Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 135 of 292
Found at i:40023565 original size:78 final size:79
Alignment explanation
Indices: 40023400--40023551 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
40023390 TCGAATGATG
* * *
40023400 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
40023465 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
40023480 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
40023543 GTGCAAGTC
65 GTGCAAGTC
40023552 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:40025403 original size:43 final size:48
Alignment explanation
Indices: 40025356--40025481 Score: 127
Period size: 51 Copynumber: 2.7 Consensus size: 48
40025346 GCATCAGAGT
40025356 TCGTTGAGAGGTCCGAGTTCATTATGGATGTGA-GCA-T-C-C-GAAC
1 TCGTTGAGAGGTCCGAGTTCATTATGGATGTGATGCAGTACGCTGAAC
* * * * * *
40025399 TCGTTGAGACGTCCAAGTTCATAATAGATGTGATTCATGTAACGTCTGAGC
1 TCGTTGAGAGGTCCGAGTTCATTATGGATGTGATGCA-GT-ACG-CTGAAC
*
40025450 TCATTGAGAGGTCCGAGTTCATTATGGATGTG
1 TCGTTGAGAGGTCCGAGTTCATTATGGATGTG
40025482 TTACATGTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
43 29 0.45
44 2 0.03
46 1 0.02
48 1 0.02
50 1 0.02
51 30 0.47
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TCGTTGAGAGGTCCGAGTTCATTATGGATGTGATGCAGTACGCTGAAC
Found at i:40028780 original size:55 final size:53
Alignment explanation
Indices: 40028625--40028831 Score: 198
Period size: 53 Copynumber: 3.8 Consensus size: 53
40028615 TTCCTTTTTA
* * *
40028625 AACTTATCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTACCTTATG
1 AACTTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
* * * * * *
40028678 AACTCACCATTTCCATGTCTTGGCATGGTCTTACATGGGATCTTTGCCTTATC
1 AACTTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
* * * * * *
40028731 ATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 A-A-CTTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-C
* * * * * *
40028787 AACTTACCAATGCCATGCCTTGGCTTGGTCTTACTTGGTATCCTT
1 AACTTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
40028832 AAATCCTAAT
Statistics
Matches: 122, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 45 0.37
54 36 0.30
55 40 0.33
56 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (53 bp):
AACTTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
Found at i:40032777 original size:29 final size:29
Alignment explanation
Indices: 40032742--40032905 Score: 283
Period size: 29 Copynumber: 5.7 Consensus size: 29
40032732 ATAAACGATC
** *
40032742 TCGCACACTTAGTGCCATGCAATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
40032771 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
40032800 TTGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
40032829 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
40032858 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
40032887 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
40032906 CCTTCCAAGC
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 128 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:40032921 original size:87 final size:87
Alignment explanation
Indices: 40032743--40032932 Score: 274
Period size: 87 Copynumber: 2.2 Consensus size: 87
40032733 TAAACGATCT
* *
40032743 CGCACACTTAGTGCCATGCAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTTGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
* **
40032808 TTAGTGCCATATAATTTAAGTT
66 TTAGTGCCATATAATTCAAGCC
* * *
40032830 CGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGTTCGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
**
40032895 TTAGTGCCATA-CCTTCCAAGCC
66 TTAGTGCCATATAATT-CAAGCC
40032917 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
40032933 ATCTTGTCAC
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 2 0.02
87 90 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (87 bp):
CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
TTAGTGCCATATAATTCAAGCC
Found at i:40040823 original size:29 final size:29
Alignment explanation
Indices: 40040788--40040951 Score: 283
Period size: 29 Copynumber: 5.7 Consensus size: 29
40040778 ATAAACGATC
** *
40040788 TCGCACACTTAGTGCCATGCAATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
40040817 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
40040846 TTGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
40040875 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
40040904 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
40040933 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
40040952 CCTTCCAAGC
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 128 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:40040967 original size:87 final size:87
Alignment explanation
Indices: 40040789--40040978 Score: 274
Period size: 87 Copynumber: 2.2 Consensus size: 87
40040779 TAAACGATCT
* *
40040789 CGCACACTTAGTGCCATGCAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTTGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
* **
40040854 TTAGTGCCATATAATTTAAGTT
66 TTAGTGCCATATAATTCAAGCC
* * *
40040876 CGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGTTCGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
**
40040941 TTAGTGCCATA-CCTTCCAAGCC
66 TTAGTGCCATATAATT-CAAGCC
40040963 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
40040979 ATCTTGTCAC
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 2 0.02
87 90 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (87 bp):
CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
TTAGTGCCATATAATTCAAGCC
Found at i:40048862 original size:29 final size:29
Alignment explanation
Indices: 40048827--40048990 Score: 283
Period size: 29 Copynumber: 5.7 Consensus size: 29
40048817 ATAAACGATC
** *
40048827 TCGCACACTTAGTGCCATGCAATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
40048856 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
40048885 TTGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
40048914 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
40048943 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
40048972 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
40048991 CCTTCCAAGC
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 128 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:40049006 original size:87 final size:87
Alignment explanation
Indices: 40048828--40049017 Score: 274
Period size: 87 Copynumber: 2.2 Consensus size: 87
40048818 TAAACGATCT
* *
40048828 CGCACACTTAGTGCCATGCAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTTGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
* **
40048893 TTAGTGCCATATAATTTAAGTT
66 TTAGTGCCATATAATTCAAGCC
* * *
40048915 CGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGTTCGCACAC
1 CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
**
40048980 TTAGTGCCATA-CCTTCCAAGCC
66 TTAGTGCCATATAATT-CAAGCC
40049002 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
40049018 ATCTTGTCAC
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 2 0.02
87 90 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (87 bp):
CGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACAC
TTAGTGCCATATAATTCAAGCC
Found at i:40056908 original size:29 final size:29
Alignment explanation
Indices: 40056872--40057033 Score: 211
Period size: 29 Copynumber: 5.6 Consensus size: 29
40056862 AATAAACGAT
**
40056872 CTCGCACACTTAGTGCCATGCAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
40056901 CTCGCACACATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* *
40056930 TTTGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
40056959 TTCGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* ** *
40056988 TTCGCACACTTAGTGCCATA-CCTTCCAAG
1 CTCGCACACTTAGTGCCATATAATT-TAAG
40057017 C-CGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
40057034 ATCTTGTCAC
Statistics
Matches: 121, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
28 18 0.15
29 103 0.85
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATATAATTTAAG
Found at i:40061748 original size:44 final size:45
Alignment explanation
Indices: 40061676--40061765 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 45
40061666 ACTAAAGAAA
*
40061676 AAGTGAAAGTAATTCGTGATAGTCTAAAAGCAGCTTCAGATCGAC
1 AAGTGAAAGTAATTCGTGATAGTCTAAAAGCAGCTTCAAATCGAC
* * *
40061721 AAGTGAAAGT-ATTTGTGATAGTTTAAAAGTAGCTTCAAATCGAC
1 AAGTGAAAGTAATTCGTGATAGTCTAAAAGCAGCTTCAAATCGAC
40061765 A
1 A
40061766 GAAATCGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 31 0.76
45 10 0.24
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (45 bp):
AAGTGAAAGTAATTCGTGATAGTCTAAAAGCAGCTTCAAATCGAC
Found at i:40063464 original size:49 final size:50
Alignment explanation
Indices: 40063400--40063528 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 50
40063390 ACAAGTCGAT
40063400 GCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATC-GAG-GCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATC-AAATCTGAGTGCCGAC
* * * * ** *
40063449 GCCATGTCCTAGACATGGTCTTACACTGGCTCTCACATCTTCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCTGAGTGCCGAC
*
40063499 GCTATGTCCCAGACATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
40063529 ACATTTCGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 4 0.06
49 32 0.47
50 32 0.47
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCTGAGTGCCGAC
Found at i:40063600 original size:46 final size:45
Alignment explanation
Indices: 40063396--40063709 Score: 149
Period size: 46 Copynumber: 6.7 Consensus size: 45
40063386 TCTGACAAGT
* **
40063396 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCG-AGGC
1 CGATG-CATGTCCCAGACATCGTCTTACACTGAC-A-C-ATCTCGTA-GC
* * * *
40063445 CGACGCCATGTCCTAGACATGGTCTTACACTGGCTCTCACATCTTCGT-GC
1 CGATG-CATGTCCCAGACATCGTCTTACACT-G---ACACATC-TCGTAGC
* *
40063495 CGATGCTATGTCCCAGACATGGTCTTACACTGACACATTTCGTAGC
1 CGATGC-ATGTCCCAGACATCGTCTTACACTGACACATCTCGTAGC
* *
40063541 CAATGCATGTCCCAGACA-CGTCTTACATTGACTTACATCTCG-AGAC
1 CGATGCATGTCCCAGACATCGTCTTACACTGAC--ACATCTCGTAG-C
* * * * * * *
40063587 TGATGCATGTCCCAAACAT-ATCTTACACTAGCTCTCATCTC-AATGT
1 CGATGCATGTCCCAGACATCGTCTTACACT-G-ACACATCTCGTA-GC
* * * * * *
40063633 CGATGCCATGTCCCAGAAATGGTCTTACACTGGCTC-TCATAATGTGGC
1 CGATG-CATGTCCCAGACATCGTCTTACACTGACACATC-T--CGTAGC
*
40063681 CGATGCATGTCCTAGACAT-GTCTTACACT
1 CGATGCATGTCCCAGACATCGTCTTACACT
40063710 AGCGCACAAA
Statistics
Matches: 211, Mismatches: 32, Indels: 47
0.73 0.11 0.16
Matches are distributed among these distances:
44 12 0.06
45 20 0.09
46 68 0.32
47 27 0.13
48 16 0.08
49 31 0.15
50 31 0.15
51 4 0.02
52 1 0.00
53 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATCGTCTTACACTGACACATCTCGTAGC
Found at i:40064847 original size:55 final size:54
Alignment explanation
Indices: 40064780--40064891 Score: 206
Period size: 55 Copynumber: 2.1 Consensus size: 54
40064770 GCTAAAATTA
*
40064780 ATTCACCAAAATTTTCATGCATCTTTATAAACATGCCATCACACATAAAATAAAT
1 ATTCACCAAAATTTTCATGCATCTTTATAAA-ATACCATCACACATAAAATAAAT
40064835 ATTCACCAAAATTTTCATGCATCTTTATAAAATACCATCACACATAAAATAAAT
1 ATTCACCAAAATTTTCATGCATCTTTATAAAATACCATCACACATAAAATAAAT
40064889 ATT
1 ATT
40064892 AAAAATAATT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 25 0.45
55 31 0.55
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (54 bp):
ATTCACCAAAATTTTCATGCATCTTTATAAAATACCATCACACATAAAATAAAT
Found at i:40064902 original size:54 final size:55
Alignment explanation
Indices: 40064787--40064902 Score: 182
Period size: 54 Copynumber: 2.1 Consensus size: 55
40064777 TTAATTCACC
* **
40064787 AAAATTTTCATGCATCTTTATAAACATGCCATCACACATAAAATAAATATTCACC
1 AAAATTTTCATGCATCTTTATAAACATACCATCACACATAAAATAAATATTCAAA
40064842 AAAATTTTCATGCATCTTTATAAA-ATACCATCACACATAAAATAAATATT-AAA
1 AAAATTTTCATGCATCTTTATAAACATACCATCACACATAAAATAAATATTCAAA
40064895 AATAATTT
1 AA-AATTT
40064903 CTCTGACCTC
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
53 3 0.05
54 30 0.53
55 24 0.42
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (55 bp):
AAAATTTTCATGCATCTTTATAAACATACCATCACACATAAAATAAATATTCAAA
Found at i:40070495 original size:40 final size:38
Alignment explanation
Indices: 40070365--40070512 Score: 111
Period size: 40 Copynumber: 3.8 Consensus size: 38
40070355 TGAGAAATTG
* * *
40070365 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * * *
40070405 AAT-TATAACCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
40070442 AGTGGCTACATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
40070482 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
40070513 CTTGGTGCGG
Statistics
Matches: 84, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
37 4 0.05
38 2 0.02
39 3 0.04
40 75 0.89
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:40077248 original size:40 final size:39
Alignment explanation
Indices: 40077121--40077250 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
40077111 ATGCTGGAAA
*
40077121 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
40077161 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
40077201 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
40077241 TTATATCCGG
1 TTATATCCGG
40077251 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:40085322 original size:38 final size:37
Alignment explanation
Indices: 40085231--40085338 Score: 146
Period size: 38 Copynumber: 2.8 Consensus size: 37
40085221 CTGGAAATTA
*
40085231 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCTAGTGC
* *
40085268 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGC-TAGTGC
40085308 TATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGC
40085339 ACGTGGTTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
37 1 0.02
38 33 0.52
39 25 0.39
40 5 0.08
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (37 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGTGC
Found at i:40086840 original size:39 final size:40
Alignment explanation
Indices: 40086738--40086920 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
40086728 ACAAATGATG
* * *
40086738 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * * *
40086778 TCCGGACTAGGAT-CCGAAAGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
*
40086818 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
40086857 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
** *
40086898 -CCGGGCTTCGTCCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
40086921 TGAGCGAGTC
Statistics
Matches: 115, Mismatches: 23, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
39 32 0.28
40 74 0.64
41 9 0.08
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:40086902 original size:79 final size:81
Alignment explanation
Indices: 40086738--40086922 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
40086728 ACAAATGATG
* * *
40086738 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAAGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAAGCATT
*
40086802 CGTGCGAGTTAATAAA
66 CGTGCGAGTCAATAAA
* ** *
40086818 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAAGCAT
*
40086880 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATA-AA
** *
40086898 -CCGGGCTTCGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40086923 AGCGAGTCGT
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAAGCATT
CGTGCGAGTCAATAAA
Found at i:40115863 original size:190 final size:190
Alignment explanation
Indices: 40115640--40116208 Score: 1066
Period size: 190 Copynumber: 3.0 Consensus size: 190
40115630 TTAAGTTTTG
40115640 GTATGGTTTGAATGAGTTGTTGAATGATGATGAAATAGTTGTAATGAAGCATGTTTTGAGCATGA
1 GTATGGTTTGAATGAGTTGTTGAATGATGATGAAATAGTTGTAATGAAGCATGTTTTGAGCATGA
40115705 ATTGGCTGAATATTTTATATGAATGCTGCTTAATTTGGCATGTAGGAATGACCCATAAAGGGGTG
66 ATTGGCTGAATATTTTATATGAATGCTGCTTAATTTGGCATGTAGGAATGACCCATAAAGGGGTG
*
40115770 GCAAATTAGCTTAAACTAAGCCTGCACTGTGCCACACGGCCATAGCACACGGGCGTGTTT
131 GCAAATTAGCTTAAACTAAGCCTGCATTGTGCCACACGGCCATAGCACACGGGCGTGTTT
40115830 GTATGGTTTGAATGAGTTGTTGAATGATGATGAAATAGTTGTAATGAAGCATGTTTTGAGCATGA
1 GTATGGTTTGAATGAGTTGTTGAATGATGATGAAATAGTTGTAATGAAGCATGTTTTGAGCATGA
*
40115895 ATTGGCTGAAAATTTTATATGAATGCTGCTTAATTTGGCATGTAGGAATGACCCATAAAGGGGTG
66 ATTGGCTGAATATTTTATATGAATGCTGCTTAATTTGGCATGTAGGAATGACCCATAAAGGGGTG
*
40115960 GCAAATTAGCTTAAACTAAGCCTGCATTGTGCCACACGGCCATAGCACATGGGCGTGTTT
131 GCAAATTAGCTTAAACTAAGCCTGCATTGTGCCACACGGCCATAGCACACGGGCGTGTTT
40116020 GTATGGTTTGAATGAGTTGTTGAATGATGATGAAATAGTTGTAATGAAGCATGTTTTGAGCATGA
1 GTATGGTTTGAATGAGTTGTTGAATGATGATGAAATAGTTGTAATGAAGCATGTTTTGAGCATGA
* * *
40116085 ATTAGCTGAATATTTTATATGAATGCTGCTTAATTTGGCTTGTAAGAATGACCCATAAAGGGGTG
66 ATTGGCTGAATATTTTATATGAATGCTGCTTAATTTGGCATGTAGGAATGACCCATAAAGGGGTG
* *
40116150 GAAAATTAGCTTAAACTAAGCCTGCATTGTGCCATACGGCCATAGCACACGGGCGTGTT
131 GCAAATTAGCTTAAACTAAGCCTGCATTGTGCCACACGGCCATAGCACACGGGCGTGTT
40116209 AGTTGGCCGC
Statistics
Matches: 369, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
190 369 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.32
Consensus pattern (190 bp):
GTATGGTTTGAATGAGTTGTTGAATGATGATGAAATAGTTGTAATGAAGCATGTTTTGAGCATGA
ATTGGCTGAATATTTTATATGAATGCTGCTTAATTTGGCATGTAGGAATGACCCATAAAGGGGTG
GCAAATTAGCTTAAACTAAGCCTGCATTGTGCCACACGGCCATAGCACACGGGCGTGTTT
Found at i:40116934 original size:43 final size:43
Alignment explanation
Indices: 40116887--40117002 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
40116877 TAACACATAT
* * * * *
40116887 CGATGCCACTATCCTAGACAGGGTCTTACACGAAATC-GATTAA
1 CGATGCCAATGTCCTAGACATGGTCTTACACGAAATCTCAAT-A
* * *
40116930 CGATGCCAATGTCCCAGACATGTTCTTACACGTAATCTCAATA
1 CGATGCCAATGTCCTAGACATGGTCTTACACGAAATCTCAATA
*
40116973 CAATGCCAATGTCCTAGACATGGTCTTACA
1 CGATGCCAATGTCCTAGACATGGTCTTACA
40117003 TGTAATCACA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 59 0.97
44 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
CGATGCCAATGTCCTAGACATGGTCTTACACGAAATCTCAATA
Found at i:40135981 original size:40 final size:39
Alignment explanation
Indices: 40135816--40135999 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
40135806 AAATTGAATG
* * *
40135816 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
40135856 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
40135896 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
40135936 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
40135975 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
40136000 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:40136024 original size:80 final size:81
Alignment explanation
Indices: 40135856--40136044 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
40135846 GCTGGAAATT
* * * *
40135856 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
40135921 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
40135937 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
40136000 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
40136016 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40136045 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:40144098 original size:40 final size:39
Alignment explanation
Indices: 40143933--40144116 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
40143923 AAATTGAATG
* * *
40143933 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
40143973 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
40144013 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
40144053 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
40144092 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
40144117 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:40144141 original size:80 final size:81
Alignment explanation
Indices: 40143973--40144161 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
40143963 GCTGGAAATT
* * * *
40143973 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
40144038 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
40144054 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
40144117 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
40144133 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40144162 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:40145947 original size:40 final size:40
Alignment explanation
Indices: 40145873--40146020 Score: 133
Period size: 40 Copynumber: 3.7 Consensus size: 40
40145863 CACATTCAAA
* *
40145873 TGCCTTCGGGA-CATAGCCCGG-TTACAGTAACTCGCACGAT
1 TGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCACGAT
* * * *
40145913 TGCCTTCGGGA-CTTAACCCGGATTTAGTAGCTCGCTCGAA
1 TGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCACGAT
* * *
40145953 AGCCTTCGGATCTTAGTCTGGATTTAGTAACTCGCACG-T
1 TGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCACGAT
* *
40145992 ATGCCATCGGATCTTAGTCCGGATTTAGT
1 -TGCCTTCGGATCTTAGCCCGGATTTAGT
40146021 CACTTAGCAC
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 84 0.94
41 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (40 bp):
TGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCACGAT
Found at i:40146048 original size:40 final size:39
Alignment explanation
Indices: 40145902--40146041 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 39
40145892 GGTTACAGTA
** **
40145902 ACTCGCACGATTGCCTTCGGGA-CTTAACCCGGATTTAGT
1 ACTCGCACGAAAGCCTTC-GGATCTTAGTCCGGATTTAGT
* *
40145941 AGCTCGCTCGAAAGCCTTCGGATCTTAGTCTGGATTTAGT
1 A-CTCGCACGAAAGCCTTCGGATCTTAGTCCGGATTTAGT
* * *
40145981 AACTCGCACGTATGCCATCGGATCTTAGTCCGGATTTAGT
1 -ACTCGCACGAAAGCCTTCGGATCTTAGTCCGGATTTAGT
*
40146021 CACTTAGCAC-AAAGCCTTCGG
1 -AC-TCGCACGAAAGCCTTCGG
40146042 GACTTAGCCC
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.88
41 6 0.07
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (39 bp):
ACTCGCACGAAAGCCTTCGGATCTTAGTCCGGATTTAGT
Found at i:40153055 original size:47 final size:47
Alignment explanation
Indices: 40152838--40153062 Score: 183
Period size: 47 Copynumber: 4.7 Consensus size: 47
40152828 TCGGAATGCA
* *
40152838 AGCCAGTGTAAGA-CATGCCTGGGACAT-GCATCGGCT-ATGAGATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTGATG-GATGT
* * * ** *
40152883 -GCCAATATAAGACCATGTCTGGGACATGGCATCAGCACGGATATATGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTGATGGATG-T
* ** * ** *
40152932 AGCTAGTGTAAGACCATGTCTGGGACATGGTGTCAGCCTCGATTTCA-AT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACT-GA-TGGATGT
* *
40152981 AGTCAGTGTAAGACCATGTCTGAGACATGGCATCGACTTGATGGAT-T
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TGATGGATGT
40153028 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
40153063 GCATTATACC
Statistics
Matches: 140, Mismatches: 29, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
44 10 0.07
45 13 0.09
46 5 0.04
47 37 0.26
48 8 0.06
49 33 0.24
50 32 0.23
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTGATGGATGT
Found at i:40156638 original size:39 final size:39
Alignment explanation
Indices: 40156584--40156813 Score: 388
Period size: 39 Copynumber: 5.9 Consensus size: 39
40156574 AATGTTCGAG
*
40156584 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
40156623 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
40156662 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
40156701 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
40156740 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
40156779 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATACCCGGGCTAAG-CCCGAAGGCAATTGTGCG
40156814 GGTTACCATA
Statistics
Matches: 182, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 165 0.91
40 17 0.09
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (39 bp):
TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:40156871 original size:79 final size:78
Alignment explanation
Indices: 40156590--40156882 Score: 297
Period size: 78 Copynumber: 3.7 Consensus size: 78
40156580 CGAGTGATAT
** * *
40156590 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA-TGATACCCGGGCTAAGCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAG-TAGTGATATCCGGGTTAAGCCCGAAGGCAATTGT
** *
40156654 GCGAGCTATGATAC
65 GCGAGCTACCATAA
** *
40156668 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA-TGATATCCGGGCTAAGCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAG-TAGTGATATCCGGGTTAAGCCCGAAGGCAATTGT
** *
40156732 GCGAGCTATGATAC
65 GCGAGCTACCATAA
** * *
40156746 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGT
* *
40156811 GCGGGTTACCATAA
65 GCGAGCTACCATAA
* ** *
40156825 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
40156883 TATGTGATTT
Statistics
Matches: 194, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
77 1 0.01
78 123 0.63
79 45 0.23
80 24 0.12
81 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.21
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
CGAGCTACCATAA
Found at i:40171275 original size:14 final size:13
Alignment explanation
Indices: 40171255--40171286 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
40171245 AATATTTAAC
40171255 TTGTTCTTAATTA
1 TTGTTCTTAATTA
40171268 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
40171282 TTGTT
1 TTGTT
40171287 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:40180067 original size:40 final size:40
Alignment explanation
Indices: 40180022--40180151 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
40180012 CGGAATACAA
40180022 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
40180062 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
40180102 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
40180142 CCGGATATAA
1 CCGGATATAA
40180152 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:40180166 original size:40 final size:40
Alignment explanation
Indices: 40180022--40180185 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
40180012 CGGAATACAA
* **
40180022 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
40180062 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
40180102 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
40180142 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
40180182 CCGG
1 CCGG
40180186 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:40187059 original size:40 final size:40
Alignment explanation
Indices: 40187003--40187153 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
40186993 CGGAATTTAA
* * *
40187003 CCGGATATAATGACTCGCTCAAATGCCTTCGGGAC-GAAGC
1 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTGAA-C
* *
40187043 CCGGTTATAGTGACTCGCACGAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTGAAC
* * * *
40187083 CCGGGTT-TAGTAACTTGCACAAATGCCTTCGGG-CTTAGC
1 CC-GGTTATAGTGACTCGCACAAATGCCTTCGGGACTGAAC
* * *
40187122 CCGGATT-TATTAACTCGCACGAATGCCTTCGG
1 CCGG-TTATAGTGACTCGCACAAATGCCTTCGG
40187154 ATCCTAGTCC
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
38 2 0.02
39 31 0.32
40 57 0.59
41 6 0.06
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTGAAC
Found at i:40187123 original size:79 final size:81
Alignment explanation
Indices: 40187022--40187204 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
40187012 ATGACTCGCT
** * *
40187022 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
40187085 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
40187102 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
40187166 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
40187182 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
40187205 ACATCATTCG
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.61
80 32 0.36
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:40192043 original size:42 final size:42
Alignment explanation
Indices: 40191986--40192065 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
40191976 GTCCTGGCCA
* * *
40191986 CCAGTATAACTCACGAAGGTCTTGGTACATCTTGTTCCCAGG
1 CCAGCATAACTCACGAAGGTCTCGGTACACCTTGTTCCCAGG
40192028 CCAGCATAACTCACGAAGGTCTCGGTACACCTTGTTCC
1 CCAGCATAACTCACGAAGGTCTCGGTACACCTTGTTCC
40192066 TACTGGGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (42 bp):
CCAGCATAACTCACGAAGGTCTCGGTACACCTTGTTCCCAGG
Found at i:40200754 original size:194 final size:195
Alignment explanation
Indices: 40200410--40200770 Score: 444
Period size: 194 Copynumber: 1.9 Consensus size: 195
40200400 ACTTTACGCG
* * * * *
40200410 ATTTAGTCCTTTTTATTAAATTGACTAATCAAACGATAAAATTTCTTAACGAAATTTTCACACCA
1 ATTTAGTCCTTCTAATCAAATTGACTAATCAAACAATAAAATTTCTTAACAAAATTTTCACACCA
* * *
40200475 ATAAAATATCATACTGTAAACCTTAAAATAATAATAAAATAAATATTTTAATATCATATTTTTGG
66 ATAAAATATCATACTGTAAACCGTAAAAAAATAATAAAATAAATATTTTAATATCATATTTGTGG
* *
40200540 CCCTAAAACCATTGTTTTGATTTGA-CTAAAAATGGGTTGTTACACAAATTTTGCACTTATTGCA
131 CCCTAAAACCACTATTTTGATTTGACCTAAAAATGGGTTGTTACACAAATTTTGCACTTATTGCA
* *
40200604 ATTTAGTCCTTCTAATCAAATTGAGC-ACTCAATCAATAAAATTTCTTAACAAAATTTTCACA-C
1 ATTTAGTCCTTCTAATCAAATTGA-CTAATCAAACAATAAAATTTCTTAACAAAATTTTCACACC
*** * * * * *
40200667 AATTATTCTATCATGCTGTAGACCGTAAAAAAATAATAAAATAAATATTTTTACTTTGA-ATTTG
65 AA-TAAAATATCATACTGTAAACCGTAAAAAAATAATAAAATAAATA-TTTTAATATCATATTTG
** *
40200731 TGG-TTTCGAAACCACTATTTTGATTTGACCTAAAAATGGG
128 TGGCCCT-AAAACCACTATTTTGATTTGACCTAAAAATGGG
40200771 ATTTTCGTCC
Statistics
Matches: 139, Mismatches: 23, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
193 4 0.03
194 115 0.83
195 20 0.14
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.37
Consensus pattern (195 bp):
ATTTAGTCCTTCTAATCAAATTGACTAATCAAACAATAAAATTTCTTAACAAAATTTTCACACCA
ATAAAATATCATACTGTAAACCGTAAAAAAATAATAAAATAAATATTTTAATATCATATTTGTGG
CCCTAAAACCACTATTTTGATTTGACCTAAAAATGGGTTGTTACACAAATTTTGCACTTATTGCA
Found at i:40206731 original size:100 final size:100
Alignment explanation
Indices: 40206558--40206745 Score: 297
Period size: 100 Copynumber: 1.9 Consensus size: 100
40206548 TATGGTGAGG
* *
40206558 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACAGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACAGGATAATTGGTCGCATGTGTAGTACT
*
40206623 AAGTGCAGGCTAGTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* * * *
40206658 TCACGTTTGTAGTACTAAATGCGGGCTACTACGTGTACCA-GATTATTGGTTGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTA-CAGGATAATTGGTCGCATGTGTAGTAC
40206722 TAAGTGCAGGCTACTATGCGTACC
65 TAAGTGCAGGCTACTATGCGTACC
40206746 AGATAGCTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 78 0.98
101 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACAGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:40206734 original size:49 final size:49
Alignment explanation
Indices: 40206563--40206750 Score: 209
Period size: 49 Copynumber: 3.8 Consensus size: 49
40206553 TGAGGTCACG
* *
40206563 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CAGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA-GATAATTGGTTGCA
* * * * *
40206612 TGTGTAGTACTAAGTGCAGGCTAGTATGCGTACCCGAAAACTGTGAT-CA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTG-GTTGCA
* * * * * *
40206661 CGTTTGTAGTACTAAATGCGGGCTACTACGTGTACCAGATTATTGGTTGCA
1 --TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTTGCA
40206712 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
40206751 GCTTCGGCTA
Statistics
Matches: 110, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
49 71 0.65
50 4 0.04
51 35 0.32
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTTGCA
Found at i:40217564 original size:40 final size:39
Alignment explanation
Indices: 40217519--40217726 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
40217509 CGGAATACAA
*
40217519 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
40217559 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
40217599 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
40217639 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
40217679 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
40217719 CCGGATAT
1 CCGGATAT
40217727 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:40217659 original size:80 final size:80
Alignment explanation
Indices: 40217519--40217725 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
40217509 CGGAATACAA
* * *
40217519 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
40217583 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
40217599 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
40217663 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
40217679 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
40217726 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:40225615 original size:40 final size:39
Alignment explanation
Indices: 40225570--40225777 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
40225560 CGGAATACAA
*
40225570 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
40225610 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
40225650 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
40225690 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
40225730 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
40225770 CCGGATAT
1 CCGGATAT
40225778 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:40225710 original size:80 final size:80
Alignment explanation
Indices: 40225570--40225776 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
40225560 CGGAATACAA
* * *
40225570 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
40225634 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
40225650 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
40225714 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
40225730 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
40225777 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:40228426 original size:122 final size:120
Alignment explanation
Indices: 40228210--40228427 Score: 287
Period size: 122 Copynumber: 1.8 Consensus size: 120
40228200 AATTATGTGG
* * * *
40228210 AATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATATACCCGGGCTA
1 AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
* * **
40228275 AGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 AGTCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* *
40228330 AATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCGG
1 AATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAAT-ATACCCGG
*
40228394 GCTAAG-CCCGAAGACAATTATGCTGGAAATTATA
62 GCTAAGTCCCGAAGACAATTATGCTAGAAATTATA
40228428 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
120 15 0.18
122 52 0.63
123 16 0.19
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (120 bp):
AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
AGTCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:40228452 original size:40 final size:40
Alignment explanation
Indices: 40228386--40228536 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
40228376 AAATTGAATG
* *
40228386 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
40228425 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
40228465 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
40228505 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
40228537 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:40228550 original size:40 final size:40
Alignment explanation
Indices: 40228423--40228552 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
40228413 ATGCTGGAAA
* * *
40228423 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
40228463 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
40228503 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
40228543 TTATATCCGG
1 TTATATCCGG
40228553 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:40228551 original size:80 final size:79
Alignment explanation
Indices: 40228386--40228552 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
40228376 AAATTGAATG
*
40228386 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
40228451 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * * *
40228465 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
40228528 CATTTGTGC-ACGTGGTT
63 CAATTGTGCTA-GTGGCT
40228545 ATATCCGG
1 ATATCCGG
40228553 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:40236747 original size:29 final size:28
Alignment explanation
Indices: 40236677--40236751 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
40236667 ATACTCGATT
* *
40236677 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
40236705 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
40236734 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
40236752 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:40236768 original size:29 final size:29
Alignment explanation
Indices: 40236735--40236808 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
40236725 CCTTCGAGCT
40236735 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
40236764 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
40236793 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
40236809 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:40239798 original size:22 final size:23
Alignment explanation
Indices: 40239768--40239813 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
40239758 TTTCATGTTT
* * *
40239768 CGATGCTTCG-ACGTTATAGATC
1 CGATCCTTCGCACGTAATAAATC
40239790 CGATCCTTCGCACGTAATAAATC
1 CGATCCTTCGCACGTAATAAATC
40239813 C
1 C
40239814 CTCCGAGGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (23 bp):
CGATCCTTCGCACGTAATAAATC
Found at i:40241687 original size:40 final size:40
Alignment explanation
Indices: 40241639--40241844 Score: 317
Period size: 40 Copynumber: 5.2 Consensus size: 40
40241629 GAACTAAGAT
*
40241639 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
40241679 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
40241719 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
40241759 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
40241799 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
40241838 CCGAAGG
1 CCGAAGG
40241845 TACTTGGGTT
Statistics
Matches: 156, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.09
40 140 0.90
41 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:40243219 original size:20 final size:20
Alignment explanation
Indices: 40243194--40243241 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
40243184 GGGTGTTACA
40243194 CACATGATATGTACGATATG
1 CACATGATATGTACGATATG
*
40243214 CACATGATATGTATGATATG
1 CACATGATATGTACGATATG
40243234 CACATGAT
1 CACATGAT
40243242 GTATTCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (20 bp):
CACATGATATGTACGATATG
Found at i:40243224 original size:11 final size:11
Alignment explanation
Indices: 40243194--40243241 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 11
40243184 GGGTGTTACA
40243194 CACATGATATG
1 CACATGATATG
*
40243205 TAC--GATATG
1 CACATGATATG
40243214 CACATGATATG
1 CACATGATATG
*
40243225 --TATGATATG
1 CACATGATATG
40243234 CACATGAT
1 CACATGAT
40243242 GTATTCATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
9 16 0.55
11 13 0.45
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (11 bp):
CACATGATATG
Found at i:40246294 original size:51 final size:51
Alignment explanation
Indices: 40246220--40246327 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
40246210 AGATATGGTG
* *
40246220 AAATGGAGAAATAGGAAACATTTGAAAATGATTATGGTTTTCTCCAAAATGA
1 AAATGGAGAAATA-GAAACATTTGAAAATGACTATGGTTTTCTCAAAAATGA
* * *
40246272 AAATGGGGAAAT-GAAATCATTTGGAAATGACTGTGGTTTTCTCAAAAATGA
1 AAATGGAGAAATAGAAA-CATTTGAAAATGACTATGGTTTTCTCAAAAATGA
40246323 AAATG
1 AAATG
40246328 ACATGAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 4 0.08
51 35 0.70
52 11 0.22
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (51 bp):
AAATGGAGAAATAGAAACATTTGAAAATGACTATGGTTTTCTCAAAAATGA
Found at i:40259619 original size:103 final size:104
Alignment explanation
Indices: 40259424--40259638 Score: 414
Period size: 104 Copynumber: 2.1 Consensus size: 104
40259414 CATACATACA
40259424 TATTAGTAGTAATTTTTTGTTTTTGAGCTTAATTATTTAATTCTATATTCCATAAAGAAAAAGCT
1 TATTAGTAGTAATTTTTTGTTTTTGAGCTTAATTATTTAATTCTATATTCCATAAAGAAAAAGCT
40259489 CAATTCTAGGATCTTCTAATTAGGAATGTAATTTGTCAG
66 CAATTCTAGGATCTTCTAATTAGGAATGTAATTTGTCAG
40259528 TATTAGTAGTAATTTTTTGTTTTTGAGCTTAATTATTTAATTCTATATTCCATAAAG-AAAAGCT
1 TATTAGTAGTAATTTTTTGTTTTTGAGCTTAATTATTTAATTCTATATTCCATAAAGAAAAAGCT
40259592 CAATTCTAGGATCTTCTAATTAGGAATGTAATTTGTCAG
66 CAATTCTAGGATCTTCTAATTAGGAATGTAATTTGTCAG
*
40259631 TTTTAGTA
1 TATTAGTA
40259639 CTTTTCTAGT
Statistics
Matches: 110, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
103 53 0.48
104 57 0.52
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.45
Consensus pattern (104 bp):
TATTAGTAGTAATTTTTTGTTTTTGAGCTTAATTATTTAATTCTATATTCCATAAAGAAAAAGCT
CAATTCTAGGATCTTCTAATTAGGAATGTAATTTGTCAG
Found at i:40260414 original size:13 final size:13
Alignment explanation
Indices: 40260396--40260423 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
40260386 CTAAGCCACC
40260396 TCACACGGGCGTG
1 TCACACGGGCGTG
40260409 TCACACGGGCGTG
1 TCACACGGGCGTG
40260422 TC
1 TC
40260424 CCTGTCGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:40264055 original size:15 final size:17
Alignment explanation
Indices: 40264021--40264055 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
40264011 TATCACATTT
40264021 ATAACCATTTCAAGATC
1 ATAACCATTTCAAGATC
40264038 ATAA-CATTTCAA-ATC
1 ATAACCATTTCAAGATC
40264053 ATA
1 ATA
40264056 TCAATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAACCATTTCAAGATC
Found at i:40278230 original size:27 final size:26
Alignment explanation
Indices: 40278190--40278305 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 26
40278180 AGCATGGCTG
*
40278190 CCAGAACAGATATTGTCACAGAGTCA
1 CCAGAACAGATATTGTCACAGAGCCA
**
40278216 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTCACAGAGCCA
**
40278243 CCAGAACAGATATTTGTGGC-GTAGCCA
1 CCAGAACAGATA-TTGTCACAG-AGCCA
* ** *
40278270 CCAGAAACACATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTCACAGAGCCA
40278298 CCAGAACA
1 CCAGAACA
40278306 CTTCCTCCAT
Statistics
Matches: 80, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
26 13 0.16
27 43 0.54
28 24 0.30
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTCACAGAGCCA
Found at i:40278287 original size:28 final size:28
Alignment explanation
Indices: 40278214--40278303 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
40278204 GTCACAGAGT
*
40278214 CACCAGATACAGATA-TTGTGGCAG-AGC
1 CACCAGAAACAGATATTTGTGGC-GTAGC
40278241 CACCAG-AACAGATATTTGTGGCGTAGC
1 CACCAGAAACAGATATTTGTGGCGTAGC
* *
40278268 CACCAGAAACACATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCGTAGC
40278296 CACCAGAA
1 CACCAGAA
40278304 CACTTCCTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
26 8 0.14
27 22 0.39
28 27 0.47
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.19
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCGTAGC
Found at i:40284434 original size:20 final size:21
Alignment explanation
Indices: 40284386--40284438 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
40284376 TTTCCAGGTG
40284386 GTATCGATACCACTTAAAGGAA
1 GTATCGATACCAC-TAAAGGAA
* * *
40284408 ATATCGATACCA-TAGAGGCA
1 GTATCGATACCACTAAAGGAA
40284428 GTATCGATACC
1 GTATCGATACC
40284439 TACATAACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.59
22 11 0.41
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (21 bp):
GTATCGATACCACTAAAGGAA
Found at i:40285886 original size:32 final size:32
Alignment explanation
Indices: 40285844--40285939 Score: 93
Period size: 32 Copynumber: 3.0 Consensus size: 32
40285834 ATGCGGCTCT
* *
40285844 AAGCCTTCAGTAGCGGTATTATAATTGGCACA
1 AAGCCATCAGTAACGGTATTATAATTGGCACA
* **
40285876 AAGCCATCAGTAACTGTATTATGTTTGGCACA
1 AAGCCATCAGTAACGGTATTATAATTGGCACA
* * ** * *
40285908 TAGCCATTAGCGACGGTAATATAATCGGCACA
1 AAGCCATCAGTAACGGTATTATAATTGGCACA
40285940 CAACCGTGGG
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTATTATAATTGGCACA
Found at i:40286500 original size:54 final size:54
Alignment explanation
Indices: 40286442--40286623 Score: 233
Period size: 54 Copynumber: 3.4 Consensus size: 54
40286432 GCCCTACATA
* * * * *
40286442 GGTATTTCGGTAATTTTACACTACAAGGGTATTTGGGTAATTTTACACTA-TAAG
1 GGTATTTCGATAATTTTACACTACAAGGGTATTTCGATAATTTTACA-AACTGAG
* * *
40286496 GGTATTTCGATAATTTTACACTATAAGGGTATTTTGATAATTTTACAAACTGGG
1 GGTATTTCGATAATTTTACACTACAAGGGTATTTCGATAATTTTACAAACTGAG
* * *
40286550 GGTATTTCAATAATTTTACA-AACCGAGGGTATTTCGATAATTTTACAAACTGAG
1 GGTATTTCGATAATTTTACACTA-CAAGGGTATTTCGATAATTTTACAAACTGAG
40286604 GGTATTTCGATAATTTTACA
1 GGTATTTCGATAATTTTACA
40286624 AACAGGGCTT
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 2 0.02
54 110 0.98
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
GGTATTTCGATAATTTTACACTACAAGGGTATTTCGATAATTTTACAAACTGAG
Found at i:40286624 original size:27 final size:27
Alignment explanation
Indices: 40286442--40286626 Score: 205
Period size: 27 Copynumber: 6.9 Consensus size: 27
40286432 GCCCTACATA
* *
40286442 GGTATTTCGGTAATTTTACACTAC-AAG
1 GGTATTTCGATAATTTTACA-AACTAAG
* * *
40286469 GGTATTTGGGTAATTTTACACTA-TAAG
1 GGTATTTCGATAATTTTACA-AACTAAG
*
40286496 GGTATTTCGATAATTTTACACTA-TAAG
1 GGTATTTCGATAATTTTACA-AACTAAG
* **
40286523 GGTATTTTGATAATTTTACAAACTGGG
1 GGTATTTCGATAATTTTACAAACTAAG
* **
40286550 GGTATTTCAATAATTTTACAAACCGAG
1 GGTATTTCGATAATTTTACAAACTAAG
*
40286577 GGTATTTCGATAATTTTACAAACTGAG
1 GGTATTTCGATAATTTTACAAACTAAG
40286604 GGTATTTCGATAATTTTACAAAC
1 GGTATTTCGATAATTTTACAAAC
40286627 AGGGCTTTCC
Statistics
Matches: 143, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAACTAAG
Found at i:40289465 original size:28 final size:29
Alignment explanation
Indices: 40289392--40289479 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
40289382 AGCATGGCTG
* * * *
40289392 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
40289419 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
40289448 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
40289476 CCAG
1 CCAG
40289480 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:40289625 original size:28 final size:28
Alignment explanation
Indices: 40289593--40289697 Score: 210
Period size: 28 Copynumber: 3.8 Consensus size: 28
40289583 CCTAGGGGTC
40289593 ATTTTGCATACATAGGGGTATAATGGTA
1 ATTTTGCATACATAGGGGTATAATGGTA
40289621 ATTTTGCATACATAGGGGTATAATGGTA
1 ATTTTGCATACATAGGGGTATAATGGTA
40289649 ATTTTGCATACATAGGGGTATAATGGTA
1 ATTTTGCATACATAGGGGTATAATGGTA
40289677 ATTTTGCATACATAGGGGTAT
1 ATTTTGCATACATAGGGGTAT
40289698 TCTAGTACAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 77 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (28 bp):
ATTTTGCATACATAGGGGTATAATGGTA
Found at i:40297295 original size:27 final size:27
Alignment explanation
Indices: 40297257--40297345 Score: 117
Period size: 27 Copynumber: 3.2 Consensus size: 27
40297247 GTGACAGAGT
*
40297257 CACCAGATACAGATATTTTTGGCAGTGC
1 CACCAGA-ACAGATATTTGTGGCAGTGC
* *
40297285 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
40297312 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
40297340 CACCAG
1 CACCAG
40297346 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 30 0.56
28 24 0.44
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:40297304 original size:55 final size:55
Alignment explanation
Indices: 40297232--40297345 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
40297222 AGCATGGCTG
* *
40297232 CCAGATACAGAAAATGTGACAGAGTCACCAGATACAGAT-ATTTTTGGCAGT-GCCA
1 CCAGATACAGAAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
40297287 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGA-AAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
40297342 CCAG
1 CCAG
40297346 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 12 0.24
55 39 0.76
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (55 bp):
CCAGATACAGAAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:40297528 original size:28 final size:28
Alignment explanation
Indices: 40297451--40297570 Score: 206
Period size: 28 Copynumber: 4.3 Consensus size: 28
40297441 AAATTAACCC
* **
40297451 TAGGGGTATAAAGGCCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
40297479 TAGGGGTAT-ATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
40297506 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
40297534 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
40297562 TAGGGGTAT
1 TAGGGGTAT
40297571 TCTAGTACAT
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
27 24 0.27
28 64 0.73
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:40297535 original size:55 final size:56
Alignment explanation
Indices: 40297451--40297570 Score: 206
Period size: 55 Copynumber: 2.2 Consensus size: 56
40297441 AAATTAACCC
*
40297451 TAGGGGTATAAAGGCCATTTTGCATACATAGGGGTAT-ATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGCAATTTTGCATACATAGGGGTATAATGGTAATTTTGCATACA
* *
40297506 TAGGGGTATAATGGTAATTTTGCATACATAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGCAATTTTGCATACATAGGGGTATAATGGTAATTTTGCATACA
40297562 TAGGGGTAT
1 TAGGGGTAT
40297571 TCTAGTACAT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
55 34 0.56
56 27 0.44
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (56 bp):
TAGGGGTATAAAGGCAATTTTGCATACATAGGGGTATAATGGTAATTTTGCATACA
Found at i:40303234 original size:17 final size:17
Alignment explanation
Indices: 40303213--40303260 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
40303203 TGGTTTACTG
40303213 ATTTTAGTTGTTTA-TT
1 ATTTTAGTTGTTTATTT
**
40303229 ATTTTTTCTTGTTTATTT
1 A-TTTTAGTTGTTTATTT
*
40303247 ATTTTAGTTATTTA
1 ATTTTAGTTGTTTA
40303261 AATTCTCTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 1 0.04
17 21 0.84
18 3 0.12
ACGTcount: A:0.19, C:0.02, G:0.08, T:0.71
Consensus pattern (17 bp):
ATTTTAGTTGTTTATTT
Found at i:40306040 original size:40 final size:40
Alignment explanation
Indices: 40306008--40306240 Score: 403
Period size: 40 Copynumber: 5.8 Consensus size: 40
40305998 CCAGCATGAT
* * *
40306008 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40306048 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
40306088 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
40306128 TGCTCTTCGGGACTTGGCCCGGATATATCACTTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCAC-TAGCACGAA
40306169 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40306209 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
40306241 CTCAATTCTC
Statistics
Matches: 183, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 144 0.79
41 39 0.21
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:40306200 original size:81 final size:81
Alignment explanation
Indices: 40306008--40306240 Score: 405
Period size: 81 Copynumber: 2.9 Consensus size: 81
40305998 CCAGCATGAT
* * *
40306008 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
40306073 TATCAC-TAGCACGAA
66 TATCACTTAGCACGAA
* * *
40306088 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTGGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
40306153 TATCACTTAGCACGAA
66 TATCACTTAGCACGAA
40306169 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
40306234 TATCACT
66 TATCACT
40306241 CTCAATTCTC
Statistics
Matches: 143, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 65 0.45
81 78 0.55
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTTAGCACGAA
Found at i:40306221 original size:121 final size:120
Alignment explanation
Indices: 40306008--40306240 Score: 403
Period size: 121 Copynumber: 1.9 Consensus size: 120
40305998 CCAGCATGAT
40306008 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
40306073 TATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
40306128 TGCTCTTCGGGACTTGGCCCGGATATATCACTTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 TGCTCTTCGGGACCTAGCCCGGATATAACAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
40306193 ATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
65 ATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
40306241 CTCAATTCTC
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 28 0.26
121 78 0.74
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (120 bp):
TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:40307569 original size:37 final size:37
Alignment explanation
Indices: 40307510--40307618 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
40307500 AGCTCAGACG
* * * *
40307510 AAATCTCTATACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
40307547 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
40307584 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
40307619 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:40307822 original size:50 final size:50
Alignment explanation
Indices: 40307767--40307864 Score: 162
Period size: 50 Copynumber: 2.0 Consensus size: 50
40307757 CATCGCCTAC
40307767 ATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACA-TAGACCATTCGGCTTTACCACATATACATATCTCATATAT
* *
40307817 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
1 ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATAT
40307865 TCACCACATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 2 0.04
50 43 0.96
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.37
Consensus pattern (50 bp):
ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:40307921 original size:47 final size:47
Alignment explanation
Indices: 40307822--40308014 Score: 246
Period size: 47 Copynumber: 4.1 Consensus size: 47
40307812 TATATATATT
* * * *
40307822 TCACATTGACCATTCGGCTTTA-C-CACATATGCATATCTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTCACATTCA
*
40307868 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
40307915 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * * ***
40307962 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
40308009 TCACAT
1 TCACAT
40308015 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
46 19 0.14
47 103 0.77
48 11 0.08
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:40307941 original size:22 final size:22
Alignment explanation
Indices: 40307914--40307985 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
40307904 GCTCACATTC
40307914 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
40307936 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
40307960 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
40307983 ATC
1 ATC
40307986 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:40316003 original size:29 final size:29
Alignment explanation
Indices: 40315911--40315992 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
40315901 TGACGAGATC
40315911 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
40315940 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
40315969 GGCACTAAGTGTGCAAGCTGGAAA
1 GGCACTAAGTGTGCGTGCTGGAAA
40315993 AATACAGCAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:40323939 original size:30 final size:30
Alignment explanation
Indices: 40323903--40324004 Score: 127
Period size: 30 Copynumber: 3.5 Consensus size: 30
40323893 GACAAGATTG
* * *
40323903 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
*
40323933 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* * *
40323961 GCACTAAGTGTGCGAGCTGAAAAATATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
40323991 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40324005 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 23 0.37
30 39 0.63
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:40327515 original size:27 final size:28
Alignment explanation
Indices: 40327475--40327542 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
40327465 AGCATGGCTG
* *
40327475 CCAGA-ACAGATAAT-GT-GACAGAGTCA
1 CCAGATACAGATAATCATGGAC-GAGCCA
40327501 CCAGATACAGATAATCATGGACGAGCCA
1 CCAGATACAGATAATCATGGACGAGCCA
40327529 CCAGAT-CAGATAAT
1 CCAGATACAGATAAT
40327543 TGTTGCATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
26 5 0.14
27 17 0.46
28 12 0.32
29 3 0.08
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (28 bp):
CCAGATACAGATAATCATGGACGAGCCA
Found at i:40331488 original size:14 final size:14
Alignment explanation
Indices: 40331469--40331497 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
40331459 CATGTGTAGG
40331469 ATTTGTGAGTTTTT
1 ATTTGTGAGTTTTT
40331483 ATTTGTGAGTTTTT
1 ATTTGTGAGTTTTT
40331497 A
1 A
40331498 GTTAAGGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (14 bp):
ATTTGTGAGTTTTT
Found at i:40334473 original size:29 final size:29
Alignment explanation
Indices: 40334440--40334541 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
40334430 TGACGAGATC
40334440 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
40334469 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
40334498 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
40334527 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
40334542 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:40340431 original size:42 final size:42
Alignment explanation
Indices: 40340378--40340491 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
40340368 TTAGAATTTA
*
40340378 CGTGTAAGACCATATCTGGGATATGGCATCAG-TATGAGAAT-T
1 CGTGTAAGACCATATCTGGGATATGGCAT-AGATATGAG-ATCC
* * * *
40340420 CGTGTAAGACCATAGT-GGGGCTATTGGAATTGATATGAGATCC
1 CGTGTAAGACCATA-TCTGGGATA-TGGCATAGATATGAGATCC
*
40340463 CATGTAAGACCATATCTGGGATATGGCAT
1 CGTGTAAGACCATATCTGGGATATGGCAT
40340492 TGGTATATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
42 28 0.48
43 30 0.52
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATAGATATGAGATCC
Found at i:40345526 original size:39 final size:39
Alignment explanation
Indices: 40345471--40345651 Score: 274
Period size: 39 Copynumber: 4.6 Consensus size: 39
40345461 CAGCGATGTT
**
40345471 TATCCGGACTTTGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
40345510 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
40345549 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
40345588 TAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* *
40345627 TATCCGGGC-TAAAGTCCCGCAGGCT
1 TATCCGGACTTAAGGT-CCGCAGGCT
40345652 TCGAGCTAGT
Statistics
Matches: 133, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
38 5 0.04
39 128 0.96
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:40353583 original size:40 final size:40
Alignment explanation
Indices: 40353498--40353600 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
40353488 CCCTGCACAC
* *
40353498 CAACTCCATCCAACCCGACACACC--ATGTGAGGATAAAAT
1 CAAC-CCATCCAACCCTACACACCAAATATGAGGATAAAAT
** * *
40353537 TGACCCATCCATCTCTACACACCAAATATGAGGATAAAAT
1 CAACCCATCCAACCCTACACACCAAATATGAGGATAAAAT
40353577 CAACCCATCCAACCCTACACACCA
1 CAACCCATCCAACCCTACACACCA
40353601 TAAAGTATCG
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
38 16 0.31
39 2 0.04
40 34 0.65
ACGTcount: A:0.39, C:0.36, G:0.09, T:0.17
Consensus pattern (40 bp):
CAACCCATCCAACCCTACACACCAAATATGAGGATAAAAT
Found at i:40357102 original size:16 final size:16
Alignment explanation
Indices: 40357050--40357109 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
40357040 CTGTTTTGAT
*
40357050 TATTTTTA-TTTTGAA
1 TATTTTTATTTTTAAA
* *
40357065 TTTTTTTAGTTAATTAAA
1 TATTTTTA-TT-TTTAAA
*
40357083 TATTTTTATTTTTTAA
1 TATTTTTATTTTTAAA
40357099 TATTTTTATTT
1 TATTTTTATTT
40357110 ACCTTGTTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
15 7 0.19
16 15 0.42
17 3 0.08
18 11 0.31
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TATTTTTATTTTTAAA
Found at i:40359754 original size:22 final size:22
Alignment explanation
Indices: 40359715--40359773 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
40359705 GTTTTAAGAA
*
40359715 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
40359736 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
40359758 AT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
40359774 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:40359771 original size:24 final size:25
Alignment explanation
Indices: 40359744--40359803 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 25
40359734 ATTTGTTTTA
40359744 ATATTTATTT-TTATATTTTTAAAT
1 ATATTTATTTATTATATTTTTAAAT
40359768 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTTATTATATTTTTAAAT
*
40359794 -TTTTTATTTA
1 ATATTTATTTA
40359804 ATAAAATAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
24 11 0.33
25 8 0.24
26 14 0.42
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
ATATTTATTTATTATATTTTTAAAT
Found at i:40364209 original size:16 final size:16
Alignment explanation
Indices: 40364188--40364220 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
40364178 CCATATTCAA
*
40364188 TCAGAATTTGTTTAAG
1 TCAGAATCTGTTTAAG
40364204 TCAGAATCTGTTTAAG
1 TCAGAATCTGTTTAAG
40364220 T
1 T
40364221 GACCTAGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (16 bp):
TCAGAATCTGTTTAAG
Found at i:40367138 original size:16 final size:16
Alignment explanation
Indices: 40367117--40367150 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
40367107 CCATACTATG
40367117 AAAGAATTGAAACATA
1 AAAGAATTGAAACATA
40367133 AAAGAATTGAAACATA
1 AAAGAATTGAAACATA
40367149 AA
1 AA
40367151 TCTTTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAGAATTGAAACATA
Found at i:40368328 original size:54 final size:54
Alignment explanation
Indices: 40368194--40368328 Score: 234
Period size: 54 Copynumber: 2.5 Consensus size: 54
40368184 GTTGTTAAAA
**
40368194 GGGATTTAGCCTGGACTGGTAATCCTAACATTGCTCTATGAGTTTTTACTACGG
1 GGGATTTAGCCTGGACTGGTAATCCCGACATTGCTCTATGAGTTTTTACTACGG
* *
40368248 GGGATTTAGCTTGGACTGGTAATCCCGGCATTGCTCTATGAGTTTTTACTACGG
1 GGGATTTAGCCTGGACTGGTAATCCCGACATTGCTCTATGAGTTTTTACTACGG
40368302 GGGATTTAGCCTGGACTGGTAATCCCG
1 GGGATTTAGCCTGGACTGGTAATCCCG
40368329 CCGTAAGATG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.33
Consensus pattern (54 bp):
GGGATTTAGCCTGGACTGGTAATCCCGACATTGCTCTATGAGTTTTTACTACGG
Found at i:40370246 original size:27 final size:28
Alignment explanation
Indices: 40370193--40370246 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
40370183 TAAAATTTAA
*
40370193 AAAAAAATAAAATATTATAAAGGTCATG
1 AAAAAAATAAAATATTATAAAAGTCATG
* * *
40370221 AAAAATATAAAA-ATTTTAAAATTCAT
1 AAAAAAATAAAATATTATAAAAGTCAT
40370247 TATCAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (28 bp):
AAAAAAATAAAATATTATAAAAGTCATG
Found at i:40374007 original size:146 final size:149
Alignment explanation
Indices: 40373720--40374019 Score: 473
Period size: 146 Copynumber: 2.0 Consensus size: 149
40373710 GAATCATCCC
*
40373720 CATTTTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATG
1 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATG
40373785 TCTGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
66 TCTG---CCATAT--AATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
40373850 CAAGCATAAAATCAGTGAAATCAA
126 CAAGCATAAAATCAGTGAAATCAA
* * *
40373874 CATTCTGCAGAATATAGGATAAAATAAAAACTATACACCATAGAATGCTA-CAAAAGGTATCAAT
1 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTATC-AAAGGTATCAAT
40373938 GTCTG-C-TAT-ATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAAG
65 GTCTGCCATATAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAAG
*
40374000 CCTAAAATCAGTGAAATCAA
130 CATAAAATCAGTGAAATCAA
40374020 TCTATCTTAC
Statistics
Matches: 140, Mismatches: 5, Indels: 10
0.90 0.03 0.06
Matches are distributed among these distances:
146 72 0.51
149 3 0.02
150 1 0.01
153 1 0.01
154 63 0.45
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (149 bp):
CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATG
TCTGCCATATAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAAGC
ATAAAATCAGTGAAATCAA
Found at i:40374950 original size:25 final size:26
Alignment explanation
Indices: 40374907--40374959 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
40374897 TATTGTTTAA
*
40374907 TTTTAATTTTTTTCATTTCTAACATTT
1 TTTTAATTTTTTTCATTTC-AAAATTT
40374934 TTTTAA-TTTTTTC-TTTCAAAATTT
1 TTTTAATTTTTTTCATTTCAAAATTT
40374958 TT
1 TT
40374960 GTGCTGAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 8 0.32
25 4 0.16
26 7 0.28
27 6 0.24
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTAATTTTTTTCATTTCAAAATTT
Found at i:40375062 original size:8 final size:8
Alignment explanation
Indices: 40375045--40375117 Score: 76
Period size: 8 Copynumber: 8.9 Consensus size: 8
40375035 ATATTAAATA
*
40375045 TTAAAATT
1 TTAAATTT
*
40375053 TTAAGTTT
1 TTAAATTT
40375061 TT-AATTT
1 TTAAATTT
*
40375068 TTTAATTT
1 TTAAATTT
40375076 TTAAATTT
1 TTAAATTT
*
40375084 TTAATTTT
1 TTAAATTT
40375092 TTGAAGATTT
1 TT-AA-ATTT
40375102 TTATAATTT
1 TTA-AATTT
40375111 TTAAATT
1 TTAAATT
40375118 AACATATAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
7 6 0.11
8 33 0.60
9 10 0.18
10 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (8 bp):
TTAAATTT
Found at i:40375386 original size:21 final size:21
Alignment explanation
Indices: 40375357--40375397 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
40375347 TTAGGGCTTG
* *
40375357 GGGTTTAAGGATTGGGGTTTA
1 GGGTCTAAGGATTGGAGTTTA
*
40375378 GGGTCTAAGGGTTGGAGTTT
1 GGGTCTAAGGATTGGAGTTT
40375398 TAAGGGTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.02, G:0.44, T:0.37
Consensus pattern (21 bp):
GGGTCTAAGGATTGGAGTTTA
Found at i:40375486 original size:22 final size:22
Alignment explanation
Indices: 40375396--40375490 Score: 83
Period size: 21 Copynumber: 4.4 Consensus size: 22
40375386 GGGTTGGAGT
40375396 TTTAAGGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
* * *
40375418 TTT-AGGGTTTAGGGTGTTGGGA
1 TTTAAGGGTTTATGAT-TTGAGA
* *
40375440 -TTAA-GGTTTATCG-TTTATAGT
1 TTTAAGGGTTTAT-GATTT-GAGA
40375461 TTTAAGGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
40375483 TTT-AGGGT
1 TTTAAGGGT
40375491 CTGGTGTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.04
21 25 0.44
22 20 0.35
23 10 0.18
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (22 bp):
TTTAAGGGTTTATGATTTGAGA
Found at i:40375551 original size:66 final size:66
Alignment explanation
Indices: 40375452--40375576 Score: 214
Period size: 66 Copynumber: 1.9 Consensus size: 66
40375442 AAGGTTTATC
* * *
40375452 GTTTATAGTTTTAAGGGTTTATGATTTGAGATTTAGGGTCTGGTGTTTAAAGAGTTATTAATTAG
1 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAGGGTCTGGGGGTTAAAGAGTTATTAATTAG
40375517 T
66 T
*
40375518 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAGGGTCTGGGGGTTAAAGGGTTATT
1 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAGGGTCTGGGGGTTAAAGAGTTATT
40375577 GATTTAAGAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.25, C:0.02, G:0.29, T:0.45
Consensus pattern (66 bp):
GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAGGGTCTGGGGGTTAAAGAGTTATTAATTAG
T
Found at i:40375604 original size:66 final size:66
Alignment explanation
Indices: 40375462--40375590 Score: 159
Period size: 66 Copynumber: 1.9 Consensus size: 66
40375452 GTTTATAGTT
* * * * * *
40375462 TTAAGGGTTTATGATTTGAGATTTAGGGTCTGGTGTTTAAAGAGTTATTAATTAGTGTTTATAGT
1 TTAAGGGTTTATGATTAGAGATTTAGGGTCTGGGGGTTAAAGAGTTATTAATTAGAGGTTATAGG
*
40375527 T
66 G
* *
40375528 TTAAGGGTTTATGATTAGAGATTTAGGGTCTGGGGGTTAAAGGGTTATTGATTTAAGAGGTTA
1 TTAAGGGTTTATGATTAGAGATTTAGGGTCTGGGGGTTAAAGAGTTATT-AATT-AGAGGTTA
40375591 GGGGTTAGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 45 0.83
67 3 0.06
68 6 0.11
ACGTcount: A:0.26, C:0.02, G:0.29, T:0.43
Consensus pattern (66 bp):
TTAAGGGTTTATGATTAGAGATTTAGGGTCTGGGGGTTAAAGAGTTATTAATTAGAGGTTATAGG
G
Found at i:40376335 original size:41 final size:40
Alignment explanation
Indices: 40376262--40376533 Score: 355
Period size: 41 Copynumber: 6.7 Consensus size: 40
40376252 TTAAAAAAGT
* **
40376262 GCCGCTAATGCTCGACCTTTAGCGATGCTTTCTTAAAAAC
1 GCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAAC
* * * *
40376302 GCCGCTAATGCTCAGATCTTTTGCGGTGATTTCTTAAAAAT
1 GCCGCTAATGCTC-GATCTTTAGCGGCGCTTTCTTAAAAAC
40376343 GCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAAC
1 GCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAAC
*
40376383 GCCGCTAATGCTCAGATCTTTAGCGGCGCTTTCTTAAAAAAGT
1 GCCGCTAATGCTC-GATCTTTAGCGGCGCTTTCTT-AAAAA-C
* * *
40376426 GCCGCTAGTGCTCGATCTTTAGTGGCACTTTCTTAAAAAC
1 GCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAAC
* * * *
40376466 CCCGCTAATGCTCACATCATTAGCGGCGCTTTTTTAAAAAC
1 GCCGCTAATGCTC-GATCTTTAGCGGCGCTTTCTTAAAAAC
*
40376507 GCCGCTAATACTCGATCTTTAGCGGCG
1 GCCGCTAATGCTCGATCTTTAGCGGCG
40376534 TTTTAAAAAA
Statistics
Matches: 202, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
40 72 0.36
41 94 0.47
42 24 0.12
43 12 0.06
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (40 bp):
GCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAAC
Found at i:40376363 original size:81 final size:82
Alignment explanation
Indices: 40376255--40376564 Score: 401
Period size: 81 Copynumber: 3.8 Consensus size: 82
40376245 GGTGTTTTTA
* **
40376255 AAAAAGTGCCGCTAATGCTCGACCTTTAGCGATGCTTTCTTAAAAACGCCGCTAATGCTCAGATC
1 AAAAAGTGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATC
* * *
40376320 TTTTGCGGTGATTTCTT
66 TTTAGCGGCGCTTTCTT
40376337 AAAAA-TGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATC
1 AAAAAGTGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATC
40376401 TTTAGCGGCGCTTTCTT
66 TTTAGCGGCGCTTTCTT
* * * * *
40376418 AAAAAAGTGCCGCTAGTGCTCGATCTTTAGTGGCACTTTCTTAAAAACCCCGCTAATGCTCACAT
1 -AAAAAGTGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGAT
* *
40376483 CATTAGCGGCGCTTTTTT
65 CTTTAGCGGCGCTTTCTT
* * * *** * *
40376501 AAAAA-CGCCGCTAATACTCGATCTTTAGCGGCGTTTTAAAAAAAAGGCCGCTAATACTCA-ATC
1 AAAAAGTGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATC
40376564 T
66 T
40376565 ATTCGATTTT
Statistics
Matches: 200, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
80 3 0.01
81 113 0.56
82 15 0.08
83 69 0.34
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (82 bp):
AAAAAGTGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATC
TTTAGCGGCGCTTTCTT
Found at i:40376523 original size:164 final size:163
Alignment explanation
Indices: 40376252--40376564 Score: 428
Period size: 164 Copynumber: 1.9 Consensus size: 163
40376242 AGTGGTGTTT
** * *
40376252 TTAAAAAAGTGCCGCTAATGCTCGACCTTTAGCGATGCTTTCTTAAAAACGCCGCTAATGCTCAG
1 TTAAAAAAGTGCCGCTAATGCTCGACCTTTAGCGACACTTTCTTAAAAACCCCGCTAATGCTCAC
* * * * * ***
40376317 ATCTTTTGCGGTGATTTCTTAAAAATGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAA
66 ATCATTAGCGGCGATTTCTTAAAAACGCCGCTAATACTCGATCTTTAGCGGCGCTTTAAAAAAAA
*
40376382 CGCCGCTAATGCTCAGATCTTTAGCGGCGCTTTC
131 CGCCGCTAATACTCA-ATCTTTAGCGGCGCTTTC
* * * *
40376416 TTAAAAAAGTGCCGCTAGTGCTCGATCTTTAGTGGCACTTTCTTAAAAACCCCGCTAATGCTCAC
1 TTAAAAAAGTGCCGCTAATGCTCGACCTTTAGCGACACTTTCTTAAAAACCCCGCTAATGCTCAC
* * *
40376481 ATCATTAGCGGCGCTTTTTTAAAAACGCCGCTAATACTCGATCTTTAGCGGCGTTTTAAAAAAAA
66 ATCATTAGCGGCGATTTCTTAAAAACGCCGCTAATACTCGATCTTTAGCGGCGCTTTAAAAAAAA
*
40376546 GGCCGCTAATACTCAATCT
131 CGCCGCTAATACTCAATCT
40376565 ATTCGATTTT
Statistics
Matches: 128, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
163 4 0.03
164 124 0.97
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (163 bp):
TTAAAAAAGTGCCGCTAATGCTCGACCTTTAGCGACACTTTCTTAAAAACCCCGCTAATGCTCAC
ATCATTAGCGGCGATTTCTTAAAAACGCCGCTAATACTCGATCTTTAGCGGCGCTTTAAAAAAAA
CGCCGCTAATACTCAATCTTTAGCGGCGCTTTC
Found at i:40376545 original size:40 final size:40
Alignment explanation
Indices: 40376262--40376564 Score: 320
Period size: 40 Copynumber: 7.5 Consensus size: 40
40376252 TTAAAAAAGT
* ** *
40376262 GCCGCTAATGCTCGACCTTTAGCGATGCTTTCTTAAAAAC
1 GCCGCTAATGCTCGATCTTTAGCGGCGTTTTCTTAAAAAC
* * * *
40376302 GCCGCTAATGCTCAGATCTTTTGCGGTGATTTCTTAAAAAT
1 GCCGCTAATGCTC-GATCTTTAGCGGCGTTTTCTTAAAAAC
*
40376343 GCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAAC
1 GCCGCTAATGCTCGATCTTTAGCGGCGTTTTCTTAAAAAC
* *
40376383 GCCGCTAATGCTCAGATCTTTAGCGGCGCTTTCTTAAAAAAGT
1 GCCGCTAATGCTC-GATCTTTAGCGGCGTTTTCTT-AAAAA-C
* * **
40376426 GCCGCTAGTGCTCGATCTTTAGTGGCACTTTCTTAAAAAC
1 GCCGCTAATGCTCGATCTTTAGCGGCGTTTTCTTAAAAAC
* * *
40376466 CCCGCTAATGCTCACATCATTAGCGGCGCTTTT-TTAAAAAC
1 GCCGCTAATGCTC-GATCTTTAGCGGCG-TTTTCTTAAAAAC
* *** *
40376507 GCCGCTAATACTCGATCTTTAGCGGCGTTTTAAAAAAAAG
1 GCCGCTAATGCTCGATCTTTAGCGGCGTTTTCTTAAAAAC
* *
40376547 GCCGCTAATACTCAATCT
1 GCCGCTAATGCTCGATCT
40376565 ATTCGATTTT
Statistics
Matches: 227, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.02
40 94 0.41
41 90 0.40
42 27 0.12
43 12 0.05
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (40 bp):
GCCGCTAATGCTCGATCTTTAGCGGCGTTTTCTTAAAAAC
Found at i:40386441 original size:25 final size:25
Alignment explanation
Indices: 40386407--40386456 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
40386397 TCGGGATCGG
40386407 GAGGCATCACACTATCACAGGTAGT
1 GAGGCATCACACTATCACAGGTAGT
40386432 GAGGCATCACACTATCACAGGTAGT
1 GAGGCATCACACTATCACAGGTAGT
40386457 AATATAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (25 bp):
GAGGCATCACACTATCACAGGTAGT
Found at i:40389543 original size:93 final size:93
Alignment explanation
Indices: 40389414--40389585 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
40389404 CGCCCATAAG
* *
40389414 CGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40389479 ACAAGTTCGGATGCCTAGTTACATTTCA
66 ACAAGTTCGGATGCCTAGTTACATTTCA
* *
40389507 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
40389572 ACGAGTTCGGATGC
66 ACAAGTTCGGATGC
40389586 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATTTCA
Found at i:40389582 original size:46 final size:46
Alignment explanation
Indices: 40389407--40389582 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
40389397 TGTAACCCGC
* * * *
40389407 CCATAAGCGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
40389453 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
40389503 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
40389546 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
40389583 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:40389601 original size:46 final size:46
Alignment explanation
Indices: 40389456--40389594 Score: 126
Period size: 47 Copynumber: 3.0 Consensus size: 46
40389446 TTCGCATCCA
* *
40389456 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGC-CTAGTTA-CATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
40389504 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
40389549 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
40389595 CTAGTGACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.38
47 29 0.39
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:40390039 original size:30 final size:30
Alignment explanation
Indices: 40390004--40390060 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
40389994 TAACTCAAAT
40390004 TTTTGCAAAATTACAATTTTGCCCCTAAAC
1 TTTTGCAAAATTACAATTTTGCCCCTAAAC
* * *
40390034 TTTTGCATATTTACATTTTTGCCCCTA
1 TTTTGCAAAATTACAATTTTGCCCCTA
40390061 GGCTCGGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCTAAAC
Found at i:40391948 original size:28 final size:28
Alignment explanation
Indices: 40391903--40391971 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
40391893 CTTAAAACCC
*
40391903 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
40391930 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
40391958 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
40391972 TCATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:40393821 original size:19 final size:18
Alignment explanation
Indices: 40393784--40393827 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
40393774 ATACATACAG
40393784 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
40393801 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
40393820 TACTAATT
1 TAATAATT
40393828 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:40396251 original size:27 final size:28
Alignment explanation
Indices: 40396207--40396274 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
40396197 CTTAAAACCC
*
40396207 TAGGGGT-ATATCGGTAATTTTGCT-TT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
40396233 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
40396261 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
40396275 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 16 0.41
28 16 0.41
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:40398118 original size:19 final size:18
Alignment explanation
Indices: 40398081--40398124 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
40398071 ATACATACAG
40398081 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
40398098 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
40398117 TACTAATT
1 TAATAATT
40398125 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:40398534 original size:68 final size:64
Alignment explanation
Indices: 40398420--40398573 Score: 168
Period size: 68 Copynumber: 2.3 Consensus size: 64
40398410 ACATGGAACT
* * * * *
40398420 ATACATGCGACCTAGCTACATATATCCTGTAGCTCTCTTGTCTACATGGTGTACACAT-AGTATC
1 ATACATGTGACCTAGCTACATATATCCTGTAGCTCTCTTGTATACATGATGTACAC-TCAGCACC
* * *
40398484 ACT-CATGTGACCTAGCTACATCATAATGTCTCGTATCTCTCTTGTATACATGATGTGCACTCAG
1 A-TACATGTGACCTAGCTACAT-AT-AT-CCT-GTAGCTCTCTTGTATACATGATGTACACTCAG
40398548 CACC
61 CACC
40398552 ATACATGTGACCTAGCTACATA
1 ATACATGTGACCTAGCTACATA
40398574 CCATCTGTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
64 18 0.24
65 3 0.04
66 2 0.03
67 5 0.07
68 47 0.63
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (64 bp):
ATACATGTGACCTAGCTACATATATCCTGTAGCTCTCTTGTATACATGATGTACACTCAGCACC
Found at i:40399076 original size:30 final size:30
Alignment explanation
Indices: 40399042--40399098 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
40399032 TAACTCAAAA
40399042 TTTTGCAAAATTACAATTTTGCCCCTAAAC
1 TTTTGCAAAATTACAATTTTGCCCCTAAAC
* * *
40399072 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGCAAAATTACAATTTTGCCCCTA
40399099 GGCTCGAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCTAAAC
Found at i:40409800 original size:28 final size:29
Alignment explanation
Indices: 40409733--40409804 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
40409723 ATACTGAATC
*
40409733 CGCACACTTAGTGCTATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATTCAACT
40409762 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATTC-AACT
40409790 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40409805 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATTCAACT
Found at i:40409826 original size:30 final size:28
Alignment explanation
Indices: 40409732--40409833 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
40409722 TATACTGAAT
* *
40409732 CCGCACACTTAGTGCTATATATATTC-AGC
1 CCGCACACTTAGTGCTATACA-A-TCAAAC
* *
40409761 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
40409789 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
*
40409819 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
40409834 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.37
29 20 0.32
30 18 0.29
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:40411145 original size:18 final size:17
Alignment explanation
Indices: 40411122--40411165 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
40411112 TCCACACTCT
40411122 TTTTTTTTCATCATTTTC
1 TTTTTTTTCATCA-TTTC
**
40411140 TTTTTTTTTTTCATTTC
1 TTTTTTTTCATCATTTC
*
40411157 TTTATTTTC
1 TTTTTTTTC
40411166 CTTCCATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTTCATCATTTC
Found at i:40413164 original size:43 final size:43
Alignment explanation
Indices: 40413082--40413165 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
40413072 TGAGGTATGT
*
40413082 AGCATCCGAGCTCGTTGAGAGGTTCGAGTTCATTATGGATGCA
1 AGCATCCGAGCTCGTTGAGAGGTTCGAGTTCATGATGGATGCA
*
40413125 AGCATCCGAGCTCGTTGAGAGG-TCTGAGTTCATGGTGGATG
1 AGCATCCGAGCTCGTTGAGAGGTTC-GAGTTCATGATGGATG
40413166 TGATTCATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.27
Consensus pattern (43 bp):
AGCATCCGAGCTCGTTGAGAGGTTCGAGTTCATGATGGATGCA
Found at i:40413208 original size:51 final size:51
Alignment explanation
Indices: 40413127--40413226 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
40413117 TGGATGCAAG
* * * *
40413127 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATGGTGGATGTGATT-CATGTAA
1 CATCCAAGCTCATTGAAAGGTCTGAGTTCATGATGGATGTG-TTACATGTAA
* *
40413178 CATCCAAGCTCATTGAAAGGTCTGATTTCATTATGGATGTGTTACATGT
1 CATCCAAGCTCATTGAAAGGTCTGAGTTCATGATGGATGTGTTACATGT
40413227 TATGTGGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (51 bp):
CATCCAAGCTCATTGAAAGGTCTGAGTTCATGATGGATGTGTTACATGTAA
Done.