Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 158 of 362
Found at i:51845362 original size:79 final size:81
Alignment explanation
Indices: 51845253--51845435 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
51845243 TACTCATTCA
* * *
51845253 AATGCCTTCGGGACATAGCCCAG-TTGTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
51845316 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
51845333 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAGTGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
51845396 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
51845412 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
51845436 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:51846698 original size:28 final size:28
Alignment explanation
Indices: 51846658--51846728 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
51846648 TATAGTAAGT
*
51846658 TCGCACACTTAGTGCT-TAATAATCAAAC
1 TCGCACACTTAGTGCTAT-ACAATCAAAC
*
51846686 TCGCACACTTAGTGCTATACAATTAAAC
1 TCGCACACTTAGTGCTATACAATCAAAC
51846714 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
51846729 CAATCTCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATACAATCAAAC
Found at i:51850908 original size:37 final size:37
Alignment explanation
Indices: 51850854--51850981 Score: 152
Period size: 37 Copynumber: 3.7 Consensus size: 37
51850844 GCTCAGACGA
*
51850854 AATCTCCACATGA-AGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACA-CATAGTCATCGGGTCTTACCCGGACAT
51850891 AATCTCCACACATAGTCATCGGGTCTTACCCGGAC--
1 AATCTCCACACATAGTCATCGGGTCTTACCCGGACAT
51850926 -A--T----A-ATAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACATAGTCATCGGGTCTTACCCGGACAT
*
51850955 AATCTCCACACGTAGTCATCGGGTCTT
1 AATCTCCACACATAGTCATCGGGTCTT
51850982 TAGAGCTCGG
Statistics
Matches: 78, Mismatches: 2, Indels: 22
0.76 0.02 0.22
Matches are distributed among these distances:
27 24 0.31
28 1 0.01
30 1 0.01
32 2 0.03
34 1 0.01
36 2 0.03
37 47 0.60
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (37 bp):
AATCTCCACACATAGTCATCGGGTCTTACCCGGACAT
Found at i:51850935 original size:27 final size:27
Alignment explanation
Indices: 51850902--51850957 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
51850892 ATCTCCACAC
51850902 ATAGTCATCGGGTCTTACCCGGACATA
1 ATAGTCATCGGGTCTTACCCGGACATA
51850929 ATAGTCATCGGGTCTTACCCGGACATA
1 ATAGTCATCGGGTCTTACCCGGACATA
51850956 AT
1 AT
51850958 CTCCACACGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (27 bp):
ATAGTCATCGGGTCTTACCCGGACATA
Found at i:51851178 original size:47 final size:47
Alignment explanation
Indices: 51851100--51851749 Score: 1151
Period size: 47 Copynumber: 13.7 Consensus size: 47
51851090 CCCTTCGGGA
* * * * * *
51851100 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
51851147 CCTGTCACATATATACACTTTCACAATCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851194 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851241 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851288 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851335 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851382 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851429 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851476 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851525 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851574 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851623 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851670 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51851717 CTTATCACATATATACA-TTTCACA-TCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
51851750 AGAATCCTAA
Statistics
Matches: 589, Mismatches: 12, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
45 9 0.02
46 7 0.01
47 428 0.73
49 145 0.25
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51855684 original size:77 final size:77
Alignment explanation
Indices: 51855569--51855947 Score: 566
Period size: 77 Copynumber: 4.9 Consensus size: 77
51855559 CCAGCATGAT
* * * * * * * *
51855569 TGCTCTTC-GGACCTAGCCTGGATATAACACCAACACGAATGCTTTCGGGTTTAGCAC-GATATA
1 TGCTC-TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTCGGGCTTAGCCCGGATATA
51855632 TCACTAGCACGAA
65 TCACTAGCACGAA
* * * *
51855645 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTCGGGACTTAGCCCGGATAC
1 TGCTC-TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTCGGG-CTTAGCCCGGATAT
51855710 ATCACTAGCACGAA
64 ATCACTAGCACGAA
51855724 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCAC-AATGCTCTTCGGGACTTAGCCCGGATAT
1 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTC-TCGGG-CTTAGCCCGGATAT
51855788 ATCACTAGCACGAA
64 ATCACTAGCACGAA
*
51855802 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTCGGACTTAGCCCGGATATAT
1 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTCGGGCTTAGCCCGGATATAT
51855867 CACTAGCACGAA
66 CACTAGCACGAA
*
51855879 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTCGGACTTAGCCCGGATATAT
1 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTCGGGCTTAGCCCGGATATAT
51855944 CACT
66 CACT
51855948 CTCAATTCTC
Statistics
Matches: 281, Mismatches: 17, Indels: 9
0.92 0.06 0.03
Matches are distributed among these distances:
76 8 0.03
77 136 0.48
78 107 0.38
79 30 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (77 bp):
TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTCGGGCTTAGCCCGGATATAT
CACTAGCACGAA
Found at i:51855710 original size:39 final size:39
Alignment explanation
Indices: 51855569--51855947 Score: 581
Period size: 39 Copynumber: 9.8 Consensus size: 39
51855559 CCAGCATGAT
* * * * *
51855569 TGCTCTTC-GGACCTAGCCTGGATATAACACCAACACGAA
1 TGCTC-TCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
51855608 TGCTTTCGGG-TTTAGCAC-GATATATCACTAGCACGAA
1 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
51855645 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTC-TCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
51855685 TGCTCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
51855724 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCAC-AA
1 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
51855762 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTC-TCGGGACTTAGCCCGGATATATCACTAGCACGAA
51855802 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
51855841 TGCTCTC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
51855879 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
51855918 TGCTCTC-GGACTTAGCCCGGATATATCACT
1 TGCTCTCGGGACTTAGCCCGGATATATCACT
51855948 CTCAATTCTC
Statistics
Matches: 316, Mismatches: 17, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
37 20 0.06
38 78 0.25
39 188 0.59
40 30 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TGCTCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:51855917 original size:194 final size:192
Alignment explanation
Indices: 51855569--51855947 Score: 609
Period size: 194 Copynumber: 2.0 Consensus size: 192
51855559 CCAGCATGAT
* * *
51855569 TGCTCTTCGGACCTAGCCTGGATATAACACCAACACGAATGCTTTCGGGTTTAGCACGATATATC
1 TGCTCTTCGGACCTAGCCCGGATATAACACCAACACGAATGCTCTCGGGCTTAGCACGATATATC
*
51855634 ACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTCGGGACTT
66 ACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTCGGGACTT
51855699 AGCCCGGATACATCACTAGCACGAATGCTCTCGGGACTTAGCCCGGATATATCACTAGCACAA
131 AGCCCGGATACATCACTAGCACGAATGCTCTC-GGACTTAGCCCGGATATATCACTAGCACAA
* * * * *
51855762 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTCGGGACTTAGCCCGGATAT
1 TGCTCTTC-GGACCTAGCCCGGATATAACACCAACACGAATGCTCTCGGG-CTTAGCAC-GATAT
*
51855827 ATCACTAGCACGAATGCTC-TCGG-ACTTAGCCCGGATATATCACTAGCACGAATGCTCTCGGGA
63 ATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTCGGGA
*
51855890 CTTAGCCCGGATATATCACTAGCACGAATGCTCTCGGACTTAGCCCGGATATATCACT
128 CTTAGCCCGGATACATCACTAGCACGAATGCTCTCGGACTTAGCCCGGATATATCACT
51855948 CTCAATTCTC
Statistics
Matches: 172, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
193 31 0.18
194 107 0.62
195 10 0.06
196 24 0.14
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (192 bp):
TGCTCTTCGGACCTAGCCCGGATATAACACCAACACGAATGCTCTCGGGCTTAGCACGATATATC
ACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTCGGGACTT
AGCCCGGATACATCACTAGCACGAATGCTCTCGGACTTAGCCCGGATATATCACTAGCACAA
Found at i:51857253 original size:35 final size:36
Alignment explanation
Indices: 51857206--51857305 Score: 166
Period size: 35 Copynumber: 2.8 Consensus size: 36
51857196 TTAGCTCACG
*
51857206 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGAC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
51857242 -AATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
51857277 ATAATCTCCACACGTAGTCACCGGGTCTT
1 A-AATCTCCACACGTAGTCATCGGGTCTT
51857306 TAGAGCTCGG
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
35 34 0.57
37 26 0.43
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (36 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
Found at i:51857692 original size:49 final size:47
Alignment explanation
Indices: 51857424--51858083 Score: 1005
Period size: 47 Copynumber: 13.7 Consensus size: 47
51857414 CCCTTCGGGA
* * * * * *
51857424 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51857471 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51857518 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51857565 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51857612 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51857659 CTTATCACATATATAGACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51857708 CTTATCACATATATAGACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
*
51857757 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
51857804 CTTATCACATATATATACACTTTCACATTCATCAGATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51857853 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51857904 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
51857953 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51858000 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51858049 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
51858084 AGAATCCTAA
Statistics
Matches: 572, Mismatches: 33, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
47 299 0.52
49 228 0.40
51 45 0.08
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51857705 original size:96 final size:94
Alignment explanation
Indices: 51857424--51858083 Score: 1023
Period size: 96 Copynumber: 6.9 Consensus size: 94
51857414 CCCTTCGGGA
* * * * * *
51857424 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
51857489 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
51857518 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
51857583 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
51857612 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT--AC
51857677 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
51857708 CTTATCACATATATAGACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
51857773 ACTTTCACATTCATCATATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
51857804 CTTATCACATATATATACACTTTCACATTCATCAGATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC----ATAT
*
51857869 ATACACTTTCACATTCATCACATCGGCCGTTAGGC
60 ATACACTTTCACATTCATCACATCGGCCATTAGGC
51857904 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
51857969 ACTTTCACATTCATCACATCGGCTATTCGAC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
51858000 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
51858065 ACTTTCACATTCATCACAT
64 ACTTTCACATTCATCACAT
51858084 AGAATCCTAA
Statistics
Matches: 533, Mismatches: 23, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
94 146 0.27
96 243 0.46
98 51 0.10
100 93 0.17
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:51863377 original size:40 final size:40
Alignment explanation
Indices: 51863282--51863512 Score: 277
Period size: 40 Copynumber: 5.8 Consensus size: 40
51863272 TGGATGAAAA
* ** * * *
51863282 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
51863321 TCGGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
51863361 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
**
51863401 TTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
51863441 CCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
51863482 -CGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
51863513 AGTTATATCC
Statistics
Matches: 165, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 31 0.19
40 131 0.79
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:51865629 original size:118 final size:118
Alignment explanation
Indices: 51865421--51865653 Score: 466
Period size: 118 Copynumber: 2.0 Consensus size: 118
51865411 TATTGACCCA
51865421 AAGGATTTGACACTCGAATTACGAACTCAGTAGACTCAATAGGCAGAGTCTTACTGGATGCTAAA
1 AAGGATTTGACACTCGAATTACGAACTCAGTAGACTCAATAGGCAGAGTCTTACTGGATGCTAAA
51865486 GTCTCACATACATAAGAATGAGTAGAGCCAGGGTCGATTAATGCAATTACATT
66 GTCTCACATACATAAGAATGAGTAGAGCCAGGGTCGATTAATGCAATTACATT
51865539 AAGGATTTGACACTCGAATTACGAACTCAGTAGACTCAATAGGCAGAGTCTTACTGGATGCTAAA
1 AAGGATTTGACACTCGAATTACGAACTCAGTAGACTCAATAGGCAGAGTCTTACTGGATGCTAAA
51865604 GTCTCACATACATAAGAATGAGTAGAGCCAGGGTCGATTAATGCAATTAC
66 GTCTCACATACATAAGAATGAGTAGAGCCAGGGTCGATTAATGCAATTAC
51865654 GTTAGTATCA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 115 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (118 bp):
AAGGATTTGACACTCGAATTACGAACTCAGTAGACTCAATAGGCAGAGTCTTACTGGATGCTAAA
GTCTCACATACATAAGAATGAGTAGAGCCAGGGTCGATTAATGCAATTACATT
Found at i:51882844 original size:37 final size:37
Alignment explanation
Indices: 51882787--51882889 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
51882777 CGAATAGTCC
* *
51882787 CCACACGTAGTTATCAGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
51882824 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
51882861 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
51882890 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:51883138 original size:47 final size:47
Alignment explanation
Indices: 51883079--51883180 Score: 168
Period size: 47 Copynumber: 2.2 Consensus size: 47
51883069 CATATATATT
* *
51883079 TCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTCA
1 TCACATTAGCCATTCGACCTTATCACACATATACATGTTCACATTCA
* *
51883126 TCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCA
1 TCACATTAGCCATTCGACCTTATCACACATATACATGTTCACATTCA
51883173 TCACATTA
1 TCACATTA
51883181 AAATCCTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
TCACATTAGCCATTCGACCTTATCACACATATACATGTTCACATTCA
Found at i:51892047 original size:39 final size:39
Alignment explanation
Indices: 51891995--51892120 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
51891985 TATGAGATTG
*
51891995 AAAATATCCGGACATGAGGTCCGCAAGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
51892034 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * * **
51892073 AATATATCCGGACTTGAGGTTCACAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
51892112 AAAATATCC
1 AAAATATCC
51892121 AGGTTAAAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:51892139 original size:78 final size:77
Alignment explanation
Indices: 51891994--51892140 Score: 170
Period size: 78 Copynumber: 1.9 Consensus size: 77
51891984 GTATGAGATT
* * * * *
51891994 GAAAATATCCGGACATGAGGTCCGCAAGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCACAAGCTACATGCTGGAAAAATATCCGGACATAAGACCCACA
51892059 GGCTATATGCTA
66 GGCTATATGCTA
* * * * **
51892071 GAAATATATCCGGACTTGAGGTTCACAGGCTACGTGCTGGAAAAATATCCAGGTTA-AAGACCCA
1 GAAA-ATATCCGGACATGAGGTCCACAAGCTACATGCTGGAAAAATATCC-GGACATAAGACCCA
51892135 CAGGCT
64 CAGGCT
51892141 TACACTAGTA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
77 4 0.07
78 50 0.88
79 3 0.05
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (77 bp):
GAAAATATCCGGACATGAGGTCCACAAGCTACATGCTGGAAAAATATCCGGACATAAGACCCACA
GGCTATATGCTA
Found at i:51895046 original size:39 final size:39
Alignment explanation
Indices: 51894988--51895111 Score: 187
Period size: 39 Copynumber: 3.2 Consensus size: 39
51894978 AACCTGAAAT
* * *
51894988 TATATTAT-CAGCACAAAGCCTGCGGAACTTTAACCCGGA
1 TATATT-TCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
*
51895027 TATATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
51895066 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
*
51895105 TACATTT
1 TATATTT
51895112 TCAGTGTCTT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 77 0.99
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
Found at i:51906010 original size:27 final size:27
Alignment explanation
Indices: 51905978--51906069 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
51905968 CCCTAATATT
* * *
51905978 GGTAAAATTACCGAAATACCCTTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
51906005 TGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
51906032 GGTAAAATGATCGTAATACCCCTGTAA
1 GGTAAAATGACCGTAATACCCCTGTAG
*
51906059 GGTAGAATGAC
1 GGTAAAATGAC
51906070 GATTATGACC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:51906336 original size:22 final size:22
Alignment explanation
Indices: 51906301--51906347 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
51906291 CTGCGATATT
* *
51906301 TACGGCCTTTAGCCGTCCTATC
1 TACGGCATTGAGCCGTCCTATC
*
51906323 TACGGCATTGAGCCGTCCTGTC
1 TACGGCATTGAGCCGTCCTATC
51906345 TAC
1 TAC
51906348 TTCGCCGTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.34, G:0.21, T:0.30
Consensus pattern (22 bp):
TACGGCATTGAGCCGTCCTATC
Found at i:51907379 original size:13 final size:13
Alignment explanation
Indices: 51907361--51907385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51907351 TTGGATTCAT
51907361 ACCAAAACAATCA
1 ACCAAAACAATCA
51907374 ACCAAAACAATC
1 ACCAAAACAATC
51907386 GTGAAACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:51909800 original size:47 final size:48
Alignment explanation
Indices: 51909736--51909912 Score: 204
Period size: 47 Copynumber: 3.8 Consensus size: 48
51909726 GGTAAGGTGC
*
51909736 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTTAAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTTAAGA
* * *
51909783 CAATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGT-AGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCT--TAAGA
** * * *
51909831 CGATG-CATGTCCTTGACAT-GTCTTACACTAGCTC-TCGTCTCAATGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTTAA-GA
51909877 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
51909913 TCTTAATGTG
Statistics
Matches: 108, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
46 25 0.23
47 61 0.56
48 20 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTTAAGA
Found at i:51909903 original size:94 final size:94
Alignment explanation
Indices: 51909736--51909956 Score: 268
Period size: 94 Copynumber: 2.3 Consensus size: 94
51909726 GGTAAGGTGC
* * * * *
51909736 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTTAA-GGCAATGCCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGACGATGCCATGTCCCAG
*
51909799 ACATGGTCTTACACTGACTATCAT-CTCGTAGT
63 ACATGGTCTTACACTGACTATCATAAT-GTAGT
**
51909831 CGATGCATGTCCTTGACATGTCTTACACTAGCTCTCGTCTCAATGACGATGCCATGTCCCAGACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGACGATGCCATGTCCCAGACA
* * * *
51909896 TGGTCTTACACTGGCTCTCTTAATGTGGT
66 TGGTCTTACACTGACTATCATAATGTAGT
*
51909925 TGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
51909957 CAACAATAAC
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
92 1 0.01
93 19 0.18
94 82 0.76
95 6 0.06
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (94 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGACGATGCCATGTCCCAGACA
TGGTCTTACACTGACTATCATAATGTAGT
Found at i:51909934 original size:47 final size:46
Alignment explanation
Indices: 51909736--51909953 Score: 198
Period size: 47 Copynumber: 4.7 Consensus size: 46
51909726 GGTAAGGTGC
51909736 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTTAA-GG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC---TCTTAATGGT
* * * ** *
51909783 CAATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-T-TAATGGT
** * *
51909831 CGATG-CATGTCCTTGACAT-GTCTTACACTAGCTCTCGTCTCAAT-GA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-T-T-AATGGT
51909877 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTAATGTGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTAA--TGGT
*
51909925 TGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
51909954 AGCCAACAAT
Statistics
Matches: 140, Mismatches: 21, Indels: 21
0.77 0.12 0.12
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 35 0.25
47 75 0.54
48 25 0.18
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTAATGGT
Found at i:51911599 original size:30 final size:30
Alignment explanation
Indices: 51911557--51911614 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
51911547 AATTTAGGAT
51911557 TTATTTTCATTTATCTT-CATTTATCTTTAA
1 TTATTTTCATTTAT-TTGCATTTATCTTTAA
*
51911587 TTATCTTT-ATTTATTTGTATTTATCTTT
1 TTAT-TTTCATTTATTTGCATTTATCTTT
51911615 TAGAAGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 20 0.80
31 3 0.12
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.67
Consensus pattern (30 bp):
TTATTTTCATTTATTTGCATTTATCTTTAA
Found at i:51911614 original size:20 final size:19
Alignment explanation
Indices: 51911555--51911614 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
51911545 TAAATTTAGG
*
51911555 ATTTATTTTCATTTATCTTC
1 ATTTATTTT-ATTTATCTTT
*
51911575 ATTTATCTTTAATTATCTTT
1 ATTTAT-TTTATTTATCTTT
51911595 ATTTATTTGTATTTATCTTT
1 ATTTATTT-TATTTATCTTT
51911615 TAGAAGTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.86
21 3 0.09
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTATTTTATTTATCTTT
Found at i:51912375 original size:17 final size:18
Alignment explanation
Indices: 51912344--51912377 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
51912334 TATTCTTCCT
*
51912344 TTTAATTTTCGCAATTTA
1 TTTAATTTTCACAATTTA
51912362 TTTAA-TTTCACAATTT
1 TTTAATTTTCACAATTT
51912378 CAACTCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCACAATTTA
Found at i:51914548 original size:42 final size:42
Alignment explanation
Indices: 51914501--51914702 Score: 147
Period size: 42 Copynumber: 4.6 Consensus size: 42
51914491 TGTGGTTTCG
*
51914501 TGTAAGACCATAACTGGGATATGGCCTCGATATGTGATCTCA
1 TGTAAGACCATAACTGGGATATGGCATCGATATGTGATCTCA
* *
51914543 TGTAAGACCATATA-TGGGATATGGCATTGGCATCAAGATGTGATTTCA
1 TGTAAGACCATA-ACTGGGATATGGCA-TCG-AT----ATGTGATCTCA
* ** * * * **
51914591 TGTAAGGCCATATTTGGGACATGACATCGATATGAGA-CATTG
1 TGTAAGACCATAACTGGGATATGGCATCGATATGTGATC-TCA
* * * *
51914633 TGTAAGACCATAGCTGGGCTATTGGCATCGATATATGATCCCA
1 TGTAAGACCATAACTGGGATA-TGGCATCGATATGTGATCTCA
* * *
51914676 TGTAATACCATATCTAGGATATGGCAT
1 TGTAAGACCATAACTGGGATATGGCAT
51914703 TGGCATCTTA
Statistics
Matches: 122, Mismatches: 27, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
42 51 0.42
43 33 0.27
44 3 0.02
46 2 0.02
47 2 0.02
48 31 0.25
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATAACTGGGATATGGCATCGATATGTGATCTCA
Found at i:51919429 original size:40 final size:39
Alignment explanation
Indices: 51919392--51919568 Score: 189
Period size: 39 Copynumber: 4.5 Consensus size: 39
51919382 ATATCCGGAC
*
51919392 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* *
51919432 TAAGCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* *
51919471 TAAGTCCCGAAGGCATTCGTGCGAG-TCATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGGT
* * * *
51919511 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
51919550 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
51919569 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 65 0.55
40 54 0.45
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:51919481 original size:79 final size:78
Alignment explanation
Indices: 51919345--51919568 Score: 215
Period size: 79 Copynumber: 2.8 Consensus size: 78
51919335 TTGAATGCTG
* * * * * * *
51919345 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
51919408 TTGTGCGAG-A-TACAA
63 TTGTGCGAGCATTA-AA
* * *
51919423 GTTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 --TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCAT
*
51919487 TCGTGCGAGTCATTAAA
63 TTGTGCGAG-CATTAAA
* * *
51919504 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
51919569 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 1 0.01
79 88 0.72
80 28 0.23
81 4 0.03
82 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGCATTAAA
Found at i:51919586 original size:79 final size:80
Alignment explanation
Indices: 51919425--51919601 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
51919415 AGATACAAGT
* * *
51919425 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
51919489 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
51919504 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
51919568 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
51919583 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
51919602 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 16 0.19
79 59 0.71
80 8 0.10
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:51927001 original size:39 final size:40
Alignment explanation
Indices: 51926866--51927089 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
51926856 TTGAATGCTG
* * * * *
51926866 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
51926906 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
51926945 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAG-TACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
51926985 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51927025 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
51927064 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
51927090 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 67 0.43
40 82 0.52
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51927006 original size:79 final size:78
Alignment explanation
Indices: 51926866--51927089 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
51926856 TTGAATGCTG
* * * * *
51926866 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGC-GAGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
51926930 TGTGCGAGATA-CAAA
63 TGTGCGAGATATCAAA
* * *
51926945 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
51927010 GTGCGAGTTATTAAA
64 GTGCGAGATATCAAA
* * * *
51927025 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAG-TACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
51927090 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 10 0.08
79 81 0.66
80 24 0.20
81 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATATCAAA
Found at i:51927107 original size:79 final size:79
Alignment explanation
Indices: 51926946--51927122 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
51926936 AGATACAAAT
* * * *
51926946 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
51927011 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
51927025 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
51927089 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
51927104 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
51927123 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 25 0.30
79 58 0.70
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:51942241 original size:48 final size:48
Alignment explanation
Indices: 51942160--51942283 Score: 133
Period size: 48 Copynumber: 2.6 Consensus size: 48
51942150 CGATGCTATG
* * * * * *
51942160 TCCCAGACATGGTCTTATACGAAATCACTTATCGATACTGAAGCCATA
1 TCCCAGACATGGTCTTACACGAGATCTCGTATCGACACCGAAGCCATA
* * * *
51942208 TCCCTA-ATATGGTCTTACGCGAGATCTCGTATCGACACCGATGCCATG
1 TCCC-AGACATGGTCTTACACGAGATCTCGTATCGACACCGAAGCCATA
*
51942256 TCCCAGACATGGTCTTACACGGGATCTC
1 TCCCAGACATGGTCTTACACGAGATCTC
51942284 ATCAATCATG
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
47 1 0.02
48 59 0.97
49 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACACGAGATCTCGTATCGACACCGAAGCCATA
Found at i:51949727 original size:42 final size:42
Alignment explanation
Indices: 51949645--51949753 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
51949635 GGGTGCTAAA
* * *
51949645 GCCATGTCTCAGACATGGTCTTACATGGAACTACACATCAAT
1 GCCATATCCCAGACATGGTCTTATATGGAACTACACATCAAT
* * *
51949687 GTCATATCCCAGATATGGTCTTATATGGAACCT-CATATCAAT
1 GCCATATCCCAGACATGGTCTTATATGGAA-CTACACATCAAT
* *
51949729 GCCATGTCCTAGACATGGTCTTATA
1 GCCATATCCCAGACATGGTCTTATA
51949754 CGAAATCATT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 54 0.96
43 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTATATGGAACTACACATCAAT
Found at i:51951399 original size:42 final size:43
Alignment explanation
Indices: 51951286--51951399 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
51951276 AGCTCGTACA
* * *
51951286 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
51951329 ATGCCACTGTCCCAGACAAGGTCTTACACGAAATCAAATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
51951371 ATGTCGA-TGTCCCAGACATGGTCGTACAC
1 ATG-CCACTGTCCCAGACATGGTCTTACAC
51951400 ATAAATCTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 26 0.42
43 36 0.58
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:51955180 original size:18 final size:18
Alignment explanation
Indices: 51955139--51955180 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
51955129 CATCTAAAAA
51955139 ACTTTCAAGAAAAAAAATC
1 ACTTT-AAGAAAAAAAATC
* *
51955158 A-TTTAAGAAAAATAATT
1 ACTTTAAGAAAAAAAATC
51955175 ACTTTA
1 ACTTTA
51955181 CGTTTTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 12 0.60
18 7 0.35
19 1 0.05
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (18 bp):
ACTTTAAGAAAAAAAATC
Found at i:51962511 original size:22 final size:22
Alignment explanation
Indices: 51962475--51962535 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
51962465 ATAAAACACC
51962475 ATAAAAAGTAGCACCAAAACAGT
1 ATAAAAA-TAGCACCAAAACAGT
*
51962498 ATCAAAATAGCACC-AAACAGT
1 ATAAAAATAGCACCAAAACAGT
*
51962519 ATAAAAATAACACCAAA
1 ATAAAAATAGCACCAAA
51962536 TAGCAGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.56
22 9 0.26
23 6 0.18
ACGTcount: A:0.59, C:0.20, G:0.08, T:0.13
Consensus pattern (22 bp):
ATAAAAATAGCACCAAAACAGT
Found at i:51962545 original size:21 final size:21
Alignment explanation
Indices: 51962501--51962546 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
51962491 AAACAGTATC
* * *
51962501 AAAATAGCACCAAACAGTATA
1 AAAATAACACCAAACAGCAGA
*
51962522 AAAATAACACCAAATAGCAGA
1 AAAATAACACCAAACAGCAGA
51962543 AAAA
1 AAAA
51962547 ACATCACCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.63, C:0.17, G:0.09, T:0.11
Consensus pattern (21 bp):
AAAATAACACCAAACAGCAGA
Found at i:51964934 original size:50 final size:50
Alignment explanation
Indices: 51964719--51964934 Score: 224
Period size: 50 Copynumber: 4.3 Consensus size: 50
51964709 GCTAAATGAC
* * * * *
51964719 CTTGAATATTCGGTCACATAGGTATGTACATATGTGATGTTATATTGGAT
1 CTTGTATATTCGGCCACATAGGTATGCACATATGTGATATTATATTTGAT
* * *
51964769 CTTGTATATTCGG--ATATGAAGGTATGCAAAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCACAT--AGGTATGCACATATGTGATATTATATTTG-AT
* * * *
51964820 -TTGTATATTCAGCCATATAAGTAAGCACATATGTGATATTATATTTGAT
1 CTTGTATATTCGGCCACATAGGTATGCACATATGTGATATTATATTTGAT
* * *
51964869 CTTGCATATTTGGCCACATAGGTATGCATATATGTGATATTATATTTGAT
1 CTTGTATATTCGGCCACATAGGTATGCACATATGTGATATTATATTTGAT
*
51964919 CTCGCT-TATTCGGCCA
1 CTTG-TATATTCGGCCA
51964935 AATGAATGAT
Statistics
Matches: 137, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
48 3 0.02
49 2 0.01
50 126 0.92
51 2 0.01
52 4 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.40
Consensus pattern (50 bp):
CTTGTATATTCGGCCACATAGGTATGCACATATGTGATATTATATTTGAT
Found at i:51967577 original size:27 final size:27
Alignment explanation
Indices: 51967528--51967638 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
51967518 AGGAAGCGTC
* * *
51967528 CTGGTGGTTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
*
51967555 CTGATGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
*
51967582 CTGGTGGCTTTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
51967609 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
51967635 CTGG
1 CTGG
51967639 CAGTCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 16 0.22
27 55 0.75
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:51967620 original size:54 final size:53
Alignment explanation
Indices: 51967528--51967638 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 53
51967518 AGGAAGCGTC
*
51967528 CTGGTGGTTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATCTGTT
1 CTGGTGGTTATGCCACAATTATCTGATCTGATGACTCTGCCACAT-TATCTGTT
* * *
51967582 CTGGTGGCTT-TGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGG-TTATGCCACAATTATCTGATCTGATGACTCTGCCACATTATCTGTT
51967635 CTGG
1 CTGG
51967639 CAGTCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 12 0.23
54 38 0.73
55 2 0.04
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (53 bp):
CTGGTGGTTATGCCACAATTATCTGATCTGATGACTCTGCCACATTATCTGTT
Found at i:51975537 original size:23 final size:22
Alignment explanation
Indices: 51975485--51975537 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
51975475 TCCACGTCTT
*
51975485 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
51975507 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
51975530 TTTCTTTT
1 TTTCTTTT
51975538 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:51978600 original size:16 final size:17
Alignment explanation
Indices: 51978579--51978614 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
51978569 TTATATAGAT
*
51978579 TTTGACAT-ATTATTTA
1 TTTGACATAATTATATA
51978595 TTTGACATAATTATATA
1 TTTGACATAATTATATA
51978612 TTT
1 TTT
51978615 TTATTATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTGACATAATTATATA
Found at i:51981379 original size:47 final size:47
Alignment explanation
Indices: 51981301--51981706 Score: 623
Period size: 47 Copynumber: 8.6 Consensus size: 47
51981291 CCCTTCGGGA
* * * * * *
51981301 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
51981348 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51981395 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51981442 CTCATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51981491 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51981538 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51981587 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51981634 CTTATCACATCTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51981681 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
51981707 CACAATTATC
Statistics
Matches: 329, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 240 0.73
49 89 0.27
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51981493 original size:96 final size:94
Alignment explanation
Indices: 51981301--51981706 Score: 607
Period size: 96 Copynumber: 4.3 Consensus size: 94
51981291 CCCTTCGGGA
* * * * * * *
51981301 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC-CTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC-ATCACATATATACA
*
51981365 CTTTCACATTCATCACATCGGCTATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
*
51981395 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGCCTCATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATAC
*
51981460 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
51981491 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATAC
* *
51981556 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
51981587 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATCTATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACAC
51981652 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
51981681 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
51981707 CACAATTATC
Statistics
Matches: 291, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
94 105 0.36
95 1 0.00
96 185 0.64
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:51981599 original size:143 final size:143
Alignment explanation
Indices: 51981301--51981706 Score: 631
Period size: 143 Copynumber: 2.9 Consensus size: 143
51981291 CCCTTCGGGA
* * * * * * * *
51981301 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
51981366 TTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
51981429 TCGACCATTAGGC
131 TCGACCATTAGGC
* *
51981442 CTCATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51981507 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
* * *
51981572 CATTGGCCATTCGGC
129 CATCGACCATTAGGC
*
51981587 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATCTATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
51981652 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA--TTCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
51981707 CACAATTATC
Statistics
Matches: 244, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
141 14 0.06
143 187 0.77
145 43 0.18
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGACCATTAGGC
Found at i:51981643 original size:22 final size:22
Alignment explanation
Indices: 51981615--51981690 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
51981605 TTTCACATTC
51981615 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
51981637 ATCACATCTATACACTTTCACATT
1 ATCACATC-GGCCA-TTAGGCCTT
51981661 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
51981684 ATCACAT
1 ATCACAT
51981691 ATATATACAT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:51985778 original size:28 final size:28
Alignment explanation
Indices: 51985747--51985823 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
51985737 TACTCAATGC
51985747 CTCGCACACTAAGTGCCATACTCGATAT
1 CTCGCACACTAAGTGCCATACTCGATAT
* **
51985775 CTCGAACACTAAGTGCCGCACTCGATAT
1 CTCGCACACTAAGTGCCATACTCGATAT
*
51985803 CTCACACACTAAGTGCCATAC
1 CTCGCACACTAAGTGCCATAC
51985824 ATAGTCAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.30, C:0.34, G:0.14, T:0.22
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCATACTCGATAT
Found at i:51985919 original size:40 final size:40
Alignment explanation
Indices: 51985807--51985940 Score: 169
Period size: 40 Copynumber: 3.4 Consensus size: 40
51985797 CGATATCTCA
* * * * *
51985807 CACACTAAGTGCCATACATAGTCAAAGCTATCTCAAATAG
1 CACACTAAGTGCCATATATAGTCGAAGCTATGTCGAATCG
* *
51985847 CACACTAAGTGTCATATATAGCCGAAGCTATGTCGAATCG
1 CACACTAAGTGCCATATATAGTCGAAGCTATGTCGAATCG
* * *
51985887 CACACTAAGTGCCATATATAGTCGAAGTTATGTCGTATCA
1 CACACTAAGTGCCATATATAGTCGAAGCTATGTCGAATCG
*
51985927 TACACTAAGTGCCA
1 CACACTAAGTGCCA
51985941 AAAATAATCG
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGTCGAAGCTATGTCGAATCG
Found at i:51993348 original size:40 final size:40
Alignment explanation
Indices: 51993289--51993385 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
51993279 ACTCGATATC
* * *
51993289 TCGCACACTAAGTGCCATATGTAGTCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATACTCGAAGCAATGTCGAA
* *
51993329 TCGCACACTAAGTGGCATATATACTCGAAGCAATGTCGTA
1 TCGCACACTAAGTGCCATATATACTCGAAGCAATGTCGAA
*
51993369 TCACACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
51993386 CAAATAACCG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATACTCGAAGCAATGTCGAA
Found at i:52008527 original size:40 final size:40
Alignment explanation
Indices: 52008497--52008667 Score: 208
Period size: 40 Copynumber: 4.3 Consensus size: 40
52008487 GCTCCTCGTT
*
52008497 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
*
52008537 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
**
52008577 CAAATGCCTTCGGGAGTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
* * * *
52008617 C-AATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTA-TAGTAACTCGCA
52008655 CAAATGCCTTCGG
1 CAAATGCCTTCGG
52008668 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
38 20 0.17
39 23 0.19
40 75 0.62
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
Found at i:52008581 original size:80 final size:80
Alignment explanation
Indices: 52008497--52008720 Score: 287
Period size: 80 Copynumber: 2.8 Consensus size: 80
52008487 GCTCCTCGTT
* *
52008497 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
52008562 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* *
52008577 CAAATGCCTTCGGGAGTTAACCCGGATT-TAGTAACTCGCAC-AATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
52008639 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * *
52008655 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
52008718 GGA
64 GGA
52008721 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
77 4 0.03
78 45 0.36
79 26 0.21
80 48 0.38
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:52008680 original size:118 final size:119
Alignment explanation
Indices: 52008499--52008720 Score: 290
Period size: 118 Copynumber: 1.9 Consensus size: 119
52008489 TCCTCGTTCA
*
52008499 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
52008564 TTAGTAAC-TCGCACAAATGCCTTCGGGAGTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
52008618 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
52008680 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
52008721 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
117 4 0.04
118 65 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:52011369 original size:45 final size:45
Alignment explanation
Indices: 52011305--52011550 Score: 290
Period size: 45 Copynumber: 5.6 Consensus size: 45
52011295 CGTACAGTAC
* *
52011305 TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGATAG
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAG
* *
52011350 TATTCGGGCTTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAG
* * *
52011395 TATTCGGGCTTTTGGGCCTAGGAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAG
* * * *
52011440 TATTCGAGCTTTCGAGCCTAGCTGGCTATAATGCCGGTGAAAT-G
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAG
* *
52011484 -ATATCGGGC-TTCGAGCCTAGCAGGCGA-AATGCCGGTGA-AT-G
1 TAT-TCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAG
* * *
52011525 AATTCGGG-TTTTAAACCTAGCAGGCT
1 TATTCGGGCTTTTGAGCCTAGCAGGCT
52011551 GAATGCCAGT
Statistics
Matches: 179, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
41 21 0.12
42 13 0.07
43 18 0.10
44 5 0.03
45 122 0.68
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (45 bp):
TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAG
Found at i:52013301 original size:20 final size:20
Alignment explanation
Indices: 52013271--52013316 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
52013261 GGCAATGTTA
52013271 AAGTTGGGAAAAACTATGGT
1 AAGTTGGGAAAAACTATGGT
* * *
52013291 ATGTTGTGAAAGACTATGGT
1 AAGTTGGGAAAAACTATGGT
52013311 AAGTTG
1 AAGTTG
52013317 CAAGTTGGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.30
Consensus pattern (20 bp):
AAGTTGGGAAAAACTATGGT
Found at i:52015949 original size:32 final size:32
Alignment explanation
Indices: 52015903--52015967 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
52015893 GGTAAAACCA
* *
52015903 TAAAGTTAGTAGTGAAGTTGATCCCTTGGACT
1 TAAAGTTAGCAGTGAAGTAGATCCCTTGGACT
52015935 TAAAGTTAGCAGTGAAGTAGATCCCTTGGACT
1 TAAAGTTAGCAGTGAAGTAGATCCCTTGGACT
52015967 T
1 T
52015968 CCCAACCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (32 bp):
TAAAGTTAGCAGTGAAGTAGATCCCTTGGACT
Found at i:52020444 original size:40 final size:40
Alignment explanation
Indices: 52020389--52020558 Score: 278
Period size: 40 Copynumber: 4.4 Consensus size: 40
52020379 TATGTTCATA
*
52020389 GCATTCATGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
52020429 GCATTCGTGCGGGTTATTATAACC-GG----GTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
52020464 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
52020504 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
52020544 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
52020559 GTTACATCTG
Statistics
Matches: 121, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
35 32 0.26
36 2 0.02
39 2 0.02
40 85 0.70
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:52020487 original size:75 final size:77
Alignment explanation
Indices: 52020389--52020558 Score: 272
Period size: 75 Copynumber: 2.2 Consensus size: 77
52020379 TATGTTCATA
* *
52020389 GCATTCATGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACC-
1 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
52020453 GG-GTCCCGAAG
66 GGAGTCCCGAAG
52020464 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
1 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
52020529 GGTTAAGTCCCGAAG
66 GG---AGTCCCGAAG
*
52020544 GCATTCGTGCTGGTT
1 GCATTCGTGCAGGTT
52020559 GTTACATCTG
Statistics
Matches: 87, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
75 62 0.71
76 2 0.02
80 23 0.26
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (77 bp):
GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
GGAGTCCCGAAG
Found at i:52037501 original size:17 final size:17
Alignment explanation
Indices: 52037476--52037514 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
52037466 ATATACTTGT
*
52037476 AAATTGTCTAACTTTCC
1 AAATAGTCTAACTTTCC
52037493 AAATAGTCTAACTTTCC
1 AAATAGTCTAACTTTCC
52037510 AAATA
1 AAATA
52037515 ACCAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (17 bp):
AAATAGTCTAACTTTCC
Found at i:52038539 original size:35 final size:35
Alignment explanation
Indices: 52038474--52038608 Score: 137
Period size: 35 Copynumber: 3.9 Consensus size: 35
52038464 CATCCTACCT
* *
52038474 CAACACCGATATTTCATTTATTTAACATCCCGACA
1 CAACACCGATATCTCATTCATTTAACATCCCGACA
* * * ** *
52038509 TAATACTGATATCTCATTCATTTAGTATCCCGCCA
1 CAACACCGATATCTCATTCATTTAACATCCCGACA
* * *
52038544 CAACACCAACATCTCATTCATTTAACATCCCGCCA
1 CAACACCGATATCTCATTCATTTAACATCCCGACA
* *
52038579 CAACTCCGATA-CTTCATTCATTTAATATCC
1 CAACACCGATATC-TCATTCATTTAACATCC
52038609 TTGTAACATC
Statistics
Matches: 80, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
34 1 0.01
35 79 0.99
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.32
Consensus pattern (35 bp):
CAACACCGATATCTCATTCATTTAACATCCCGACA
Found at i:52043951 original size:15 final size:15
Alignment explanation
Indices: 52043927--52043974 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
52043917 AGGAAACCGA
52043927 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
52043942 ATAGAGAAAT-CAAA
1 ATAAAGAAATCCAAG
*
52043956 ATTAAAGAAACCCAAG
1 A-TAAAGAAATCCAAG
52043972 ATA
1 ATA
52043975 CGATACTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52045556 original size:40 final size:40
Alignment explanation
Indices: 52045472--52045655 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
52045462 TTGAATGCTG
* * * *
52045472 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
52045511 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
52045552 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
52045592 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
52045632 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
52045656 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:52045609 original size:80 final size:81
Alignment explanation
Indices: 52045472--52045652 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
52045462 TTGAATGCTG
* * *
52045472 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
52045536 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
52045552 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
52045613 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
52045632 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
52045653 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:52045676 original size:39 final size:38
Alignment explanation
Indices: 52045553--52045702 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
52045543 GTTATTAATT
* ** * *
52045553 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
52045593 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
52045632 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
52045672 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
52045703 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:52053394 original size:40 final size:40
Alignment explanation
Indices: 52053310--52053493 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
52053300 TTGAATGCTG
* * * *
52053310 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
52053349 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
52053390 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
52053430 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
52053470 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
52053494 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:52053447 original size:80 final size:81
Alignment explanation
Indices: 52053310--52053490 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
52053300 TTGAATGCTG
* * *
52053310 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
52053374 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
52053390 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
52053451 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
52053470 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
52053491 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:52053514 original size:39 final size:38
Alignment explanation
Indices: 52053391--52053540 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
52053381 GTTATTAATT
* ** * *
52053391 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
52053431 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
52053470 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
52053510 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
52053541 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:52059859 original size:5 final size:5
Alignment explanation
Indices: 52059844--52059905 Score: 54
Period size: 5 Copynumber: 12.4 Consensus size: 5
52059834 TGTTGGTTAA
* * * * *
52059844 ATATT AAATT ATATT ATTTT ATCA-T ATTTT AAATT ATATT ATATT ATAGT
1 ATATT ATATT ATATT ATATT AT-ATT ATATT ATATT ATATT ATATT ATATT
*
52059894 ATAGT ATATT AT
1 ATATT ATATT AT
52059906 TATAAATAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:52059970 original size:15 final size:16
Alignment explanation
Indices: 52059942--52059972 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
52059932 TGTATGGTGT
52059942 TAATAAATTACATGTG
1 TAATAAATTACATGTG
52059958 TAATAAA-TACATGTG
1 TAATAAATTACATGTG
52059973 GACAATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (16 bp):
TAATAAATTACATGTG
Found at i:52060098 original size:11 final size:10
Alignment explanation
Indices: 52060071--52060095 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
52060061 TTAAATAATT
52060071 ATTTTATAAG
1 ATTTTATAAG
52060081 ATTTTATAAG
1 ATTTTATAAG
52060091 ATTTT
1 ATTTT
52060096 TATGTGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (10 bp):
ATTTTATAAG
Found at i:52061262 original size:21 final size:21
Alignment explanation
Indices: 52061228--52061303 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
52061218 CAGACACTTT
52061228 ATGTGTCGTATATCAGGCACCTC
1 ATGTGTCG--TATCAGGCACCTC
*
52061251 GTGTGTCGTATCAGGCACCTC
1 ATGTGTCGTATCAGGCACCTC
* * * * *
52061272 ATGCGTCGTTTTAGGCACTTT
1 ATGTGTCGTATCAGGCACCTC
52061293 ATGTGTCGTAT
1 ATGTGTCGTAT
52061304 ACTGCTTTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 37 0.84
23 7 0.16
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (21 bp):
ATGTGTCGTATCAGGCACCTC
Found at i:52062727 original size:22 final size:22
Alignment explanation
Indices: 52062695--52062737 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
52062685 TACTAGATAC
*
52062695 AGGGGCCACACGCCCGTGTGAG
1 AGGGGCAACACGCCCGTGTGAG
52062717 AGGGGCAACACGCCCGTGTGA
1 AGGGGCAACACGCCCGTGTGA
52062738 CCAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.30, G:0.40, T:0.09
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAG
Found at i:52064176 original size:27 final size:27
Alignment explanation
Indices: 52064146--52064323 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
52064136 ATATTGAGCC
* * *
52064146 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
52064173 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
52064200 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
52064228 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
52064255 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
52064282 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
52064309 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52064324 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:52064239 original size:55 final size:55
Alignment explanation
Indices: 52064146--52064323 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
52064136 ATATTGAGCC
* * *
52064146 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
52064200 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
52064255 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
52064309 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52064324 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:52064285 original size:82 final size:81
Alignment explanation
Indices: 52064167--52064322 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
52064157 TGCTATACAA
* * *
52064167 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
52064232 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
52064249 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
52064313 CACTTAGTGC
65 CACTTAGTGC
52064323 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:52067360 original size:44 final size:45
Alignment explanation
Indices: 52067291--52067403 Score: 140
Period size: 46 Copynumber: 2.5 Consensus size: 45
52067281 GCCAATGTAG
*
52067291 TGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCTGATACA
1 TGTCCCAGACAT-GTCTTACACTGACTACATCTCG-AGGCCGATACA
** * *
52067336 TGTCCCAGACATGTCTTACACTGACTTATGTCTCGAGGCCGGTGCA
1 TGTCCCAGACATGTCTTACACTGAC-TACATCTCGAGGCCGATACA
52067382 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
52067404 AGCACTCATC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 13 0.22
45 13 0.22
46 34 0.57
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGACTACATCTCGAGGCCGATACA
Found at i:52069039 original size:35 final size:34
Alignment explanation
Indices: 52068987--52069107 Score: 170
Period size: 35 Copynumber: 3.5 Consensus size: 34
52068977 GTTACAATTC
* *
52068987 CGCCACAACATCAATATCTCATTCATTTAACATGT
1 CGCCACAACACCGATATCTCATTCATTTAACAT-T
* * *
52069022 CGCCCCAACACCGATATCTCATTCATTTAGCATC
1 CGCCACAACACCGATATCTCATTCATTTAACATT
52069056 CTGCCACAACACCGATATCTCATTCATTTAACATCT
1 C-GCCACAACACCGATATCTCATTCATTTAACAT-T
52069092 CGCCACAACACCGATA
1 CGCCACAACACCGATA
52069108 CTTCTTTCGC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
34 1 0.01
35 74 0.97
36 1 0.01
ACGTcount: A:0.31, C:0.35, G:0.07, T:0.26
Consensus pattern (34 bp):
CGCCACAACACCGATATCTCATTCATTTAACATT
Found at i:52071946 original size:6 final size:6
Alignment explanation
Indices: 52071935--52071960 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
52071925 AGTTGTAAAG
52071935 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
52071961 ATTTATTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:52093912 original size:23 final size:20
Alignment explanation
Indices: 52093865--52093903 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
52093855 ATTATATGTT
*
52093865 GAATTAATTTTGTCCTAGCC
1 GAATTAAATTTGTCCTAGCC
52093885 GAATTAAATTTGTCCTAGC
1 GAATTAAATTTGTCCTAGC
52093904 TGCCGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (20 bp):
GAATTAAATTTGTCCTAGCC
Found at i:52095147 original size:22 final size:23
Alignment explanation
Indices: 52095122--52095166 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
52095112 GTGTACAAAA
52095122 TTCAAAA-TATAAAAAAAAAGAG
1 TTCAAAAGTATAAAAAAAAAGAG
52095144 TTCAAAAGTTATAAAAAAAAAGA
1 TTCAAAAG-TATAAAAAAAAAGA
52095167 AAAGAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.33
24 14 0.67
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (23 bp):
TTCAAAAGTATAAAAAAAAAGAG
Found at i:52095174 original size:24 final size:24
Alignment explanation
Indices: 52095129--52095175 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
52095119 AAATTCAAAA
***
52095129 TATAAAAAAAAAGAGTTCAAAAGT
1 TATAAAAAAAAAGAAAACAAAAGT
*
52095153 TATAAAAAAAAAGAAAAGAAAAG
1 TATAAAAAAAAAGAAAACAAAAG
52095176 AAAGATACTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (24 bp):
TATAAAAAAAAAGAAAACAAAAGT
Found at i:52100990 original size:20 final size:20
Alignment explanation
Indices: 52100965--52101012 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
52100955 GCCTACCCAT
52100965 ACGGGCGTGTCCCAAGCCAC
1 ACGGGCGTGTCCCAAGCCAC
52100985 ACGGGCGTGTCCCAAGCCAC
1 ACGGGCGTGTCCCAAGCCAC
*
52101005 ACAGGCGT
1 ACGGGCGT
52101013 ATGGCTCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.38, G:0.31, T:0.10
Consensus pattern (20 bp):
ACGGGCGTGTCCCAAGCCAC
Found at i:52103156 original size:24 final size:24
Alignment explanation
Indices: 52103111--52103170 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
52103101 AGTGAGCAAA
* *
52103111 AAAAGAAGAGTGAAAAAGAGAAAG
1 AAAAGAAAAGTGAAAAAAAGAAAG
52103135 AAAAGAAAAGT-AAGAAAAAGAAAG
1 AAAAGAAAAGTGAA-AAAAAGAAAG
*
52103159 AAAA-ACAAGTGA
1 AAAAGAAAAGTGA
52103171 TCAAACTGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 7 0.23
24 24 0.77
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.05
Consensus pattern (24 bp):
AAAAGAAAAGTGAAAAAAAGAAAG
Found at i:52103163 original size:20 final size:20
Alignment explanation
Indices: 52103126--52103162 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
52103116 AAGAGTGAAA
*
52103126 AAGAGAAAGAAAAGAAAAGT
1 AAGAAAAAGAAAAGAAAAGT
52103146 AAGAAAAAG-AAAGAAAA
1 AAGAAAAAGAAAAGAAAA
52103163 ACAAGTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (20 bp):
AAGAAAAAGAAAAGAAAAGT
Found at i:52106442 original size:20 final size:20
Alignment explanation
Indices: 52106419--52106457 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52106409 ATTATATGTT
* *
52106419 GAATTAATTTTGTCCTAGCC
1 GAATTAAATTTGTACTAGCC
52106439 GAATTAAATTTGTACTAGC
1 GAATTAAATTTGTACTAGC
52106458 TACCAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
GAATTAAATTTGTACTAGCC
Found at i:52109270 original size:6 final size:6
Alignment explanation
Indices: 52109252--52109308 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
52109242 AAGAAACATT
* *
52109252 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
52109301 ATCAGA AT
1 ATCAGA AT
52109309 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.05
6 35 0.83
7 4 0.10
8 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:52109497 original size:31 final size:32
Alignment explanation
Indices: 52109440--52109501 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
52109430 ATAAAGTCAC
* *
52109440 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
52109472 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
52109502 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:52109565 original size:27 final size:26
Alignment explanation
Indices: 52109518--52109568 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
52109508 CGAGGCTGCC
*
52109518 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
52109544 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
52109569 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:52109851 original size:27 final size:27
Alignment explanation
Indices: 52109821--52110250 Score: 449
Period size: 27 Copynumber: 16.0 Consensus size: 27
52109811 ATTACCATTT
* * *
52109821 TACCCCACAAGGGTATCTCGATAATTC
1 TACCCTACAGGGGTATTTCGATAATTC
52109848 TACCCTACAGGGGTATTTC-AGTAATTC
1 TACCCTACAGGGGTATTTCGA-TAATTC
* * *
52109875 TACCCTATAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGATAATTC
* * * *
52109902 TACCTTATAAGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGATAATTC
*
52109929 TACCCTACAGGGGTATTT-TAGTAATTC
1 TACCCTACAGGGGTATTTCGA-TAATTC
* *
52109956 TACCCTACAGGGGTATTT-TAGTATTTC
1 TACCCTACAGGGGTATTTCGA-TAATTC
* *
52109983 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGATAATTC
* * * *
52110010 TATCCTATAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGATAATTC
* * *
52110037 TACCCTACAAGAGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGATAATTC
* *
52110064 TACCTTATAGGGGTATTTC-AGTAATTC
1 TACCCTACAGGGGTATTTCGA-TAATTC
*
52110091 TACCCTATAGGGGTATTTC-AGTAATTC
1 TACCCTACAGGGGTATTTCGA-TAATTC
*
52110118 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGATAATTC
* * *
52110145 -ACCCTATAAGGGTATTTCGATATTTC
1 TACCCTACAGGGGTATTTCGATAATTC
* * *
52110171 TACCCTACAAGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGATAATTC
* *
52110198 TACCCTACAAGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGATAATTC
* *
52110225 TATCCTACAGGGGTATTTCAATAATT
1 TACCCTACAGGGGTATTTCGATAATT
52110251 TTGTAAATCG
Statistics
Matches: 353, Mismatches: 43, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
26 23 0.07
27 330 0.93
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGATAATTC
Found at i:52109879 original size:54 final size:54
Alignment explanation
Indices: 52109821--52110250 Score: 497
Period size: 54 Copynumber: 8.0 Consensus size: 54
52109811 ATTACCATTT
* *
52109821 TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTC
* * * * * * * *
52109875 TACCCTATAGGGGTATTTCGGTATTTCTACCTTATAAGGGTATTTCGGTAATTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTC
* * * *
52109929 TACCCTACAGGGGTATTT-TAGTAATTCTACCCTACAGGGGTATTTTAGTATTTC
1 TACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCAGTAATTC
* * * * * * *
52109983 TACCCTACAGGGGTATTTCGGTATTTCTATCCTATAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTC
* * * *
52110037 TACCCTACAAGAGTATTTCGGTAATTCTACCTTATAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTC
* * *
52110091 TACCCTATAGGGGTATTTC-AGTAATTCTACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCAGTAATTC
* * * * *
52110145 -ACCCTATAAGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTC
* * *
52110198 TACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAATAATT
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATT
52110251 TTGTAAATCG
Statistics
Matches: 318, Mismatches: 53, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
53 47 0.15
54 271 0.85
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTC
Found at i:52109936 original size:81 final size:81
Alignment explanation
Indices: 52109829--52110243 Score: 544
Period size: 81 Copynumber: 5.1 Consensus size: 81
52109819 TTTACCCCAC
* * *
52109829 AAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
52109894 GGTATTTCTACCTTAT
66 GGTAATTCTACCCTAT
* *
52109910 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTT
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * *
52109975 AGTATTTCTACCCTAC
66 GGTAATTCTACCCTAT
* * * * * * * *
52109991 AGGGGTATTTCGGTATTTCTATCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
*
52110056 GGTAATTCTACCTTAT
66 GGTAATTCTACCCTAT
* * *
52110072 AGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
52110137 GGTAATTC-ACCCTAT
66 GGTAATTCTACCCTAT
* * * * * *
52110152 AAGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
52110217 GGTAATTCTATCCTAC
66 GGTAATTCTACCCTAT
*
52110233 AGGGGTATTTC
1 AAGGGTATTTC
52110244 AATAATTTTG
Statistics
Matches: 291, Mismatches: 42, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
80 70 0.24
81 221 0.76
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
GGTAATTCTACCCTAT
Found at i:52110265 original size:27 final size:27
Alignment explanation
Indices: 52110235--52110473 Score: 137
Period size: 27 Copynumber: 8.9 Consensus size: 27
52110225 TATCCTACAG
**
52110235 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAATAATTTTACAAATCGA
*** * * * *
52110262 GGGTAAAACGATAATTCTATAAATCAA
1 GGGTATTTCAATAATTTTACAAATCGA
*** *
52110289 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTCAATAATTTTACAAATCGA
*
52110316 GGGTATTTCAATAATTTTACAAGT-GA
1 GGGTATTTCAATAATTTTACAAATCGA
* *
52110342 GGGTATTTTCAGTAATTTCACAAATC-A
1 GGGTA-TTTCAATAATTTTACAAATCGA
*** *
52110369 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCAATAATTTTACAAATCGA
** *
52110396 GGGGTATTTTGATAATTTTACAAA-CTA
1 -GGGTATTTCAATAATTTTACAAATCGA
*** *
52110423 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCAATAATTTTACAAATCGA
**
52110450 GGGGTATTTTGATAATTTTACAAA
1 -GGGTATTTCAATAATTTTACAAA
52110474 CCAGGGGTAT
Statistics
Matches: 180, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 8 0.04
27 167 0.93
28 5 0.03
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTACAAATCGA
Found at i:52110582 original size:27 final size:27
Alignment explanation
Indices: 52110289--52110576 Score: 319
Period size: 27 Copynumber: 10.7 Consensus size: 27
52110279 TATAAATCAA
**
52110289 GGGTATTTTGGTAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
*** ***
52110315 AGGGTATTTCAATAATTTTACAAGTGA-
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * *
52110342 GGGTATTTTCAGTAATTTCACAAATCAG
1 GGGTATTTT-GGTAATTTTACAAACCAG
*
52110370 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
52110397 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
52110424 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
52110451 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
52110478 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
52110505 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
52110532 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
52110559 TGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
52110577 GTAAACTAAA
Statistics
Matches: 226, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 8 0.04
27 209 0.92
28 9 0.04
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:52114520 original size:21 final size:21
Alignment explanation
Indices: 52114479--52114520 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
52114469 AAGTTGTTTA
* *
52114479 TCTATCAATAATCTTTCATTT
1 TCTACCAATAATCTTTAATTT
52114500 TCTACCAATAAT-TTCTAATTT
1 TCTACCAATAATCTT-TAATTT
52114521 CTAGCATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (21 bp):
TCTACCAATAATCTTTAATTT
Found at i:52118022 original size:48 final size:48
Alignment explanation
Indices: 52117877--52118104 Score: 216
Period size: 48 Copynumber: 4.9 Consensus size: 48
52117867 GGTTATGTAC
* * * * *
52117877 GATCCCATGTAAGACCATGTATAGGACATGGCTTTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATAT
* **** * * *
52117925 AATTTTGTGTAAGACCATAG-CTGGG-C-T---ATTGGCATTGATATGT
1 GATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGACATAT
*
52117968 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACCTAT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATAT
* * *
52118016 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATAT
* * * *
52118064 GATCCAATGTAAGACCATATCTAGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
52118105 CTACCATGTA
Statistics
Matches: 146, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 108 0.74
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATAT
Found at i:52118032 original size:91 final size:93
Alignment explanation
Indices: 52117877--52118104 Score: 259
Period size: 91 Copynumber: 2.4 Consensus size: 93
52117867 GGTTATGTAC
* * ****
52117877 GATCCCATGTAAGACCATGTATAGGACATGGCTTTGGCATCGATATGTAATTTTGTGTAAGACCA
1 GATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATG-AATCCCATGTAAGACCA
*
52117942 TAG-CTGGG-C-T-ATTGGCATTGATATGT
65 T-GTCTGGGACATGATTGGCATCGATATGT
*
52117968 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACCTATG-ATCCCATGTAAGACC
1 GATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGA--TATGAATCCCATGTAAGACC
*
52118032 ATGTTTGGGACATGGCATTGGCATCGATATGT
64 ATGTCTGGGACAT-G-ATTGGCATCGATATGT
* * *
52118064 GATCCAATGTAAGACCATATCTAGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATC
52118105 CTACCATGTA
Statistics
Matches: 116, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
90 1 0.01
91 57 0.49
92 1 0.01
93 5 0.04
96 52 0.45
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (93 bp):
GATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGAATCCCATGTAAGACCAT
GTCTGGGACATGATTGGCATCGATATGT
Found at i:52125302 original size:48 final size:48
Alignment explanation
Indices: 52125245--52125381 Score: 159
Period size: 48 Copynumber: 2.9 Consensus size: 48
52125235 ATCAATATGT
*
52125245 GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGACCTAC
1 GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGACATAC
** * * **
52125293 GATCCCATGTAAGACCATGTTTGAGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGACATAC
* * * *
52125341 GACCCCATGTAAGACCATATCC-GGGATATGACATTGGCATC
1 GATCCCATGTAAGACCAT-GCCTGGGACATGGCATTGGCATC
52125382 CTACCATGTA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGACATAC
Found at i:52131345 original size:56 final size:54
Alignment explanation
Indices: 52131224--52131380 Score: 172
Period size: 56 Copynumber: 2.8 Consensus size: 54
52131214 CATGACATAG
* * * *
52131224 CATGCCTCTCAACAGGGCTACATATGAGCACCCAGACCTAGCATGCATCACATTAT
1 CATGCCTCTCAACAGGGCTACATA--AGCTCCCAGACCTAGCATGTACCACATAAT
* * * * *
52131280 CACGTCTCTCAACAGGGCTACATAAGCTCTCGGACCTAGCGTGTACCACATAATT
1 CATGCCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTACCACATAA-T
*
52131335 ACATGCCTCTCAACGGGGCTACACT-AGCTCCCAGACCTAGCATGTA
1 -CATGCCTCTCAACAGGGCTACA-TAAGCTCCCAGACCTAGCATGTA
52131381 TCATGTCATC
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
54 22 0.27
55 1 0.01
56 59 0.71
57 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (54 bp):
CATGCCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTACCACATAAT
Found at i:52151492 original size:19 final size:19
Alignment explanation
Indices: 52151460--52151509 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
52151450 TGAGAATCAA
*
52151460 AATCAAAATCAGGTGACAG
1 AATCAGAATCAGGTGACAG
* *
52151479 AATCAGAATTAGGTGAGAG
1 AATCAGAATCAGGTGACAG
*
52151498 AATTAGAATCAG
1 AATCAGAATCAG
52151510 AATCAGTATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.24, T:0.20
Consensus pattern (19 bp):
AATCAGAATCAGGTGACAG
Found at i:52151511 original size:31 final size:31
Alignment explanation
Indices: 52151476--52151543 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
52151466 AATCAGGTGA
* * * * *
52151476 CAGAATCAGAATTAGGTGAGAGAATTAGAAT
1 CAGAATCAGAATCAGGTAACAGAATCAAAAT
*
52151507 CAGAATCAGTATCAGGTAACAGAATCAAAAT
1 CAGAATCAGAATCAGGTAACAGAATCAAAAT
52151538 CAGAAT
1 CAGAAT
52151544 GTGAATGCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAGGTAACAGAATCAAAAT
Found at i:52151807 original size:27 final size:26
Alignment explanation
Indices: 52151759--52151810 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52151749 GCGAGGCTGC
*
52151759 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
52151785 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
52151811 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:52152076 original size:27 final size:27
Alignment explanation
Indices: 52152046--52152239 Score: 298
Period size: 27 Copynumber: 7.2 Consensus size: 27
52152036 AACACCCCAG
**
52152046 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
52152073 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
52152100 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
52152127 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
52152154 GGGTAAAACAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
52152181 GGGTAAAACAATAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
52152208 GGGTAAAATAGTAATTTTATAATTCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
52152235 GGGTA
1 GGGTA
52152240 CTTTGATAAT
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:52152249 original size:27 final size:26
Alignment explanation
Indices: 52152218--52152364 Score: 125
Period size: 27 Copynumber: 5.5 Consensus size: 26
52152208 GGGTAAAATA
* *
52152218 GTAATTTTATAATTCGAGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTA-TTTG
* * *
52152245 ATAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTT-G
* *
52152272 ATAATTTTGCAAA-CTGAGGGTATTTTG
1 GTAATTTTACAAATC-GAGGGTA-TTTG
* *
52152299 GTAGTTTTACAAATCGAGGATATTTGG
1 GTAATTTTACAAATCGAGGGTATTT-G
* * *
52152326 GTAATTTTATAAACCGGGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTA-TTTG
52152353 GTAATTTTACAA
1 GTAATTTTACAA
52152365 CTGGGGTTAT
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.07
27 83 0.86
28 7 0.07
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (26 bp):
GTAATTTTACAAATCGAGGGTATTTG
Found at i:52152277 original size:54 final size:54
Alignment explanation
Indices: 52152219--52152364 Score: 159
Period size: 54 Copynumber: 2.7 Consensus size: 54
52152209 GGTAAAATAG
* * * *
52152219 TAATTTTATAATTCGAGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAAATCGAGGATATTTCAA
** * * ***
52152273 TAATTTTGCAAA-CTGAGGGTATTTTGGTAGTTTTACAAATCGAGGATATTTGGG
1 TAATTTTATAAATC-GAGGGTACTTTGGTAATTTTACAAATCGAGGATATTTCAA
* *
52152327 TAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAA
1 TAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAA
52152365 CTGGGGTTAT
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
53 1 0.01
54 72 0.97
55 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
TAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAAATCGAGGATATTTCAA
Found at i:52152382 original size:26 final size:25
Alignment explanation
Indices: 52152235--52152385 Score: 86
Period size: 27 Copynumber: 5.7 Consensus size: 25
52152225 TATAATTCGA
* * *
52152235 GGGTACTTTGATAATTTTACAAGTCG
1 GGGTATTTTGGTAATTTTACAACT-G
*** *
52152261 AGGGTATTTCAATAATTTTGCAAACTG
1 -GGGTATTTTGGTAATTTTAC-AACTG
* *
52152288 AGGGTATTTTGGTAGTTTTACAAATCG
1 -GGGTATTTTGGTAATTTTACAACT-G
* * * *
52152315 AGGATATTTGGGTAATTTTATAAACCGG
1 -GGGTATTTTGGTAATTTTA-CAA-CTG
*
52152343 GGGTACTTTGGTAATTTTACAACTG
1 GGGTATTTTGGTAATTTTACAACTG
*
52152368 GGGTTATTTTAGTAATTT
1 GGG-TATTTTGGTAATTT
52152386 GGTAAACTAA
Statistics
Matches: 95, Mismatches: 24, Indels: 11
0.73 0.18 0.08
Matches are distributed among these distances:
25 5 0.05
26 17 0.18
27 67 0.71
28 6 0.06
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (25 bp):
GGGTATTTTGGTAATTTTACAACTG
Found at i:52158249 original size:25 final size:25
Alignment explanation
Indices: 52158206--52158264 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
52158196 TAGCTATTCG
* * *
52158206 AGGCATGTATGCTTAATTCTAGTGA
1 AGGCATGAATGCTTAATTCTAATCA
* *
52158231 AGGCATGAATGGTTGATTCTAATCA
1 AGGCATGAATGCTTAATTCTAATCA
52158256 A-GCATGAAT
1 AGGCATGAAT
52158265 TGGTAAGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.28
25 21 0.72
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (25 bp):
AGGCATGAATGCTTAATTCTAATCA
Found at i:52160601 original size:11 final size:11
Alignment explanation
Indices: 52160585--52160627 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
52160575 TAAACAAATT
52160585 TATTATTTTAA
1 TATTATTTTAA
52160596 TATTATTTT-A
1 TATTATTTTAA
52160606 -A-TATTTTAA
1 TATTATTTTAA
52160615 TATTATTTTAA
1 TATTATTTTAA
52160626 TA
1 TA
52160628 ATAGATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
10 2 0.07
11 19 0.66
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTTTAA
Found at i:52160610 original size:19 final size:19
Alignment explanation
Indices: 52160583--52160627 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
52160573 AATAAACAAA
*
52160583 TTTATTATTTTAATATTAT
1 TTTAATATTTTAATATTAT
52160602 TTTAATATTTTAATATTAT
1 TTTAATATTTTAATATTAT
52160621 TTTAATA
1 TTTAATA
52160628 ATAGATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTAATATTTTAATATTAT
Found at i:52178527 original size:78 final size:77
Alignment explanation
Indices: 52178389--52178609 Score: 234
Period size: 78 Copynumber: 2.8 Consensus size: 77
52178379 TTGAATGCTG
* * * *
52178389 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGC-GAGT--ATAAATCCGGGCTAAG-TCCCGAAGGCATT
52178453 TGTGCGAGATA-CAAA
62 TGTGCGAGATATCAAA
* *
52178468 TTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGTA-TAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
52178532 GTGCGAGTTATTAAA
63 GTGCGAGATATCAAA
* * * *
52178547 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGT-TAAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTAT-AAATCCGGGCTAAGTCCCGAAGGCATTTG
52178610 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
76 1 0.01
77 27 0.22
78 53 0.44
79 22 0.18
80 18 0.15
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (77 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTATAAATCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGATATCAAA
Found at i:52178558 original size:40 final size:39
Alignment explanation
Indices: 52178389--52178609 Score: 220
Period size: 40 Copynumber: 5.7 Consensus size: 39
52178379 TTGAATGCTG
* * *
52178389 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-TATAAA
* * *
52178429 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTATAAA
* *
52178468 TTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAG-TACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TAAA
* *
52178507 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TAAA
* *
52178547 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTA-AAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATAAA
* *
52178584 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52178610 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 18, Indels: 18
0.81 0.09 0.09
Matches are distributed among these distances:
37 22 0.14
38 16 0.10
39 52 0.34
40 57 0.37
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATAAA
Found at i:52178598 original size:37 final size:39
Alignment explanation
Indices: 52178442--52178607 Score: 178
Period size: 39 Copynumber: 4.3 Consensus size: 39
52178432 GGACTAAGAT
* * * *
52178442 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTATAAA-ACCGGGTTAAGTC
* * *
52178481 CCGAAGGCCTTTGTGCGAG-TACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTA-TAAAACCGGGTTAAGTC
*
52178520 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTA-TAAAACCGGGTTAAGTC
* * *
52178560 CCGAAGGCATT-GTGTGAGTTA-AAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATAAAACCGGGTTAAGTC
52178597 CCGAAGGCATT
1 CCGAAGGCATT
52178608 TGAACGAGGA
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
37 24 0.21
38 13 0.11
39 48 0.42
40 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTATAAAACCGGGTTAAGTC
Found at i:52186478 original size:40 final size:40
Alignment explanation
Indices: 52186309--52186531 Score: 242
Period size: 39 Copynumber: 5.7 Consensus size: 40
52186299 TTGAATGCTG
* * * *
52186309 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
52186349 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
52186388 TTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAG-TACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
52186427 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
52186467 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
52186506 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52186532 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
38 14 0.09
39 74 0.47
40 61 0.39
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52186522 original size:118 final size:119
Alignment explanation
Indices: 52186309--52186564 Score: 263
Period size: 118 Copynumber: 2.2 Consensus size: 119
52186299 TTGAATGCTG
* * *
52186309 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTT
* * * ** *
52186374 GTGCGAGATACAAATTCCGGGTTAAGCCCGAAGGCCTTTGTGCGAGTA-CTAAA
66 GTGCGAGATACAAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGGAGCTAAA
* * * **
52186427 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
52186489 TTGTGTGAGTTACTAAA-ACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
64 TTGTGCGAGATAC-AAATACCGGGCTAAG-CCCGAAGGCATTTGAACGAGGAGCTAAA
*
52186546 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
52186565 TACGTGATTT
Statistics
Matches: 114, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
117 20 0.18
118 81 0.71
119 13 0.11
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACAAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGGAGCTAAA
Found at i:52186549 original size:79 final size:79
Alignment explanation
Indices: 52186389--52186564 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
52186379 AGATACAAAT
* * *
52186389 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
52186453 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
52186467 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
52186531 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
52186546 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
52186565 TACGTGATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 36 0.43
79 47 0.57
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:52189380 original size:65 final size:63
Alignment explanation
Indices: 52189236--52189380 Score: 139
Period size: 65 Copynumber: 2.2 Consensus size: 63
52189226 GTACCCAAAT
* ** * * * *
52189236 TGTACAACTTGAAAAGGTTATGTACACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTAAG
1 TGTACAACTAGAAAAGGAAAAGTACACTTTGTGTATACACTTGGAAAGGTAAGGTACACTAAG
* * * *
52189299 TGTATACCATATGAAAAGGAAAAGTATACTTTGTGTATACCACTTGGAAA-GTAATGTACACCTC
1 TGTACAAC-TA-GAAAAGGAAAAGTACACTTTGTGTATA-CACTTGGAAAGGTAAGGTACA-CT-
52189363 AAG
61 AAG
52189366 TGTACAACTAGAAAA
1 TGTACAACTAGAAAA
52189381 AAAAAGGTCC
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
63 6 0.09
64 1 0.02
65 34 0.53
66 14 0.22
67 9 0.14
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (63 bp):
TGTACAACTAGAAAAGGAAAAGTACACTTTGTGTATACACTTGGAAAGGTAAGGTACACTAAG
Found at i:52193854 original size:27 final size:27
Alignment explanation
Indices: 52193817--52194021 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
52193807 TAAATTGTAC
52193817 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
52193844 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
52193871 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52193897 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
52193925 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
52193953 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52193980 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
52194007 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52194022 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:52193956 original size:109 final size:108
Alignment explanation
Indices: 52193818--52194021 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
52193808 AAATTGTACA
* *
52193818 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
52193883 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
52193926 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
52193991 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
52194022 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:52199449 original size:48 final size:48
Alignment explanation
Indices: 52199397--52199645 Score: 268
Period size: 48 Copynumber: 5.2 Consensus size: 48
52199387 CATGTTGATG
* * * *
52199397 ACATGGCATTGGTGTTGATATATGTGTCTGTGTAAGACCATGTATGGT
1 ACATGGCATCGGTGTTGATATATGTGCCTGTGTAAGACCATGTCTGGA
*
52199445 ACATGGCATCGGGGTTGATATATGTGCCTGTGTAAGACCATGTCTGGA
1 ACATGGCATCGGTGTTGATATATGTGCCTGTGTAAGACCATGTCTGGA
* * ** * * *
52199493 ACATAGCATCAGCATTAATATATGTGCCTATGTAAGACCATGTCTGGG
1 ACATGGCATCGGTGTTGATATATGTGCCTGTGTAAGACCATGTCTGGA
* * * *
52199541 GCATGGCATCGATGTTGATATGTGTGCCAGTGTAAGACCATGTCTGGA
1 ACATGGCATCGGTGTTGATATATGTGCCTGTGTAAGACCATGTCTGGA
* * ** * *
52199589 ACATGGCATCGGCT-ATGATATGTG-GATTCATGTAAGACCATGTCTGGG
1 ACATGGCATCGG-TGTTGATATATGTGCCT-GTGTAAGACCATGTCTGGA
52199637 ACATGGCAT
1 ACATGGCAT
52199646 TGGTACTTTA
Statistics
Matches: 168, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 166 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (48 bp):
ACATGGCATCGGTGTTGATATATGTGCCTGTGTAAGACCATGTCTGGA
Done.