Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 249 of 325
Found at i:78855480 original size:55 final size:53
Alignment explanation
Indices: 78855373--78855487 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 53
78855363 AGCATGGCTG
* * * *
78855373 CCAGAACAGGTATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATATTGTGGCAGAGCCA
* * * *
78855426 CCAGAACAGATATTTGTGGCATAGCCACTAGAAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAAATA-TTGTGGCAGAGCCA
*
78855481 CTAGAAC
1 CCAGAAC
78855488 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 11 0.22
54 21 0.41
55 19 0.37
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATATTGTGGCAGAGCCA
Found at i:78856599 original size:17 final size:16
Alignment explanation
Indices: 78856573--78856605 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
78856563 GGGTTCGGCT
78856573 ATGGAGAAAAGAAAAG
1 ATGGAGAAAAGAAAAG
78856589 ATGGAAGAAAAGAAAAG
1 ATGG-AGAAAAGAAAAG
78856606 GTGAGAAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.30, T:0.06
Consensus pattern (16 bp):
ATGGAGAAAAGAAAAG
Found at i:78875926 original size:48 final size:49
Alignment explanation
Indices: 78875743--78875926 Score: 168
Period size: 48 Copynumber: 3.9 Consensus size: 49
78875733 CCTGGATATT
* * * *
78875743 GTCTTATATGGGAC-CACTTATCGATGCCAATGCCATGTCCCAGACATG
1 GTCTTACATGGGACTCACATATCGATGCCGATGCCATGTCCCAAACATG
* *
78875791 GTCTTACATGGGACCACACATATCGAAGCCGAT---A-GT-CC-AACTATG
1 GTCTTACATGGGA-CTCACATATCGATGCCGATGCCATGTCCCAAAC-ATG
** * * *
78875836 GTCTTACATGATATTCTCATATCGATACCGATGCCATGTCCCAAACATG
1 GTCTTACATGGGACTCACATATCGATGCCGATGCCATGTCCCAAACATG
* * *
78875885 GTCTTACATGGGA-TCACATATCGATGCTGATGTCATATCCCA
1 GTCTTACATGGGACTCACATATCGATGCCGATGCCATGTCCCA
78875927 TATATGGCCT
Statistics
Matches: 108, Mismatches: 19, Indels: 18
0.74 0.13 0.12
Matches are distributed among these distances:
44 16 0.15
45 16 0.15
46 2 0.02
47 2 0.02
48 38 0.35
49 17 0.16
50 17 0.16
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (49 bp):
GTCTTACATGGGACTCACATATCGATGCCGATGCCATGTCCCAAACATG
Found at i:78875946 original size:48 final size:48
Alignment explanation
Indices: 78875853--78875947 Score: 109
Period size: 48 Copynumber: 2.0 Consensus size: 48
78875843 ATGATATTCT
* * *
78875853 CATATCGATACCGATGCCATGTCCCAAACATGGTCTTACATGGGATCA
1 CATATCGATACCGATGCCATATCCCAAACATGGCCTTACACGGGATCA
* * * * * *
78875901 CATATCGATGCTGATGTCATATCCCATATATGGCCTTATACGGGATC
1 CATATCGATACCGATGCCATATCCCAAACATGGCCTTACACGGGATC
78875948 TCATCAACCC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (48 bp):
CATATCGATACCGATGCCATATCCCAAACATGGCCTTACACGGGATCA
Found at i:78891861 original size:66 final size:66
Alignment explanation
Indices: 78891755--78891878 Score: 194
Period size: 66 Copynumber: 1.9 Consensus size: 66
78891745 ATCTAGACAG
* *
78891755 CTGTCAGGTGCGACGACAATTCTGAACGCAATCTTGAATTAACCCATGTAGTGACATTGTGAACA
1 CTGTCAGGTGCGACGACAATTCTGAACGCAATCTGGAATTAACCCATGTAGCGACATTGTGAACA
78891820 T
66 T
* * * *
78891821 CTGTCAGGTGTGGCGACAATTCTGGACGCAATCTGGAATTAACTCATGTAGCGACATT
1 CTGTCAGGTGCGACGACAATTCTGAACGCAATCTGGAATTAACCCATGTAGCGACATT
78891879 AATGCAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (66 bp):
CTGTCAGGTGCGACGACAATTCTGAACGCAATCTGGAATTAACCCATGTAGCGACATTGTGAACA
T
Found at i:78900761 original size:26 final size:26
Alignment explanation
Indices: 78900732--78900795 Score: 121
Period size: 25 Copynumber: 2.5 Consensus size: 26
78900722 TTTTCTTGGA
78900732 AATTTTACTAGGGGTAAAATCTTCAT
1 AATTTTACTAGGGGTAAAATCTTCAT
78900758 AATTTTACTA-GGGTAAAATCTTCAT
1 AATTTTACTAGGGGTAAAATCTTCAT
78900783 AATTTTACTAGGG
1 AATTTTACTAGGG
78900796 ATGAGAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 25 0.68
26 12 0.32
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (26 bp):
AATTTTACTAGGGGTAAAATCTTCAT
Found at i:78903130 original size:36 final size:35
Alignment explanation
Indices: 78903040--78903135 Score: 122
Period size: 36 Copynumber: 2.7 Consensus size: 35
78903030 ACATGTTGAT
78903040 ATTCTGATTCGCATGTTAAGCATGC-TATTAATCTA
1 ATTCTGATTCGCATGTTAAGCATGCAT-TTAATCTA
* * ** *
78903075 ATTTTGACTCGCATGTTAAGCATGTCATTTTTTCTG
1 ATTCTGATTCGCATGTTAAGCATG-CATTTAATCTA
78903111 ATTCTGATTCGCATGTTAAGCATGC
1 ATTCTGATTCGCATGTTAAGCATGC
78903136 CATTGTGTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
35 23 0.44
36 28 0.54
37 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (35 bp):
ATTCTGATTCGCATGTTAAGCATGCATTTAATCTA
Found at i:78904530 original size:22 final size:21
Alignment explanation
Indices: 78904484--78904530 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
78904474 ACGGGATTTG
* *
78904484 CACTACGGTGCCTACTATTCG
1 CACTACGGTGCCCACTATTCA
*
78904505 CACTACGGTGCCCATTGATTCA
1 CACTACGGTGCCCACT-ATTCA
78904527 CACT
1 CACT
78904531 TCAGTATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.21, C:0.34, G:0.17, T:0.28
Consensus pattern (21 bp):
CACTACGGTGCCCACTATTCA
Found at i:78911079 original size:19 final size:19
Alignment explanation
Indices: 78911033--78911080 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
78911023 GTATATATTT
78911033 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
78911051 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
78911070 TAATTTTTATT
1 TAAATTTTATT
78911081 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:78911142 original size:43 final size:43
Alignment explanation
Indices: 78911094--78911186 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
78911084 ATTCTAGAAA
78911094 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
78911137 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
78911180 TATTTTC
1 TATTTTC
78911187 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:78915804 original size:19 final size:19
Alignment explanation
Indices: 78915758--78915805 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
78915748 GTATATATTT
78915758 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
78915776 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
78915795 TAAGTTTTATT
1 TAAATTTTATT
78915806 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:78915867 original size:43 final size:43
Alignment explanation
Indices: 78915819--78915911 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
78915809 ATTCTAGAAA
*
78915819 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAG
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
78915862 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
78915905 TATTTTC
1 TATTTTC
78915912 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:78919655 original size:29 final size:29
Alignment explanation
Indices: 78919616--78919694 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
78919606 CTTAATAATC
*
78919616 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
78919646 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
78919675 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
78919695 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:78924501 original size:23 final size:23
Alignment explanation
Indices: 78924470--78924533 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
78924460 CCACACGGCT
* *
78924470 ATGTCACCCTAGTTTACATGGTC
1 ATGTGACCCTAGTTTACATGGGC
*
78924493 ATGTGACCCTACTTTACATGGGC
1 ATGTGACCCTAGTTTACATGGGC
*
78924516 GTGTGACCCT-GCTTTACA
1 ATGTGACCCTAG-TTTACA
78924534 CTTTTGTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (23 bp):
ATGTGACCCTAGTTTACATGGGC
Found at i:78927044 original size:48 final size:48
Alignment explanation
Indices: 78926964--78927119 Score: 213
Period size: 48 Copynumber: 3.2 Consensus size: 48
78926954 TCTGGGATAT
* * * * *
78926964 GGCATCGGTATGTGATCCCGTATAAGATCATGTCTGGGACATGGCATC
1 GGCATCGTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
* *
78927012 GGCATCGTTATGTGAGCTAGTGTAAGGCCATGTCTGGGACATGGCATC
1 GGCATCGTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
* * *
78927060 GGCATTGTTATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATT
1 GGCATCGTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
*
78927108 GGCATCATTATG
1 GGCATCGTTATG
78927120 GCATCGGCAT
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (48 bp):
GGCATCGTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
Found at i:78927122 original size:17 final size:17
Alignment explanation
Indices: 78927100--78927136 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
78927090 TGTCTAGGAC
*
78927100 ATGGCATTGGCATCATT
1 ATGGCATCGGCATCATT
*
78927117 ATGGCATCGGCATCGTT
1 ATGGCATCGGCATCATT
78927134 ATG
1 ATG
78927137 TGAACCAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (17 bp):
ATGGCATCGGCATCATT
Found at i:78927158 original size:65 final size:65
Alignment explanation
Indices: 78927052--78927177 Score: 207
Period size: 65 Copynumber: 1.9 Consensus size: 65
78927042 TGTCTGGGAC
* * *
78927052 ATGGCATCGGCATTGTTATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCATCATT
1 ATGGCATCGGCATCGTTATGTGAACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCATT
* *
78927117 ATGGCATCGGCATCGTTATGTGAACCAGTGTAAGACTATGTCTGGGACATGGCATCGGCAT
1 ATGGCATCGGCATCGTTATGTGAACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAT
78927178 GAGGCATCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (65 bp):
ATGGCATCGGCATCGTTATGTGAACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCATT
Found at i:78935086 original size:20 final size:20
Alignment explanation
Indices: 78935060--78935108 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
78935050 AAAAACCCTC
*
78935060 CATTTACTTTCTTACCA-TT
1 CATTTACTTACTTACCATTT
* *
78935079 CTATTTACCTACTTTCCATTT
1 C-ATTTACTTACTTACCATTT
78935100 CATTTACTT
1 CATTTACTT
78935109 CGCATAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.53
Consensus pattern (20 bp):
CATTTACTTACTTACCATTT
Found at i:78935891 original size:7 final size:7
Alignment explanation
Indices: 78935879--78935913 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
78935869 ACGATGAAAA
78935879 TTTTATT
1 TTTTATT
78935886 TTTTATT
1 TTTTATT
78935893 TTTTATT
1 TTTTATT
78935900 TTTTATT
1 TTTTATT
78935907 TTTTATT
1 TTTTATT
78935914 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:78935922 original size:14 final size:14
Alignment explanation
Indices: 78935879--78935924 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
78935869 ACGATGAAAA
*
78935879 TTTTATTTTTTATT
1 TTTTATTTATTATT
*
78935893 TTTTATTTTTTATT
1 TTTTATTTATTATT
78935907 TTTTA-TTA-TATT
1 TTTTATTTATTATT
78935919 TTTTAT
1 TTTTAT
78935925 GGTCTACGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 9 0.30
13 2 0.07
14 19 0.63
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTATTATT
Found at i:78935922 original size:21 final size:21
Alignment explanation
Indices: 78935879--78935924 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
78935869 ACGATGAAAA
*
78935879 TTTTATTTTTTATTTTTTATT
1 TTTTATTTTTTATTTATTATT
78935900 TTTTATTTTTTA-TTA-TATT
1 TTTTATTTTTTATTTATTATT
78935919 TTTTAT
1 TTTTAT
78935925 GGTCTACGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 10 0.42
20 2 0.08
21 12 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTATTTTTTATTTATTATT
Found at i:78937042 original size:27 final size:27
Alignment explanation
Indices: 78937001--78937054 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
78936991 TGTCATGTGA
* *
78937001 AATTGAATGAAAAATTATTGTTACATG
1 AATTGAATGAAAAATTACTATTACATG
**
78937028 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGAAAAATTACTATTACATG
78937055 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGAAAAATTACTATTACATG
Found at i:78937370 original size:49 final size:50
Alignment explanation
Indices: 78937307--78937531 Score: 226
Period size: 49 Copynumber: 4.5 Consensus size: 50
78937297 TGAGGTCACG
* * *
78937307 TGTGTAGTAGTAAGTCCAGGCTACTACGTGTACCAGATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* * * * * * * *
78937356 TGTGTAGTACTAAGTGCAAGTTACTA-TTCATACCCGATAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGT-GTACCAGATAA-TTAGGTCGCA
* * **
78937407 TGTCTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT--CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* *
78937455 TGTTTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT-GGTCGCA
1 TG--TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
78937506 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
78937532 TGCGTACTAG
Statistics
Matches: 141, Mismatches: 27, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
48 5 0.04
49 57 0.40
50 40 0.28
51 38 0.27
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
Found at i:78939512 original size:18 final size:18
Alignment explanation
Indices: 78939489--78939523 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78939479 AGTATAGGGG
*
78939489 GTTTTCGTAAATTTTTTT
1 GTTTTCCTAAATTTTTTT
*
78939507 GTTTTCCTCAATTTTTT
1 GTTTTCCTAAATTTTTT
78939524 CACTCGATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.11, G:0.09, T:0.66
Consensus pattern (18 bp):
GTTTTCCTAAATTTTTTT
Found at i:78940842 original size:15 final size:15
Alignment explanation
Indices: 78940822--78940851 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
78940812 AAAAAAGGGC
78940822 TAGTCACAGCACCAA
1 TAGTCACAGCACCAA
*
78940837 TAGTCATAGCACCAA
1 TAGTCACAGCACCAA
78940852 ATTGGACGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.30, G:0.13, T:0.17
Consensus pattern (15 bp):
TAGTCACAGCACCAA
Found at i:78947693 original size:27 final size:27
Alignment explanation
Indices: 78947652--78947708 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
78947642 AATTCACTTT
78947652 TCAATTTCCAATCAACAC-CAATTTCAA
1 TCAATTTCCAATCAACACAC-ATTTCAA
*
78947679 TCAA-TTCCAATTCAATACACATTTCAA
1 TCAATTTCCAA-TCAACACACATTTCAA
78947706 TCA
1 TCA
78947709 TTCATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 6 0.22
27 20 0.74
28 1 0.04
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (27 bp):
TCAATTTCCAATCAACACACATTTCAA
Found at i:78948447 original size:16 final size:15
Alignment explanation
Indices: 78948396--78948448 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
78948386 GTTATATACT
78948396 CATGAATTGAGTATGG
1 CATGAATTGAGTAT-G
* * *
78948412 TATGAAATGATGTATT
1 CATGAATTGA-GTATG
78948428 CATGAATTGAGTACTG
1 CATGAATTGAGTA-TG
78948444 CATGA
1 CATGA
78948449 CTAATGCCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 3 0.10
16 22 0.76
17 4 0.14
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.34
Consensus pattern (15 bp):
CATGAATTGAGTATG
Found at i:78949765 original size:43 final size:43
Alignment explanation
Indices: 78949715--78949816 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
78949705 TCCCGGACGT
* * *
78949715 GGTCTTACATGTAATTCAG-TACCGATGTCTCTGTCCCAGACAG
1 GGTCTTACATGTAAATCAGATA-CGATGCCTATGTCCCAGACAG
* * * *
78949758 GGTCTTACACG-AAATCAGATATGATGCCTATGTCCCAGATAT
1 GGTCTTACATGTAAATCAGATACGATGCCTATGTCCCAGACAG
78949800 GGTCTTACATGTAAATC
1 GGTCTTACATGTAAATC
78949817 TCAAATCAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 32 0.65
43 17 0.35
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGATACGATGCCTATGTCCCAGACAG
Found at i:78950145 original size:8 final size:8
Alignment explanation
Indices: 78950132--78950170 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
78950122 TACAATTCAA
*
78950132 ATTCAACC
1 ATTCAATC
78950140 ATTCAATC
1 ATTCAATC
78950148 ATTCAATC
1 ATTCAATC
*
78950156 ATTCATTTC
1 ATTCA-ATC
78950165 ATTCAA
1 ATTCAA
78950171 AATAATTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTCAATC
Found at i:78952368 original size:23 final size:23
Alignment explanation
Indices: 78952342--78952392 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
78952332 TTCTTTTTTT
78952342 CATTTTATATTATATGTT-TCAT-G
1 CATTTTATATT-TA-GTTGTCATGG
*
78952365 CA-TTCATATTTAGTTGTCATGG
1 CATTTTATATTTAGTTGTCATGG
78952387 CATTTT
1 CATTTT
78952393 TATAGTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
20 3 0.13
21 6 0.26
22 10 0.43
23 4 0.17
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (23 bp):
CATTTTATATTTAGTTGTCATGG
Found at i:78967928 original size:40 final size:40
Alignment explanation
Indices: 78967856--78968073 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
78967846 AACCCAAGTA
* * *
78967856 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
*
78967895 CCTTCGGAACTTAGCCCGGATATAGTAATTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
78967935 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
*
78967975 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
78968015 CCTTC-GAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGA-ACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
78968055 CCTTCGGATCTTAGTCCGG
1 CCTTCGGAACTTAGCCCGG
78968074 TTATCATCCG
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.08
40 148 0.91
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:78976130 original size:40 final size:40
Alignment explanation
Indices: 78975958--78976123 Score: 253
Period size: 40 Copynumber: 4.2 Consensus size: 40
78975948 AACCCAAGTA
* *
78975958 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
78975997 CCTTCGGGACTTAGCCGGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
78976037 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
78976077 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
78976117 CCTTCGG
1 CCTTCGG
78976124 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 13 0.11
40 101 0.89
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:78978505 original size:110 final size:110
Alignment explanation
Indices: 78978308--78978525 Score: 346
Period size: 110 Copynumber: 2.0 Consensus size: 110
78978298 GATTGTTCAT
* * *
78978308 CAAATGGATGTTAAAACTGCATTTTTAAATGATGAATTGGAAGAGGAACTGTACATGGAACAACT
1 CAAATGGATGTTAAAACTACATTTTTAAATGACGAATTGGAAGAGGAACTGTACATGGAACAACC
*
78978373 AAAAGGATTTGTTGTTCCAGGACAAGAGCATCAGGTATGTAAGAC
66 AAAAGGATTTGTTGTTCCAGGACAAGAGCATAAGGTATGTAAGAC
*
78978418 CAAATGGATGTTAAAACTACATTTTTAAATGACGAATTGGAAGAGGAAGTGTACATGGAACAACC
1 CAAATGGATGTTAAAACTACATTTTTAAATGACGAATTGGAAGAGGAACTGTACATGGAACAACC
* ** **
78978483 AGAATTATTTGTTGTTTTAGGACAAGAGCATAAGGTATGTAAG
66 AAAAGGATTTGTTGTTCCAGGACAAGAGCATAAGGTATGTAAG
78978526 CTTGTTAAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 98 1.00
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.28
Consensus pattern (110 bp):
CAAATGGATGTTAAAACTACATTTTTAAATGACGAATTGGAAGAGGAACTGTACATGGAACAACC
AAAAGGATTTGTTGTTCCAGGACAAGAGCATAAGGTATGTAAGAC
Found at i:78980338 original size:20 final size:20
Alignment explanation
Indices: 78980304--78980345 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
78980294 AACAATTCAA
** *
78980304 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
78980324 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
78980344 AT
1 AT
78980346 GTGTCTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:78980908 original size:11 final size:11
Alignment explanation
Indices: 78980892--78980916 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
78980882 CTAATTTGTA
78980892 AAAAAAAAAAC
1 AAAAAAAAAAC
78980903 AAAAAAAAAAC
1 AAAAAAAAAAC
78980914 AAA
1 AAA
78980917 CAATTTACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:78980994 original size:36 final size:36
Alignment explanation
Indices: 78980947--78981018 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
78980937 CATAAAAGGA
78980947 ACTTTCCTTTAGAAAATTTTTATATTTTAGTATTTT
1 ACTTTCCTTTAGAAAATTTTTATATTTTAGTATTTT
78980983 ACTTTCCTTTAGAAAATTTTTATATTTTAGTATTTT
1 ACTTTCCTTTAGAAAATTTTTATATTTTAGTATTTT
78981019 TTTACTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (36 bp):
ACTTTCCTTTAGAAAATTTTTATATTTTAGTATTTT
Found at i:78984744 original size:6 final size:6
Alignment explanation
Indices: 78984733--78984763 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
78984723 GTTAGGCGGA
78984733 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG G
1 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG G
78984764 ACGGGTGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GTGGAG
Found at i:78987175 original size:6 final size:6
Alignment explanation
Indices: 78987166--78987190 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
78987156 CCATTCTCTT
78987166 TCTAAA TCTAAA TCTAAA TCTAAA T
1 TCTAAA TCTAAA TCTAAA TCTAAA T
78987191 TTCATTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (6 bp):
TCTAAA
Found at i:78990157 original size:12 final size:12
Alignment explanation
Indices: 78990140--78990166 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
78990130 TTCATTTGAC
78990140 TCAACATGCAAT
1 TCAACATGCAAT
78990152 TCAACATGCAAT
1 TCAACATGCAAT
78990164 TCA
1 TCA
78990167 TTTCTAGTTT
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:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (12 bp):
TCAACATGCAAT
Found at i:78993333 original size:47 final size:47
Alignment explanation
Indices: 78993255--78993989 Score: 1204
Period size: 47 Copynumber: 15.6 Consensus size: 47
78993245 CCCTTCGGGA
* * * * * *
78993255 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78993302 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78993349 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78993396 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78993443 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
78993490 CTTATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78993539 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78993586 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78993633 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
78993680 CTTATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78993729 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78993776 CTTATCACATATATACACTTTCACA-TCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78993821 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78993868 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78993917 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78993964 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
78993990 CACAATTATC
Statistics
Matches: 646, Mismatches: 34, Indels: 16
0.93 0.05 0.02
Matches are distributed among these distances:
45 35 0.05
46 20 0.03
47 458 0.71
49 133 0.21
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78993576 original size:190 final size:190
Alignment explanation
Indices: 78993255--78993989 Score: 1289
Period size: 190 Copynumber: 3.9 Consensus size: 190
78993245 CCCTTCGGGA
* * * * * * * *
78993255 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * * *
78993318 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
78993383 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
78993443 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
78993508 ACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
78993573 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
78993633 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
78993698 ACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
78993763 TCGGCCATTAGGCCTTATCACATATATACACTTTCACA-TCATCACATC-GCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
78993821 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
78993886 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
78993951 TCGGCCATTAGGCCTTATCACATATATATACATTCACAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
78993990 CACAATTATC
Statistics
Matches: 527, Mismatches: 17, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
188 221 0.42
189 10 0.02
190 296 0.56
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:78993681 original size:237 final size:236
Alignment explanation
Indices: 78993255--78993991 Score: 1229
Period size: 237 Copynumber: 3.1 Consensus size: 236
78993245 CCCTTCGGGA
* * * *
78993255 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACAT-CATCACATTGGCCATTCGGCCTTATCACATATATAC
*
78993318 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
78993383 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
130 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
78993448 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
195 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78993490 CTTATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACA-TCATCACATTGGCCATTCGGCCTTATCACATATATAC
78993555 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
78993620 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
130 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
* * *
78993685 CACATATATATACACTTTCACACTCATCACATTGGCCATTCGGC
195 CAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78993729 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACA-TCATCACATTGGCCATTCGGCCTTATCACATATATAC
78993792 ACTTTCACA-TCATCACATC-GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* * *
78993855 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
130 TCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
78993920 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
193 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78993964 CTTATCACATATATATACA--TTCACATCA
1 CTTATCACATATATATACACTTTCACATCA
78993992 CAATTATCCA
Statistics
Matches: 475, Mismatches: 18, Indels: 19
0.93 0.04 0.04
Matches are distributed among these distances:
234 3 0.01
235 124 0.26
236 11 0.02
237 292 0.61
238 1 0.00
239 44 0.09
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (236 bp):
CTTATCACATATATATACACTTTCACATCATCACATTGGCCATTCGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:79007117 original size:16 final size:17
Alignment explanation
Indices: 79007081--79007118 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
79007071 ATTTAAAAGG
79007081 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
79007098 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
79007115 AAAA
1 AAAA
79007119 TTTGATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:79014130 original size:15 final size:13
Alignment explanation
Indices: 79014100--79014132 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
79014090 CTCGGCAGGG
*
79014100 ACACGCCCGTGGC
1 ACACACCCGTGGC
79014113 ACACACCCGTGGC
1 ACACACCCGTGGC
79014126 ACACACC
1 ACACACC
79014133 TGTGTTCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.48, G:0.21, T:0.06
Consensus pattern (13 bp):
ACACACCCGTGGC
Found at i:79014247 original size:21 final size:20
Alignment explanation
Indices: 79014223--79014261 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
79014213 CCGTGTTGAT
79014223 TTCGTACTTTGGCCCATTTTC
1 TTCGT-CTTTGGCCCATTTTC
*
79014244 TTCGTTTTTGGCCCATTT
1 TTCGTCTTTGGCCCATTT
79014262 CTCGTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.08, C:0.26, G:0.15, T:0.51
Consensus pattern (20 bp):
TTCGTCTTTGGCCCATTTTC
Found at i:79014661 original size:44 final size:44
Alignment explanation
Indices: 79014612--79014706 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 44
79014602 GCCATTTTTG
*
79014612 GCTTGCACCCTCTCGAGCTTGCATTTAGACCGTCCGCC-TCTTCA
1 GCTTGCACCCACTCGAGCTTGCATTTAGACCGTCCGCCAT-TTCA
* * *
79014656 GCTTGCACCCACTCGGGCTTGCATTTAGACTGTCCGCCATTTTA
1 GCTTGCACCCACTCGAGCTTGCATTTAGACCGTCCGCCATTTCA
79014700 GCTTGCA
1 GCTTGCA
79014707 ATTAGACAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 45 0.98
45 1 0.02
ACGTcount: A:0.15, C:0.35, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTTGCACCCACTCGAGCTTGCATTTAGACCGTCCGCCATTTCA
Found at i:79014740 original size:16 final size:16
Alignment explanation
Indices: 79014700--79014743 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
79014690 CGCCATTTTA
* *
79014700 GCTTGCAATTAGACAG
1 GCTTGCACTTTGACAG
**
79014716 GCTCACACTTTGACAG
1 GCTTGCACTTTGACAG
79014732 GCTTGCACTTTG
1 GCTTGCACTTTG
79014744 CTTATTGTAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (16 bp):
GCTTGCACTTTGACAG
Found at i:79017740 original size:39 final size:39
Alignment explanation
Indices: 79017686--79017801 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
79017676 TTCAGTGATG
*
79017686 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
79017725 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
79017764 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
79017802 ATATGTTCGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:79017825 original size:39 final size:39
Alignment explanation
Indices: 79017686--79017838 Score: 155
Period size: 39 Copynumber: 3.9 Consensus size: 39
79017676 TTCAGTGATG
** * * *
79017686 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
** * *
79017725 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
*
79017764 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* * * * *
79017803 TATGTTCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGG
1 TATATCCGGACTTAAAGT-CCGCAGGCTACGTGCTGG
79017839 TATTATACCG
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
38 5 0.05
39 98 0.95
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:79017825 original size:78 final size:78
Alignment explanation
Indices: 79017686--79017829 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
79017676 TTCAGTGATG
* * * * **
79017686 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
79017751 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * *
79017764 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTTCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
79017828 CT
65 CT
79017830 TCGAGCTGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 4 0.07
78 52 0.93
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:79017838 original size:78 final size:78
Alignment explanation
Indices: 79017686--79017849 Score: 190
Period size: 78 Copynumber: 2.1 Consensus size: 78
79017676 TTCAGTGATG
* * * * **
79017686 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
79017751 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * *
79017764 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTTCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
79017828 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
79017842 TATA-CCGG
1 TATATCCGG
79017850 GTTTAAATTC
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 9 0.12
78 64 0.88
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:79024362 original size:39 final size:39
Alignment explanation
Indices: 79024308--79024433 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
79024298 TTCAGTGATG
*
79024308 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
79024347 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGAAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
79024386 TATATCTGGACTTAAGGTCCGTAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
79024425 TATGTCCGG
1 TATATCCGG
79024434 GCTAAAGTCC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:79024447 original size:78 final size:78
Alignment explanation
Indices: 79024308--79024451 Score: 182
Period size: 78 Copynumber: 1.8 Consensus size: 78
79024298 TTCAGTGATG
* * * * **
79024308 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
79024373 TATGTGCTGAAAT
66 TATGTGCTGAAAT
* * * *
79024386 TATATCTGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
79024450 CT
65 CT
79024452 TCAAGCTGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
77 4 0.07
78 51 0.93
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGAAAT
Found at i:79024451 original size:39 final size:39
Alignment explanation
Indices: 79024308--79024451 Score: 139
Period size: 39 Copynumber: 3.7 Consensus size: 39
79024298 TTCAGTGATG
** * * *
79024308 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGAAAT
** *
79024347 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGAAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGAAAT
* * *
79024386 TATATCTGGACTTAAGGTCCGTAGGCTACGTGCTGGAAA-
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCT-GAAAT
* *
79024425 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAAGT-CCGCAGGCT
79024452 TCAAGCTGGT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 5 0.05
39 83 0.90
40 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGAAAT
Found at i:79024460 original size:39 final size:39
Alignment explanation
Indices: 79024417--79024491 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
79024407 TAGGCTACGT
*
79024417 GCTGGAAATATGTCCGGG-CTAAAGTCCCGCAGGCTTCAA
1 GCTGGAAATAT-ACCGGGTCTAAAGTCCCGCAGGCTTCAA
* * * *
79024456 GCTGGTATTATACCGGGTTTAAATTCCCGCAGGCTT
1 GCTGGAAATATACCGGGTCTAAAGTCCCGCAGGCTT
79024492 GTGCTGGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 5 0.17
39 25 0.83
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (39 bp):
GCTGGAAATATACCGGGTCTAAAGTCCCGCAGGCTTCAA
Found at i:79028358 original size:22 final size:24
Alignment explanation
Indices: 79028313--79028358 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
79028303 TAATCTTTAA
79028313 TATATAATTATATCTATTATAATT
1 TATATAATTATATCTATTATAATT
79028337 TATAT-ATTA-ATCT-TTATCAATT
1 TATATAATTATATCTATTAT-AATT
79028359 AGCATAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 4 0.19
24 5 0.24
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATAATTATATCTATTATAATT
Found at i:79041702 original size:31 final size:31
Alignment explanation
Indices: 79041626--79041703 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
79041616 ACTACAAAAA
*
79041626 TAGTCACTTTTATTTGTCTCAGATTACATTT
1 TAGTCACTTTTGTTTGTCTCAGATTACATTT
*
79041657 TAGTCACTTTTGTTTGTCTCATATTACATTT
1 TAGTCACTTTTGTTTGTCTCAGATTACATTT
*
79041688 TAGTCACTTATGTTTG
1 TAGTCACTTTTGTTTG
79041704 AAATGTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.53
Consensus pattern (31 bp):
TAGTCACTTTTGTTTGTCTCAGATTACATTT
Found at i:79050701 original size:3 final size:3
Alignment explanation
Indices: 79050681--79050747 Score: 100
Period size: 3 Copynumber: 22.7 Consensus size: 3
79050671 ATACTGCTAT
* * *
79050681 TTC TTT TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
79050729 TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TT
79050748 TTTTGGTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:79051064 original size:25 final size:25
Alignment explanation
Indices: 79051030--79051078 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
79051020 ATCTTACTAC
79051030 TAAACCCAATAAATTCAAATCCATA
1 TAAACCCAATAAATTCAAATCCATA
79051055 TAAACCCAATAAATTCAAATCCAT
1 TAAACCCAATAAATTCAAATCCAT
79051079 TCAACTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (25 bp):
TAAACCCAATAAATTCAAATCCATA
Found at i:79055344 original size:39 final size:38
Alignment explanation
Indices: 79055257--79055344 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 38
79055247 GTATATATTC
* * * * *
79055257 AAATAATTATAAAGTGTAAAATTAAATTATTACATTAT
1 AAATAATTAAAAAGTATAAAATTAAATAATTACAATAG
*
79055295 AAATGGATTAAAAAGTATAAAATTAAATAATTACAATAG
1 AAAT-AATTAAAAAGTATAAAATTAAATAATTACAATAG
79055334 AAATAAATTAA
1 AAAT-AATTAA
79055345 GAATTGAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
38 4 0.10
39 37 0.90
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (38 bp):
AAATAATTAAAAAGTATAAAATTAAATAATTACAATAG
Found at i:79055885 original size:23 final size:24
Alignment explanation
Indices: 79055859--79055918 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
79055849 TTTAAAAATG
79055859 ATAAAATTATAATTTT-ATATATA
1 ATAAAATTATAATTTTGATATATA
* *
79055882 ATAAATTTAT-ATTTTGATCTATA
1 ATAAAATTATAATTTTGATATATA
79055905 A-AAATATTATAATT
1 ATAAA-ATTATAATT
79055919 AATTTCAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 8 0.26
23 20 0.65
24 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
ATAAAATTATAATTTTGATATATA
Found at i:79056461 original size:18 final size:19
Alignment explanation
Indices: 79056426--79056465 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
79056416 ACGTAGTTCT
* *
79056426 AAATGAAAATTTTTAAGAA
1 AAATGAAAATGTTAAAGAA
79056445 AAAT-AAAATGTTAAAGAA
1 AAATGAAAATGTTAAAGAA
79056463 AAA
1 AAA
79056466 AGCTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (19 bp):
AAATGAAAATGTTAAAGAA
Found at i:79066890 original size:42 final size:42
Alignment explanation
Indices: 79066843--79066924 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
79066833 GCCAATGTGT
**
79066843 ATATATAGTCGAAGCTATCTCAATCTCACACACTAAGTGCAA
1 ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGCAA
* * * *
79066885 ATATATAACCGAAGCTGTCTCAATTTCGCATACTAAGTGC
1 ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGC
79066925 CCACAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (42 bp):
ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGCAA
Found at i:79067674 original size:46 final size:46
Alignment explanation
Indices: 79067607--79067700 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
79067597 TACAATTGAG
79067607 CTAAGAAGCTTGGCCAAACTCAGCATTCATCCATGCTGGTTTCTTT
1 CTAAGAAGCTTGGCCAAACTCAGCATTCATCCATGCTGGTTTCTTT
79067653 CTAAGAAGCTTGGCCAAACTCAGCATTCATCCATGCTGGTTTCTTT
1 CTAAGAAGCTTGGCCAAACTCAGCATTCATCCATGCTGGTTTCTTT
79067699 CT
1 CT
79067701 TTTAATTTCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (46 bp):
CTAAGAAGCTTGGCCAAACTCAGCATTCATCCATGCTGGTTTCTTT
Found at i:79070215 original size:42 final size:42
Alignment explanation
Indices: 79070168--79070249 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
79070158 GCCAATGTGT
**
79070168 ATATATAGTCGAAGCTATCTCAATCTCACACACTAAGTGCAA
1 ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGCAA
* * *
79070210 ATATATAACCGAAGCTATCTCGATTTCGCACACTAAGTGC
1 ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGC
79070250 CCACAATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.27
Consensus pattern (42 bp):
ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGCAA
Found at i:79076385 original size:26 final size:26
Alignment explanation
Indices: 79076356--79076408 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
79076346 TCAAACATGC
79076356 ATTTAAGTCAATTTA-ATCCTAGGGGT
1 ATTTAAGT-AATTTATATCCTAGGGGT
** *
79076382 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTATATCCTAGGGGT
79076408 A
1 A
79076409 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAAGTAATTTATATCCTAGGGGT
Found at i:79077926 original size:26 final size:26
Alignment explanation
Indices: 79077895--79078002 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
79077885 TGAAATGCCC
*
79077895 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
79077921 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
79077947 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
79077973 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79077999 ATCA
1 ATCA
79078003 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:79078898 original size:60 final size:61
Alignment explanation
Indices: 79078831--79078966 Score: 211
Period size: 61 Copynumber: 2.2 Consensus size: 61
79078821 TTATACTAAA
* *
79078831 TTATTTAAATAAACTTTTATAATA-TTCTTTTACCTAAATAAACCCTTAAGCTATAATGGC
1 TTATTTAAATAAACCTTTATAATATTTCTTTTACCTAAATAAACCCTTAAGCTATAATGAC
* * * *
79078891 TTATTTAAATAAGCCTTTATAGTATTTTTTTTACCTAAATAAACCCTTGAGCTATAATGAC
1 TTATTTAAATAAACCTTTATAATATTTCTTTTACCTAAATAAACCCTTAAGCTATAATGAC
79078952 TTATTTAAATAAACC
1 TTATTTAAATAAACC
79078967 CTTAAATCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
60 21 0.31
61 47 0.69
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (61 bp):
TTATTTAAATAAACCTTTATAATATTTCTTTTACCTAAATAAACCCTTAAGCTATAATGAC
Found at i:79078902 original size:31 final size:31
Alignment explanation
Indices: 79078865--79078971 Score: 101
Period size: 31 Copynumber: 3.5 Consensus size: 31
79078855 TTCTTTTACC
*
79078865 TAAATAAACCCTTAAGCTATAATGGCTTATT
1 TAAATAAACCCTTAAGCTATAATGACTTATT
* * * *** **
79078896 TAAATAAGCCTTTATAG-TAT-TTTTTTTACC
1 TAAATAAACCCTTA-AGCTATAATGACTTATT
*
79078926 TAAATAAACCCTTGAGCTATAATGACTTATT
1 TAAATAAACCCTTAAGCTATAATGACTTATT
79078957 TAAATAAACCCTTAA
1 TAAATAAACCCTTAA
79078972 ATCTAGTTGA
Statistics
Matches: 55, Mismatches: 18, Indels: 6
0.70 0.23 0.08
Matches are distributed among these distances:
29 2 0.04
30 18 0.33
31 33 0.60
32 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (31 bp):
TAAATAAACCCTTAAGCTATAATGACTTATT
Found at i:79106586 original size:19 final size:19
Alignment explanation
Indices: 79106562--79106601 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
79106552 CAATTTGAAG
79106562 ATGAAATGCTATATAAAGC
1 ATGAAATGCTATATAAAGC
79106581 ATGAAATGCTATATAAAGC
1 ATGAAATGCTATATAAAGC
79106600 AT
1 AT
79106602 AGATGTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (19 bp):
ATGAAATGCTATATAAAGC
Found at i:79113609 original size:42 final size:42
Alignment explanation
Indices: 79113562--79113667 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 42
79113552 TGAGTTATCA
*
79113562 TGTAAGACCATATCTGGGATATAGAGTTGATATGAG-ATTTCG
1 TGTAAGACCATATCTGGGATATAGAGTTGAAATGAGAATTT-G
** * *
79113604 TGTAAGACCACGTCTGGGACATAGCGTTGAAATGAGAATTTG
1 TGTAAGACCATATCTGGGATATAGAGTTGAAATGAGAATTTG
*
79113646 TATAAGACCATATCTGGGATAT
1 TGTAAGACCATATCTGGGATAT
79113668 GGCATCGATG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 50 0.93
43 4 0.07
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATAGAGTTGAAATGAGAATTTG
Found at i:79113682 original size:42 final size:43
Alignment explanation
Indices: 79113514--79113682 Score: 130
Period size: 42 Copynumber: 3.9 Consensus size: 43
79113504 TGAGATCCCA
* * *
79113514 TATAAGACCATATCTGGGATATGGCATTGGCATCA-GTATGAGTTATCA
1 TATAAGACCATATCTGGGATATAGCATT-G-AT-ATG-A-GAATT-TCG
*
79113562 TGTAAGACCATATCTGGGATATAG-AGTTGATATGAG-ATTTCG
1 TATAAGACCATATCTGGGATATAGCA-TTGATATGAGAATTTCG
* ** * * *
79113604 TGTAAGACCACGTCTGGGACATAGCGTTGAAATGAGAATTT-G
1 TATAAGACCATATCTGGGATATAGCATTGATATGAGAATTTCG
* * *
79113646 TATAAGACCATATCTGGGATATGGCATCGATGTGAGA
1 TATAAGACCATATCTGGGATATAGCATTGATATGAGA
79113683 TCCCATGTAA
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
42 61 0.62
43 6 0.06
44 1 0.01
45 2 0.02
46 3 0.03
47 2 0.02
48 24 0.24
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (43 bp):
TATAAGACCATATCTGGGATATAGCATTGATATGAGAATTTCG
Found at i:79122335 original size:13 final size:13
Alignment explanation
Indices: 79122317--79122346 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
79122307 CCTTGCCAAA
79122317 GTGACACGGCCGT
1 GTGACACGGCCGT
*
79122330 GTGACACGTCCGT
1 GTGACACGGCCGT
79122343 GTGA
1 GTGA
79122347 GGAAGTCCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.27, G:0.37, T:0.20
Consensus pattern (13 bp):
GTGACACGGCCGT
Found at i:79130904 original size:21 final size:21
Alignment explanation
Indices: 79130878--79130920 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
79130868 TAATCTGACA
79130878 AATTATGACAAATGTACTCTT
1 AATTATGACAAATGTACTCTT
79130899 AATTATGACAAATGTACTCTT
1 AATTATGACAAATGTACTCTT
79130920 A
1 A
79130921 GAAGTGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (21 bp):
AATTATGACAAATGTACTCTT
Found at i:79133049 original size:23 final size:23
Alignment explanation
Indices: 79133019--79133080 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
79133009 GACACGGGTG
79133019 TGCACACGGGCGTGTGCTTTGCC
1 TGCACACGGGCGTGTGCTTTGCC
*
79133042 TGCACACGGGCATGTGCTTTGCC
1 TGCACACGGGCGTGTGCTTTGCC
*
79133065 TTCACACGGGCGTGTG
1 TGCACACGGGCGTGTG
79133081 AGGCATAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (23 bp):
TGCACACGGGCGTGTGCTTTGCC
Found at i:79137131 original size:25 final size:25
Alignment explanation
Indices: 79137103--79137158 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
79137093 TAGCTATGTT
* *
79137103 CCGATCCATATCTTGTGTGAGCATA
1 CCGATCCATAGCTTGTGAGAGCATA
**
79137128 CCGATTTATAGCTTGTGAGAGCATA
1 CCGATCCATAGCTTGTGAGAGCATA
79137153 CCGATC
1 CCGATC
79137159 TACAGCTCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (25 bp):
CCGATCCATAGCTTGTGAGAGCATA
Found at i:79137165 original size:25 final size:25
Alignment explanation
Indices: 79137114--79137165 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
79137104 CGATCCATAT
* * *
79137114 CTTGTGTGAGCATACCGATTTATAG
1 CTTGTGAGAGCATACCGATCTACAG
79137139 CTTGTGAGAGCATACCGATCTACAG
1 CTTGTGAGAGCATACCGATCTACAG
79137164 CT
1 CT
79137166 CGAGTGATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (25 bp):
CTTGTGAGAGCATACCGATCTACAG
Found at i:79140019 original size:24 final size:25
Alignment explanation
Indices: 79139979--79140031 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
79139969 GCATAATTGA
79139979 AATTTTGAATTAATAA-T-AAGGTT
1 AATTTTGAATTAATAATTAAAGGTT
* *
79140002 AATTTTGTCATTAGTAATTAAAGGTT
1 AATTTTG-AATTAATAATTAAAGGTT
79140028 AATT
1 AATT
79140032 AAATAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 7 0.28
25 1 0.04
26 10 0.40
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (25 bp):
AATTTTGAATTAATAATTAAAGGTT
Found at i:79140978 original size:29 final size:28
Alignment explanation
Indices: 79140931--79140985 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
79140921 GAGTTATACC
* *
79140931 GATTTGGATTTGGGCCATGCATATCAGCT
1 GATTTGGATTCGGGACATG-ATATCAGCT
*
79140960 GATTTGGCTTCGGGACATGATATCAG
1 GATTTGGATTCGGGACATGATATCAG
79140986 TACTTCGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (28 bp):
GATTTGGATTCGGGACATGATATCAGCT
Found at i:79149962 original size:53 final size:53
Alignment explanation
Indices: 79149780--79149986 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 53
79149770 ATTAGGGTTA
* * * *
79149780 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TTCATAAGGC
* * * * * * * *
79149834 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
** * * *
79149889 AAATATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
79149942 AAGGATACCATGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
79149987 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
53 44 0.37
54 35 0.30
55 39 0.33
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:79155047 original size:46 final size:46
Alignment explanation
Indices: 79154899--79155070 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
79154889 TGTAACCCGC
* *
79154899 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG---TTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
* * *
79154942 CCATGAGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACAT
* *
79154991 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
*
79155034 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
79155071 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 20 0.19
43 18 0.17
44 2 0.02
45 2 0.02
46 35 0.33
47 24 0.22
48 1 0.01
49 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
Found at i:79157463 original size:15 final size:15
Alignment explanation
Indices: 79157434--79157483 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
79157424 CAAAGATAAC
*
79157434 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
79157448 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
79157463 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
79157478 AAGAAA
1 AAGAAA
79157484 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:79157492 original size:15 final size:15
Alignment explanation
Indices: 79157445--79157492 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
79157435 AGAAAACCGA
79157445 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
79157459 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
79157475 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
79157490 ATA
1 ATA
79157493 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:79160531 original size:47 final size:49
Alignment explanation
Indices: 79160413--79160591 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 49
79160403 TGTAACCCGC
* *
79160413 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGG--G-C-GTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
* *
79160459 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * * *
79160509 -C-TCA-CGAACTCGGACTCAACTCAACGAGTT-GG--GACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
*
79160552 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
79160592 TCAACCATCC
Statistics
Matches: 110, Mismatches: 12, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
43 6 0.05
44 3 0.03
45 2 0.02
46 59 0.54
47 27 0.25
48 3 0.03
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:79160579 original size:93 final size:93
Alignment explanation
Indices: 79160420--79160591 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
79160410 CGCCCATAAG
* * *
79160420 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCA
79160485 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* **
79160513 CGAACTCGGACTCAACTCAACGAG-TTGGGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGG-CATTCACATCCATAAGTGAACTCGGACTCAACTC
79160577 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
79160592 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:79166015 original size:55 final size:53
Alignment explanation
Indices: 79165942--79166082 Score: 142
Period size: 55 Copynumber: 2.6 Consensus size: 53
79165932 TAAGTTTTAC
* * *
79165942 AAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAATTACGAT
1 AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGACAATGATAAATT-C-AT
* * * * * *
79165997 AAGGCGAA-GATCCCATGTAAGACCATG-CTAAGGCATGGCAATGGTGAGTTCAT
1 AAGGC-AAGGATACCATGTAAGACCATGTC-AAGACATGACAATGATAAATTCAT
*
79166050 AAGGCAAGGATACCACGTAAGACCATGTCAAGA
1 AAGGCAAGGATACCATGTAAGACCATGTCAAGA
79166083 AATGGAAATG
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
52 2 0.03
53 27 0.39
54 3 0.04
55 36 0.51
56 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (53 bp):
AAGGCAAGGATACCATGTAAGACCATGTCAAGACATGACAATGATAAATTCAT
Found at i:79166093 original size:53 final size:55
Alignment explanation
Indices: 79165893--79166099 Score: 165
Period size: 53 Copynumber: 3.8 Consensus size: 55
79165883 ATTAGGGTTT
* * * * * * ** *
79165893 AAGGATACCAAGTAAAACCATGCCAAGGCATGGCATTGGTAAGTT-TTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAAATGGTAAGTTACGATAAGGC
* * * * *
79165947 AAGGAAATCATGTAAGACCATGTCAAGACAT-GACATTGATAAATTACGATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGA-AATGGTAAGTTACGATAAGGC
* * * *
79166002 GAA-GATCCCATGTAAGACCATG-CTAAGGCATGGCAATGGTGAGTT-C-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTC-AAGACATGGAAATGGTAAGTTACGATAAGGC
* *
79166055 AAGGATACCACGTAAGACCATGTCAAGAAATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
79166100 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 27, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
52 2 0.02
53 42 0.35
54 37 0.31
55 35 0.29
56 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGAAATGGTAAGTTACGATAAGGC
Found at i:79173636 original size:27 final size:28
Alignment explanation
Indices: 79173606--79173660 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
79173596 AAACCTATAA
*
79173606 ACAC-ATATATTATATATAATAAAACCC
1 ACACAATATATTATATATAACAAAACCC
79173633 ACACATATATATTATATATAACAAAACC
1 ACACA-ATATATTATATATAACAAAACC
79173661 ATCCCTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.16
29 21 0.84
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (28 bp):
ACACAATATATTATATATAACAAAACCC
Found at i:79173739 original size:34 final size:33
Alignment explanation
Indices: 79173701--79173777 Score: 102
Period size: 32 Copynumber: 2.3 Consensus size: 33
79173691 ACACACGCAG
79173701 ATATATTATACATATAACACCCATGCACCCAAAT
1 ATATATTATA-ATATAACACCCATGCACCCAAAT
* ** *
79173735 ATATATTAT-ATATAATACCCATGCACGTAGAT
1 ATATATTATAATATAACACCCATGCACCCAAAT
79173767 ATATATTATAA
1 ATATATTATAA
79173778 ACCCCACTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 28 0.74
33 1 0.03
34 9 0.24
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.32
Consensus pattern (33 bp):
ATATATTATAATATAACACCCATGCACCCAAAT
Found at i:79173793 original size:22 final size:24
Alignment explanation
Indices: 79173765--79173822 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
79173755 ATGCACGTAG
** *
79173765 ATATATATTATAA-ACCCCACT-C
1 ATATATATTATAACACCAAAATCC
79173787 ATATATATTATAACACCAAAATCC
1 ATATATATTATAACACCAAAATCC
79173811 ATATATATTATA
1 ATATATATTATA
79173823 TATAAATAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 13 0.42
23 5 0.16
24 13 0.42
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (24 bp):
ATATATATTATAACACCAAAATCC
Found at i:79179459 original size:26 final size:26
Alignment explanation
Indices: 79179430--79179482 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
79179420 TATAATGTAT
79179430 TTAATGTTTAAAAGTACTTATTAGAG
1 TTAATGTTTAAAAGTACTTATTAGAG
79179456 TTAATGTTTAAAAGTACTTATTAGAG
1 TTAATGTTTAAAAGTACTTATTAGAG
79179482 T
1 T
79179483 CATACTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (26 bp):
TTAATGTTTAAAAGTACTTATTAGAG
Found at i:79180828 original size:29 final size:29
Alignment explanation
Indices: 79180762--79180828 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
79180752 TAAAATGTCC
* *
79180762 AAATAGGGATTAAATTGTGAAATGTGTAA
1 AAATATGGATTAAATTGTGAAATATGTAA
*
79180791 AATTCATGG-TTAAATTGTGAAATAAATG-AA
1 AAAT-ATGGATTAAATTGTGAAAT--ATGTAA
79180821 AAATATGG
1 AAATATGG
79180829 GCTGCTAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
29 21 0.68
30 8 0.26
31 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.21, T:0.31
Consensus pattern (29 bp):
AAATATGGATTAAATTGTGAAATATGTAA
Found at i:79181393 original size:41 final size:41
Alignment explanation
Indices: 79181348--79181445 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
79181338 GGATTCTCGC
79181348 CAGCTTGTGTGAGTAGCA-CTGTGTAGCTTCGTCATGACCGT
1 CAGCTTGTGTGAGTAGCACCT-TGTAGCTTCGTCATGACCGT
* * * *
79181389 CAGCTTGTGTGAGCAACACCTTGTAGCTTTGTCATGACCTT
1 CAGCTTGTGTGAGTAGCACCTTGTAGCTTCGTCATGACCGT
*
79181430 TAGCTTGTGTGAGTAG
1 CAGCTTGTGTGAGTAG
79181446 ACCCATTGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
41 47 0.96
42 2 0.04
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (41 bp):
CAGCTTGTGTGAGTAGCACCTTGTAGCTTCGTCATGACCGT
Found at i:79188294 original size:30 final size:31
Alignment explanation
Indices: 79188258--79188315 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
79188248 TTTACAAGCC
*
79188258 TAGGGGCAAAAGTGTAATTTTG-AAAAAGTT
1 TAGGGGCAAAAATGTAATTTTGTAAAAAGTT
79188288 TAGGGGCAAAAATGTAATTTTGTAAAAA
1 TAGGGGCAAAAATGTAATTTTGTAAAAA
79188316 ATGATTTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.29
Consensus pattern (31 bp):
TAGGGGCAAAAATGTAATTTTGTAAAAAGTT
Found at i:79202203 original size:24 final size:23
Alignment explanation
Indices: 79202168--79202225 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
79202158 TTAACCCATT
* **
79202168 ATAGAATAAGAAACATTATCAAA
1 ATAGAATCAGAAACAGAATCAAA
*
79202191 ACTAGAATCAGAATCAGAATCAAA
1 A-TAGAATCAGAAACAGAATCAAA
79202215 ATCAGAATCAG
1 AT-AGAATCAG
79202226 TATCAGGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.55, C:0.14, G:0.12, T:0.19
Consensus pattern (23 bp):
ATAGAATCAGAAACAGAATCAAA
Found at i:79202205 original size:6 final size:6
Alignment explanation
Indices: 79202194--79202262 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
79202184 TATCAAAACT
* *
79202194 AGAATC AGAATC AGAATC AAAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
* * *
79202243 AAAATC AGGATC AGTATC AG
1 AGAATC AGAATC AGAATC AG
79202263 GTAACAGAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
5 2 0.04
6 46 0.88
7 3 0.06
8 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:79202240 original size:31 final size:31
Alignment explanation
Indices: 79202205--79202277 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
79202195 GAATCAGAAT
79202205 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
79202236 CAGAATCAAAATCAGGATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
79202267 CAGAATCAAAA
1 CAGAATCAAAA
79202278 ATCATAATGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:79202485 original size:26 final size:27
Alignment explanation
Indices: 79202422--79202495 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
79202412 GCTCAGTTAT
* *
79202422 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
79202449 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
79202475 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
79202496 TTAACAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:79202682 original size:22 final size:22
Alignment explanation
Indices: 79202654--79202718 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
79202644 GCAAATACGT
*
79202654 TTGGCACACAGCCATAGTCAGG
1 TTGGCACAAAGCCATAGTCAGG
*
79202676 TTGGCACAGAGCCATATGT-AGG
1 TTGGCACAAAGCCATA-GTCAGG
* *
79202698 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAGTCAG
79202719 AAGCCTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.92
23 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAGG
Found at i:79203164 original size:27 final size:27
Alignment explanation
Indices: 79203107--79203164 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
79203097 ACTTGGCCAT
* **
79203107 AAGGGCAAAATAGTCATTTAACACCTT
1 AAGGGCAAAATAGTAATTTAACACCAC
* * *
79203134 AAGGGCAAAATGGTAATTTTACCCCAC
1 AAGGGCAAAATAGTAATTTAACACCAC
79203161 AAGG
1 AAGG
79203165 TATCTTGGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (27 bp):
AAGGGCAAAATAGTAATTTAACACCAC
Found at i:79203202 original size:27 final size:27
Alignment explanation
Indices: 79203144--79203527 Score: 407
Period size: 27 Copynumber: 14.3 Consensus size: 27
79203134 AAGGGCAAAA
* * * *
79203144 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
79203170 TGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
79203197 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
79203224 CGATAATTCTACCCTACAGGGGTATTA
1 TGGTAATTCTACCCTACAGGGGTATTT
* * * *
79203251 CGATAATTTTACCCTACAGGGATATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
79203278 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
79203305 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
79203332 CGGTAATT-TACCCTACAGAGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
*
79203358 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
79203385 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
79203412 CGATATTTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
79203439 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * ** *
79203466 CGGTAATTTTA-CAAATTAGGGGTATTT
1 TGGTAATTCTACCCTA-CAGGGGTATTT
* ** *
79203493 TGGTAATTTTA-CAAACCAAGGGTATTT
1 TGGTAATTCTACCCTA-CAGGGGTATTT
79203520 TGGTAATT
1 TGGTAATT
79203528 TTATTGATCG
Statistics
Matches: 322, Mismatches: 33, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
26 41 0.13
27 281 0.87
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:79203389 original size:134 final size:134
Alignment explanation
Indices: 79203145--79203474 Score: 493
Period size: 134 Copynumber: 2.5 Consensus size: 134
79203135 AGGGCAAAAT
* * * * **
79203145 GGTAATTTTACCCCACA-AGGTATCTT-GGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTA
1 GGTAATTCTACCCTACAGGGGTAT-TTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATT-TA
* * *
79203208 CCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTACGATAATTTTACCCTACAGGGA
64 CCCTACAGAGGTATTCCGATAATTCTACCCTACAGGGGTATTACGATAATTCTACCCTACAGGGA
79203273 TATTTC
129 TATTTC
79203279 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTACC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTACC
* * *
79203344 CTACAGAGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTA
66 CTACAGAGGTATTCCGATAATTCTACCCTACAGGGGTATTACGATAATTCTACCCTACAGGGATA
79203409 TTTC
131 TTTC
* * *
79203413 GATATTTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTT
79203475 TACAAATTAG
Statistics
Matches: 179, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
134 143 0.80
135 36 0.20
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (134 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTACC
CTACAGAGGTATTCCGATAATTCTACCCTACAGGGGTATTACGATAATTCTACCCTACAGGGATA
TTTC
Found at i:79203492 original size:54 final size:54
Alignment explanation
Indices: 79203173--79203473 Score: 478
Period size: 54 Copynumber: 5.6 Consensus size: 54
79203163 GGTATCTTGG
* **
79203173 TAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
* * * * *
79203227 TAATTCTACCCTACAGGGGTATTACGATAATTTTACCCTACAGGGATATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
*
79203281 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
* *
79203335 TAATT-TACCCTACAGAGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
* *
79203388 TAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
79203442 TAATTCTACCCTACAGGGGTATTTCGGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
79203474 TTACAAATTA
Statistics
Matches: 225, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
53 50 0.22
54 175 0.78
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
Found at i:79203516 original size:54 final size:54
Alignment explanation
Indices: 79203458--79204018 Score: 373
Period size: 54 Copynumber: 10.4 Consensus size: 54
79203448 TACCCTACAG
* * *
79203458 GGGTATTTCGGTAATTTTACAAAT-TAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTCGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAATCGA
* *** ** * *
79203512 GGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGA
* * ** * *** * ** *
79203566 AGGTATTTCAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGA
*** * ** *** * * *
79203620 GGGTAAGACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGA
*** * * * *** * * **
79203674 GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGATAATTCTATCTTA-C-A
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA-CAAATCGA
** * *
79203727 GGAGTATTTTAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAAA-CTGA
1 GG-GTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATC-GA
* * * * *
79203782 GGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATTGG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGA
* *
79203836 GGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCGA
1 GGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGA
** * * *
79203890 GGGTATTTTAGTAATTTTTCAAA-CTGAGGGTATTTCGGTAATTTTACAAATCTA
1 GGGTATTTCGGTAATTTTACAAATC-GAGGGTATTTTGGTAATTTTACAAATCGA
* * * * * *
79203944 GGGTATTTCAGTAATTTTAC-AATCGACGGTATTTCGGTAATTTTATAAACCGG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGA
79203997 GGGTACTTT-GGTAATTTTACAA
1 GGGTA-TTTCGGTAATTTTACAA
79204019 CTGGGGGTAT
Statistics
Matches: 411, Mismatches: 84, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
53 51 0.12
54 352 0.86
55 8 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGA
Found at i:79203527 original size:81 final size:80
Alignment explanation
Indices: 79203180--79203473 Score: 457
Period size: 81 Copynumber: 3.6 Consensus size: 80
79203170 TGGTAATTCC
**
79203180 ACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGG
1 ACCCTACA-GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGG
*
79203245 GTATTACGATAATTTT
65 GTATTTCGATAATTTT
*
79203261 ACCCTACAGGGATATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGG
1 ACCCTACAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGG
*
79203326 GTATTTCGGTAA-TTT
65 GTATTTCGATAATTTT
*
79203341 ACCCTACAGAGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGG
1 ACCCTACAG-GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGG
79203406 GTATTTCGAT-ATTTCT
65 GTATTTCGATAATTT-T
* *
79203422 ACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATT
1 ACCCTACA-GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATT
79203474 TTACAAATTA
Statistics
Matches: 197, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
79 1 0.01
80 77 0.39
81 118 0.60
82 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (80 bp):
ACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGG
TATTTCGATAATTTT
Found at i:79203528 original size:27 final size:27
Alignment explanation
Indices: 79203458--79203583 Score: 126
Period size: 27 Copynumber: 4.7 Consensus size: 27
79203448 TACCCTACAG
* ** *
79203458 GGGTATTTCGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
79203485 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*** * *
79203512 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
**
79203539 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* **
79203566 AGGTATTTCAGTAATTTT
1 GGGTATTTTGGTAATTTT
79203584 GTAAATTGAG
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:79203597 original size:27 final size:27
Alignment explanation
Indices: 79203485--79203597 Score: 73
Period size: 27 Copynumber: 4.2 Consensus size: 27
79203475 TACAAATTAG
** ** *
79203485 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTCAGTAATTTTGTAAACCGA
** * ** *
79203512 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTCAGTAATTTTGTAAACCGA
** *
79203539 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTGTAAACCGA
* **
79203566 AGGTATTTCAGTAATTTTGTAAATTGA
1 GGGTATTTCAGTAATTTTGTAAACCGA
79203593 GGGTA
1 GGGTA
79203598 AAATGGTAAT
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGTAAACCGA
Found at i:79203606 original size:27 final size:27
Alignment explanation
Indices: 79203576--79203718 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
79203566 AGGTATTTCA
* *
79203576 GTAATTTTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
79203603 GTAATTCTGTAAATCAAGGGTAAGACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
79203630 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
79203657 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
79203684 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
79203711 ATAATTCT
1 GTAATTCT
79203719 ATCTTACAGG
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:79203633 original size:81 final size:81
Alignment explanation
Indices: 79203548--79203706 Score: 185
Period size: 81 Copynumber: 2.0 Consensus size: 81
79203538 AGGGTATTTT
* ** * * * * * *
79203548 GGTAATTTTGTAAACCAAAGGT-ATTTCAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTG
1 GGTAATTCTGTAAACCAAAGGTAAAAT-AGTAATTCTATAAATCGAGGGTAAAACGATAATTCTA
79203612 TAAATCAAGGGTAAGAC
65 TAAATCAAGGGTAAGAC
* * *
79203629 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTAT
1 GGTAATTCTGTAAACCAAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTAT
*
79203694 AAATCGAGGGTAA
66 AAATCAAGGGTAA
79203707 AATGATAATT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 62 0.97
82 2 0.03
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
GGTAATTCTGTAAACCAAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTAT
AAATCAAGGGTAAGAC
Found at i:79203760 original size:27 final size:27
Alignment explanation
Indices: 79203730--79204039 Score: 322
Period size: 27 Copynumber: 11.6 Consensus size: 27
79203720 TCTTACAGGA
79203730 GTATTTTAGTAATTTTACAAATCGAGG
1 GTATTTTAGTAATTTTACAAATCGAGG
*
79203757 GTATTTTAGTAATTTTGCAAA-CTGAGG
1 GTATTTTAGTAATTTTACAAATC-GAGG
**
79203784 GTATTTCGGTAATTTTACAAATCGAGG
1 GTATTTTAGTAATTTTACAAATCGAGG
* ** * * *
79203811 ATATTTGGGTAATTTTATAAATTGGGG
1 GTATTTTAGTAATTTTACAAATCGAGG
* * *
79203838 GTACTTTGGTAATTTTACAAGTCGAGG
1 GTATTTTAGTAATTTTACAAATCGAGG
79203865 GTATTTTAGTAATTTTACAAATCGAGG
1 GTATTTTAGTAATTTTACAAATCGAGG
*
79203892 GTATTTTAGTAATTTTTCAAA-CTGAGG
1 GTATTTTAGTAATTTTACAAATC-GAGG
** *
79203919 GTATTTCGGTAATTTTACAAATCTAGG
1 GTATTTTAGTAATTTTACAAATCGAGG
* *
79203946 GTATTTCAGTAATTTTAC-AATCGACG
1 GTATTTTAGTAATTTTACAAATCGAGG
** * * *
79203972 GTATTTCGGTAATTTTATAAACCGGGG
1 GTATTTTAGTAATTTTACAAATCGAGG
* * * *
79203999 GTACTTTGGTAATTTTACAACT-GGGG
1 GTATTTTAGTAATTTTACAAATCGAGG
*
79204025 GTATTTCAGTAATTT
1 GTATTTTAGTAATTT
79204040 GGTAAACTAA
Statistics
Matches: 238, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
26 40 0.17
27 196 0.82
28 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
GTATTTTAGTAATTTTACAAATCGAGG
Found at i:79203797 original size:81 final size:82
Alignment explanation
Indices: 79203726--79204039 Score: 356
Period size: 81 Copynumber: 3.9 Consensus size: 82
79203716 TCTATCTTAC
* *
79203726 AGGAGTATTTTAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTC
1 AGGAGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTC
*
79203791 GGTAATTTTACAAATCG
66 AGTAATTTTACAAATCG
** * * * * *
79203808 AGGA-TATTTGGGTAATTTTATAAATTGGGGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTT
1 AGGAGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACT-GAGGGTATTT
*
79203871 TAGTAATTTTACAAATCG
65 CAGTAATTTTACAAATCG
* *
79203889 AGG-GTATTTTAGTAATTTTTCAAA-CTGAGGGTATTTCGGTAATTTTACAAATCT-AGGGTATT
1 AGGAGTATTTTAGTAATTTTACAAATC-GAGGGTATTTTGGTAATTTTACAAA-CTGAGGGTATT
79203951 TCAGTAATTTTAC-AATCG
64 TCAGTAATTTTACAAATCG
* ** * * * * *
79203969 ACG-GTATTTCGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTAC-AACTGGGGGTATTTC
1 AGGAGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTC
79204032 AGTAATTT
66 AGTAATTT
79204040 GGTAAACTAA
Statistics
Matches: 195, Mismatches: 30, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.01
79 19 0.10
80 46 0.24
81 121 0.62
82 6 0.03
83 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (82 bp):
AGGAGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTC
AGTAATTTTACAAATCG
Found at i:79210095 original size:29 final size:29
Alignment explanation
Indices: 79210029--79210095 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
79210019 TAAAATGTCC
* *
79210029 AAATAAGGATTAAATTGTGAAATGTGTAA
1 AAATATGGATTAAATTGTGAAATATGTAA
*
79210058 AATTCATGG-TTAAATTGTGAAATAAATG-AA
1 AAAT-ATGGATTAAATTGTGAAAT--ATGTAA
79210088 AAATATGG
1 AAATATGG
79210096 GCTGCTAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
29 21 0.68
30 8 0.26
31 2 0.06
ACGTcount: A:0.48, C:0.01, G:0.19, T:0.31
Consensus pattern (29 bp):
AAATATGGATTAAATTGTGAAATATGTAA
Found at i:79210903 original size:23 final size:23
Alignment explanation
Indices: 79210869--79210912 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
79210859 TGAGTTTATG
*
79210869 GTTAATTATGTGATTGAATGTAT
1 GTTAATTATGTGATTAAATGTAT
*
79210892 GTTAACTT-TGTGGTTAAATGT
1 GTTAA-TTATGTGATTAAATGT
79210913 TTTATAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (23 bp):
GTTAATTATGTGATTAAATGTAT
Found at i:79214465 original size:40 final size:40
Alignment explanation
Indices: 79214386--79214499 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 40
79214376 CGGTATAATA
* * * *
79214386 CTAGCTCGTAGCCTGCGGGTCTCT-AGCCCGGATAGCATT
1 CTAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
79214425 CTAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
1 CTAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
* *
79214465 CCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 CTAGCACGA-AGCCTGCGGGTCTTTAAGCCCGGATA
79214500 CAATTCCTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 22 0.33
40 45 0.67
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.24
Consensus pattern (40 bp):
CTAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
Found at i:79223686 original size:30 final size:30
Alignment explanation
Indices: 79223642--79223730 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
79223632 CAAAGATAAC
79223642 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
79223671 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
79223701 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
79223731 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:79223690 original size:15 final size:15
Alignment explanation
Indices: 79223642--79223721 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
79223632 CAAAGATAAC
*
79223642 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
79223656 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
79223671 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
79223686 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
79223701 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
79223716 AAGAAA
1 AAGAAA
79223722 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:79223730 original size:15 final size:15
Alignment explanation
Indices: 79223653--79223730 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
79223643 AGAAAACCGA
79223653 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
79223668 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
79223682 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
79223697 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
79223713 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
79223728 ATA
1 ATA
79223731 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:79226519 original size:39 final size:39
Alignment explanation
Indices: 79226476--79226574 Score: 189
Period size: 39 Copynumber: 2.5 Consensus size: 39
79226466 ACATATTTCT
*
79226476 AGCACATAGCCCGCGGACCTTAAGTCCAGATATAATTCC
1 AGCACATAGCCTGCGGACCTTAAGTCCAGATATAATTCC
79226515 AGCACATAGCCTGCGGACCTTAAGTCCAGATATAATTCC
1 AGCACATAGCCTGCGGACCTTAAGTCCAGATATAATTCC
79226554 AGCACATAGCCTGCGGACCTT
1 AGCACATAGCCTGCGGACCTT
79226575 TAAGCTCGGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCTTAAGTCCAGATATAATTCC
Found at i:79233041 original size:31 final size:30
Alignment explanation
Indices: 79232993--79233062 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
79232983 CAAAGATAAC
*
79232993 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
* * *
79233022 GAGAAACCCAGAATAAAAGAGATCCAGGATA
1 AAGAAACCCAGAAT-AAAGAAATCCAAGATA
79233053 AAGAAACCCA
1 AAGAAACCCA
79233063 AGATAGATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 7 0.21
30 4 0.12
31 23 0.68
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:79233067 original size:15 final size:15
Alignment explanation
Indices: 79233004--79233067 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
79232994 AGAAAACCGA
*
79233004 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
79233019 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* * *
79233033 AATAAAAGAGATCCAGG
1 -AT-AAAGAAACCCAAG
79233050 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
79233065 ATA
1 ATA
79233068 GATATTATGC
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
14 2 0.05
15 25 0.68
16 9 0.24
17 1 0.03
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Done.