Found at i:47421416 original size:15 final size:15
Alignment explanation
Indices: 47421393--47421425 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47421383 GTGATATGCC
47421393 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
47421408 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
47421423 ATT
1 ATT
47421426 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:47421817 original size:98 final size:98
Alignment explanation
Indices: 47421699--47421895 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
47421689 TTAAAAATAA
* * *
47421699 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
47421764 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
47421797 TAAAGGAAATATTCTAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
47421862 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
47421895 T
1 T
47421896 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:47422455 original size:29 final size:27
Alignment explanation
Indices: 47422423--47422498 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 27
47422413 ACTTTAAATA
47422423 TATAGTTATATATTTTATTATCTTA-TGTT
1 TATA-TTATATATTTTATTATC-TACTG-T
*
47422452 TATATTTATCTATTTTTAATTATCTACTGT
1 TATA-TTATATA-TTTT-ATTATCTACTGT
*
47422482 TATATTATAAATTTTAT
1 TATATTATATATTTTAT
47422499 ATATGAACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.05
28 4 0.10
29 15 0.38
30 11 0.28
31 8 0.20
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (27 bp):
TATATTATATATTTTATTATCTACTGT
Found at i:47423805 original size:17 final size:17
Alignment explanation
Indices: 47423783--47423817 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47423773 TAGGAACCTT
*
47423783 AACCTAAACTTAGTTTG
1 AACCTAAACTTAATTTG
47423800 AACCTAAACTTAATTTG
1 AACCTAAACTTAATTTG
47423817 A
1 A
47423818 CTACCTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (17 bp):
AACCTAAACTTAATTTG
Found at i:47428394 original size:51 final size:51
Alignment explanation
Indices: 47428318--47428416 Score: 198
Period size: 51 Copynumber: 1.9 Consensus size: 51
47428308 TATTGGCATA
47428318 GCCAATACACCCCTAATTGGTGGGCCCCACTTATTACGCCTCTAATCCTAT
1 GCCAATACACCCCTAATTGGTGGGCCCCACTTATTACGCCTCTAATCCTAT
47428369 GCCAATACACCCCTAATTGGTGGGCCCCACTTATTACGCCTCTAATCC
1 GCCAATACACCCCTAATTGGTGGGCCCCACTTATTACGCCTCTAATCC
47428417 GTTGTTTGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.26
Consensus pattern (51 bp):
GCCAATACACCCCTAATTGGTGGGCCCCACTTATTACGCCTCTAATCCTAT
Found at i:47431845 original size:41 final size:41
Alignment explanation
Indices: 47431787--47431967 Score: 119
Period size: 41 Copynumber: 4.5 Consensus size: 41
47431777 ATTGAAATTA
*
47431787 TATATTTTATTA-AATTATATTTAATAATAATTATGTTAAAT
1 TATATTTTA-TAGTATTATATTTAATAATAATTATGTTAAAT
* * *
47431828 TATATTTTATAGTATTATATATT-ATGAT-TTTA-G-GAAAT
1 TATATTTTATAGTATTATAT-TTAATAATAATTATGTTAAAT
* * * * * * * *
47431866 TCATA--TAAGAATATT-TA-ATATTAAGAATTTTATTAAAT
1 T-ATATTTTATAGTATTATATTTAATAATAATTATGTTAAAT
* *
47431904 TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
1 TATAT-TTTATAGT--ATTATATTTAATAATAATTATGTTAAAT
47431948 TATATTTTATAGTATTATAT
1 TATATTTTATAGTATTATAT
47431968 ATTATGATTT
Statistics
Matches: 100, Mismatches: 26, Indels: 28
0.65 0.17 0.18
Matches are distributed among these distances:
34 1 0.01
35 2 0.02
36 4 0.04
37 10 0.10
38 10 0.10
39 4 0.04
40 8 0.08
41 27 0.27
42 5 0.05
43 8 0.08
44 21 0.21
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (41 bp):
TATATTTTATAGTATTATATTTAATAATAATTATGTTAAAT
Found at i:47431909 original size:37 final size:37
Alignment explanation
Indices: 47431862--47432029 Score: 88
Period size: 38 Copynumber: 4.3 Consensus size: 37
47431852 TGATTTTAGG
47431862 AAATTCATATAAGAATATTTAATATTAAGAATTTTATT
1 AAATT-ATATAAGAATATTTAATATTAAGAATTTTATT
**** * * *
47431900 AAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTT
1 AAATTATATAAGAATATT---TAATA-TTAAGAAT--TT-TATT
*** * **
47431944 AAATTATAT-TTTATAGTATTATATATTATG-ATTTTAGA
1 AAATTATATAAGAATA-T-TTA-ATATTAAGAATTTTATT
47431982 AAATTCATATAAGAATATTTAATATTAAGAATTTTATT
1 AAATT-ATATAAGAATATTTAATATTAAGAATTTTATT
*
47432020 AAATCATATA
1 AAATTATATA
47432030 TTTTAATTAA
Statistics
Matches: 96, Mismatches: 21, Indels: 27
0.67 0.15 0.19
Matches are distributed among these distances:
37 21 0.22
38 24 0.25
39 7 0.07
40 7 0.07
41 9 0.09
42 4 0.04
43 10 0.10
44 13 0.14
45 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (37 bp):
AAATTATATAAGAATATTTAATATTAAGAATTTTATT
Found at i:47431934 original size:120 final size:120
Alignment explanation
Indices: 47431781--47432186 Score: 690
Period size: 120 Copynumber: 3.4 Consensus size: 120
47431771 TAAGTAATTG
*
47431781 AAATTATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
*
47431845 TATATTATGATTTTAGGAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
* *
47431900 AAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
47431965 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
* * *
47432020 AAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTATC
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATT
* * * *
47432084 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
47432140 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
47432187 ATATGATTAA
Statistics
Matches: 272, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
119 16 0.06
120 254 0.93
121 2 0.01
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
Found at i:47432160 original size:18 final size:17
Alignment explanation
Indices: 47432132--47432166 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47432122 ATTATTAAGA
*
47432132 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47432149 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47432167 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47432387 original size:44 final size:45
Alignment explanation
Indices: 47432323--47432419 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 45
47432313 CTATTACACC
*
47432323 TCCATTCCATTCAACAAAACACA-AGA-ATACTATTACGCCTATAT
1 TCCATTACATTCAACAAAACA-ATAGATATACTATTACGCCTATAT
* * * * *
47432367 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACAAAACAATAGATATACTATTACGCCTATAT
47432412 TCCATTAC
1 TCCATTAC
47432420 GTCTCTATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.47
45 23 0.51
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACAAAACAATAGATATACTATTACGCCTATAT
Found at i:47432420 original size:16 final size:16
Alignment explanation
Indices: 47432399--47432447 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
47432389 TTGATTTGCT
47432399 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
47432415 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
*
47432431 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
47432447 A
1 A
47432448 ATACAGCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:47434592 original size:31 final size:31
Alignment explanation
Indices: 47434519--47434585 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
47434509 ACAATTTGGC
47434519 CACTAAACTATTTGAAAATTTTCATTTAAGT
1 CACTAAACTATTTGAAAATTTTCATTTAAGT
*
47434550 CACTAAACTATTT-AAAAGTTTTTATTTAAGT
1 CACTAAACTATTTGAAAA-TTTTCATTTAAGT
47434581 CACTA
1 CACTA
47434586 GGCTATTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (31 bp):
CACTAAACTATTTGAAAATTTTCATTTAAGT
Found at i:47436555 original size:19 final size:19
Alignment explanation
Indices: 47436533--47436580 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
47436523 ATGGTGTTTT
47436533 ATTAGTGGAACTGTGTGTG
1 ATTAGTGGAACTGTGTGTG
*
47436552 ATTAGTGAAACTGTGTGTG
1 ATTAGTGGAACTGTGTGTG
47436571 ATTAGTGGAA
1 ATTAGTGGAA
47436581 TCGTATGTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.33, T:0.35
Consensus pattern (19 bp):
ATTAGTGGAACTGTGTGTG
Found at i:47443912 original size:25 final size:25
Alignment explanation
Indices: 47443884--47443935 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
47443874 TATGTGTGGT
*
47443884 GAATAGAAATGGCTATAAATGATTG
1 GAATAGAAATGGATATAAATGATTG
47443909 GAATAGAAATGGATATAAATGATTG
1 GAATAGAAATGGATATAAATGATTG
47443934 GA
1 GA
47443936 TTAATACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.25, T:0.27
Consensus pattern (25 bp):
GAATAGAAATGGATATAAATGATTG
Found at i:47444836 original size:17 final size:17
Alignment explanation
Indices: 47444789--47444921 Score: 142
Period size: 17 Copynumber: 7.9 Consensus size: 17
47444779 TGACAATGTA
47444789 CGAGCTGTGTTTATATG
1 CGAGCTGTGTTTATATG
** * *
47444806 TTAGTTGTGCTTATATG
1 CGAGCTGTGTTTATATG
*
47444823 CGAGCTGTATTTATATG
1 CGAGCTGTGTTTATATG
* *
47444840 TGAGCTATGTTTATATG
1 CGAGCTGTGTTTATATG
*
47444857 CGAGTTGTGTTTATATG
1 CGAGCTGTGTTTATATG
*
47444874 CGAGCTGCG-TTATATG
1 CGAGCTGTGTTTATATG
* * * *
47444890 CGGGTTGTATTTATATA
1 CGAGCTGTGTTTATATG
47444907 CGAGCTGTGTTTATA
1 CGAGCTGTGTTTATA
47444922 AGTGAATTGT
Statistics
Matches: 90, Mismatches: 25, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
16 12 0.13
17 78 0.87
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.44
Consensus pattern (17 bp):
CGAGCTGTGTTTATATG
Found at i:47445117 original size:26 final size:27
Alignment explanation
Indices: 47445088--47445140 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
47445078 TTGTATGATG
*
47445088 TGTATGTGCGAGCT-CTCTGTAAAGTA
1 TGTAAGTGCGAGCTGCTCTGTAAAGTA
* *
47445114 TGTAAGTGTGAGCTGGTCTGTAAAGTA
1 TGTAAGTGCGAGCTGCTCTGTAAAGTA
47445141 ATAATATGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.25, C:0.11, G:0.30, T:0.34
Consensus pattern (27 bp):
TGTAAGTGCGAGCTGCTCTGTAAAGTA
Found at i:47446889 original size:38 final size:38
Alignment explanation
Indices: 47446846--47446990 Score: 209
Period size: 38 Copynumber: 3.8 Consensus size: 38
47446836 TGAAATACCA
47446846 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
* * *
47446884 TATATACTGAATGCTGCTCAGTCGAGCAAAATCTACTG
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
** * *
47446922 AATATACTGAACATTTCTCAATCGAGCAAAATCTATTG
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
* *
47446960 AATATACTGAATGTCGCTCAATTGAGCAAAA
1 AATATACTGAATGTTGCTCAATCGAGCAAAA
47446991 GAATTCACTG
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 92 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (38 bp):
AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
Found at i:47447808 original size:12 final size:12
Alignment explanation
Indices: 47447793--47447824 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
47447783 ATGGGTAGAC
*
47447793 ACACGGTTAGCA
1 ACACGGTCAGCA
47447805 ACACGGTCAGCA
1 ACACGGTCAGCA
47447817 ACACGGTC
1 ACACGGTC
47447825 GTGTGAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.12
Consensus pattern (12 bp):
ACACGGTCAGCA
Found at i:47448809 original size:3 final size:3
Alignment explanation
Indices: 47448801--47448839 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
47448791 TGTGCTGTGA
47448801 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47448840 TCTCATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:47448997 original size:4 final size:4
Alignment explanation
Indices: 47448988--47449021 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
47448978 TTCGTTGTCT
47448988 ATTA ATTA ATTA ATTA ATTA ATTA A--A ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
47449022 TGTAAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:47449340 original size:9 final size:9
Alignment explanation
Indices: 47449323--47449360 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
47449313 GACTAAGATT
47449323 TTCGAGTAA
1 TTCGAGTAA
*
47449332 TTCGGGTAA
1 TTCGAGTAA
*
47449341 TTCGGGTAA
1 TTCGAGTAA
47449350 TTCGAGTAA
1 TTCGAGTAA
47449359 TT
1 TT
47449361 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (9 bp):
TTCGAGTAA
Found at i:47454225 original size:20 final size:21
Alignment explanation
Indices: 47454176--47454225 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
47454166 AAATGCTCTA
*
47454176 ATTTTCTTTTTTTCTTCAATT
1 ATTTTCTTTTTTTCCTCAATT
*
47454197 -TTTTGTTTTTTTCCTC-ATCT
1 ATTTTCTTTTTTTCCTCAAT-T
47454217 ATTTT-TTTT
1 ATTTTCTTTT
47454226 ATCTTCTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.76
21 4 0.16
ACGTcount: A:0.10, C:0.14, G:0.02, T:0.74
Consensus pattern (21 bp):
ATTTTCTTTTTTTCCTCAATT
Found at i:47454240 original size:23 final size:23
Alignment explanation
Indices: 47454188--47454240 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
47454178 TTTCTTTTTT
* * *
47454188 TCTTCAATTTTTTGTTTTTTTCC
1 TCTTCTATTTTTTGTTATCTTCC
*
47454211 TCATCTATTTTTT-TTATCTTCTC
1 TCTTCTATTTTTTGTTATCTTC-C
47454234 TCTTCTA
1 TCTTCTA
47454241 ATCCAACAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.11, C:0.21, G:0.02, T:0.66
Consensus pattern (23 bp):
TCTTCTATTTTTTGTTATCTTCC
Found at i:47456587 original size:19 final size:20
Alignment explanation
Indices: 47456566--47456637 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
47456556 TTCCTATAAA
47456566 ATATTAAAAATCATAAAAA-
1 ATATTAAAAATCATAAAAAC
* *
47456585 ATATAAAAAATCAGAAAAAC
1 ATATTAAAAATCATAAAAAC
* *
47456605 ATTATCAAAATAT-ATAAAAAT
1 A-TATTAAAA-ATCATAAAAAC
47456626 ATATTTAAAAAT
1 ATA-TTAAAAAT
47456638 ATATGAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 17 0.40
20 5 0.12
21 19 0.44
22 2 0.05
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (20 bp):
ATATTAAAAATCATAAAAAC
Found at i:47456626 original size:10 final size:10
Alignment explanation
Indices: 47456563--47456762 Score: 91
Period size: 10 Copynumber: 20.3 Consensus size: 10
47456553 CTTTTCCTAT
47456563 AAAATAT-TA
1 AAAATATATA
47456572 AAAATCATA-A
1 AAAAT-ATATA
47456582 AAAATATA-A
1 AAAATATATA
*
47456591 AAAATCAGA-A
1 AAAAT-ATATA
*
47456601 AAACAT-TATC
1 AAA-ATATATA
47456611 AAAATATATA
1 AAAATATATA
47456621 AAAATATATTTA
1 AAAATATA--TA
*
47456633 AAAATATATG
1 AAAATATATA
*
47456643 AAAAT-TGGTA
1 AAAATAT-ATA
*
47456653 TAAACT-TATA
1 -AAAATATATA
*
47456663 AACATATA-A
1 AAAATATATA
* *
47456672 TAAAT-TATG
1 AAAATATATA
*
47456681 AAATTA-ATA
1 AAAATATATA
*
47456690 AAACATA-ATT
1 AAA-ATATATA
*
47456700 AAAATATTTA
1 AAAATATATA
* *
47456710 AAATTCTATA
1 AAAATATATA
*
47456720 AAAATGTATTA
1 AAAATATA-TA
*
47456731 AAATTATATA
1 AAAATATATA
*
47456741 AAAATATAAA
1 AAAATATATA
47456751 AAAATAT-TA
1 AAAATATATA
47456760 AAA
1 AAA
47456763 TTGGTATAAG
Statistics
Matches: 144, Mismatches: 31, Indels: 32
0.70 0.15 0.15
Matches are distributed among these distances:
8 2 0.01
9 40 0.28
10 77 0.53
11 15 0.10
12 10 0.07
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (10 bp):
AAAATATATA
Found at i:47456754 original size:21 final size:21
Alignment explanation
Indices: 47456709--47456762 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
47456699 TAAAATATTT
* * **
47456709 AAAATTCTATAAAAATGTATT
1 AAAATTATATAAAAATATAAA
47456730 AAAATTATATAAAAATATAAA
1 AAAATTATATAAAAATATAAA
47456751 AAAA-TAT-TAAAA
1 AAAATTATATAAAA
47456763 TTGGTATAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 5 0.17
20 3 0.10
21 21 0.72
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATTATATAAAAATATAAA
Found at i:47457255 original size:9 final size:9
Alignment explanation
Indices: 47457193--47457371 Score: 62
Period size: 9 Copynumber: 19.0 Consensus size: 9
47457183 CCAATTCAAG
*
47457193 TTTTTATGAT
1 TTTTTAT-AA
*
47457203 TTTTTACTTA
1 TTTTTA-TAA
47457213 TTTTTATAA
1 TTTTTATAA
* *
47457222 GTTTATACCAA
1 -TTTTTA-TAA
* *
47457233 TTTTAATATT
1 TTTTTATA-A
47457243 TTTTTATAA
1 TTTTTATAA
* *
47457252 TTTTAAGAA
1 TTTTTATAA
* *
47457261 TTCTAATAA
1 TTTTTATAA
47457270 TTTTTA-AA
1 TTTTTATAA
47457278 -TTTTA-AA
1 TTTTTATAA
47457285 TATTTTAATTAA
1 T-TTTT-A-TAA
*
47457297 GTTTTATTAA
1 TTTTTA-TAA
47457307 -TTTTATAA
1 TTTTTATAA
*
47457315 TTTATTA-GA
1 TTT-TTATAA
47457324 TTTTTATAA
1 TTTTTATAA
* *
47457333 TATTTATATG
1 TTTTTATA-A
*
47457343 TTTTTGTAA
1 TTTTTATAA
47457352 TTTTTTTATAA
1 --TTTTTATAA
*
47457363 TTTTAATAA
1 TTTTTATAA
47457372 GTTTACGTCA
Statistics
Matches: 127, Mismatches: 27, Indels: 31
0.69 0.15 0.17
Matches are distributed among these distances:
7 7 0.06
8 8 0.06
9 52 0.41
10 43 0.34
11 15 0.12
12 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:47457262 original size:28 final size:26
Alignment explanation
Indices: 47457212--47457338 Score: 96
Period size: 27 Copynumber: 4.6 Consensus size: 26
47457202 TTTTTTACTT
*
47457212 ATTTTTATAAGTTTATACCAATTTTAATA
1 ATTTTTATAA-TTT-TA-AAATTTTAATA
* *
47457241 TTTTTTTATAATTTTAAGAATTCTAATA
1 -ATTTTTATAATTTTAA-AATTTTAATA
47457269 ATTTTTA-AATTTTAAATATTTTAATTA
1 ATTTTTATAATTTTAAA-ATTTTAA-TA
* * *
47457296 AGTTTTATTAATTTTATAA-TTTATTA
1 ATTTTTA-TAATTTTAAAATTTTAATA
47457322 GATTTTTATAATATTTA
1 -ATTTTTATAAT-TTTA
47457339 TATGTTTTTG
Statistics
Matches: 81, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
25 1 0.01
26 20 0.25
27 28 0.35
28 12 0.15
29 11 0.14
30 9 0.11
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.57
Consensus pattern (26 bp):
ATTTTTATAATTTTAAAATTTTAATA
Found at i:47457302 original size:46 final size:47
Alignment explanation
Indices: 47457231--47457337 Score: 105
Period size: 46 Copynumber: 2.3 Consensus size: 47
47457221 AGTTTATACC
*
47457231 AATTTT-AATATTTTTTTATAATTTTAAGAATTCTAATAATTT-TTA-
1 AATTTTAAATATTTTATTATAATTTTAAGAATT-TAATAATTTATTAG
* ** *
47457276 AATTTTAAATATTTTAATTA-AGTTTTATTAATTTTATAATTTATTAG
1 AATTTTAAATATTTT-ATTATAATTTTAAGAATTTAATAATTTATTAG
*
47457323 ATTTTTATAATATTT
1 AATTTTA-AATATTT
47457338 ATATGTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
45 14 0.27
46 21 0.41
47 9 0.18
48 7 0.14
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (47 bp):
AATTTTAAATATTTTATTATAATTTTAAGAATTTAATAATTTATTAG
Found at i:47457333 original size:26 final size:26
Alignment explanation
Indices: 47457243--47457376 Score: 94
Period size: 27 Copynumber: 4.8 Consensus size: 26
47457233 TTTTAATATT
* *
47457243 TTTTTATAATTTTAAGAATTCTAATAA
1 TTTTTATAATTTTAATAATT-TATTAA
*
47457270 TTTTTA-AATTTTAAATATTTTAATTAA
1 TTTTTATAATTTT-AATAATTT-ATTAA
*
47457297 GTTTTATTAATTTT-ATAATTTATTAGA
1 TTTTTA-TAATTTTAATAATTTATTA-A
* *
47457324 TTTTTATAATATTT-ATATGTTTTTGTAA
1 TTTTTATAAT-TTTAATA-ATTTAT-TAA
47457352 TTTTTTTATAATTTTAATAAGTTTA
1 --TTTTTATAATTTTAATAA-TTTA
47457377 CGTCAATTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
26 15 0.18
27 38 0.45
28 5 0.06
29 11 0.13
30 16 0.19
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTTATAATTTTAATAATTTATTAA
Found at i:47460120 original size:12 final size:12
Alignment explanation
Indices: 47460099--47460134 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
47460089 AATGGCCTAA
47460099 TATATATATATC
1 TATATATATATC
*
47460111 TATATCTATATC
1 TATATATATATC
47460123 TATATATATATC
1 TATATATATATC
47460135 AACCCCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (12 bp):
TATATATATATC
Found at i:47460231 original size:21 final size:21
Alignment explanation
Indices: 47460207--47460249 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
47460197 ATCTCTTTCA
47460207 AATTTCT-CTCAATTTCTTATT
1 AATTTCTACTCAATTT-TTATT
47460228 AATTTCTCACTCAATTTTTATT
1 AATTTCT-ACTCAATTTTTATT
47460250 CCTCTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTCTACTCAATTTTTATT
Found at i:47460262 original size:23 final size:23
Alignment explanation
Indices: 47460214--47460258 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
47460204 TCAAATTTCT
*
47460214 CTCAATTTCTTATTAATTTCTCA
1 CTCAATTTCTTATTAATCTCTCA
**
47460237 CTCAATTT-TTATTCCTCTCTCA
1 CTCAATTTCTTATTAATCTCTCA
47460259 ACTCTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (23 bp):
CTCAATTTCTTATTAATCTCTCA
Found at i:47461464 original size:12 final size:12
Alignment explanation
Indices: 47461441--47461465 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47461431 TTTTTCTTTT
47461441 TTTCTTTTCTTA
1 TTTCTTTTCTTA
47461453 TTTCTTTTCTTA
1 TTTCTTTTCTTA
47461465 T
1 T
47461466 CTTTCATCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTTTTCTTA
Found at i:47462287 original size:6 final size:6
Alignment explanation
Indices: 47462276--47462357 Score: 53
Period size: 6 Copynumber: 12.8 Consensus size: 6
47462266 CACGCTCAGA
* *
47462276 AAAAAG AAAAAG AAAAAT AAGAAA- AGAAAAG -AAAAG AATAATG AAAAAG
1 AAAAAG AAAAAG AAAAAG AA-AAAG A-AAAAG AAAAAG AA-AAAG AAAAAG
47462325 AATAAGAGGG AAAATA- AAAAAG AAAAAG AAAAA
1 AA-AA-A--G AAAA-AG AAAAAG AAAAAG AAAAA
47462358 TAAGAGAAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
5 6 0.10
6 38 0.61
7 11 0.18
8 1 0.02
9 3 0.05
10 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:47462291 original size:5 final size:5
Alignment explanation
Indices: 47462277--47462373 Score: 51
Period size: 5 Copynumber: 19.4 Consensus size: 5
47462267 ACGCTCAGAA
*
47462277 AAAAG AAAAAG AAAA- ATAAG AAAAG AAAAG AAAAG AATAATG AAAAAG
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AA-G -AAAAG
** * * * *
47462325 AATAAG -AGGG AAAAT AAAA- AAGA- AAAAG AAAA- ATAAG AGAAG AAAAG
1 AA-AAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
47462372 AA
1 AA
47462374 TAATGAAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
4 13 0.18
5 42 0.59
6 11 0.15
7 3 0.04
8 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (5 bp):
AAAAG
Found at i:47462291 original size:13 final size:13
Alignment explanation
Indices: 47462273--47462357 Score: 61
Period size: 13 Copynumber: 6.5 Consensus size: 13
47462263 AGGCACGCTC
47462273 AGAAAAAAGAAAA
1 AGAAAAAAGAAAA
47462286 AGAAAAATA-AGAAA
1 AGAAAAA-AGA-AAA
47462300 AG--AAAAG-AAA
1 AGAAAAAAGAAAA
* *
47462310 AGAATAATGAAAA
1 AGAAAAAAGAAAA
* *
47462323 AGAATAAGAGGGAAA
1 AGAA-AA-AAGAAAA
*
47462338 ATAAAAAAGAAAA
1 AGAAAAAAGAAAA
47462351 AGAAAAA
1 AGAAAAA
47462358 TAAGAGAAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
10 5 0.09
11 1 0.02
12 6 0.11
13 26 0.47
14 9 0.16
15 8 0.15
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (13 bp):
AGAAAAAAGAAAA
Found at i:47462299 original size:9 final size:10
Alignment explanation
Indices: 47462277--47462373 Score: 51
Period size: 9 Copynumber: 9.7 Consensus size: 10
47462267 ACGCTCAGAA
47462277 AAAAGAAAAAG
1 AAAAG-AAAAG
*
47462288 AAAA-ATAAG
1 AAAAGAAAAG
47462297 AAAAGAAAAG
1 AAAAGAAAAG
47462307 AAAAGAATAATG
1 AAAAGAA-AA-G
47462319 AAAAAGAATAAG
1 -AAAAGAA-AAG
** *
47462331 -AGGGAAAAT
1 AAAAGAAAAG
*
47462340 AAAA-AAGA-
1 AAAAGAAAAG
47462348 AAAAGAAAA-
1 AAAAGAAAAG
* *
47462357 ATAAGAGAAG
1 AAAAGAAAAG
47462367 AAAAGAA
1 AAAAGAA
47462374 TAATGAAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
8 4 0.06
9 23 0.35
10 21 0.32
11 6 0.09
12 2 0.03
13 10 0.15
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:47462337 original size:28 final size:30
Alignment explanation
Indices: 47462273--47462383 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 30
47462263 AGGCACGCTC
* * *
47462273 AGAA-AAAAGAA-AAAGAAAAATAAGAAAAG
1 AGAAGAAAAGAATAATGAAAAAGAA-ATAAG
*
47462302 AAAAGAAAAGAATAATGAAAAAG-AATAAG
1 AGAAGAAAAGAATAATGAAAAAGAAATAAG
* * * *
47462331 AG-GGAAAATAAAAAAGAAAAAGAAAAATAAG
1 AGAAGAAAAGAATAATGAAAAAG--AAATAAG
47462362 AGAAGAAAAGAATAATGAAAAA
1 AGAAGAAAAGAATAATGAAAAA
47462384 TAAGATTCCA
Statistics
Matches: 63, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
28 16 0.25
29 8 0.13
30 8 0.13
31 16 0.25
32 15 0.24
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (30 bp):
AGAAGAAAAGAATAATGAAAAAGAAATAAG
Found at i:47467860 original size:9 final size:10
Alignment explanation
Indices: 47467839--47467893 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
47467829 TTTACATCTC
*
47467839 AAAAAATTAT
1 AAAAAAATAT
47467849 AAAAAAAT-T
1 AAAAAAATAT
*
47467858 AAAGAATATAT
1 AAA-AAAATAT
*
47467869 AAAAAACT-T
1 AAAAAAATAT
47467878 -AAAAAATAT
1 AAAAAAATAT
47467887 AAAAAAA
1 AAAAAAA
47467894 CCCTAAATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
8 6 0.17
9 6 0.17
10 20 0.56
11 4 0.11
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:47467892 original size:18 final size:18
Alignment explanation
Indices: 47467839--47467893 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 18
47467829 TTTACATCTC
47467839 AAAAAATTATAAAAAAATT
1 AAAAAA-TATAAAAAAATT
*
47467858 AAAGAATATATAAAAAACTT
1 AAA-AA-ATATAAAAAAATT
47467878 AAAAAATATAAAAAAA
1 AAAAAATATAAAAAAA
47467894 CCCTAAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 10 0.31
19 5 0.16
20 16 0.50
21 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAAATATAAAAAAATT
Found at i:47467900 original size:20 final size:19
Alignment explanation
Indices: 47467839--47467894 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
47467829 TTTACATCTC
47467839 AAAAAATTATAAAAAAA-TT
1 AAAAAA-TATAAAAAAACTT
*
47467858 AAAGAATATATAAAAAACTT
1 AAAAAATATA-AAAAAACTT
47467878 AAAAAATATAAAAAAAC
1 AAAAAATATAAAAAAAC
47467895 CCTAAATCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.12
19 18 0.55
20 11 0.33
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAAAATATAAAAAAACTT
Found at i:47468392 original size:38 final size:37
Alignment explanation
Indices: 47468335--47468466 Score: 183
Period size: 38 Copynumber: 3.4 Consensus size: 37
47468325 ATATAATAAA
*
47468335 TAAATATATTTTTTTTATTTTTAAATTTTAAAACATTTT
1 TAAA-ATACTTTTTTTATTTTTAAATTTTAAAA-ATTTT
*
47468374 TAAAATACTTTTTTTATTTTTAAATTTTAAAATTTTT
1 TAAAATACTTTTTTTATTTTTAAATTTTAAAAATTTT
*
47468411 TAAAATACTTTTTTTTTTATTTTTTAATTTTAAAATATTTT
1 TAAAATAC---TTTTTTTATTTTTAAATTTTAAAA-ATTTT
47468452 TAAAATACTTTTTTT
1 TAAAATACTTTTTTT
47468467 TTATTTTTTT
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
37 12 0.14
38 34 0.40
39 4 0.05
40 23 0.27
41 12 0.14
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (37 bp):
TAAAATACTTTTTTTATTTTTAAATTTTAAAAATTTT
Found at i:47468488 original size:41 final size:40
Alignment explanation
Indices: 47468343--47468488 Score: 217
Period size: 40 Copynumber: 3.7 Consensus size: 40
47468333 AATAAATATA
*
47468343 TTTTTTTTATTTTTAAATTTTAAAACATTTTTAAAATAC-
1 TTTTTTTTATTTTTAAATTTTAAAATATTTTTAAAATACT
47468382 -TTTTTTTATTTTTAAATTTTAAAAT-TTTTTAAAATACTT
1 TTTTTTTTATTTTTAAATTTTAAAATATTTTTAAAATAC-T
*
47468421 TTTTTTTTATTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTTTATTTTTAAATTTTAAAATATTTTTAAAATACT
* *
47468461 TTTTTTTTATTTTTTTATTTTTAAAATA
1 TTTTTTTTA-TTTTTAAATTTTAAAATA
47468489 AATTTTTGGT
Statistics
Matches: 99, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
37 12 0.12
38 24 0.24
40 34 0.34
41 29 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (40 bp):
TTTTTTTTATTTTTAAATTTTAAAATATTTTTAAAATACT
Found at i:47469049 original size:3 final size:3
Alignment explanation
Indices: 47469043--47469074 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
47469033 GCCACCATCA
47469043 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
47469075 ATCCTCGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.31, T:0.34
Consensus pattern (3 bp):
TCG
Found at i:47469089 original size:9 final size:9
Alignment explanation
Indices: 47469038--47469086 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
47469028 TACTTGCCAC
*
47469038 CATCATCGT
1 CATCGTCGT
*
47469047 CGTCGTCGT
1 CATCGTCGT
*
47469056 CGTCGTCGT
1 CATCGTCGT
*
47469065 CGTCGTCGT
1 CATCGTCGT
*
47469074 CATCCTCGT
1 CATCGTCGT
47469083 CATC
1 CATC
47469087 CTCATCATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.08, C:0.37, G:0.22, T:0.33
Consensus pattern (9 bp):
CATCGTCGT
Found at i:47471120 original size:22 final size:23
Alignment explanation
Indices: 47471077--47471125 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
47471067 AGCCTTGGTT
* *
47471077 ATTAAAATTATATTTTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
47471100 ATTAAAACTA-ATTGTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
47471122 ATTA
1 ATTA
47471126 TATCAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTAAAACTATATTGTTATTAAA
Found at i:47471134 original size:22 final size:21
Alignment explanation
Indices: 47471074--47471131 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
47471064 CCGAGCCTTG
47471074 GTTATTAAAATTATAT---TT
1 GTTATTAAAATTATATCAATT
* *
47471092 -TTATTAAAATTAAAACTAATT
1 GTTATTAAAATTATATC-AATT
47471113 GTTATTAAAATTATATCAA
1 GTTATTAAAATTATATCAA
47471132 ATTATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 13 0.42
21 4 0.13
22 14 0.45
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
GTTATTAAAATTATATCAATT
Found at i:47471204 original size:19 final size:19
Alignment explanation
Indices: 47471180--47471260 Score: 57
Period size: 18 Copynumber: 4.5 Consensus size: 19
47471170 ATCTAACATT
47471180 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
47471199 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
* *
47471215 TTATTAGTAAAATTATCAAA
1 TTGTTAGTAAAATTAT-TAA
* *
47471235 TT-ATA-TCAAATTATTAA
1 TTGTTAGTAAAATTATTAA
47471252 TTGTTAGTA
1 TTGTTAGTA
47471261 CCAGTCAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 16
0.64 0.13 0.23
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
17 5 0.11
18 11 0.24
19 10 0.22
20 7 0.16
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:47471262 original size:112 final size:112
Alignment explanation
Indices: 47471120--47471359 Score: 383
Period size: 112 Copynumber: 2.1 Consensus size: 112
47471110 ATTGTTATTA
* * *
47471120 AAATTATATCAAATTATATTTTTTTTGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
1 AAATTATATCAAATTATATATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
*
47471185 AGTAAAATTATTAATTGTTAATTGTATTAATTATTAGTAAAATTATC
66 AATAAAATTATTAATTGTTAATTGTATTAATTATTAGTAAAATTATC
*
47471232 AAATTATATCAAATTAT-TAATTGTTAGTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGT
1 AAATTATATCAAATTATAT-ATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGT
* * *
47471296 TAATCAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAATTTATC
65 TAATAAAATTATTAATTGTTAATTGTATTAATTATTAGTAAAATTATC
*
47471344 AAATTATATCAGATTA
1 AAATTATATCAAATTA
47471360 GGGTTAGGGT
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
111 1 0.01
112 117 0.99
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (112 bp):
AAATTATATCAAATTATATATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
AATAAAATTATTAATTGTTAATTGTATTAATTATTAGTAAAATTATC
Found at i:47471421 original size:15 final size:15
Alignment explanation
Indices: 47471401--47471432 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
47471391 GGTTTTGATA
47471401 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
47471416 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
47471431 TT
1 TT
47471433 AGGGTTAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (15 bp):
TTTTTAAGTTAAGGG
Found at i:47471447 original size:27 final size:27
Alignment explanation
Indices: 47471416--47471468 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
47471406 AAGTTAAGGG
47471416 TTTTTAAGTTAAGGGTTAGGGTTAGGA
1 TTTTTAAGTTAAGGGTTAGGGTTAGGA
47471443 TTTTTAAGTTAAGGGTTAGGGTTAGG
1 TTTTTAAGTTAAGGGTTAGGGTTAGG
47471469 GCTAGGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.42
Consensus pattern (27 bp):
TTTTTAAGTTAAGGGTTAGGGTTAGGA
Found at i:47471498 original size:95 final size:95
Alignment explanation
Indices: 47471387--47471564 Score: 320
Period size: 95 Copynumber: 1.9 Consensus size: 95
47471377 TTTGTTAGCA
*
47471387 TTAGGGTTTTGATATTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGATTTTTAAGT
1 TTAGGATTTTGATATTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGATTTTTAAGT
47471452 TAAGGGTTAGGGTTAGGGCTAGGGTTTTTG
66 TAAGGGTTAGGGTTAGGGCTAGGGTTTTTG
* * *
47471482 TTAGGATTTTGGTATTTTTAAGTTGAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGT
1 TTAGGATTTTGATATTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGATTTTTAAGT
47471547 TAAGGGTTAGGGTTAGGG
66 TAAGGGTTAGGGTTAGGG
47471565 TTTTTAAGTT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 79 1.00
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.44
Consensus pattern (95 bp):
TTAGGATTTTGATATTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGATTTTTAAGT
TAAGGGTTAGGGTTAGGGCTAGGGTTTTTG
Found at i:47471516 original size:15 final size:15
Alignment explanation
Indices: 47471496--47471554 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
47471486 GATTTTGGTA
*
47471496 TTTTTAAGTTGAGGG
1 TTTTTAAGTTAAGGG
47471511 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
*
47471526 ---TTAGGGTT-AGGG
1 TTTTTA-AGTTAAGGG
47471538 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
47471553 TT
1 TT
47471555 AGGGTTAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
12 7 0.19
13 3 0.08
14 3 0.08
15 23 0.64
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (15 bp):
TTTTTAAGTTAAGGG
Found at i:47471537 original size:27 final size:27
Alignment explanation
Indices: 47471507--47471591 Score: 161
Period size: 27 Copynumber: 3.1 Consensus size: 27
47471497 TTTTAAGTTG
47471507 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
47471534 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
*
47471561 AGGGTTTTTAAGTTAAGAGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
47471588 AGGG
1 AGGG
47471592 CTAGGGTTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.39
Consensus pattern (27 bp):
AGGGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:47471560 original size:122 final size:122
Alignment explanation
Indices: 47471412--47471684 Score: 485
Period size: 122 Copynumber: 2.2 Consensus size: 122
47471402 TTTTAAGTTA
*
47471412 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGATTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGATTTTTAAGTTAAGAGTTAGGGTTAGGGCTAGGGT
* *
47471477 TTTTGTTAGGATTTTGGTATTTTTAAGTTGAGGGTTTTTAAGTTAAGGGTTAGGGTT
66 TTTTGTTAGGATTTTAGTATTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGTT
*
47471534 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGAGTTAGGGTTAGGGCTAGGGT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGATTTTTAAGTTAAGAGTTAGGGTTAGGGCTAGGGT
* *
47471599 TTTTGTTAGGGTTTTAGTATTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTGGGGTT
66 TTTTGTTAGGATTTTAGTATTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGTT
47471656 AGGGTTTTTAAGTTAA-GGTTAGGGTTAGG
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGG
47471685 GCTAGGATTT
Statistics
Matches: 145, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
121 13 0.09
122 132 0.91
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.43
Consensus pattern (122 bp):
AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGATTTTTAAGTTAAGAGTTAGGGTTAGGGCTAGGGT
TTTTGTTAGGATTTTAGTATTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:47471638 original size:15 final size:15
Alignment explanation
Indices: 47471618--47471649 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
47471608 GGTTTTAGTA
47471618 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
47471633 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
47471648 TT
1 TT
47471650 GGGGTTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (15 bp):
TTTTTAAGTTAAGGG
Found at i:47471675 original size:26 final size:27
Alignment explanation
Indices: 47471629--47471685 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
47471619 TTTTAAGTTA
*
47471629 AGGGTTTTTAAGTTAAGGGTTGGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
47471656 AGGGTTTTTAAGTTAA-GGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
47471682 AGGG
1 AGGG
47471686 CTAGGATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.39
Consensus pattern (27 bp):
AGGGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:47471720 original size:94 final size:94
Alignment explanation
Indices: 47471531--47471728 Score: 344
Period size: 94 Copynumber: 2.1 Consensus size: 94
47471521 AAGGGTTAGG
47471531 GTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGAGTTAGGGTTAGGGCTAG
1 GTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGAGTTAGGGTTAGGGCTAG
*
47471596 GGTTTTTGTTAGGGTTTTAGTATTTTTAA
66 GATTTTTGTTAGGGTTTTAGTATTTTTAA
*
47471625 GTTAAGGGTTTTTAAGTTAAGGGTTGGGGTTAGGGTTTTTAAGTTAAG-GTTAGGGTTAGGGCTA
1 GTT-AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGAGTTAGGGTTAGGGCTA
* *
47471689 GGATTTTTGTTAGGGTTTTGGTGTTTTTAA
65 GGATTTTTGTTAGGGTTTTAGTATTTTTAA
47471719 GTTAGGGTTT
1 GTTAGGGTTT
47471729 AGGGTTAGGG
Statistics
Matches: 99, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
93 7 0.07
94 49 0.49
95 43 0.43
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (94 bp):
GTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGAGTTAGGGTTAGGGCTAG
GATTTTTGTTAGGGTTTTAGTATTTTTAA
Found at i:47471766 original size:7 final size:7
Alignment explanation
Indices: 47471754--47471798 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
47471744 GTTTGTCAAT
47471754 TAAATTA
1 TAAATTA
47471761 TAAATT-
1 TAAATTA
47471767 T-AATTA
1 TAAATTA
47471773 TAAATTA
1 TAAATTA
47471780 TAAATTTA
1 TAAA-TTA
47471788 TAAATTTA
1 TAAA-TTA
47471796 TAA
1 TAA
47471799 TAAATTAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 4 0.11
6 2 0.06
7 15 0.43
8 14 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:47471790 original size:8 final size:8
Alignment explanation
Indices: 47471770--47471798 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
47471760 ATAAATTTAA
47471770 TTATAAA-
1 TTATAAAT
47471777 TTATAAAT
1 TTATAAAT
47471785 TTATAAAT
1 TTATAAAT
47471793 TTATAA
1 TTATAA
47471799 TAAATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TTATAAAT
Found at i:47472007 original size:21 final size:21
Alignment explanation
Indices: 47471986--47472024 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
47471976 TTGTCCAGCT
*
47471986 TTCGGCGGGG-TTGTGGTTGC
1 TTCGGCGGGGATTCTGGTTGC
47472006 TTCGGCGGGGATTCTGGTT
1 TTCGGCGGGGATTCTGGTT
47472025 CCTCCGGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.03, C:0.15, G:0.46, T:0.36
Consensus pattern (21 bp):
TTCGGCGGGGATTCTGGTTGC
Found at i:47472976 original size:7 final size:7
Alignment explanation
Indices: 47472966--47472998 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
47472956 TTATATACAT
47472966 AATACTA
1 AATACTA
47472973 AATACTA
1 AATACTA
47472980 AATACTA
1 AATACTA
47472987 AATACTA
1 AATACTA
47472994 AATAC
1 AATAC
47472999 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:47474115 original size:18 final size:18
Alignment explanation
Indices: 47474094--47474128 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47474084 TACGATTTAA
47474094 AAAATTTTTAAAAAAATT
1 AAAATTTTTAAAAAAATT
*
47474112 AAAATTTTTATAAAAAT
1 AAAATTTTTAAAAAAAT
47474129 AATTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTTTTAAAAAAATT
Found at i:47474115 original size:20 final size:22
Alignment explanation
Indices: 47474090--47474137 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
47474080 TATTTACGAT
47474090 TTAAAAAATTTT-TAAAAA-AA
1 TTAAAAAATTTTATAAAAATAA
*
47474110 TT-AAAATTTTTATAAAAATAA
1 TTAAAAAATTTTATAAAAATAA
47474131 TTAAAAA
1 TTAAAAA
47474138 TAGGGATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 8 0.33
20 8 0.33
21 4 0.17
22 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAAAATTTTATAAAAATAA
Found at i:47474196 original size:51 final size:51
Alignment explanation
Indices: 47474135--47474234 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
47474125 AAATAATTAA
47474135 AAATAGGGATTTAAGAGAAATTTA-AGAGAAAATTGAGAGCAAGTTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGAAAATTGAGAGCAAGTTGAGATT
* * * *
47474186 AAATATGGATTTGAGAGAAATTTAGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGAAAATTGAGAGCAAGTTGAGA
47474235 GGAAATTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.26, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGAAAATTGAGAGCAAGTTGAGATT
Found at i:47474208 original size:11 final size:11
Alignment explanation
Indices: 47474196--47474256 Score: 79
Period size: 11 Copynumber: 5.5 Consensus size: 11
47474186 AAATATGGAT
47474196 TTGAGA-GAAA
1 TTGAGAGGAAA
*
47474206 TTTAGAAGGAAA
1 TTGAG-AGGAAA
* *
47474218 TTGAGAGCAAT
1 TTGAGAGGAAA
47474229 TTGAGAGGAAA
1 TTGAGAGGAAA
47474240 TTGAGAGGAAA
1 TTGAGAGGAAA
47474251 TTGAGA
1 TTGAGA
47474257 AAGGATTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
10 4 0.09
11 31 0.72
12 8 0.19
ACGTcount: A:0.44, C:0.02, G:0.31, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:47474231 original size:33 final size:33
Alignment explanation
Indices: 47474194--47474256 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
47474184 TTAAATATGG
*
47474194 ATTTGAGA-GAAATTTAGAAGGAAATTGAGAGCA
1 ATTTGAGAGGAAATTGAG-AGGAAATTGAGAGCA
47474227 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
1 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
47474257 AAGGATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (33 bp):
ATTTGAGAGGAAATTGAGAGGAAATTGAGAGCA
Found at i:47475065 original size:31 final size:28
Alignment explanation
Indices: 47475041--47475095 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
47475031 ATTATCATCT
*
47475041 GCGTTAATCTATAGCCATCAAA-TTATC
1 GCGTTAATCTACAGCCATCAAATTTATC
47475068 GCGTTAATCTACAGCCATCAAATTTATC
1 GCGTTAATCTACAGCCATCAAATTTATC
47475096 CATACATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.33
Consensus pattern (28 bp):
GCGTTAATCTACAGCCATCAAATTTATC
Found at i:47477245 original size:14 final size:16
Alignment explanation
Indices: 47477222--47477253 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
47477212 AGATTCACAT
47477222 ACCAAGATATAA-TCA
1 ACCAAGATATAATTCA
47477237 ACCAA-ATATAATTCA
1 ACCAAGATATAATTCA
47477252 AC
1 AC
47477254 ATATCATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.53, C:0.22, G:0.03, T:0.22
Consensus pattern (16 bp):
ACCAAGATATAATTCA
Found at i:47483345 original size:95 final size:95
Alignment explanation
Indices: 47483165--47483459 Score: 308
Period size: 95 Copynumber: 3.1 Consensus size: 95
47483155 CCCGAACATT
* * *
47483165 TAAGGTATCCAGTAAATCGAGACGTTAATCGTTACACGATGCTATTTACACAAGCTGTGAAGAAT
1 TAAGATATCCAGTAAATCGAGACATTAATCGTTACACGATGCTACTTACACAAGCTGTGAAGAAT
* * * * * *
47483230 CTGCAACACATACAGAATCTTATCCATTGG
66 CCGCAATATATGCAGGATCTTATCCATCGG
* * * * *
47483260 CAAGATATCCAATAAATCGAGACATTAA-CTGTTACACAATGCTACTTACACGAGCTATGAAGAA
1 TAAGATATCCAGTAAATCGAGACATTAATC-GTTACACGATGCTACTTACACAAGCTGTGAAGAA
* * *
47483324 TCCACAATATATGCAGGATCTTAGCCATCGA
65 TCCGCAATATATGCAGGATCTTATCCATCGG
* * * * * * * *
47483355 TAAGGTATCTAGTAAATCGGGACATTAATCGATA-ACGATGTTGCTCACACTAGCTGTGCAA-AA
1 TAAGATATCCAGTAAATCGAGACATTAATCGTTACACGATGCTACTTACACAAGCTGTG-AAGAA
* *
47483418 TCCGCAATATATGCATGATCTTATCCATCAG
65 TCCGCAATATATGCAGGATCTTATCCATCGG
47483449 TAAGATATCCA
1 TAAGATATCCA
47483460 CCACCGGTAC
Statistics
Matches: 161, Mismatches: 36, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
94 56 0.35
95 104 0.65
96 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (95 bp):
TAAGATATCCAGTAAATCGAGACATTAATCGTTACACGATGCTACTTACACAAGCTGTGAAGAAT
CCGCAATATATGCAGGATCTTATCCATCGG
Found at i:47483992 original size:21 final size:19
Alignment explanation
Indices: 47483968--47484010 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
47483958 GACCATTTAA
47483968 TAAAATTTTACATTATTATCT
1 TAAAATTTTACATT-TTAT-T
* *
47483989 TAAACTTTTATATTTTATT
1 TAAAATTTTACATTTTATT
47484008 TAA
1 TAA
47484011 TTAAGTCCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 12 0.60
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
TAAAATTTTACATTTTATT
Found at i:47485637 original size:36 final size:36
Alignment explanation
Indices: 47485578--47485679 Score: 114
Period size: 36 Copynumber: 2.7 Consensus size: 36
47485568 CGACGATAGG
* * *
47485578 TGTGCCCTGCACTAGCCGGATAAACCAAAAATGTTT
1 TGTGCCCAGCACTAGTCGAATAAACCAAAAATGTTT
* *
47485614 TGTGCCCAGCGCTAGTCGAATAAACCAACAATGTTAAAT
1 TGTGCCCAGCACTAGTCGAATAAACCAAAAATGTT---T
*
47485653 GTGTGCCCAACACTAGTCGAATAAACC
1 -TGTGCCCAGCACTAGTCGAATAAACC
47485680 GACAAAGATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 30 0.55
39 1 0.02
40 24 0.44
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (36 bp):
TGTGCCCAGCACTAGTCGAATAAACCAAAAATGTTT
Found at i:47485713 original size:36 final size:35
Alignment explanation
Indices: 47485665--47485791 Score: 96
Period size: 36 Copynumber: 3.6 Consensus size: 35
47485655 GTGCCCAACA
47485665 CTAGTCGAATAAACCGACAAAGATTTGCACCTAGCG
1 CTAGTCGAATAAACCGACAAAGATTTGC-CCTAGCG
* * * *
47485701 CTAGTCGGATAAACCGATAGTAGATGTGCCCT-GCAG
1 CTAGTCGAATAAACCGACA-AAGATTTGCCCTAGC-G
* * ** *
47485737 -TAATCGAAAAAATTGACAAAGATTTGCGCCCAGCG
1 CTAGTCGAATAAACCGACAAAGATTTGC-CCTAGCG
* * *
47485772 TTAGTCGGATAAACTGACAA
1 CTAGTCGAATAAACCGACAA
47485792 TCACATACAT
Statistics
Matches: 69, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
34 7 0.10
35 17 0.25
36 38 0.55
37 7 0.10
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (35 bp):
CTAGTCGAATAAACCGACAAAGATTTGCCCTAGCG
Found at i:47494798 original size:16 final size:15
Alignment explanation
Indices: 47494776--47494818 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
47494766 AAGTAAATTC
*
47494776 ATATTAATTATAATAT
1 ATATTAATTAT-ATAA
*
47494792 TTATTAAATTATATAA
1 ATATT-AATTATATAA
47494808 ATATTAATTAT
1 ATATTAATTAT
47494819 TATTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 6 0.26
16 11 0.48
17 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATTAATTATATAA
Found at i:47494815 original size:26 final size:27
Alignment explanation
Indices: 47494769--47494823 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
47494759 CACGATAAAG
*
47494769 TAAATTCATATTAATTATAA-TATTTAT
1 TAAATTCATATAAATTATAATTA-TTAT
47494796 TAAATT-ATATAAA-TATTAATTATTAT
1 TAAATTCATATAAATTA-TAATTATTAT
47494822 TA
1 TA
47494824 TTTTTGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.08
26 15 0.60
27 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
TAAATTCATATAAATTATAATTATTAT
Found at i:47503635 original size:24 final size:24
Alignment explanation
Indices: 47503608--47503712 Score: 70
Period size: 24 Copynumber: 4.3 Consensus size: 24
47503598 AAGCTTATAC
* *
47503608 GAGCTAATATCGGGTAGCTCTAAA
1 GAGCTAATATCGGGAAGCTCCAAA
* * *
47503632 GAGCCAATAACGGGAAGCTCCAGA
1 GAGCTAATATCGGGAAGCTCCAAA
* * * **
47503656 TAGCTTAATATCGGAAAG-TTCAGGC
1 GAGC-TAATATCGGGAAGCTCCA-AA
*
47503681 GGGCT-ATATCGGGAAGCTCACAAA
1 GAGCTAATATCGGGAAGCTC-CAAA
47503705 GAGCTAAT
1 GAGCTAAT
47503713 TAACAGAAAG
Statistics
Matches: 58, Mismatches: 18, Indels: 9
0.68 0.21 0.11
Matches are distributed among these distances:
23 10 0.17
24 31 0.53
25 17 0.29
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (24 bp):
GAGCTAATATCGGGAAGCTCCAAA
Found at i:47504226 original size:10 final size:11
Alignment explanation
Indices: 47504207--47504236 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
47504197 AATTTAATAA
47504207 AATTCACATTC
1 AATTCACATTC
47504218 AATTC-CATTC
1 AATTCACATTC
47504228 AATTCACAT
1 AATTCACAT
47504237 CTCAGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTCACATTC
Found at i:47508326 original size:21 final size:21
Alignment explanation
Indices: 47508279--47508326 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
47508269 GTTTAATCAC
*
47508279 AACTAAACTGAGCTACAAATG
1 AACTAAACAGAGCTACAAATG
* *
47508300 ATCTAAACAGAGTTA-AAATG
1 AACTAAACAGAGCTACAAATG
47508320 AGACTAA
1 A-ACTAA
47508327 GAAAAATCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.21
Consensus pattern (21 bp):
AACTAAACAGAGCTACAAATG
Found at i:47508710 original size:39 final size:39
Alignment explanation
Indices: 47508656--47508731 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
47508646 AAAAAGAAAG
* *
47508656 AAAAAAATTTATAGGTGTCGCTAGTCACAGGCTTCCCTT
1 AAAAAAATTTATAGGTGTCGCCAGTCACAAGCTTCCCTT
*
47508695 AAAAAAATTTATAGGTGTTGCCAGTCACAAGCTTCCC
1 AAAAAAATTTATAGGTGTCGCCAGTCACAAGCTTCCC
47508732 CTTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (39 bp):
AAAAAAATTTATAGGTGTCGCCAGTCACAAGCTTCCCTT
Found at i:47508783 original size:13 final size:13
Alignment explanation
Indices: 47508762--47508795 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
47508752 TTGAGAGAAT
*
47508762 TTAATATTTTAAA
1 TTAAGATTTTAAA
47508775 TTAAGA-TTTAAA
1 TTAAGATTTTAAA
47508787 TTAAGATTT
1 TTAAGATTT
47508796 GACAGATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (13 bp):
TTAAGATTTTAAA
Found at i:47508786 original size:12 final size:12
Alignment explanation
Indices: 47508769--47508795 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47508759 AATTTAATAT
47508769 TTTAAATTAAGA
1 TTTAAATTAAGA
47508781 TTTAAATTAAGA
1 TTTAAATTAAGA
47508793 TTT
1 TTT
47508796 GACAGATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
TTTAAATTAAGA
Found at i:47508914 original size:27 final size:27
Alignment explanation
Indices: 47508884--47508943 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
47508874 TATTTATTTA
47508884 TTTTTCTATTTCAACT-GTTTCTTTTT
1 TTTTTCTATTTCAACTAGTTTCTTTTT
* * *
47508910 TTTTTCTGTTTCACCTATTTTCTTTTT
1 TTTTTCTATTTCAACTAGTTTCTTTTT
47508937 TTATTTC
1 TT-TTTC
47508944 CACTTGTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 14 0.48
27 11 0.38
28 4 0.14
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.70
Consensus pattern (27 bp):
TTTTTCTATTTCAACTAGTTTCTTTTT
Found at i:47509279 original size:3 final size:3
Alignment explanation
Indices: 47509273--47509302 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
47509263 TAAAAAAATT
47509273 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
47509303 CCTGGTGTGA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:47515570 original size:16 final size:18
Alignment explanation
Indices: 47515535--47515572 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47515525 ATCCTTATTT
*
47515535 AAATAAAATATAGTAGTA
1 AAATAAAATATAGAAGTA
47515553 AAATAAAATA-A-AAGTA
1 AAATAAAATATAGAAGTA
47515569 AAAT
1 AAAT
47515573 CCCTAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (18 bp):
AAATAAAATATAGAAGTA
Found at i:47534569 original size:20 final size:20
Alignment explanation
Indices: 47534544--47534587 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
47534534 TCCTTAGTAG
*
47534544 AAGAAATAGTAAAACAAGAT
1 AAGAAAGAGTAAAACAAGAT
47534564 AAGAAAGAGTAAAACAAGAT
1 AAGAAAGAGTAAAACAAGAT
47534584 AAGA
1 AAGA
47534588 GTACGCCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.66, C:0.05, G:0.18, T:0.11
Consensus pattern (20 bp):
AAGAAAGAGTAAAACAAGAT
Found at i:47535351 original size:13 final size:13
Alignment explanation
Indices: 47535333--47535357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47535323 ATTTCTCGTA
47535333 ATTTATTTATTTG
1 ATTTATTTATTTG
47535346 ATTTATTTATTT
1 ATTTATTTATTT
47535358 TATTATTACT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTTATTTATTTG
Found at i:47547661 original size:184 final size:183
Alignment explanation
Indices: 47547347--47547881 Score: 730
Period size: 184 Copynumber: 2.9 Consensus size: 183
47547337 TACCTTGTTG
* * * * *
47547347 AAATTAAATTGTACATGGTTATATATTTTCGATATTGAATTCTTTATGTATATAGGATGCCGAAT
1 AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATT-TTTATGAATATAGGATGCCGAAT
* * * * * * *
47547412 TGGATTTGTATTTGATTATACATTATCGAACTTGATTTGTGTATGGTTATACATTGCCGAATTGT
65 TTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGT
*
47547477 TTGTTATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTTGTACATTACTA
130 TTGATATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTTGTACATTACTA
* *
47547531 AAATTAATTTGTACTTGGTTATATATTGCCGATAGTGAATTGTTTATGAATATTGGATGCCGAAT
1 AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATT-TTTATGAATATAGGATGCCGAAT
* * *
47547596 TTAATTTGTGTATGATTATATATTGTCGATCTTGATTCGTTTATGGTTATACATTGCCAAATTGT
65 TTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGT
* * *
47547661 TTGGTATATGGATATAAGTTGCTGACTTGATTCGTACAAGGTTGTACATTACTG
130 TTGATATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTTGTACATTACTA
* * *
47547715 AAATTAATTCGTACTTGGTTATATATTGTTGATAGTGAAATTTTTATGAATATAGGATGTCGAAT
1 AAATTAATTTGTACTTGGTTATATATTGTCGATAGTG-AATTTTTATGAATATAGGATGCCGAAT
* * * *
47547780 TTGATTTGTGTATGATTATATATTGCCGATCTTGATTCATGAATGGTTATACATTACCGAATTGT
65 TTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGT
* * * *
47547845 TGGATATATTGATATTCA-TTGCTAAATTGGATTCGTA
130 TTGATATATGGATA-TAAGTTGCTGAATT-GATTCGTA
47547882 TATTAATATA
Statistics
Matches: 309, Mismatches: 39, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
184 295 0.95
185 14 0.05
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.44
Consensus pattern (183 bp):
AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATTTTTATGAATATAGGATGCCGAATT
TGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGTT
TGATATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTTGTACATTACTA
Found at i:47547737 original size:91 final size:91
Alignment explanation
Indices: 47547455--47547742 Score: 249
Period size: 91 Copynumber: 3.1 Consensus size: 91
47547445 GATTTGTGTA
* *
47547455 TGGTTATACATTGCCGAATTGTTTGTTATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTT
1 TGGTTATACATTGCCAAATTGTTTGGTATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTT
* *
47547520 GTACATTACTAAAATTAATTTGTACT
66 GTACATTACTGAAATTAATTCGTACT
* * * * * * ** * * * * ** *
47547546 TGGTTATATATTGCCGATAGTGAATT-GTTTATGAATATTGGATGCCGAATTTAATTTGTGTATG
1 TGGTTATACATTGCC-AAATTG-TTTGGTATATGGATATAAGTTGCTGAA-TTGATTCGTACAAG
* * * * ** * *
47547610 ATTATATATT-GTCGATCTTGATTCGT-TT
63 GTTGTACATTACT-GAAATTAATTCGTACT
*
47547638 ATGGTTATACATTGCCAAATTGTTTGGTATATGGATATAAGTTGCTGACTTGATTCGTACAAGGT
1 -TGGTTATACATTGCCAAATTGTTTGGTATATGGATATAAGTTGCTGAATTGATTCGTACAAGGT
47547703 TGTACATTACTGAAATTAATTCGTACT
65 TGTACATTACTGAAATTAATTCGTACT
*
47547730 TGGTTATATATTG
1 TGGTTATACATTG
47547743 TTGATAGTGA
Statistics
Matches: 137, Mismatches: 52, Indels: 16
0.67 0.25 0.08
Matches are distributed among these distances:
91 54 0.39
92 43 0.31
93 40 0.29
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (91 bp):
TGGTTATACATTGCCAAATTGTTTGGTATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTT
GTACATTACTGAAATTAATTCGTACT
Found at i:47550802 original size:26 final size:26
Alignment explanation
Indices: 47550746--47550805 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
47550736 AAAGCTCTGG
* *
47550746 AGAGCCATTAATCAGGAAGCTCATAA
1 AGAGCCATTAATCAGGAAGCCCACAA
* * *
47550772 GGAGCCTTTAATCGGGAAGCCCACAA
1 AGAGCCATTAATCAGGAAGCCCACAA
47550798 AGAGCCAT
1 AGAGCCAT
47550806 ATAACGGGAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCCCACAA
Found at i:47553646 original size:21 final size:21
Alignment explanation
Indices: 47553614--47553654 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
47553604 TAATGCATTT
47553614 ATCCATGACAT-AGATAGATTC
1 ATCCATGACATAAG-TAGATTC
47553635 ATCCAT-AGCATAAGTAGATT
1 ATCCATGA-CATAAGTAGATT
47553655 TCTCACGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.06
21 15 0.83
22 2 0.11
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (21 bp):
ATCCATGACATAAGTAGATTC
Found at i:47555861 original size:8 final size:8
Alignment explanation
Indices: 47555848--47555872 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
47555838 ATATTTGATA
47555848 TATTTTAT
1 TATTTTAT
47555856 TATTTTAT
1 TATTTTAT
47555864 TATTTTAT
1 TATTTTAT
47555872 T
1 T
47555873 TCTCGTTATT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:47555884 original size:22 final size:23
Alignment explanation
Indices: 47555855--47555912 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
47555845 ATATATTTTA
47555855 TTATTTTATTATTTTATTTCTCG
1 TTATTTTATTATTTTATTTCTCG
* *
47555878 TTA-TTTATT-TATTTATTTTTCT
1 TTATTTTATTAT-TTTATTTCTCG
47555900 TTATTTTATTATT
1 TTATTTTATTATT
47555913 ACTATTGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 18 0.60
23 10 0.33
24 1 0.03
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (23 bp):
TTATTTTATTATTTTATTTCTCG
Found at i:47559476 original size:14 final size:15
Alignment explanation
Indices: 47559457--47559487 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
47559447 ATAATTTGAT
47559457 AATTAAACAAAA-AA
1 AATTAAACAAAACAA
47559471 AATTAAACAAAACAA
1 AATTAAACAAAACAA
47559486 AA
1 AA
47559488 GCCTAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (15 bp):
AATTAAACAAAACAA
Found at i:47560303 original size:45 final size:45
Alignment explanation
Indices: 47560251--47560364 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 45
47560241 TGGTTGAAAT
* * *
47560251 ACGAGTAAGACCATGGTCGAAAGACGTTATGGCATCATGAATCAA
1 ACGAGTAAGACCATAGTCGAAAGACGCTATGGCATCACGAATCAA
* * * *
47560296 ACGAGTAAAACCATAGTTGAAAGACGCTATGGCATCACGATTTAA
1 ACGAGTAAGACCATAGTCGAAAGACGCTATGGCATCACGAATCAA
* * * *
47560341 ACGTGTAAGATCATATTTGAAAGA
1 ACGAGTAAGACCATAGTCGAAAGA
47560365 AACTATGGAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (45 bp):
ACGAGTAAGACCATAGTCGAAAGACGCTATGGCATCACGAATCAA
Found at i:47560430 original size:35 final size:35
Alignment explanation
Indices: 47560384--47560450 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
47560374 AACATGATGG
*
47560384 AAATGAATAAGACCATAGTAT-AAAGACACTATAGA
1 AAATGAATAAGACAATAGT-TGAAAGACACTATAGA
* *
47560419 AAATGAGTAAGATAATAGTTGAAAGACACTAT
1 AAATGAATAAGACAATAGTTGAAAGACACTAT
47560451 GGCATCAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.04
35 27 0.96
ACGTcount: A:0.52, C:0.09, G:0.16, T:0.22
Consensus pattern (35 bp):
AAATGAATAAGACAATAGTTGAAAGACACTATAGA
Found at i:47561959 original size:28 final size:28
Alignment explanation
Indices: 47561925--47561985 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
47561915 TTTAAATTGT
*
47561925 TTATATGAATCAACTATGTGAAAAATGA
1 TTATATGAATCAACTATATGAAAAATGA
* * *
47561953 TTATATGAATCGATTATATGGAAAATGA
1 TTATATGAATCAACTATATGAAAAATGA
47561981 TTATA
1 TTATA
47561986 AAAAATGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (28 bp):
TTATATGAATCAACTATATGAAAAATGA
Found at i:47561969 original size:13 final size:12
Alignment explanation
Indices: 47561948--47562055 Score: 74
Period size: 13 Copynumber: 8.2 Consensus size: 12
47561938 CTATGTGAAA
47561948 AATGATTATATG
1 AATGATTATATG
47561960 AATCGATTATATGG
1 AAT-GATTATAT-G
**
47561974 AAAATGATTATAAAA
1 --AATGATTAT-ATG
47561989 AATGATTATATG
1 AATGATTATATG
47562001 AATTGATTATATGG
1 AA-TGATTATAT-G
*
47562015 AAATAGA-TACATGG
1 -AAT-GATTATAT-G
47562029 AATGATTATATG
1 AATGATTATATG
*
47562041 AATTGGTTATATG
1 AA-TGATTATATG
47562054 AA
1 AA
47562056 AATAGTTAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
12 11 0.14
13 44 0.56
14 9 0.12
15 10 0.13
16 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (12 bp):
AATGATTATATG
Found at i:47561995 original size:28 final size:28
Alignment explanation
Indices: 47561946--47562000 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
47561936 AACTATGTGA
**
47561946 AAAATGATTATATGAATCGATTATATGG
1 AAAATGATTATAAAAATCGATTATATGG
47561974 AAAATGATTATAAAAAAT-GATTATATG
1 AAAATGATTAT-AAAAATCGATTATATG
47562001 AATTGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.15, T:0.35
Consensus pattern (28 bp):
AAAATGATTATAAAAATCGATTATATGG
Found at i:47562044 original size:40 final size:41
Alignment explanation
Indices: 47561945--47562060 Score: 146
Period size: 40 Copynumber: 2.9 Consensus size: 41
47561935 CAACTATGTG
* *
47561945 AAAAATGATTATATGAATCGATTATATGGAAA-ATGATTATA
1 AAAAATGATTATATGAATTGATTATATGGAAATA-GATTACA
47561986 AAAAATGATTATATGAATTGATTATATGGAAATAGA-TACA
1 AAAAATGATTATATGAATTGATTATATGGAAATAGATTACA
*** * *
47562026 TGGAATGATTATATGAATTGGTTATATGAAAATAG
1 AAAAATGATTATATGAATTGATTATATGGAAATAG
47562061 TTAGATGAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 33 0.49
41 33 0.49
42 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.17, T:0.34
Consensus pattern (41 bp):
AAAAATGATTATATGAATTGATTATATGGAAATAGATTACA
Found at i:47562914 original size:20 final size:20
Alignment explanation
Indices: 47562889--47562933 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
47562879 TTTGGCATGT
47562889 TTTAATGTGTTAAGGATAGG
1 TTTAATGTGTTAAGGATAGG
**
47562909 TTTAATGTGTTTTGGATAGG
1 TTTAATGTGTTAAGGATAGG
47562929 TTTAA
1 TTTAA
47562934 AGGGTGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (20 bp):
TTTAATGTGTTAAGGATAGG
Found at i:47570236 original size:19 final size:21
Alignment explanation
Indices: 47570196--47570237 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
47570186 ATGGTTATGC
*
47570196 GGCTATTCCACACACCCGTGT
1 GGCTACTCCACACACCCGTGT
*
47570217 GGCTACTCCACACACCTGTGT
1 GGCTACTCCACACACCCGTGT
47570238 TCTCAGACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.24
Consensus pattern (21 bp):
GGCTACTCCACACACCCGTGT
Found at i:47571346 original size:41 final size:41
Alignment explanation
Indices: 47571298--47571418 Score: 134
Period size: 41 Copynumber: 3.0 Consensus size: 41
47571288 TGATACAGTT
*
47571298 CACCGGCACGAAGCTTGATAGGCTCAAAGCCTGATATAATA
1 CACCGGCACGAAGCCTGATAGGCTCAAAGCCTGATATAATA
* * * * * * *
47571339 CAGCGGCACAAAGCCTGCTAGGCTCAAGGCTTGATGTAATT
1 CACCGGCACGAAGCCTGATAGGCTCAAAGCCTGATATAATA
* * * *
47571380 CACCGGCATGAAACCTGTTAGGCTCAGAGCCTGATATAA
1 CACCGGCACGAAGCCTGATAGGCTCAAAGCCTGATATAA
47571419 ATCACCGACA
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.21
Consensus pattern (41 bp):
CACCGGCACGAAGCCTGATAGGCTCAAAGCCTGATATAATA
Found at i:47571424 original size:41 final size:41
Alignment explanation
Indices: 47571297--47571439 Score: 125
Period size: 41 Copynumber: 3.5 Consensus size: 41
47571287 ATGATACAGT
* * *
47571297 TCACCGGCACG-AAGCTTGATAGGCTCAAAGCCTGATAT-AA
1 TCACCGGCATGAAAGCCTGTTAGGCTC-AAGCCTGATATAAA
* * * * * *
47571337 TACAGCGGCA-CAAAGCCTGCTAGGCTCAAGGCTTGATGTAAT
1 T-CACCGGCATGAAAGCCTGTTAGGCTCAA-GCCTGATATAAA
47571379 TCACCGGCATGAAA-CCTGTTAGGCTCAGAGCCTGATATAAA
1 TCACCGGCATGAAAGCCTGTTAGGCTCA-AGCCTGATATAAA
*
47571420 TCACCGACAT-AAAGCCTGTT
1 TCACCGGCATGAAAGCCTGTT
47571440 GAACTCAAGG
Statistics
Matches: 82, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
40 6 0.07
41 70 0.85
42 6 0.07
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (41 bp):
TCACCGGCATGAAAGCCTGTTAGGCTCAAGCCTGATATAAA
Found at i:47571447 original size:82 final size:82
Alignment explanation
Indices: 47571296--47571450 Score: 188
Period size: 82 Copynumber: 1.9 Consensus size: 82
47571286 CATGATACAG
* * * * *
47571296 TTCACCGGCACGAAGCTTGATAGGCTCAAAGCCTGATATAATACAGCGGCACAAAGCCTGCTAGG
1 TTCACCGGCACGAAACCTGATAGGCTCAAAGCCTGATATAATACACCGACACAAAGCCTGCTAGA
47571361 CTCAAGGCTTGATGTAA
66 CTCAAGGCTTGATGTAA
* * * * *
47571378 TTCACCGGCATGAAACCTGTTAGGCTCAGAGCCTGATATAA-ATCACCGACATAAAGCCTG-TTG
1 TTCACCGGCACGAAACCTGATAGGCTCAAAGCCTGATATAATA-CACCGACACAAAGCCTGCTAG
47571441 AACTCAAGGC
65 -ACTCAAGGC
47571451 CCGATTCATT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
81 3 0.05
82 58 0.95
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (82 bp):
TTCACCGGCACGAAACCTGATAGGCTCAAAGCCTGATATAATACACCGACACAAAGCCTGCTAGA
CTCAAGGCTTGATGTAA
Found at i:47576181 original size:23 final size:23
Alignment explanation
Indices: 47576122--47576217 Score: 68
Period size: 23 Copynumber: 4.1 Consensus size: 23
47576112 AACTTACCAC
47576122 AAAGACATTGCAGAATACGTCACA
1 AAAG-CATTGCAGAATACGTCACA
* * *
47576146 AAAG-AGTTACAGAATACGTCTCC
1 AAAGCA-TTGCAGAATACGTCACA
* * *
47576169 AAGGCATTGCAGAATATGCCACA
1 AAAGCATTGCAGAATACGTCACA
** * * *
47576192 AGGGCATTTCAGAATATGCCACA
1 AAAGCATTGCAGAATACGTCACA
47576215 AAA
1 AAA
47576218 ACTTCATAGA
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
22 1 0.02
23 51 0.89
24 5 0.09
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (23 bp):
AAAGCATTGCAGAATACGTCACA
Found at i:47577452 original size:16 final size:16
Alignment explanation
Indices: 47577431--47577490 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
47577421 TTAATCACTT
47577431 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
47577447 TAATATT-TATAAAGA
1 TAATATTAAATTAATA
* *
47577462 TAAATATTTAATTTAATT
1 T-AATA-TTAAATTAATA
47577480 TAATATTAAAT
1 TAATATTAAAT
47577491 CTTATTAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
15 6 0.19
16 16 0.50
17 6 0.19
18 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:47585084 original size:25 final size:24
Alignment explanation
Indices: 47585049--47585100 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
47585039 CATACCACAA
47585049 CTCTTTATGAGCATCCTGATATAGG
1 CTCTTTATGAGCATCCTGATAT-GG
* *
47585074 CTCTTTGTGAGCTTCCTGATATGG
1 CTCTTTATGAGCATCCTGATATGG
47585098 CTC
1 CTC
47585101 ACTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (24 bp):
CTCTTTATGAGCATCCTGATATGG
Found at i:47585486 original size:17 final size:17
Alignment explanation
Indices: 47585430--47585487 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
47585420 AAGATGATTT
*
47585430 TTTATGGAAATGCATATG
1 TTTAT-GAAAAGCATATG
47585448 TTATATG-AAA--ATATG
1 TT-TATGAAAAGCATATG
*
47585463 -ATATGAAAAGCATATG
1 TTTATGAAAAGCATATG
47585479 TTTATGAAA
1 TTTATGAAA
47585488 GTTATTACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
13 4 0.12
14 3 0.09
15 5 0.16
16 5 0.16
17 9 0.28
18 3 0.09
19 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.36
Consensus pattern (17 bp):
TTTATGAAAAGCATATG
Found at i:47595620 original size:19 final size:19
Alignment explanation
Indices: 47595596--47595639 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
47595586 GTACTTAACT
*
47595596 AATTATCCAATTAAATAAA
1 AATTATCAAATTAAATAAA
47595615 AATTATCAAATTAAATAAA
1 AATTATCAAATTAAATAAA
47595634 AATTAT
1 AATTAT
47595640 GTACTCACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTATCAAATTAAATAAA
Found at i:47599584 original size:5 final size:5
Alignment explanation
Indices: 47599574--47599599 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47599564 CGTCTTTCAC
47599574 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
47599600 ATCAGTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:47600395 original size:45 final size:45
Alignment explanation
Indices: 47600307--47600513 Score: 238
Period size: 45 Copynumber: 4.6 Consensus size: 45
47600297 ATTCTAATCC
* * * * *
47600307 ACTCCACTACAACTTTAGGGAGATAGGATTTG-TTTATTTAGTCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTATTGAGTCT
* * * *
47600351 GCCCCACTGCAATTTCAGGGGGATAAGACTTGCTTTATTGAGTCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTATTGAGTCT
* * * *
47600396 GCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTATTGAGTCT
* * *
47600441 ACTCCACTGCAACTTTAGGGAGATAAGACCTGC-TTATTCAGTCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTATTGAGTCT
* *
47600485 ACTCCTCTGCAACTTCAGAGAGATAAGAC
1 ACTCCACTGCAACTTCAGGGAGATAAGAC
47600514 CAGATACGAT
Statistics
Matches: 137, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 58 0.42
45 79 0.58
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
ACTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTATTGAGTCT
Found at i:47600416 original size:89 final size:89
Alignment explanation
Indices: 47600307--47600513 Score: 238
Period size: 89 Copynumber: 2.3 Consensus size: 89
47600297 ATTCTAATCC
* * * * * * *
47600307 ACTCCACTACAACTTTAGGGAGATAGGATTTG-TTTATTTAGTCTGCCCCACTGCAA-TTTCAGG
1 ACTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTATTGAGTCTACCCCACTGCAACTTT-AGG
* * *
47600370 GGGATAAGACTTGCTTTATTGAGTCT
65 GAGATAAGACCTGC-TTATTCAGTCT
* * * *
47600396 GCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTACTCCACTGCAACTTTAGGG
1 ACTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTATTGAGTCTACCCCACTGCAACTTTAGGG
47600461 AGATAAGACCTGCTTATTCAGTCT
66 AGATAAGACCTGCTTATTCAGTCT
* *
47600485 ACTCCTCTGCAACTTCAGAGAGATAAGAC
1 ACTCCACTGCAACTTCAGGGAGATAAGAC
47600514 CAGATACGAT
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
89 62 0.63
90 34 0.34
91 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (89 bp):
ACTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTATTGAGTCTACCCCACTGCAACTTTAGGG
AGATAAGACCTGCTTATTCAGTCT
Found at i:47600592 original size:44 final size:44
Alignment explanation
Indices: 47600522--47600642 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 44
47600512 ACCAGATACG
* * *
47600522 ATCTGCTCT-CTGCAACTTTAGAGAGATAAGATCT-GTGATTTTA
1 ATCTGCTCTACTGCAACTTCAGGGAGATAAGAT-TAGTGACTTTA
* * * *
47600565 ATCTGCTCTAGTGCAACTTCAGGGAGATAGGATTATTGGCTTTA
1 ATCTGCTCTACTGCAACTTCAGGGAGATAAGATTAGTGACTTTA
* * *
47600609 ATCTGCTCCACTGCAATTTCAAGGAGATAAGATT
1 ATCTGCTCTACTGCAACTTCAGGGAGATAAGATT
47600643 CGCCATCTTC
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 10 0.16
44 54 0.84
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (44 bp):
ATCTGCTCTACTGCAACTTCAGGGAGATAAGATTAGTGACTTTA
Found at i:47600821 original size:40 final size:43
Alignment explanation
Indices: 47600770--47600870 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 43
47600760 TCCACTATAG
* *
47600770 CTTCAGGGAGATAAGACTA-GA-TGTGATCTGCTCT-CTACAA
1 CTTCAGGGAGATAAGACTATGATTGTAATCCGCTCTACTACAA
* * *
47600810 CTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCTACTGCAA
1 CTTCAGGGAGATAAGA-CTATGATTGTAATCCGCTCTACTACAA
*
47600854 CTTCAGGGGGATAAGAC
1 CTTCAGGGAGATAAGAC
47600871 CTGCTTATTC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
40 15 0.30
41 3 0.06
42 2 0.04
43 11 0.22
44 19 0.38
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
CTTCAGGGAGATAAGACTATGATTGTAATCCGCTCTACTACAA
Found at i:47601040 original size:88 final size:88
Alignment explanation
Indices: 47600919--47601492 Score: 779
Period size: 88 Copynumber: 6.5 Consensus size: 88
47600909 TAAAACTAGA
* *
47600919 TGTCTTCGATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
*
47600984 GCAACCCAGGGAGGCAAAGCTGG
66 GCAACCCAGGGAGGCAAGGCTGG
* * * **
47601007 TGTCTTCGATCTGTTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTGTTTTTAGCCTGCTCTGCT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
47601072 GCAACCCAGGGAGGCAAGGCTGG
66 GCAACCCAGGGAGGCAAGGCTGG
* * *
47601095 TGTCTTCGATCTGCTTCGTTTTCGGTGCAGGAATGCAAGATCTGCTATTTTTAGCCTGCTCCACT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
*
47601160 ACAACCCAGGGAGGCAAGGCTGG
66 GCAACCCAGGGAGGCAAGGCTGG
* ** * * * *
47601183 TGTCTTCGATTTGCTTTACTGTCGGTGTAGGAAAGCAAGATCTGCTATTTTTAACCTACTCCACT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
* *
47601248 GCAACCCAAGGAGGCAAGGTTGG
66 GCAACCCAGGGAGGCAAGGCTGG
* * * * * *
47601271 TATCTTCAATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTCTTTTTAGCCTACTCCGCT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
*
47601336 GCAACCCAGGAAGGCAAGGCTGG
66 GCAACCCAGGGAGGCAAGGCTGG
* * * * * *
47601359 TGTCTTCGATCTGCTTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTCTAACCTGTTCCGCT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
* *
47601424 GCAACCCAAGGAGGCAAGGCTTG
66 GCAACCCAGGGAGGCAAGGCTGG
* * * * *
47601447 TGTCTTCGATCTGCTTTGCTGTCAGTGCAGAAAAGTAAGATCTGCT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT
47601493 CTCTTCACTG
Statistics
Matches: 423, Mismatches: 63, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 423 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (88 bp):
TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
GCAACCCAGGGAGGCAAGGCTGG
Found at i:47607356 original size:13 final size:13
Alignment explanation
Indices: 47607338--47607386 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
47607328 AATGGCATAT
47607338 AAATAATATAAAC
1 AAATAATATAAAC
47607351 AAATAA-ATAAAC
1 AAATAATATAAAC
*
47607363 GAAATGAATATATAAA
1 -AAAT-AATATA-AAC
47607379 AAATAATA
1 AAATAATA
47607387 ATCCACGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 6 0.19
13 10 0.32
14 6 0.19
15 7 0.23
16 2 0.06
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (13 bp):
AAATAATATAAAC
Found at i:47623748 original size:13 final size:14
Alignment explanation
Indices: 47623719--47623748 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47623709 TCAAAAAAAT
47623719 AAATCATTTTTCAG
1 AAATCATTTTTCAG
47623733 AAATCATTTTTC-G
1 AAATCATTTTTCAG
47623746 AAA
1 AAA
47623749 ACCATTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:47634223 original size:18 final size:18
Alignment explanation
Indices: 47634191--47634234 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
47634181 TTTTTATGTG
* * *
47634191 ATACAAATCACATAATAT
1 ATACAAATAAAATAAAAT
47634209 ATACAAATAAAATAAAAT
1 ATACAAATAAAATAAAAT
47634227 AGTACAAA
1 A-TACAAA
47634235 CTTTAAGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.23
Consensus pattern (18 bp):
ATACAAATAAAATAAAAT
Done.