Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 101 of 425
Found at i:29197725 original size:34 final size:34
Alignment explanation
Indices: 29197625--29197725 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 34
29197615 CCCTAATTAT
* * **
29197625 TTCGTCAGTTTATCCGACTAGCGCTGAGCACAGT
1 TTCGCCAGTTTATCCAACTAGCGCTGAGCACACA
* * * *
29197659 TTC-CATCAGTTTATCTAACTAGTGTTGGGCACACA
1 TTCGC--CAGTTTATCCAACTAGCGCTGAGCACACA
*
29197694 TTCGCCAGTTTGTCCAACTAGCGCTGAGCACA
1 TTCGCCAGTTTATCCAACTAGCGCTGAGCACA
29197726 AATATCATTG
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
34 25 0.49
35 25 0.49
36 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (34 bp):
TTCGCCAGTTTATCCAACTAGCGCTGAGCACACA
Found at i:29197826 original size:144 final size:144
Alignment explanation
Indices: 29197566--29197826 Score: 357
Period size: 144 Copynumber: 1.8 Consensus size: 144
29197556 AATTCGTTCC
* * * * *
29197566 ACTAGCACTGGGCACAAATACCATTTGTTTATCCAACTAGAGCTGGGCTCCCTAATTATTTCGTC
1 ACTAGCACTGAGCACAAATACCATTGGTTTATCCAACTAGAGCTAGGCTACCTAATTATTTCATC
* * *
29197631 AGTTTATCCGACTAGCGCTGAGCACAGTTTCCATCAGTTTATCTAACTAGTGTTGGGCACACATT
66 AGTTTATCCGACTAGCACTGAGCACACTTTCCATCAGTATATCTAACTAGTGTTGGGCACACATT
29197696 CGCCAGTTTGTCCA
131 CGCCAGTTTGTCCA
* *
29197710 ACTAGCGCTGAGCACAAATATCATTGGTTTATCCAACTAGAGCTAGGCTTACC-AATTATTTCAT
1 ACTAGCACTGAGCACAAATACCATTGGTTTATCCAACTAGAGCTAGGC-TACCTAATTATTTCAT
* * *
29197774 CAGTTTATCCGACTAGTACT-AGGCGCAACTTT-CATCAGTATATCTGACTAGTG
65 CAGTTTATCCGACTAGCACTGA-GCAC-ACTTTCCATCAGTATATCTAACTAGTG
29197827 CAAGGCACAC
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
143 1 0.01
144 93 0.92
145 7 0.07
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (144 bp):
ACTAGCACTGAGCACAAATACCATTGGTTTATCCAACTAGAGCTAGGCTACCTAATTATTTCATC
AGTTTATCCGACTAGCACTGAGCACACTTTCCATCAGTATATCTAACTAGTGTTGGGCACACATT
CGCCAGTTTGTCCA
Found at i:29197858 original size:144 final size:144
Alignment explanation
Indices: 29197566--29197863 Score: 350
Period size: 144 Copynumber: 2.1 Consensus size: 144
29197556 AATTCGTTCC
* * * * *
29197566 ACTAGCACTGGGCACAAATACCATTTGTTTATCCAACTAGAGCTGGGCTCCCTAATTATTTCGTC
1 ACTAGCACTGAGCACAAATACCATTGGTTTATCCAACTAGAGCTAGGCTACCTAATTATTTCATC
* * * ***
29197631 AGTTTATCCGACTAGCGCTGAGCACAGTTTCCATCAGTTTATCTAACTAGTGTTGGGCACACATT
66 AGTTTATCCGACTAGCACTGAGCACACTTTCCATCAGTATATCTAACTAGTGCAAGGCACACATT
* *
29197696 CGCCAGTTTGTCCA
131 CACCAGTTTATCCA
* *
29197710 ACTAGCGCTGAGCACAAATATCATTGGTTTATCCAACTAGAGCTAGGCTTACC-AATTATTTCAT
1 ACTAGCACTGAGCACAAATACCATTGGTTTATCCAACTAGAGCTAGGC-TACCTAATTATTTCAT
* * *
29197774 CAGTTTATCCGACTAGTACT-AGGCGCAACTTT-CATCAGTATATCTGACTAGTGCAAGGCACAC
65 CAGTTTATCCGACTAGCACTGA-GCAC-ACTTTCCATCAGTATATCTAACTAGTGCAAGGCACAC
* * * *
29197837 ATTTATCGGTTTATCCG
128 ATTCACCAGTTTATCCA
29197854 ACTAGCACTG
1 ACTAGCACTG
29197864 GGTGCAAACT
Statistics
Matches: 128, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
143 1 0.01
144 120 0.94
145 7 0.05
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (144 bp):
ACTAGCACTGAGCACAAATACCATTGGTTTATCCAACTAGAGCTAGGCTACCTAATTATTTCATC
AGTTTATCCGACTAGCACTGAGCACACTTTCCATCAGTATATCTAACTAGTGCAAGGCACACATT
CACCAGTTTATCCA
Found at i:29199372 original size:30 final size:29
Alignment explanation
Indices: 29199278--29199379 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
29199268 TATGGTGAAT
* * *
29199278 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
29199307 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
29199335 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
29199365 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
29199380 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:29203263 original size:47 final size:47
Alignment explanation
Indices: 29203191--29203321 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 47
29203181 CACAATCAAT
** * *
29203191 AAGTACCTATACCATGGCCTGTAGCCAAATCAATGTAACTT-ATCCCG
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAA-TTCATCCCA
* * *
29203238 GAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAATTCCTCTCA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAATTCATCCCA
* * *
29203285 AAATACCTATATCATGGTCCATAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
29203322 TTATTCACAC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 2 0.03
47 70 0.97
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAATTCATCCCA
Found at i:29209712 original size:34 final size:34
Alignment explanation
Indices: 29209674--29209752 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
29209664 ATATCAGTTC
* * * *
29209674 GGCCTTAGCCTATTTCAGTAATAGTAGCAGTCTG
1 GGCCTAAGCCCATTCCAGTAACAGTAGCAGTCTG
* *
29209708 GGCCTGAGCCCGTTCCAGTAACAGTAGCAGTCTG
1 GGCCTAAGCCCATTCCAGTAACAGTAGCAGTCTG
29209742 GGCCTAAGCCC
1 GGCCTAAGCCC
29209753 GTTTAACATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.22, C:0.28, G:0.27, T:0.24
Consensus pattern (34 bp):
GGCCTAAGCCCATTCCAGTAACAGTAGCAGTCTG
Found at i:29209753 original size:34 final size:34
Alignment explanation
Indices: 29209689--29209755 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
29209679 TAGCCTATTT
* *
29209689 CAGTAATAGTAGCAGTCTGGGCCTGAGCCCGTTC
1 CAGTAACAGTAGCAGTCTGGGCCTAAGCCCGTTC
29209723 CAGTAACAGTAGCAGTCTGGGCCTAAGCCCGTT
1 CAGTAACAGTAGCAGTCTGGGCCTAAGCCCGTT
29209756 TAACATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.22
Consensus pattern (34 bp):
CAGTAACAGTAGCAGTCTGGGCCTAAGCCCGTTC
Found at i:29216672 original size:124 final size:124
Alignment explanation
Indices: 29216450--29216674 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
29216440 GAATTATGTG
* * * ** * * *
29216450 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
29216515 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGCCCCGAAGACGATTATGCTTGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
29216574 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
29216639 GCTAAGCCCCGAAGAC-ATTTATGCTTGAAATTATAT
66 GCTAAGCCCCGAAGACGA-TTATGCTTGAAATTATAT
29216675 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGCCCCGAAGACGATTATGCTTGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:29216796 original size:40 final size:40
Alignment explanation
Indices: 29216669--29216798 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
29216659 ATGCTTGAAA
* *
29216669 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
29216709 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
29216749 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
29216789 TTATATCCGG
1 TTATATCCGG
29216799 TTGTATTCTG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:29216797 original size:80 final size:80
Alignment explanation
Indices: 29216631--29216798 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 80
29216621 CAATTGAATG
* * ** *
29216631 ATATCCGGGCTAAGCCCCGAAGACATTTATGCTTGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCA
29216696 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
29216711 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
29216775 ATTCGTGC-ACGTGGTT
66 ATT-GTGCTA-GTGGCT
29216791 ATATCCGG
1 ATATCCGG
29216799 TTGTATTCTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
79 4 0.05
80 69 0.95
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:29219886 original size:34 final size:34
Alignment explanation
Indices: 29219848--29219930 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
29219838 ATATCAGTTA
* * *
29219848 GGCCTTAGCCTATTTCAGTAATAGTAGTAGTCTG
1 GGCCTAAGCCCATTTCAGTAACAGTAGTAGTCTG
* *
29219882 GGCCTAAGCCCATTCCAGTAACAGTAGTAGTCTT
1 GGCCTAAGCCCATTTCAGTAACAGTAGTAGTCTG
29219916 GGCCTAAGCCCATTT
1 GGCCTAAGCCCATTT
29219931 AACATTTCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (34 bp):
GGCCTAAGCCCATTTCAGTAACAGTAGTAGTCTG
Found at i:29227939 original size:37 final size:37
Alignment explanation
Indices: 29227881--29228025 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
29227871 GCTCAGACGA
* *
29227881 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
29227918 ACTCTCCACACGTAGTCATCGGGTCTTACCCGAACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
29227955 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
29227992 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
29228026 ATATATTTCC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:29228141 original size:48 final size:48
Alignment explanation
Indices: 29228070--29228530 Score: 721
Period size: 48 Copynumber: 9.7 Consensus size: 48
29228060 TGTTACAACA
* *
29228070 TTCACATTAGCCTTTCGGCTTTACCACATATGCATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
29228118 TTCACATTAGCCATTCGGCTTTACGACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
29228166 TTCACATTAGCCATTCGGCTTTATCACATATACACATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
29228214 TTCACATTGGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
29228262 TT-ACATTAGCCATTTGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
29228309 TTCACATTAGCCATTCGACTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
29228357 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
29228405 TTCACATTAGCCATTTGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
29228453 TTTACATTAGCCGTTCGGCTTTACCACATATACATATCT--TATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
29228499 TTCACATTAGCCATTCGCCTTTACCACATATA
1 TTCACATTAGCCATTCGGCTTTACCACATATA
29228531 TGCATGTTCA
Statistics
Matches: 375, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
46 35 0.09
47 43 0.11
48 297 0.79
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:29228398 original size:191 final size:191
Alignment explanation
Indices: 29228073--29228530 Score: 787
Period size: 191 Copynumber: 2.4 Consensus size: 191
29228063 TACAACATTC
* *
29228073 ACATTAGCCTTTCGGCTTTACCACATATGCATATCTCATATATATTTCACATTAGCCATTCGGCT
1 ACATTAGCCTTT-GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGACT
* *
29228138 TTACGACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTATCACATATACACAT
65 TTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACACAT
*
29228203 CTCATATATATTTCACATTGGCCATTCGGCTTTACCACATATACATATCACACATATA-TTT
130 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTT
29228264 ACATTAGCCATTTGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGACT
1 ACATTAGCC-TTTGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGACT
*
29228329 TTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
65 TTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACACAT
*
29228394 CTCATATATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCACACATATATTTT
130 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTT
* *
29228456 ACATTAGCCGTTCGGCTTTACCACATATACATATCT--TATATATTTCACATTAGCCATTCGCCT
1 ACATTAGCC-TTTGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGACT
29228519 TTACCACATATA
65 TTACCACATATA
29228531 TGCATGTTCA
Statistics
Matches: 255, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
190 38 0.15
191 177 0.69
192 40 0.16
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.36
Consensus pattern (191 bp):
ACATTAGCCTTTGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGACTT
TACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACACATC
TCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTT
Found at i:29228562 original size:47 final size:47
Alignment explanation
Indices: 29228500--29228693 Score: 282
Period size: 47 Copynumber: 4.1 Consensus size: 47
29228490 CTTATATATT
* * *
29228500 TCACATTAGCCATTC-GCCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCC-TTATCACATATATGCATGTTCACATTCA
* * *
29228547 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
29228594 TCACATTGGCCATTCGGCCTCATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
29228641 TCACATAGGCCATTCGGCCTTATCACATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
29228688 TCACAT
1 TCACAT
29228694 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
47 129 0.98
48 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.31
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:29228690 original size:25 final size:25
Alignment explanation
Indices: 29228613--29228694 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
29228603 CCATTCGGCC
**
29228613 TCATCACATATATGCATGTTCACAT
1 TCATCACATATATGCACATTCACAT
* * *
29228638 TCATCAC--ATAGGC-CATTCGGCCT
1 TCATCACATATATGCACATTC-ACAT
29228661 T-ATCACATATATGCACATTCACAT
1 TCATCACATATATGCACATTCACAT
29228685 TCATCACATA
1 TCATCACATA
29228695 AAATCCTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
22 8 0.18
23 8 0.18
24 8 0.18
25 20 0.45
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.32
Consensus pattern (25 bp):
TCATCACATATATGCACATTCACAT
Found at i:29241590 original size:20 final size:20
Alignment explanation
Indices: 29241567--29241610 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
29241557 AAGGGGCTCG
*
29241567 ATGGGTCGAAACTGGGCCCA
1 ATGGGCCGAAACTGGGCCCA
29241587 ATGGGCCGAAACTGGGCCCA
1 ATGGGCCGAAACTGGGCCCA
29241607 ATGG
1 ATGG
29241611 TCTTATGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.36, T:0.14
Consensus pattern (20 bp):
ATGGGCCGAAACTGGGCCCA
Found at i:29241813 original size:28 final size:28
Alignment explanation
Indices: 29241728--29241824 Score: 169
Period size: 28 Copynumber: 3.5 Consensus size: 28
29241718 GCGTAGATCA
29241728 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
29241756 CAAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
29241784 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
29241812 CGATA-TACCCCTA
1 CGAAATTACCCCTA
29241825 GGGTTTTAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 8 0.12
28 58 0.88
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:29243825 original size:28 final size:28
Alignment explanation
Indices: 29243793--29243889 Score: 169
Period size: 28 Copynumber: 3.5 Consensus size: 28
29243783 GCGTAGATCA
29243793 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
29243821 CGAAATTACCCTTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
29243849 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
29243877 CGATA-TACCCCTA
1 CGAAATTACCCCTA
29243890 GGGTTTTAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 8 0.12
28 58 0.88
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:29249678 original size:100 final size:101
Alignment explanation
Indices: 29249563--29249744 Score: 269
Period size: 100 Copynumber: 1.8 Consensus size: 101
29249553 ATCCGGTATA
* * * * *
29249563 CATAGTAGCCTGCACTTTGTACTACACACGTGACCTCACCA-TTTGATATATGTAGTAG-CTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGA-CTCAACAGTATGATACATGTAGTAGCCTGCA
29249626 CTTAGTACTACACACGTGATCGAAGTCATTGAGTACG
65 CTTAGTACTACACACGTGATCGAAGTCATTGAGTACG
* * *
29249663 CATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACATGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACTCAACAGTATGATACATGTAGTAGCCTGCAC
29249728 TTAGTACTACACACGTG
66 TTAGTACTACACACGTG
29249745 TATTCACAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
99 5 0.07
100 44 0.61
101 23 0.32
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACTCAACAGTATGATACATGTAGTAGCCTGCAC
TTAGTACTACACACGTGATCGAAGTCATTGAGTACG
Found at i:29249733 original size:50 final size:50
Alignment explanation
Indices: 29249521--29249742 Score: 184
Period size: 50 Copynumber: 4.5 Consensus size: 50
29249511 ATGCATATTT
* * * ** *
29249521 GCCTACACTTAGTACTACACATGCGAC-CAACAATCCGGTATACATAGTA
1 GCCTGCACTTAGTACTACACACGCGACTCAACAGTATGGTACACATAGTA
* * * * * * **
29249570 GCCTGCACTTTGTACTACACACGTGACCTCACCA-TTTGATATATGTAGTA
1 GCCTGCACTTAGTACTACACACGCGA-CTCAACAGTATGGTACACATAGTA
* * *
29249620 G-CTGCACTTAGTACTACACACGTGA-TCGA-AGTCATTGAGTACGCATAGTA
1 GCCTGCACTTAGTACTACACACGCGACTCAACAGT-A-TG-GTACACATAGTA
* * **
29249670 GCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACATGTAGTA
1 GCCTGCACTTAGTACTACACACGCGACTCAACAGTATGGTACACATAGTA
29249720 GCCTGCACTTAGTACTACACACG
1 GCCTGCACTTAGTACTACACACG
29249743 TGTATTCACA
Statistics
Matches: 137, Mismatches: 27, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
49 47 0.34
50 52 0.38
51 28 0.20
52 3 0.02
53 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
GCCTGCACTTAGTACTACACACGCGACTCAACAGTATGGTACACATAGTA
Found at i:29251069 original size:29 final size:29
Alignment explanation
Indices: 29251037--29251098 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
29251027 TCCTCATAGC
* *
29251037 TTCCTCAGGTTTCCACGTAGCCTCTTTTA
1 TTCCTCAGGTTCCCACGTAGCCTCTTCTA
29251066 TTCCTCAGGTTCCCACGTAGCCTCTTCTA
1 TTCCTCAGGTTCCCACGTAGCCTCTTCTA
29251095 TTCC
1 TTCC
29251099 ATTTTTGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.13, C:0.35, G:0.13, T:0.39
Consensus pattern (29 bp):
TTCCTCAGGTTCCCACGTAGCCTCTTCTA
Found at i:29251591 original size:29 final size:29
Alignment explanation
Indices: 29251558--29251619 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
29251548 TCCTCATAGC
* * *
29251558 TTCCTTAGGTTTCCACGTAGCCTTTTCTA
1 TTCCTCAGGTTCCCACGTAGCCTCTTCTA
29251587 TTCCTCAGGTTCCCACGTAGCCTCTTCTA
1 TTCCTCAGGTTCCCACGTAGCCTCTTCTA
29251616 TTCC
1 TTCC
29251620 ATTTTTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.13, C:0.34, G:0.13, T:0.40
Consensus pattern (29 bp):
TTCCTCAGGTTCCCACGTAGCCTCTTCTA
Found at i:29251758 original size:521 final size:520
Alignment explanation
Indices: 29250577--29252005 Score: 2666
Period size: 521 Copynumber: 2.7 Consensus size: 520
29250567 GAGAAGATGA
29250577 CCATTTTTGTGTTATTTTTCCCATTTTATTTCATTTAATATACAAATGACCAAAATGCCCTTACT
1 CCATTTTTGTGTTATTTTTCCCATTTTATTTCATTTAATATACAAATGACCAAAATGCCCTTACT
29250642 ACTAAACTTTCCAAAAATTCCATCCATGTCCAATTTTTGTCCATAAACTTAGAAATTGGTCAAAT
66 ACTAAACTTTCCAAAAATTCCATCCATGTCCAATTTTTGTCCATAAACTTAGAAATTGGTCAAAT
29250707 TTCTATTTAAGACCTCCTAATTAATATTCCAAAGCAATTTCATACTAAAAACTTCTAGAACACAA
131 TTCTATTTAAGACCTCCTAATTAATATTCCAAAGCAATTTCATACTAAAAACTTCTAGAACACAA
29250772 GTTTTGTAAATTATTCGATTTAGTCCCTAATCTCAACTTAAGTGCTTAATGCATAGAATTTCATC
196 GTTTTGTAAATTATTCGATTTAGTCCCTAATCTCAACTTAAGTGCTTAATGCATAGAATTTCATC
*
29250837 ACGAAATTTTCACTCAATCATGAAATCATATCATAAACCTCAAAATTATTATAAAAAATTATTTC
261 ACGAAATTTTCACTCAATCATGAAATCATATCATAAACCTCAAAATAATTATAAAAAATTATTTC
*
29250902 TATCTCGAATTTGTGGTCACAAAACCACTATTCTATTTAGGCCCTAATTCAGGTTGTCACAATTC
326 TATCTTGAATTTGTGGTCACAAAACCACTATTCTATTTAGGCCCTAATTCAGGTTGTCACAATTC
29250967 TCCCCCTTTGGGGATTTTCATCCCCGAAAATTTTACCAGTAAAGAGGTTCAGGTACTGTTTCCTC
391 TCCCCCTTTGGGGATTTTCATCCCCGAAAATTTTACCAGTAAAGAGGTTCAGGTACTGTTTCCTC
29251032 ATAGCTTCCTCAGGTTTCCACGTAGCCTCTTTTATTCCTCAGGTTCCCACGTAGCCTCTTCTATT
456 ATAGCTTCCTCAGGTTTCCACGTAGCCTCTTTTATTCCTCAGGTTCCCACGTAGCCTCTTCTATT
29251097 CCATTTTTGTGTTATTTTTCCCATTTTATTTCATTTAATATACAAATGACCAAAATGCCCTTACT
1 CCATTTTTGTGTTATTTTTCCCATTTTATTTCATTTAATATACAAATGACCAAAATGCCCTTACT
29251162 ACTAAACTTTCCAAAAATTCCATCCATGTCCAATTTTTGTCCATAAACTTAGAAATTGGTCAAAT
66 ACTAAACTTTCCAAAAATTCCATCCATGTCCAATTTTTGTCCATAAACTTAGAAATTGGTCAAAT
*
29251227 TTCAATTTAAGACCTCCTAATTAATATTCCAAAGCAATTTCATACTAAAAACTTCTAGAACACAA
131 TTCTATTTAAGACCTCCTAATTAATATTCCAAAGCAATTTCATACTAAAAACTTCTAGAACACAA
* *
29251292 GTTTTGTAAATTATTCGACTTAGTCCCTAATCACAACTTAAGTGCTTAATGCATAGAATTTCATC
196 GTTTTGTAAATTATTCGATTTAGTCCCTAATCTCAACTTAAGTGCTTAATGCATAGAATTTCATC
29251357 ACGAAATTTTCACTCAATCATGAAATCATATCATAAACCTCAAAATAATTATAAAAAATTATTTC
261 ACGAAATTTTCACTCAATCATGAAATCATATCATAAACCTCAAAATAATTATAAAAAATTATTTC
29251422 TATCTTGAATTTGTGGTCACAAAACCACTATTCTATTTAGGCCCTAATTCAGGTTGTCACAATTC
326 TATCTTGAATTTGTGGTCACAAAACCACTATTCTATTTAGGCCCTAATTCAGGTTGTCACAATTC
29251487 TCCCCCCTTTGGGGATTTTCATCCCCGAAAATTTTACCAGTAAAGAGGTTCAGGTACTGTTTCCT
391 T-CCCCCTTTGGGGATTTTCATCCCCGAAAATTTTACCAGTAAAGAGGTTCAGGTACTGTTTCCT
*
29251552 CATAGCTTCCTTAGGTTTCCACGTAGCCT-TTTCTATTCCTCAGGTTCCCACGTAGCCTCTTCTA
455 CATAGCTTCCTCAGGTTTCCACGTAGCCTCTTT-TATTCCTCAGGTTCCCACGTAGCCTCTTCTA
29251616 TT
519 TT
*
29251618 CCATTTTTGTATTATTTTTCCCATTTTATTTCATTTAATATACAAATGACCAAAATGCCCTTACT
1 CCATTTTTGTGTTATTTTTCCCATTTTATTTCATTTAATATACAAATGACCAAAATGCCCTTACT
29251683 ACTAAACTTTCCAAAAATTCCATCCATGTCCAATTTTTGTCCATAAACTTAGAAATTGGTCAAAT
66 ACTAAACTTTCCAAAAATTCCATCCATGTCCAATTTTTGTCCATAAACTTAGAAATTGGTCAAAT
* *
29251748 TTCTATTTAAGACATCCTAATTAATATTCCAAAGCAATTTCATACTAAAAACTTCTAGAGCACAA
131 TTCTATTTAAGACCTCCTAATTAATATTCCAAAGCAATTTCATACTAAAAACTTCTAGAACACAA
** *
29251813 GTTTTACAAATTATTCGATTTAGTCCCTAATCTCAACTTAAGCGCTTAATGCATAGAATTTCATC
196 GTTTTGTAAATTATTCGATTTAGTCCCTAATCTCAACTTAAGTGCTTAATGCATAGAATTTCATC
29251878 ACGAAATTTTCACTCAATCATGAAATCATATCATAAACCTCAAAATAATTATAAAAAAATTATTT
261 ACGAAATTTTCACTCAATCATGAAATCATATCATAAACCTCAAAATAATTAT-AAAAAATTATTT
* *
29251943 CTATC-TCAGATTTGTGGTCACAAAACCACTATTCTGA-TTAGGCCCTAATTCGGGTTGTCACAA
325 CTATCTTGA-ATTTGTGGTCACAAAACCACTATTCT-ATTTAGGCCCTAATTCAGGTTGTCACAA
29252006 CGATTCTCAA
Statistics
Matches: 887, Mismatches: 17, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
520 389 0.44
521 429 0.48
522 68 0.08
523 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (520 bp):
CCATTTTTGTGTTATTTTTCCCATTTTATTTCATTTAATATACAAATGACCAAAATGCCCTTACT
ACTAAACTTTCCAAAAATTCCATCCATGTCCAATTTTTGTCCATAAACTTAGAAATTGGTCAAAT
TTCTATTTAAGACCTCCTAATTAATATTCCAAAGCAATTTCATACTAAAAACTTCTAGAACACAA
GTTTTGTAAATTATTCGATTTAGTCCCTAATCTCAACTTAAGTGCTTAATGCATAGAATTTCATC
ACGAAATTTTCACTCAATCATGAAATCATATCATAAACCTCAAAATAATTATAAAAAATTATTTC
TATCTTGAATTTGTGGTCACAAAACCACTATTCTATTTAGGCCCTAATTCAGGTTGTCACAATTC
TCCCCCTTTGGGGATTTTCATCCCCGAAAATTTTACCAGTAAAGAGGTTCAGGTACTGTTTCCTC
ATAGCTTCCTCAGGTTTCCACGTAGCCTCTTTTATTCCTCAGGTTCCCACGTAGCCTCTTCTATT
Found at i:29256684 original size:40 final size:40
Alignment explanation
Indices: 29256583--29256767 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
29256573 TATTCGAATG
* * * *
29256583 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AGTGACT
* * * *
29256624 ATATCCGGACTAAGATCCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
29256664 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
*
29256704 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
29256743 CATATCCGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
29256768 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 94 0.78
41 26 0.21
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:29268692 original size:41 final size:39
Alignment explanation
Indices: 29268631--29268761 Score: 131
Period size: 39 Copynumber: 3.3 Consensus size: 39
29268621 TATTCGAATG
*
29268631 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGTTAAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTG-T-AGTGACT
* * * *
29268672 ATATCCGGACTAAGATCCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTG-TAGTGACT
* * *
29268712 ATATCCGGGCCAA-ACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTG-TAGTGACT
29268751 ATATCCGGGCT
1 ATATCCGGGCT
29268762 GTGAATACCC
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 31 0.41
40 17 0.23
41 26 0.35
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGTAGTGACT
Found at i:29278281 original size:40 final size:40
Alignment explanation
Indices: 29278180--29278363 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
29278170 TATTCGAATG
* * * *
29278180 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AGTGACT
* * * *
29278221 ATATCCGGACTAAGATCCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
29278261 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
*
29278301 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
29278340 CA-ATCCGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
29278364 CTTGTGCGAG
Statistics
Matches: 120, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 22 0.18
40 72 0.60
41 26 0.22
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:29278324 original size:80 final size:81
Alignment explanation
Indices: 29278180--29278363 Score: 241
Period size: 80 Copynumber: 2.3 Consensus size: 81
29278170 TATTCGAATG
* * * *
29278180 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
*
29278245 ATTTATGCGAGTTA-C
66 ATTTATGCGAGTGATC
* * *
29278260 TATATCCGGGCCAAAACCCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAG-TCCCGAAG
1 -ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGAT-CCGAAG
*
29278323 GCATTTATGCTAGTGATC
64 GCATTTATGCGAGTGATC
29278341 A-ATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
29278364 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 21 0.23
80 40 0.44
81 29 0.32
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
ATTTATGCGAGTGATC
Found at i:29286421 original size:40 final size:40
Alignment explanation
Indices: 29286320--29286504 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
29286310 TATTCGAATG
* * * * *
29286320 ATATCCGGCCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AGTGACT
* * * *
29286361 ATATCCGGACTAAGATCCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
29286401 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
29286441 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
29286480 CATATCCGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
29286505 CTTGTGCGAG
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 92 0.77
41 26 0.22
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:29289901 original size:49 final size:51
Alignment explanation
Indices: 29289724--29289893 Score: 247
Period size: 51 Copynumber: 3.4 Consensus size: 51
29289714 CGGATATCCG
* * * * *
29289724 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCATAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAA
29289775 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
*
29289827 GTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
29289876 GTGGCCTTCACATAGTAC
1 GTGGCCTTCACATAGTAC
29289894 TGCACTTGAG
Statistics
Matches: 111, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
49 27 0.24
51 42 0.38
52 42 0.38
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:29295382 original size:93 final size:93
Alignment explanation
Indices: 29295270--29295441 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
29295260 GCCCATAAGT
* *
29295270 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29295335 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
29295363 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
29295428 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
29295442 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:29295437 original size:46 final size:46
Alignment explanation
Indices: 29295262--29295437 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
29295252 TGTAACCCGC
* *
29295262 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
29295308 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
29295354 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
29295401 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
29295438 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:29300769 original size:46 final size:44
Alignment explanation
Indices: 29300698--29300873 Score: 185
Period size: 46 Copynumber: 3.9 Consensus size: 44
29300688 TGTAACCCGC
29300698 CCATAAGTGAACT-GGACTCAACTCAACGAGCTCGGGAGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGA-TTCGCAT
*
29300743 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGC-A--T
* *** * * *
29300789 ACATCTCTCGAACTCGAACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCAT
*
29300836 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
29300874 GCCCAAATAT
Statistics
Matches: 108, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 16 0.15
46 51 0.47
47 30 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
Found at i:29313397 original size:18 final size:18
Alignment explanation
Indices: 29313347--29313399 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
29313337 GGACTTGCAT
*
29313347 ACTGTTTACTATTACTGC
1 ACTGTTTACTATTATTGC
*
29313365 ACTGTTTACTGTTATTGC
1 ACTGTTTACTATTATTGC
*
29313383 ACTGTTTTCTATTATTG
1 ACTGTTTACTATTATTG
29313400 TAATGGGCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (18 bp):
ACTGTTTACTATTATTGC
Found at i:29318091 original size:27 final size:27
Alignment explanation
Indices: 29318061--29318194 Score: 124
Period size: 27 Copynumber: 5.0 Consensus size: 27
29318051 TAAATGATAG
29318061 AATGATTGTTTTGCCCTTATGTGGTAA
1 AATGATTGTTTTGCCCTTATGTGGTAA
* * * *
29318088 AATGACTATTTTGGCCTTATGTGGAAA
1 AATGATTGTTTTGCCCTTATGTGGTAA
* *
29318115 AATAATTGTTTTGCCCTTATGAGGTAA
1 AATGATTGTTTTGCCCTTATGTGGTAA
* **** * **
29318142 AATGACTAAAATGCCCCTACATGGTAA
1 AATGATTGTTTTGCCCTTATGTGGTAA
* *
29318169 ATTGATTGTTTTGCCCCTATGTGGTA
1 AATGATTGTTTTGCCCTTATGTGGTA
29318195 CATGTTTATA
Statistics
Matches: 79, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (27 bp):
AATGATTGTTTTGCCCTTATGTGGTAA
Found at i:29318177 original size:54 final size:54
Alignment explanation
Indices: 29318061--29318194 Score: 160
Period size: 54 Copynumber: 2.5 Consensus size: 54
29318051 TAAATGATAG
*** * * **
29318061 AATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTGGCCTTATGTGGAAA
1 AATGATTGTTTTGCCCTTATGTGGTAAAATGACTAAAATGCCCCTACATGGAAA
* * *
29318115 AATAATTGTTTTGCCCTTATGAGGTAAAATGACTAAAATGCCCCTACATGGTAA
1 AATGATTGTTTTGCCCTTATGTGGTAAAATGACTAAAATGCCCCTACATGGAAA
* *
29318169 ATTGATTGTTTTGCCCCTATGTGGTA
1 AATGATTGTTTTGCCCTTATGTGGTA
29318195 CATGTTTATA
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (54 bp):
AATGATTGTTTTGCCCTTATGTGGTAAAATGACTAAAATGCCCCTACATGGAAA
Found at i:29318559 original size:18 final size:18
Alignment explanation
Indices: 29318516--29318566 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
29318506 TTGCGTAATG
* *
29318516 TTTACTATTACTGCACTG
1 TTTACTGTTACTGCACTA
*
29318534 TTTACTGTTACTGCATTA
1 TTTACTGTTACTGCACTA
*
29318552 TTTTCTGTTACTGCA
1 TTTACTGTTACTGCA
29318567 ATGGGCCAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.49
Consensus pattern (18 bp):
TTTACTGTTACTGCACTA
Found at i:29334336 original size:40 final size:39
Alignment explanation
Indices: 29334208--29334350 Score: 187
Period size: 39 Copynumber: 3.6 Consensus size: 39
29334198 AATGTTTGAG
*
29334208 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
29334247 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
29334286 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
29334326 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
29334351 TGTTTTGAAC
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 52 0.57
40 40 0.43
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:29336142 original size:45 final size:45
Alignment explanation
Indices: 29336091--29336181 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
29336081 TCCAGGTGTT
*
29336091 GGGTATCCTAAGTTGTGTTCGGATACTCTCTTAGTTCTTTGAGTA
1 GGGTATCCTAAGTTGTGTTCAGATACTCTCTTAGTTCTTTGAGTA
29336136 GGGTATCCTAAGTTGTGTTCAGATACTCTCTTAGTTCTTTGAGTA
1 GGGTATCCTAAGTTGTGTTCAGATACTCTCTTAGTTCTTTGAGTA
29336181 G
1 G
29336182 CCCTGTTGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (45 bp):
GGGTATCCTAAGTTGTGTTCAGATACTCTCTTAGTTCTTTGAGTA
Found at i:29338587 original size:40 final size:40
Alignment explanation
Indices: 29338541--29338765 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 40
29338531 CTTGCACAAG
* * * * *
29338541 GCCTTCGGGTCTTAGCCCAGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
29338581 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
29338621 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
29338661 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCT-AGCACAAAT
* * * * *
29338701 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
*
29338742 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
29338766 CATTCGAATA
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 30 0.19
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:29338759 original size:81 final size:80
Alignment explanation
Indices: 29338505--29338765 Score: 280
Period size: 80 Copynumber: 3.3 Consensus size: 80
29338495 CTCAAGTAAT
* * * * * * * *
29338505 CTTCGGGATTTAG-CAGGATATAAGT-ACTTGCAC-AAGGCCTTCGGGTCTTAGCCCAGATGTGG
1 CTTCGGGACTTAGCCCGGATAT-AGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAG
*
29338567 TCACTAGCATAAATGC
65 TCACTAGCACAAATGC
* * * *
29338583 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGT
*
29338648 CGCTAGCACAAATGC
66 CACTAGCACAAATGC
* * * *
29338663 CTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAATGCCTTCGGATCTTAGTCCGGTTATA
1 CTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATGCCTTCGGATCTTAGCCCGGATATA
*
29338726 GTCACCTAGCACAAAAGC
64 GTCA-CTAGCACAAATGC
29338744 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
29338766 CATTCGAATA
Statistics
Matches: 154, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
78 15 0.10
79 14 0.09
80 91 0.59
81 34 0.22
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:29345556 original size:28 final size:28
Alignment explanation
Indices: 29345478--29345569 Score: 121
Period size: 28 Copynumber: 3.3 Consensus size: 28
29345468 TGGGAAGTAG
29345478 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
29345506 TTGAGCTTGATGAGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * * *
29345534 TTGGGCCTGATGGGGCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
29345562 TTGGGCCT
1 TTGGGCCT
29345570 AAAGGGGCCA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.22, C:0.14, G:0.36, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:29346181 original size:27 final size:28
Alignment explanation
Indices: 29345892--29346199 Score: 338
Period size: 27 Copynumber: 11.4 Consensus size: 28
29345882 GAGAAATTAG
*
29345892 CGAAATACCC-CCAGTTTGTAAAATTACT
1 CGAAATACCCTCGA-TTTGTAAAATTACT
* *
29345920 -GAAGTACCC-CTAGTTTGTAAAATTACT
1 CGAAATACCCTCGA-TTTGTAAAATTACT
*
29345947 -GAAATACCCCCGATTTGTAAAATTACT
1 CGAAATACCCTCGATTTGTAAAATTACT
* *
29345974 -AAAATACCCCCGATTTGTAAAATTA-T
1 CGAAATACCCTCGATTTGTAAAATTACT
*
29346000 TGAAATACCCTCGATTTGTAAAATTA-T
1 CGAAATACCCTCGATTTGTAAAATTACT
* *
29346027 AGAAACACCCTCGATTTGTAAAATTA-T
1 CGAAATACCCTCGATTTGTAAAATTACT
29346054 CGAAATACCCTCGATTTGTAAAATTA-T
1 CGAAATACCCTCGATTTGTAAAATTACT
*
29346081 CGAAATACCCTCGATATGTAAAATTACT
1 CGAAATACCCTCGATTTGTAAAATTACT
*
29346109 -GAAATACCCTCTATTTGTAAAATTAC-
1 CGAAATACCCTCGATTTGTAAAATTACT
* *
29346135 CGAAACACCCCCGATTTGTAAAATT-CT
1 CGAAATACCCTCGATTTGTAAAATTACT
* * *
29346162 GGAAATACCCT-TATAGTGTAAAATTAC-
1 CGAAATACCCTCGAT-TTGTAAAATTACT
*
29346189 CGAAATTCCCT
1 CGAAATACCCT
29346200 TGTAGTGTAA
Statistics
Matches: 249, Mismatches: 24, Indels: 15
0.86 0.08 0.05
Matches are distributed among these distances:
26 4 0.02
27 241 0.97
28 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (28 bp):
CGAAATACCCTCGATTTGTAAAATTACT
Found at i:29346200 original size:27 final size:27
Alignment explanation
Indices: 29346043--29346239 Score: 152
Period size: 27 Copynumber: 7.3 Consensus size: 27
29346033 ACCCTCGATT
* * *
29346043 TGTAAAATTATCGAAATACCCTCGAT-T
1 TGTAAAATTACCGAAATACCCT-TATAG
* *
29346070 TGTAAAATTATCGAAATACCCTCGATA-
1 TGTAAAATTACCGAAATACCCT-TATAG
* *
29346097 TGTAAAATTACTGAAATACCCTCTAT-T
1 TGTAAAATTACCGAAATACCCT-TATAG
* ** *
29346124 TGTAAAATTACCGAAACACCCCCGAT-T
1 TGTAAAATTACCGAAATA-CCCTTATAG
*
29346151 TGTAAAATT-CTGGAAATACCCTTATAG
1 TGTAAAATTAC-CGAAATACCCTTATAG
* *
29346178 TGTAAAATTACCGAAATTCCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTATAG
* * *
29346205 TGTAAAATGACCGACATACCCCTATAG
1 TGTAAAATTACCGAAATACCCTTATAG
*
29346232 GGTAAAAT
1 TGTAAAAT
29346240 GACTGTTTTG
Statistics
Matches: 143, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
26 6 0.04
27 133 0.93
28 4 0.03
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTATAG
Found at i:29346209 original size:81 final size:80
Alignment explanation
Indices: 29345885--29346226 Score: 379
Period size: 81 Copynumber: 4.2 Consensus size: 80
29345875 TAATAAAGAG
* * *
29345885 AAATTAGCGAAATACCCCC-AGTTTGTAAAATTACTGAAGTACCC-CTAGTTTGTAAAATTACTG
1 AAATTACCGAAATACCCCCGA-TTTGTAAAATTA-TGAAATACCCTCGA-TTTGTAAAATTACTG
*
29345948 AAATACCCCCGATTTGTA
63 AAATACCCTCGATTTGTA
**
29345966 AAATTACTAAAATACCCCCGATTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTA-TAGA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTA-TGAAATACCCTCGATTTGTAAAATTACT-GA
*
29346030 AACACCCTCGATTTGTA
64 AATACCCTCGATTTGTA
* * *
29346047 AAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATATGTAAAATTACTGAA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTAT-GAAATACCCTCGATTTGTAAAATTACTGAA
*
29346112 ATACCCTCTATTTGTA
65 ATACCCTCGATTTGTA
* * * * *
29346128 AAATTACCGAAACACCCCCGATTTGTAAAATTCTGGAAATACCCT-TATAGTGTAAAATTACCGA
1 AAATTACCGAAATACCCCCGATTTGTAAAATTAT-GAAATACCCTCGAT-TTGTAAAATTACTGA
* * *
29346192 AATTCCCTTG-TAGTGTA
64 AATACCCTCGAT-TTGTA
* *
29346209 AAATGACCGACATACCCC
1 AAATTACCGAAATACCCC
29346227 TATAGGGTAA
Statistics
Matches: 224, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
80 5 0.02
81 215 0.96
82 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (80 bp):
AAATTACCGAAATACCCCCGATTTGTAAAATTATGAAATACCCTCGATTTGTAAAATTACTGAAA
TACCCTCGATTTGTA
Found at i:29346820 original size:27 final size:27
Alignment explanation
Indices: 29346761--29346820 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
29346751 AGATGGTCTA
* *
29346761 GGCCCAATTGATTATGTTATGGGCTGT
1 GGCCCAAATGATTATGTAATGGGCTGT
* * *
29346788 GACCCAAATGATTTTGTAATGGGCTTT
1 GGCCCAAATGATTATGTAATGGGCTGT
29346815 GGCCCA
1 GGCCCA
29346821 CGTATGCTCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (27 bp):
GGCCCAAATGATTATGTAATGGGCTGT
Found at i:29350662 original size:42 final size:41
Alignment explanation
Indices: 29350566--29350679 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 41
29350556 CTCATACAAC
* * * *
29350566 GCCAACGTCCCAGACATGGTCTTACATGTAATCAA-ATATCGAT
1 GCCAATGTCCCAGACAGGGTCTTAAACG-AA--AACATATCGAT
* *
29350609 GCCATTGTCCCAGATAGGGTCTTAAACGAAAACATATACGAT
1 GCCAATGTCCCAGACAGGGTCTTAAACGAAAACATAT-CGAT
* *
29350651 GCCAATGTCCCAGACATGGTCTTACACGA
1 GCCAATGTCCCAGACAGGGTCTTAAACGA
29350680 TAACTCATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
40 2 0.03
41 4 0.07
42 31 0.53
43 22 0.37
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (41 bp):
GCCAATGTCCCAGACAGGGTCTTAAACGAAAACATATCGAT
Found at i:29360158 original size:368 final size:368
Alignment explanation
Indices: 29359683--29360749 Score: 2044
Period size: 368 Copynumber: 2.9 Consensus size: 368
29359673 ATGATAAATA
29359683 GATATGTATCGGTACAGGTATGTACTGAAAACTATACATGTAAGGAGTTAGAAGGAGTTGAGGAC
1 GATATGTATCGGTACAGGTATGTACTGAAAACTATACATGTAAGGAGTTAGAAGGAGTTGAGGAC
29359748 TTATGAGTTACAATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATTAT
66 TTATGAGTTACAATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATTAT
29359813 GTTATCCATTTGAAATGGTAATGAATGTTGTAATTATTTCATATTTACATACGAACTTACTAAGC
131 GTTATCCATTTGAAATGGTAATGAATGTTGTAATTATTTCATATTTACATACGAACTTACTAAGC
* *
29359878 TTTATAGCTTACTTTATTTATTTCTCAATGTTTTATAGTTTTATGAAGCTAGCTTGGATTTGTGG
196 TTTATAGCTTACTTTATTTATTTCTCGATGTTTTATAGTTTTATGAAGCTAGCTTGGATCTGTGG
29359943 ATCATTAGAGACTTTATCGCACTATCGGACATCTATTTTGGTACTTTTGTAGCGTGTATATATGA
261 ATCATTAGAGACTTTATCGCACTATCGGACATCTATTTTGGTACTTTTGTAGCGTGTATATATGA
29360008 TATATAGCTTGTATAGGCTTATGTCATTTTGGTATGCTTGATG
326 TATATAGCTTGTATAGGCTTATGTCATTTTGGTATGCTTGATG
*
29360051 GATATGTATCGGTACAGGTATGTACTGAAAACTATACATGTAAGGAGTTAGAAAGAGTTGAGGAC
1 GATATGTATCGGTACAGGTATGTACTGAAAACTATACATGTAAGGAGTTAGAAGGAGTTGAGGAC
29360116 TTATGAGTTACAATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATTAT
66 TTATGAGTTACAATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATTAT
*
29360181 GTTATCCATTTGAAATGGTAATGAATGTTGTAATTATTTCATATTTACATACAAACTTACTAAGC
131 GTTATCCATTTGAAATGGTAATGAATGTTGTAATTATTTCATATTTACATACGAACTTACTAAGC
*
29360246 TTTATAGCTTACTTTATTTATTTCTCGATGTTTTATAGTTTTATGAATCTAGCTTGGATCTGTGG
196 TTTATAGCTTACTTTATTTATTTCTCGATGTTTTATAGTTTTATGAAGCTAGCTTGGATCTGTGG
29360311 ATCATTAGAGACTTTATCGCACTATCGGACATCTATTTTGGTACTTTTGTAGCGTGTATATATGA
261 ATCATTAGAGACTTTATCGCACTATCGGACATCTATTTTGGTACTTTTGTAGCGTGTATATATGA
29360376 TATATAGCTTGTATAGGCTTATGTCATTTTGGTATGCTTGATG
326 TATATAGCTTGTATAGGCTTATGTCATTTTGGTATGCTTGATG
*
29360419 GATATGTGTCGGTACAGGTATGTACTGAAAACTATACATGTAAGGAGTTAGAAGGAGTTGAGGAC
1 GATATGTATCGGTACAGGTATGTACTGAAAACTATACATGTAAGGAGTTAGAAGGAGTTGAGGAC
29360484 TTATGAGTTACAATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATTAT
66 TTATGAGTTACAATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATTAT
*
29360549 GTTATCCATTTGAAATGGTAATGAATGTTGTAATTATTTCATATTTACATACGAACTTACTAAGA
131 GTTATCCATTTGAAATGGTAATGAATGTTGTAATTATTTCATATTTACATACGAACTTACTAAGC
29360614 TTTATAGCTTACTTTATTTATTTCTCGATGTTTTATAGTTTTATGAAGCTAGCTTGGATCTGTGG
196 TTTATAGCTTACTTTATTTATTTCTCGATGTTTTATAGTTTTATGAAGCTAGCTTGGATCTGTGG
* * *
29360679 ATCATTAGAGACTTTATCGCACTATCGGACATCTATTTTGGTACTTTTGAAGCATGTATATATGG
261 ATCATTAGAGACTTTATCGCACTATCGGACATCTATTTTGGTACTTTTGTAGCGTGTATATATGA
29360744 TATATA
326 TATATA
29360750 TGTAACGCCC
Statistics
Matches: 686, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
368 686 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (368 bp):
GATATGTATCGGTACAGGTATGTACTGAAAACTATACATGTAAGGAGTTAGAAGGAGTTGAGGAC
TTATGAGTTACAATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATTAT
GTTATCCATTTGAAATGGTAATGAATGTTGTAATTATTTCATATTTACATACGAACTTACTAAGC
TTTATAGCTTACTTTATTTATTTCTCGATGTTTTATAGTTTTATGAAGCTAGCTTGGATCTGTGG
ATCATTAGAGACTTTATCGCACTATCGGACATCTATTTTGGTACTTTTGTAGCGTGTATATATGA
TATATAGCTTGTATAGGCTTATGTCATTTTGGTATGCTTGATG
Found at i:29362510 original size:28 final size:28
Alignment explanation
Indices: 29362478--29362542 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
29362468 ATTTACTAGA
*
29362478 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
29362506 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
29362534 ATACCCCTA
1 ATACCCCTA
29362543 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:29362723 original size:27 final size:28
Alignment explanation
Indices: 29362647--29362735 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
29362637 AGGAAGCGTC
* *
29362647 CTGGTGGCTA-TGCCACAAACTATCTATT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * *
29362675 CTGGTGGCCCTGCCA-TATATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
29362702 -TGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
29362730 CTGGTG
1 CTGGTG
29362736 ACTCTGTCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 13 0.27
27 17 0.35
28 14 0.29
29 5 0.10
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:29362746 original size:29 final size:27
Alignment explanation
Indices: 29362657--29362746 Score: 65
Period size: 27 Copynumber: 3.3 Consensus size: 27
29362647 CTGGTGGCTA
* * * *
29362657 TGCCACAAACTATCTATTCTGGTGGCCC
1 TGCCACAAAATATCTGTT-TGGTGACAC
* * *
29362685 TGCCA-TATATATCTGTTTGGTGGCAC
1 TGCCACAAAATATCTGTTTGGTGACAC
*
29362711 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-T-TGGTGACAC
*
29362740 TGTCACA
1 TGCCACA
29362747 TTTTCTGTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
26 13 0.27
27 17 0.35
28 6 0.12
29 13 0.27
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (27 bp):
TGCCACAAAATATCTGTTTGGTGACAC
Found at i:29363850 original size:11 final size:10
Alignment explanation
Indices: 29363822--29363855 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
29363812 AGCCTGTAAG
29363822 TATTCTGAAT
1 TATTCTGAAT
*
29363832 TTTTCTGAAT
1 TATTCTGAAT
29363842 ATATTCTGAAT
1 -TATTCTGAAT
29363853 TAT
1 TAT
29363856 CTTCTGTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:29370364 original size:28 final size:28
Alignment explanation
Indices: 29370332--29370396 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
29370322 ATTTACTAGA
*
29370332 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
29370360 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
29370388 ATACCCCTA
1 ATACCCCTA
29370397 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:29370560 original size:27 final size:27
Alignment explanation
Indices: 29370502--29370591 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
29370492 AGGAAGCGTC
*
29370502 CTGGTGGCTA-TGCCACAAACTATCTATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
29370530 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
29370557 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
29370586 CTGGTG
1 CTGGTG
29370592 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:29370602 original size:29 final size:28
Alignment explanation
Indices: 29370512--29370602 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
29370502 CTGGTGGCTA
* * * *
29370512 TGCCACAAACTATCTATTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
29370540 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
29370567 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
29370596 TGTCACA
1 TGCCACA
29370603 TTTTCTATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.43
28 15 0.28
29 15 0.28
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:29373309 original size:13 final size:12
Alignment explanation
Indices: 29373293--29373330 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
29373283 GAACACACAT
29373293 GCCCGTGTGGCTA
1 GCCCGTGT-GCTA
29373306 GCCCGTGTGCTA
1 GCCCGTGTGCTA
*
29373318 GGCCGTGTGCTA
1 GCCCGTGTGCTA
29373330 G
1 G
29373331 GTCGTGCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.08, C:0.29, G:0.39, T:0.24
Consensus pattern (12 bp):
GCCCGTGTGCTA
Found at i:29373323 original size:12 final size:12
Alignment explanation
Indices: 29373295--29373336 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
29373285 ACACACATGC
*
29373295 CCGTGTGGCTAGC
1 CCGTGT-GCTAGG
29373308 CCGTGTGCTAGG
1 CCGTGTGCTAGG
29373320 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
29373332 TCGTG
1 CCGTG
29373337 CCAATCTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 21 0.78
13 6 0.22
ACGTcount: A:0.07, C:0.26, G:0.40, T:0.26
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:29378478 original size:18 final size:17
Alignment explanation
Indices: 29378457--29378505 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 17
29378447 AAGTAATTTC
29378457 AAAATATAAATAAAGATA
1 AAAATATAAATAAAG-TA
*
29378475 AAAATAATAAAAAAAGTA
1 AAAAT-ATAAATAAAGTA
29378493 AAAATATATAATA
1 AAAATATA-AATA
29378506 GGTGTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 3 0.11
18 15 0.56
19 9 0.33
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (17 bp):
AAAATATAAATAAAGTA
Found at i:29389121 original size:40 final size:40
Alignment explanation
Indices: 29389047--29389192 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
29389037 CCGCACCAAG
* * * * * *
29389047 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
29389087 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
29389127 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
29389167 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
29389193 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:29389207 original size:40 final size:40
Alignment explanation
Indices: 29389079--29389230 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
29389069 ATCACGATTT
* * * * *
29389079 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
29389119 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
29389159 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
29389199 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
29389231 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:29396905 original size:40 final size:40
Alignment explanation
Indices: 29396831--29396976 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
29396821 CCGCACCAAG
* * * * * *
29396831 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
29396871 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
29396911 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
29396951 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
29396977 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:29401506 original size:30 final size:30
Alignment explanation
Indices: 29401472--29401551 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
29401462 TTCTTGACAC
* *
29401472 ATCCCTTTTCGTAATTTGATAACCGAAGTT
1 ATCCCTTTTCATAATTTGATAACCGAAGAT
** * * *
29401502 ATCCCTTTTCATAATTCAACAGCTGAAGAT
1 ATCCCTTTTCATAATTTGATAACCGAAGAT
29401532 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
29401552 GGTCGTCACC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAACCGAAGAT
Found at i:29401571 original size:30 final size:30
Alignment explanation
Indices: 29401532--29401725 Score: 148
Period size: 30 Copynumber: 6.5 Consensus size: 30
29401522 AGCTGAAGAT
29401532 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* ** *
29401562 ATCCTTTTTCATTGTTTGATGGTCGTCACT
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * *
29401592 ATCCCTTTTCATAATTTGATAGTCG-AATCT
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
* * * *
29401622 ATCCCTTTTCATTGA-TTGATGGCCG-AAGAC
1 ATCCCTTTTCA-TAATTTGATGGTCGTCA-CC
* ** * *
29401652 ATCCCTTTTCATAGTTCAATGGTCGACATC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
*
29401682 AT-CCTTTT--TTATTGCTGATGGTCGTCACC
1 ATCCCTTTTCATAATT--TGATGGTCGTCACC
29401711 ATCCCTTTTCATAAT
1 ATCCCTTTTCATAAT
29401726 CGATAACTGA
Statistics
Matches: 126, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
27 3 0.02
29 20 0.16
30 97 0.77
31 3 0.02
32 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:29401595 original size:60 final size:58
Alignment explanation
Indices: 29401531--29401725 Score: 203
Period size: 60 Copynumber: 3.3 Consensus size: 58
29401521 CAGCTGAAGA
29401531 TATCCCTTTTCATAATTTGATGGTCGTCACCATCCTTTTTCATTGTTTGATGGTCGTCAC
1 TATCCCTTTTCATAATTTGATGGTCG-CACCATCCTTTTTCATTG-TTGATGGTCGTCAC
* * * * * **
29401591 TATCCCTTTTCATAATTTGATAGTCGAATCTATCCCTTTTCATTGATTGATGGCCGAAGAC
1 TATCCCTTTTCATAATTTGATGGTCGCA-CCATCCTTTTTCATTG-TTGATGGTCG-TCAC
* ** * * *
29401652 -ATCCCTTTTCATAGTTCAATGGTCGACATCATCCTTTTTTATTGCTGATGGTCGTCAC
1 TATCCCTTTTCATAATTTGATGGTCG-CACCATCCTTTTTCATTGTTGATGGTCGTCAC
*
29401710 CATCCCTTTTCATAAT
1 TATCCCTTTTCATAAT
29401726 CGATAACTGA
Statistics
Matches: 109, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
58 2 0.02
59 23 0.21
60 81 0.74
61 3 0.03
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (58 bp):
TATCCCTTTTCATAATTTGATGGTCGCACCATCCTTTTTCATTGTTGATGGTCGTCAC
Found at i:29409159 original size:20 final size:20
Alignment explanation
Indices: 29409106--29409159 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
29409096 AACAAGGGTC
29409106 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
* *
29409126 ACAAGTCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
*
29409146 ACACGCCCGAGTGG
1 ACACGCCCGTGTGG
29409160 GCAAGCCAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.28, G:0.39, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:29410196 original size:22 final size:22
Alignment explanation
Indices: 29410170--29410214 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
29410160 ATTATGAGTA
29410170 TTCACTTTTCAAGCATATATTC
1 TTCACTTTTCAAGCATATATTC
29410192 TTCACTTTTCAAGCATATATTC
1 TTCACTTTTCAAGCATATATTC
29410214 T
1 T
29410215 AACATCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (22 bp):
TTCACTTTTCAAGCATATATTC
Found at i:29412442 original size:42 final size:42
Alignment explanation
Indices: 29412331--29412452 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
29412321 TACCATACCA
* ** **
29412331 ATGCCATATCCCAGATATAGTCTTACATGTAATCTTGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATCAAATCTCATATCG
* * *
29412373 ATGCCAAGAGCCCAGCTATGGTCTTACA-CAAATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATCAAA-TCTCATATCG
**
29412416 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATCAAATCTCA
29412453 GTAATCCTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATCAAATCTCATATCG
Found at i:29414014 original size:42 final size:42
Alignment explanation
Indices: 29413894--29414014 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
29413884 TACTGTACCA
* *
29413894 ATGCCA-ATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * *
29413935 ATGCCAATAGCCCAGCTATGGTCTTACACG-AATTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
*
29413978 ATGCCATATCCCAGATATGGTCTTATACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
29414015 GTAACCCTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
41 5 0.07
42 29 0.43
43 34 0.50
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:29424160 original size:42 final size:42
Alignment explanation
Indices: 29424110--29424221 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 42
29424100 CGGGCTTTGA
* ** *
29424110 GCCTAGCAAGCCTTGTGCTGGTGTATTAAATCGGGCTTTATT
1 GCCTAGCAAGCCTTATGCCAGTGTATTAAATCAGGCTTTATT
* **
29424152 GCCTAGCAAGCTTTATGCCAGTGTATTATTTCAGGCTTTATT
1 GCCTAGCAAGCCTTATGCCAGTGTATTAAATCAGGCTTTATT
* * *
29424194 ACCTAGCAGGCTTTATGCCAGTGTATTA
1 GCCTAGCAAGCCTTATGCCAGTGTATTA
29424222 TGTCAGGCCT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (42 bp):
GCCTAGCAAGCCTTATGCCAGTGTATTAAATCAGGCTTTATT
Found at i:29424222 original size:42 final size:42
Alignment explanation
Indices: 29424143--29424263 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 42
29424133 TATTAAATCG
* *
29424143 GGCTTTATTGCCTAGCAAGCTTTATGCCAGTGTATTATTTCA
1 GGCTTTATTGCCTAGCAGGCTTTATGCCAGTGTATTATGTCA
*
29424185 GGCTTTATTACCTAGCAGGCTTTATGCCAGTGTATTATGTCA
1 GGCTTTATTGCCTAGCAGGCTTTATGCCAGTGTATTATGTCA
* * * * *
29424227 GGC-CTATTGCTTAGCAGGTTTTGTGCCGGTGTATTAT
1 GGCTTTATTGCCTAGCAGGCTTTATGCCAGTGTATTAT
29424264 ACTAGGCTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 28 0.40
42 42 0.60
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (42 bp):
GGCTTTATTGCCTAGCAGGCTTTATGCCAGTGTATTATGTCA
Found at i:29425847 original size:2 final size:2
Alignment explanation
Indices: 29425840--29425878 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
29425830 ATAAGTTATT
29425840 TA TA TA TA TA 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 TA TA TA TA TA T
29425879 TGTTTGAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29432754 original size:47 final size:47
Alignment explanation
Indices: 29432700--29432981 Score: 483
Period size: 47 Copynumber: 6.0 Consensus size: 47
29432690 ACGTGGTAAA
29432700 GCCGAATGGCCAATGTGATGAATGTGAATGTGTATATATGTGATAAG
1 GCCGAATGGCCAATGTGATGAATGTGAATGTGTATATATGTGATAAG
* * *
29432747 GCCGAATGGCCAATGTGACGAATGTGAATATGCATATATGTGATAAG
1 GCCGAATGGCCAATGTGATGAATGTGAATGTGTATATATGTGATAAG
*
29432794 GCCAAATGGCCAATGTGATGAATGTGAATGTGTATATATGTGATAAG
1 GCCGAATGGCCAATGTGATGAATGTGAATGTGTATATATGTGATAAG
*
29432841 GCCGAATGGCCAATGTGATGAATGTGAATGTGTATATATGTGATACG
1 GCCGAATGGCCAATGTGATGAATGTGAATGTGTATATATGTGATAAG
29432888 GCCGAATGGCCAATGTGATGAATGTGAATGTGTATATATGTGATAAG
1 GCCGAATGGCCAATGTGATGAATGTGAATGTGTATATATGTGATAAG
* * * *
29432935 GCCAAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GCCGAATGGCCAATGTGATGAATGTGAATGTGTATATATGTGATAAG
29432982 TCCCGAAGGG
Statistics
Matches: 221, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 221 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
GCCGAATGGCCAATGTGATGAATGTGAATGTGTATATATGTGATAAG
Found at i:29439247 original size:30 final size:30
Alignment explanation
Indices: 29439211--29439271 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
29439201 TTCCCGAGCC
29439211 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
29439241 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
29439271 T
1 T
29439272 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:29445361 original size:40 final size:40
Alignment explanation
Indices: 29445301--29445414 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
29445291 TTATTTGTGG
* *
29445301 CACTTAGTGTGCAATACGACATAGCTTCGTCTATATATGA
1 CACTTAGTGTGCAATTCGACATAGCTTCGACTATATATGA
* * *
29445341 CACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGG
1 CACTTAGTGTGCAATTCGACATAGCTTCGACTATATATGA
* *
29445381 CACTTAGTGTG-ATATTTGAGATAGCTTCGACTAT
1 CACTTAGTGTGCA-ATTCGACATAGCTTCGACTAT
29445415 GTACGGTACT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (40 bp):
CACTTAGTGTGCAATTCGACATAGCTTCGACTATATATGA
Found at i:29445426 original size:40 final size:40
Alignment explanation
Indices: 29445299--29445437 Score: 136
Period size: 40 Copynumber: 3.4 Consensus size: 40
29445289 GGTTATTTGT
* * *
29445299 GGCACTTAGTGTGCA-ATACGACATAGCTTCGTCTATATAT
1 GGCACTTAGTGTG-AGATTCGACATAGCTTCGACTATATAC
* * * *
29445339 GACACTTAGTGTGCGATTCGACATAGCTTCGGCTATATAT
1 GGCACTTAGTGTGAGATTCGACATAGCTTCGACTATATAC
* * * *
29445379 GGCACTTAGTGTGATATTTGAGATAGCTTCGACTATGTAC
1 GGCACTTAGTGTGAGATTCGACATAGCTTCGACTATATAC
*
29445419 GGTACTTAGTATGTGAGAT
1 GGCACTTAG--TGTGAGAT
29445438 ATTGAGTATG
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 75 0.91
42 7 0.09
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (40 bp):
GGCACTTAGTGTGAGATTCGACATAGCTTCGACTATATAC
Found at i:29447648 original size:39 final size:40
Alignment explanation
Indices: 29447547--29447888 Score: 403
Period size: 39 Copynumber: 8.7 Consensus size: 40
29447537 TTGAATGATG
* * *
29447547 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
**
29447586 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
29447627 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
29447666 CCCGGGTTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
29447705 TCCGAGTTAAGTCCCGAAGGCGTTTGTGCAAGTTACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29447745 TCCGGGTTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
29447784 TCCGGGTTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
29447823 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
29447862 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGTTAAGTCCCGAAGGCATTTG
29447889 AACGAGTAGC
Statistics
Matches: 270, Mismatches: 25, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
39 145 0.54
40 115 0.43
41 10 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:29447767 original size:118 final size:118
Alignment explanation
Indices: 29447600--29447888 Score: 456
Period size: 118 Copynumber: 2.4 Consensus size: 118
29447590 GGACTAAGAT
29447600 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-A
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
29447664 ATCCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGTTAAGTC
66 AT-CCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGTTAAGTC
* * * *
29447718 CCGAAGGCGTTTGTGCAAGTTACTAATTCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
* *
29447783 ATCCGGGTTAAGCCCGAAGGCATTGGTGTGAGTTACTAAATCCGGGTTAAGTC
66 ATCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGTTAAGTC
* * *
29447836 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 CCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAG-CCCGAAGGCATTTG
29447889 AACGAGTAGC
Statistics
Matches: 155, Mismatches: 13, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
117 2 0.01
118 137 0.88
119 16 0.10
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
ATCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGTTAAGTC
Found at i:29447911 original size:79 final size:79
Alignment explanation
Indices: 29447547--29447888 Score: 428
Period size: 79 Copynumber: 4.3 Consensus size: 79
29447537 TTGAATGATG
* * **
29447547 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATCCGGGTTAAG-TCCCGAAGGCAT
* *
29447610 TTGTGCGAGTTACTAAT
63 TGGTGCGAGTTACTAAA
29447627 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAATCCCGGGTTAAG-CCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-CCGGGTTAAGTCCCGAAGGCATTG
29447690 GTGCGAGTTACTAAA
65 GTGCGAGTTACTAAA
* * * *
29447705 TCCGAGTTAAGTCCCGAAGGCGTTTGTGCAAGTTACTAATTCCGGGTTAAG-CCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-TCCGGGTTAAGTCCCGAAGGCATTG
29447769 GTGCGAGTTACTAAA
65 GTGCGAGTTACTAAA
* * * *
29447784 TCCGGGTTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATCCGGGTTAAGTCCCGAAGGCATTG
*
29447848 GTGTGAGTTACTATAA
65 GTGCGAGTTACTA-AA
*
29447864 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29447889 AACGAGTAGC
Statistics
Matches: 233, Mismatches: 20, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
78 68 0.29
79 131 0.56
80 34 0.15
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATCCGGGTTAAGTCCCGAAGGCATTGG
TGCGAGTTACTAAA
Found at i:29451228 original size:40 final size:40
Alignment explanation
Indices: 29451090--29451305 Score: 275
Period size: 39 Copynumber: 5.5 Consensus size: 40
29451080 TGGATGATAA
*
29451090 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
29451131 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
29451171 CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
29451210 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
29451250 -CGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
29451288 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
29451306 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
37 2 0.01
38 26 0.16
39 57 0.36
40 45 0.28
41 24 0.15
42 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:29451229 original size:79 final size:79
Alignment explanation
Indices: 29451093--29451305 Score: 274
Period size: 79 Copynumber: 2.7 Consensus size: 79
29451083 ATGATAACCG
* *
29451093 GGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTGG
*
29451156 TGCGAGTTATTACATCC
63 TGCGAGTTACTACATCC
29451173 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGTGC
* *
29451238 GAGTTACTATATCG
66 GAGTTACTACATCC
* * * *
29451252 GGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
29451306 TACTTGGCTT
Statistics
Matches: 121, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
77 16 0.13
78 17 0.14
79 63 0.52
80 21 0.17
81 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGTGC
GAGTTACTACATCC
Found at i:29454277 original size:46 final size:46
Alignment explanation
Indices: 29454114--29454289 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
29454104 TGTAACCCGC
* * * * * *
29454114 CCATAAGCGAACTTAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * * *
29454160 CCATGAGTGAACTCAGAATCAACTCAACGAGTTCAGATGCCTAGTTACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTC-G--GAC-ATTTGCAT
* *
29454210 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
*
29454253 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA
29454290 TGCCCAAACA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 2 0.02
46 57 0.56
47 25 0.25
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:29454308 original size:46 final size:47
Alignment explanation
Indices: 29454165--29454308 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 47
29454155 CGCATCCATG
* * *
29454165 AGTGAACTCAGAATCAACTCAACGAGTTCAGATGCCTAGTTACAT-CTC
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTA--TACATCCTA
* * * * *
29454213 A-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCATA
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTATACATCC-TA
* *
29454258 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT-
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTATACATCCTA
29454304 AGTGA
1 AGTGA
29454309 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.05
44 1 0.01
45 4 0.05
46 33 0.43
47 27 0.36
48 7 0.09
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (47 bp):
AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTATACATCCTA
Found at i:29464997 original size:31 final size:31
Alignment explanation
Indices: 29464973--29465046 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 31
29464963 ATATTGAGTC
29464973 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATATTCAGCT
*
29465004 CGCACACTTAGTGC--TATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATATTC-AGCT
29465032 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29465047 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 6 0.15
31 14 0.35
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
CGCACACTTAGTGCTATATATATATTCAGCT
Found at i:29465042 original size:28 final size:29
Alignment explanation
Indices: 29464973--29465046 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 29
29464963 ATATTGAGTC
*
29464973 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATA-T-AACT
29465004 CGCACACTTAGTGCTATATA-ATCA-AACT
1 CGCACACTTAGTGCTATATATAT-ATAACT
29465032 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29465047 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 18 0.44
30 2 0.05
31 21 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATATAACT
Found at i:29473660 original size:29 final size:29
Alignment explanation
Indices: 29473530--29473652 Score: 237
Period size: 29 Copynumber: 4.2 Consensus size: 29
29473520 GTGACGAGAT
29473530 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29473559 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29473588 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29473617 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
29473646 CGGCACT
1 TGGCACT
29473653 GGGTGTGCGA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 93 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:29473677 original size:58 final size:58
Alignment explanation
Indices: 29473531--29473689 Score: 212
Period size: 58 Copynumber: 2.7 Consensus size: 58
29473521 TGACGAGATT
* * *
29473531 GGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATAC
* *
29473589 GGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATAC
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATAC
** * * *
29473647 GGCACTGGGTGTGCGA-GCTCGAAGGGTATGGCACTATGTGTGC
1 GGCACTAAGTGTGC-ATGCTCGAAAGATATGGCACTAAGTGTGC
29473690 GGGCTTAAAT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
58 91 0.99
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (58 bp):
GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATAC
Found at i:29473677 original size:87 final size:87
Alignment explanation
Indices: 29473530--29473689 Score: 232
Period size: 87 Copynumber: 1.8 Consensus size: 87
29473520 GTGACGAGAT
* * *
29473530 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
29473595 AAGTGTGCATGCTGGAAATATA
66 AAGTGTGCATGCTGGAAATATA
** * *
29473617 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
*
29473681 TATGTGTGC
65 TAAGTGTGC
29473690 GGGCTTAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCATGCTGGAAATATA
Found at i:29473707 original size:87 final size:87
Alignment explanation
Indices: 29473530--29473718 Score: 229
Period size: 87 Copynumber: 2.2 Consensus size: 87
29473520 GTGACGAGAT
* * *
29473530 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
29473595 AAGTGTGCATGCTGGAAATATA
66 AAGTGTGCAGGCTGGAAATACA
** * *
29473617 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
* * * *
29473681 TATGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAAT-ACA
29473704 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
29473719 GAAATCGAGT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
86 4 0.05
87 82 0.94
88 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGGAAATACA
Found at i:29481529 original size:29 final size:29
Alignment explanation
Indices: 29481399--29481521 Score: 237
Period size: 29 Copynumber: 4.2 Consensus size: 29
29481389 GTGACGAGAT
29481399 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29481428 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29481457 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29481486 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
29481515 CGGCACT
1 TGGCACT
29481522 GGGTGTGCGA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 93 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:29481546 original size:58 final size:58
Alignment explanation
Indices: 29481400--29481558 Score: 212
Period size: 58 Copynumber: 2.7 Consensus size: 58
29481390 TGACGAGATT
* * *
29481400 GGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATAC
* *
29481458 GGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATAC
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATAC
** * * *
29481516 GGCACTGGGTGTGCGA-GCTCGAAGGGTATGGCACTATGTGTGC
1 GGCACTAAGTGTGC-ATGCTCGAAAGATATGGCACTAAGTGTGC
29481559 GGGCTTAAAT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
58 91 0.99
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (58 bp):
GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATAC
Found at i:29481546 original size:87 final size:87
Alignment explanation
Indices: 29481399--29481558 Score: 232
Period size: 87 Copynumber: 1.8 Consensus size: 87
29481389 GTGACGAGAT
* * *
29481399 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
29481464 AAGTGTGCATGCTGGAAATATA
66 AAGTGTGCATGCTGGAAATATA
** * *
29481486 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
*
29481550 TATGTGTGC
65 TAAGTGTGC
29481559 GGGCTTAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCATGCTGGAAATATA
Found at i:29481576 original size:87 final size:87
Alignment explanation
Indices: 29481399--29481587 Score: 229
Period size: 87 Copynumber: 2.2 Consensus size: 87
29481389 GTGACGAGAT
* * *
29481399 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
29481464 AAGTGTGCATGCTGGAAATATA
66 AAGTGTGCAGGCTGGAAATACA
** * *
29481486 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
* * * *
29481550 TATGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAAT-ACA
29481573 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
29481588 GAAATCGAGT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
86 4 0.05
87 82 0.94
88 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGGAAATACA
Found at i:29481627 original size:2 final size:2
Alignment explanation
Indices: 29481622--29481654 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
29481612 GTGCGTACTC
29481622 TA TA 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 TA TA T
29481655 CTCCGATCGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29485507 original size:29 final size:28
Alignment explanation
Indices: 29485475--29485548 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
29485465 GATTTAAGCC
*
29485475 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACAC-TAGTGCCATACAGTCCAAACT
* * * *
29485504 CGCACGCTTAGTGCCATACATTTCAAGCT
1 CGCACAC-TAGTGCCATACAGTCCAAACT
29485533 CGCACACTCAGTGCCA
1 CGCACACT-AGTGCCA
29485549 ATCTCGTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
28 1 0.03
29 36 0.97
ACGTcount: A:0.28, C:0.34, G:0.16, T:0.22
Consensus pattern (28 bp):
CGCACACTAGTGCCATACAGTCCAAACT
Found at i:29492964 original size:40 final size:40
Alignment explanation
Indices: 29492905--29493073 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
29492895 CGGGACTTTA
* * *
29492905 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
29492945 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
29492985 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
29493025 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
29493065 CCCGGATAT
1 CCCGGATAT
29493074 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:29505076 original size:39 final size:39
Alignment explanation
Indices: 29505022--29505174 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
29505012 GAATGTTCGA
* *
29505022 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
29505061 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
29505100 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
29505139 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
29505175 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:29505190 original size:40 final size:39
Alignment explanation
Indices: 29505023--29505204 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
29505013 AATGTTCGAG
* * *
29505023 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
29505062 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
29505101 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
29505140 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
29505180 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
29505205 TGTTTTGAAC
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:29506774 original size:40 final size:40
Alignment explanation
Indices: 29506720--29506904 Score: 271
Period size: 40 Copynumber: 4.6 Consensus size: 40
29506710 CTTGCACAAG
* *
29506720 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
29506760 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
29506800 GCCTTCAGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
29506840 GCCTTCGGGTCTTAGCCCGAATATAATCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
29506881 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
29506905 CATTCGAATA
Statistics
Matches: 131, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 99 0.76
41 32 0.24
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:29513833 original size:29 final size:28
Alignment explanation
Indices: 29513791--29513864 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
29513781 GTGACAAGAT
*
29513791 TGGCACTAAGTGTGC-AAGCTTGAAA-AGTA
1 TGGCACTAAGTGTGCGAA-CTT-AAATA-CA
29513820 TGGCACTAAGTGTGCGAACTTAAATTACA
1 TGGCACTAAGTGTGCGAACTTAAA-TACA
29513849 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29513865 TGATCGATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
28 3 0.07
29 35 0.85
30 3 0.07
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAACTTAAATACA
Found at i:29515275 original size:2 final size:2
Alignment explanation
Indices: 29515268--29515308 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
29515258 CAAAACAAAA
29515268 AT AT AT AT 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 AT AT AT AT A
29515309 AAGGGGGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29518198 original size:40 final size:40
Alignment explanation
Indices: 29518144--29518328 Score: 289
Period size: 40 Copynumber: 4.6 Consensus size: 40
29518134 CTTGCACAAG
* *
29518144 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
29518184 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
29518224 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
29518264 GCCTTCGGGTCTTAGCCCGGATATAATCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
29518305 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
29518329 CATTTGAATA
Statistics
Matches: 135, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 102 0.76
41 33 0.24
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:29518239 original size:80 final size:81
Alignment explanation
Indices: 29518108--29518328 Score: 299
Period size: 80 Copynumber: 2.8 Consensus size: 81
29518098 CTCAAGTAAT
* * * *
29518108 CTTCGGGATTTAG-CCGGATATAA-CTA-CTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATG
1 CTTCGGGACTTAGCCCGGATATAATC-ACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATA
*
29518169 GTCACTAGCACAGATGC
65 GTCACTAGCACAAATGC
* * *
29518186 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
*
29518250 TCGCTAGCACAAATGC
66 TCACTAGCACAAATGC
* *
29518266 CTTCGGGTCTTAGCCCGGATATAATCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
29518329 CATTTGAATA
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
78 12 0.10
79 15 0.12
80 66 0.52
81 33 0.26
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
TCACTAGCACAAATGC
Found at i:29519567 original size:28 final size:28
Alignment explanation
Indices: 29519527--29519582 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
29519517 AAGGGATGTA
29519527 TGAACTTTCAAAGCAACATTAAACATAC
1 TGAACTTTCAAAGCAACATTAAACATAC
29519555 TGAACTTTCAAAGCAACATTAAACATAC
1 TGAACTTTCAAAGCAACATTAAACATAC
29519583 CTTAATCTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (28 bp):
TGAACTTTCAAAGCAACATTAAACATAC
Found at i:29530854 original size:40 final size:40
Alignment explanation
Indices: 29530796--29530963 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
29530786 CAATTGAATG
* *
29530796 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
29530837 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
29530876 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
29530916 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
29530956 ATATCCGG
1 ATATCCGG
29530964 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:29530934 original size:80 final size:79
Alignment explanation
Indices: 29530796--29530963 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
29530786 CAATTGAATG
* * *
29530796 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
29530861 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
29530876 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
29530940 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
29530956 ATATCCGG
1 ATATCCGG
29530964 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:29535642 original size:40 final size:41
Alignment explanation
Indices: 29535590--29535685 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
29535580 TATCTCGGTA
*
29535590 TCGCACACTTAGTGCC-TCATGTAGCTGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCAT-ATGTAGCCGAAGCTATTTCCAAC
* * *
29535630 TCGCACACTTAGTGCCATTTGTAGCCGAAGTTATTTCGAAC
1 TCGCACACTTAGTGCCATATGTAGCCGAAGCTATTTCCAAC
*
29535671 -CGCACACTTAATGCC
1 TCGCACACTTAGTGCC
29535686 GAACTTAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 42 0.86
41 7 0.14
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATATGTAGCCGAAGCTATTTCCAAC
Found at i:29540431 original size:39 final size:39
Alignment explanation
Indices: 29540377--29540559 Score: 278
Period size: 39 Copynumber: 4.7 Consensus size: 39
29540367 GAATGTTCGA
29540377 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
29540416 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
29540455 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * * *
29540494 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTACGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
29540533 GTGATA-CTCGGGTTAAGTCCCGAAGGC
1 GTGATATC-CGGGCTAAG-CCCGAAGGC
29540560 CTTTGTGCGG
Statistics
Matches: 134, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 124 0.93
40 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:29548376 original size:39 final size:39
Alignment explanation
Indices: 29548329--29548432 Score: 154
Period size: 39 Copynumber: 2.6 Consensus size: 39
29548319 AATGTTCGAG
29548329 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
29548368 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGGGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
** * *
29548407 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
29548433 GTTTGAACGA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 50 0.85
40 9 0.15
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:29550337 original size:47 final size:48
Alignment explanation
Indices: 29550264--29550438 Score: 227
Period size: 47 Copynumber: 3.7 Consensus size: 48
29550254 GTAGGTAAGG
29550264 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCA
** * *
29550311 TGTTGATGCCATGTCCCAAACATGGTCTTACACT-GACT-ATCATCTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTCA
* *
29550358 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTCGA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-A
29550405 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
29550439 GGCTTAGTGG
Statistics
Matches: 110, Mismatches: 10, Indels: 15
0.81 0.07 0.11
Matches are distributed among these distances:
46 27 0.25
47 68 0.62
48 15 0.14
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCA
Found at i:29550475 original size:88 final size:90
Alignment explanation
Indices: 29550265--29550481 Score: 271
Period size: 94 Copynumber: 2.4 Consensus size: 90
29550255 TAGGTAAGGT
* **
29550265 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCATGTTGATGCCATGTCCCAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAA
29550330 ACATGGTCTTACACTGACTATCATCTCGTA
64 ACATGGTCTTACACTGACTATCA---CGTA
* *
29550360 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCGATGCCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACAT-ATCTC-ATGCCGATGCCATGTCCCAA
* *
29550424 ACATGGTCTTACACTGGCT-T-A-GTG
64 ACATGGTCTTACACTGACTATCACGTA
*
29550448 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
29550482 CCACAATGAC
Statistics
Matches: 112, Mismatches: 8, Indels: 11
0.85 0.06 0.08
Matches are distributed among these distances:
88 35 0.31
92 2 0.02
93 19 0.17
94 49 0.44
95 7 0.06
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (90 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTGACTATCACGTA
Found at i:29557646 original size:39 final size:39
Alignment explanation
Indices: 29557592--29557730 Score: 224
Period size: 39 Copynumber: 3.5 Consensus size: 39
29557582 GAATGTTCGA
*
29557592 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
29557631 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
29557670 ATGATATCCGGGCTAAGCCCGAAGGCACTTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
29557709 GTGATACCCGGGTTAAGTCCCG
1 GTGATATCCGGGCTAAG-CCCG
29557731 TAGGACTTTG
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.96
40 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:29557690 original size:78 final size:79
Alignment explanation
Indices: 29557593--29557775 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 79
29557583 AATGTTCGAG
*
29557593 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGG-
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATACCCGGGCTAAGTCCCGAAGGA
29557656 CAATTGTGCGAGTTA
66 C-ATTGTGCGAGTTA
* * * *
29557671 TGATATCCGGGCTAAGCCCGAAGGCACTTGTGCGAGTTGTGATACCCGGGTTAAGTCCCGTAGGA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATACCCGGGCTAAGTCCCGAAGGA
* *
29557736 CTTTGTGCGGGTTA
66 CATTGTGCGAGTTA
** * *
29557750 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
29557776 GTTTGAACGA
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 51 0.56
79 30 0.33
80 10 0.11
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATACCCGGGCTAAGTCCCGAAGGA
CATTGTGCGAGTTA
Found at i:29561740 original size:2 final size:2
Alignment explanation
Indices: 29561733--29561762 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
29561723 ATGAAAGCTT
29561733 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
29561763 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:29563224 original size:48 final size:45
Alignment explanation
Indices: 29563152--29563316 Score: 140
Period size: 46 Copynumber: 3.6 Consensus size: 45
29563142 AAGTTGACAC
* *
29563152 CATGTCCCAGACAGGTCTTGCACTAGCTTATATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATA-ATCTC-A-GCCGATG
* * *
29563200 CATGTCCCAGACATGTCTTACACTAG-GTCTAGTCTCAATGCCGAT-
1 CATGTCCCAGACATGTCTTACACTAGCTTATAATCTC-A-GCCGATG
* * * *
29563245 -ATGTACCAGACATGTCTTACACTGGCTCTCATAATGT-AGCCTATG
1 CATGTCCCAGACATGTCTTACACTAGCT-T-ATAATCTCAGCCGATG
* *
29563290 CATGTCCCAAACATGTTTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
29563317 ACACATATCA
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
44 28 0.30
45 1 0.01
46 34 0.36
47 7 0.07
48 24 0.26
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATAATCTCAGCCGATG
Found at i:29569039 original size:40 final size:40
Alignment explanation
Indices: 29568962--29569138 Score: 286
Period size: 40 Copynumber: 4.5 Consensus size: 40
29568952 AAACCAAGTA
* *
29568962 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
29569001 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
29569041 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
29569081 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
29569121 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
29569139 ATTATCATCC
Statistics
Matches: 130, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.89
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:29573251 original size:49 final size:49
Alignment explanation
Indices: 29573138--29573456 Score: 226
Period size: 49 Copynumber: 6.6 Consensus size: 49
29573128 TAAGATTCCA
* ** * * * *
29573138 ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACA--TCAAAGTCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGACTTTCATATGTCGAGGCCG
29573186 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATGTCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATGTCGAGGCCG
* * * ** * * * *
29573235 ATGCCATATCCTAGACATGGTCTTACTCT-AGCTAGCACA--TCAAAGTCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGA-CTTTCATATGTCGAGGCCG
* * *
29573283 ATGCCATGTCCCAGATAGCTCTTACACTGAGTTTCATATGTCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATGTCGAGGCCG
* * * * * * *
29573332 ATGCCGTGTCCCAGACAGGTCTTACACAGACTCTCATCTATTG-GTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATGTCGAG-GCCG
* * *
29573381 ATGCCATGTCCCAAACAAGTCTTACACT-AGCTTGT-ATATCTCGAGGCC-
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATGTCGAGGCCG
* *
29573429 AGTG-CATGTCCCAGGCATGTCTTACACT
1 A-TGCCATGTCCCAGACAGGTCTTACACT
29573457 AGCTCTCATC
Statistics
Matches: 209, Mismatches: 50, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
47 30 0.14
48 62 0.30
49 100 0.48
50 17 0.08
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATGTCGAGGCCG
Found at i:29573306 original size:97 final size:97
Alignment explanation
Indices: 29573138--29573460 Score: 374
Period size: 97 Copynumber: 3.3 Consensus size: 97
29573128 TAAGATTCCA
*
29573138 ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCACATCAAAGTCGATGCCATGTCCCAGACA
*
29573203 GGTCTTACACTGACTTTCATATGTCGAGGCCG
66 GCTCTTACACTGACTTTCATATGTCGAGGCCG
* * * *
29573235 ATGCCATATCCTAGACATGGTCTTACTCTAGCTAGCACATCAAAGTCGATGCCATGTCCCAGATA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCACATCAAAGTCGATGCCATGTCCCAGACA
*
29573300 GCTCTTACACTGAGTTTCATATGTCGAGGCCG
66 GCTCTTACACTGACTTTCATATGTCGAGGCCG
* ** **** *
29573332 ATGCCGTGTCCCAGACA-GGTCTTACAC-AGACTCTCATCTATTGGTGTCGATGCCATGTCCCAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTAGCA-C-ATCAAAGTCGATGCCATGTCCCAG
*
29573395 ACAAG-TCTTACACT-AGCTTGT-ATATCTCGAGGCC-
63 AC-AGCTCTTACACTGA-CTT-TCATATGTCGAGGCCG
*
29573429 AGTG-CATGTCCCAGGCAT-GTCTTACACTAGCT
1 A-TGCCATGTCCCAGACATGGTCTTACACTAGCT
29573461 CTCATCTCAA
Statistics
Matches: 194, Mismatches: 23, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
95 2 0.01
96 13 0.07
97 129 0.66
98 47 0.24
99 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (97 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCACATCAAAGTCGATGCCATGTCCCAGACA
GCTCTTACACTGACTTTCATATGTCGAGGCCG
Found at i:29575956 original size:27 final size:27
Alignment explanation
Indices: 29575926--29576026 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
29575916 CTGCGAGAAT
* *
29575926 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
* *
29575953 AGATAATCGTGGCAGAGCCACTA-AAAC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
29575980 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
29576007 AGATAATTGTGGCATAGCCA
1 AGATAA-TGTGGCAGAGCCA
29576027 TCAGGACGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
26 1 0.02
27 47 0.75
28 15 0.24
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:29583751 original size:80 final size:80
Alignment explanation
Indices: 29583618--29583785 Score: 234
Period size: 80 Copynumber: 2.1 Consensus size: 80
29583608 CAATTGAATG
* *
29583618 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATATCCAGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTATATCCAGGCTAAGACCCGAAGGCA
29583683 TTCGTGCAAGT-T-GTT
66 TTCGTGC--GTATGGTT
* * * *
29583698 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GACTATATCCAGGCTAAGACCCGAAGGC
29583762 ATTCGTGCGTATGGTT
65 ATTCGTGCGTATGGTT
29583778 ATATCCGG
1 ATATCCGG
29583786 TTGTATTCCG
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
78 2 0.03
79 1 0.01
80 75 0.95
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTATATCCAGGCTAAGACCCGAAGGCA
TTCGTGCGTATGGTT
Found at i:29583763 original size:40 final size:39
Alignment explanation
Indices: 29583618--29583785 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 39
29583608 CAATTGAATG
* * *
29583618 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTG-TT
* *
29583658 ATATCCAGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG-TGTT
* *
29583698 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-GTT
29583738 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTA-TGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCG-AGT-GTT
29583778 ATATCCGG
1 ATATCCGG
29583786 TTGTATTCCG
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 4 0.04
40 106 0.94
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGTT
Done.