Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold150
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: 1465027
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.31
Warning! 98465 characters in sequence are not A, C, G, or T
File 1 of 9
Found at i:1349 original size:52 final size:52
Alignment explanation
Indices: 1099--1331 Score: 403
Period size: 52 Copynumber: 4.5 Consensus size: 52
1089 CGAAATATGA
* * * * *
1099 AAATTTACCTGCATGTATTGATACATTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1151 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1203 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
* *
1255 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATATATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1307 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1332 AAGATCAGTG
Statistics
Matches: 174, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 174 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
Found at i:1358 original size:13 final size:13
Alignment explanation
Indices: 1340--1364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1330 CAAAGATCAG
1340 TGTATCGATACAA
1 TGTATCGATACAA
1353 TGTATCGATACA
1 TGTATCGATACA
1365 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1442 original size:33 final size:33
Alignment explanation
Indices: 1405--1471 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1395 AGTAGCTTAA
1405 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1438 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1471 A
1 A
1472 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1445 original size:13 final size:13
Alignment explanation
Indices: 1427--1451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1417 CAAAAAAATA
1427 TGTATCGATACAT
1 TGTATCGATACAT
1440 TGTATCGATACA
1 TGTATCGATACA
1452 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2144 original size:55 final size:52
Alignment explanation
Indices: 2077--2259 Score: 152
Period size: 53 Copynumber: 3.4 Consensus size: 52
2067 ACCAATACGT
* * * * **
2077 TGATTCACGGCCAACGATATTGGGTTGAAAGATGAGAAAAATGATGTATATGTGC
1 TGATTCAAGGCCAACAACATTGGGTTCAAAGATGAGAAAAATG--CCA-ATGTGC
* * ***
2132 TGATTCAAGGCCAGCTACATTGAACTCAAAGATGAGAAAAATGCCAATGTGC
1 TGATTCAAGGCCAACAACATTGGGTTCAAAGATGAGAAAAATGCCAATGTGC
* * ** *
2184 TAATTCAAGGCCAACAACATTGGGTTTTAAAGATGATG-AAGGTGCCAATATGC
1 TGATTCAAGGCCAACAACATTGGG-TTCAAAGATGA-GAAAAATGCCAATGTGC
* *
2237 TGATTCAAGGCCAGCAATATTGG
1 TGATTCAAGGCCAACAACATTGG
2260 ACTTAAAGAT
Statistics
Matches: 103, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
52 25 0.24
53 42 0.41
54 1 0.01
55 35 0.34
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (52 bp):
TGATTCAAGGCCAACAACATTGGGTTCAAAGATGAGAAAAATGCCAATGTGC
Found at i:2334 original size:67 final size:68
Alignment explanation
Indices: 2212--2338 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 68
2202 ATTGGGTTTT
* * *
2212 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
2277 AGA
66 AGA
* * *
2280 AAAG-TGATAAAGATGCCAATAT-CTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGC-TGATTCAAGGCCAACAATATTGGACTTAAAGATGA
2339 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
66 1 0.02
67 47 0.90
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:2406 original size:227 final size:228
Alignment explanation
Indices: 2010--2423 Score: 615
Period size: 227 Copynumber: 1.8 Consensus size: 228
2000 CCACTGTGCA
* * * *
2010 GATTCAAGGCCTGCCACACTGGACTTAAAGATGATGAGGATGAAGAGCGATAAAAGGACCAATAC
1 GATTCAAGGCCAGCAACACTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
*
2075 GTTGATTCACGGCCAACGATATTGGGTTGAAAGATGAGAAAAATGATGTATATGTGCTGATTCAA
66 GTTGATTCACGGCCAACGATATTGGGTTGAAAGATGAGAAAAAGGATGTATATGTGCTGATTCAA
*
2140 GGCCAGCTACATTGAACTCAAAGATGAGAAAAATGCCAATGTGCTAATTCAAGGCCAACAACATT
131 GGCCAGCTACATTGAACTCAAAGATGAGAAAAATGCCAATATGCTAATTCAAGGCCAACAACATT
2205 GGGTTTTAAAGATGATGAAGGTGCCAATATGCT
196 GGGTTTTAAAGATGATGAAGGTGCCAATATGCT
* * * * *
2238 GATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGA-GAAAAGTGATAAAGATG-CCAATA
1 GATTCAAGGCCAGCAACACTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAA-AGGACCAATA
2301 TC-TTGATTCACGGCCAACGATATTGGGCTT-AAAGATGAGAAAAAGGATGTCA-ATGTGCTGAT
65 -CGTTGATTCACGGCCAACGATATTGGG-TTGAAAGATGAGAAAAAGGATGT-ATATGTGCTGAT
* * *
2363 TCAAGGCCAGCTACATTGAACTTAAAGATG-GAAAAGGTGCCAATATGCTGATTCAAGGCCA
127 TCAAGGCCAGCTACATTGAACTCAAAGATGAGAAAA-ATGCCAATATGCTAATTCAAGGCCA
2424 GCTATATTGG
Statistics
Matches: 167, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
226 5 0.03
227 122 0.73
228 40 0.24
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (228 bp):
GATTCAAGGCCAGCAACACTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
GTTGATTCACGGCCAACGATATTGGGTTGAAAGATGAGAAAAAGGATGTATATGTGCTGATTCAA
GGCCAGCTACATTGAACTCAAAGATGAGAAAAATGCCAATATGCTAATTCAAGGCCAACAACATT
GGGTTTTAAAGATGATGAAGGTGCCAATATGCT
Found at i:2422 original size:52 final size:51
Alignment explanation
Indices: 2280--2591 Score: 270
Period size: 52 Copynumber: 6.2 Consensus size: 51
2270 GAAGATGAGA
* * * * * *
2280 AAAG-TGATAAAGATGCCAATAT-CTTGATTCACGGCCAACGATATTGGGCTT
1 AAAGATGA-AAAGGTGCCAATATGC-TGATTCAAGGCCAGCTACATTGGACTT
* * *
2331 AAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTT
1 AAAGAT--G-AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
2386 AAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T
1 AAAGAT-GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2437 -----T--AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * * **
2481 AAAGA--AGAAGTTGCCAATATGCTGATTCAAGGCCAACAACATTGGGTTTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATT-GGACTT
* * *
2531 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
1 AAAGATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
2583 AAAGATGAA
1 AAAGATGAA
2592 TATGAGAAAA
Statistics
Matches: 213, Mismatches: 31, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
43 38 0.18
44 1 0.00
46 1 0.00
49 31 0.15
50 9 0.04
51 5 0.02
52 46 0.22
53 40 0.19
54 6 0.03
55 35 0.16
56 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (51 bp):
AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:2456 original size:43 final size:43
Alignment explanation
Indices: 2395--2525 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 43
2385 TAAAGATGGA
*
2395 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2438 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
2481 AAAGAAGAAGTTGCCAATATGCTGATTCAAGGCCAACAACATTGG
1 --A-AAG--G-TGCCAATATGCTGATTCAAGGCCAGCTACATTGG
2526 GTTTTAAAGA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
43 40 0.53
45 1 0.01
46 3 0.04
48 1 0.01
49 30 0.40
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:2470 original size:95 final size:93
Alignment explanation
Indices: 2342--2515 Score: 269
Period size: 95 Copynumber: 1.8 Consensus size: 93
2332 AAGATGAGAA
*
2342 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGA---AAAAGGTGCCAAT
2407 ATGCTGATTCAAGGCCAGCTATATTGGACTT
63 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
2438 AAAGG-TGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATG
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAAAAAGGTGCCAATATG
2502 CTGATTCAAGGCCA
66 CTGATTCAAGGCCA
2516 ACAACATTGG
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 28 0.38
95 40 0.55
96 5 0.07
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (93 bp):
AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAAAAAGGTGCCAATATG
CTGATTCAAGGCCAGCTATATTGGACTT
Found at i:2562 original size:53 final size:50
Alignment explanation
Indices: 2439--2587 Score: 185
Period size: 53 Copynumber: 3.0 Consensus size: 50
2429 ATTGGACTTA
* * *
2439 AAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATT-GGACTTAAAGAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGACTTAAAGAAG
* * **
2488 AAGTTGCCAATATGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGACTTAAAGA--A-G
*
2541 AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATT-GGACTTAAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGACTTAAAGA
2588 TGAATATGAG
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
49 31 0.37
50 9 0.11
52 10 0.12
53 34 0.40
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (50 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGACTTAAAGAAG
Found at i:2653 original size:67 final size:68
Alignment explanation
Indices: 2531--2657 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
2521 ATTGGGTTTT
* * *
2531 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAATATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAATATG
2596 AGA
66 AGA
* * * * *
2599 AAAG-TGATAAAGATGCCACTATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
2658 GAAAAAGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAATATG
AGA
Found at i:2707 original size:55 final size:52
Alignment explanation
Indices: 2647--3119 Score: 340
Period size: 43 Copynumber: 10.0 Consensus size: 52
2637 CGATATTGGG
* *
2647 CTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
* *
2702 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
* *
2754 C-T-----T--AAAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
* * * * *
2797 CTTAAAGA---AGAAGTTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
* **
2846 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTTTA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
* * *
2889 CTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
* * *
2938 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
* * * *
2981 CTTAAAGAT-G--ATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
* *
3030 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
*
3073 CTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
3120 GGCTTAGAAG
Statistics
Matches: 353, Mismatches: 34, Indels: 68
0.78 0.07 0.15
Matches are distributed among these distances:
43 145 0.41
44 8 0.02
46 1 0.00
48 6 0.02
49 143 0.41
51 1 0.00
52 32 0.09
53 6 0.02
54 1 0.00
55 10 0.03
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAA
Found at i:2707 original size:122 final size:120
Alignment explanation
Indices: 2492--2711 Score: 291
Period size: 122 Copynumber: 1.8 Consensus size: 120
2482 AAGAAGAAGT
*
2492 TGCCAATATGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCT
1 TGCCAATATGCTGATTCAAGGCCAACAACATTGGGTCTTAAAGATGATGAAGGTGCCAATATGCT
* *
2557 GATTCAAGGCCAGCAATATTGGACTTAAAGATGAATATGAGAAAAGTGATAAAGA
66 GATTCAAGGCCAGCAACATTGAACTTAAAGATGAATATGAGAAAAGTGATAAAGA
* * * * * * *
2612 TGCCACTATGTTGATTCACGGCCAACGATATTGGG-CTTAAAGATGA-GAAAAAGGATGTCAATG
1 TGCCAATATGCTGATTCAAGGCCAACAACATTGGGTCTTAAAGATGATG---AAGG-TGCCAATA
*
2675 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
62 TGCTGATTCAAGGCCAGCAACATTGAACTTAAAGATG
2712 GAAAAGGTGC
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 1 0.01
119 10 0.12
120 30 0.35
121 4 0.05
122 40 0.47
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (120 bp):
TGCCAATATGCTGATTCAAGGCCAACAACATTGGGTCTTAAAGATGATGAAGGTGCCAATATGCT
GATTCAAGGCCAGCAACATTGAACTTAAAGATGAATATGAGAAAAGTGATAAAGA
Found at i:2752 original size:319 final size:319
Alignment explanation
Indices: 2126--2834 Score: 1292
Period size: 319 Copynumber: 2.2 Consensus size: 319
2116 AATGATGTAT
* * ** * *
2126 ATGTGCTGATTCAAGGCCAGCTACATTGAACTCAAAGATGAGAAAAATGCCAATGTGCTAATTCA
1 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--AG-AAGTTGCCAATATGCTGATTCA
2191 AGGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATA
63 AGGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATA
2256 TTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATCTTGATTCACGGCCAACGA
128 TTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATCTTGATTCACGGCCAACGA
2321 TATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTT
193 TATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTT
*
2386 AAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCA
258 AAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGTGCCA
*
2448 ATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGCTGATTCAAGG
1 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGCTGATTCAAGG
2513 CCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTG
66 CCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTG
* * *
2578 GACTTAAAGATGAATATGAGAAAAGTGATAAAGATGCCACTATGTTGATTCACGGCCAACGATAT
131 GACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATCTTGATTCACGGCCAACGATAT
2643 TGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
196 TGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
2708 GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGTGCCA
261 GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGTGCCA
2767 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGCTGATTCAAGG
1 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGCTGATTCAAGG
2832 CCA
66 CCA
2835 GCGATATTGG
Statistics
Matches: 375, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
319 338 0.90
320 2 0.01
322 35 0.09
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (319 bp):
ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGCTGATTCAAGG
CCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTG
GACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATCTTGATTCACGGCCAACGATAT
TGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGTGCCA
Found at i:2775 original size:43 final size:43
Alignment explanation
Indices: 2713--3125 Score: 457
Period size: 43 Copynumber: 9.0 Consensus size: 43
2703 TTAAAGATGG
2713 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2757 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
2800 AAAGAAGAAGTTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----AA-AAG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * **
2849 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTTTACTT
1 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
2892 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
1 --A-A--AA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2941 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
2984 AAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A--A--GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
3033 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
3076 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 --A-A--AA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
3125 A
1 A
3126 GAAGGGTTGC
Statistics
Matches: 314, Mismatches: 31, Indels: 45
0.81 0.08 0.12
Matches are distributed among these distances:
43 143 0.46
44 9 0.03
45 5 0.02
46 3 0.01
47 5 0.02
48 7 0.02
49 142 0.45
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (43 bp):
AAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:2850 original size:92 final size:92
Alignment explanation
Indices: 2661--3130 Score: 778
Period size: 92 Copynumber: 5.1 Consensus size: 92
2651 AAGATGAGAA
* *
2661 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
2726 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
2757 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
2822 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
**
2849 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTTTACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
2914 TGATTCAAGGCCAGCAATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
2941 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGATGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
3006 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
3033 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
3098 TGATTCAAGGCCAGCTATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
3125 AGAAGG
1 A-AAGG
3131 GTTGCCACCA
Statistics
Matches: 352, Mismatches: 21, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
92 302 0.86
93 4 0.01
94 1 0.00
95 41 0.12
96 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:3169 original size:33 final size:35
Alignment explanation
Indices: 3125--3194 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
3115 TATTGGGCTT
3125 AGAAGGGTTGCCACCAACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGGA
*
3159 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGGA
3193 AG
1 AG
3195 GGAGAAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 25 0.74
34 9 0.26
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGGA
Found at i:3237 original size:34 final size:34
Alignment explanation
Indices: 3179--3591 Score: 345
Period size: 34 Copynumber: 12.3 Consensus size: 34
3169 CACCGACTTG
* * *
3179 TGTGGGCTTTAGGAAGGGAGAAAGATGCCAGGGAGT
1 TGTGGGCTTTA--AAAGGAAAAAGATGCCACGGAGT
*
3215 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGA-TGCCACGGAGT
* *
3250 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
3284 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGA-TGCCACGGAGT
* * *
3321 TGTAGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
**
3355 TGTGGGCTTTGAAAAAGGAAAAAGAGTGCCATAGAGT
1 TGTGGGCTTT--AAAAGGAAAAAGA-TGCCACGGAGT
* *
3392 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * *
3426 TGTGGGCTTTAAAAAGAAAAATGTTGCCACGGAAT
1 TGTGGGCTTTAAAAGGAAAAA-GATGCCACGGAGT
3461 TGTGGGCTTTAAAAGG-----G-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* *
3489 TGTGGGCTTT-GAA-GAAAAA-ATGCCACTGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * * * *
3520 CGTGGACTTT--GA-GACAAA-ATGCCACTGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * * * *
3550 CGTGGACTTT-GAA-GAAAAGGATGCCACTGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
3582 TGTGGACTTT
1 TGTGGGCTTT
3592 GAGAAGAGAT
Statistics
Matches: 322, Mismatches: 37, Indels: 40
0.81 0.09 0.10
Matches are distributed among these distances:
26 1 0.00
27 2 0.01
28 20 0.06
29 1 0.00
30 28 0.09
31 23 0.07
32 21 0.07
33 2 0.01
34 78 0.24
35 74 0.23
36 34 0.11
37 38 0.12
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
Found at i:3250 original size:35 final size:34
Alignment explanation
Indices: 3179--3498 Score: 357
Period size: 34 Copynumber: 9.3 Consensus size: 34
3169 CACCGACTTG
* * * *
3179 TGTGGGCTTTAGGAAGGGAGAAAGATGCCAGGGAGT
1 TGTGGGCTTTA--AAAGGAAAAAGGTGCCACGGAGT
*
3215 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
*
3250 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
3284 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
* *
3321 TGTAGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
**
3355 TGTGGGCTTTGAAAAAGGAAAAAGAGTGCCATAGAGT
1 TGTGGGCTTT--AAAAGGAAAAAG-GTGCCACGGAGT
*
3392 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
3426 TGTGGGCTTTAAAAAGAAAAATGTTGCCACGGAAT
1 TGTGGGCTTTAAAAGGAAAAA-GGTGCCACGGAGT
3461 TGTGGGCTTTAAAA-G-----GGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
3489 TGTGGGCTTT
1 TGTGGGCTTT
3499 GAAGAAAAAA
Statistics
Matches: 251, Mismatches: 23, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
28 21 0.08
33 2 0.01
34 81 0.32
35 73 0.29
36 34 0.14
37 40 0.16
ACGTcount: A:0.33, C:0.11, G:0.34, T:0.22
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
Found at i:3254 original size:71 final size:71
Alignment explanation
Indices: 3199--3501 Score: 421
Period size: 71 Copynumber: 4.4 Consensus size: 71
3189 AGGAAGGGAG
* * * *
3199 AAAGATGCCAGGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
3262 AAAGAA
66 AAAGAA
*
3268 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTAGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
3333 AAAGAA
66 AAAGAA
* *
3339 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
3404 AAAGAA
66 AAAGAA
* * * *
3410 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAATG-TTGCCACGGAATTGTGGGCTTT-
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAA-GAGTGCCACAGAGTTGTGGGCTTTA
3471 AAAAG--
65 AAAAGAA
3476 ---GGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAA
3502 GAAAAAATGC
Statistics
Matches: 217, Mismatches: 13, Indels: 13
0.89 0.05 0.05
Matches are distributed among these distances:
63 23 0.11
64 2 0.01
68 5 0.02
69 44 0.20
70 7 0.03
71 136 0.63
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.21
Consensus pattern (71 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
AAAGAA
Found at i:3530 original size:31 final size:31
Alignment explanation
Indices: 3478--3624 Score: 181
Period size: 31 Copynumber: 4.7 Consensus size: 31
3468 TTTAAAAGGG
* * *
3478 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
3509 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
3539 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAA-AA
* * *
3571 TGCCACTGAGTTGTGGACTTTG-AGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAAGAA-AAAA
*
3602 TGCCACTGAGTCGTGGGCTTTGA
1 TGCCACTGAGTCGTGGACTTTGA
3625 GAAGAGATTT
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
30 29 0.29
31 48 0.48
32 23 0.23
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:4634 original size:17 final size:16
Alignment explanation
Indices: 4580--4633 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
4570 TTTTTTTTCC
4580 TTTTTTTTGTTTCTTCT
1 TTTTTTTTGTTTCTT-T
*
4597 TTTTTTTTCTTT-TTT
1 TTTTTTTTGTTTCTTT
4612 GTTTTGTTTTGTTTCTTT
1 -TTTT-TTTTGTTTCTTT
4630 TTTT
1 TTTT
4634 GGAAAAGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 1 0.03
16 6 0.19
17 22 0.69
18 3 0.09
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (16 bp):
TTTTTTTTGTTTCTTT
Found at i:11193 original size:54 final size:54
Alignment explanation
Indices: 11093--11221 Score: 217
Period size: 54 Copynumber: 2.4 Consensus size: 54
11083 AGAAATATGA
* *
11093 AAATTTACCTGCATGTATCG--ATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATATACATTTAATAATGTATCGATACATCTGGGC
*
11145 AAATTTGCCTGCATGTATCGATATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATATACATTTAATAATGTATCGATACATCTGGGC
11199 AAATTTGCCTGCATGTATCGATA
1 AAATTTGCCTGCATGTATCGATA
11222 CAAAGATCAG
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
52 19 0.26
54 53 0.74
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (54 bp):
AAATTTGCCTGCATGTATCGATATACATTTAATAATGTATCGATACATCTGGGC
Found at i:11250 original size:13 final size:13
Alignment explanation
Indices: 11232--11256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11222 CAAAGATCAG
11232 TGTATCGATACAA
1 TGTATCGATACAA
11245 TGTATCGATACA
1 TGTATCGATACA
11257 TTTGTGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:11334 original size:33 final size:33
Alignment explanation
Indices: 11297--11363 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
11287 AGTAGCTTAA
11297 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* * ***
11330 ATTGTATCGGTACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
11363 A
1 A
11364 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:17444 original size:20 final size:19
Alignment explanation
Indices: 17415--17489 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
17405 AAAAAGACAT
17415 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
17434 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
17455 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
17475 AATGTATCGATACAT
1 AATGTATCGATACAT
17490 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:17472 original size:40 final size:39
Alignment explanation
Indices: 17412--17489 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
17402 GGTAAAAAGA
*
17412 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
17451 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
17490 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:18081 original size:29 final size:28
Alignment explanation
Indices: 18051--19367 Score: 1155
Period size: 29 Copynumber: 45.0 Consensus size: 28
18041 AAAAAAAAAA
*
18051 AGTGCCACTAACTTATGTGGGCCTTGAAAAG
1 AGTGCCACTAAC-T-TGTGGGCTTTG-AAAG
**
18082 AGTTGCCACCGACTCGTGTGGGCTTTGAAAAG
1 AG-TGCCACTAACT--TGTGGGCTTTG-AAAG
* * *
18114 AGTTACCACTAGCTTGTGGGCTTTAAAAG
1 AG-TGCCACTAACTTGTGGGCTTTGAAAG
* *
18143 GGTGCCACTAACTTGTGGGCTTTGGAAG
1 AGTGCCACTAACTTGTGGGCTTTGAAAG
* **
18171 GGTGCCACTGATTTGTGTGGGCTTTGAAAAG
1 AGTGCCACT-AACT-TGTGGGCTTTG-AAAG
* **
18202 AGTTGCTACCGACTTGTGTGGGCTTTGAAAAG
1 AG-TGCCACTAAC-T-TGTGGGCTTTG-AAAG
* *
18234 AGTGCCACTGACTTGTGGGCCTTGAAAAG
1 AGTGCCACTAACTTGTGGGCTTTG-AAAG
* * *
18263 AGTGTCACTGACTTGTGGGTTTTGAAA-
1 AGTGCCACTAACTTGTGGGCTTTGAAAG
18290 AGGTGCCACTAACTTGTGGGCTTTGAAAGG
1 A-GTGCCACTAACTTGTGGGCTTTGAAA-G
* * *
18320 GGTGCCACTGATTTGTGGGCTTTGAAAGG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
* *
18349 GGTGCCACTGACTTGTGGGCTTTGAAAGG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
* * *
18378 GGTGCCACTATCTTCTGGGCTTTGAAAAG
1 AGTGCCACTAACTTGTGGGCTTTG-AAAG
18407 AGTGCCACTAACTTGTGGGCTTTGAAAG
1 AGTGCCACTAACTTGTGGGCTTTGAAAG
* * *
18435 GGTGCCACTAATTTGCATGGGCTTTAAAAGG
1 AGTGCCACTAACTTG--TGGGCTTTGAAA-G
* *
18466 GGTGCCACTAACTTGTGGGCATTGAAAGG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
* *
18495 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 AGTGCCACTAACTTGTGGGCTTTGAAAG
* *
18523 GGTGCCACTGACTTGTGGGCTTTGAAAAG
1 AGTGCCACTAACTTGTGGGCTTTG-AAAG
* *
18552 AATTGCCACTAACTTGTGGGCCTTGAAAG
1 -AGTGCCACTAACTTGTGGGCTTTGAAAG
* ** * *
18581 GGTGCCACTGTCTTCTAGGCTTTGAAAG
1 AGTGCCACTAACTTGTGGGCTTTGAAAG
* *
18609 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 AGTGCCACTAACTTGTGGGCTTTGAAAG
** *
18637 AGGTGCCACTGTCTTGTGGGTTTTGAAAAG
1 A-GTGCCACTAACTTGTGGGCTTTG-AAAG
* *
18667 AGTGCCACTAACTTGTAGGCTTTAAAAGG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
* *
18696 GGTGCCACTGACTTGTGGGCTTTGAAAGG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
* ** *
18725 GGTGCCACTGTCTTGTGGGCTTTGAAAAA
1 AGTGCCACTAACTTGTGGGCTTTG-AAAG
*
18754 AGTGCCACTAACTTGTGGGCTTTAAAAG
1 AGTGCCACTAACTTGTGGGCTTTGAAAG
* * *
18782 GGTGCCACTGACCTGCGTGGGCTTTGAAAGG
1 AGTGCCACT-AACT-TGTGGGCTTTGAAA-G
* *
18813 GGTGCCACTGACTTGTGGGCTTTGAAAGG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
* ** *
18842 GGTGCCACTGTCTTATGGGCTTTGAAAAG
1 AGTGCCACTAACTTGTGGGCTTTG-AAAG
* *
18871 AGTGCCACTGACTTGTGGGCTTTAAAAGG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
* *
18900 GGTGCCACTGACTTGTGGGCTTTGAAAGG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
* ** *
18929 GGTGCCACTGTCTTGTGGGCTTTAAAAG
1 AGTGCCACTAACTTGTGGGCTTTGAAAG
*
18957 AGTGCCACTAACTTGTGGGCTTTAAAAG
1 AGTGCCACTAACTTGTGGGCTTTGAAAG
* *
18985 GGTGCCACTGACTTGCGTGGGCTTTGAAAGG
1 AGTGCCACTAACTT--GTGGGCTTTGAAA-G
* * *
19016 GGTGCCACTGATTTGTGGGCTTTGAAAGG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
* *
19045 GGTGCCACTGACTTGTGGGCTTTGAAAGG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
*
19074 GGTGCCACTAACTTGTGGGCTTTGAAAG
1 AGTGCCACTAACTTGTGGGCTTTGAAAG
* *
19102 GGTGCCACTGACTTGTGGGCTTTGAAAAAG
1 AGTGCCACTAACTTGTGGGCTTTG--AAAG
* **
19132 AGTTACCACCGACTCGTGTGGGCTTTGAAAGG
1 AG-TGCCACTAACT--TGTGGGCTTTGAAA-G
* *
19164 GGTGCCACTGACTTGTGGGCTTTGAAATG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
*
19193 -GTGCCACTGACTTGTGGGCTTTGAAAAAG
1 AGTGCCACTAACTTGTGGGCTTTG--AAAG
* * *
19222 AGTTACCACTGACTTGTGGGCTTTAAAAGG
1 AG-TGCCACTAACTTGTGGGCTTTGAAA-G
* *
19252 GGTGCCACTGACTTGTGGGCTTTGAAAGG
1 AGTGCCACTAACTTGTGGGCTTTGAAA-G
* * *
19281 GGTGCCACTATCTTGTGGGCATTGAAAAG
1 AGTGCCACTAACTTGTGGGCTTTG-AAAG
*
19310 AGTGCCACTAA-TTGGTGGGCTTTAAAAG
1 AGTGCCACTAACTT-GTGGGCTTTGAAAG
* *
19338 GGTGCCACTGACTTACGTGGGCTTTGAAAG
1 AGTGCCACTAACTT--GTGGGCTTTGAAAG
19368 GGGTTTGAAC
Statistics
Matches: 1110, Mismatches: 133, Indels: 87
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.00
28 262 0.24
29 561 0.51
30 120 0.11
31 95 0.09
32 60 0.05
33 11 0.01
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.29
Consensus pattern (28 bp):
AGTGCCACTAACTTGTGGGCTTTGAAAG
Found at i:18165 original size:58 final size:57
Alignment explanation
Indices: 18052--19369 Score: 1398
Period size: 58 Copynumber: 22.5 Consensus size: 57
18042 AAAAAAAAAA
* * * * *
18052 GTGCCACTAACTTATGTGGGCCTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAG
1 GTGCCACTGAC-T-TGTGGG-CTTTAAAAG-GGTGCCACTGACT--TGTGGGCTTTG-AAAGGG
* * * *
18116 TTACCACT-AGCTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGGAA-GG
1 GTGCCACTGA-CTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * *
18172 GTGCCACTGATTTGTGTGGGCTTTGAAAAGAGTTGCTACCGACTTGTGTGGGCTTTGAAAAGA
1 GTGCCACTGA-CT-TGTGGGCTTT-AAAAG-GGTGCCACTGAC-T-TGTGGGCTTTGAAAGGG
* * * * *
18235 GTGCCACTGACTTGTGGGCCTTGAAAAGAGTGTCACTGACTTGTGGGTTTTGAAA-AG
1 GTGCCACTGACTTGTGGG-CTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
18292 GTGCCACTAACTTGTGGGCTTTGAAAGGGGTGCCACTGATTTGTGGGCTTTGAAAGGG
1 GTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
18350 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACT-ATCTTCTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGA-CTTGTGGGCTTTGAAAGGG
* * * * *
18408 GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAATTTGCATGGGCTTTAAAAGGG
1 GTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTG--TGGGCTTTGAAAGGG
* * *
18467 GTGCCACTAACTTGTGGGCATTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAA-GG
1 GTGCCACTGACTTGTGGGC-TTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
** * *
18524 GTGCCACTGACTTGTGGGCTTTGAAAAGAATTGCCACTAACTTGTGGGCCTTGAAA-GG
1 GTGCCACTGACTTGTGGGCTTT-AAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * *
18582 GTGCCACTGTCTTCTAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAG
1 GTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * *
18639 GTGCCACTGTCTTGTGGGTTTTGAAAAGAGTGCCACTAACTTGTAGGCTTTAAAAGGG
1 GTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * ***
18697 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGTCTTGTGGGCTTTGAAAAAA
1 GTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* *
18755 GTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTGACCTGCGTGGGCTTTGAAAGGG
1 GTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGA-CT-TGTGGGCTTTGAAAGGG
* * * * *
18814 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGTCTTATGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
18872 GTGCCACTGACTTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
1 GTGCCACTGACTTGTGGGCTTTAAAA-GGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
18930 GTGCCACTGTCTTGTGGGCTTTAAAAGAGTGCCACTAACTTGTGGGCTTT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* *
18986 GTGCCACTGACTTGCGTGGGCTTTGAAAGGGGTGCCACTGATTTGTGGGCTTTGAAAGGG
1 GTGCCACTGACTT--GTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* *
19046 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTAACTTGTGGGCTTTGAAA-GG
1 GTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
19103 GTGCCACTGACTTGTGGGCTTTGAAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAGGG
1 GTGCCACTGACTTGTGGGCTTT--AAAAG-GGTGCCACTGACT--TGTGGGCTTTGAAAGGG
* * *
19165 GTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTGAAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTG--AAAGGG
* *
19224 TTACCACTGACTTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
1 GTGCCACTGACTTGTGGGCTTTAAAA-GGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
19282 GTGCCACT-ATCTTGTGGGCATTGAAAAGAGTGCCACT-AATTGGTGGGCTTT-AAAAGG
1 GTGCCACTGA-CTTGTGGGC-TTTAAAAGGGTGCCACTGACTT-GTGGGCTTTGAAAGGG
*
19339 GTGCCACTGACTTACGTGGGCTTTGAAAGGG
1 GTGCCACTGACTT--GTGGGCTTTAAAAGGG
19370 GTTTGAACGT
Statistics
Matches: 1064, Mismatches: 148, Indels: 90
0.82 0.11 0.07
Matches are distributed among these distances:
56 52 0.05
57 205 0.19
58 448 0.42
59 156 0.15
60 102 0.10
61 34 0.03
62 47 0.04
63 13 0.01
64 7 0.01
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.29
Consensus pattern (57 bp):
GTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
Found at i:18423 original size:87 final size:86
Alignment explanation
Indices: 18052--19371 Score: 1410
Period size: 87 Copynumber: 15.0 Consensus size: 86
18042 AAAAAAAAAA
* * * * * * *
18052 GTGCCACTAACTTATGTGGGCCTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGT
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAGGGGTGCCACTGACT--TGTGGGCTTTG-AAAGGGG
*
18117 TACCACTAGCTTGTGGGCTTT-AAAAGG
60 TGCCACTA-CTTGTGGGCTTTGAAAAGG
* * * * *
18144 GTGCCACTAACTTGTGGGCTTTGGAA-GGGTGCCACTGATTTGTGTGGGCTTTGAAAAGAGTTGC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGA-CT-TGTGGGCTTTG-AAAGGGGTGC
* * *
18208 TACCGACTTGTGTGGGCTTTGAAAAGA
63 CA-CTAC-T-TGTGGGCTTTGAAAAGG
* * * * * *
18235 GTGCCACTGACTTGTGGGCCTTGAAAAGAGTGTCACTGACTTGTGGGTTTTGAAA-AGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCAC
*
18299 TAACTTGTGGGCTTTGAAAGGG
66 T-ACTTGTGGGCTTTGAAAAGG
*
18321 GTGCCACTGATTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCAC
* *
18386 TATCTTCTGGGCTTTGAAAAGA
66 TA-CTTGTGGGCTTTGAAAAGG
* * * *
18408 GTGCCACTAACTTGTGGGCTTTGAAA-GGGTGCCACTAATTTGCATGGGCTTTAAAAGGGGTGCC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTG--TGGGCTTTGAAAGGGGTGCC
* *
18472 ACTAACTTGTGGGCATTGAAAGGG
64 ACT-ACTTGTGGGCTTTGAAAAGG
***
18496 GTGCCACTGACTTGTGGGCTTTGAAA-GGGTGCCACTGACTTGTGGGCTTTGAAAAGAATTGCCA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGGTGCCA
*
18560 CTAACTTGTGGGCCTTG-AAAGG
65 CT-ACTTGTGGGCTTTGAAAAGG
* * * *
18582 GTGCCACTGTCTTCTAGGCTTTGAAA-GGGTGCCACTGACTTGTGGGCTTTGAAAGAGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCAC
* * *
18646 TGTCTTGTGGGTTTTGAAAAGA
66 T-ACTTGTGGGCTTTGAAAAGG
* * *
18668 GTGCCACTAACTTGTAGGCTTTAAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCAC
* **
18733 TGTCTTGTGGGCTTTGAAAAAA
66 T-ACTTGTGGGCTTTGAAAAGG
* * *
18755 GTGCCACTAACTTGTGGGCTTT-AAAAGGGTGCCACTGACCTGCGTGGGCTTTGAAAGGGGTGCC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGA-CT-TGTGGGCTTTGAAAGGGGTGCC
*
18819 ACTGACTTGTGGGCTTTGAAAGGG
64 ACT-ACTTGTGGGCTTTGAAAAGG
* * * * *
18843 GTGCCACTGTCTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCAC
*
18908 TGACTTGTGGGCTTTGAAAGGG
66 T-ACTTGTGGGCTTTGAAAAGG
* * * * *
18930 GTGCCACTGTCTTGTGGGCTTT-AAAAGAGTGCCACTAACTTGTGGGCTTT-AAAAGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCAC
*
18993 TGACTTGCGTGGGCTTTGAAAGGG
66 T-ACTT--GTGGGCTTTGAAAAGG
*
19017 GTGCCACTGATTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCAC
19082 TAACTTGTGGGCTTTG-AAAGG
66 T-ACTTGTGGGCTTTGAAAAGG
* * * *
19103 GTGCCACTGACTTGTGGGCTTTGAAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAGGGGTG
1 GTGCCACTGACTTGTGGGCTTTG--AAAGGGGTGCCACTGACT--TGTGGGCTTTGAAAGGGGTG
*
19168 CCACTGACTTGTGGGCTTTG-AAATG
62 CCACT-ACTTGTGGGCTTTGAAAAGG
* * * *
19193 GTGCCACTGACTTGTGGGCTTTGAAAAAGAGTTACCACTGACTTGTGGGCTTTAAAAGGGGTGCC
1 GTGCCACTGACTTGTGGGCTTTG--AAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCC
*
19258 ACTGACTTGTGGGCTTTGAAAGGG
64 ACT-ACTTGTGGGCTTTGAAAAGG
* * * * *
19282 GTGCCACT-ATCTTGTGGGCATTGAAAAGAGTGCCACT-AATTGGTGGGCTTT-AAAAGGGTGCC
1 GTGCCACTGA-CTTGTGGGCTTTGAAAGGGGTGCCACTGACTT-GTGGGCTTTGAAAGGGGTGCC
*
19344 ACTGACTTACGTGGGCTTTGAAAGGG
64 ACT-ACTT--GTGGGCTTTGAAAAGG
19370 GT
1 GT
19372 TTGAACGTTC
Statistics
Matches: 1087, Mismatches: 110, Indels: 66
0.86 0.09 0.05
Matches are distributed among these distances:
85 41 0.04
86 254 0.23
87 285 0.26
88 276 0.25
89 65 0.06
90 115 0.11
91 30 0.03
92 21 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (86 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCAC
TACTTGTGGGCTTTGAAAAGG
Found at i:20596 original size:1 final size:1
Alignment explanation
Indices: 20590--20665 Score: 71
Period size: 1 Copynumber: 76.0 Consensus size: 1
20580 GACCCTTCTA
* * * * * * * *
20590 TTTTTTTGTTATTTTTTCTTTTTTTTATTTTTTTGTTTTGTTTTTTTTGTTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
20655 TTTATTTTTTT
1 TTTTTTTTTTT
20666 GGGTGTAAAG
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.04, C:0.01, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:20630 original size:32 final size:33
Alignment explanation
Indices: 20593--20656 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
20583 CCTTCTATTT
20593 TTTTGTTATTTTT-TCTTTTTTTTATTTTTTTG
1 TTTTGTTATTTTTGTCTTTTTTTTATTTTTTTG
* * *
20625 TTTTGTTTTTTTTGTTTTTTTTTTGTTTTTTT
1 TTTTGTTATTTTTGTCTTTTTTTTATTTTTTT
20657 TATTTTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.88
Consensus pattern (33 bp):
TTTTGTTATTTTTGTCTTTTTTTTATTTTTTTG
Found at i:27082 original size:19 final size:19
Alignment explanation
Indices: 27058--27100 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
27048 AAATAATGGG
*
27058 AATGAATAGCAAGAAAAAA
1 AATGAACAGCAAGAAAAAA
* *
27077 AATGAACATCAATAAAAAA
1 AATGAACAGCAAGAAAAAA
27096 AATGA
1 AATGA
27101 CCCTTCCTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.67, C:0.07, G:0.12, T:0.14
Consensus pattern (19 bp):
AATGAACAGCAAGAAAAAA
Found at i:30390 original size:22 final size:24
Alignment explanation
Indices: 30349--30392 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
30339 TGACATGGAA
30349 AATGTGATAATCATACAATGAACT
1 AATGTGATAATCATACAATGAACT
*
30373 AATG-GATAA-CATTCAATGAA
1 AATGTGATAATCATACAATGAA
30393 ATGCTGGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 5 0.26
24 4 0.21
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (24 bp):
AATGTGATAATCATACAATGAACT
Found at i:30429 original size:20 final size:20
Alignment explanation
Indices: 30400--30453 Score: 81
Period size: 22 Copynumber: 2.6 Consensus size: 20
30390 GAAATGCTGG
*
30400 ACATATTAAAAATGCATGAA
1 ACATAATAAAAATGCATGAA
30420 ACATAATAAAAAAATGCATGAA
1 ACATAAT--AAAAATGCATGAA
30442 ACATAATAAAAA
1 ACATAATAAAAA
30454 AATGCATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 11 0.35
22 20 0.65
ACGTcount: A:0.63, C:0.09, G:0.07, T:0.20
Consensus pattern (20 bp):
ACATAATAAAAATGCATGAA
Found at i:30435 original size:22 final size:22
Alignment explanation
Indices: 30407--30461 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
30397 TGGACATATT
30407 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
30429 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
30451 AAAAATGCATG
1 AAAAATGCATG
30462 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:31382 original size:20 final size:19
Alignment explanation
Indices: 31353--31427 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
31343 AAAAAGACAT
31353 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
31372 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
31393 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
31413 AATGTATCGATACAT
1 AATGTATCGATACAT
31428 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:31410 original size:40 final size:39
Alignment explanation
Indices: 31350--31427 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
31340 GGTAAAAAGA
*
31350 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
31389 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
31428 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:35556 original size:20 final size:19
Alignment explanation
Indices: 35527--35601 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
35517 AAAAAGACAT
35527 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
35546 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
35567 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
35587 AATGTATCGATACAT
1 AATGTATCGATACAT
35602 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:35584 original size:40 final size:39
Alignment explanation
Indices: 35524--35601 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
35514 GGTAAAAAGA
*
35524 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
35563 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
35602 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:39162 original size:51 final size:52
Alignment explanation
Indices: 39085--39210 Score: 186
Period size: 51 Copynumber: 2.5 Consensus size: 52
39075 CGAAATATGA
* *
39085 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* * *
39137 AAATTTGTCT-CACGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
39188 --ATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
39211 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 7 0.11
50 13 0.20
51 37 0.56
52 9 0.14
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:39237 original size:13 final size:13
Alignment explanation
Indices: 39219--39243 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39209 CAAAGATCAG
39219 TGTATCGATACAA
1 TGTATCGATACAA
39232 TGTATCGATACA
1 TGTATCGATACA
39244 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:39324 original size:13 final size:13
Alignment explanation
Indices: 39306--39330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39296 CAAAAAATTA
39306 TGTATCGATACAT
1 TGTATCGATACAT
39319 TGTATCGATACA
1 TGTATCGATACA
39331 ACATTTTCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:40046 original size:189 final size:189
Alignment explanation
Indices: 39726--40085 Score: 524
Period size: 189 Copynumber: 1.9 Consensus size: 189
39716 AGTATGTGGG
*** * ** *
39726 ACTGATTTGCTTGCTGGAACAACAGTGTAAGCTTGTTTACCTCCTTTGTGGGGTTGTAAACAAGC
1 ACTGATTTGCTTGCCAAAACAACAATACAAGCTTGTTTACCTCCTTTGTGGGATTGTAAACAAGC
* * * *
39791 TGAAAAGGATTGAAAAGAGGATATTTGGGTTATGGTTTGAAGAGAAGTATATTAGAATGGTGTAG
66 TAAAAAGGATGGAAAAGAGGATATTTGGGTTATGGTATGAAGAGAAGTAGATTAGAATGGTGTAG
* *
39856 TGGCTGAAGATGATGTGCTTGGAGGTGTTTTTTTGAAGGGTAAGTTCTAGAAAATATAC
131 TGGCTGAAGAGGATGTGCTTGGAGGTGTTTCTTTGAAGGGTAAGTTCTAGAAAATATAC
* *
39915 ACTGATTTGCTTGCCAAAACAACAATACAAGCTTGTTTACCTCTTTTGTGGGATTGTAAACAAGT
1 ACTGATTTGCTTGCCAAAACAACAATACAAGCTTGTTTACCTCCTTTGTGGGATTGTAAACAAGC
* * *
39980 TAAAAATGATGGAAAAGAGGATATTTGGGTTATGGTATGAAGA-AAGGTGGATTAGAGTGGTGTA
66 TAAAAAGGATGGAAAAGAGGATATTTGGGTTATGGTATGAAGAGAA-GTAGATTAGAATGGTGTA
* *
40044 GTGGTTGAAGAGGATGTGTTTGGAGGTGTTTCTTTGAAGGGT
130 GTGGCTGAAGAGGATGTGCTTGGAGGTGTTTCTTTGAAGGGT
40086 GTGGGAGAGC
Statistics
Matches: 150, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
188 2 0.01
189 148 0.99
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.33
Consensus pattern (189 bp):
ACTGATTTGCTTGCCAAAACAACAATACAAGCTTGTTTACCTCCTTTGTGGGATTGTAAACAAGC
TAAAAAGGATGGAAAAGAGGATATTTGGGTTATGGTATGAAGAGAAGTAGATTAGAATGGTGTAG
TGGCTGAAGAGGATGTGCTTGGAGGTGTTTCTTTGAAGGGTAAGTTCTAGAAAATATAC
Found at i:41392 original size:124 final size:123
Alignment explanation
Indices: 41203--41430 Score: 323
Period size: 124 Copynumber: 1.8 Consensus size: 123
41193 TTATAGGGCA
* * *
41203 TGAGATATGTTTAATTATTTAATTATAGAATAACATACGTAGATAATGCAGTTTGATTTTGAATC
1 TGAGATATGTTTAATTATTTAATTATAGAATAACAAACGTAGATAATGCAGATTGATTTTAAATC
** *
41268 TTGAAATTTAATTATTTTAAATATATAATTATAATTATTTTATTTAAGAAGGATTCCAG
66 TAAAAATTTAATTA-TTTAAATAGATAATTATAATTATTTTATTTAAGAAGGATTCCAG
* * * *
41327 TGAGATATGTTTAGTTATTTAATTACTAG-ATAACAAAGGTGGATAATGTAGATTGATTTTAAAT
1 TGAGATATGTTTAATTATTTAATTA-TAGAATAACAAACGTAGATAATGCAGATTGATTTTAAAT
* *
41391 CTAAAAATTTAATTATTTAAATGGATAATTTTAATTATTT
65 CTAAAAATTTAATTATTTAAATAGATAATTATAATTATTT
41431 AAGTATTAGA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
123 22 0.24
124 66 0.73
125 3 0.03
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.44
Consensus pattern (123 bp):
TGAGATATGTTTAATTATTTAATTATAGAATAACAAACGTAGATAATGCAGATTGATTTTAAATC
TAAAAATTTAATTATTTAAATAGATAATTATAATTATTTTATTTAAGAAGGATTCCAG
Found at i:41411 original size:22 final size:22
Alignment explanation
Indices: 41384--41432 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
41374 GTAGATTGAT
*
41384 TTTAAATCTAAAAATTTAATTA
1 TTTAAATCGAAAAATTTAATTA
* * *
41406 TTTAAATGGATAATTTTAATTA
1 TTTAAATCGAAAAATTTAATTA
41428 TTTAA
1 TTTAA
41433 GTATTAGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTAAATCGAAAAATTTAATTA
Found at i:41930 original size:26 final size:27
Alignment explanation
Indices: 41875--41931 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
41865 CGATTTACAA
* *
41875 ATGAGTTTTATTTGTTTGTATAGGGGT
1 ATGAGTTTTATTTGTTTGTATAGAGAT
41902 ATGA-TTTTATTTGTTTGTATAGAGAT
1 ATGAGTTTTATTTGTTTGTATAGAGAT
41928 ATGA
1 ATGA
41932 AATGATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (27 bp):
ATGAGTTTTATTTGTTTGTATAGAGAT
Found at i:41939 original size:26 final size:26
Alignment explanation
Indices: 41884--41939 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
41874 AATGAGTTTT
* * ** *
41884 ATTTGTTTGTATAGGGGTATGATTTT
1 ATTTGTTTGTATAGAGATATGAAATG
41910 ATTTGTTTGTATAGAGATATGAAATG
1 ATTTGTTTGTATAGAGATATGAAATG
41936 ATTT
1 ATTT
41940 TATATAACTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (26 bp):
ATTTGTTTGTATAGAGATATGAAATG
Found at i:43366 original size:27 final size:26
Alignment explanation
Indices: 43317--43367 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
43307 ATTTTTTGGT
*
43317 GAAAAATGGGGTTAGAGTATCCCCTC
1 GAAAAATGGGGTTAGAATATCCCCTC
* *
43343 GAAAGAATGGGGTTGGAATGTCCCC
1 GAAA-AATGGGGTTAGAATATCCCC
43368 AACAATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (26 bp):
GAAAAATGGGGTTAGAATATCCCCTC
Found at i:44600 original size:13 final size:13
Alignment explanation
Indices: 44582--44606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44572 CATAAAGTGT
44582 TGTATCGATACAA
1 TGTATCGATACAA
44595 TGTATCGATACA
1 TGTATCGATACA
44607 TTTTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:44688 original size:13 final size:13
Alignment explanation
Indices: 44670--44694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44660 ATTACTCAAA
44670 TGTATCGATACAT
1 TGTATCGATACAT
44683 TGTATCGATACA
1 TGTATCGATACA
44695 CCAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:44831 original size:52 final size:52
Alignment explanation
Indices: 44703--44823 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
44693 CACCAATCTT
*
44703 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* *
44755 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
44807 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
44824 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:49089 original size:18 final size:18
Alignment explanation
Indices: 49050--49104 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
49040 AGTTATCTTG
*
49050 TTTTTATTATTTTTTTC-GA
1 TTTTT-TTA-TTTTTTCATA
49069 TTTTTTTATTTTTTCATA
1 TTTTTTTATTTTTTCATA
*
49087 TTTTTTTGTTTTTGTCAT
1 TTTTTTTATTTTT-TCAT
49105 TTTATGACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 7 0.22
18 16 0.50
19 9 0.28
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTTTATTTTTTCATA
Found at i:49350 original size:8 final size:8
Alignment explanation
Indices: 49325--49367 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
49315 TATTCTTTCA
49325 ATTTTTTT
1 ATTTTTTT
49333 ATTTTATTTT
1 A-TTT-TTTT
*
49343 GTTTTTTT
1 ATTTTTTT
*
49351 ATTTTTGT
1 ATTTTTTT
49359 ATTTTTTT
1 ATTTTTTT
49367 A
1 A
49368 AATAAATCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 19 0.66
9 6 0.21
10 4 0.14
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (8 bp):
ATTTTTTT
Found at i:49941 original size:20 final size:19
Alignment explanation
Indices: 49903--49942 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49893 TGCTTTACTT
*
49903 TAAATTAATATTTTTTAAC
1 TAAATTAATATTATTTAAC
*
49922 TAAATTGATATTCATTTAAC
1 TAAATTAATATT-ATTTAAC
49942 T
1 T
49943 TATGAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (19 bp):
TAAATTAATATTATTTAAC
Found at i:58610 original size:11 final size:11
Alignment explanation
Indices: 58594--58618 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58584 ATCACATGAT
58594 TAAAATTTTGA
1 TAAAATTTTGA
58605 TAAAATTTTGA
1 TAAAATTTTGA
58616 TAA
1 TAA
58619 TTTATTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
TAAAATTTTGA
Found at i:59168 original size:17 final size:19
Alignment explanation
Indices: 59138--59174 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
59128 ATTTTCTCTA
*
59138 TTGTTTTCATTTATTTATT
1 TTGTTTTCATTTATGTATT
59157 TTGTTTT-A-TTATGTATT
1 TTGTTTTCATTTATGTATT
59174 T
1 T
59175 GATATGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.73
Consensus pattern (19 bp):
TTGTTTTCATTTATGTATT
Found at i:68627 original size:2 final size:2
Alignment explanation
Indices: 68622--68655 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
68612 TTAGAGACAT
68622 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
68656 AGAAAAAGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:75339 original size:15 final size:15
Alignment explanation
Indices: 75316--75352 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
75306 ATTAGTTAAA
75316 ATATGTAAAATTTTAT
1 ATAT-TAAAATTTTAT
*
75332 TTATTAAAATTTTAT
1 ATATTAAAATTTTAT
75347 ATATTA
1 ATATTA
75353 TTAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 16 0.84
16 3 0.16
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
ATATTAAAATTTTAT
Found at i:75652 original size:30 final size:28
Alignment explanation
Indices: 75618--75707 Score: 92
Period size: 30 Copynumber: 3.1 Consensus size: 28
75608 TTTATATTTA
*
75618 TTAATTTATTTTGTAAATATAACTATAATT
1 TTAATTTATTTT-T-AATATAAATATAATT
75648 TTAA-TTATTATTTAATATAAATATAATTTT
1 TTAATTTATT-TTTAATATAAATATAA--TT
* * *
75678 TTTATTTAATTTTAATACAAATATAATT
1 TTAATTTATTTTTAATATAAATATAATT
75706 TT
1 TT
75708 TTAATTATTA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
28 16 0.31
29 6 0.12
30 26 0.50
31 4 0.08
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (28 bp):
TTAATTTATTTTTAATATAAATATAATT
Found at i:75666 original size:28 final size:28
Alignment explanation
Indices: 75633--75722 Score: 101
Period size: 30 Copynumber: 3.1 Consensus size: 28
75623 TTATTTTGTA
*
75633 AATATAACTATAATTTTAATTATTATTT
1 AATATAAATATAATTTTAATTATTATTT
*
75661 AATATAAATATAATTTT-TTTATTTAATTTT
1 AATATAAATATAATTTTAATTA-TT-A-TTT
*
75691 AATACAAATATAATTTTTTAATTATTATTT
1 AATATAAATATAA--TTTTAATTATTATTT
75721 AA
1 AA
75723 CATGTTCCTT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
27 3 0.06
28 18 0.35
29 1 0.02
30 20 0.38
31 1 0.02
32 6 0.12
33 3 0.06
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
AATATAAATATAATTTTAATTATTATTT
Found at i:75722 original size:30 final size:30
Alignment explanation
Indices: 75646--75722 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
75636 ATAACTATAA
*
75646 TTTTAATTATTATTTAATATAAATATAATT
1 TTTTAATTATTATTTAATACAAATATAATT
* *
75676 TTTTTATT-TAATTTTAATACAAATATAATT
1 TTTTAATTATTA-TTTAATACAAATATAATT
75706 TTTTAATTATTATTTAA
1 TTTTAATTATTATTTAA
75723 CATGTTCCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.05
30 36 0.90
31 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTAATTATTATTTAATACAAATATAATT
Found at i:76364 original size:30 final size:27
Alignment explanation
Indices: 76329--76389 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 27
76319 TATATAAATT
*
76329 TAAAATATTTTAAATATAATTATGATATA-A
1 TAAAATA-TATAAA-ATAA-TATGA-ATACA
76359 TAAAATATATAAAATAATATGAATACA
1 TAAAATATATAAAATAATATGAATACA
76386 TAAA
1 TAAA
76390 TTTATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.10
27 10 0.34
28 4 0.14
29 5 0.17
30 7 0.24
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (27 bp):
TAAAATATATAAAATAATATGAATACA
Found at i:76868 original size:17 final size:19
Alignment explanation
Indices: 76846--76881 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
76836 TAATTAAATT
76846 TTAATAAA-AAT-ATTTTA
1 TTAATAAATAATAATTTTA
76863 TTAATAAATAATAATTTTA
1 TTAATAAATAATAATTTTA
76882 ATTTAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 3 0.18
19 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAATAAATAATAATTTTA
Found at i:76887 original size:21 final size:18
Alignment explanation
Indices: 76845--76888 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 18
76835 ATAATTAAAT
76845 TTTAATAAAAATATTTTA
1 TTTAATAAAAATATTTTA
76863 -TTAATAAATAATAATTTTAA
1 TTTAATAAA-AAT-ATTTT-A
76883 TTTAAT
1 TTTAAT
76889 TTAATTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.36
18 3 0.14
19 5 0.23
20 1 0.05
21 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAATAAAAATATTTTA
Found at i:76971 original size:2 final size:2
Alignment explanation
Indices: 76964--76991 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
76954 AACCTGTGTC
76964 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76992 TCGATTATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77725 original size:17 final size:16
Alignment explanation
Indices: 77703--77756 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
77693 TATTTAAGTT
77703 ATTTTATATTTATATAA
1 ATTTTATA-TTATATAA
77720 ATTTTA-A-TATAT-A
1 ATTTTATATTATATAA
77733 ATCATTTATATTATATAA
1 AT--TTTATATTATATAA
77751 ATTTTA
1 ATTTTA
77757 AGATATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 3 0.09
14 5 0.16
15 4 0.12
16 6 0.19
17 11 0.34
18 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTATATTATATAA
Found at i:77732 original size:14 final size:14
Alignment explanation
Indices: 77713--77763 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
77703 ATTTTATATT
77713 TATATAAATTTTAA
1 TATATAAATTTTAA
*
77727 TATATAATCATTTATAT
1 TATATAA--ATTT-TAA
77744 TATATAAATTTTAA
1 TATATAAATTTTAA
*
77758 GATATA
1 TATATA
77764 TTTTCACACC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 14 0.45
15 4 0.13
16 4 0.13
17 9 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:78056 original size:3 final size:3
Alignment explanation
Indices: 78048--78088 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
78038 TGAAAATTTG
78048 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
78089 CTAGTACTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:79673 original size:2 final size:2
Alignment explanation
Indices: 79659--79696 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
79649 ATGTCAGACA
* *
79659 AT AT AT A- AC AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
79697 ACAATTAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:87009 original size:29 final size:29
Alignment explanation
Indices: 86965--87022 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
86955 TTGGGAAGTC
*
86965 AGTGAAAGCTATTTTCTATTTTAGCCTTA
1 AGTGAAAGCTACTTTCTATTTTAGCCTTA
86994 AGTGAAAGCTACTTTCTATTTTAGCCTTA
1 AGTGAAAGCTACTTTCTATTTTAGCCTTA
87023 GTCAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (29 bp):
AGTGAAAGCTACTTTCTATTTTAGCCTTA
Found at i:88610 original size:21 final size:21
Alignment explanation
Indices: 88586--88629 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
88576 ATCATATTTA
88586 TTTTATAAT-ATAATTATATGT
1 TTTTATAATAATAATTATA-GT
*
88607 TTTTATAATAATAGTTATAGT
1 TTTTATAATAATAATTATAGT
88628 TT
1 TT
88630 AACTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTTATAATAATAATTATAGT
Found at i:89534 original size:15 final size:18
Alignment explanation
Indices: 89500--89535 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
89490 ATATTTTTGT
89500 ATATATTAATAATATTTA
1 ATATATTAATAATATTTA
89518 ATAT-TTAA-AAT-TTTA
1 ATATATTAATAATATTTA
89533 ATA
1 ATA
89536 CTTATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.39
16 3 0.17
17 4 0.22
18 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATATTAATAATATTTA
Found at i:94648 original size:6 final size:6
Alignment explanation
Indices: 94637--94669 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
94627 CCCCCTTTAT
94637 AAAAA- AAAAA- AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
94670 TAGCTTCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:94992 original size:17 final size:18
Alignment explanation
Indices: 94966--95011 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
94956 GATGAGGATA
*
94966 TAGAAAAAAAAAAT-TAT
1 TAGAATAAAAAAATATAT
*
94983 TAGATTAAAAAAATATAT
1 TAGAATAAAAAAATATAT
*
95001 TTGAATAAAAA
1 TAGAATAAAAA
95012 TAAAATTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (18 bp):
TAGAATAAAAAAATATAT
Found at i:94994 original size:19 final size:19
Alignment explanation
Indices: 94970--95018 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
94960 AGGATATAGA
*
94970 AAAAAAAAATTATTAGATT
1 AAAAAAAAATTATTAGAAT
* *
94989 AAAAAAATA-TATTTGAAT
1 AAAAAAAAATTATTAGAAT
95007 AAAAATAAAATT
1 AAAAA-AAAATT
95019 CATTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 12 0.50
19 11 0.46
20 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAAAAAATTATTAGAAT
Found at i:98061 original size:2 final size:2
Alignment explanation
Indices: 98054--98092 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
98044 CAGAAACCAT
98054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
98093 GATTGCTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112036 original size:2 final size:2
Alignment explanation
Indices: 112029--112053 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
112019 ATATCAAGTT
112029 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
112054 TTACACACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:112277 original size:18 final size:21
Alignment explanation
Indices: 112222--112274 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
112212 TGAAATTTAT
112222 TATTATAATAATAAAATTAAA
1 TATTATAATAATAAAATTAAA
112243 TATTATAATAATAAAATTAAA
1 TATTATAATAATAAAATTAAA
112264 T-TTAGTAATAA
1 TATTA-TAATAA
112275 AATATATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 3 0.10
21 28 0.90
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TATTATAATAATAAAATTAAA
Found at i:113935 original size:20 final size:21
Alignment explanation
Indices: 113898--113936 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
113888 TTTTAGATAC
* *
113898 AAAATATATTTAATAAATATA
1 AAAATATATATAAAAAATATA
113919 AAAATA-ATATAAAAAATA
1 AAAATATATATAAAAAATA
113937 ATACGTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATATATATAAAAAATATA
Found at i:118385 original size:28 final size:27
Alignment explanation
Indices: 118312--118410 Score: 135
Period size: 28 Copynumber: 3.6 Consensus size: 27
118302 ATAAAAATGG
* *
118312 GGGTTGGAATATCCTCTCGAAAATAAC
1 GGGTTAGAGTATCCTCTCGAAAATAAC
*
118339 GGGTTGGAGTATCCTCTCGAAAATAAC
1 GGGTTAGAGTATCCTCTCGAAAATAAC
*
118366 GGGATTAGAGTATCCCCTCGAAAATAAC
1 GGG-TTAGAGTATCCTCTCGAAAATAAC
*
118394 AGGGTTAAAGTATCCTC
1 -GGGTTAGAGTATCCTC
118411 GATGGTAGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 29 0.45
28 33 0.51
29 3 0.05
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
GGGTTAGAGTATCCTCTCGAAAATAAC
Found at i:118458 original size:79 final size:79
Alignment explanation
Indices: 118373--118775 Score: 399
Period size: 79 Copynumber: 5.1 Consensus size: 79
118363 AACGGGATTA
** * * * *
118373 GAGTATCCCCTCGAAAATAACAGGGTTAAAGTATCCTCGATGGTAGAAAATCGATGTTTTAGACA
1 GAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAATCAATGTTTTAGAAA
118438 TAAAGA-CGGGGTTG
66 TAAA-ATCGGGGTTG
* * *
118452 GAGTATCCCCTCGGAAATAACAAGGTTGGAGTATCCCCAATGGTAAAAAATCAATGTTTTAGAAA
1 GAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAATCAATGTTTTAGAAA
118517 TAAAATCGGGGTTG
66 TAAAATCGGGGTTG
* * *
118531 GAGTATTCCCTC-AAAACTAATAGGGTTGGAGTATCCCCGATGGTAAAAAATCAATATTTTAGAA
1 GAGTATCCCCTCGAAAA-TAACAGGGTTGGAGTATCCCCGATGGTAAAAAATCAATGTTTTAGAA
118595 ATAAAATCGGGGTTG
65 ATAAAATCGGGGTTG
* * * * * *
118610 GAGTATCCCCTCAAAAATAACGGGGTTGGAGTACATCCCCCGAT-G-AAAAATTTAATATTTTGG
1 GAGTATCCCCTCGAAAATAACAGGGTTGGAGT--AT-CCCCGATGGTAAAAAATCAATGTTTTAG
* *
118673 AGATAAAAAT-GAGGTTG
63 AAAT-AAAATCGGGGTTG
* * * * * * ***
118690 GAGTATCCCTTCGGAAACAAC-GAGGTTGGAGTATCTCTGATGGTAGAAAATTGGTGTTTTA-AG
1 GAGTATCCCCTCGAAAATAACAG-GGTTGGAGTATCCCCGATGGTAAAAAATCAATGTTTTAGA-
* *
118753 AATAAAACCAGGGTTG
64 AATAAAATCGGGGTTG
118769 GA-TATCC
1 GAGTATCC
118776 TCGATGGTGG
Statistics
Matches: 273, Mismatches: 39, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
77 5 0.02
78 17 0.06
79 182 0.67
80 54 0.20
81 8 0.03
82 7 0.03
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
GAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAATCAATGTTTTAGAAA
TAAAATCGGGGTTG
Found at i:118789 original size:50 final size:51
Alignment explanation
Indices: 118713--118809 Score: 128
Period size: 50 Copynumber: 1.9 Consensus size: 51
118703 GAAACAACGA
* *
118713 GGTTGGAGTATCTCTGATGGTAGAAAATTGGTGTTTTA-AGAATAAAACCAG
1 GGTTGGAGTATCTCTGATGGTAGAAAATTAGTATTTTAGA-AATAAAACCAG
*
118764 GGTTGGA-TATC-CTCGATGGTGGAAAATTAGTATTTTAGAAATAAAA
1 GGTTGGAGTATCTCT-GATGGTAGAAAATTAGTATTTTAGAAATAAAA
118810 GCATCAATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 2 0.05
50 31 0.76
51 8 0.20
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (51 bp):
GGTTGGAGTATCTCTGATGGTAGAAAATTAGTATTTTAGAAATAAAACCAG
Found at i:123303 original size:21 final size:20
Alignment explanation
Indices: 123261--123311 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
123251 ACTTTACATA
*
123261 ATTAAAACACAAAATTACAC
1 ATTAAAACACAAAATCACAC
123281 ATTAGAAACATCAAAATCA-AC
1 ATTA-AAACA-CAAAATCACAC
*
123302 ATAAAAACAC
1 ATTAAAACAC
123312 TTCCAACTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 9 0.33
21 10 0.37
22 7 0.26
ACGTcount: A:0.61, C:0.20, G:0.02, T:0.18
Consensus pattern (20 bp):
ATTAAAACACAAAATCACAC
Found at i:127008 original size:15 final size:15
Alignment explanation
Indices: 126961--127070 Score: 80
Period size: 15 Copynumber: 7.5 Consensus size: 15
126951 ACCTTTGGCG
*
126961 AAAGTACTGGTGCCA
1 AAAGTACTTGTGCCA
* * * *
126976 GAGGTACCTATG-CA
1 AAAGTACTTGTGCCA
126990 AAAGTACTTGTGCCA
1 AAAGTACTTGTGCCA
*
127005 AAAGTACTTGTGTCA
1 AAAGTACTTGTGCCA
* * * *
127020 AAGGTACCTATG-TA
1 AAAGTACTTGTGCCA
*
127034 AAAGTACTTGTGTCA
1 AAAGTACTTGTGCCA
* *
127049 AAAGTACCTATGCCA
1 AAAGTACTTGTGCCA
*
127064 AAGGTAC
1 AAAGTAC
127071 CTATAAGCTC
Statistics
Matches: 71, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
14 20 0.28
15 51 0.72
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (15 bp):
AAAGTACTTGTGCCA
Found at i:127011 original size:29 final size:30
Alignment explanation
Indices: 126979--127074 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 30
126969 GGTGCCAGAG
* *
126979 GTACCTATG-CAAAAGTACTTGTGCCAAAA
1 GTACCTATGTCAAAAGTACCTATGCCAAAA
* * * *
127008 GTACTTGTGTCAAAGGTACCTATG-TAAAA
1 GTACCTATGTCAAAAGTACCTATGCCAAAA
* * *
127037 GTACTTGTGTCAAAAGTACCTATGCCAAAG
1 GTACCTATGTCAAAAGTACCTATGCCAAAA
127067 GTACCTAT
1 GTACCTAT
127075 AAGCTCAAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
29 34 0.63
30 20 0.37
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (30 bp):
GTACCTATGTCAAAAGTACCTATGCCAAAA
Found at i:127011 original size:44 final size:43
Alignment explanation
Indices: 126961--127074 Score: 156
Period size: 44 Copynumber: 2.6 Consensus size: 43
126951 ACCTTTGGCG
*
126961 AAAGTACTGGTGCCAGAGGTACCTATGCAAAAGTACTTGTGCCA
1 AAAGTACT-GTGCCAAAGGTACCTATGCAAAAGTACTTGTGCCA
* * *
127005 AAAGTACTTGTGTCAAAGGTACCTATGTAAAAGTACTTGTGTCA
1 AAAGTAC-TGTGCCAAAGGTACCTATGCAAAAGTACTTGTGCCA
*
127049 AAAGTACCTATGCCAAAGGTACCTAT
1 AAAGTA-CTGTGCCAAAGGTACCTAT
127075 AAGCTCAAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 60 0.97
45 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (43 bp):
AAAGTACTGTGCCAAAGGTACCTATGCAAAAGTACTTGTGCCA
Found at i:128529 original size:23 final size:24
Alignment explanation
Indices: 128503--128555 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 24
128493 CAAATTTTTA
128503 ATTTAATGCTCCCCCTTAAT-AAT
1 ATTTAATGCTCCCCCTTAATAAAT
* *
128526 ATTT--TTCTCCCTCTTAATAAAAT
1 ATTTAATGCTCCCCCTTAAT-AAAT
128549 ATTTAAT
1 ATTTAAT
128556 ATTTTCCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 12 0.50
23 11 0.46
25 1 0.04
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTTAATGCTCCCCCTTAATAAAT
Found at i:131117 original size:20 final size:20
Alignment explanation
Indices: 131092--131139 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
131082 CTAGCCATTT
131092 CTTTCAACGTCTGATTTTTC
1 CTTTCAACGTCTGATTTTTC
*
131112 CTTTCAATGTCTGATTTTTC
1 CTTTCAACGTCTGATTTTTC
131132 CTTTCAAC
1 CTTTCAAC
131140 AACTCCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.17, C:0.25, G:0.08, T:0.50
Consensus pattern (20 bp):
CTTTCAACGTCTGATTTTTC
Found at i:132520 original size:12 final size:13
Alignment explanation
Indices: 132503--132531 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
132493 GTGAAAATCA
132503 AAAATTAAAATT-
1 AAAATTAAAATTC
132515 AAAATTAAAATTC
1 AAAATTAAAATTC
132528 AAAA
1 AAAA
132532 AAAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATTAAAATTC
Found at i:132588 original size:35 final size:35
Alignment explanation
Indices: 132540--132805 Score: 471
Period size: 35 Copynumber: 7.6 Consensus size: 35
132530 AAAAAATAAT
* * *
132540 AATA-AAAAATGAAGGCATGAAATGATGGGCAAGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
132574 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
132609 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
*
132644 AATATAAAAATGAAGGCATGGATTGACGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
*
132679 AATATAAAAATGAAGGCATGGAATGACGCGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
132714 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
*
132749 AATATAAAAATGAAGGCATGGAATGATGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
132784 AATATAAAAATGAAGGCATGGA
1 AATATAAAAATGAAGGCATGGA
132806 CAAAAATGAG
Statistics
Matches: 223, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
34 4 0.02
35 219 0.98
ACGTcount: A:0.44, C:0.08, G:0.30, T:0.18
Consensus pattern (35 bp):
AATATAAAAATGAAGGCATGGAATGACGGGCATGG
Found at i:134121 original size:51 final size:51
Alignment explanation
Indices: 134062--134164 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
134052 TTATTTCCGA
*
134062 GGGGATACTCCAACCTCGGTTTTATCTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATC
*
134113 GGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCATTTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATC
134164 G
1 G
134165 AAGATTCTTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATC
Found at i:134178 original size:51 final size:51
Alignment explanation
Indices: 134065--134181 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
134055 TTTCCGAGGG
* **
134065 GATACTCCAACCTCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGGG
1 GATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGAA
*
134116 GATACTCCAACCCCGGTTTTATCTCTAAAACATCATTTTTTCATAATCGAA
1 GATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGAA
* *
134167 GATTCTTCAACCCCG
1 GATACTCCAACCCCG
134182 TTATTTCTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.34
Consensus pattern (51 bp):
GATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGAA
Found at i:134198 original size:79 final size:79
Alignment explanation
Indices: 134113--134576 Score: 714
Period size: 79 Copynumber: 5.9 Consensus size: 79
134103 TTTCATAATC
* * ** * *
134113 GGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCATTTTTTCATAATCGAAGATTCTTCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
134178 CCCGTTATTTCTGA
66 CCCGTTATTTCTGA
* *
134192 GGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
134257 CCCGTTATTTTTGA
66 CCCGTTATTTCTGA
134271 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
134336 CCCGTTATTTCCGA
66 CCCGTTATTTCTGA
* *
134350 GGGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
134415 CCCGTTATTT-TCGA
66 CCCGTTATTTCT-GA
* * * * * * * *
134429 GGGGATACTCCAACTCTGATTTTAGTTCCAAAACACCAAATTTTCATAATCAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
134494 CCCGTTATTTCCGA
66 CCCGTTATTTCTGA
*
134508 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
134573 CCCG
66 CCCG
134577 ATTTTATTTT
Statistics
Matches: 351, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
79 351 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTCTGA
Found at i:134584 original size:51 final size:50
Alignment explanation
Indices: 134508--134654 Score: 161
Period size: 52 Copynumber: 2.8 Consensus size: 50
134498 TTATTTCCGA
*
134508 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTT-CATAATC
1 GGGGATACTCTAACCCC-GTTTTATTTCTAAAACA-CAATTTTTCCATAATC
* * **
134559 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACACCGTTTTTCCATAATC
1 GGGGATACTCTAACCCCG-TTTTA-TTTCTAAAACACAATTTTTCCATAATC
* * *
134611 GGGGATACTCTAGCCCCGTTGTTATCTCTAAAATACTAATTTTT
1 GGGGATACTCTAACCCCGTT-TTATTTCTAAAACAC-AATTTTT
134655 TCTCGTCGGG
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
50 1 0.01
51 37 0.47
52 41 0.52
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (50 bp):
GGGGATACTCTAACCCCGTTTTATTTCTAAAACACAATTTTTCCATAATC
Found at i:142932 original size:55 final size:54
Alignment explanation
Indices: 142845--143240 Score: 425
Period size: 55 Copynumber: 7.0 Consensus size: 54
142835 TTTTCCTTTC
*
142845 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTCTC
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCCTCTT
* * * *
142900 ACAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGATCATGACGCCTCTT
1 AAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACGCCTCTT
* * * * *
142955 AAAGCCCACACAGGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACATTTTTTCTTTTT
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGAC------GCCTCTT
* *
143016 AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCCT-TT
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCCTCTT
* *
143070 CAAAGCCCAAACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
1 -AAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGACGCCTCTT
* * * *
143126 AAAGCCCACACAAGTTGGTGGCACCTTCAATCCTCAAAAAGTAGGACGCTTTCTCTTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGC---CTC---TT
* *
143186 AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCATGACGCTCTCT
1 AAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGACGC-CTCT
143241 CCTTTCGCCT
Statistics
Matches: 287, Mismatches: 36, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
54 26 0.09
55 158 0.55
56 5 0.02
57 2 0.01
59 4 0.01
60 28 0.10
61 64 0.22
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (54 bp):
AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCCTCTT
Found at i:143076 original size:116 final size:110
Alignment explanation
Indices: 142839--143235 Score: 449
Period size: 116 Copynumber: 3.5 Consensus size: 110
142829 ACGCCTTTTT
* * * *
142839 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTCTCACAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAG
* * * *
142904 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGATCATGACG
66 CCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATG
* * *
142949 CCTCTT-AAAGCCCACACAGGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACATTTTTTCTT
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAC------GCCT
143013 TTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATG
59 TTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATG
* * *
143065 CCTTTCAAAGCCCAAACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAG
** * * * *
143130 CCCACACAAGTTGGTGGCA-CCTTCAATCCTCAAAAAGTAGGACGCTTT
66 CCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGA----TG
* *
143178 CTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCATGACGC
1 C-C-TTTCAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGGACGC
143236 TCTCTCCTTT
Statistics
Matches: 244, Mismatches: 28, Indels: 25
0.82 0.09 0.08
Matches are distributed among these distances:
109 18 0.07
110 77 0.32
111 2 0.01
113 2 0.01
114 4 0.02
115 47 0.19
116 94 0.39
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (110 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAG
CCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATG
Found at i:143092 original size:171 final size:169
Alignment explanation
Indices: 142806--144203 Score: 1197
Period size: 171 Copynumber: 8.1 Consensus size: 169
142796 CTCTTTTAGC
*
142806 CCTTCCAGTCCTCAAAGAGTAGGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
1 CCTTCCAGTCCTCAAAGAGCAGGA--CCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* *
142871 TTCAGTCCTCAAAGAGCAGGACGCCTCTCACAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
64 TTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTC
* * *
142936 AAAGATCATGACGCCTCTTAAAGCCCACACAGGTTGGTGGCA
128 AAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCA
* * * **
142978 CCTTCCAGTCCTCAAAGAGCAGGACATTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTT
1 CCTTCCAGTCCTCAAAGAGCAGGAC-CTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* *
143043 TCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCAAACAAGTTGGTGGCACTTTTCAGTCCTCA
65 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCA
*
143108 AAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
129 AAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
143149 CCTT-CAATCCTCAAAAAGTAGGACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
1 CCTTCCAGTCCTCAAAGAGCAGGAC-CTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * * *
143212 CCTAGTCCTCAAAGAGCATGACG-C--T-----CTCTC-C---TT--TCGCCTTTT-TGTCCTCA
65 TC-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCA
* * *
143262 AAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCTC
129 AAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGC-A
* * * *
143304 CCTT-TATTCCTCAAAGAGCAGGACGCCTTTTTCCTTTCAAAGCCTACACAAATTGGTGGCACCC
1 CCTTCCAGTCCTCAAAGAGCAGGA--CCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-CC
*
143368 TTT-AGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTGAAAGCCCACACAAGTTGGTGGCACCTTT
63 TTTCAGTCCTCAAAGAGCAGGACGCC--TTT-C----AAAGCCCACACAAGTTGGTGGCA-TTTT
*
143432 CAGTCCTCAAAGAGCAGGACGCCTCTCAAAGCCCACACAAGTTGGTGGCA
120 CAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCA
** * * *
143482 TTTTCCAGTCCTTAAAGAGCAGGA-C----GCCTCTT-AAAGCCCACACAGGTTGGTGGCACCTT
1 CCTTCCAGTCCTCAAAGAGCAGGACCTTTTTCCT-TTCAAAGCCCACACAAGTTGGTGGCACCTT
* * *
143541 CCGGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAG
65 TCAGTCCTCAAAGAGCAGGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCA-TTTTCAG
* *
143606 TCCTAAAAGAGCAGGACGTCT-TTCAAAGCCCACACAAGTTGGTGGCA
123 TCCTCAAAGAGCAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCA
* ** * *
143653 CTTTTTAGTCCTCAAAGAGCAGGA-C----GCCTTTTAAAGCCCACACAAGTTAGGTGGCACC-T
1 CCTTCCAGTCCTCAAAGAGCAGGACCTTTTTCCTTTCAAAGCCCACACAAGTT-GGTGGCACCTT
* * *
143712 TCAGTCCTCAAAAAGTAGGACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGC-TCCCTTT-
65 TCAGTCCTCAAAGAGCAGGACG----C-C-TTTCAAAGCCCACACAAGTTGGTGGCAT---TTTC
* *
143775 ATTCCTCAAAGAGCAAGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
121 AGTCCTCAAAGAGCAGGACGCC----T-C-TT-AAAGCCCACACAAGTTGGTGGCA
* * *
143831 CCCTT-TAGTCCTTAAAGAGCAGGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGTACC
1 -CCTTCCAGTCCTCAAAGAGCAGGA--CCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* * * *
143895 TTTCAGTCCTCAAAGAGCAGGACGCCTCTT-AAAGCCCACATAGGTTGGTGGCACCTTCCAGTCC
63 TTTCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCC
* *
143959 TCAAAGAGCAGGACACCTTTTCTTTTTACAGCCCACACAAGTTGGTGGCA
126 TCAAAGAGCAGGACGCC---TC---TTAAAGCCCACACAAGTTGGTGGCA
** ** * * * * *
144009 TTTTTTACTCCTAAAAGAGCAAGA-C----GCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
1 CCTTCCAGTCCTCAAAGAGCAGGACCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* **
144069 CAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
66 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAA
* * * * *
144134 AAGTAGGACACTTTGTCTTTTTAAAGCCCACACAAGTTGGTGACA
131 GAGCAGG--AC---G-CCTCTTAAAGCCCACACAAGTTGGTGGCA
144179 -CTTCCTAGTCCTCAAAGAGCAGGAC
1 CCTTCC-AGTCCTCAAAGAGCAGGAC
144204 GCTCTCTCCT
Statistics
Matches: 1022, Mismatches: 126, Indels: 157
0.78 0.10 0.12
Matches are distributed among these distances:
154 46 0.05
155 23 0.02
156 52 0.05
157 2 0.00
158 5 0.00
161 2 0.00
162 2 0.00
167 1 0.00
169 7 0.01
170 131 0.13
171 391 0.38
172 85 0.08
173 3 0.00
175 5 0.00
176 7 0.01
177 6 0.01
178 93 0.09
179 106 0.10
180 3 0.00
181 2 0.00
184 8 0.01
185 42 0.04
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (169 bp):
CCTTCCAGTCCTCAAAGAGCAGGACCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAA
GAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCA
Found at i:143333 original size:55 final size:54
Alignment explanation
Indices: 143255--144205 Score: 853
Period size: 55 Copynumber: 16.4 Consensus size: 54
143245 TCGCCTTTTT
* *
143255 GTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCTCCCTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGC-ACCTTTA
* * *
143310 TTCCTCAAAGAGCAGGACGCCTTTTTCCTTTCAAAGCCTACACAAATTGGTGGCACCCTTTA
1 GTCCTCAAAGAGCAGGACGCC----T--TTT-AAAGCCCACACAAGTTGGTGGCA-CCTTTA
143372 GTCCTCAAAGAGCAGGACGCCTTTTTCCTTTGAAAGCCCACACAAGTTGGTGGCACCTTTCA
1 GTCCTCAAAGAGCAGGACGCC----T--TTT-AAAGCCCACACAAGTTGGTGGCACCTTT-A
* * *
143434 GTCCTCAAAGAGCAGGACGCCTCTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT--A
* * * **
143489 GTCCTTAAAGAGCAGGACGCCTCTTAAAGCCCACACAGGTTGGTGGCACCTTCCG
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TA
* **
143544 GTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCA
1 GTCCTCAAAGAGCAGGAC-GC----C-TTTTAAAGCCCACACAAGTTGGTGGCACCTTT-A
* * * *
143605 GTCCTAAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTTA
*
143660 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTAGGTGGCACCTTCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTT-GGTGGCACCTTTA
* * *
143715 GTCCTCAAAAAGTAGGACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCTCCCTTTA
1 GTCCTCAAAGAGCAGGACG----C-C-TTTTAAAGCCCACACAAGTTGGTGGC-ACCTTTA
* *
143776 TTCCTCAAAGAGCAAGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTA
1 GTCCTCAAAGAGCAGGACGCC----T--TTT-AAAGCCCACACAAGTTGGTGGCA-CCTTTA
* *
143838 GTCCTTAAAGAGCAGGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGTACCTTTCA
1 GTCCTCAAAGAGCAGGACGCC----T--TTT-AAAGCCCACACAAGTTGGTGGCACCTTT-A
* * * *
143900 GTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACATAGGTTGGTGGCACCTTCCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TA
* * **
143955 GTCCTCAAAGAGCAGGACACCTTTTCTTTTTACAGCCCACACAAGTTGGTGGCATTTTTTA
1 GTCCTCAAAGAGCAGGAC-GC----C-TTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTA
* * * * *
144016 CTCCTAAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-A
*
144071 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTA
* * * *
144125 GTCCTCAAAAAGTAGGACACTTTGTCTTTTTAAAGCCCACACAAGTTGGTGACA-CTTCCTA
1 GTCCTCAAAGAGCAGG--AC---G-CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--TA
144186 GTCCTCAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGACGC
144206 TCTCTCCTTT
Statistics
Matches: 760, Mismatches: 83, Indels: 106
0.80 0.09 0.11
Matches are distributed among these distances:
54 22 0.03
55 308 0.41
56 25 0.03
57 1 0.00
58 2 0.00
59 10 0.01
60 37 0.05
61 154 0.20
62 201 0.26
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (54 bp):
GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTA
Found at i:144304 original size:55 final size:58
Alignment explanation
Indices: 144218--144446 Score: 267
Period size: 60 Copynumber: 3.9 Consensus size: 58
144208 TCTCCTTTCG
* *
144218 CCTTTTTGTCCTCAAAGAGCAGGACG---TCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTTTCAAAGCCCACACAAGTTGGTGGCA
*
144273 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTCAAAGCCCACAC-A-TTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCC---TT-CTTTCAAAGCCCACACAAGTTGGTGGCA
* *
144333 CCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCC---TT-CTTTCAAAGCCCACACAAGTTGGTGGCA
* *
144395 CCTTTCAGTCCTCAAAGACCAGGACGCC-TC--TCAAAGCCCACACAAGTTGGTG
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTTTCAAAGCCCACACAAGTTGGTG
144447 ACACTTTCCT
Statistics
Matches: 155, Mismatches: 10, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
55 47 0.30
57 1 0.01
58 1 0.01
60 56 0.36
61 3 0.02
62 47 0.30
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (58 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:144345 original size:154 final size:153
Alignment explanation
Indices: 144071--144356 Score: 416
Period size: 154 Copynumber: 1.9 Consensus size: 153
144061 GCACTTTTCA
144071 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAAA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAAA
* * * *
144136 GTAGGACACTTTGTCTTTTTAAAGCCCACACAAGTTGGTGACACTTCCTAGTCCTCAAAGAGCAG
66 GCAGGACACTTTGTCCTTTCAAAGCCCACACAAGTTGATGACACTT-CTAGTCCTCAAAGAGCAG
144201 GACGCTCTCTCCTTTCGCCTTTTT
130 GACGCTCTCTCCTTTCGCCTTTTT
* * *
144225 GTCCTCAAAGAGCAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAA
* * *
144290 AGCAGGACGCCTTTTTCCTTTCAAAGCCCACAC-A-TTGATGGCACCCTT-TAGTCCTCAAAGAG
65 AGCAGGAC-ACTTTGTCCTTTCAAAGCCCACACAAGTTGAT-G-ACACTTCTAGTCCTCAAAGAG
144352 CAGGA
127 CAGGA
144357 TGCCTTTTTC
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
154 72 0.61
155 21 0.18
156 25 0.21
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (153 bp):
GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAAA
GCAGGACACTTTGTCCTTTCAAAGCCCACACAAGTTGATGACACTTCTAGTCCTCAAAGAGCAGG
ACGCTCTCTCCTTTCGCCTTTTT
Found at i:144352 original size:60 final size:62
Alignment explanation
Indices: 144245--144423 Score: 283
Period size: 60 Copynumber: 2.9 Consensus size: 62
144235 AGCAGGACGT
* *
144245 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC
* *
144307 CTTTCAAAGCCCACAC-A-TTGATGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC
*
144367 CTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTCAGTCCTCAAAGACCAGGACGCCT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCCTTT-AGTCCTCAAAGAGCAGGACGCCT
144424 CTCAAAGCCC
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
60 56 0.52
61 7 0.07
62 44 0.41
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (62 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC
Found at i:144977 original size:7 final size:6
Alignment explanation
Indices: 144951--144985 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
144941 GTGAAAATCA
*
144951 AAAATT AAAATT AAAATT AAAATT TAAATT CAAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT -AAAA
144986 AAAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 23 0.88
7 3 0.12
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:145042 original size:35 final size:35
Alignment explanation
Indices: 144994--145329 Score: 629
Period size: 35 Copynumber: 9.6 Consensus size: 35
144984 AAAAAATAAT
* *
144994 AATA-AAAAATGAAGGCATGAAATGATGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
145028 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
145063 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
*
145098 AATATAAAAATGAAGGCATGGAATGACGAGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
*
145133 AATATAAAAATAAAGGCATGGAATGACGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
145168 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
145203 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
145238 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
145273 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGACGGGCATGG
145308 AATATAAAAATGAAGGCATGGA
1 AATATAAAAATGAAGGCATGGA
145330 CGAAAATGAG
Statistics
Matches: 295, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
34 4 0.01
35 291 0.99
ACGTcount: A:0.45, C:0.08, G:0.30, T:0.17
Consensus pattern (35 bp):
AATATAAAAATGAAGGCATGGAATGACGGGCATGG
Found at i:146582 original size:28 final size:27
Alignment explanation
Indices: 146517--146586 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
146507 TTCATAATCA
*
146517 GGGATACTCTAACCCCGTTAATTATCG
1 GGGATACTCCAACCCCGTTAATTATCG
146544 GGGATACTCCAACCCCGTT-ATT-TCCG
1 GGGATACTCCAACCCCGTTAATTAT-CG
146570 AGAGGATACTCCAACCC
1 -G-GGATACTCCAACCC
146587 TCGCTTTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 1 0.03
26 5 0.13
27 19 0.49
28 14 0.36
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTAATTATCG
Found at i:146643 original size:79 final size:79
Alignment explanation
Indices: 146540--147031 Score: 643
Period size: 79 Copynumber: 6.2 Consensus size: 79
146530 CCCGTTAATT
* * * *
146540 ATCGGGGATACTCCAACCCCGTTATTTCCGAGAGGATACTCCAACCCTC-GCTTTATCTCTAAAA
1 ATCGGGGATACTCCAACCCAGTTATTTCCGAGGGGATACTCCAACCC-CGGTTTTATTTCTAAAA
*
146604 TATCAATTTTTCATA
65 CATCAATTTTTCATA
* *
146619 ATCGAGGATACTCCAACCCAGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAAC
1 ATCGGGGATACTCCAACCCAGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
146684 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* * *
146698 ATTGGGGATACTCCAATTCCA-TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAA-CCCAGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
146762 CATCAATTTTTCATA
65 CATCAATTTTTCATA
** * ** * * *
146777 ATCGAAGATACTCCAGCCCCCTTATTTTCGAGGGGATACTGCAACCTCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCAGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
146842 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* * ** ** * *
146856 ATCGGGGATACTCTAACCCCGTTAGTTT-TTAGGGGATACTCCAAGTCCGGTTTTAGTTCCAAAA
1 ATCGGGGATACTCCAACCCAGTTA-TTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
*
146920 CACCAATTTTTCATA
65 CATCAATTTTTCATA
* *
146935 ATCGGGGATACTCCAACCCCA-TTATTTCTGAGGGGATACTCAAACCCCGGTTTT-TTTCTAAAA
1 ATCGGGGATACTCCAA-CCCAGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
146998 CATCAATTTTTCATA
65 CATCAATTTTTCATA
*
147013 ATCGGGGATACTCTAACCC
1 ATCGGGGATACTCCAACCC
147032 CGATTTTATT
Statistics
Matches: 363, Mismatches: 44, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
77 3 0.01
78 42 0.12
79 309 0.85
80 9 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCAGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
ATCAATTTTTCATA
Found at i:149256 original size:15 final size:15
Alignment explanation
Indices: 149236--149265 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
149226 TACATTATGC
149236 AATGTATCGATACAT
1 AATGTATCGATACAT
149251 AATGTATCGATACAT
1 AATGTATCGATACAT
149266 TTAGGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
AATGTATCGATACAT
Found at i:152194 original size:49 final size:49
Alignment explanation
Indices: 152133--152363 Score: 215
Period size: 49 Copynumber: 4.8 Consensus size: 49
152123 TACAGATGCT
* *
152133 AATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGAAAAAGGTGCC
1 AATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAAAAAGGTGCC
* * ** *
152182 AATATGCTGATTCAAGGCTAGTGATATCGGACTTAAAGATGAAGATGCC
1 AATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAAAAAGGTGCC
* * * * * *
152231 AATGTGCTGATTCAAGGCCGGCGACATTGGACTTCAAAG-ACAAGGTGTC
1 AATATGCTGATTCAAGGCCAGCGATATCGGACTT-AAAGAAAAAGGTGCC
* * * *
152280 AATATACTGATTCAAGGCCAGTGATATTGGGCTT------AAAGGTGCC
1 AATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAAAAAGGTGCC
* * *
152323 AATATGCTAATTCAAGGCCAGCGTTATTGGACTTAGAAGAA
1 AATATGCTGATTCAAGGCCAGCGATATCGGACTTA-AAGAA
152364 GATGCCACCA
Statistics
Matches: 144, Mismatches: 30, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
43 36 0.25
49 104 0.72
50 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (49 bp):
AATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAAAAAGGTGCC
Found at i:152247 original size:98 final size:98
Alignment explanation
Indices: 152126--152317 Score: 251
Period size: 98 Copynumber: 2.0 Consensus size: 98
152116 GGAATGTTAC
* * *
152126 AGATGCTAATATGCTGATTCAAGGCCAACGATATCAGACTT-AAAGAAAAAGGTGCCAATATGCT
1 AGATGCCAATATGCTGATTCAAGGCCAACGACATCAGACTTCAAAG-AAAAGGTGCCAATATACT
*
152190 GATTCAAGGCTAGTGATATCGGACTTAAAGATGA
65 GATTCAAGGCCAGTGATATCGGACTTAAAGATGA
* ** ** * *
152224 AGATGCCAATGTGCTGATTCAAGGCCGGCGACATTGGACTTCAAAGACAAGGTGTCAATATACTG
1 AGATGCCAATATGCTGATTCAAGGCCAACGACATCAGACTTCAAAGAAAAGGTGCCAATATACTG
* *
152289 ATTCAAGGCCAGTGATATTGGGCTTAAAG
66 ATTCAAGGCCAGTGATATCGGACTTAAAG
152318 GTGCCAATAT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
98 76 0.95
99 4 0.05
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (98 bp):
AGATGCCAATATGCTGATTCAAGGCCAACGACATCAGACTTCAAAGAAAAGGTGCCAATATACTG
ATTCAAGGCCAGTGATATCGGACTTAAAGATGA
Found at i:152437 original size:28 final size:28
Alignment explanation
Indices: 152379--152792 Score: 427
Period size: 28 Copynumber: 14.7 Consensus size: 28
152369 CACCAACTTG
** **
152379 TGTGGGCTTTTGAAAGGGTTTCACCAACT
1 TGTGGGCTTTTGAAA-GGTGCCACTGACT
* * *
152408 TGTGTGCTTTTG-AAGGTTGCCACCGCCT
1 TGTGGGCTTTTGAAAGG-TGCCACTGACT
* * * *
152436 TGTGGG-ATTTGAAAAGATGCCATTAACT
1 TGTGGGCTTTTG-AAAGGTGCCACTGACT
152464 TGTGGGC-TTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGTGCCACTGACT
*
152492 TGTGGGCTTTTGAAATGGTGCCATTGACT
1 TGTGGGCTTTTGAAA-GGTGCCACTGACT
152521 TGTGGGCTTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGTGCCACTGACT
* *
152550 TGTGGGCTTTTAAAAGGTGCCATTGACT
1 TGTGGGCTTTTGAAAGGTGCCACTGACT
152578 TGTGGGC-TTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGTGCCACTGACT
* *
152606 TGTGGGCTTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTTG-AAAGGTGCCACTGACT
*
152635 TATGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGG-TGCCACTGACT
*
152663 TGTGGGCTTTTG-AAGGTTACCACT-ACCT
1 TGTGGGCTTTTGAAAGG-TGCCACTGA-CT
* *
152691 TGTGGGC-TTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTTG-AAAGGTGCCACTGACT
*
152719 TGTGGGC-TTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTTG-AAAGGTGCCACTGACT
*
152747 TGTGGGCTTTTG-AAGGTTGCCATTGACT
1 TGTGGGCTTTTGAAAGG-TGCCACTGACT
152775 TGTGGGCTTTTG-AAGGTG
1 TGTGGGCTTTTGAAAGGTG
152793 AGGAAAGTCT
Statistics
Matches: 336, Mismatches: 33, Indels: 34
0.83 0.08 0.08
Matches are distributed among these distances:
27 23 0.07
28 207 0.62
29 103 0.31
30 3 0.01
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (28 bp):
TGTGGGCTTTTGAAAGGTGCCACTGACT
Found at i:152465 original size:56 final size:57
Alignment explanation
Indices: 152379--152788 Score: 473
Period size: 56 Copynumber: 7.2 Consensus size: 57
152369 CACCAACTTG
* ** * * * *
152379 TGTGGGCTTTTGAAAGGGTTTCACCAACTTGTGTGCTTTTG-AAGGTTGCCACCGCCT
1 TGTGGGCTTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAGG-TGCCACTGACT
* * *
152436 TGTGGG-ATTTGAAAAGATGCCATTAACTTGTGGGC-TTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTG-AAAGGTGCCACTGACT
* * *
152492 TGTGGGCTTTTGAAATGGTGCCATTGACTTGTGGGCTTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTG-AAAGGTGCCACTGACT
* *
152550 TGTGGGCTTTT-AAAAGGTGCCATTGACTTGTGGGC-TTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTG-AAAGGTGCCACTGACT
* *
152606 TGTGGGCTTTTGAAAAGATGCCACTAACTTATGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAGG-TGCCACTGACT
* * * *
152663 TGTGGGCTTTTG--AAGGTTACCACTACCTTGTGGGC-TTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTTG-AAAGGTGCCACTGACT
*
152719 TGTGGGC-TTTGAAAAGGTGCCACTAACTTGTGGGCTTTTG-AAGGTTGCCATTGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAGG-TGCCACTGACT
152775 TGTGGGCTTTTGAA
1 TGTGGGCTTTTGAA
152789 GGTGAGGAAA
Statistics
Matches: 308, Mismatches: 30, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
55 18 0.06
56 136 0.44
57 118 0.38
58 36 0.12
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (57 bp):
TGTGGGCTTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAGGTGCCACTGACT
Found at i:154250 original size:10 final size:10
Alignment explanation
Indices: 154220--154281 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
154210 ATCCGGACCC
*
154220 TTTTTGTTTG
1 TTTTTGTTTT
*
154230 TTGTTGTTTT
1 TTTTTGTTTT
*
154240 TTTTT-TGTT
1 TTTTTGTTTT
154249 TTTTTGTCTCTT
1 TTTTTGT-T-TT
*
154261 TTTTTCCTTTT
1 TTTTT-GTTTT
154272 TTTTTGTTTT
1 TTTTTGTTTT
154282 GTTGTTTTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 8 0.20
10 17 0.41
11 7 0.17
12 8 0.20
13 1 0.02
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.82
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:154275 original size:31 final size:32
Alignment explanation
Indices: 154237--154296 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
154227 TTGTTGTTGT
*
154237 TTTTTTTTTGTTTTTTTG-TCTCTTTTTTTCC
1 TTTTTTTTTGTTTTGTTGTTCTCTTTTTTTCC
*
154268 TTTTTTTTTGTTTTGTTGTTTTCTTTTTT
1 TTTTTTTTTGTTTTGTTGTTCTCTTTTTT
154297 GCAGAGGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.83
Consensus pattern (32 bp):
TTTTTTTTTGTTTTGTTGTTCTCTTTTTTTCC
Found at i:158624 original size:92 final size:91
Alignment explanation
Indices: 158510--158960 Score: 545
Period size: 92 Copynumber: 4.9 Consensus size: 91
158500 ATCCTTACAG
* * *
158510 TCTTTTTTTTCCTATAAAAAAAAAATCCAATTCTCAAATATAATTCATGCATTAGTCTAATCATT
1 TCTTTTTTTT-CTAT--AAAAAAAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
* **
158575 ACAGTCAAACATTTACAATCAATCAATCTT
63 GCAGTCTGACATTTACAATCAATCAA-CTT
** *
158605 TCTTTTTTTTCTATAAAAAAAATATGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGTA
1 TCTTTTTTTTCTATAAAAAAAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCA
*
158670 GTCTGACATTTACAATCAATCAGTCTT
66 GTCTGACATTTACAATCAATCA-ACTT
* * * *
158697 TTTTTTTTTTCTATAAAAAAGAATCCGATTCTTAAATATAATTCATGCATTAGTTTAATCCTTGC
1 TCTTTTTTTTCTATAAAAAA-AATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGC
* * *
158762 AGTTTGATATTTACAATCAGTCAA---
65 AGTCTGACATTTACAATCAATCAACTT
* *
158786 -C-TTTTTTTCTATAAAAAAGAATTCGATTCTCAGATATAATTCATGTATTAGTCTAATCCTTGC
1 TCTTTTTTTTCTATAAAAAA-AATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGC
* *
158849 AATCTGACATTTACAATCAGTCAACTT
65 AGTCTGACATTTACAATCAATCAACTT
* * * * *
158876 T-TCCTTTTTTCTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTTGTCTAATACTTAC
1 TCT-TTTTTTTCTATAAAAAAAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGC
*
158940 AGTCTGATATTTACAATCAAT
65 AGTCTGACATTTACAATCAAT
158961 TCTCAGATAT
Statistics
Matches: 308, Mismatches: 40, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
87 78 0.25
91 56 0.18
92 102 0.33
93 58 0.19
94 4 0.01
95 10 0.03
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (91 bp):
TCTTTTTTTTCTATAAAAAAAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCA
GTCTGACATTTACAATCAATCAACTT
Found at i:158842 original size:180 final size:179
Alignment explanation
Indices: 158512--158960 Score: 589
Period size: 180 Copynumber: 2.5 Consensus size: 179
158502 CCTTACAGTC
* * *
158512 TTTTTTTTCCTATAAAAAAAAAATCCAATTCTCAAATATAATTCATGCATTAGTCTAATCATTAC
1 TTTTTTTTTCTAT--AAAAAAAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTAC
** *
158577 AGTCAAACATTTACAATCAATCAATCTTTCTTTTTTTTCTATAAAAAAAATATGATTCTCAGATA
64 AGTCTGATATTTACAATCAATCAA----TCTTTTTTTTCTATAAAAAAAATATGATTCTCAGATA
* * *
158642 TAATTCATGCATTAGTCTAATCCTTGTAGTCTGACATTTACAATCAATCAGTCTTT
125 TAATTCATGCATTAGTCTAATCCTTGCAATCTGACATTTACAATCAATCA-ACTTT
* * *
158698 TTTTTTTTTCTATAAAAAAGAATCCGATTCTTAAATATAATTCATGCATTAGTTTAATCCTTGCA
1 TTTTTTTTTCTATAAAAAA-AATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACA
* *
158763 GTTTGATATTTACAATCAGTCAA-C-TTTTTTTCTATAAAAAAGAAT-TCGATTCTCAGATATAA
65 GTCTGATATTTACAATCAATCAATCTTTTTTTTCTATAAAAAA-AATAT-GATTCTCAGATATAA
* *
158825 TTCATGTATTAGTCTAATCCTTGCAATCTGACATTTACAATCAGTCAACTTT
128 TTCATGCATTAGTCTAATCCTTGCAATCTGACATTTACAATCAATCAACTTT
** * * * *
158877 TCCTTTTTTCTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTTGTCTAATACTTACAG
1 TTTTTTTTTCTATAAAAAAAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAG
158942 TCTGATATTTACAATCAAT
66 TCTGATATTTACAATCAAT
158961 TCTCAGATAT
Statistics
Matches: 233, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
178 56 0.24
179 39 0.17
180 62 0.27
184 6 0.03
185 58 0.25
186 12 0.05
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.41
Consensus pattern (179 bp):
TTTTTTTTTCTATAAAAAAAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAG
TCTGATATTTACAATCAATCAATCTTTTTTTTCTATAAAAAAAATATGATTCTCAGATATAATTC
ATGCATTAGTCTAATCCTTGCAATCTGACATTTACAATCAATCAACTTT
Found at i:158990 original size:57 final size:57
Alignment explanation
Indices: 158902--159017 Score: 178
Period size: 57 Copynumber: 2.0 Consensus size: 57
158892 AAAAAATCTG
* * * *
158902 ATTCTCAGATATAATTCATGCATTTGTCTAATACTTACAGTCTGATATTTACAATCA
1 ATTCTCAGATATAATTAATGCATTAGTCTAATACTTACAGTCCGACATTTACAATCA
* *
158959 ATTCTCAGATATAATTAATGCATTAGTCTAATCCTTGCAGTCCGACATTTACAATCA
1 ATTCTCAGATATAATTAATGCATTAGTCTAATACTTACAGTCCGACATTTACAATCA
159016 AT
1 AT
159018 AGACTTTTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (57 bp):
ATTCTCAGATATAATTAATGCATTAGTCTAATACTTACAGTCCGACATTTACAATCA
Found at i:159079 original size:148 final size:148
Alignment explanation
Indices: 158811--159108 Score: 422
Period size: 148 Copynumber: 2.0 Consensus size: 148
158801 AAAGAATTCG
* * * *
158811 ATTCTCAGATATAATTCATGTATTAGTCTAATCCTTGCAATCTGACATTTACAATCAGTCAACTT
1 ATTCTCAGATATAATTAATGCATTAGTCTAATCCTTGCAATCCGACATTTACAATCAATCAACTT
* *
158876 TTCCTTTTTTCTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTTGTCTAATAC-TTAC
66 TTCCTTTTTTCTATAAAAAAAATCTGATTCTCAGATATAATTCACGCATTAGTCTAAT-CTTTAC
* *
158940 AGTCTGATATTTACAATCA
130 AGTCTAACATTTACAATCA
*
158959 ATTCTCAGATATAATTAATGCATTAGTCTAATCCTTGCAGTCCGACATTTACAATCAAT-AGACT
1 ATTCTCAGATATAATTAATGCATTAGTCTAATCCTTGCAATCCGACATTTACAATCAATCA-ACT
* * * *
159023 TTTCTTTTTTTTCTATAAAAAGAAT-TGATTCTTAGATATAATTCACGCATTAGTCTAATCTTTG
65 TTTC-CTTTTTTCTATAAAAAAAATCTGATTCTCAGATATAATTCACGCATTAGTCTAATCTTTA
*
159087 TAGTCTAACATTTACAATCA
129 CAGTCTAACATTTACAATCA
159107 AT
1 AT
159109 CAACTTTTCT
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
147 2 0.02
148 113 0.85
149 18 0.14
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (148 bp):
ATTCTCAGATATAATTAATGCATTAGTCTAATCCTTGCAATCCGACATTTACAATCAATCAACTT
TTCCTTTTTTCTATAAAAAAAATCTGATTCTCAGATATAATTCACGCATTAGTCTAATCTTTACA
GTCTAACATTTACAATCA
Found at i:159115 original size:91 final size:91
Alignment explanation
Indices: 158959--159124 Score: 253
Period size: 91 Copynumber: 1.8 Consensus size: 91
158949 TTTACAATCA
* *
158959 ATTCTCAGATATAATTAATGCATTAGTCTAATCCTTGCAGTCCGACATTTACAATCAATAGACTT
1 ATTCTCAGATATAATTAACGCATTAGTCTAATCCTTGCAGTCCAACATTTACAATCAATAGACTT
159024 TTCTTTTTTTTCTATAAAAAGAATTG
66 TTCTTTTTTTTCTATAAAAAGAATTG
* * * * *
159050 ATTCTTAGATATAATTCACGCATTAGTCTAATCTTTGTAGTCTAACATTTACAATCAATCA-ACT
1 ATTCTCAGATATAATTAACGCATTAGTCTAATCCTTGCAGTCCAACATTTACAATCAAT-AGACT
159114 TTTCTTTTTTT
65 TTTCTTTTTTT
159125 CCACAAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
91 66 0.99
92 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.43
Consensus pattern (91 bp):
ATTCTCAGATATAATTAACGCATTAGTCTAATCCTTGCAGTCCAACATTTACAATCAATAGACTT
TTCTTTTTTTTCTATAAAAAGAATTG
Found at i:159134 original size:91 final size:90
Alignment explanation
Indices: 158959--159154 Score: 243
Period size: 91 Copynumber: 2.2 Consensus size: 90
158949 TTTACAATCA
* * *
158959 ATTCTCAGATATAATTAATGCATTAGTCTAATCCTTGCAGTCCGACATTTACAATCAATAGACTT
1 ATTCTAAGATATAATTAACGCATTAGTCTAATCCTTGCAGTCCAACATTTACAATCAATAGACTT
* * *
159024 TTCTTTTTTTTCTATAAAAAGAATTG
66 TTCTTTTTTTTCCA-AAAAAAAAATG
* * * * *
159050 ATTCTTAGATATAATTCACGCATTAGTCTAATCTTTGTAGTCTAACATTTACAATCAATCA-ACT
1 ATTCTAAGATATAATTAACGCATTAGTCTAATCCTTGCAGTCCAACATTTACAATCAAT-AGACT
159114 TTTC-TTTTTTTCCACAAAAAAAAATG
65 TTTCTTTTTTTTCCA-AAAAAAAAATG
*
159140 ATTCTAAGATCTAAT
1 ATTCTAAGATATAAT
159155 CACATTTATT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
90 31 0.34
91 59 0.65
92 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (90 bp):
ATTCTAAGATATAATTAACGCATTAGTCTAATCCTTGCAGTCCAACATTTACAATCAATAGACTT
TTCTTTTTTTTCCAAAAAAAAAATG
Done.