Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 316 of 770
Found at i:96622041 original size:40 final size:40
Alignment explanation
Indices: 96621945--96622044 Score: 173
Period size: 40 Copynumber: 2.5 Consensus size: 40
96621935 CCAAGTACCC
* *
96621945 TCGGGACTTAGCCCGGATATAGTAACTCGTACAAATGCCT
1 TCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCT
*
96621985 TCGGGACTTAGCCCGGTTATAGTAGCTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCT
96622025 TCGGGACTTAGCCCGGTTAT
1 TCGGGACTTAGCCCGGTTAT
96622045 CATCCGAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCT
Found at i:96639157 original size:23 final size:23
Alignment explanation
Indices: 96639131--96639175 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
96639121 CTGAATTTGT
96639131 AACCAAGTGTTTGATCTGTCAAA
1 AACCAAGTGTTTGATCTGTCAAA
96639154 AACCAAGTGTTTGATCTGTCAA
1 AACCAAGTGTTTGATCTGTCAA
96639176 CAAGTAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (23 bp):
AACCAAGTGTTTGATCTGTCAAA
Found at i:96645922 original size:40 final size:40
Alignment explanation
Indices: 96645873--96646078 Score: 308
Period size: 40 Copynumber: 5.2 Consensus size: 40
96645863 GGACTAAGAT
* *
96645873 CCGAAGGCATTTGTGCTAGTGATTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
96645913 CCGATGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
96645953 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
96645993 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
96646033 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
96646072 CCGAAGG
1 CCGAAGG
96646079 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.09
40 139 0.90
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:96654780 original size:29 final size:29
Alignment explanation
Indices: 96654748--96654883 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
96654738 ATACCCTCCG
** * *
96654748 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
96654777 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
96654806 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
96654835 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
96654864 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
96654884 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:96654875 original size:58 final size:58
Alignment explanation
Indices: 96654694--96654882 Score: 177
Period size: 58 Copynumber: 3.3 Consensus size: 58
96654684 TACTCAATTT
* * * *** *
96654694 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
96654752 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
96654810 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
96654868 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
96654883 AATCTCGTCA
Statistics
Matches: 105, Mismatches: 23, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:96661818 original size:29 final size:29
Alignment explanation
Indices: 96661799--96661921 Score: 149
Period size: 29 Copynumber: 4.2 Consensus size: 29
96661789 TCGAACACCC
* * * *
96661799 AGTGCCGTATTTTTCCAGCTTGCACACAT
1 AGTGCCATATATTTCCAGCTCGCACACTT
* *
96661828 AGTGTCATATTTTTCCAGCAT-GCACACTT
1 AGTGCCATATATTTCCAGC-TCGCACACTT
* *
96661857 AGTGCCTTATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCTCGCACACTT
*
96661886 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCTCGCACACTT
96661915 AGTGCCA
1 AGTGCCA
96661922 ATCTCGTCAC
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
29 83 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCTCGCACACTT
Found at i:96661861 original size:58 final size:58
Alignment explanation
Indices: 96661799--96661920 Score: 172
Period size: 58 Copynumber: 2.1 Consensus size: 58
96661789 TCGAACACCC
* ** * * *
96661799 AGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCATGCACACTT
1 AGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTT
* *
96661857 AGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTT
96661915 AGTGCC
1 AGTGCC
96661921 AATCTCGTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (58 bp):
AGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTT
Found at i:96662899 original size:29 final size:29
Alignment explanation
Indices: 96662860--96662938 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
96662850 CTTAATAATC
*
96662860 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
96662890 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
96662919 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
96662939 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:96663595 original size:2 final size:2
Alignment explanation
Indices: 96663577--96663614 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
96663567 TGATGGCCGA
* *
96663577 AT AT GT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96663615 CAACTATACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96670750 original size:27 final size:28
Alignment explanation
Indices: 96670684--96670752 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
96670674 ATAGTGAATC
*
96670684 CGCACACTTAGTGCTATATAAAATCAGCT
1 CGCACACTTAGTGCTATAT-AAATCAACT
*
96670713 CGCACAC--AGTGCTATAT-AATCAATT
1 CGCACACTTAGTGCTATATAAATCAACT
96670738 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
96670753 GTACAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 13 0.36
27 16 0.44
29 7 0.19
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAAATCAACT
Found at i:96670824 original size:42 final size:41
Alignment explanation
Indices: 96670766--96670849 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 41
96670756 CAATTTTAAA
*
96670766 CCGCACACTAGTGCCAATCTTGTCACCGTGTCCATTTATAC
1 CCGCACACTAGTGCCAATCTTGTCACCGTGTCCAGTTATAC
96670807 CCGCACACTTAGTGCCAATCTTGTCACCGTGTCCAGTTATAC
1 CCGCACAC-TAGTGCCAATCTTGTCACCGTGTCCAGTTATAC
96670849 C
1 C
96670850 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 8 0.20
42 33 0.80
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.29
Consensus pattern (41 bp):
CCGCACACTAGTGCCAATCTTGTCACCGTGTCCAGTTATAC
Found at i:96673627 original size:40 final size:40
Alignment explanation
Indices: 96673545--96673665 Score: 124
Period size: 39 Copynumber: 3.1 Consensus size: 40
96673535 AGTAATAAAT
**
96673545 CCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
96673582 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* * * * *
96673623 CCGGGCT-CGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
96673662 CCGG
1 CCGG
96673666 TTAAATTCCG
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
38 8 0.12
39 40 0.58
40 19 0.28
41 2 0.03
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:96681607 original size:40 final size:40
Alignment explanation
Indices: 96681445--96681646 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
96681435 CGAATGATGT
*
96681445 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
96681485 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
96681524 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
96681562 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
96681603 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
96681643 CCGG
1 CCGG
96681647 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:96681609 original size:78 final size:79
Alignment explanation
Indices: 96681444--96681595 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
96681434 TCGAATGATG
* * *
96681444 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
96681509 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
96681524 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
96681587 GTGCAAGTC
65 GTGCAAGTC
96681596 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:96684999 original size:27 final size:28
Alignment explanation
Indices: 96684943--96685012 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
96684933 AAATTTGTAC
96684943 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
96684971 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
96684998 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
96685013 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:96685023 original size:27 final size:27
Alignment explanation
Indices: 96684943--96685024 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
96684933 AAATTTGTAC
* *
96684943 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
96684971 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
96684998 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
96685025 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:96688447 original size:40 final size:40
Alignment explanation
Indices: 96688350--96688528 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
96688340 CGAATGATAT
* * * *
96688350 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
96688391 CCGGG-TCAATTTCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
96688431 CCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
96688471 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
96688511 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
96688529 ACAATCGAGT
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
40 90 0.79
41 24 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:96688489 original size:80 final size:81
Alignment explanation
Indices: 96688350--96688528 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 81
96688340 CGAATGATAT
* * * *
96688350 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTTCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
96688415 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
96688431 CCGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
96688494 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
96688511 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
96688529 ACAATCGAGT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 58 0.69
81 25 0.30
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:96691421 original size:40 final size:40
Alignment explanation
Indices: 96691360--96691577 Score: 244
Period size: 40 Copynumber: 5.5 Consensus size: 40
96691350 CGGATGATAA
* * * *
96691360 CCGGGCTAAGTCCCGAGGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* * *
96691400 CTGGGCTAAGTCTCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
96691440 CCGGGTTAAGTCCTGAAGGAATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
96691480 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
96691520 CTGGGCTATGTCCCGAAGGCATTCGAGCGAG-TATCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
96691560 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
96691578 TACCTGGCTT
Statistics
Matches: 150, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 16 0.11
40 134 0.89
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:96699898 original size:28 final size:28
Alignment explanation
Indices: 96699833--96699933 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
96699823 ATAGTGAATC
*
96699833 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
96699862 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
96699890 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
96699920 CGCACACTTAGTGC
1 CGCACACTTAGTGC
96699934 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:96707840 original size:28 final size:28
Alignment explanation
Indices: 96707775--96707875 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
96707765 ATAGTGAATC
*
96707775 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
96707804 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
96707832 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
96707862 CGCACACTTAGTGC
1 CGCACACTTAGTGC
96707876 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:96710675 original size:40 final size:40
Alignment explanation
Indices: 96710618--96710835 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
96710608 CGGATGATAA
* * *
96710618 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
96710658 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
96710698 CTGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
96710738 CCGGGCTAAGTCCCGAAGCCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
96710778 ACGGGCTATGTCCCGAAGGCATTCGAGCGAG-TATCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
96710818 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
96710836 TACCTGGCTT
Statistics
Matches: 153, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
39 16 0.10
40 137 0.90
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:96715345 original size:2 final size:2
Alignment explanation
Indices: 96715338--96715377 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
96715328 TATTCGAAGG
96715338 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96715378 AGACAGCCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96717163 original size:43 final size:43
Alignment explanation
Indices: 96717115--96717237 Score: 221
Period size: 43 Copynumber: 2.9 Consensus size: 43
96717105 CAGTTATGCT
96717115 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
96717158 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
*
96717201 GGTGATATGTATTCGGGTCTTC-ATGCCTAGCAGGCTT
1 GGTGATATGTATTCGGGCCTTCGA-GCCTAGCAGGCTT
96717238 AATGCCGATG
Statistics
Matches: 78, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
42 1 0.01
43 77 0.99
ACGTcount: A:0.15, C:0.22, G:0.32, T:0.32
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
Found at i:96717244 original size:43 final size:43
Alignment explanation
Indices: 96717108--96717249 Score: 214
Period size: 43 Copynumber: 3.3 Consensus size: 43
96717098 CGAAGAGCAG
*
96717108 TTATGCTGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCT
1 TTATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCT
*
96717151 TTGTGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCT
1 TTATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCT
* *
96717194 TTGTGCCGGTGATATGTATTCGGGTCTTC-ATGCCTAGCAGGCT
1 TTATGCCGGTGATATGTATTCGGGCCTTCGA-GCCTAGCAGGCT
* *
96717237 TAATGCCGATGAT
1 TTATGCCGGTGAT
96717250 TCGAGCAAGG
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
42 1 0.01
43 91 0.99
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.32
Consensus pattern (43 bp):
TTATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCT
Found at i:96717339 original size:29 final size:29
Alignment explanation
Indices: 96717297--96717399 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 29
96717287 CTTTAACCGA
*
96717297 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAAATGAG
* ** **
96717326 GCACTGTGTGTGCGA-ATTCCTTTAACCGA-
1 GCACTATGTGTGCGAGA-T-CAGTAAATGAG
* * *
96717355 GCACTATGTGAGGGAGATCGGTAAATGAG
1 GCACTATGTGTGCGAGATCAGTAAATGAG
*
96717384 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
96717400 TTCTCCAACC
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
28 7 0.13
29 41 0.75
30 7 0.13
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAAATGAG
Found at i:96717372 original size:58 final size:58
Alignment explanation
Indices: 96717281--96717430 Score: 212
Period size: 58 Copynumber: 2.6 Consensus size: 58
96717271 ATTACCGTAT
* *
96717281 GAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGC
1 GAATTCCTTTAACCGAGCACTATGTGAGCGAGATCAGTAAATGAGGCACTGTGTGTGC
* *
96717339 GAATTCCTTTAACCGAGCACTATGTGAGGGAGATCGGTAAATGAGGCACTGTGTGTGC
1 GAATTCCTTTAACCGAGCACTATGTGAGCGAGATCAGTAAATGAGGCACTGTGTGTGC
* ** * *
96717397 GAGTT-CTCCAACCGAGCACTACGTGTGCGAGATC
1 GAATTCCTTTAACCGAGCACTATGTGAGCGAGATC
96717431 GGTCAGTGGG
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 24 0.29
58 58 0.71
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (58 bp):
GAATTCCTTTAACCGAGCACTATGTGAGCGAGATCAGTAAATGAGGCACTGTGTGTGC
Found at i:96719453 original size:2 final size:2
Alignment explanation
Indices: 96719448--96719476 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
96719438 CATATATAGG
96719448 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
96719477 GTATGCCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96721469 original size:2 final size:2
Alignment explanation
Indices: 96721462--96721497 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
96721452 TATTCGAAGG
96721462 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96721498 AGACAGCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96723092 original size:48 final size:48
Alignment explanation
Indices: 96723021--96723116 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
96723011 GCTCTGAGCC
* *
96723021 TCCGTATTACTAATATAAGCCAAAATGGCTTCGCATCCCTTTCGTACT
1 TCCGTATCACTAATATAAGCCAAAACGGCTTCGCATCCCTTTCGTACT
96723069 TCCGTATCACTAATATAAGCCAAAACGGCTTCGCATCCCTTTCGTACT
1 TCCGTATCACTAATATAAGCCAAAACGGCTTCGCATCCCTTTCGTACT
96723117 AACTTCTCAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.31
Consensus pattern (48 bp):
TCCGTATCACTAATATAAGCCAAAACGGCTTCGCATCCCTTTCGTACT
Found at i:96726280 original size:28 final size:28
Alignment explanation
Indices: 96726262--96726358 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 28
96726252 TGGCCCACTT
96726262 GGCCCAATATCATTTATAT-GACCCATCA
1 GGCCCAATATCATTTATATAG-CCCATCA
* *
96726290 GGCCCAATACTGATTCATATAGCCCATCA
1 GGCCCAATA-TCATTTATATAGCCCATCA
* *
96726319 GGCCCAAT-TCATATTCATATAGCCCCTTA
1 GGCCCAATATCAT-TT-ATATAGCCCATCA
96726348 GGCCCAA-ATCA
1 GGCCCAATATCA
96726359 CATGCATATT
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
27 3 0.05
28 10 0.17
29 44 0.76
30 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (28 bp):
GGCCCAATATCATTTATATAGCCCATCA
Found at i:96726366 original size:29 final size:29
Alignment explanation
Indices: 96726283--96726367 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
96726273 ATTTATATGA
*
96726283 CCCATCAGGCCC-AAT-ACTGATTCATATAG
1 CCCATCAGGCCCAAATCAC--ATGCATATAG
* * *
96726312 CCCATCAGGCCCAATTCATATTCATATAG
1 CCCATCAGGCCCAAATCACATGCATATAG
* *
96726341 CCCCTTAGGCCCAAATCACATGCATAT
1 CCCATCAGGCCCAAATCACATGCATAT
96726368 TCATGCTCAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 44 0.94
30 2 0.04
31 1 0.02
ACGTcount: A:0.31, C:0.33, G:0.12, T:0.25
Consensus pattern (29 bp):
CCCATCAGGCCCAAATCACATGCATATAG
Found at i:96726458 original size:18 final size:19
Alignment explanation
Indices: 96726435--96726471 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
96726425 TGGGCCCAAC
*
96726435 AGCCCA-TCGGGCCCATTT
1 AGCCCATTCCGGCCCATTT
96726453 AGCCCATTCCGGCCCATTT
1 AGCCCATTCCGGCCCATTT
96726472 GGCCAATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.41, G:0.19, T:0.24
Consensus pattern (19 bp):
AGCCCATTCCGGCCCATTT
Found at i:96726480 original size:19 final size:19
Alignment explanation
Indices: 96726444--96726480 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
96726434 CAGCCCATCG
*
96726444 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
96726463 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
96726481 GCAACCCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:96726613 original size:16 final size:16
Alignment explanation
Indices: 96726573--96726615 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
96726563 ATAGCCCAAC
96726573 TTTTGGCTTTTAGGCA
1 TTTTGGCTTTTAGGCA
*
96726589 TTTCGGCTTTTAGGCA
1 TTTTGGCTTTTAGGCA
*
96726605 TTTTAGCTTTT
1 TTTTGGCTTTT
96726616 CAGCTTTTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.14, G:0.21, T:0.53
Consensus pattern (16 bp):
TTTTGGCTTTTAGGCA
Found at i:96734629 original size:22 final size:21
Alignment explanation
Indices: 96734586--96734629 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
96734576 CAAAACTAGC
* *
96734586 CTACTATTCCTTTCTTCCCAT
1 CTACTACTCCTTTCTTACCAT
*
96734607 CTACTACTCTCTTTCTTATCAT
1 CTACTACTC-CTTTCTTACCAT
96734629 C
1 C
96734630 ACTTTTGCCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (21 bp):
CTACTACTCCTTTCTTACCAT
Found at i:96735819 original size:25 final size:25
Alignment explanation
Indices: 96735785--96735854 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
96735775 AGGAAGTGCT
96735785 AAAAGGGCTTTGCCCTAGTTCACCG
1 AAAAGGGCTTTGCCCTAGTTCACCG
*
96735810 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTCACCG
* *
96735835 AAAAAGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
96735855 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTCACCG
Found at i:96741040 original size:22 final size:22
Alignment explanation
Indices: 96740998--96741041 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
96740988 AATTATTTAC
* *
96740998 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
96741020 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
96741042 ACGCATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:96741342 original size:40 final size:40
Alignment explanation
Indices: 96741268--96741489 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
96741258 AACCCAAGTA
* *
96741268 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
96741307 CCTTCGGGTCTTAGCCCAGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
96741347 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
96741387 CCTTCAGGACTTAGCCTGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
96741427 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
96741467 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
96741490 CATTCGAATA
Statistics
Matches: 165, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 12 0.07
40 150 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:96746752 original size:40 final size:39
Alignment explanation
Indices: 96746587--96746770 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
96746577 AAATTGAATG
* * *
96746587 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
96746627 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
96746667 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
96746707 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
96746746 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
96746771 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:96746795 original size:80 final size:81
Alignment explanation
Indices: 96746627--96746815 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
96746617 GCTGGAAATT
* * * *
96746627 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
96746692 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
96746708 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
96746771 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
96746787 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
96746816 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:96752747 original size:22 final size:22
Alignment explanation
Indices: 96752705--96752748 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
96752695 AATTATTTAC
* *
96752705 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
96752727 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
96752749 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:96753047 original size:40 final size:40
Alignment explanation
Indices: 96752973--96753193 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
96752963 AACCCAAGTA
* *
96752973 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
96753012 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
96753052 CC-TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
96753091 CCTTCAGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
96753131 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
96753171 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
96753194 CATTCGAATA
Statistics
Matches: 167, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 48 0.29
40 116 0.69
41 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:96753106 original size:79 final size:80
Alignment explanation
Indices: 96752973--96753193 Score: 358
Period size: 79 Copynumber: 2.8 Consensus size: 80
96752963 AACCCAAGTA
* * *
96752973 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
96753036 GTCAATAGCACAAAAG
65 GTCAATAGCACAAAAG
*
96753052 CC-TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
96753116 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
*
96753131 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
96753194 CATTCGAATA
Statistics
Matches: 132, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
78 10 0.08
79 63 0.48
80 59 0.45
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:96758455 original size:30 final size:30
Alignment explanation
Indices: 96758419--96758549 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
96758409 GACAAGATTG
* * * * *
96758419 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
96758449 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
96758477 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
96758507 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
96758536 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
96758550 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:96758510 original size:58 final size:58
Alignment explanation
Indices: 96758419--96758549 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
96758409 GACAAGATTG
* * * * * *
96758419 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
96758477 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
96758536 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
96758550 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:96766409 original size:30 final size:30
Alignment explanation
Indices: 96766373--96766503 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
96766363 GACAAGATTG
* * * * *
96766373 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
96766403 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
96766431 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
96766461 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
96766490 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
96766504 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:96766464 original size:58 final size:58
Alignment explanation
Indices: 96766373--96766503 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
96766363 GACAAGATTG
* * * * * *
96766373 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
96766431 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
96766490 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
96766504 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:96768542 original size:40 final size:39
Alignment explanation
Indices: 96768416--96768581 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
96768406 CGGAATATAA
96768416 CCGGATATAA-CACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* ** *
96768455 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCAC-AATGCCTTCGGGTCTTAGC
* *
96768495 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * *
96768535 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAA-TGCCTTCGGGTCTTAGC
96768574 CCGGATAT
1 CCGGATAT
96768582 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 25 0.23
40 82 0.77
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:96768565 original size:80 final size:79
Alignment explanation
Indices: 96768431--96768581 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
96768421 TATAACACGT
*
96768431 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
96768496 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
96768511 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
96768574 CCGGATAT
64 CCGGATAT
96768582 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:96776409 original size:40 final size:40
Alignment explanation
Indices: 96776364--96776529 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
96776354 CGGAATATAA
96776364 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
96776404 CCGGATAGAA-GACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
96776443 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
96776483 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
96776522 CCGGATAT
1 CCGGATAT
96776530 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
38 1 0.01
39 45 0.43
40 58 0.56
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:96776428 original size:39 final size:39
Alignment explanation
Indices: 96776380--96776489 Score: 143
Period size: 39 Copynumber: 2.8 Consensus size: 39
96776370 ATAACCACGT
*
96776380 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAAG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
*
96776419 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTA
*
96776459 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
96776490 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
38 3 0.05
39 31 0.49
40 29 0.46
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Found at i:96780764 original size:30 final size:31
Alignment explanation
Indices: 96780728--96780790 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
96780718 CCTTTTCATA
96780728 TTTCATATTTCATA-TACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
96780758 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
96780789 TT
1 TT
96780791 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 14 0.44
31 18 0.56
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:96781027 original size:24 final size:24
Alignment explanation
Indices: 96780981--96781097 Score: 136
Period size: 24 Copynumber: 5.0 Consensus size: 24
96780971 GCTTTATCAT
*
96780981 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
96781006 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
96781030 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
96781053 ATAACT-GGG-ATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
96781075 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
96781098 TCACTTCCTC
Statistics
Matches: 81, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
21 11 0.14
22 9 0.11
23 11 0.14
24 37 0.46
25 13 0.16
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:96781171 original size:20 final size:20
Alignment explanation
Indices: 96781146--96781205 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
96781136 TATGATTACC
96781146 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
96781166 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
96781186 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
96781206 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:96781280 original size:25 final size:25
Alignment explanation
Indices: 96781248--96781295 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
96781238 ATACATAAAC
* * *
96781248 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
96781273 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
96781296 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:96785456 original size:37 final size:37
Alignment explanation
Indices: 96785403--96785505 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
96785393 CGAATAGTCC
*
96785403 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
96785440 CCACACGTAGTCATCGGGTTTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
96785477 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
96785506 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:96785704 original size:48 final size:48
Alignment explanation
Indices: 96785654--96786607 Score: 1716
Period size: 48 Copynumber: 19.9 Consensus size: 48
96785644 ACATCTCCTA
*
96785654 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
96785702 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
96785750 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
*
96785799 -ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTTATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
96785846 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
96785894 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
96785943 -ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
96785990 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
96786038 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
96786086 CATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
96786134 CATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
96786182 CATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
96786230 CATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
96786278 CATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
96786326 CATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
96786374 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
*
96786423 -ATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
* *
96786470 CATATTTCACACTAGCCATTCGGTTTTACCACATATACATATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
* * *
96786518 CATATTTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
96786566 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
96786608 ATATTTATCT
Statistics
Matches: 885, Mismatches: 15, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
47 3 0.00
48 879 0.99
49 3 0.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (48 bp):
CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
Found at i:96787751 original size:2 final size:2
Alignment explanation
Indices: 96787744--96787777 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
96787734 TTAAAGTGCC
96787744 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96787778 CTACATAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96790005 original size:40 final size:40
Alignment explanation
Indices: 96789959--96790037 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
96789949 GAATGCACAT
96789959 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
96789999 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
96790038 TAACTCTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:96791369 original size:37 final size:37
Alignment explanation
Indices: 96791316--96791418 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
96791306 CGAATAGTCC
*
96791316 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
96791353 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
96791390 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
96791419 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:96791617 original size:48 final size:48
Alignment explanation
Indices: 96791559--96792184 Score: 1099
Period size: 48 Copynumber: 13.0 Consensus size: 48
96791549 ATATACACAC
* *
96791559 ATCTCCTACATATTTGACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
96791607 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
96791655 ATCTCATTCATATTTCGCACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
96791703 ATCTCATTCATATTTCGCACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
96791751 ATCTCATTCATATTTCGCACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
96791799 ATCTCATATATATTTCGCACTAGCCATTCGGCTTTACTACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
96791847 ATCTCATATATATTTCGCACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
96791895 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
96791943 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
96791991 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
96792039 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
96792087 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
96792135 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
96792183 AT
1 AT
96792185 ATATTTATCT
Statistics
Matches: 562, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 562 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:96801008 original size:2 final size:2
Alignment explanation
Indices: 96801001--96801029 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
96800991 ACATAAATGC
96801001 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96801030 AGCTTACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96803093 original size:36 final size:36
Alignment explanation
Indices: 96803046--96803117 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
96803036 AGTGTCCGAG
*
96803046 TAAAGCACAAATAAGCGTGGAGAGAAAGAAAATTTA
1 TAAAGCACAAATAAGCATGGAGAGAAAGAAAATTTA
*
96803082 TAAAGTACAAATAAGCATGGAGAGAAAGAAAATTTA
1 TAAAGCACAAATAAGCATGGAGAGAAAGAAAATTTA
96803118 GGGTAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.54, C:0.07, G:0.21, T:0.18
Consensus pattern (36 bp):
TAAAGCACAAATAAGCATGGAGAGAAAGAAAATTTA
Found at i:96808664 original size:43 final size:40
Alignment explanation
Indices: 96808511--96808669 Score: 133
Period size: 43 Copynumber: 3.8 Consensus size: 40
96808501 CATATCGTAT
* *
96808511 AATGCCAACGTTCCAGACGTGGTCTTACATGCAATCACATATC
1 AATG-CAACGTCCCAGACGTGGTCTTACACG-AATCACATA-C
* * *
96808554 GATGCCACTGTCCCAG--GTTGGGTCTTACACGAATCAAATAC
1 AATGCAAC-GTCCCAGACG-T-GGTCTTACACGAATCACATAC
* * *
96808595 GATGCAGATGTCCCAGACATGGTCTTACACGTAATCACATACC
1 AATGCA-ACGTCCCAGACGTGGTCTTACACG-AATCACATA-C
*
96808638 AATGCTAACGTCCCAGACGTGATCTTACACGA
1 AATGC-AACGTCCCAGACGTGGTCTTACACGA
96808670 GAAAACATAT
Statistics
Matches: 94, Mismatches: 13, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
41 25 0.27
42 23 0.24
43 45 0.48
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
AATGCAACGTCCCAGACGTGGTCTTACACGAATCACATAC
Found at i:96812770 original size:29 final size:29
Alignment explanation
Indices: 96812721--96812811 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
96812711 ACATGGCTTG
**
96812721 GAAT-TGATTTGGGCCGGATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
*
96812749 GAATGTGATTTGGACCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
* *
96812778 GAATGAGA-TTGGGCCTAGTGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
*
96812806 GCATGT
1 GAATGT
96812812 ATGTAGACTT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
28 26 0.48
29 28 0.52
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAT
Found at i:96812799 original size:28 final size:29
Alignment explanation
Indices: 96812738--96812806 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
96812728 TTTGGGCCGG
*
96812738 ATGGGCCATATGAATGTGATTTGGACCTA
1 ATGGGCCATATGAATGAGATTTGGACCTA
*
96812767 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGACCTA
*
96812795 GTGGGCCATATG
1 ATGGGCCATATG
96812807 CATGTATGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGACCTA
Found at i:96823236 original size:30 final size:30
Alignment explanation
Indices: 96823202--96823258 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
96823192 CTTTAATACG
* *
96823202 AACTTTGGTAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
96823232 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGCAAAATTACACTTTTGCCC
96823259 TTAGGCTCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:96824351 original size:2 final size:2
Alignment explanation
Indices: 96824344--96824376 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
96824334 GCATAATAAC
96824344 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96824377 ATGAATCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96832132 original size:15 final size:15
Alignment explanation
Indices: 96832102--96832131 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96832092 GTTGTCTGCC
96832102 TCTTTTTTTTCTTTT
1 TCTTTTTTTTCTTTT
96832117 TCTTTTTTTT-TTTT
1 TCTTTTTTTTCTTTT
96832131 T
1 T
96832132 TTGGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TCTTTTTTTTCTTTT
Found at i:96841178 original size:93 final size:93
Alignment explanation
Indices: 96841066--96841237 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
96841056 GCCCATAAGT
* *
96841066 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
96841131 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
96841159 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
96841224 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
96841238 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:96841233 original size:46 final size:46
Alignment explanation
Indices: 96841058--96841233 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
96841048 TGTAACCCGC
* *
96841058 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
96841104 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
96841150 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
96841197 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
96841234 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:96843612 original size:14 final size:15
Alignment explanation
Indices: 96843593--96843632 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
96843583 CAAAGATAAT
*
96843593 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
96843607 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
96843622 GAGAAATCCAA
1 AAGAAATCCAA
96843633 TATACGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.62, C:0.15, G:0.12, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:96849347 original size:48 final size:44
Alignment explanation
Indices: 96849243--96849364 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 44
96849233 GGATTATTAT
*
96849243 GAGCTAGTGTAAGACATGTCTGGGACATGGATCGGCCACATTAAGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGATCGG-C-CATTAAAA
*
96849289 GAGCCAGTGTAAGACCATGTCTGGGACATGGGATCGG-CATTGAGACAA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GGATCGGCCATT-A-A-AA
* *
96849337 GTGCTAGTGTAAAACATGTCTGGGACAT
1 GAGCTAGTGTAAGACATGTCTGGGACAT
96849365 ACTTCGTCCT
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
45 4 0.06
46 14 0.21
47 29 0.44
48 19 0.29
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGATCGGCCATTAAAA
Found at i:96864731 original size:2 final size:2
Alignment explanation
Indices: 96864724--96864754 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
96864714 ACTCAGCATA
96864724 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96864755 GATTTAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96869066 original size:19 final size:19
Alignment explanation
Indices: 96869042--96869096 Score: 110
Period size: 19 Copynumber: 2.9 Consensus size: 19
96869032 ACAAATCTTT
96869042 GCATTTTGAATTAATAATC
1 GCATTTTGAATTAATAATC
96869061 GCATTTTGAATTAATAATC
1 GCATTTTGAATTAATAATC
96869080 GCATTTTGAATTAATAA
1 GCATTTTGAATTAATAA
96869097 ATTCTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (19 bp):
GCATTTTGAATTAATAATC
Found at i:96869655 original size:15 final size:15
Alignment explanation
Indices: 96869637--96869670 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
96869627 ATTTTTAAAT
96869637 TTAAATAATATTTTA
1 TTAAATAATATTTTA
*
96869652 TT-AATTATATTTTA
1 TTAAATAATATTTTA
96869666 TTAAA
1 TTAAA
96869671 AAAGATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAAATAATATTTTA
Found at i:96871841 original size:29 final size:29
Alignment explanation
Indices: 96871807--96871884 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
96871797 GTGACGAGAT
* *
96871807 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
96871836 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
96871865 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
96871885 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:96879681 original size:29 final size:29
Alignment explanation
Indices: 96879648--96879723 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
96879638 GTGACGAGAT
* *
96879648 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAAAATA
*
96879677 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAAAATA
*
96879706 CGGCACT--GTGTGCGAGCT
1 TGGCACTAAGTGTGCGAGCT
96879724 CGAGGGTATG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 10 0.24
29 32 0.76
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:96887413 original size:40 final size:39
Alignment explanation
Indices: 96887368--96887575 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 39
96887358 CGGATTACAA
*
96887368 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
96887408 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
96887448 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
96887488 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
96887528 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
96887568 CCGGATAT
1 CCGGATAT
96887576 CATTCAATTG
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 144 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:96887508 original size:80 final size:80
Alignment explanation
Indices: 96887368--96887575 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 80
96887358 CGGATTACAA
* * *
96887368 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
96887433 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
96887448 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
96887512 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
96887528 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
96887576 CATTCAATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 109 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:96894511 original size:29 final size:28
Alignment explanation
Indices: 96894479--96894581 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
96894469 GTGACGAGAT
* *
96894479 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
96894508 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
96894537 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
96894566 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
96894582 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:96899209 original size:79 final size:78
Alignment explanation
Indices: 96899093--96899709 Score: 686
Period size: 79 Copynumber: 7.9 Consensus size: 78
96899083 AGTACCAGTG
* * ** * * * * *
96899093 CGAAGCCTGTGGACCTTAACTCCAAATATAGTACCAGCACGAAGCCTACGGATCTTAAGTCCGAA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGATCTTAAGTCCGGA
96899158 TACAATTCCAGCA
66 TACAATTCCAGCA
* * * * * *
96899171 CGAAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCACGAAGCCTGTGGGTCTTTAAG-CCT
1 CGAAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGATC-TTAAGTCC-
96899235 GGATACAATTCCAGCA
63 GGATACAATTCCAGCA
* ** *** *
96899251 CGAAGCCTGCAGACCTTAAGTTTGGATACAATTCCAGCATTTAGCCTGCAGG-TCTTTAAGCCCG
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGC-GGATC-TTAAGTCCG
*
96899315 GATACAATTCTAGCA
64 GATACAATTCCAGCA
* * *
96899330 CGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCTTGCGGA-CTTAAGTCTGGA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGATCTTAAGTCCGGA
96899394 TACAATTCCAGCA
66 TACAATTCCAGCA
* * * * *
96899407 CGAAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGG
1 CGAAGCCTG-CGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGATCTTAAGTCCGG
96899472 ATACAATTCCAGCA
65 ATACAATTCCAGCA
* ** * * * * *
96899486 CAAAGCCTGCGGGTCTTGAAGCCCGGATAAAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCC
1 CGAAGCCTGCGGACCTT-AAGTCCGGATACAATTCCAGCACGA-AGCCTGCGGATC-TTAAGTCC
*
96899550 AGATACAATTCCAGCA
63 GGATACAATTCCAGCA
* * *
96899566 CGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCTTGCGGACCTTAAGTCCGGA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGATCTTAAGTCCGGA
*
96899631 TACAATTCCAGCC
66 TACAATTCCAGCA
* * * *
96899644 CGAAGCTTGCAGACCTTAAGTCCGGATACAATTCCAGCATGAAGCC-GCGGACCTTAAGTCCGGA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGATCTTAAGTCCGGA
96899708 TA
66 TA
96899710 TACATCAAAT
Statistics
Matches: 457, Mismatches: 70, Indels: 25
0.83 0.13 0.05
Matches are distributed among these distances:
77 49 0.11
78 119 0.26
79 219 0.48
80 70 0.15
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (78 bp):
CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGATCTTAAGTCCGGA
TACAATTCCAGCA
Found at i:96899522 original size:236 final size:236
Alignment explanation
Indices: 96899126--96899709 Score: 845
Period size: 236 Copynumber: 2.5 Consensus size: 236
96899116 AAATATAGTA
* * * * *
96899126 CCAGCACGAAGCCTACGGATCTTAAGTCCGAATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGTGGGTCTTTAA
* * * * *
96899191 GCCCAGATACAATTCCAGCACGAAGCCTGTGGGTCTTTAAG-CCTGGATACAATTCCAGCACGAA
66 GCCCGGATACAATTCCAGCACGAAGCCTG-CGGACCTTAAGTCC-GGATACAATTCCAGCACAAA
*** * * *
96899255 GCCTGCAGACCTTAAGTTTGGATACAATTCCAGCATTTAGCCTGCAGGTCTTTAAGCCCGGATAC
129 GCCTGCAGACCTTAAGCCCGGATAAAATTCCAGCATATAGCCTGCAGGTCTTTAAGCCCAGATAC
*
96899320 AATTCTAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATT
194 AATTCCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATT
*
96899363 CCAGCACGAAGCTTGCGGA-CTTAAGTCTGGATACAATTCCAGCACGAAGCCTGTGGGTCTTTAA
1 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGTGGGTCTTTAA
96899427 GCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGC
66 GCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGC
* ** *
96899492 CTGCGGGTCTTGAAGCCCGGATAAAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCAGATACA
131 CTGCAGACCTT-AAGCCCGGATAAAATTCCAGCATATAGCCTGCAGGTCTTTAAGCCCAGATACA
96899557 ATTCCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATT
195 ATTCCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATT
* * * *
96899599 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCCCGAAG-CT-TGCAGACCTTA
1 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGTG-GGTCTTTA
* *
96899662 AGTCCGGATACAATTCCAGCATGAAGCC-GCGGACCTTAAGTCCGGATA
65 AGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
96899710 TACATCAAAT
Statistics
Matches: 315, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
235 59 0.19
236 211 0.67
237 45 0.14
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (236 bp):
CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGTGGGTCTTTAA
GCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGC
CTGCAGACCTTAAGCCCGGATAAAATTCCAGCATATAGCCTGCAGGTCTTTAAGCCCAGATACAA
TTCCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATT
Found at i:96899650 original size:39 final size:39
Alignment explanation
Indices: 96899093--96899709 Score: 684
Period size: 39 Copynumber: 15.7 Consensus size: 39
96899083 AGTACCAGTG
* * ** * * *
96899093 CGAAGCCTGTGGACCTTAACTCCAAATATAGTACCAGCA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
* * *
96899132 CGAAGCCTACGGATCTTAAGTCCGAATACAATTCCAGCA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
* * * *
96899171 CGAAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCA
1 CGAAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCA
* * *
96899211 CGAAGCCTGTGGGTCTTTAAG-CCTGGATACAATTCCAGCA
1 CGAAGCCTG-CGGACCTTAAGTCC-GGATACAATTCCAGCA
* **
96899251 CGAAGCCTGCAGACCTTAAGTTTGGATACAATTCCAGCA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
*** * * * *
96899290 TTTAGCCTGCAGGTCTTTAAGCCCGGATACAATTCTAGCA
1 CGAAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCA
*
96899330 CGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
* *
96899369 CGAAGCTTGCGGA-CTTAAGTCTGGATACAATTCCAGCA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
* * * *
96899407 CGAAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAGCA
1 CGAAGCCTG-CGGACCTTAAGTCCGGATACAATTCCAGCA
96899447 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
* ** * *
96899486 CAAAGCCTGCGGGTCTTGAAGCCCGGATAAAATTCCAGCA
1 CGAAGCCTGCGGACCTT-AAGTCCGGATACAATTCCAGCA
* * * * *
96899526 -TATAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCA
1 CGA-AGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCA
*
96899566 CGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
* *
96899605 CGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCC
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
* *
96899644 CGAAGCTTGCAGACCTTAAGTCCGGATACAATTCCAGCA
1 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
*
96899683 TGAAGCC-GCGGACCTTAAGTCCGGATA
1 CGAAGCCTGCGGACCTTAAGTCCGGATA
96899710 TACATCAAAT
Statistics
Matches: 492, Mismatches: 75, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
38 51 0.10
39 258 0.52
40 178 0.36
41 5 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (39 bp):
CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
Found at i:96913687 original size:38 final size:38
Alignment explanation
Indices: 96913626--96913726 Score: 139
Period size: 38 Copynumber: 2.6 Consensus size: 38
96913616 ATTTGATGTG
*
96913626 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
96913666 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* *
96913704 TATCCGGGATAAATCCTGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
96913727 CTAGCGCTGG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 43 0.77
39 5 0.09
40 8 0.14
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:96913736 original size:38 final size:38
Alignment explanation
Indices: 96913642--96913749 Score: 117
Period size: 38 Copynumber: 2.8 Consensus size: 38
96913632 GGCTTAAAGA
* * * ** *
96913642 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCCTAGCGCTGGTATTATATCCGGGATAAAT
* * *
96913680 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCCTAGCGCTGGTATTATATCCGGGATAAAT
* *
96913718 CCTGCAGGCCTAGCGCTGGTATTATATTCGGG
1 CCCGCAGGCCTAGCGCTGGTATTATATCCGGG
96913750 CCTTCGTGCC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCCTAGCGCTGGTATTATATCCGGGATAAAT
Found at i:96916465 original size:48 final size:48
Alignment explanation
Indices: 96916282--96916491 Score: 203
Period size: 48 Copynumber: 4.4 Consensus size: 48
96916272 ATATTAGGGT
* * * *
96916282 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGG-ATTGA
1 TATGAGAGCCAATGTAAGACCATGTCTGGAACATGGCA-TCGGCATTGA
* * ** * **
96916330 TATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCAACCTCAA
1 TATGAGAGCCAATGTAAGACCATGTCTGGAACATGGCATCGGCATTGA
*
96916378 TATGTGAGCCAATGTAAGACCATGTTCT-GAACATGGCATCGGCATTGA
1 TATGAGAGCCAATGTAAGACCATG-TCTGGAACATGGCATCGGCATTGA
* * * *
96916426 TATGAGAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGC-TTCGA
1 TATGAGAGCCAATGTAAGACCATGTCTGGAACATGGCATCGGCATT-GA
*
96916474 TATGTA-AGCCAGTGTAAG
1 TATG-AGAGCCAATGTAAG
96916492 TGTGACAGCC
Statistics
Matches: 131, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
47 6 0.05
48 121 0.92
49 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (48 bp):
TATGAGAGCCAATGTAAGACCATGTCTGGAACATGGCATCGGCATTGA
Found at i:96916477 original size:96 final size:96
Alignment explanation
Indices: 96916282--96916491 Score: 307
Period size: 96 Copynumber: 2.2 Consensus size: 96
96916272 ATATTAGGGT
*
96916282 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGGATTGATATGAGAGCTAATGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGGATTGATATGAGAGCTAATATAA
96916347 GACCATGTCTGGGACATGGCATCAACCTCAA
66 GACCATGTCTGGGACATGGCATCAACCTCAA
* * *
96916378 TATGTGAGCCAATGTAAGACCATGTTCT-GAACATGGCA-TCGGCATTGATATGAGAGCTAGTAT
1 TATGTGAGCCAGTGTAAGACCATGTT-TGGAACATGGCATTAGG-ATTGATATGAGAGCTAATAT
** * *
96916441 AAGACCATGTCTGGGACATGGCATCGGCTTCGA
64 AAGACCATGTCTGGGACATGGCATCAACCTCAA
*
96916474 TATGTAAGCCAGTGTAAG
1 TATGTGAGCCAGTGTAAG
96916492 TGTGACAGCC
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
95 3 0.03
96 98 0.96
97 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTAGGATTGATATGAGAGCTAATATAA
GACCATGTCTGGGACATGGCATCAACCTCAA
Found at i:96924804 original size:40 final size:40
Alignment explanation
Indices: 96924759--96924888 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
96924749 CGGAATACAA
96924759 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
96924799 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
96924839 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
96924879 CCGGATATAA
1 CCGGATATAA
96924889 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:96926889 original size:40 final size:40
Alignment explanation
Indices: 96926781--96926890 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
96926771 ACTGAATGAT
* * * * *
96926781 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
96926821 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
96926861 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
96926891 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:96926905 original size:40 final size:39
Alignment explanation
Indices: 96926781--96926930 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
96926771 ACTGAATGAT
* * * * * * *
96926781 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
96926821 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
96926861 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
96926901 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
96926931 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:96928425 original size:48 final size:48
Alignment explanation
Indices: 96928354--96928529 Score: 230
Period size: 48 Copynumber: 3.7 Consensus size: 48
96928344 GGGTGTTACA
*
96928354 GTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGTTAGT
1 GTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAGT
* ** * * * * *
96928402 GTAAGACCATGTCTGGGGCATGGCATTGGCCTCGATATGTGAGCCAGT
1 GTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAGT
*
96928450 GTAAGACCTTGTTTGGAACATGGCATCGATGC-TT-ATATGAGAGCTAGT
1 GTAAGACCATGTTTGGAACATGGCATCG--GCATTGATATGAGAGCTAGT
96928498 GTAAGACCATGTTTGGAACATGGCATCGGCAT
1 GTAAGACCATGTTTGGAACATGGCATCGGCAT
96928530 CTTACCCTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
48 101 0.94
49 1 0.01
50 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (48 bp):
GTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAGT
Found at i:96931050 original size:12 final size:13
Alignment explanation
Indices: 96931023--96931055 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
96931013 TACAAGTTTA
96931023 AAAAAAAATTCCCG
1 AAAAAAAATT-CCG
96931037 AAAAAAAATT-CG
1 AAAAAAAATTCCG
96931049 AAAAAAA
1 AAAAAAA
96931056 GTGATTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
14 10 0.53
ACGTcount: A:0.70, C:0.12, G:0.06, T:0.12
Consensus pattern (13 bp):
AAAAAAAATTCCG
Found at i:96939058 original size:93 final size:93
Alignment explanation
Indices: 96938945--96939116 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
96938935 CGCCCATAAG
* * * *
96938945 CGAACTCGGACTCAAGTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
96939010 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
96939038 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96939103 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
96939117 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:96939113 original size:46 final size:46
Alignment explanation
Indices: 96938938--96939113 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
96938928 TGTAACCCGC
* * * *
96938938 CCATAAGCGAACTCGGACTCAAGTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
96938984 CCATAAGTGAACTCGGGCTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
96939034 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
96939077 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
96939114 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 2 0.02
45 2 0.02
46 60 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:96946602 original size:93 final size:92
Alignment explanation
Indices: 96946490--96946660 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
96946480 CGCCCATAAG
* * *
96946490 CGAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGGCTCAACTCAA
1 CGAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
96946555 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
96946582 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
96946647 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
96946661 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 7 0.09
93 67 0.91
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:96946657 original size:46 final size:46
Alignment explanation
Indices: 96946483--96946657 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
96946473 TGTAACCCGC
* * *
96946483 CCATAAGCGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
96946528 CCATAAGTGAACTCGGGCTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
96946578 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
96946621 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
96946658 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 15 0.14
46 48 0.44
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:96946676 original size:46 final size:46
Alignment explanation
Indices: 96946531--96946669 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
96946521 TTCGCATCCA
*
96946531 TAAGTGAACTCGGGCTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
96946579 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
96946624 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
96946670 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:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:96957930 original size:40 final size:41
Alignment explanation
Indices: 96957872--96958029 Score: 184
Period size: 40 Copynumber: 4.0 Consensus size: 41
96957862 TCGAATGATG
* * * *
96957872 TCCGGGCTAAG-TCTCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGATC-CGAAGGCATTTGTGCTGAGTTACTAAA
*
96957912 TCCGGACTAAGATCCGAAGGCATTCGTGC-GAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCTGAGTTACTAAA
96957952 TCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCTGAGTTACTAAA
** *
96957992 TCCGGGTTAAG-TCCCGAAGGCATCTGTGC-GAGTTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCTGAGTTACTA
96958030 TAACCAGGCT
Statistics
Matches: 104, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
39 1 0.01
40 95 0.91
41 8 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCTGAGTTACTAAA
Found at i:96958049 original size:80 final size:80
Alignment explanation
Indices: 96957876--96958057 Score: 205
Period size: 80 Copynumber: 2.3 Consensus size: 80
96957866 ATGATGTCCG
* *
96957876 GGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTCGTG
96957940 CGAGTTACTAAATCC
66 CGAGTTACTAAATCC
* * **
96957955 GGACTAAGAT-CCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-TC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTC
96958016 TGTGCGAGTTACTATAA-CC
63 -GTGCGAGTTACTA-AATCC
*
96958035 AGGCTATGTCCCGAAGGCATTTG
1 -GGCTAAGTCCCGAAGGCATTTG
96958058 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
79 6 0.07
80 71 0.81
81 11 0.12
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTCGTG
CGAGTTACTAAATCC
Found at i:96958064 original size:40 final size:40
Alignment explanation
Indices: 96957876--96958057 Score: 178
Period size: 40 Copynumber: 4.5 Consensus size: 40
96957866 ATGATGTCCG
* * * *
96957876 GGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCA
*
96957915 GGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAATCC-
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
* *
96957955 GGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAATCCG
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
* *
96957996 GGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA-CCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCA
*
96958036 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
96958058 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 3 0.02
40 109 0.89
41 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
Found at i:96958075 original size:80 final size:80
Alignment explanation
Indices: 96957906--96958090 Score: 188
Period size: 80 Copynumber: 2.3 Consensus size: 80
96957896 GTGCTAAGTG
**
96957906 ACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
1 ACTATATCCGGGTTAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
***
96957971 GCATTTGTGTGAGTT
66 GCATTTGAACGAGTT
* *
96957986 ACTAAATCCGGGTTAAG-TCCCGAAGGCA-TCTGTGCGAGTTACTATAA-CCAGG-CTATG-TCC
1 ACTATATCCGGGTTAAGAT-CCGAAGGCATTC-GTGCGAGTTACTA-AATCC-GGACTAAGAT-C
96958046 CGAAGGCATTTGAACGAG-T
61 CGAAGGCATTTGAACGAGTT
96958065 AGCTATATCC-GGTTAA-ACTCCGAAGG
1 A-CTATATCCGGGTTAAGA-TCCGAAGG
96958091 TACGTGATTC
Statistics
Matches: 89, Mismatches: 8, Indels: 17
0.78 0.07 0.15
Matches are distributed among these distances:
79 19 0.21
80 66 0.74
81 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (80 bp):
ACTATATCCGGGTTAAGATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
GCATTTGAACGAGTT
Found at i:96963773 original size:47 final size:47
Alignment explanation
Indices: 96963719--96963824 Score: 158
Period size: 47 Copynumber: 2.2 Consensus size: 47
96963709 CTACATGGAT
* * *
96963719 CACATATCACACTGATGTCATATCCCAGATATGATCTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGATCTTATACAGAAG
* *
96963766 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATATCCCAGATATGATCTTATACAGAAG
96963813 CACATAATCACA
1 CACAT-ATCACA
96963825 TCTCTCCGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 47 0.89
48 6 0.11
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.25
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCAGATATGATCTTATACAGAAG
Found at i:96963776 original size:54 final size:53
Alignment explanation
Indices: 96963717--96963932 Score: 162
Period size: 54 Copynumber: 4.1 Consensus size: 53
96963707 TCCTACATGG
* * * *
96963717 ATCACATATCACACTGATGTCATATCCCAGATATGATCTTATACAGTAGCACAT-
1 ATCACATATCAC-C-GATGCCATAGCCCAGATATGGTCTTATACAGAAGCACATA
* *
96963771 AT--C--A-CACCGATGCCATATCCCAGATATGGTCTTATACGGAAGCACATA
1 ATCACATATCACCGATGCCATAGCCCAGATATGGTCTTATACAGAAGCACATA
* * * * *
96963819 ATCACATCTCTCCGATGCCATAGCCCA-ACTATGGTCTTATACGGAAATCACATG
1 ATCACATATCACCGATGCCATAGCCCAGA-TATGGTCTTATACAG-AAGCACATA
** * * * *
96963873 ATCACATCA-CATGGATGTCATAGCCCAGCTATGGTCTTATACGAAAATCACAT-
1 ATCACAT-ATCACCGATGCCATAGCCCAGATATGGTCTTATAC-AGAAGCACATA
96963926 ATCACAT
1 ATCACAT
96963933 GTTGCCATGG
Statistics
Matches: 134, Mismatches: 17, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
47 35 0.26
48 3 0.02
49 3 0.02
50 2 0.01
52 2 0.01
53 38 0.28
54 51 0.38
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (53 bp):
ATCACATATCACCGATGCCATAGCCCAGATATGGTCTTATACAGAAGCACATA
Found at i:96963852 original size:53 final size:53
Alignment explanation
Indices: 96963771--96963932 Score: 188
Period size: 54 Copynumber: 3.0 Consensus size: 53
96963761 AGTAGCACAT
* *
96963771 ATCACA-CCGATGCCATATCCCAGA-TATGGTCTTATACGGAAGCACATAATCAC
1 ATCACATCCGATGCCATAGCCCA-ACTATGGTCTTATACGGAATCACAT-ATCAC
*
96963824 ATCTC-TCCGATGCCATAGCCCAACTATGGTCTTATACGGAAATCACATGATCAC
1 ATCACATCCGATGCCATAGCCCAACTATGGTCTTATACGG-AATCACAT-ATCAC
* * * *
96963878 ATCACAT-GGATGTCATAGCCCAGCTATGGTCTTATACGAAAATCACATATCAC
1 ATCACATCCGATGCCATAGCCCAACTATGGTCTTATACG-GAATCACATATCAC
96963931 AT
1 AT
96963933 GTTGCCATGG
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
52 1 0.01
53 41 0.43
54 52 0.55
55 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (53 bp):
ATCACATCCGATGCCATAGCCCAACTATGGTCTTATACGGAATCACATATCAC
Found at i:96968552 original size:21 final size:21
Alignment explanation
Indices: 96968526--96968570 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
96968516 GTTTATCATG
96968526 CATCAAACATTCATATTCCTC
1 CATCAAACATTCATATTCCTC
*
96968547 CATCAAACATTCATATTTCTC
1 CATCAAACATTCATATTCCTC
96968568 CAT
1 CAT
96968571 TAATAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (21 bp):
CATCAAACATTCATATTCCTC
Found at i:96970973 original size:27 final size:27
Alignment explanation
Indices: 96970883--96970961 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
96970873 CCAAATATTG
*
96970883 GTAAAATTACCGA-AATACCCTTGTAGT
1 GTAAAATGACC-ATAATACCCTTGTAGT
* *
96970910 GTAAAATAACCGTAATACCCTTGTAGT
1 GTAAAATGACCATAATACCCTTGTAGT
*
96970937 GTAAAATGACCATAATACCCCTGTA
1 GTAAAATGACCATAATACCCTTGTA
96970962 TGGTAGAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (27 bp):
GTAAAATGACCATAATACCCTTGTAGT
Found at i:96971340 original size:127 final size:127
Alignment explanation
Indices: 96971106--96971358 Score: 344
Period size: 127 Copynumber: 2.0 Consensus size: 127
96971096 TAGACGGAGG
**
96971106 AAGTGTACGGCATGTAGCCATCCTGTATAAGGCCTTCAGCCTTTCTGTGATACTTAGGGCTAATA
1 AAGTGTACGGCATGTAGCCATCCTGTATAAGGCCTTCAGCCTTTCTGCAATACTTAGGGCTAATA
*
96971171 GTCATTCTATTAACTGGCAGCGTGGCTAAGATACTTACGGCCTTTAGCCGTCCTGTCTATGA
66 GTCATTCTATTAACTGGCAGCGTGGCTAAGATACTTACGGCCTTTAGCCGTACTGTCTATGA
* * * * * * * * *
96971233 AAGTGTATGGCCTGTAGCCGTCTTGTTTAAGGCTTTCAGCCTTTCTGCAATATTTATGGCTTATA
1 AAGTGTACGGCATGTAGCCATCCTGTATAAGGCCTTCAGCCTTTCTGCAATACTTAGGGCTAATA
* * * * * *
96971298 GTCGTTCTGTTAACTGGCAGCGTTGCTACGATATTTATGGCCTTTAGCCGTACTGTCTATG
66 GTCATTCTATTAACTGGCAGCGTGGCTAAGATACTTACGGCCTTTAGCCGTACTGTCTATG
96971359 TAACACCCCG
Statistics
Matches: 108, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
127 108 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (127 bp):
AAGTGTACGGCATGTAGCCATCCTGTATAAGGCCTTCAGCCTTTCTGCAATACTTAGGGCTAATA
GTCATTCTATTAACTGGCAGCGTGGCTAAGATACTTACGGCCTTTAGCCGTACTGTCTATGA
Found at i:96977321 original size:27 final size:28
Alignment explanation
Indices: 96977256--96977324 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
96977246 AATGAGATTG
*
96977256 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTGAATTGTATA
*
96977284 GCACTAAGTGTGCGAGTTGACTAT-TA-A
1 GCACTAAGTGTGCGAGTTGAAT-TGTATA
96977311 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
96977325 GACTTACTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 15 0.39
28 22 0.58
29 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTGAATTGTATA
Found at i:96977333 original size:27 final size:27
Alignment explanation
Indices: 96977256--96977334 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
96977246 AATGAGATTG
* * *
96977256 GCACTAAGTGTGCGAGTTTAAT-TGTATA
1 GCACTAAGTGTGCGACTTGACTAT-TA-A
*
96977284 GCACTAAGTGTGCGAGTTGACTATTAA
1 GCACTAAGTGTGCGACTTGACTATTAA
96977311 GCACTAAGTGTGCGGACTT-ACTAT
1 GCACTAAGTGTGC-GACTTGACTAT
96977335 ATATTTTCGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 19 0.41
28 26 0.57
29 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTGACTATTAA
Found at i:96979239 original size:29 final size:29
Alignment explanation
Indices: 96979211--96979313 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
96979201 CCTCCGAGCT
** * * *
96979211 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
96979240 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
96979269 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
96979298 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
96979314 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:96987302 original size:29 final size:29
Alignment explanation
Indices: 96987274--96987376 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
96987264 CCTCCGAGCT
** * * *
96987274 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
96987303 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
96987332 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
96987361 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
96987377 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:96993731 original size:45 final size:46
Alignment explanation
Indices: 96993667--96993841 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 46
96993657 TGTAACCCGC
96993667 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
96993712 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * *
96993762 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
96993805 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
96993842 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 37 0.33
46 29 0.26
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:96993832 original size:93 final size:92
Alignment explanation
Indices: 96993674--96993844 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
96993664 CGCCCATAAG
*
96993674 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
96993739 CGAGCTCGGATGCCTAGTTACATCTCA
66 CGAGCTCGGATGCCTAGTTACATCTCA
*
96993766 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
96993831 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
96993845 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 28 0.37
93 47 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCA
Found at i:96996109 original size:20 final size:21
Alignment explanation
Indices: 96996086--96996128 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
96996076 ATAAGCATGT
*
96996086 ATTTTG-ATGTTTGATGATAG
1 ATTTTGAATGCTTGATGATAG
*
96996106 ATTTTGAATGCTTGTTGATAG
1 ATTTTGAATGCTTGATGATAG
96996127 AT
1 AT
96996129 ATACAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (21 bp):
ATTTTGAATGCTTGATGATAG
Found at i:96997776 original size:34 final size:34
Alignment explanation
Indices: 96997732--96997813 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
96997722 TAACAGCTAA
*
96997732 GGCCTTAGCCCATTTCAGTAACAATAGCAATCTG
1 GGCCTAAGCCCATTTCAGTAACAATAGCAATCTG
* * * * *
96997766 GGCCTGAGCCCATCTCAGTAACAGTATCAGTCTG
1 GGCCTAAGCCCATTTCAGTAACAATAGCAATCTG
96997800 GGCCTAAGCCCATT
1 GGCCTAAGCCCATT
96997814 AACATATTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (34 bp):
GGCCTAAGCCCATTTCAGTAACAATAGCAATCTG
Found at i:97004572 original size:29 final size:28
Alignment explanation
Indices: 97004466--97004583 Score: 114
Period size: 29 Copynumber: 4.1 Consensus size: 28
97004456 ACATACATGC
* *
97004466 ATATGGCCCACTT-GGCCC-AATCTCATTT
1 ATATGGCCCA-TTAGGCCCAAATCAC-CTT
* * **
97004494 ATATGGCCCATCAGGCCCAATTCATATT
1 ATATGGCCCATTAGGCCCAAATCACCTT
97004522 CATATGGCCCATTAGGCCCAAATCACCTTT
1 -ATATGGCCCATTAGGCCCAAATCACC-TT
* *
97004552 ATATGGCCCGTTAGGCCCAAATTACCTT
1 ATATGGCCCATTAGGCCCAAATCACCTT
97004580 ATAT
1 ATAT
97004584 TCATGCTCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
27 1 0.01
28 23 0.31
29 49 0.65
30 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCACCTT
Found at i:97007437 original size:46 final size:46
Alignment explanation
Indices: 97007387--97007559 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
97007377 TGGTTGAGCA
*
97007387 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
97007433 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
97007480 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
97007526 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
97007560 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:97007543 original size:93 final size:93
Alignment explanation
Indices: 97007384--97007554 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
97007374 GGATGGTTGA
* *
97007384 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
97007449 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
97007477 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
97007542 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
97007555 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Done.