Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002224.1 Hibiscus syriacus cultivar Beakdansim tig00004529_pilon, whole genome shotgun sequence
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: 150034
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:231 original size:16 final size:17
Alignment explanation
Indices: 210--241 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
200 ATAAATAAAA
210 GAACAT-AAACGAACAC
1 GAACATAAAACGAACAC
226 GAACATAAAACGAACA
1 GAACATAAAACGAACA
242 ATTTTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.59, C:0.22, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACATAAAACGAACAC
Found at i:338 original size:16 final size:16
Alignment explanation
Indices: 304--361 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
294 CATTTAATAA
* *
304 ATAAACG-ACATGTAC
1 ATAAACGAACACGAAC
319 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
* *
335 ATAAATGAACACGAAG
1 ATAAACGAACACGAAC
351 ATAAACGAACA
1 ATAAACGAACA
362 TAAACATTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 7 0.19
16 30 0.81
ACGTcount: A:0.55, C:0.19, G:0.14, T:0.12
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:642 original size:11 final size:12
Alignment explanation
Indices: 601--643 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
591 AGCACGATTG
601 AAGCTCGATTCT
1 AAGCTCGATTCT
613 GAA-CTCGATTCT
1 -AAGCTCGATTCT
*
625 GAGCTCGATT-T
1 AAGCTCGATTCT
636 AAGCTCGA
1 AAGCTCGA
644 CACTGCCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 9 0.33
12 16 0.59
13 2 0.07
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (12 bp):
AAGCTCGATTCT
Found at i:1511 original size:24 final size:24
Alignment explanation
Indices: 1475--1534 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
1465 AGATTGGGTT
1475 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAATGAACATAAACG
*
1499 AACATAATCGAATGAATATAAACG
1 AACATAATCGAATGAACATAAACG
*
1523 AACATAACCGAA
1 AACATAATCGAA
1535 CGTTCATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 3 0.09
24 30 0.91
ACGTcount: A:0.57, C:0.15, G:0.12, T:0.17
Consensus pattern (24 bp):
AACATAATCGAATGAACATAAACG
Found at i:1990 original size:13 final size:12
Alignment explanation
Indices: 1968--2031 Score: 53
Period size: 13 Copynumber: 5.3 Consensus size: 12
1958 ATATTTGATT
1968 TTAATTTTAATA
1 TTAATTTTAATA
1980 TTAATTTTTAATA
1 TTAA-TTTTAATA
*
1993 --AA-TTAAATA
1 TTAATTTTAATA
2002 TTAATTTTTAATA
1 TTAA-TTTTAATA
* *
2015 TTATATTATAATT
1 TTA-ATTTTAATA
2028 TTAA
1 TTAA
2032 AATTAATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
9 6 0.14
11 4 0.10
12 5 0.12
13 26 0.62
14 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:2027 original size:54 final size:54
Alignment explanation
Indices: 1969--2072 Score: 167
Period size: 54 Copynumber: 1.9 Consensus size: 54
1959 TATTTGATTT
*
1969 TAATTTTAATATTAA-TTTTT-AATAAATTAAATATTAATTTTTAATATTATATTA
1 TAATTTTAAAATTAATTTTTTAAATAAATTAAATATTAA--TTTAATATTATATTA
2023 TAATTTTAAAATTAATTTTTTAAATAAATTAAATATTAATTTAATATTAT
1 TAATTTTAAAATTAATTTTTTAAATAAATTAAATATTAATTTAATATTAT
2073 TATAGATATT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
54 25 0.53
55 5 0.11
56 17 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (54 bp):
TAATTTTAAAATTAATTTTTTAAATAAATTAAATATTAATTTAATATTATATTA
Found at i:2094 original size:35 final size:34
Alignment explanation
Indices: 2055--2131 Score: 86
Period size: 35 Copynumber: 2.3 Consensus size: 34
2045 AATAAATTAA
*
2055 ATATTAATTTA-ATATTATTATAGATATTTTATTTT
1 ATATTAATTTATATATTATTATA-A-ATTTTATATT
* *
2090 ATATT-TTTTATATATTATTTTAAATTTTATATT
1 ATATTAATTTATATATTATTATAAATTTTATATT
*
2123 ATTTTAATT
1 ATATTAATT
2132 ATTTTGATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
33 13 0.37
34 7 0.20
35 15 0.43
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (34 bp):
ATATTAATTTATATATTATTATAAATTTTATATT
Found at i:2098 original size:56 final size:57
Alignment explanation
Indices: 1941--2098 Score: 150
Period size: 56 Copynumber: 2.8 Consensus size: 57
1931 GGTTTTATAT
*
1941 TTAA-TTT-ATATTATATTATATTTGATTTTAATTTTAATATTAATTTTTAATAAATTAAATA
1 TTAATTTTAATATTATATTATA-AT-ATTTT-ATTTT-ATATT--TTTTTAATAAATTAAATA
* ** *
2002 TTAATTTTTAATATTATATTATAAT-TTTAAAATTA-ATTTTTTAAATAAATTAAATA
1 TTAA-TTTTAATATTATATTATAATATTTTATTTTATATTTTTTTAATAAATTAAATA
2058 TTAA-TTTAATA-T-TATTATAGATATTTTATTTTATATTTTTT
1 TTAATTTTAATATTATATTATA-ATATTTTATTTTATATTTTTT
2099 ATATATTATT
Statistics
Matches: 83, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
52 7 0.08
53 3 0.04
54 14 0.17
55 7 0.08
56 21 0.25
58 3 0.04
59 1 0.01
60 3 0.04
61 7 0.08
63 4 0.05
64 13 0.16
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (57 bp):
TTAATTTTAATATTATATTATAATATTTTATTTTATATTTTTTTAATAAATTAAATA
Found at i:2100 original size:28 final size:29
Alignment explanation
Indices: 2069--2133 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 29
2059 TAATTTAATA
2069 TTATTATAGATATTTT-ATTTTATATT-TT
1 TTATTATA-ATATTTTAATTTTATATTATT
*
2097 TTA-TATATTATTTTAAATTTTATATTATT
1 TTATTATAATATTTT-AATTTTATATTATT
2126 TTAATTAT
1 TT-ATTAT
2134 TTTGATTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 6 0.19
27 4 0.13
28 13 0.42
29 4 0.13
30 1 0.03
31 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (29 bp):
TTATTATAATATTTTAATTTTATATTATT
Found at i:2102 original size:21 final size:21
Alignment explanation
Indices: 2078--2128 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2068 ATTATTATAG
* *
2078 ATATTTTATTTTATATTTTTT
1 ATATTTTATTTTAAATTTTAT
*
2099 ATATATTATTTTAAATTTTAT
1 ATATTTTATTTTAAATTTTAT
2120 ATTATTTTA
1 A-TATTTTA
2129 ATTATTTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
ATATTTTATTTTAAATTTTAT
Found at i:2134 original size:9 final size:10
Alignment explanation
Indices: 2083--2136 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
2073 TATAGATATT
2083 TTATTTTATA
1 TTATTTTATA
*
2093 TTTTTTATATA
1 TTATTT-TATA
2104 TTATTTTA-A
1 TTATTTTATA
2113 --ATTTTATA
1 TTATTTTATA
2121 TTATTTTA-A
1 TTATTTTATA
2130 TTATTTT
1 TTATTTT
2137 GATTAAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 6 0.16
8 1 0.03
9 9 0.24
10 13 0.34
11 9 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATTTTATA
Found at i:2141 original size:9 final size:9
Alignment explanation
Indices: 2083--2141 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
2073 TATAGATATT
2083 TTATTTTATA
1 TTATTTTA-A
*
2093 TTTTTTATATA
1 TTATTT-TA-A
2104 TTATTTTAA
1 TTATTTTAA
2113 --ATTTTATA
1 TTATTTTA-A
2121 TTATTTTAA
1 TTATTTTAA
*
2130 TTATTTTGA
1 TTATTTTAA
2139 TTA
1 TTA
2142 AGTTTAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
7 6 0.14
8 1 0.02
9 13 0.31
10 13 0.31
11 9 0.21
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
TTATTTTAA
Found at i:2619 original size:31 final size:31
Alignment explanation
Indices: 2584--2643 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
2574 TAGTTGTATG
*
2584 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATTTCAGTATTGCAAAACTAA
2615 AATTATTTAAATTTCAGTATTGCAAAACT
1 AATTATTTAAATTTCAGTATTGCAAAACT
2644 CTTTTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
AATTATTTAAATTTCAGTATTGCAAAACTAA
Found at i:4722 original size:42 final size:42
Alignment explanation
Indices: 4663--4747 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
4653 TTACAAAATG
4663 ATAACCTAATTATTCATTTATTACAAACTCATCATTTTTGTT
1 ATAACCTAATTATTCATTTATTACAAACTCATCATTTTTGTT
4705 ATAACCTAATTATTCATTTATTACAAACTCATCATTTTTGTT
1 ATAACCTAATTATTCATTTATTACAAACTCATCATTTTTGTT
4747 A
1 A
4748 ATAAAATTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.47
Consensus pattern (42 bp):
ATAACCTAATTATTCATTTATTACAAACTCATCATTTTTGTT
Found at i:11819 original size:15 final size:15
Alignment explanation
Indices: 11799--11828 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11789 AGGTTGTTGA
*
11799 TATTCAGTCTTTTTT
1 TATTCAGCCTTTTTT
11814 TATTCAGCCTTTTTT
1 TATTCAGCCTTTTTT
11829 CTGGTATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (15 bp):
TATTCAGCCTTTTTT
Found at i:13402 original size:30 final size:30
Alignment explanation
Indices: 13368--13428 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
13358 TTAGTTGGAG
13368 AAGGTGATTATATGTTGATGGAATTGGTTT
1 AAGGTGATTATATGTTGATGGAATTGGTTT
13398 AAGGTGATTATATGTTGATGGAATTGGTTT
1 AAGGTGATTATATGTTGATGGAATTGGTTT
13428 A
1 A
13429 TTCTTCTGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.43
Consensus pattern (30 bp):
AAGGTGATTATATGTTGATGGAATTGGTTT
Found at i:23568 original size:71 final size:71
Alignment explanation
Indices: 23478--23615 Score: 213
Period size: 71 Copynumber: 1.9 Consensus size: 71
23468 GCATTGTAAC
* *
23478 GGGCTGCACTAGTTCATAAATTTGCTCAACTCTAGTAACCTTATAAATAATGAGAATCTACAATA
1 GGGCTGCACTAGTTCATAAAGTTGCTCAACTCTAGTAACCTTATAAATAATGACAATCTACAATA
23543 ATTTCT
66 ATTTCT
* * * * *
23549 GGGCTGCACTAGTTTATAAAGTTGCTCAACTCTAGTAGCTTTATATATAATGACACTCTACAATA
1 GGGCTGCACTAGTTCATAAAGTTGCTCAACTCTAGTAACCTTATAAATAATGACAATCTACAATA
23614 AT
66 AT
23616 GAGAAATTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (71 bp):
GGGCTGCACTAGTTCATAAAGTTGCTCAACTCTAGTAACCTTATAAATAATGACAATCTACAATA
ATTTCT
Found at i:25195 original size:29 final size:29
Alignment explanation
Indices: 25153--25209 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
25143 ACTACTACTT
**
25153 TGGGCACTTTCTTTTGGTGCTTTAGAAAG
1 TGGGCACTCCCTTTTGGTGCTTTAGAAAG
*
25182 TGGGCACTCCCTTTTGGTGTTTTAGAAA
1 TGGGCACTCCCTTTTGGTGCTTTAGAAA
25210 ATTCCCTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.18, C:0.16, G:0.26, T:0.40
Consensus pattern (29 bp):
TGGGCACTCCCTTTTGGTGCTTTAGAAAG
Found at i:26443 original size:23 final size:23
Alignment explanation
Indices: 26416--26488 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
26406 ATACTTTATA
*
26416 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGTTACCTATTACATT
*
26439 ATATAAGCGTTATCTATTACATT
1 ATATAAGCGTTACCTATTACATT
*
26462 ATATAAGCGTTACCTATTACATC
1 ATATAAGCGTTACCTATTACATT
26485 ATAT
1 ATAT
26489 TTTTACCTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (23 bp):
ATATAAGCGTTACCTATTACATT
Found at i:26532 original size:22 final size:22
Alignment explanation
Indices: 26507--26551 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
26497 GATATATTGT
* *
26507 AAAGTATCGATCCTTTTTATAA
1 AAAGGATCGATACTTTTTATAA
*
26529 AAAGGATCGATACTTTTTTTAA
1 AAAGGATCGATACTTTTTATAA
26551 A
1 A
26552 GTTATGTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (22 bp):
AAAGGATCGATACTTTTTATAA
Found at i:26712 original size:490 final size:489
Alignment explanation
Indices: 26014--29289 Score: 5458
Period size: 490 Copynumber: 6.7 Consensus size: 489
26004 TTATAATATG
* **
26014 TTGAAAGTGTCCATACTTTTTTTATAAAAATGATTAATACTTTTTTTAAAGTTATGTAATTTATG
1 TTGAAAGTGTCCATAC--TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATG
* * **
26079 TTTCAA--TTTTTAATAGTGTTTCATGTTCTCCACCTATAATAAAAATTTAATAATTTCATTTGC
64 TTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
* *
26142 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAAAATTTAAATGTAACAATA
129 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
*
26207 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTAAATGATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATA
*
26272 TAACGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCAC
259 TACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCAC
* * * * * *
26337 TCAAAAGATAATCTTAAATTAATGTTTTCCACATTGAAATAAGTAAGGACACTTCTATAAAAATG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
* * * * * *
26402 ATAGATACTTTATAATATAAGCGCTACCTATTACATTATATAAGCGTTATCTATTACATTATATA
389 ATAGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATA
*
26467 AGCGTTACCTATTACATCATATTTTTACCTGA-TATA
454 AGCGCTACCTATTACATCATATTTTTACCT-ATTATA
* * *
26503 TTGTAAAGTATCGATCCTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTG-AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
*
26568 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
* *
26633 CAAAAAATTATTTGATTATTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
26698 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATAT
* * * * *
26763 ACCGTAACGTAAAAAATAAATCATTAGACACCTATAATTACTAAATTAATATTTTAAAACTCACT
260 ACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACT
* * *
26828 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATAGACACTTTTATAAAAAAGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
26893 TAGATACTTTACAATATAACTATATAAGCACTACCTATTACATTATATAAACACTACCTATTACA
390 TAGATACTTTAC------A--ATATAAGCACTACATATTACATTATATAAACGCTACCTATTACA
*
26958 TTATATAAGTGCTACCTATTACATCATATTTTTACCTATTATA
447 TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
* * *
27001 TTGAAAGTGTCCATACTTTTTATAAAAAAGATCAATATTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
27066 ACAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
27131 CAAAATATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
27196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATT-TTTTTAATTTAATGATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATAT
27260 ACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACT
260 ACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACT
27325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
27390 TAGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAA
*
27455 GCGCTACCTATTACATCATATGTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
* *
27490 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAATTATGTAATTTATGAT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
27555 TAAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
* * *
27620 AAAATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
* * *
27685 AATCAAAGATAATAATAAATATGTAATAAATATG--T-TTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATA
* * ** * *
27747 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTC
* *
27812 AAAAGATAACCTTAAATTAATGTTTTACACAGTGAAAAAAGTATGTACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
* * ** *
27877 AAATACTTTACAATATAAGCACTACTTATTACATTATATAAACTTTACATATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAAG
27942 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
* * *
27976 TTGAAAGTGTCCATACTTTTTATAAAAATGATCAATATTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
28041 TCAATTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
28105 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
28170 AACCAAAGATAATAATAAATATGTAATATA-ATGTTTATTGTTTTTAATTTAATGATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATA
*
28234 TCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTC
261 CCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTC
* *
28299 AAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAGTATGGACACTTTTATAAAAAAGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
28364 AGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAAG
28429 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
28463 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* * * * *
28528 TAAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTAATTTACG
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
28593 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
28658 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATAT
* ** * *
28723 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACT
*
28788 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAATTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
28853 TAGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTGCCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAA
*
28918 GCGCTACATATTACATCATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
* *
28953 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTTAAAGTTATGTAATTTTTGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
*
29018 TTCAATTTTTTTTAAGAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
65 TTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
29083 AC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTT-AATTTAACAATA
129 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
*
29146 TTAACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATA
*
29211 TACCGTAACATAAAAAATAAATCATTAAATACATATAATTACTAAATTGATATCTTAAAACTCAC
259 TACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCAC
29276 TCAAAAGATAACCT
324 TCAAAAGATAACCT
29290 ATATTCAAAT
Statistics
Matches: 2611, Mismatches: 155, Indels: 42
0.93 0.06 0.01
Matches are distributed among these distances:
484 3 0.00
485 130 0.05
486 324 0.12
487 306 0.12
488 226 0.09
489 425 0.16
490 650 0.25
491 87 0.03
496 1 0.00
497 216 0.08
498 243 0.09
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (489 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATA
CCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAAG
CGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:26947 original size:23 final size:23
Alignment explanation
Indices: 26913--26986 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
26903 ACAATATAAC
26913 TATATAAGCACTACCTATTACAT
1 TATATAAGCACTACCTATTACAT
*
26936 TATATAAACACTACCTATTACAT
1 TATATAAGCACTACCTATTACAT
**
26959 TATATAAGTGCTACCTATTACAT
1 TATATAAGCACTACCTATTACAT
*
26982 CATAT
1 TATAT
26987 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.36
Consensus pattern (23 bp):
TATATAAGCACTACCTATTACAT
Found at i:27438 original size:23 final size:23
Alignment explanation
Indices: 27403--27475 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
27393 ATACTTTACA
* *
27403 ATATAAGCACTACATATTACATT
1 ATATAAGCGCTACCTATTACATT
*
27426 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
27449 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
27472 ATAT
1 ATAT
27476 GTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:27952 original size:23 final size:23
Alignment explanation
Indices: 27889--27961 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
27879 ATACTTTACA
*
27889 ATATAAGCACTACTTATTACATT
1 ATATAAGCACTACATATTACATT
* **
27912 ATATAAACTTTACATATTACATT
1 ATATAAGCACTACATATTACATT
* * *
27935 ATATAAGCGCTACCTATTACATC
1 ATATAAGCACTACATATTACATT
27958 ATAT
1 ATAT
27962 TTTTACCTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
ATATAAGCACTACATATTACATT
Found at i:28292 original size:973 final size:976
Alignment explanation
Indices: 26014--29289 Score: 5694
Period size: 973 Copynumber: 3.3 Consensus size: 976
26004 TTATAATATG
* *
26014 TTGAAAGTGTCCATACTTTTTTTATAAAAATGATTAATACTTTTTTTAAAGTTATGTAATTTATG
1 TTGAAAGTGTCCATAC--TTTTTATAAAAATGATCAATATTTTTTTTAAAGTTATGTAATTTATG
* * **
26079 TTTCAA---TTTTTAATAGTGTTTCATGTTCTCCACCTATAATAAAAATTTAATAATTTCATTTG
64 TTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTG
* *
26141 CACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAAAATTTAAATGTAACAAT
129 CACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAAT
*
26206 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTAAATGATAATAT
194 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATAT
*
26271 ATAACGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCA
259 ATACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCA
* * * * * *
26336 CTCAAAAGATAATCTTAAATTAATGTTTTCCACATTGAAATAAGTAAGGACACTTCTATAAAAAT
324 CTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAA
* * * * * *
26401 GATAGATACTTTATAATATAAGCGCTACCTATTACATTATATAAGCGTTATCTATTACATTATAT
389 GATAGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATAT
* * * *
26466 AAGCGTTACCTATTACATCATATTTTTACCTGA-TATATTGTAAAGTATCGATCCTTTTTATAAA
454 AAGCGCTACCTATTACATCATATTTTTACCT-ATTATATTG-AAAGTGTCCATACTTTTTATAAA
*
26530 AAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGT
517 AAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTAAATTTTTTTAATAGTGTTTCATGT
*
26595 TTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTATTTTGATAT
582 TTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATAT
26660 TTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAA
647 TTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAA
26725 TATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAG
712 TATATATG-TTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAG
* *
26790 ACACCTATAATTACTAAATTAATATTTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
776 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
*
26855 CTACAGTGAAAAAAGTATAGACACTTTTATAAAAAAGATAGATACTTTACAATATAACTATATAA
841 C-ACAGTGAAAAAAGTAT-GACACTTTTATAAAAAGGATAGATACTTTAC------A--ATATAA
* *
26920 GCACTACCTATTACATTATATAAACACTACCTATTACATTATATAAGTGCTACCTATTACATCAT
896 GCACTACATATTACATTATATAAACACTACCTATTACATTATATAAGCGCTACCTATTACATCAT
26985 ATTTTTACCTATTATA
961 ATTTTTACCTATTATA
*
27001 TTGAAAGTGTCCATACTTTTTATAAAAAAGATCAATATTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCAATATTTTTTTTAAAGTTATGTAATTTATGTT
*
27066 ACAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
27131 CAAAATATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
27196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATT-TTTTTAATTTAATGATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATAT
27260 ACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACT
261 ACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACT
*
27325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGA
27390 TAGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAA
391 TAGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAA
*
27455 GCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGG
456 GCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGG
* *
27520 ATCGATACTTTTTTTAAAATTATGTAATTTATGATTAAATTTTTTTAATAGTGTTTCATGTTTTC
521 ATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTAAATTTTTTTAATAGTGTTTCATGTTTTC
*
27585 CACCTACAATATTAATTTAATAATTTCATTTACACAAAATATTATTTGATTGTTTTGATATTTTA
586 CACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTA
* * *
27650 TAAAATATTATTTAAAATTTAAATTTAACAATATTAATCAAAGATAATAATAAATATGTAATAAA
651 TAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATA
*
27715 TATG-T-TTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCC
716 TATGTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCC
27778 TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTACACA
781 TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT-CACA
* *
27843 GTGAAAAAAGTATGTACACTTTTATAAAAAGGATAAATACTTTACAATATAAGCACTACTTATTA
845 GTGAAAAAAGTATG-ACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACATATTA
** *
27908 CATTATATAAACTTTACATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
909 CATTATATAAACACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
27973 ATA
974 ATA
27976 TTGAAAGTGTCCATACTTTTTATAAAAATGATCAATATTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCAATATTTTTTTTAAAGTTATGTAATTTATGTT
28041 TCAA-TTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
28104 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
28169 TAACCAAAGATAATAATAAATATGTAATATA-ATGTTTATTGTTTTTAATTTAATGATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATAT
*
28233 ATCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACT
261 ACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACT
*
28298 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAGTATGGACACTTTTATAAAAAAGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGA
28363 TAGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAA
391 TAGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAA
28428 GCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGG
456 GCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGG
28493 ATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTAAATTTTTTTTAATAGTGTTTCATGTTTT
521 ATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTAAA-TTTTTTTAATAGTGTTTCATGTTTT
* * *
28558 TCACCTACAATATTAATTTAATAATTTAATTTACGCAAAAAATTATTTGATTGTTTTGATATTTT
585 CCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTT
28623 ATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATAT
650 ATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATAT
28688 ATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACG
715 ATATG-TTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACG
28753 CCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCA
779 CCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT-CA
*
28818 CAGTGAAAAAAGTATGGACAATTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACATAT
843 CAGTGAAAAAAGTAT-GACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACATAT
* * *
28883 TACATTATATAAACGCTGCCTATTACATTATATAAGCGCTACATATTACATCATATTTTTACCTA
907 TACATTATATAAACACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA
28948 TTATA
972 TTATA
* *
28953 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTTAAAGTTATGTAATTTTTGT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCAATA-TTTTTTTTAAAGTTATGTAATTTATGT
*
29018 TTCAATTTTTTTTAAGAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
29083 AC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTT-AATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
*
29146 TTAACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATA
*
29211 TACCGTAACATAAAAAATAAATCATTAAATACATATAATTACTAAATTGATATCTTAAAACTCAC
260 TACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCAC
29276 TCAAAAGATAACCT
325 TCAAAAGATAACCT
29290 ATATTCAAAT
Statistics
Matches: 2193, Mismatches: 80, Indels: 40
0.95 0.03 0.02
Matches are distributed among these distances:
972 9 0.00
973 449 0.20
974 174 0.08
975 149 0.07
976 1 0.00
977 281 0.13
978 75 0.03
979 178 0.08
980 39 0.02
982 1 0.00
983 159 0.07
984 2 0.00
985 49 0.02
986 216 0.10
987 254 0.12
988 157 0.07
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (976 bp):
TTGAAAGTGTCCATACTTTTTATAAAAATGATCAATATTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATAT
ACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGA
TAGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAA
GCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGG
ATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTAAATTTTTTTAATAGTGTTTCATGTTTTC
CACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTA
TAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATA
TATGTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCC
TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCACAG
TGAAAAAAGTATGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACATATTACA
TTATATAAACACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTAT
A
Found at i:28411 original size:23 final size:23
Alignment explanation
Indices: 28376--28448 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
28366 ATACTTTACA
* *
28376 ATATAAGCACTACATATTACATT
1 ATATAAGCGCTACCTATTACATT
*
28399 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
28422 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
28445 ATAT
1 ATAT
28449 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:28891 original size:21 final size:23
Alignment explanation
Indices: 28866--28938 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
28856 ATACTTTACA
*
28866 ATATAAGCACTACATATTACATT
1 ATATAAGCGCTACATATTACATT
* * *
28889 ATATAAACGCTGCCTATTACATT
1 ATATAAGCGCTACATATTACATT
*
28912 ATATAAGCGCTACATATTACATC
1 ATATAAGCGCTACATATTACATT
28935 ATAT
1 ATAT
28939 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACATATTACATT
Found at i:29739 original size:4 final size:4
Alignment explanation
Indices: 29730--29754 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
29720 AATGTCATTT
29730 CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA C
29755 CAATCTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:30983 original size:33 final size:33
Alignment explanation
Indices: 30946--31011 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
30936 CATCTTAATA
*
30946 TCACCCCTTAACACCCCA-ACTTCTTTCACCACT
1 TCACCCCTCAACA-CCCATACTTCTTTCACCACT
*
30979 TCACCCCTCAACACCTATACTTCTTTCACCACT
1 TCACCCCTCAACACCCATACTTCTTTCACCACT
31012 CCATCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 27 0.90
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCATACTTCTTTCACCACT
Found at i:31070 original size:21 final size:21
Alignment explanation
Indices: 31045--31109 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
31035 CCCCTTATGC
* *
31045 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
31066 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
31087 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
31108 CT
1 CT
31110 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:31843 original size:16 final size:16
Alignment explanation
Indices: 31822--31855 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
31812 TGTCACCTTC
31822 TGCTTCAAACCATATT
1 TGCTTCAAACCATATT
31838 TGCTTCAAACCATATT
1 TGCTTCAAACCATATT
31854 TG
1 TG
31856 GAGGCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (16 bp):
TGCTTCAAACCATATT
Found at i:33558 original size:20 final size:19
Alignment explanation
Indices: 33512--33558 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
33502 TCCGGTAACG
33512 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
33531 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
33552 TTTTACC
1 TTTTACC
33559 TGGTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:33967 original size:182 final size:182
Alignment explanation
Indices: 33298--33952 Score: 972
Period size: 182 Copynumber: 3.6 Consensus size: 182
33288 CGTACTTACG
* * * ** *
33298 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATATCGGTTT
1 AAAGTACCGACACTTTAAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTCAATACCGGTTT
* * * * * * *
33363 TATCATATTTTTACTTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTTAAAAGTATCGACACTTTAT
*** *
33428 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
* * * * **
33479 AAAGTATCGACACTTTCAATATTTCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTACCGACACTTTAAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTCAATACCGGTTT
* * *
33544 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTTAAAAGTATCGACACTTTAT
*
33609 AGGATTTAAAACTGATTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
* * *
33661 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTATCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTACCGACACTTTAAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTCAATACCGGTTT
*
33726 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTTAAAAGTATCGACACTTTAT
33791 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
* * *
33843 AAAGTACCGACACTTTAAATGTATCCGATAGC-TCTTTACCGGTTTTATCATTTCAATATCGGTT
1 AAAGTACCGACACTTTAAATATATCCGGTAGCGT-TTTACCGGTTTTATCATTTCAATACCGGTT
*
33907 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
33953 AATTTGGATC
Statistics
Matches: 440, Mismatches: 32, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
181 166 0.38
182 274 0.62
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTACCGACACTTTAAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTCAATACCGGTTT
TATCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTTAAAAGTATCGACACTTTAT
AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
Found at i:34422 original size:19 final size:19
Alignment explanation
Indices: 34385--34422 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
34375 GTTTAATTTT
34385 TATTTTTTAATAATAAAAA
1 TATTTTTTAATAATAAAAA
*
34404 TATTATTTTAATTATAAAA
1 TATT-TTTTAATAATAAAA
34423 GAAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTTTTAATAATAAAAA
Found at i:36731 original size:20 final size:20
Alignment explanation
Indices: 36706--36747 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
36696 GAGGAATTTG
36706 TATTGAAAGGTTAAGACCTT
1 TATTGAAAGGTTAAGACCTT
36726 TATTGAAAGGTTAAGACCTT
1 TATTGAAAGGTTAAGACCTT
36746 TA
1 TA
36748 AATGAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (20 bp):
TATTGAAAGGTTAAGACCTT
Found at i:36888 original size:23 final size:23
Alignment explanation
Indices: 36843--36888 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36833 ATGAAATAAC
*
36843 TATTTTTCATGAAAAGACTTGAT
1 TATTTTTCATGAAAAGACATGAT
* *
36866 TATTTTTCATGAATAGTCATGAT
1 TATTTTTCATGAAAAGACATGAT
36889 CAATTCATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.46
Consensus pattern (23 bp):
TATTTTTCATGAAAAGACATGAT
Found at i:45044 original size:20 final size:20
Alignment explanation
Indices: 45019--45060 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
45009 GATGAATTTG
*
45019 TATTGAAAGGTTAATACCTT
1 TATTGAAAGGTTAAGACCTT
45039 TATTGAAAGGTTAAGACCTT
1 TATTGAAAGGTTAAGACCTT
45059 TA
1 TA
45061 AATGAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (20 bp):
TATTGAAAGGTTAAGACCTT
Found at i:45167 original size:23 final size:23
Alignment explanation
Indices: 45141--45190 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
45131 CCTTTTGGGG
*
45141 TGAAATGAAATAATTATTTTTCA
1 TGAAAAGAAATAATTATTTTTCA
**
45164 TGAAAAGACTTAATTATTTTTCA
1 TGAAAAGAAATAATTATTTTTCA
45187 TGAA
1 TGAA
45191 TATTCATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (23 bp):
TGAAAAGAAATAATTATTTTTCA
Found at i:56476 original size:14 final size:16
Alignment explanation
Indices: 56457--56496 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
56447 CTCAAGAGAA
56457 AAGAAGAA-T-CGATT
1 AAGAAGAACTACGATT
56471 AAGAAGAACGTACGATT
1 AAGAAGAAC-TACGATT
56488 AAGAAGAAC
1 AAGAAGAAC
56497 ATAACTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
16 1 0.04
17 14 0.61
ACGTcount: A:0.53, C:0.10, G:0.23, T:0.15
Consensus pattern (16 bp):
AAGAAGAACTACGATT
Found at i:58910 original size:17 final size:18
Alignment explanation
Indices: 58868--58911 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
58858 TTTATTTGAA
58868 TTTAATTATAAAAATTTAT
1 TTTAA-TATAAAAATTTAT
* *
58887 ATCAATAT-AAAATTTAT
1 TTTAATATAAAAATTTAT
58904 TTTAATAT
1 TTTAATAT
58912 TTTATAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 15 0.71
18 3 0.14
19 3 0.14
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAATATAAAAATTTAT
Found at i:59239 original size:43 final size:43
Alignment explanation
Indices: 59156--59241 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
59146 TGTAATTTTT
* * * * *
59156 TTATAATATGTTAATTTGGTATATTTGTGAATTGTAACTTTAA
1 TTATAATAAGTTAATTTAGTATATTTATAAATTATAACTTTAA
* *
59199 TTATAATAAGTTAATTTAGTGTATTTATAAATTATTACTTTAA
1 TTATAATAAGTTAATTTAGTATATTTATAAATTATAACTTTAA
59242 AGTTAAGTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.51
Consensus pattern (43 bp):
TTATAATAAGTTAATTTAGTATATTTATAAATTATAACTTTAA
Found at i:65898 original size:64 final size:65
Alignment explanation
Indices: 65772--65909 Score: 217
Period size: 64 Copynumber: 2.1 Consensus size: 65
65762 GGGAGTGTAC
* * *
65772 CGATGCACCAATCCATGCATCGATGCACTCAGGGTTTTATGAAAACATCGAATGCATTTTATGCA
1 CGATGCA-CAAGCCATGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATACATTTTATGCA
65837 T
65 T
65838 CGATGCACAAGCCATGCATCGATGCACTCAGGCTATTT-T-AAAACATCGAATACATTTTATGCA
1 CGATGCACAAGCCATGCATCGATGCACTCAGGCT-TTTATGAAAACATCGAATACATTTTATGCA
65901 T
65 T
65902 CGATGCAC
1 CGATGCAC
65910 TCTTAGTGCA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
64 32 0.47
65 26 0.38
66 10 0.15
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (65 bp):
CGATGCACAAGCCATGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATACATTTTATGCAT
Found at i:71746 original size:23 final size:22
Alignment explanation
Indices: 71716--71795 Score: 81
Period size: 23 Copynumber: 3.6 Consensus size: 22
71706 ACACTTAACA
71716 GTGCATCGATGCATCCTTTGAAT
1 GTGCATCGATGCATCC-TTGAAT
* * *
71739 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
*
71760 GTGCACCGATGCACTCCTTGAAT
1 GTGCATCGATGCA-TCCTTGAAT
**
71783 AAGCATCGATGCA
1 GTGCATCGATGCA
71796 CAAGGTCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 28 0.62
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:71763 original size:21 final size:23
Alignment explanation
Indices: 71716--71769 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
71706 ACACTTAACA
* * *
71716 GTGCATCGATGCATCCTTTGAAT
1 GTGCATCGATACATCCTATGAAG
71739 GTGCATCGATACA-CC-ATGAAG
1 GTGCATCGATACATCCTATGAAG
*
71760 GTGCACCGAT
1 GTGCATCGAT
71770 GCACTCCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 13 0.48
22 2 0.07
23 12 0.44
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (23 bp):
GTGCATCGATACATCCTATGAAG
Found at i:72837 original size:2 final size:2
Alignment explanation
Indices: 72830--72873 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
72820 ATGCCCATTC
72830 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72872 AT
1 AT
72874 CAAATCCACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73301 original size:32 final size:32
Alignment explanation
Indices: 73215--73338 Score: 101
Period size: 32 Copynumber: 3.9 Consensus size: 32
73205 CCTTGGAAAT
* * *
73215 TGTCCATAGGTCCC-AAAGAACCTAGGT-AAAC
1 TGTCCATATGTCCCGAAA-CACATAGGTAAAAC
* ** **
73246 TGTTCATATGTTCCTTAAA-ACATAGGTAATCC
1 TGTCCATATG-TCCCGAAACACATAGGTAAAAC
** *
73278 TGTCCATATGTCCCGAAGGACATAGGTAAAAT
1 TGTCCATATGTCCCGAAACACATAGGTAAAAC
*
73310 TGTCCATATGTCTCGAAACACATAGGTAA
1 TGTCCATATGTCCCGAAACACATAGGTAA
73339 CCCTCGACTC
Statistics
Matches: 73, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
31 20 0.27
32 50 0.68
33 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (32 bp):
TGTCCATATGTCCCGAAACACATAGGTAAAAC
Found at i:78135 original size:32 final size:32
Alignment explanation
Indices: 78062--78186 Score: 112
Period size: 32 Copynumber: 3.9 Consensus size: 32
78052 CCTCAGAAAT
* * * * *
78062 TGTCCATAGGTCCCAAATAACCTAGGTAA-AT
1 TGTCCATATGTCCCGAAGAACATAGGTAACAC
* * **
78093 TGTTCATATGTTCCTTAGAACATAGGTAATC-C
1 TGTCCATATGTCCCGAAGAACATAGGTAA-CAC
*
78125 TGTCCATATGTCCCGAAGGACATAGGTAACAC
1 TGTCCATATGTCCCGAAGAACATAGGTAACAC
*
78157 TGTCCATATGTCTCGAA-AGACATAGGTAAC
1 TGTCCATATGTCCCGAAGA-ACATAGGTAAC
78187 CCTCAACTCT
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
31 23 0.31
32 52 0.69
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (32 bp):
TGTCCATATGTCCCGAAGAACATAGGTAACAC
Found at i:81876 original size:65 final size:64
Alignment explanation
Indices: 81807--81958 Score: 191
Period size: 65 Copynumber: 2.4 Consensus size: 64
81797 TTGAACACCG
* * *
81807 AATGCATTTTATGCATCGATGCACATACCATGCATCAATGCACTCAGGGTT-TTATGAAAACATC
1 AATGCATTTTATGCATCGATGCACAGACCATGCATCAATGCACTCACGCTTGTT-TG-AAACATC
81871 A
64 A
* * * *
81872 AATGCATTTTATGCATCGATGAACAGACCATGCATCGATGCACTCTCGCTTGTTTGAAACATCG
1 AATGCATTTTATGCATCGATGCACAGACCATGCATCAATGCACTCACGCTTGTTTGAAACATCA
* *
81936 AATGCA-CTCATGCATCGATGCAC
1 AATGCATTTTATGCATCGATGCAC
81959 TCTCAGTGCA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
63 14 0.18
64 13 0.17
65 47 0.62
66 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (64 bp):
AATGCATTTTATGCATCGATGCACAGACCATGCATCAATGCACTCACGCTTGTTTGAAACATCA
Found at i:81973 original size:19 final size:18
Alignment explanation
Indices: 81942--81978 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
81932 ATCGAATGCA
*
81942 CTCATGCATCGATGCACT
1 CTCATGCACCGATGCACT
81960 CTCAGTGCACCGATGCACT
1 CTCA-TGCACCGATGCACT
81979 AAGGGTCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (18 bp):
CTCATGCACCGATGCACT
Found at i:84487 original size:10 final size:10
Alignment explanation
Indices: 84472--84499 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
84462 GAAGCATTAG
84472 AACATTTTAT
1 AACATTTTAT
84482 AACATTTTAT
1 AACATTTTAT
84492 AACATTTT
1 AACATTTT
84500 CAAAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (10 bp):
AACATTTTAT
Found at i:87667 original size:16 final size:16
Alignment explanation
Indices: 87642--87677 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
87632 CAAAAATCTT
87642 AATTTAATTTTTTTTA
1 AATTTAATTTTTTTTA
* *
87658 AATTTGATTTTTTTTC
1 AATTTAATTTTTTTTA
87674 AATT
1 AATT
87678 ATGTTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (16 bp):
AATTTAATTTTTTTTA
Found at i:88821 original size:21 final size:21
Alignment explanation
Indices: 88779--88822 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
88769 ACTCCGAGAG
* *
88779 CTAGTTCTTCACGGGCTGCTC
1 CTAGCTCTTCACGGGCTCCTC
* *
88800 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGGGCTCCTC
88821 CT
1 CT
88823 CCTGCACCGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.39, G:0.18, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGGGCTCCTC
Found at i:90057 original size:45 final size:46
Alignment explanation
Indices: 89960--90068 Score: 141
Period size: 45 Copynumber: 2.4 Consensus size: 46
89950 ATACACATAC
* * * *
89960 CATGCATCGATGCACTCAGGGTTTTATGAAAATATCGAATGCATTT
1 CATGCATCGATGCACTCTGGCTTTTATGAAAACATCGAATGCACTT
*
90006 TATGCATCGATGCACTCTGGCTTATT-TG-AAACATCGAATGCACTT
1 CATGCATCGATGCACTCTGGCTT-TTATGAAAACATCGAATGCACTT
*
90051 CATGCATCAATGCACTCT
1 CATGCATCGATGCACTCT
90069 TAGTGCACCG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
45 31 0.56
46 22 0.40
47 2 0.04
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (46 bp):
CATGCATCGATGCACTCTGGCTTTTATGAAAACATCGAATGCACTT
Found at i:91826 original size:64 final size:65
Alignment explanation
Indices: 91671--91830 Score: 245
Period size: 65 Copynumber: 2.5 Consensus size: 65
91661 GAATAAATTG
* * *
91671 AACATCGAATGCATATTATGCATCAATGCACATACCATGCATCGATGCACTCAGGGTTTTATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTATGAA
91736 AACATCGAATGCATTTTATGCATCGATGCACA-AGCCATGCATCGATGCACTCAGGCTATTT-T-
1 AACATCGAATGCATTTTATGCATCGATGCACATA-CCATGCATCGATGCACTCAGGCT-TTTATG
91798 AA
64 AA
*
91800 AACATCGAATGCATTTTATACATCGATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCAC
91831 TCTTAGTGCA
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
64 33 0.37
65 53 0.60
66 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTATGAA
Found at i:93838 original size:20 final size:22
Alignment explanation
Indices: 93815--93860 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
93805 ATGGTATCCT
93815 TACTCTTAT-G-AGAGTATCGA
1 TACTCTTATAGAAGAGTATCGA
*
93835 TACTCTTATAGAAGGGTATCGA
1 TACTCTTATAGAAGAGTATCGA
93857 TACT
1 TACT
93861 ACCCAAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
21 1 0.04
22 13 0.57
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (22 bp):
TACTCTTATAGAAGAGTATCGA
Found at i:94480 original size:31 final size:31
Alignment explanation
Indices: 94445--94515 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
94435 TCCAAGTGAT
* * *
94445 CAAAACTTAATAAAACGATTACGTAAGTAAC
1 CAAAACTTAATAAAACAATAACGTAAATAAC
*
94476 CAAAACTTAATAAAACAATAACGTAAATGAC
1 CAAAACTTAATAAAACAATAACGTAAATAAC
94507 CAAAACTTA
1 CAAAACTTA
94516 TGCTTTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (31 bp):
CAAAACTTAATAAAACAATAACGTAAATAAC
Found at i:97719 original size:2 final size:2
Alignment explanation
Indices: 97712--97743 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
97702 TTCTTTTTAA
97712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97744 TAGTTGCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98338 original size:30 final size:30
Alignment explanation
Indices: 98304--98395 Score: 123
Period size: 30 Copynumber: 3.0 Consensus size: 30
98294 TTGGAGGCGC
* * *
98304 ATTTGAACTTACAAAATTTTAGAG-GATCGA
1 ATTTGAACTTATAAAATTTTAGAGAAAT-AA
98334 ATTTGAACTTATAAAATTTTAGAGAAATAA
1 ATTTGAACTTATAAAATTTTAGAGAAATAA
*
98364 ACTTGAACTTATAAAATTTTAAGAGAAATAA
1 ATTTGAACTTATAAAATTTT-AGAGAAATAA
98395 A
1 A
98396 AATAAATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
30 43 0.77
31 13 0.23
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.34
Consensus pattern (30 bp):
ATTTGAACTTATAAAATTTTAGAGAAATAA
Found at i:98406 original size:23 final size:22
Alignment explanation
Indices: 98373--98430 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
98363 AACTTGAACT
98373 TATAAAATTTTAAGAGAAATAAAA
1 TATAAAATTTTAAGA-AAA-AAAA
* *
98397 -ATAAATTTTTAATAAAAAAAA
1 TATAAAATTTTAAGAAAAAAAA
98418 TATAAAATTTTAA
1 TATAAAATTTTAA
98431 AATTTTAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 14 0.47
23 12 0.40
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (22 bp):
TATAAAATTTTAAGAAAAAAAA
Found at i:100682 original size:41 final size:40
Alignment explanation
Indices: 100637--100777 Score: 169
Period size: 41 Copynumber: 3.5 Consensus size: 40
100627 TTCGCGCTGC
* *
100637 ATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTCT
1 ATTTCGCGTTGCGATAGTT-AAAATCGCGTTACGATTTTCT
*
100678 ATTTCGCGTTGCGATAGTTAAAAATCGTGTTACGATTTTTCT
1 ATTTCGCGTTGCGATAGTT-AAAATCGCGTTACGA-TTTTCT
* * *
100720 -TTTCGCGTTGCGATAGTCTACAGT-GTCGTTACGATTTTCC
1 ATTTCGCGTTGCGATAGT-TAAAATCG-CGTTACGATTTTCT
100760 ATTTCGCGTTGCGATAGT
1 ATTTCGCGTTGCGATAGT
100778 CTACAGTGTC
Statistics
Matches: 88, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
40 6 0.07
41 75 0.85
42 7 0.08
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (40 bp):
ATTTCGCGTTGCGATAGTTAAAATCGCGTTACGATTTTCT
Found at i:100774 original size:20 final size:21
Alignment explanation
Indices: 100636--100839 Score: 82
Period size: 20 Copynumber: 9.8 Consensus size: 21
100626 ATTCGCGCTG
*
100636 CATTTCGCGTTGCGATAGTTGA
1 CATTTCGCGTTGCGATA-TTTA
** *
100658 -AAATCGCATTGCGAT-TTT-
1 CATTTCGCGTTGCGATATTTA
*
100676 CTATTTCGCGTTGCGATAGTTA
1 C-ATTTCGCGTTGCGATATTTA
* ** * * *
100698 AAAATCGTGTTACGAT-TTTT
1 CATTTCGCGTTGCGATATTTA
* *
100718 CTTTTCGCGTTGCGATAGTCTA
1 CATTTCGCGTTGCGATA-TTTA
* * *
100740 CA-GT-GTCGTTACGAT-TTTC
1 CATTTCG-CGTTGCGATATTTA
*
100759 CATTTCGCGTTGCGATAGTCTA
1 CATTTCGCGTTGCGATA-TTTA
* *
100781 CAGTGTCGCGTTGCGATAGTTA
1 CA-TTTCGCGTTGCGATATTTA
* ** * *
100803 AAAATCGCGTTGCGAT-TATC
1 CATTTCGCGTTGCGATATTTA
100823 CATTTCGCGTTGCGATA
1 CATTTCGCGTTGCGATA
100840 GTGTACAGTG
Statistics
Matches: 125, Mismatches: 44, Indels: 27
0.64 0.22 0.14
Matches are distributed among these distances:
19 6 0.05
20 48 0.38
21 47 0.38
22 10 0.08
23 14 0.11
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (21 bp):
CATTTCGCGTTGCGATATTTA
Found at i:100812 original size:21 final size:23
Alignment explanation
Indices: 100763--100818 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
100753 ATTTTCCATT
***
100763 TCGCGTTGCGATAGTCTACAGTG
1 TCGCGTTGCGATAGTCTACAAAA
100786 TCGCGTTGCGATAGT-TA-AAAA
1 TCGCGTTGCGATAGTCTACAAAA
100807 TCGCGTTGCGAT
1 TCGCGTTGCGAT
100819 TATCCATTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 13 0.43
22 2 0.07
23 15 0.50
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (23 bp):
TCGCGTTGCGATAGTCTACAAAA
Found at i:100922 original size:6 final size:6
Alignment explanation
Indices: 100911--100947 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
100901 GACACGTATT
100911 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
100948 GACGAGACGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:101442 original size:5 final size:5
Alignment explanation
Indices: 101434--101485 Score: 59
Period size: 5 Copynumber: 9.6 Consensus size: 5
101424 CCGTCTCGTC
*
101434 TCGGG TCGGG TCGGG TCGGG TCGTG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG-GG TCG-GG
101483 TCG
1 TCG
101486 TGGTAATACG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 22 0.50
6 22 0.50
ACGTcount: A:0.00, C:0.19, G:0.52, T:0.29
Consensus pattern (5 bp):
TCGGG
Found at i:101469 original size:6 final size:6
Alignment explanation
Indices: 101437--101489 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
101427 TCTCGTCTCG
101437 GGTCG- GGTCG- GGTCG- GGTCGT -GTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
101481 GGTCGT GGT
1 GGTCGT GGT
101490 AATACGTGTC
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
5 20 0.43
6 26 0.57
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:101645 original size:41 final size:41
Alignment explanation
Indices: 101592--101881 Score: 248
Period size: 41 Copynumber: 6.9 Consensus size: 41
101582 GCAATGAATT
101592 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
* * *
101633 TGGAAAATCGCAACGACACTGTACACTATCGCAATGCGAGA
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
* * **
101674 TGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATT
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
** * * ** *
101715 TTCAACTATCGCAACG-CGAAATG--GAAAATCGCAACGATTGCAATGA
1 TGGAA-AATCGCAACGAC--ACTGTAGACTATCGCAACG--CG-AA--A
* * * * *
101761 CTGTACACTATCGCAACG-CGATTTTCA-TCTATCGCAACGCGAAA
1 -TGGA-A-AATCGCAACGAC-ACTGT-AGACTATCGCAACGCGAAA
101805 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
*
101846 TGGAAAATCGCAACGACACTGTAGACAATCGCAACG
1 TGGAAAATCGCAACGACACTGTAGACTATCGCAACG
101882 ACACTGTAGA
Statistics
Matches: 201, Mismatches: 33, Indels: 30
0.76 0.12 0.11
Matches are distributed among these distances:
40 1 0.00
41 152 0.76
42 10 0.05
43 7 0.03
44 2 0.01
46 2 0.01
47 5 0.02
48 13 0.06
49 9 0.04
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (41 bp):
TGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAA
Found at i:101706 original size:62 final size:61
Alignment explanation
Indices: 101656--101930 Score: 284
Period size: 62 Copynumber: 4.3 Consensus size: 61
101646 CGACACTGTA
* *
101656 CACTATCGCAATGCGAGATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTT
1 CACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTT
*
101717 CAACTATCGCAACGCGAAATGGAAAATCGCAACGATTGCAATGACTGTACACTATCGCAACGCGA
1 C-ACTATCGCAACGCGAAATGGAAAATCGC-A--A-TG--A-CACTGTACACTATCGCAACGCGA
101782 TTTT
58 TTTT
* * ** *
101786 CATCTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATG
1 CA-CTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTT
* ** * * * *
101848 GAAAATCGCAA--CGACACTGTAGACAATCGCAACGACACTGTAGACTATCGCAACGCGATTTT
1 CACTATCGCAACGCGA-AATG--GAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTT
101910 CAACTATCGCAACGCGAAATG
1 C-ACTATCGCAACGCGAAATG
101931 CAACGCGAAT
Statistics
Matches: 178, Mismatches: 21, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
59 3 0.02
60 3 0.02
61 8 0.04
62 86 0.48
63 10 0.06
64 3 0.02
65 5 0.03
66 3 0.02
68 3 0.02
69 54 0.30
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (61 bp):
CACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTACACTATCGCAACGCGATTTT
Found at i:101796 original size:69 final size:69
Alignment explanation
Indices: 101691--101820 Score: 251
Period size: 69 Copynumber: 1.9 Consensus size: 69
101681 TCGCAATGAC
101691 ACTGTACACTATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGATTGC
1 ACTGTACACTATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGATTGC
101756 AATG
66 AATG
*
101760 ACTGTACACTATCGCAACGCGATTTTCATCTATCGCAACGCGAAATGGAAAATCGCAACGA
1 ACTGTACACTATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGA
101821 CACTGTAGAC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (69 bp):
ACTGTACACTATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGATTGC
AATG
Found at i:101816 original size:20 final size:20
Alignment explanation
Indices: 101791--101860 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
101781 ATTTTCATCT
101791 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
101811 ATCGCAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
101832 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
101852 ATCGCAACG
1 ATCGCAACG
101861 ACACTGTAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 18 0.46
21 9 0.23
22 3 0.08
23 3 0.08
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.13
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:101837 original size:21 final size:21
Alignment explanation
Indices: 101810--101902 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
101800 CGAAATGGAA
101810 AATCGCAACGACACTGTAGAC
1 AATCGCAACGACACTGTAGAC
* * *
101831 TATCGCAACG-CGAAATG--GAA
1 AATCGCAACGAC--ACTGTAGAC
101851 AATCGCAACGACACTGTAGAC
1 AATCGCAACGACACTGTAGAC
101872 AATCGCAACGACACTGTAGAC
1 AATCGCAACGACACTGTAGAC
*
101893 TATCGCAACG
1 AATCGCAACG
101903 CGATTTTCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
19 3 0.05
20 12 0.20
21 42 0.70
22 3 0.05
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.15
Consensus pattern (21 bp):
AATCGCAACGACACTGTAGAC
Found at i:101934 original size:21 final size:21
Alignment explanation
Indices: 101767--101934 Score: 64
Period size: 21 Copynumber: 8.1 Consensus size: 21
101757 ATGACTGTAC
** *
101767 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
* *
101788 TCTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * *
101809 A-AATCGCAA--CGACACTGTA
1 ACTATCGCAACGCGA-AATGCA
*
101828 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGCA
* * *
101850 A-AATCGCAA--CGACACTGTA
1 ACTATCGCAACGCGA-AATGCA
* * *
101869 GACAATCGCAA--CGACACTGTA
1 -ACTATCGCAACGCGA-AATGCA
** *
101890 GACTATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGCA
101912 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
101933 AC
1 AC
101935 GCGAATTTGC
Statistics
Matches: 114, Mismatches: 23, Indels: 20
0.73 0.15 0.13
Matches are distributed among these distances:
18 6 0.05
19 8 0.07
20 16 0.14
21 72 0.63
22 6 0.05
23 6 0.05
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:104203 original size:55 final size:55
Alignment explanation
Indices: 104084--104811 Score: 914
Period size: 55 Copynumber: 13.3 Consensus size: 55
104074 GGTGCATGGA
* * * * *
104084 ACTCGTACAATCTTCAACAAACATCTCTGCTCTCTATTC-TTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAG
* *
104138 ACTCGAACAATCTTTAACAATCGTGTCTGCTCCCTATTCATTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAG
* * *
104193 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAATACAAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAG
* * * * *
104248 ACTCGAACAATCTTCAATAATCGTGTCTACTCCCTATTCCTTCAGAGAATATGAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAG
* * *
104303 ACTCGAACAATCTTCAATAATCGTGTATGCTCCCTATTTTTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAG
* * * * *
104358 ACTCAAACAATCTTCAAC-ATCATGTATGCTCCCTATT-TCTTCAGAGAATATGAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCT-TTCAGAGAGTATAAG
* ** * * *
104412 ACTCGAATAATCTTCTGCAAACGGGT-TCGCTCCCTCTTTCTTTCAG-GAAGTAT-AG
1 ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCT-ATTCTTTCAGAG-AGTATAAG
* * *
104467 AACTCGAATAATCTTCAATAATCGTGTCTGCTCCCTATTTTTTCAGAGAGTATAAG
1 -ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAG
* *
104523 ACTCGAACAATCTTCAAC-ATCGTGTCCGCTCCCTATT-TCTTCAGAGAGTATGAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCT-TTCAGAGAGTATAAG
* * * *
104577 ACTCGAACAATCTTCAATAATCGTGTCTGTTCCCTATTTTTTTAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAG
* *
104632 ACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCGTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAG
* * *
104687 ACTCGGACAATCTTCAATAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAG
* * * *
104742 ACTCAAACAATCTTCAATAATCGTGTCTGCTCTCTATTCGTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAG
*
104797 ACTTGAACAATCTTC
1 ACTCGAACAATCTTC
104812 TTCCTACAGG
Statistics
Matches: 594, Mismatches: 66, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
53 2 0.00
54 128 0.22
55 419 0.71
56 43 0.07
57 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (55 bp):
ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAG
Found at i:105006 original size:112 final size:111
Alignment explanation
Indices: 104826--105304 Score: 533
Period size: 112 Copynumber: 4.4 Consensus size: 111
104816 TACAGGTTCG
* * * * * **
104826 CTCTTTCTTT-TGGGAGTATGGAACTCGAATAATCTTCTGCGAA-TGGTTCGCTTACTCTTTCTT
1 CTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTT
*
104889 TCAGGAAGTATAGAACTCGAATATTCTTCTGCAAACGGGTTCGCTCC
66 TCAGGAAGTATAGAACTCGAATA-TCTTCTACAAACGGGTTCGCTCC
* * * *
104936 CTCTTTCTTTCAGGAAGTATATAACTCGAATAACCTTCTACAAACGGGTTCGCTTCCTCTTTCTT
1 CTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTT
*
105001 TCAGGAAGTATAGAACTCGAATAATCTTCTACAAACGGGTTCGCTTC
66 TCAGGAAGTATAGAACTCGAAT-ATCTTCTACAAACGGGTTCGCTCC
** *
105048 CTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACCAGTTCGCTCCCTTTTTCTT
1 CTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTT
* * * * ** *
105113 TCAGAAAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCACTCC
66 TCAGGAAGTATAGAACTCGAATATCTTCTACAAACGGGTTCGCTCC
* * *
105159 CTCTTTCTCT-AGGGAGTATAGAACTC-AA-ACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCT
1 CTCTTTCTTTCAGGAAGTATAGAACTCGAATA-ATCTTCTGCAAACGGGTTCGCTCCCTCTTTCT
* * * * * ** *
105221 CTAAGG-AGTATAGAACTCGGACATCTTTTTA-AAATAGGTTTGCTCC
65 TTCAGGAAGTATAGAACTCGAATATC-TTCTACAAACGGGTTCGCTCC
* * *
105267 CTCTTTCTTT-AGGGAGTATGGAACTCGAACAATCTTCT
1 CTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCT
105305 TTGCTTCACT
Statistics
Matches: 315, Mismatches: 47, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
108 51 0.16
109 45 0.14
110 26 0.08
111 54 0.17
112 138 0.44
113 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (111 bp):
CTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTT
TCAGGAAGTATAGAACTCGAATATCTTCTACAAACGGGTTCGCTCC
Found at i:105132 original size:168 final size:166
Alignment explanation
Indices: 104826--105239 Score: 539
Period size: 168 Copynumber: 2.5 Consensus size: 166
104816 TACAGGTTCG
* * * * * *
104826 CTCTTTCTTTTGGGAGTATGGAACTCGAATAATCTTCTGCGAA-TGGTTCGCTTACTCTTTCTTT
1 CTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTACAAACGGGTTCGCTTCCTCTTTCTTT
* ** *
104890 CAGGAAGTATAGAACTCGAATATTCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGAAGTA
66 CAGGAAGTATAGAACTCGAATAATCTTCTGCAAACCAGTTCGCTCCCTCTTTCTTTCAGAAAGTA
* * *
104955 TATAACTCGAATAACCTTCTACAAACGGGTTCGCTTC
131 TAGAACTCGAA-AACCTTCTACAAACGGGTTCACTCC
*
104992 CTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTACAAACGGGTTCGCTTCCTCTTTCTT
1 CTCTTTCTTT-AGGGAGTATAGAACTCGAATAATCTTCTACAAACGGGTTCGCTTCCTCTTTCTT
*
105057 TCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACCAGTTCGCTCCCTTTTTCTTTCAGAAAGT
65 TCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACCAGTTCGCTCCCTCTTTCTTTCAGAAAGT
* * * * **
105122 ATGGAACTCGAACATCTTCTTCTTACGGGTTCACTCC
130 ATAGAACTCGAAAACCTTCTACAAACGGGTTCACTCC
* * * *
105159 CTCTTTCTCTAGGGAGTATAGAACTC-AA-ACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTC
1 CTCTTTCTTTAGGGAGTATAGAACTCGAATA-ATCTTCTACAAACGGGTTCGCTTCCTCTTTCTT
*
105222 TAAGG-AGTATAGAACTCG
65 TCAGGAAGTATAGAACTCG
105240 GACATCTTTT
Statistics
Matches: 218, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
164 14 0.06
165 36 0.17
166 25 0.11
167 55 0.25
168 88 0.40
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (166 bp):
CTCTTTCTTTAGGGAGTATAGAACTCGAATAATCTTCTACAAACGGGTTCGCTTCCTCTTTCTTT
CAGGAAGTATAGAACTCGAATAATCTTCTGCAAACCAGTTCGCTCCCTCTTTCTTTCAGAAAGTA
TAGAACTCGAAAACCTTCTACAAACGGGTTCACTCC
Found at i:105192 original size:54 final size:55
Alignment explanation
Indices: 104870--105305 Score: 443
Period size: 56 Copynumber: 7.9 Consensus size: 55
104860 TTCTGCGAAT
** * * *
104870 GGTTCGCTTACTCTTTCTTTCAGGAAGTATAGAACTCGAATATTCTTCTGCAAACG
1 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCAAACA-TCTTCTTCAAACG
* * *
104926 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATATAACTCGAATA-ACCTTCTACAAACG
1 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTC-AA-ACATCTTCTTCAAACG
* *
104982 GGTTCGCTTCCTCTTTCTTTCAGGAAGTATAGAACTCGAATA-ATCTTCTACAAACG
1 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTC-AA-ACATCTTCTTCAAACG
* * *
105038 GGTTCGCTTCCTCTTTCTTTCAGGAAGTATAGAACTCGAATA-ATCTTCTGCAAACC
1 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTC-AA-ACATCTTCTTCAAACG
* * * * * **
105094 AGTTCGCTCCCTTTTTCTTTCAGAAAGTATGGAACTCGAACATCTTCTTCTTACG
1 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCAAACATCTTCTTCAAACG
* * *
105149 GGTTCACTCCCTCTTTCTCT-AGGGAGTATAGAACTCAAACATCTTCTTCAAACG
1 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCAAACATCTTCTTCAAACG
* * ** * * **
105203 GGTTCGCTCCCTCTTTCTCTAAGG-AGTATAGAACTCGGACATCTTTTTAAAATA
1 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCAAACATCTTCTTCAAACG
* * * *
105257 GGTTTGCTCCCTCTTTCTTT-AGGGAGTATGGAACTCGAACAATCTTCTT
1 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCAAAC-ATCTTCTT
105306 TGCTTCACTA
Statistics
Matches: 331, Mismatches: 43, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
53 3 0.01
54 104 0.31
55 37 0.11
56 184 0.56
57 2 0.01
58 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (55 bp):
GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCAAACATCTTCTTCAAACG
Found at i:105689 original size:36 final size:37
Alignment explanation
Indices: 105634--105741 Score: 98
Period size: 36 Copynumber: 3.0 Consensus size: 37
105624 TGATGATCTG
* **
105634 ATGGTTTGCTTCAAC-ACTCTTCT-GAGAAGGTTTAAA
1 ATGGATTGCTTC-ACTACTCTTCTGGAGAAGACTTAAA
* *
105670 ATGGATTGCTTCACTACTCTT-TGGTGAAGACTTAAG
1 ATGGATTGCTTCACTACTCTTCTGGAGAAGACTTAAA
* * *
105706 ATCGACTTGCTTCACTACTCTTC-GGTGAAGGCTTAA
1 ATGGA-TTGCTTCACTACTCTTCTGGAGAAGACTTAA
105742 GATTGATTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
35 3 0.05
36 30 0.49
37 28 0.46
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (37 bp):
ATGGATTGCTTCACTACTCTTCTGGAGAAGACTTAAA
Found at i:111952 original size:642 final size:642
Alignment explanation
Indices: 110729--112012 Score: 2568
Period size: 642 Copynumber: 2.0 Consensus size: 642
110719 GATCCGGGAA
110729 GAGTTACATCGATTACAAAGTCATCAATGGCCTCCACTTCAAACTTCGACTCCGGTCTTGATTCG
1 GAGTTACATCGATTACAAAGTCATCAATGGCCTCCACTTCAAACTTCGACTCCGGTCTTGATTCG
110794 ATGCCCGTCAACAAGCCTCCTTTCTTCAATGGAGCTAACTATGCCTATTGGAAGAATAGAATGAT
66 ATGCCCGTCAACAAGCCTCCTTTCTTCAATGGAGCTAACTATGCCTATTGGAAGAATAGAATGAT
110859 GTACTTCATTCAAGCAAGTGACATGGGAGCATGGAATGCTGTAGAAGAAGGATACATCAAACCTC
131 GTACTTCATTCAAGCAAGTGACATGGGAGCATGGAATGCTGTAGAAGAAGGATACATCAAACCTC
110924 TCACTCATCCAAGGTTGTGGAGTGAAGGAGAGACAAGAATGTTCCAGCTCAACTCCAAAGCCATC
196 TCACTCATCCAAGGTTGTGGAGTGAAGGAGAGACAAGAATGTTCCAGCTCAACTCCAAAGCCATC
110989 CATATTATTTTTTGTGCTCTTGGACCAGATGAATACGGAAGAGTTTCATCGTGTACAACCGCCAA
261 CATATTATTTTTTGTGCTCTTGGACCAGATGAATACGGAAGAGTTTCATCGTGTACAACCGCCAA
111054 AGAAATATGGGACAAACTTCAAGTCACACATGAAGGTACAGATGAGGTAAAGAAATCAAAAATTA
326 AGAAATATGGGACAAACTTCAAGTCACACATGAAGGTACAGATGAGGTAAAGAAATCAAAAATTA
111119 GTATTCTAACGCATAGCTATGAAAATTTCAGGATGAAACCAAATGAAGACATCAAAGCTATGACG
391 GTATTCTAACGCATAGCTATGAAAATTTCAGGATGAAACCAAATGAAGACATCAAAGCTATGACG
111184 GATAGATTTTCAACGATTGTCAATGGTCTCAAATCATATGGAGAGATCATCTCAAATGAAAAGCT
456 GATAGATTTTCAACGATTGTCAATGGTCTCAAATCATATGGAGAGATCATCTCAAATGAAAAGCT
111249 TGTGAGGAAGTTGGTCTACTCCCTCCCAAAATCATGGCAATCAAAGAAGACGGCAATCATCGAGT
521 TGTGAGGAAGTTGGTCTACTCCCTCCCAAAATCATGGCAATCAAAGAAGACGGCAATCATCGAGT
111314 CTAAGGACCTATCGTCCTTAACTCTTGAAGAACTTATCGGTTCACTCCTCACTCATG
586 CTAAGGACCTATCGTCCTTAACTCTTGAAGAACTTATCGGTTCACTCCTCACTCATG
111371 GAGTTACATCGATTACAAAGTCATCAATGGCCTCCACTTCAAACTTCGACTCCGGTCTTGATTCG
1 GAGTTACATCGATTACAAAGTCATCAATGGCCTCCACTTCAAACTTCGACTCCGGTCTTGATTCG
111436 ATGCCCGTCAACAAGCCTCCTTTCTTCAATGGAGCTAACTATGCCTATTGGAAGAATAGAATGAT
66 ATGCCCGTCAACAAGCCTCCTTTCTTCAATGGAGCTAACTATGCCTATTGGAAGAATAGAATGAT
111501 GTACTTCATTCAAGCAAGTGACATGGGAGCATGGAATGCTGTAGAAGAAGGATACATCAAACCTC
131 GTACTTCATTCAAGCAAGTGACATGGGAGCATGGAATGCTGTAGAAGAAGGATACATCAAACCTC
111566 TCACTCATCCAAGGTTGTGGAGTGAAGGAGAGACAAGAATGTTCCAGCTCAACTCCAAAGCCATC
196 TCACTCATCCAAGGTTGTGGAGTGAAGGAGAGACAAGAATGTTCCAGCTCAACTCCAAAGCCATC
111631 CATATTATTTTTTGTGCTCTTGGACCAGATGAATACGGAAGAGTTTCATCGTGTACAACCGCCAA
261 CATATTATTTTTTGTGCTCTTGGACCAGATGAATACGGAAGAGTTTCATCGTGTACAACCGCCAA
111696 AGAAATATGGGACAAACTTCAAGTCACACATGAAGGTACAGATGAGGTAAAGAAATCAAAAATTA
326 AGAAATATGGGACAAACTTCAAGTCACACATGAAGGTACAGATGAGGTAAAGAAATCAAAAATTA
111761 GTATTCTAACGCATAGCTATGAAAATTTCAGGATGAAACCAAATGAAGACATCAAAGCTATGACG
391 GTATTCTAACGCATAGCTATGAAAATTTCAGGATGAAACCAAATGAAGACATCAAAGCTATGACG
111826 GATAGATTTTCAACGATTGTCAATGGTCTCAAATCATATGGAGAGATCATCTCAAATGAAAAGCT
456 GATAGATTTTCAACGATTGTCAATGGTCTCAAATCATATGGAGAGATCATCTCAAATGAAAAGCT
111891 TGTGAGGAAGTTGGTCTACTCCCTCCCAAAATCATGGCAATCAAAGAAGACGGCAATCATCGAGT
521 TGTGAGGAAGTTGGTCTACTCCCTCCCAAAATCATGGCAATCAAAGAAGACGGCAATCATCGAGT
111956 CTAAGGACCTATCGTCCTTAACTCTTGAAGAACTTATCGGTTCACTCCTCACTCATG
586 CTAAGGACCTATCGTCCTTAACTCTTGAAGAACTTATCGGTTCACTCCTCACTCATG
112013 AGATGATGCT
Statistics
Matches: 642, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
642 642 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (642 bp):
GAGTTACATCGATTACAAAGTCATCAATGGCCTCCACTTCAAACTTCGACTCCGGTCTTGATTCG
ATGCCCGTCAACAAGCCTCCTTTCTTCAATGGAGCTAACTATGCCTATTGGAAGAATAGAATGAT
GTACTTCATTCAAGCAAGTGACATGGGAGCATGGAATGCTGTAGAAGAAGGATACATCAAACCTC
TCACTCATCCAAGGTTGTGGAGTGAAGGAGAGACAAGAATGTTCCAGCTCAACTCCAAAGCCATC
CATATTATTTTTTGTGCTCTTGGACCAGATGAATACGGAAGAGTTTCATCGTGTACAACCGCCAA
AGAAATATGGGACAAACTTCAAGTCACACATGAAGGTACAGATGAGGTAAAGAAATCAAAAATTA
GTATTCTAACGCATAGCTATGAAAATTTCAGGATGAAACCAAATGAAGACATCAAAGCTATGACG
GATAGATTTTCAACGATTGTCAATGGTCTCAAATCATATGGAGAGATCATCTCAAATGAAAAGCT
TGTGAGGAAGTTGGTCTACTCCCTCCCAAAATCATGGCAATCAAAGAAGACGGCAATCATCGAGT
CTAAGGACCTATCGTCCTTAACTCTTGAAGAACTTATCGGTTCACTCCTCACTCATG
Found at i:116421 original size:23 final size:21
Alignment explanation
Indices: 116368--116430 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
116358 TTTTGGTGCA
*
116368 GAGGGAATCGATTCCCCCCCT
1 GAGGGAACCGATTCCCCCCCT
**
116389 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCCT
116410 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
116431 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 19 0.53
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.17
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCCT
Found at i:116438 original size:21 final size:21
Alignment explanation
Indices: 116370--116451 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 21
116360 TTGGTGCAGA
* *
116370 GGGAATCGATTCCCCCC-CTG
1 GGGAACCGATTCCCCCCACAG
*
116390 AGGGAACCGATTCCCCCTTTGA-AG
1 -GGGAACCGATTCCCCC---CACAG
116414 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCACAG
* *
116435 GGGAATCGATACCCCCC
1 GGGAACCGATTCCCCCC
116452 TGGGGTTCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.02
21 32 0.64
23 16 0.32
24 1 0.02
ACGTcount: A:0.22, C:0.38, G:0.24, T:0.16
Consensus pattern (21 bp):
GGGAACCGATTCCCCCCACAG
Found at i:121505 original size:55 final size:55
Alignment explanation
Indices: 121377--121505 Score: 206
Period size: 55 Copynumber: 2.3 Consensus size: 55
121367 CTTCAAACTC
* * *
121377 CATTCATTGGATGTCCTTATTCATGAATCGTTCTTCAATCAGGTTCAAATTTGTT
1 CATTCATTGGATGTCCTTCTTCATGAATCGATCTTCAATCAGGTTCAAATTTCTT
*
121432 CATTCATTTGATGTCCTTCTTCATGAATCGATCTTCAATCAGGTTCAAATTTCTT
1 CATTCATTGGATGTCCTTCTTCATGAATCGATCTTCAATCAGGTTCAAATTTCTT
121487 CATTC-TTCGGATGTCCTTC
1 CATTCATT-GGATGTCCTTC
121506 ATGAATCATT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
54 2 0.03
55 66 0.97
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (55 bp):
CATTCATTGGATGTCCTTCTTCATGAATCGATCTTCAATCAGGTTCAAATTTCTT
Found at i:125124 original size:15 final size:15
Alignment explanation
Indices: 125088--125128 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
125078 TATCAAACTT
125088 ATAATAATAACCAAA
1 ATAATAATAACCAAA
*
125103 ATTATAATAA-CAATA
1 ATAATAATAACCAA-A
125118 ATAATAA-AACC
1 ATAATAATAACC
125129 CGATTAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAATAATAACCAAA
Found at i:127929 original size:9 final size:7
Alignment explanation
Indices: 127908--127944 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
127898 ATTTTCTATA
127908 TATAATT
1 TATAATT
127915 TATAATT
1 TATAATT
127922 CTAGTAATT
1 -TA-TAATT
127931 TATAATT
1 TATAATT
127938 TATAATT
1 TATAATT
127945 CTAGTAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 19 0.68
8 4 0.14
9 5 0.18
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (7 bp):
TATAATT
Found at i:127938 original size:23 final size:24
Alignment explanation
Indices: 127906--127962 Score: 98
Period size: 23 Copynumber: 2.4 Consensus size: 24
127896 TAATTTTCTA
127906 TATATAATTTATAATTCTAGTAAT
1 TATATAATTTATAATTCTAGTAAT
127930 T-TATAATTTATAATTCTAGTAAT
1 TATATAATTTATAATTCTAGTAAT
*
127953 TAAATAATTT
1 TATATAATTT
127963 TGAATCCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 23 0.74
24 8 0.26
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (24 bp):
TATATAATTTATAATTCTAGTAAT
Found at i:128088 original size:22 final size:22
Alignment explanation
Indices: 128063--128105 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
128053 TAAGTCGACA
*
128063 ATAAATTTTCAATAAAAAATAT
1 ATAAATTTTAAATAAAAAATAT
* *
128085 ATAATTTTTAAATAAATAATA
1 ATAAATTTTAAATAAAAAATA
128106 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAATTTTAAATAAAAAATAT
Found at i:128112 original size:17 final size:19
Alignment explanation
Indices: 128075--128114 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
128065 AAATTTTCAA
128075 TAAA-AAATATATAATTTT
1 TAAATAAATATATAATTTT
128093 TAAATAAATA-ATAA-TTT
1 TAAATAAATATATAATTTT
128110 TAAAT
1 TAAAT
128115 TTTTATGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
18 8 0.38
19 5 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATAAATATATAATTTT
Found at i:132241 original size:17 final size:17
Alignment explanation
Indices: 132186--132242 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
132176 ATTTTATTGT
132186 ATATTTAATAAATATAA
1 ATATTTAATAAATATAA
* *
132203 ATA-TCAA-AGATAT-A
1 ATATTTAATAAATATAA
*
132217 AGATTTAATAAATATAA
1 ATATTTAATAAATATAA
132234 ATATTTAAT
1 ATATTTAAT
132243 TTATAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
14 3 0.10
15 8 0.26
16 8 0.26
17 12 0.39
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (17 bp):
ATATTTAATAAATATAA
Found at i:133995 original size:129 final size:123
Alignment explanation
Indices: 133853--134097 Score: 420
Period size: 122 Copynumber: 1.9 Consensus size: 123
133843 TATGTTATGG
133853 ATTGATTCTAATTTAAATAATTTTTTATTTATTTATAATATATATATATATATATATATCTCATA
1 ATTGATTCTAATTTAAATAATTTTTTATTT-TTT-T-ATA-ATATATATATATATATA--T-ATA
133918 ATTTTCACATATATAAATAAAAATTGTAATTGTATTTAATAAATTAAATAT-ATATAAAATTGTA
59 ATTTTCACATATATAAATAAAAATTGTAATTGTATTTAATAAATTAAATATAATATAAAATTGTA
133982 ATTGATTCTAATTTAAATAATTTTTTATTTTTTTATAATATATATATATATATATATAATTTTCA
1 ATTGATTCTAATTTAAATAATTTTTTATTTTTTTATAATATATATATATATATATATAATTTTCA
134047 CATATATAAATAAAAATTGTAATTGTATTTAATAAATTAAATATAATATAA
66 CATATATAAATAAAAATTGTAATTGTATTTAATAAATTAAATATAATATAA
134098 TATAAAATTT
Statistics
Matches: 115, Mismatches: 0, Indels: 8
0.93 0.00 0.07
Matches are distributed among these distances:
122 54 0.47
123 7 0.06
125 17 0.15
126 3 0.03
127 1 0.01
128 3 0.03
129 30 0.26
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (123 bp):
ATTGATTCTAATTTAAATAATTTTTTATTTTTTTATAATATATATATATATATATATAATTTTCA
CATATATAAATAAAAATTGTAATTGTATTTAATAAATTAAATATAATATAAAATTGTA
Found at i:134107 original size:64 final size:63
Alignment explanation
Indices: 133900--134107 Score: 200
Period size: 64 Copynumber: 3.3 Consensus size: 63
133890 ATATATATAT
*
133900 ATATATATATATCTCATAATTTTCACATATATAAATAAAAATTGTAATTGTATTTAATAAATTAA
1 ATATATATA-ATAT-ATAATTTTCACATATATAAATAAAAATTGTAATTGTATTTAATAAATTAA
* * * * * *
133965 ATATATATAAAATTGTAATTGATTCTA-AT-T-TAAAT--AATTTTTTATT-T-TTTTAT-AA-T
1 ATATATATAATA-TATAATT--TTC-ACATATATAAATAAAAATTGTAATTGTATTTAATAAATT
*
134021 AT
62 AA
134023 ATATATATATATATATAATTTTCACATATATAAATAAAAATTGTAATTGTATTTAATAAATTAA
1 ATATATATA-ATATATAATTTTCACATATATAAATAAAAATTGTAATTGTATTTAATAAATTAA
*
134087 ATATAATATAATATAAAATTT
1 ATAT-ATATAATATATAATTT
134108 AAATAATTTT
Statistics
Matches: 112, Mismatches: 16, Indels: 31
0.70 0.10 0.19
Matches are distributed among these distances:
55 1 0.01
56 5 0.04
57 1 0.01
58 22 0.20
59 4 0.04
60 13 0.12
61 2 0.02
62 13 0.12
63 2 0.02
64 27 0.24
65 16 0.14
66 5 0.04
67 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (63 bp):
ATATATATAATATATAATTTTCACATATATAAATAAAAATTGTAATTGTATTTAATAAATTAA
Found at i:143759 original size:44 final size:45
Alignment explanation
Indices: 143709--143798 Score: 173
Period size: 44 Copynumber: 2.0 Consensus size: 45
143699 AGTTACATTA
143709 CCAAATAATAATAATAATAATACAACCCAGGG-AAAAGCTCAAAT
1 CCAAATAATAATAATAATAATACAACCCAGGGAAAAAGCTCAAAT
143753 CCAAATAATAATAATAATAATACAACCCAGGGAAAAAGCTCAAAT
1 CCAAATAATAATAATAATAATACAACCCAGGGAAAAAGCTCAAAT
143798 C
1 C
143799 AGTTTTGCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 32 0.71
45 13 0.29
ACGTcount: A:0.54, C:0.19, G:0.09, T:0.18
Consensus pattern (45 bp):
CCAAATAATAATAATAATAATACAACCCAGGGAAAAAGCTCAAAT
Found at i:145092 original size:10 final size:10
Alignment explanation
Indices: 145067--145097 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
145057 AAAAAACATA
*
145067 ATAAATGAAC
1 ATAAACGAAC
145077 ATAAACGAAC
1 ATAAACGAAC
145087 ATAAACGAAC
1 ATAAACGAAC
145097 A
1 A
145098 ACACAAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.61, C:0.16, G:0.10, T:0.13
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:145100 original size:23 final size:23
Alignment explanation
Indices: 145034--145105 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
145024 GCGAACGTAT
*
145034 ACGAACACAAACGAACGAACATAA
1 ACGAACATAAACGAAC-AACATAA
** *
145058 AAAAACATAATA--AATGAACATAA
1 ACGAACATAA-ACGAA-CAACATAA
*
145081 ACGAACATAAACGAACAACACAA
1 ACGAACATAAACGAACAACATAA
145104 AC
1 AC
145106 ACAAAAAACA
Statistics
Matches: 36, Mismatches: 8, Indels: 9
0.68 0.15 0.17
Matches are distributed among these distances:
22 1 0.03
23 25 0.69
24 9 0.25
25 1 0.03
ACGTcount: A:0.62, C:0.21, G:0.08, T:0.08
Consensus pattern (23 bp):
ACGAACATAAACGAACAACATAA
Found at i:145380 original size:14 final size:14
Alignment explanation
Indices: 145361--145389 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
145351 ACCCTTTGTT
145361 CGAACATAAATGAA
1 CGAACATAAATGAA
145375 CGAACATAAATGAA
1 CGAACATAAATGAA
145389 C
1 C
145390 ATAAATGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.17, G:0.14, T:0.14
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:148872 original size:16 final size:17
Alignment explanation
Indices: 148851--148901 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 17
148841 TACACCTATG
148851 AGTGTATCCATACAC-T
1 AGTGTATCCATACACGT
*
148867 AGTGTATCGATACACCCTGT
1 AGTGTATCCATACA--C-GT
148887 AGTGTATCCATACAC
1 AGTGTATCCATACAC
148902 CATGGCTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 13 0.45
18 2 0.07
20 14 0.48
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (17 bp):
AGTGTATCCATACACGT
Found at i:148880 original size:36 final size:36
Alignment explanation
Indices: 148830--148901 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
148820 ACCAAATAAA
148830 TAGTGTACCAATACACCTATG-AGTGTATCCATACAC
1 TAGTGTACCAATACACC-ATGTAGTGTATCCATACAC
* * *
148866 TAGTGTATCGATACACCCTGTAGTGTATCCATACAC
1 TAGTGTACCAATACACCATGTAGTGTATCCATACAC
148902 CATGGCTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (36 bp):
TAGTGTACCAATACACCATGTAGTGTATCCATACAC
Found at i:149385 original size:16 final size:16
Alignment explanation
Indices: 149343--149394 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 16
149333 AGAGTGCAAA
149343 TAGTGTATCGATACACC
1 TAGTGTATCGATACA-C
*
149360 TATGAGTGTATCTATACAC
1 --T-AGTGTATCGATACAC
149379 TAGTGTATCGATACAC
1 TAGTGTATCGATACAC
149395 CCTGTAGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 14 0.47
17 1 0.03
19 2 0.07
20 13 0.43
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (16 bp):
TAGTGTATCGATACAC
Found at i:149390 original size:36 final size:36
Alignment explanation
Indices: 149343--149414 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
149333 AGAGTGCAAA
*
149343 TAGTGTATCGATACACCTATG-AGTGTATCTATACAC
1 TAGTGTATCGATACACC-ATGTAGTGTATCCATACAC
*
149379 TAGTGTATCGATACACCCTGTAGTGTATCCATACAC
1 TAGTGTATCGATACACCATGTAGTGTATCCATACAC
149415 CCTGGCTGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 2 0.06
36 31 0.94
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (36 bp):
TAGTGTATCGATACACCATGTAGTGTATCCATACAC
Found at i:149418 original size:20 final size:19
Alignment explanation
Indices: 149343--149415 Score: 80
Period size: 20 Copynumber: 3.9 Consensus size: 19
149333 AGAGTGCAAA
*
149343 TAGTGTATCGATACACCTA
1 TAGTGTATCGATACACCTG
*
149362 TGAGTGTATCTATACA-C--
1 T-AGTGTATCGATACACCTG
149379 TAGTGTATCGATACACCCTG
1 TAGTGTATCGATACA-CCTG
*
149399 TAGTGTATCCATACACC
1 TAGTGTATCGATACACC
149416 CTGGCTGCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 13 0.28
17 1 0.02
18 1 0.02
19 4 0.09
20 27 0.59
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (19 bp):
TAGTGTATCGATACACCTG
Found at i:149802 original size:33 final size:32
Alignment explanation
Indices: 149757--149825 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
149747 TTTTGTAAAG
*
149757 GGGAAAGATTCTAGCTAATCCCGTGAAAAGCTA
1 GGGAAAGATTCTAGCTAAGCCCGTGAAAA-CTA
* * *
149790 GGGAAATG-TTCTAGTTTAGCTCGTGAAAACTA
1 GGGAAA-GATTCTAGCTAAGCCCGTGAAAACTA
149822 GGGA
1 GGGA
149826 GTTGTAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 7 0.23
33 23 0.74
34 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (32 bp):
GGGAAAGATTCTAGCTAAGCCCGTGAAAACTA
Done.