Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 158 of 325
Found at i:48439155 original size:27 final size:26
Alignment explanation
Indices: 48439107--48439166 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
48439097 GCGAGGCTGC
*
48439107 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
48439134 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
48439160 CAAATAT
1 CAGATAT
48439167 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:48439955 original size:27 final size:27
Alignment explanation
Indices: 48439927--48440000 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
48439917 TACCCTGCAG
*
48439927 GGGTATTTCGAT-ATTTTACAAATTGA
1 GGGTATTTCGATAATTTCACAAATTGA
* *
48439953 GGGTATTTTGATAATTTCACAAA-TCA
1 GGGTATTTCGATAATTTCACAAATTGA
* * *
48439979 GGGTATTTTGGTAATTTTACAA
1 GGGTATTTCGATAATTTCACAA
48440001 GCCAGGGGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 33 0.79
27 9 0.21
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGATAATTTCACAAATTGA
Found at i:48439965 original size:26 final size:26
Alignment explanation
Indices: 48439927--48440104 Score: 171
Period size: 27 Copynumber: 6.7 Consensus size: 26
48439917 TACCCTGCAG
* *
48439927 GGGTATTTCGAT-ATTTTACAAATTGA
1 GGGTATTTTGATAATTTTACAAA-TCA
*
48439953 GGGTATTTTGATAATTTCACAAATCA
1 GGGTATTTTGATAATTTTACAAATCA
* **
48439979 GGGTATTTTGGTAATTTTACAAGCCA
1 GGGTATTTTGATAATTTTACAAATCA
* *
48440005 GGGGTATTTTGGTAATTTTACAAACCA
1 -GGGTATTTTGATAATTTTACAAATCA
*
48440032 GGGGTATTTT-AGTAATTTTACAAACCA
1 -GGGTATTTTGA-TAATTTTACAAATCA
* **
48440059 GGGGTATTTTGGTAATTTTACTGATCGA
1 -GGGTATTTTGATAATTTTACAAATC-A
*
48440087 GGGTATTTTGGTAATTTT
1 GGGTATTTTGATAATTTT
48440105 GTAAACTAAG
Statistics
Matches: 134, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
26 35 0.26
27 98 0.73
28 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGATAATTTTACAAATCA
Found at i:48440017 original size:27 final size:27
Alignment explanation
Indices: 48439953--48440131 Score: 209
Period size: 27 Copynumber: 6.7 Consensus size: 27
48439943 TACAAATTGA
* * *
48439953 GGGTATTTTGATAATTTCACAAATCA-
1 GGGTATTTTGGTAATTTTACAAACCAG
*
48439979 GGGTATTTTGGTAATTTTACAAGCCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
48440006 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
48440033 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
48440060 GGGTATTTTGGTAATTTTACTGATC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
48440086 AGGGTATTTTGGTAATTTTGTAAACTAA
1 -GGGTATTTTGGTAATTTTACAAACCAG
**
48440114 GGGTATTTCAGTAATTTT
1 GGGTATTTTGGTAATTTT
48440132 GTAAATCGAG
Statistics
Matches: 131, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 23 0.18
27 108 0.82
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:48440101 original size:81 final size:80
Alignment explanation
Indices: 48439924--48440131 Score: 233
Period size: 81 Copynumber: 2.6 Consensus size: 80
48439914 TCCTACCCTG
* * *** * *
48439924 CAGGGGTATTTCGAT-ATTTTACAAATTGAGGGTATTTT-GATAATTTCACAAATCAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTTACAAACCAGGGTATTT
48439987 TGGTAATTTTACAAGC
65 TGGTAATTTTACAAGC
*
48440003 CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCA-GGGTATTT
* *
48440068 TGGTAATTTTACTGATC
65 TGGTAATTTTAC-AAGC
* ** * *
48440085 GA-GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
48440132 GTAAATCGAG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 13 0.12
80 32 0.29
81 61 0.56
82 3 0.03
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (80 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGTATTTT
GGTAATTTTACAAGC
Found at i:48440143 original size:27 final size:27
Alignment explanation
Indices: 48440124--48440252 Score: 170
Period size: 27 Copynumber: 4.8 Consensus size: 27
48440114 GGGTATTTCA
* * *
48440124 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTATAACG
*
48440151 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTATAACG
* *
48440178 GTAATTCTGTAAATCTAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTATAACG
* *
48440205 ATAATTCTATAAATCGAGGGTA-AACG
1 GTAATTCTGTAAATCGAGGGTATAACG
*
48440231 GTAATTCTGTAAATCGATGGTA
1 GTAATTCTGTAAATCGAGGGTA
48440253 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
26 23 0.25
27 70 0.75
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTATAACG
Found at i:48440167 original size:81 final size:79
Alignment explanation
Indices: 48440082--48440297 Score: 218
Period size: 80 Copynumber: 2.7 Consensus size: 79
48440072 AATTTTACTG
*
48440082 ATCGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTGTAAACT-AGGGTATTTCAGTAATTTTGTAAATCGAGGGT-A
48440147 AACAGTAATTCTGTAA
64 AACAGTAATTCTGTAA
*** * *** * *
48440163 ATCGAGGGTAAAACGGTAATTCTGTAAATCTAGGGTAAAAC-GATAATTCTATAAATCGAGGGTA
1 ATCGAGGGTAATTTGGTAATTTTGTAAA-CTAGGGTATTTCAG-TAATTTTGTAAATCGAGGGTA
*
48440227 AACGGTAATTCTGTAA
64 AACAGTAATTCTGTAA
* * ** * * *
48440243 ATCGATGGTACTTTGGTAATTTTACAAATTGAGGGCATTTCAGTAATTTGGTAAA
1 ATCGAGGGTAATTTGGTAATTTTGTAAACT-AGGGTATTTCAGTAATTTTGTAAA
48440298 CTAAAGTATT
Statistics
Matches: 104, Mismatches: 27, Indels: 9
0.74 0.19 0.06
Matches are distributed among these distances:
79 1 0.01
80 52 0.50
81 49 0.47
82 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (79 bp):
ATCGAGGGTAATTTGGTAATTTTGTAAACTAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAA
CAGTAATTCTGTAA
Found at i:48440263 original size:53 final size:54
Alignment explanation
Indices: 48440124--48440252 Score: 197
Period size: 54 Copynumber: 2.4 Consensus size: 54
48440114 GGGTATTTCA
* * *
48440124 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* *
48440178 GTAATTCTGTAAATCTAGGGTAAAACGATAATTCTATAAATCGAGGGT-AAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
*
48440231 GTAATTCTGTAAATCGATGGTA
1 GTAATTCTGTAAATCGAGGGTA
48440253 CTTTGGTAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
53 25 0.37
54 43 0.63
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
Found at i:48442875 original size:31 final size:31
Alignment explanation
Indices: 48442837--48442900 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
48442827 TCGTACCTCG
48442837 TTCTGAAAGCAGTTTTCGAAATGTCTGAGTC
1 TTCTGAAAGCAGTTTTCGAAATGTCTGAGTC
*
48442868 TTCTGAAAGTAGTTTTCGAAATGTCTGAGTC
1 TTCTGAAAGCAGTTTTCGAAATGTCTGAGTC
48442899 TT
1 TT
48442901 TCACTCGCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (31 bp):
TTCTGAAAGCAGTTTTCGAAATGTCTGAGTC
Found at i:48446525 original size:38 final size:38
Alignment explanation
Indices: 48446482--48446697 Score: 148
Period size: 38 Copynumber: 5.2 Consensus size: 38
48446472 TTTCAAATTA
*
48446482 ACATGTATAGCCGTGGCATATCCACTTAGCACCATGTT
1 ACATGTATAGCCGTGGCATATCCACTTAGCACCACGTT
* * * * *
48446520 ACATGTTTAACCGTGGTATATCCACTTAGAATCACGTT
1 ACATGTATAGCCGTGGCATATCCACTTAGCACCACGTT
48446558 A-ATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATG------TATA-G---CCGTGGCATATCCACTTAGCACCACGTT
* * * *
48446605 ACATGTTTAACCGTGGTATATCCACTTAGCACCATGTT
1 ACATGTATAGCCGTGGCATATCCACTTAGCACCACGTT
48446643 A-ATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATG------TATA-G---CCGTGGCATATCCACTTAGCACCACGTT
48446690 ACATGTAT
1 ACATGTAT
48446698 CAATATGTGT
Statistics
Matches: 137, Mismatches: 19, Indels: 40
0.70 0.10 0.20
Matches are distributed among these distances:
37 6 0.04
38 60 0.44
42 6 0.04
43 6 0.04
47 53 0.39
48 6 0.04
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (38 bp):
ACATGTATAGCCGTGGCATATCCACTTAGCACCACGTT
Found at i:48446581 original size:47 final size:47
Alignment explanation
Indices: 48446527--48446737 Score: 262
Period size: 47 Copynumber: 4.7 Consensus size: 47
48446517 GTTACATGTT
* *
48446527 TAACCGTGGTATATCCACTTAGAATCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
48446574 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
48446612 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
48446659 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
*
48446707 TAATCGTGGTATAT-CACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
48446738 CACGTATAAC
Statistics
Matches: 141, Mismatches: 13, Indels: 20
0.81 0.07 0.11
Matches are distributed among these distances:
38 27 0.19
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 73 0.52
48 25 0.18
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:48446589 original size:85 final size:85
Alignment explanation
Indices: 48446492--48446695 Score: 372
Period size: 85 Copynumber: 2.4 Consensus size: 85
48446482 ACATGTATAG
* *
48446492 CCGTGGCATATCCACTTAGCACCATGTTACATGTTTAACCGTGGTATATCCACTTAGAATCACGT
1 CCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGAACCACGT
48446557 TAATGAATCAATATATGTAA
66 TAATGAATCAATATATGTAA
* *
48446577 CCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCATGT
1 CCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGAACCACGT
48446642 TAATGAATCAATATATGTAA
66 TAATGAATCAATATATGTAA
48446662 CCGTGGCATATCCACTTAGCACCACGTTACATGT
1 CCGTGGCATATCCACTTAGCACCACGTTACATGT
48446696 ATCAATATGT
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 115 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (85 bp):
CCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGAACCACGT
TAATGAATCAATATATGTAA
Found at i:48446688 original size:132 final size:132
Alignment explanation
Indices: 48446527--48446770 Score: 373
Period size: 132 Copynumber: 1.8 Consensus size: 132
48446517 GTTACATGTT
* *
48446527 TAACCGTGGTATATCCACTTAGAATCACGTTA-ATGAATCAATATATGTAACCGTGGCATATCCA
1 TAACCGTGGCATATCCACTTAGAACCACGTTACATGAATCAATATATGTAACCGTGGCATAT-CA
* *
48446591 CTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATAT
65 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATAT
48446656 ATG
130 ATG
* * * * *
48446659 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCAC
1 TAACCGTGGCATATCCACTTAGAACCACGTTACATGAATCAATATATGTAACCGTGGCATATCAC
* *
48446724 TTAGCACCACGTTACACGTATAACCGTGGTATATTCACTTAGTACCA
66 TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCA
48446771 CATTTTTTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
132 75 0.75
133 25 0.25
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGAACCACGTTACATGAATCAATATATGTAACCGTGGCATATCAC
TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATA
TG
Found at i:48448281 original size:28 final size:28
Alignment explanation
Indices: 48448233--48448300 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
48448223 ATTTAAAACC
* *
48448233 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
48448260 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
48448288 TAGGGGTAATTTC
1 TAGGGGTAATTTC
48448301 GTGATCTACG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCAGTAATTTTGCTCTT
Found at i:48449529 original size:44 final size:44
Alignment explanation
Indices: 48449475--48449570 Score: 185
Period size: 44 Copynumber: 2.2 Consensus size: 44
48449465 AGAAAAGATG
48449475 AAAG-AAAGCTTTCAGGTGGCTAACCCTAATTCTCCAAGATAGA
1 AAAGAAAAGCTTTCAGGTGGCTAACCCTAATTCTCCAAGATAGA
48449518 AAAGAAAAGCTTTCAGGTGGCTAACCCTAATTCTCCAAGATAGA
1 AAAGAAAAGCTTTCAGGTGGCTAACCCTAATTCTCCAAGATAGA
48449562 AAAGAAAAG
1 AAAGAAAAG
48449571 AGAGCAATCG
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 4 0.08
44 48 0.92
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (44 bp):
AAAGAAAAGCTTTCAGGTGGCTAACCCTAATTCTCCAAGATAGA
Found at i:48452522 original size:27 final size:27
Alignment explanation
Indices: 48452491--48452552 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
48452481 ATTTAAAACC
*
48452491 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCAGTAATTTTGCTCTT
*
48452518 TA-GGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGT-ATATCAGTAATTTTGCTCTT
48452545 TAGGGGTA
1 TAGGGGTA
48452553 ATTTCGTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 4 0.13
27 23 0.74
28 4 0.13
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCAGTAATTTTGCTCTT
Found at i:48455691 original size:6 final size:6
Alignment explanation
Indices: 48455680--48455854 Score: 139
Period size: 6 Copynumber: 28.8 Consensus size: 6
48455670 AACCAAAATG
* *
48455680 AGAATC AGAATC AGAATC AGTAA-C AGAATT AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
48455728 AGTAA-C AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C
1 AG-AATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
* * *
48455777 AAAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
48455825 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
48455855 GTGAATGTAA
Statistics
Matches: 135, Mismatches: 18, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
5 11 0.08
6 111 0.82
7 10 0.07
8 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:48455707 original size:24 final size:24
Alignment explanation
Indices: 48455680--48455829 Score: 162
Period size: 24 Copynumber: 6.2 Consensus size: 24
48455670 AACCAAAATG
48455680 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* * **
48455704 AGAATTAGAATCAGAATCAATATT
1 AGAATCAGAATCAGAATCAGTAAC
* *
48455728 AGTAA-CAGAATCAGAATTAGGTGAC
1 AG-AATCAGAATCAGAATCA-GTAAC
48455753 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* **
48455777 AAAATCAGAATCAGAATCAGTATT
1 AGAATCAGAATCAGAATCAGTAAC
48455801 AGTAA-CAGAATCAGAATCAG-AATC
1 AG-AATCAGAATCAGAATCAGTAA-C
48455825 AGAAT
1 AGAAT
48455830 TACGTGACAG
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
23 3 0.03
24 79 0.77
25 20 0.20
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:48455767 original size:73 final size:73
Alignment explanation
Indices: 48455680--48455817 Score: 249
Period size: 73 Copynumber: 1.9 Consensus size: 73
48455670 AACCAAAATG
* *
48455680 AGAATCAGAATCAGAATCAGTAACAGAATTAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
48455745 TAGGTGAC
66 TAGGTGAC
*
48455753 AGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
48455818 CAGAATCAGA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (73 bp):
AGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
TAGGTGAC
Found at i:48456009 original size:27 final size:26
Alignment explanation
Indices: 48455972--48456057 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
48455962 AGCATGGCTG
*
48455972 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
48455998 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
** * *
48456025 CCAGAACAGATATTTTGGCATAGCCA
1 CCAGAACAGATATCGTGACAGAGCCA
48456051 CCAGAAC
1 CCAGAAC
48456058 GCTTCCTCCG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 31 0.57
27 23 0.43
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:48456286 original size:27 final size:27
Alignment explanation
Indices: 48456256--48456441 Score: 205
Period size: 27 Copynumber: 7.0 Consensus size: 27
48456246 GGGGCAAAAT
* * *
48456256 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48456283 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48456310 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
48456337 GATAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48456364 GGTAATTCTATCCTATAATGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
48456391 AGTAATTCTA-CCTATAGGGGTGTTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48456417 GGAAATTCTACCCTAC-AGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
48456442 TAGTAATTTC
Statistics
Matches: 131, Mismatches: 27, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
26 28 0.21
27 103 0.79
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:48456490 original size:27 final size:27
Alignment explanation
Indices: 48456454--48457106 Score: 676
Period size: 27 Copynumber: 24.2 Consensus size: 27
48456444 GTAATTTCAC
* *
48456454 AATCAAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
*
48456481 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
*
48456508 AA-CTGAGGGT-AAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGA-TAATTCTGTA
* * * * **
48456535 AATCAAAGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
48456562 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
*
48456589 AATCGAGGGTAAAA-TAGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
*
48456616 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
*
48456643 AATCGAGGGTAAAA-TAGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* *
48456670 AATCGAGGGTAAAA-TAGTAATTTTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* *
48456697 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
* **
48456724 AATCGAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
48456751 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTA
48456778 AATCGAGGGTAAAAC-AGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* * *
48456805 AA-CTGAGGGTGAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
*
48456832 AATCGAGGGTAAAA-TAGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
48456859 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
*
48456886 AATCGAGGGTAAAA-TAGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
48456913 AA-CTGAGGGTAAAAC-AGTAATTCTGTA
1 AATC-GAGGGTAAAACGA-TAATTCTGTA
* *
48456940 AATCGAAGGGTAAAACGGTAATTCTATA
1 AATCG-AGGGTAAAACGATAATTCTGTA
*
48456968 AATCGATGGT-AAAC-AGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* *
48456994 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGATAATTCTGTA
* * *
48457021 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTA
48457048 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
*
48457075 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
48457102 AATCG
1 AATCG
48457107 GGAGTACTTT
Statistics
Matches: 535, Mismatches: 58, Indels: 66
0.81 0.09 0.10
Matches are distributed among these distances:
25 1 0.00
26 33 0.06
27 464 0.87
28 37 0.07
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTGTA
Found at i:48457137 original size:81 final size:81
Alignment explanation
Indices: 48456454--48457106 Score: 790
Period size: 81 Copynumber: 8.1 Consensus size: 81
48456444 GTAATTTCAC
* * * *
48456454 AATCAAGGGTAAAATGATAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC-GAGGGT
*
48456518 AAACCAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* * * ** * *
48456535 AATCAAAGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
*
48456600 AAATAGTAATTCTGTA
66 AAACAGTAATTCTGTA
*
48456616 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCGAGGG
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGG
* *
48456679 TAAAATAGTAATTTTGTA
64 TAAAACAGTAATTCTGTA
* * **
48456697 AA-CTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTACAAATCGAGGGT
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGT
* *
48456761 AAAACGGTAATTCTATA
65 AAAACAGTAATTCTGTA
* * * *
48456778 AATCGAGGGTAAAACAGTAATTCTGTAAA-CTGAGGGTGAAATGGTAATTCTGTAAATCGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTGTAAATCGAGGGT
*
48456842 AAAATAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* *
48456859 AA-CTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAA-CTGAGG
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATC-GAGG
48456921 GTAAAACAGTAATTCTGTA
63 GTAAAACAGTAATTCTGTA
* *
48456940 AATCGAAGGGTAAAACGGTAATTCTATAAATCGATGGT-AAAC-AGTAATTCTGTAAA-CTGAGG
1 AATCG-AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATC-GAGG
* *
48457002 GTAAAACGGTAATTCTATA
63 GTAAAACAGTAATTCTGTA
* *
48457021 AATCGAGGGTGAAACGGTAATTCTATAAA-CTGAGGGTAAAACGATAATTCTGTAAATCGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTGTAAATCGAGGGT
*
48457085 AAAACGGTAATTCTGTA
65 AAAACAGTAATTCTGTA
48457102 AATCG
1 AATCG
48457107 GGAGTACTTT
Statistics
Matches: 503, Mismatches: 52, Indels: 34
0.85 0.09 0.06
Matches are distributed among these distances:
79 1 0.00
80 32 0.06
81 434 0.86
82 36 0.07
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:48460776 original size:28 final size:29
Alignment explanation
Indices: 48460736--48460808 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 29
48460726 CCTCCGAGCT
** * *
48460736 CGCACACCCAGTGCCGTATTTTTC-AGCT
1 CGCACACTTAGTGCCGTATATTTCTAGCA
* *
48460764 TGCACACTTAGTGCCATATATTTCTAGCA
1 CGCACACTTAGTGCCGTATATTTCTAGCA
48460793 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
48460809 ATCTCGTCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCGTATATTTCTAGCA
Found at i:48474097 original size:84 final size:85
Alignment explanation
Indices: 48473955--48474158 Score: 266
Period size: 84 Copynumber: 2.4 Consensus size: 85
48473945 TTAATATGTA
* * * * * * *
48473955 TAACCGTGGCATATCTATTTAGCACCACGTTACGTATTTAACTGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCAACACGATACATATTTAACCGTGGTATATCCACTTAGCACAA
*
48474020 CGTTAATGAATCAATATATG
66 CATTAATGAATCAATATATG
* * *
48474040 TAACCATGGCATATCCACTTAGCAACAC-ATACATGTTTAACCGTGGTATATCTACTTAGCACAA
1 TAACCGTGGCATATCCACTTAGCAACACGATACATATTTAACCGTGGTATATCCACTTAGCACAA
48474104 CATTAATGAATCAATATATG
66 CATTAATGAATCAATATATG
* * * *
48474124 TAACTGTGGCATATTCACTTAGCACCACGTTACAT
1 TAACCGTGGCATATCCACTTAGCAACACGATACAT
48474159 GTATCAATAA
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 73 0.72
85 29 0.28
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCAACACGATACATATTTAACCGTGGTATATCCACTTAGCACAA
CATTAATGAATCAATATATG
Found at i:48474174 original size:48 final size:48
Alignment explanation
Indices: 48474081--48474210 Score: 140
Period size: 48 Copynumber: 2.7 Consensus size: 48
48474071 CATGTTTAAC
* * * *
48474081 CGTGGTATATCTACTTAGCACAACATTA-ATGAATCAATATATGTAA-
1 CGTGGCATATCCACTTAGCACAACGTTACATGTATCAATATATGTAAT
* *
48474127 CTGTGGCATATTCACTTAGCACCACGTTACATGTATCAATA-AGTGTAAT
1 C-GTGGCATATCCACTTAGCACAACGTTACATGTATCAATATA-TGTAAT
* * *
48474176 CGTGGTATATCCATTTAGCACAACGTTACACGTAT
1 CGTGGCATATCCACTTAGCACAACGTTACATGTAT
48474211 AACCGTGGTA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
46 1 0.01
47 23 0.33
48 44 0.64
49 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (48 bp):
CGTGGCATATCCACTTAGCACAACGTTACATGTATCAATATATGTAAT
Found at i:48478915 original size:41 final size:43
Alignment explanation
Indices: 48478815--48478919 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
48478805 AATGCCGACG
* * * * * *
48478815 TCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGAAATCAAACATCGATGCAAATA
* * *
48478858 TCCCAGAGAGGGTCTTACACGAAATCAAATA-CGATG-AAATA
1 TCCCAGACATGGTCTTACACGAAATCAAACATCGATGCAAATA
48478899 TCCCAGACATGGTCTTACACG
1 TCCCAGACATGGTCTTACACG
48478920 TAAAATAGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 21 0.41
42 5 0.10
43 25 0.49
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCAAACATCGATGCAAATA
Found at i:48480336 original size:40 final size:40
Alignment explanation
Indices: 48480290--48480373 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
48480280 CAGTACCACT
* *
48480290 TATAGCCGAAGCTATT-TCAAATTGCACACTAAATGCCATA
1 TATAGCCAAAGCT-TTCTCAAATTACACACTAAATGCCATA
* * *
48480330 TATAGCCAAAGGTTTCTCGAATTACACACTAAGTGCCATA
1 TATAGCCAAAGCTTTCTCAAATTACACACTAAATGCCATA
48480370 TATA
1 TATA
48480374 TATCCAAATC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (40 bp):
TATAGCCAAAGCTTTCTCAAATTACACACTAAATGCCATA
Found at i:48484321 original size:25 final size:25
Alignment explanation
Indices: 48484292--48484339 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48484282 TTATAATATG
* * *
48484292 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
48484317 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
48484340 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:48484390 original size:9 final size:9
Alignment explanation
Indices: 48484378--48484434 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
48484368 TTTGATAAAC
48484378 ATGATATGT
1 ATGATATGT
*
48484387 ATGATATGCAC
1 ATGATATG--T
*
48484398 ATGACATGT
1 ATGATATGT
*
48484407 ATGATATGCAC
1 ATGATATG--T
48484418 ATGATATGT
1 ATGATATGT
48484427 ATGATATG
1 ATGATATG
48484435 CACAAGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:48484401 original size:20 final size:20
Alignment explanation
Indices: 48484376--48484438 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
48484366 ATTTTGATAA
48484376 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48484396 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
48484416 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48484436 ACA
1 ACA
48484439 AGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48484631 original size:25 final size:24
Alignment explanation
Indices: 48484492--48484635 Score: 213
Period size: 24 Copynumber: 6.0 Consensus size: 24
48484482 GAGGAAGTGC
*
48484492 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48484516 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48484540 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48484564 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48484587 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
48484612 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
48484636 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 2, Indels: 11
0.90 0.02 0.09
Matches are distributed among these distances:
23 29 0.26
24 53 0.47
25 21 0.19
26 9 0.08
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:48484867 original size:31 final size:31
Alignment explanation
Indices: 48484832--48484891 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
48484822 TACAATAAAG
48484832 GCTTCGGCCCAGTAATATGAAATATGAAAAC
1 GCTTCGGCCCAGTAATATGAAATATGAAAAC
** *
48484863 GCTTCGGCCCAGTGTTATGAATTATGAAA
1 GCTTCGGCCCAGTAATATGAAATATGAAA
48484892 TATGAAAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (31 bp):
GCTTCGGCCCAGTAATATGAAATATGAAAAC
Found at i:48488613 original size:71 final size:71
Alignment explanation
Indices: 48488535--48488690 Score: 303
Period size: 71 Copynumber: 2.2 Consensus size: 71
48488525 CATCATGTGT
48488535 ACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48488600 ATGTAG
66 ATGTAG
*
48488606 ACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48488671 ATGTAG
66 ATGTAG
48488677 ACAAGAGAGCTACG
1 ACAAGAGAGCTACG
48488691 AGACAAATCG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 84 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (71 bp):
ACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
ATGTAG
Found at i:48496144 original size:41 final size:41
Alignment explanation
Indices: 48496099--48496216 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
48496089 TGAAAGATAA
48496099 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
48496140 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48496170 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48496211 ATGTAG
1 ATGTAG
48496217 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:48496150 original size:71 final size:71
Alignment explanation
Indices: 48496067--48496230 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48496057 GAGATGTATC
48496067 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48496132 AGGACA
66 AGGACA
48496138 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48496203 AGGACA
66 AGGACA
48496209 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48496231 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:48498685 original size:20 final size:20
Alignment explanation
Indices: 48498660--48498697 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48498650 GTTTATTCGC
*
48498660 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
48498680 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
48498698 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:48500292 original size:28 final size:28
Alignment explanation
Indices: 48500260--48500328 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
48500250 GCGTAGATCA
48500260 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
48500288 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
48500316 CGATA-TACCCCTA
1 CGAAATTACCCCTA
48500329 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:48506619 original size:20 final size:20
Alignment explanation
Indices: 48506594--48506631 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48506584 GTTTATTCGC
*
48506594 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
48506614 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
48506632 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:48508292 original size:28 final size:28
Alignment explanation
Indices: 48508260--48508328 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
48508250 GCGTAGATCA
48508260 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
48508288 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
48508316 CGATA-TACCCCTA
1 CGAAATTACCCCTA
48508329 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:48512935 original size:39 final size:39
Alignment explanation
Indices: 48512813--48512923 Score: 168
Period size: 39 Copynumber: 2.8 Consensus size: 39
48512803 TGCATGGTAT
* *
48512813 TGGAAATACATCCGAACTTGAAGTCCACAGGCTTTATGC
1 TGGAAATACATCCGGACTTGAAGTCCGCAGGCTTTATGC
*
48512852 TAGAAATACATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAATACATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * *
48512891 TGGAAATATATCTGGACTTAAAGTCCGCAGGCT
1 TGGAAATACATCCGGACTTGAAGTCCGCAGGCT
48512924 AAGTGCTGGA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (39 bp):
TGGAAATACATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:48512941 original size:39 final size:39
Alignment explanation
Indices: 48512828--48512941 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 39
48512818 ATACATCCGA
* * * * * * *
48512828 ACTTGAAGTCCACAGGCTTTATGCTAGAAATACATCCGG
1 ACTTAAAGTCCGCAGGCTTAATGCTGGAAAAATATCTGG
* * *
48512867 ACTTGAAGTCCGCAGGCTTTATGCTGGAAATATATCTGG
1 ACTTAAAGTCCGCAGGCTTAATGCTGGAAAAATATCTGG
48512906 ACTTAAAGTCCGCAGGC-TAAGTGCTGGAAAAATATC
1 ACTTAAAGTCCGCAGGCTTAA-TGCTGGAAAAATATC
48512942 CGGGCTAAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 2 0.03
39 65 0.97
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (39 bp):
ACTTAAAGTCCGCAGGCTTAATGCTGGAAAAATATCTGG
Found at i:48514292 original size:23 final size:22
Alignment explanation
Indices: 48514262--48514350 Score: 94
Period size: 23 Copynumber: 3.9 Consensus size: 22
48514252 AGCTTATTGT
48514262 TTTCAGCTCATTAGAGCTTACCA
1 TTTCAGCTCA-TAGAGCTTACCA
48514285 TTTCAGCTCATATGAGC-T-CGC-
1 TTTCAGCTCATA-GAGCTTAC-CA
*
48514306 TGTTCAGCTCGAAAGAGCTTACCA
1 T-TTCAGCTC-ATAGAGCTTACCA
48514330 TTTCAGCTCAATAGAGCTTAC
1 TTTCAGCTC-ATAGAGCTTAC
48514351 TGTTCATCAG
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
21 2 0.04
22 16 0.29
23 36 0.64
24 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (22 bp):
TTTCAGCTCATAGAGCTTACCA
Found at i:48516849 original size:40 final size:40
Alignment explanation
Indices: 48516780--48516917 Score: 215
Period size: 40 Copynumber: 3.5 Consensus size: 40
48516770 AACCCAAGTA
* * *
48516780 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
48516819 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
*
48516859 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48516899 CCTTCGGATCTTAGTCCGG
1 CCTTCGGAACTTAGCCCGG
48516918 TTATCATCCG
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 12 0.13
40 79 0.87
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48525283 original size:23 final size:24
Alignment explanation
Indices: 48525230--48525318 Score: 62
Period size: 23 Copynumber: 3.9 Consensus size: 24
48525220 CAGCTTGTAA
**
48525230 GAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACCATTTTCAGCTCATTG
* * *
48525254 GAACTTACCATTTT-AGCTCGTTT
1 GAGCTTACCATTTTCAGCTCATTG
* *
48525277 GAGCTTA-C-TGTTCAGCTCGA-TA
1 GAGCTTACCATTTTCAGCTC-ATTG
*
48525299 GAGCTGACCA-TTTCAGCTCA
1 GAGCTTACCATTTTCAGCTCA
48525319 ATAGAGCTCA
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
21 3 0.06
22 14 0.28
23 22 0.44
24 11 0.22
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (24 bp):
GAGCTTACCATTTTCAGCTCATTG
Found at i:48525302 original size:22 final size:22
Alignment explanation
Indices: 48525268--48525335 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
48525258 TTACCATTTT
* * *
48525268 AGCTCGTTTGAGCTTACTGTTC
1 AGCTCGATAGAGCTCACTGTTC
*
48525290 AGCTCGATAGAGCTGACCAT-TTC
1 AGCTCGATAGAGCTCA-C-TGTTC
*
48525313 AGCTCAATAGAGCTCACTGTTC
1 AGCTCGATAGAGCTCACTGTTC
48525335 A
1 A
48525336 TTAGCTTAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.03
22 18 0.47
23 18 0.47
24 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (22 bp):
AGCTCGATAGAGCTCACTGTTC
Found at i:48526606 original size:30 final size:30
Alignment explanation
Indices: 48526572--48526629 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
48526562 AAGACACGGG
*
48526572 CGTGTCTACTAGTCGTGTGAGGCACACGTA
1 CGTGTCTACTAGCCGTGTGAGGCACACGTA
48526602 CGTGTCTACTAGCCGTGTGAGGCACACG
1 CGTGTCTACTAGCCGTGTGAGGCACACG
48526630 GACATGTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (30 bp):
CGTGTCTACTAGCCGTGTGAGGCACACGTA
Found at i:48528062 original size:13 final size:13
Alignment explanation
Indices: 48528044--48528094 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
48528034 TTTAAACCAA
48528044 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
48528057 ATTTTTCCACAA-C
1 ACTTTT-CAAAAGC
48528070 ACTTTTC--AAGC
1 ACTTTTCAAAAGC
48528081 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
48528094 A
1 A
48528095 TTGTCAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 2 0.06
11 8 0.26
12 1 0.03
13 16 0.52
14 4 0.13
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:48532191 original size:42 final size:42
Alignment explanation
Indices: 48532142--48532240 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
48532132 GGGTAGAGAT
* *
48532142 ACGGGCGTATGTCTTAGCCATGTGTACTACACGGCCTAGAAC
1 ACGGGCGTGTGTCTTAGCCATGTATACTACACGGCCTAGAAC
* * **
48532184 ACTGGCGTGTGTCTCAGCTGTGTATACTACACGGCCTAGAAC
1 ACGGGCGTGTGTCTTAGCCATGTATACTACACGGCCTAGAAC
48532226 ACGGGCGTGTGTCTT
1 ACGGGCGTGTGTCTT
48532241 GGTCGTGTGA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.26
Consensus pattern (42 bp):
ACGGGCGTGTGTCTTAGCCATGTATACTACACGGCCTAGAAC
Found at i:48533078 original size:68 final size:68
Alignment explanation
Indices: 48532969--48533105 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
48532959 TTTTGGAGTA
* *
48532969 GTCCTTGATAAATCTTCGATAGAAATTGGTGTGGCCCAAAAAGCTCCTAACACCCTTTACAGATG
1 GTCCTTGATAAATCTTCAATAGAAATCGGTGTGGCCCAAAAAGCTCCTAACACCCTTTACAGATG
48533034 TTG
66 TTG
*
48533037 GTCCTTGATAAATCTTCAATAGAAATCGGTGTGGCCCAAAAAGCTCCTAACAGCCTTTACAGATG
1 GTCCTTGATAAATCTTCAATAGAAATCGGTGTGGCCCAAAAAGCTCCTAACACCCTTTACAGATG
48533102 TTG
66 TTG
48533105 G
1 G
48533106 AGGTGGGAGT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (68 bp):
GTCCTTGATAAATCTTCAATAGAAATCGGTGTGGCCCAAAAAGCTCCTAACACCCTTTACAGATG
TTG
Found at i:48540123 original size:49 final size:49
Alignment explanation
Indices: 48539957--48540194 Score: 296
Period size: 49 Copynumber: 4.8 Consensus size: 49
48539947 TAAGGTTGCA
* * * * *
48539957 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
48540008 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
*
48540058 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
** *
48540107 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * * * *
48540156 TGTATAGTACTATGTGCAAGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
48540195 GCTTTGGCTA
Statistics
Matches: 165, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 87 0.53
50 45 0.27
51 33 0.20
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:48540132 original size:99 final size:101
Alignment explanation
Indices: 48539957--48540189 Score: 310
Period size: 99 Copynumber: 2.3 Consensus size: 101
48539947 TAAGGTTGCA
*
48539957 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACGTGTGTAGTACTAAG
*
48540022 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGTGTACCAGATGGTTAGGTCACG
* * * *
48540058 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACGTGTGTAGTACTAAG
** ** *
48540121 TGCAGGCTACTACGTGTACCAGATAATT-GGTTGCA
66 TGCAGGCTACTACGTGTACCAGATGGTTAGGTCACG
* * * *
48540156 TGTATAGTACTATGTGCAAGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
48540190 AGATAGCTTT
Statistics
Matches: 116, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 33 0.28
99 46 0.40
100 1 0.01
101 36 0.31
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTACCAGATGGTTAGGTCACG
Found at i:48544330 original size:71 final size:71
Alignment explanation
Indices: 48544246--48544409 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48544236 CGATTTGTCT
48544246 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
48544311 CTTTCA
66 CTTTCA
48544317 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
48544382 CTTTCA
66 CTTTCA
48544388 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
48544410 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:48544447 original size:71 final size:70
Alignment explanation
Indices: 48544246--48544443 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
48544236 CGATTTGTCT
* * * *
48544246 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
48544311 CTTTCA
65 CTTTCA
* * * *
48544317 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
48544382 CTTTCA
65 CTTTCA
* *
48544388 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
48544444 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:48551733 original size:40 final size:38
Alignment explanation
Indices: 48551684--48551791 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
48551674 ATCACGATTT
*
48551684 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
48551724 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
48551764 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
48551792 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:48559803 original size:40 final size:38
Alignment explanation
Indices: 48559754--48559861 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
48559744 ATCACGATTT
*
48559754 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
48559794 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
48559834 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
48559862 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:48559823 original size:80 final size:80
Alignment explanation
Indices: 48559713--48559861 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
48559703 TATGGTAACC
* * * *
48559713 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
48559777 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
48559793 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
48559858 CCGG
66 CCGG
48559862 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:48569499 original size:9 final size:9
Alignment explanation
Indices: 48569487--48569543 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
48569477 TTTGATAAAC
48569487 ATGATATGT
1 ATGATATGT
*
48569496 ATGATATGCAC
1 ATGATATG--T
*
48569507 ATGACATGT
1 ATGATATGT
*
48569516 ATGATATGCAC
1 ATGATATG--T
48569527 ATGATATGT
1 ATGATATGT
48569536 ATGATATG
1 ATGATATG
48569544 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:48569510 original size:20 final size:20
Alignment explanation
Indices: 48569485--48569547 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
48569475 ATTTTGATAA
48569485 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48569505 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
48569525 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48569545 ACA
1 ACA
48569548 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48569628 original size:24 final size:24
Alignment explanation
Indices: 48569600--48569744 Score: 172
Period size: 25 Copynumber: 6.0 Consensus size: 24
48569590 GAGGAAGTGC
48569600 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48569624 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
48569648 -AAGGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48569671 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
48569696 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
48569721 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
48569745 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 7, Indels: 11
0.86 0.06 0.09
Matches are distributed among these distances:
23 26 0.24
24 29 0.27
25 45 0.42
26 8 0.07
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:48569692 original size:25 final size:26
Alignment explanation
Indices: 48569600--48569724 Score: 174
Period size: 25 Copynumber: 5.1 Consensus size: 26
48569590 GAGGAAGTGC
48569600 AAAAGGGCTTATGCCCCAGTTATT--
1 AAAAGGGCTTATGCCCCAGTTATTAA
*
48569624 AAAAGGGCTTATGCCCTAGTTATT--
1 AAAAGGGCTTATGCCCCAGTTATTAA
* *
48569648 -AAGGGGCTTACGCCCCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATTAA
48569673 AAAAGGGCTT-TGCCCCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATTAA
48569698 AAAAGGGCTT-TGCCCCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATTAA
48569723 AA
1 AA
48569725 GAGGCTAGGC
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 20 0.22
24 23 0.25
25 41 0.45
26 8 0.09
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTATTAA
Found at i:48569741 original size:50 final size:48
Alignment explanation
Indices: 48569600--48569744 Score: 170
Period size: 47 Copynumber: 3.0 Consensus size: 48
48569590 GAGGAAGTGC
*
48569600 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TATGCCCCAGTTATT
* * * *
48569648 -AAGGGGCTTACGCCCCAGTTATTAAAAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGA-GGCTATGCCCCAGTTATT
*
48569696 AAAAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 --AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTATGCC-CCAGTTAT
48569745 ATGATAAAGC
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
47 25 0.31
48 13 0.16
49 10 0.12
50 25 0.31
51 8 0.10
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTATGCCCCAGTTATT
Found at i:48569981 original size:31 final size:30
Alignment explanation
Indices: 48569940--48569998 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
48569930 TACAGTAAAG
48569940 GCTTCGCCCAGTAATATGAAATATGAAAAC
1 GCTTCGCCCAGTAATATGAAATATGAAAAC
** *
48569970 GCTTCGGCCCAGTGTTATGAATTATGAAA
1 GCTTC-GCCCAGTAATATGAAATATGAAA
48569999 TATGAAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (30 bp):
GCTTCGCCCAGTAATATGAAATATGAAAAC
Found at i:48572850 original size:24 final size:24
Alignment explanation
Indices: 48572823--48572893 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
48572813 ATCATAGAAA
48572823 GTGTACAT-TGGCACTATGTGTGCG
1 GTGTA-ATATGGCACTATGTGTGCG
*
48572847 GTGTAGTATGGCACTATGTGTGCG
1 GTGTAATATGGCACTATGTGTGCG
*
48572871 GAGTTGAATA--GCACTATGTGTGC
1 GTG-T-AATATGGCACTATGTGTGC
48572894 TGATTTGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.02
24 36 0.88
25 1 0.02
26 3 0.07
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.32
Consensus pattern (24 bp):
GTGTAATATGGCACTATGTGTGCG
Found at i:48572901 original size:24 final size:24
Alignment explanation
Indices: 48572833--48572903 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
48572823 GTGTACATTG
* * * *
48572833 GCACTATGTGTGCGGTGTAGTATG
1 GCACTATGTGTGCGGAGTTGAATA
48572857 GCACTATGTGTGCGGAGTTGAATA
1 GCACTATGTGTGCGGAGTTGAATA
* *
48572881 GCACTATGTGTGCTGATTTGAAT
1 GCACTATGTGTGCGGAGTTGAAT
48572904 GTCAACATAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGGAGTTGAATA
Found at i:48578025 original size:15 final size:15
Alignment explanation
Indices: 48578001--48578035 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
48577991 TATTTTGATT
*
48578001 GCTCCGTATAGGATG
1 GCTCCATATAGGATG
48578016 GCTCCATATAGGATG
1 GCTCCATATAGGATG
48578031 GCTCC
1 GCTCC
48578036 GATAGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.26
Consensus pattern (15 bp):
GCTCCATATAGGATG
Found at i:48581529 original size:21 final size:21
Alignment explanation
Indices: 48581505--48581546 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
48581495 TAGGAGAAGT
48581505 ATGTTTTAATGAGAAACGTGG
1 ATGTTTTAATGAGAAACGTGG
48581526 ATGTTTTAATGAGAAACGTGG
1 ATGTTTTAATGAGAAACGTGG
48581547 GCTACTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (21 bp):
ATGTTTTAATGAGAAACGTGG
Found at i:48582128 original size:42 final size:43
Alignment explanation
Indices: 48582055--48582152 Score: 180
Period size: 42 Copynumber: 2.3 Consensus size: 43
48582045 TATGAAATTT
48582055 CATGTAAGACCATAGCTAGGCTATCGGCATCGACATGTGATCC
1 CATGTAAGACCATAGCTAGGCTATCGGCATCGACATGTGATCC
*
48582098 CATGTAAGACCA-AGCTGGGCTATCGGCATCGACATGTGATCC
1 CATGTAAGACCATAGCTAGGCTATCGGCATCGACATGTGATCC
48582140 CATGTAAGACCAT
1 CATGTAAGACCAT
48582153 GTCGGGGACA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
42 41 0.77
43 12 0.23
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (43 bp):
CATGTAAGACCATAGCTAGGCTATCGGCATCGACATGTGATCC
Found at i:48582168 original size:42 final size:42
Alignment explanation
Indices: 48582055--48582216 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
48582045 TATGAAATTT
*
48582055 CATGTAAGACCATAG-CTAGG-CTATCGGCATCGACATGTGATCC
1 CATGTAAGACCAT-GTCTGGGAC-AT-GGCATCGACATGTGATCC
*
48582098 CATGTAAGACCAAG-CTGGG-CTATCGGCATCGACATGTGATCC
1 CATGTAAGACCATGTCTGGGAC-AT-GGCATCGACATGTGATCC
* * *
48582140 CATGTAAGACCATGTCGGGGACATGGCATTGGCATCGACCTACGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATCGACAT-G---T--GATCC
*
48582188 CATGTAAGACCATGTTTGGGACATGGCAT
1 CATGTAAGACCATGTCTGGGACATGGCAT
48582217 TGGCATCGAT
Statistics
Matches: 103, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
42 50 0.49
43 19 0.18
44 1 0.01
46 1 0.01
48 32 0.31
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATGGCATCGACATGTGATCC
Found at i:48583745 original size:49 final size:48
Alignment explanation
Indices: 48583666--48583950 Score: 240
Period size: 48 Copynumber: 5.9 Consensus size: 48
48583656 TAGGGTGAAC
* * * *
48583666 TGCCGATGCCATGTTCCA-AGCATGGCCTTACACTAGCTCACTTGTCAA
1 TGCCGATGCCATGTCCCAGA-CATGGTCTTACACTAGCTCACATATCAA
* * * * * *
48583714 TGCCGATG-CAGAGTCCCCGGACATGGTCTTACACTGGCTCTCGTCTCAA
1 TGCCGATGCCA-TGT-CCCAGACATGGTCTTACACTAGCTCACATATCAA
* * *
48583763 TGCCGATGCCATGTCCCAGAAATGGTCTTACACTAGCGCACATATTAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * *
48583811 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAAC-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * * * *
48583858 TCGTCGATGCAATGT-CCAAACATGGTCTTTCACTGGCTCTCATATC-G
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* *
48583905 TGGCCGATGCCATGTCCCAGACATGGTCTAACATTAGCAT-ACATAT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATAT
48583951 TACCCAAATG
Statistics
Matches: 190, Mismatches: 40, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
47 43 0.23
48 108 0.57
49 36 0.19
50 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
Found at i:48586708 original size:40 final size:41
Alignment explanation
Indices: 48586671--48586895 Score: 288
Period size: 40 Copynumber: 5.7 Consensus size: 41
48586661 GCTACTCGTT
*
48586671 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATT-TAGTAACTCGCA
*
48586711 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
48586751 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
48586791 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * * *
48586831 CAAATACCTTC-GG-TCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAAC-TCGCA
48586871 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCTTAGCCCGGA
48586896 CATCATTCAA
Statistics
Matches: 170, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
39 27 0.16
40 141 0.83
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:48589846 original size:29 final size:30
Alignment explanation
Indices: 48589813--48589870 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
48589803 AAATCGATTT
48589813 TCAA-GTATAGGGGCAAAATGATCATTTTG
1 TCAAGGTATAGGGGCAAAATGATCATTTTG
* *
48589842 TCAAGGTCTAGGGGCAAAATGGTCATTTT
1 TCAAGGTATAGGGGCAAAATGATCATTTT
48589871 ACCTAATACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (30 bp):
TCAAGGTATAGGGGCAAAATGATCATTTTG
Found at i:48592207 original size:30 final size:30
Alignment explanation
Indices: 48592160--48592219 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48592150 TTCCTGAGCC
48592160 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
48592190 TAGGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
48592220 GGTATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:48592932 original size:49 final size:49
Alignment explanation
Indices: 48592866--48593109 Score: 267
Period size: 49 Copynumber: 4.9 Consensus size: 49
48592856 GCTATTGTGA
*
48592866 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
* * * *
48592915 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACT-TT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT---TGTT
* * * * *
48592966 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTTTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
* * * **
48593015 AGGTCACGTGTGTAGTACTAAG-CCAAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGC-AGGCTACTACGTGTACCAGATTGTT
* * *
48593065 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
48593110 AGCTTCGGCT
Statistics
Matches: 161, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
49 80 0.50
50 41 0.25
51 39 0.24
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
Found at i:48600334 original size:96 final size:96
Alignment explanation
Indices: 48600171--48600501 Score: 328
Period size: 96 Copynumber: 3.5 Consensus size: 96
48600161 GAGGGTGAAT
* * * * **
48600171 TGCCGATGCCATGTTCCAAACATGGT-TTACACTGGCTCACAT-GTAGAGGCTGATGCCATACCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT-GAGGCCGATGCCATGTCC
* * *
48600234 CAGACATGGTCTAACACTAGCTCTCGTCTCAA
65 CAGACATGGTCTTACACTAGCTCTCATATCAA
* * *
48600266 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCCCATAATGTGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGCCGATGCCATGTCCC
* * *
48600331 AGACATGATCTTACACTAG-TGCACTTATCAA
66 AGACATGGTCTTACACTAGCT-CTCATATCAA
* * * ** *** *
48600362 TGCCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCACAACAACATCGATGCCATGTTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGCCGATGCCATGTCCC
* * *
48600427 AAACATGGTCTTACACTGGCTCTCATATC-G
66 AGACATGGTCTTACACTAGCTCTCATATCAA
* * * *
48600457 TGGCCAATGCCATGTCCTAGACATGGTCTTACACTAGCGCACATA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA
48600502 TCACTGAAAT
Statistics
Matches: 193, Mismatches: 38, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
95 25 0.13
96 166 0.86
97 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (96 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCTCTCATATCAA
Found at i:48600502 original size:48 final size:48
Alignment explanation
Indices: 48600172--48600504 Score: 273
Period size: 48 Copynumber: 7.0 Consensus size: 48
48600162 AGGGTGAATT
* * * *
48600172 GCCGATGCCATGTTCCAAACATGGT-TTACACTGGCTCACATGT-AGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA-TG
* ** * * * * *
48600219 GCTGATGCCATACCCCAGACATGGTCTAACACTAGCTCTCGTCTCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-ATG
* * *
48600267 GCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCCCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCATG
* * *
48600315 GCCGATGCCATGTCCCAGACATGATCTTACACTAG-TGCACTTATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATC-ATG
* * * * **
48600363 GCCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCACAACAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
** * * * *
48600411 ATCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
* * * *
48600459 GCCAATGCCATGTCCTAGACATGGTCTTACACTAGCGCACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
48600505 CTGAAATGTT
Statistics
Matches: 221, Mismatches: 55, Indels: 19
0.75 0.19 0.06
Matches are distributed among these distances:
47 25 0.11
48 192 0.87
49 3 0.01
50 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
Found at i:48607447 original size:46 final size:48
Alignment explanation
Indices: 48607330--48607647 Score: 223
Period size: 46 Copynumber: 6.7 Consensus size: 48
48607320 GTTATTTGTG
** * *
48607330 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAATGAGATGGGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGATAT-GTA
* * * *
48607379 A-CTAGTGTAAGA-TATGTTTGGGACAT-GCATTGACCTTGATATGTA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGATATGTA
* * *
48607424 AGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGA-CTACGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCT-TGATATGTA
* * * *
48607469 -GTCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCATAT-ATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCT-TGATATGT-A
* * * * * *
48607517 GAGCTAGTGTAAGACCATGTCTCGGG-CATGGCGTTGGCCTCGATTTCG-A
1 -AGCCAGTGTAAGACCATGTCT-GGGACATGGCATCGACCTTGATAT-GTA
* * * *
48607566 TAGTCAATATAAGACCATGTCTGGGACATGGCATTGA-CTTGATGGATG--
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAT--ATGTA
48607614 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
48607648 AGCATTATAC
Statistics
Matches: 211, Mismatches: 43, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
44 10 0.05
45 18 0.09
46 56 0.27
47 44 0.21
48 18 0.09
49 29 0.14
50 32 0.15
51 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGATATGTA
Found at i:48607596 original size:49 final size:47
Alignment explanation
Indices: 48607526--48607646 Score: 129
Period size: 47 Copynumber: 2.5 Consensus size: 47
48607516 AGAGCTAGTG
* * *
48607526 TAAGACCATGTCTCGGG-CATGGCGTTGGCCTCGATTTCGAT-AGTCAATA
1 TAAGACCATGTCT-GGGACATGGCATT-GACTCGA--TCGATGAGCCAATA
* * * *
48607575 TAAGACCATGTCTGGGACATGGCATTGACTTGATGGATGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGACTCGATCGATGAGCCAATA
48607622 TAAGACCATGTCTGGGACATGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
48607647 CAGCATTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 4 0.06
47 30 0.48
48 8 0.13
49 21 0.33
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATTGACTCGATCGATGAGCCAATA
Found at i:48614343 original size:68 final size:70
Alignment explanation
Indices: 48614271--48614468 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
48614261 ACACCCTGTA
* * * *
48614271 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
48614333 ATAAAT
65 ATAAAT
*
48614339 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
48614404 ATAAAT
65 ATAAAT
*
48614410 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
48614469 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:48614382 original size:41 final size:41
Alignment explanation
Indices: 48614337--48614454 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
48614327 TGAAAGATAA
48614337 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
48614378 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48614408 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48614449 ATGTAG
1 ATGTAG
48614455 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:48614394 original size:71 final size:71
Alignment explanation
Indices: 48614305--48614468 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48614295 GAGATGTATC
48614305 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48614370 AGGACA
66 AGGACA
48614376 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48614441 AGGACA
66 AGGACA
48614447 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48614469 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:48621954 original size:41 final size:41
Alignment explanation
Indices: 48621909--48622026 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
48621899 TGAAAGATAA
48621909 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
48621950 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48621980 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48622021 ATGTAG
1 ATGTAG
48622027 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:48621965 original size:71 final size:71
Alignment explanation
Indices: 48621877--48622040 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48621867 GAGATGTATC
48621877 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48621942 AGGACA
66 AGGACA
48621948 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48622013 AGGACA
66 AGGACA
48622019 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48622041 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:48627861 original size:20 final size:20
Alignment explanation
Indices: 48627836--48627883 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
48627826 CTAAGGACAC
*
48627836 GGGCGTGTCCCAAGCCACAT
1 GGGCGTGTCCCAAACCACAT
48627856 GGGCGTGTCCCAAACCACAT
1 GGGCGTGTCCCAAACCACAT
48627876 GGGCGTGT
1 GGGCGTGT
48627884 GTGACCACAC
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:0.19, C:0.31, G:0.33, T:0.17
Consensus pattern (20 bp):
GGGCGTGTCCCAAACCACAT
Found at i:48634256 original size:27 final size:28
Alignment explanation
Indices: 48634199--48634268 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
48634189 AAACTTGTAC
*
48634199 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
48634227 AGCACTAACTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
48634254 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48634269 GACACACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:48638316 original size:44 final size:44
Alignment explanation
Indices: 48638238--48638406 Score: 139
Period size: 46 Copynumber: 3.6 Consensus size: 44
48638228 GATAAGATAC
* *
48638238 CGATGCCATGTCCCGAACATGGTCTTACACTAGCTTA-A-CTCATAGT
1 CGAT-CCATGTCCC-AACAT-GTCTTACACTAGCTTACATCTC-GAGG
*
48638284 CGATCCATGTCCTTAACATGTCTTACACTAGCTTACATCTCGAGG
1 CGATCCATGTCC-CAACATGTCTTACACTAGCTTACATCTCGAGG
* * *
48638329 CTGATTCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTC-ATTGC
1 C-GATCCATGTCCCA-ACATGTCTTACACTAGCT-TACATCTCGA--GG
48638376 CGATGCCATGTCCCGAACATGGTCTTACACT
1 CGAT-CCATGTCCC-AACAT-GTCTTACACT
48638407 GGCTCTTGTA
Statistics
Matches: 104, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
44 16 0.15
45 19 0.18
46 43 0.41
47 15 0.14
48 11 0.11
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (44 bp):
CGATCCATGTCCCAACATGTCTTACACTAGCTTACATCTCGAGG
Found at i:48639279 original size:15 final size:16
Alignment explanation
Indices: 48639261--48639290 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48639251 AATTGGTTGG
48639261 AGAAAGAAAA-ATGAA
1 AGAAAGAAAAGATGAA
48639276 AGAAAGAAAAGATGA
1 AGAAAGAAAAGATGA
48639291 TAGCTAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (16 bp):
AGAAAGAAAAGATGAA
Found at i:48643095 original size:16 final size:16
Alignment explanation
Indices: 48643074--48643116 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
48643064 GTAGATCGGC
48643074 AAAAGCC-AAAGTGCCG
1 AAAAGCCGAAA-TGCCG
*
48643090 AAAAGCCGAAATGTCG
1 AAAAGCCGAAATGCCG
*
48643106 AAAAGCTGAAA
1 AAAAGCCGAAA
48643117 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 21 0.88
17 3 0.12
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:48643372 original size:29 final size:29
Alignment explanation
Indices: 48643337--48643421 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
48643327 TATGAATATT
*
48643337 ATTTGGGCCTAATGGACCATACGAATGTG
1 ATTTGGGCCTAATGGGCCATACGAATGTG
* *
48643366 ATTTGGGCCTAATGGGCCATATGAATGAG
1 ATTTGGGCCTAATGGGCCATACGAATGTG
* *
48643395 A-TTGGGCCTAGTGGGCCATACGCATGT
1 ATTTGGGCCTAATGGGCCATACGAATGT
48643422 ATGTAGACTT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 22 0.45
29 27 0.55
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.27
Consensus pattern (29 bp):
ATTTGGGCCTAATGGGCCATACGAATGTG
Found at i:48648786 original size:29 final size:29
Alignment explanation
Indices: 48648735--48648829 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 29
48648725 ATTGGCATTG
* *
48648735 AGTGTGCGAGCTTGTAATGTATGGCACTA
1 AGTGTGCGAGCTTGGAATATATGGCACTA
* *
48648764 AGTGTGCGAGTTTGGACTATATGGCACTA
1 AGTGTGCGAGCTTGGAATATATGGCACTA
* * **
48648793 TGTGTGCGGGCTT-GAATCACGTGGCACTA
1 AGTGTGCGAGCTTGGAAT-ATATGGCACTA
48648822 AGTGTGCG
1 AGTGTGCG
48648830 TGATTGAGTA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.06
29 51 0.94
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (29 bp):
AGTGTGCGAGCTTGGAATATATGGCACTA
Found at i:48656719 original size:29 final size:28
Alignment explanation
Indices: 48656687--48656789 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
48656677 GTGACGAGAT
* *
48656687 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
48656716 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* **
48656745 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTA-GTGTGCGAGCTTGGAAT-ATA
48656774 TGGCACTAAGTGTGCG
1 TGGCACT-AGTGTGCG
48656790 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.07
29 56 0.92
30 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (28 bp):
TGGCACTAGTGTGCGAGCTTGGAATATA
Found at i:48658100 original size:47 final size:47
Alignment explanation
Indices: 48658022--48658386 Score: 491
Period size: 49 Copynumber: 7.7 Consensus size: 47
48658012 CCCTTCGGGA
* * * * *
48658022 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
* * * *
48658069 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCAGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
*
48658116 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTCGGC
* * *
48658163 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTCGGC
*
48658212 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTCGGC
*
48658261 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTCGGC
* *
48658310 CTTATCACATATATACA-CTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
*
48658356 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
48658387 GCGTAAAATC
Statistics
Matches: 287, Mismatches: 24, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
46 42 0.15
47 109 0.38
48 1 0.00
49 135 0.47
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
Found at i:48658147 original size:25 final size:25
Alignment explanation
Indices: 48658073--48658150 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
48658063 CTCGGCCCTG
48658073 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
48658098 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
48658120 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
48658145 TCACAT
1 TCACAT
48658151 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:48658294 original size:27 final size:27
Alignment explanation
Indices: 48658215--48658297 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
48658205 ATTAGGCCTT
48658215 ATCACATATATACACACTTTCACATTC
1 ATCACATATATACACACTTTCACATTC
** *
48658242 ATCACAT-T-GGC-CA--TTCAGCCTT-
1 ATCACATATATACACACTTTCA-CATTC
48658264 ATCACATATATACACACTTTCACATTC
1 ATCACATATATACACACTTTCACATTC
48658291 ATCACAT
1 ATCACAT
48658298 TGGCCATTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
22 11 0.26
23 4 0.09
24 3 0.07
25 3 0.07
26 4 0.09
27 18 0.42
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.33
Consensus pattern (27 bp):
ATCACATATATACACACTTTCACATTC
Found at i:48662186 original size:43 final size:43
Alignment explanation
Indices: 48662125--48662427 Score: 524
Period size: 43 Copynumber: 7.1 Consensus size: 43
48662115 CCTTGCTCGA
** * *
48662125 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
48662168 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
48662211 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
48662254 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
48662297 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
48662340 ATCA-CGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
48662382 ATCA-CGGCACAAAGCCTGCTAGGCACGAAGGCCC--ATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
48662422 ATCACC
1 ATCACC
48662428 AGCATGACTG
Statistics
Matches: 253, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
40 10 0.04
41 1 0.00
42 72 0.28
43 170 0.67
ACGTcount: A:0.32, C:0.32, G:0.22, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:48662557 original size:42 final size:42
Alignment explanation
Indices: 48662420--48662581 Score: 170
Period size: 40 Copynumber: 4.0 Consensus size: 42
48662410 AGGCCCATAC
* * * * * *
48662420 ATATCACCAGCATGACTGCTCTTCGGAACCTGGTCCGG--AT
1 ATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * *
48662460 ACATCACTAGCATGAATGCTCTTCGGGATTTAGCCCGG--AT
1 ATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * *
48662500 ATATCACTAGCACGAATGCTCTACGGGACTTAACCCGGATAT
1 ATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
48662542 ATATCGCCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 ATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
48662582 CATCGTCGAG
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 65 0.63
42 38 0.37
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (42 bp):
ATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:48664586 original size:47 final size:47
Alignment explanation
Indices: 48664508--48664868 Score: 523
Period size: 47 Copynumber: 7.7 Consensus size: 47
48664498 CCCTTCGGGA
* * * * * *
48664508 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * *
48664555 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
48664602 CTTATCACATATATACACCTTCACATTCATCACA-TGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
48664648 CTTATCACATATATACA-CTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* *
48664694 CTTATCACATATATAACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT-ACACCTTCACATTCATCACATTGGCCATTAGGC
48664742 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
48664791 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
48664838 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
48664869 GCGTAAAATC
Statistics
Matches: 287, Mismatches: 18, Indels: 18
0.89 0.06 0.06
Matches are distributed among these distances:
45 17 0.06
46 52 0.18
47 131 0.46
48 43 0.15
49 43 0.15
50 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:48664633 original size:25 final size:25
Alignment explanation
Indices: 48664559--48664636 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
48664549 CTCGGCCCTG
48664559 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
48664584 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
48664606 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
48664631 TCACAT
1 TCACAT
48664637 GGCCATTAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:48664913 original size:144 final size:142
Alignment explanation
Indices: 48664508--48664868 Score: 426
Period size: 140 Copynumber: 2.5 Consensus size: 142
48664498 CCCTTCGGGA
* * * * * * * *
48664508 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATAT-ACA
1 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAACA
* *** * * * * *
48664572 CCTTCACATTCATCACATTGGCTATTCAGCCTTATCACATATATACAC-C-TTCACATTCATCAC
65 CATTCACATTCATCACATAAACCATTAAACCATATCAAATATATACACACTTTCACATTCATCAC
48664635 ATGGCCATTAGGC
130 ATGGCCATTAGGC
48664648 CTTATCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAACAC
1 CTTATCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAACAC
* *** ** * *
48664713 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACA
66 ATTCACATTCATCACATAAACCATTAAACCATATCAAATATATACACACTTTCACATTCATCACA
48664778 TTGGCCATTCA-GC
131 -TGGCCATT-AGGC
48664791 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-ACA
1 CTTATCACATATATACA-CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAACA
48664855 CATTCACATTCATC
65 CATTCACATTCATC
48664869 GCGTAAAATC
Statistics
Matches: 201, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
139 35 0.17
140 63 0.31
141 1 0.00
142 15 0.07
143 43 0.21
144 44 0.22
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (142 bp):
CTTATCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAACAC
ATTCACATTCATCACATAAACCATTAAACCATATCAAATATATACACACTTTCACATTCATCACA
TGGCCATTAGGC
Found at i:48664917 original size:189 final size:185
Alignment explanation
Indices: 48664513--48664868 Score: 525
Period size: 189 Copynumber: 1.9 Consensus size: 185
48664503 CGGGACTTAT
* * * * * * * *
48664513 CACATTTAT-ACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACCTTC
1 CACATATATAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTC
*
48664577 ACATTCATCACATTGGCTATTCAGCCTTATCACATATATACACCTTCACATTCATCACATGGCCA
66 ACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCACATGGCCA
*** **
48664642 TTAGGCCTTATCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTA
131 TTAGGCCTTATCACATATATACACTTCACATTCATCACATAAACCATTAAACC-TA
48664698 TCACATATATAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
1 -CACATATATAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC-C-
48664763 TTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCACATCG
63 TTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCACAT-G
48664828 GCCATTAGGCCTTATCACATATATACACATTCACATTCATC
127 GCCATTAGGCCTTATCACATATATACAC-TTCACATTCATC
48664869 GCGTAAAATC
Statistics
Matches: 156, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
186 8 0.05
187 44 0.28
188 1 0.01
189 62 0.40
190 29 0.19
191 12 0.08
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (185 bp):
CACATATATAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTC
ACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCACATGGCCA
TTAGGCCTTATCACATATATACACTTCACATTCATCACATAAACCATTAAACCTA
Found at i:48671560 original size:46 final size:46
Alignment explanation
Indices: 48671451--48671672 Score: 204
Period size: 46 Copynumber: 4.8 Consensus size: 46
48671441 GATATAGGAT
* * *
48671451 GCCGATGCCATGTCCCGGACATGGTCATACACTAGCT-T-AACTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCG-AG
* *
48671497 GCCAACGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGAG
* * *
48671543 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTC-ACT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGA-G
* * * * * *
48671589 ACCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCGTAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGAG
48671637 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
48671673 ACAATAGTCT
Statistics
Matches: 147, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 14 0.10
45 15 0.10
46 66 0.45
47 27 0.18
48 24 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAG
Found at i:48674638 original size:20 final size:20
Alignment explanation
Indices: 48674605--48674689 Score: 127
Period size: 20 Copynumber: 4.3 Consensus size: 20
48674595 CACCATTTGC
**
48674605 AAATAGTAGCTCATCCATAT
1 AAATAGTATTTCATCCATAT
*
48674625 AAATAATATTTCATCCATAT
1 AAATAGTATTTCATCCATAT
48674645 AAATAGTATTTCATCCATAT
1 AAATAGTATTTCATCCATAT
*
48674665 AAACAGTATTT-ATCCATAT
1 AAATAGTATTTCATCCATAT
48674684 AAATAG
1 AAATAG
48674690 ATTCTATGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 13 0.22
20 46 0.78
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (20 bp):
AAATAGTATTTCATCCATAT
Found at i:48674857 original size:23 final size:23
Alignment explanation
Indices: 48674823--48674914 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
48674813 GCTCCTGAGT
48674823 TGAT-AGCTGAAACAGTAAGCTC
1 TGATGAGCTGAAACAGTAAGCTC
* * *
48674845 TGCTGAGCTGAAAACATTAAACTC
1 TGATGAGCTG-AAACAGTAAGCTC
*
48674869 TTATGAGCTGAAACAGTAAGCTC
1 TGATGAGCTGAAACAGTAAGCTC
** * * *
48674892 CAACGAGTTGAAACAATAAGCTC
1 TGATGAGCTGAAACAGTAAGCTC
48674915 CAACGAGCTA
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
22 3 0.05
23 34 0.61
24 19 0.34
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (23 bp):
TGATGAGCTGAAACAGTAAGCTC
Found at i:48674869 original size:24 final size:24
Alignment explanation
Indices: 48674823--48674887 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
48674813 GCTCCTGAGT
*
48674823 TGAT-AGCTG-AAACAGTAAGCTC
1 TGATGAGCTGAAAACAGTAAACTC
* *
48674845 TGCTGAGCTGAAAACATTAAACTC
1 TGATGAGCTGAAAACAGTAAACTC
*
48674869 TTATGAGCTG-AAACAGTAA
1 TGATGAGCTGAAAACAGTAA
48674888 GCTCCAACGA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
22 3 0.09
23 13 0.37
24 19 0.54
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (24 bp):
TGATGAGCTGAAAACAGTAAACTC
Found at i:48674915 original size:23 final size:23
Alignment explanation
Indices: 48674877--48674921 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
48674867 TCTTATGAGC
*
48674877 TGAAACAGTAAGCTCCAACGAGT
1 TGAAACAATAAGCTCCAACGAGT
48674900 TGAAACAATAAGCTCCAACGAG
1 TGAAACAATAAGCTCCAACGAG
48674922 CTAAAAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (23 bp):
TGAAACAATAAGCTCCAACGAGT
Found at i:48679850 original size:40 final size:40
Alignment explanation
Indices: 48679785--48679992 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
48679775 TCTTCGGAAT
* ** * *
48679785 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTA
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
48679824 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
48679864 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
48679904 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
48679944 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
48679984 TTAGCCCGG
1 TTAGCCCGG
48679993 GTATCATTCA
Statistics
Matches: 153, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 3 0.02
40 149 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:48687731 original size:40 final size:40
Alignment explanation
Indices: 48687666--48687872 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
48687656 TCTTCGGAAT
* ** *
48687666 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
48687705 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
48687745 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
48687785 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
48687825 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTTGGG-C
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
48687864 TTAGCCCGG
1 TTAGCCCGG
48687873 GTATCATTCA
Statistics
Matches: 153, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.08
40 139 0.91
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:48689942 original size:30 final size:30
Alignment explanation
Indices: 48689906--48690036 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
48689896 GACAAGATTG
* * * * *
48689906 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
48689936 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
48689964 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
48689994 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
48690023 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48690037 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:48689997 original size:58 final size:58
Alignment explanation
Indices: 48689906--48690036 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
48689896 GACAAGATTG
* * * * * *
48689906 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
48689964 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
48690023 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48690037 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:48697893 original size:30 final size:30
Alignment explanation
Indices: 48697857--48697987 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
48697847 GACAAGATTG
* * * * *
48697857 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
48697887 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
48697915 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
48697945 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
48697974 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48697988 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:48697948 original size:58 final size:58
Alignment explanation
Indices: 48697857--48697987 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
48697847 GACAAGATTG
* * * * * *
48697857 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
48697915 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
48697974 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48697988 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:48700949 original size:40 final size:40
Alignment explanation
Indices: 48700852--48701032 Score: 159
Period size: 40 Copynumber: 4.5 Consensus size: 40
48700842 TTCGAATGAT
* * *
48700852 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* * *
48700893 ATCCGGG-TCAATTCCCGAAGGCATTGGTGCGAGTTACCAA
1 ATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
48700933 AACCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTAATAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * * * *
48700973 ATCTGGGCTAATTCCCGAAGGCAATTGTACGAATCACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
48701014 A-CCGAGCTATGTCCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
48701033 ACAATCGAGC
Statistics
Matches: 111, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
40 83 0.75
41 28 0.25
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:48701017 original size:80 final size:81
Alignment explanation
Indices: 48700854--48701032 Score: 193
Period size: 80 Copynumber: 2.2 Consensus size: 81
48700844 CGAATGATAT
* * *
48700854 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGAATAAATCCGGGTCAATTCCCGAAGGCATTG
* * *
48700919 GTGCGAGTTACCAAAA
66 GTACGAATCACCAAAA
* * * *
48700935 CCGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTAATAAATCTGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGAATAAATCCGGGTC-AATTCCCGAAGGC-AT
* *
48700998 T-GTACGAATCACTATAA
64 TGGTACGAATCACCAAAA
* *
48701015 CCGAGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
48701033 ACAATCGAGC
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
79 1 0.01
80 52 0.64
81 28 0.35
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGAATAAATCCGGGTCAATTCCCGAAGGCATTG
GTACGAATCACCAAAA
Found at i:48708968 original size:40 final size:40
Alignment explanation
Indices: 48708872--48709050 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
48708862 CGAATGATAT
* * * *
48708872 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
48708913 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
48708953 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
48708993 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
48709033 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
48709051 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
40 93 0.79
41 25 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:48709013 original size:80 final size:81
Alignment explanation
Indices: 48708872--48709050 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
48708862 CGAATGATAT
* *
48708872 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
48708937 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
48708953 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
48709016 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
48709033 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
48709051 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.69
81 26 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:48709063 original size:80 final size:80
Alignment explanation
Indices: 48708906--48709090 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
48708896 GTGCTAAGTG
* * * *
48708906 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* * * *
48708971 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTT
* * *
48708986 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
*
48709050 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTT
* * * *
48709066 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGG
48709091 TACGTGATTC
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
79 8 0.09
80 79 0.91
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTT
Found at i:48709071 original size:40 final size:40
Alignment explanation
Indices: 48708993--48709076 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
48708983 GTTACTAAAT
* * *
48708993 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
48709033 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
48709073 CCGG
1 CCGG
48709077 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:48717497 original size:38 final size:38
Alignment explanation
Indices: 48717414--48717554 Score: 219
Period size: 38 Copynumber: 3.7 Consensus size: 38
48717404 CCGCACAAAG
* * * *
48717414 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGC-CAATT
48717454 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCAATT
*
48717492 GCCTTCGGGCTTAGCCCGGATATCATAACTCGACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCAATT
48717530 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
48717555 CTCGAACATT
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 67 0.70
39 20 0.21
40 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (38 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCAATT
Found at i:48731866 original size:28 final size:28
Alignment explanation
Indices: 48731826--48731891 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 28
48731816 GCAATCAAAT
* * *
48731826 ATGGTACTCAGTGTATGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
48731854 ATGGCACTTAGTGTGCGAGATATTTAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
48731882 ATGACACTTA
1 ATGGCACTTA
48731892 ATGTGCAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:48731904 original size:28 final size:28
Alignment explanation
Indices: 48731843--48731904 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
48731833 TCAGTGTATG
* * *
48731843 AAATATTGAGAATGGCACTTAGTGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
48731871 AGATATTTAGAATGACACTTAATGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
48731899 AAATAT
1 AAATAT
48731905 CGAATGATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.31
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Done.