Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006005.1 Hibiscus syriacus cultivar Beakdansim tig00014158_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: 182743
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:6817 original size:11 final size:11
Alignment explanation
Indices: 6801--6890 Score: 65
Period size: 11 Copynumber: 7.6 Consensus size: 11
6791 TGACCGGAAC
6801 ATTTTATTTTT
1 ATTTTATTTTT
6812 ATTTTATTTTT
1 ATTTTATTTTT
* *
6823 ATATTATATTATA
1 AT-TT-TATTTTT
*
6836 ATTTTATTTTC
1 ATTTTATTTTT
* *
6847 A-TTTATATTC
1 ATTTTATTTTT
6857 ATTCTTAGTTTATTT
1 ATT-TTA--TT-TTT
6872 ATTTTCATTTTT
1 ATTTT-ATTTTT
6884 ATTTTAT
1 ATTTTAT
6891 CAAATATTTG
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
10 9 0.14
11 22 0.34
12 15 0.23
13 9 0.14
14 3 0.05
15 6 0.09
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.70
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:6873 original size:21 final size:21
Alignment explanation
Indices: 6847--6890 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6837 TTTTATTTTC
6847 ATTTATATTCATTCTTAGTTT
1 ATTTATATTCATTCTTAGTTT
* * *
6868 ATTTATTTTCATTTTTATTTT
1 ATTTATATTCATTCTTAGTTT
6889 AT
1 AT
6891 CAAATATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (21 bp):
ATTTATATTCATTCTTAGTTT
Found at i:7112 original size:2 final size:2
Alignment explanation
Indices: 7099--7128 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7089 TAATTACTAA
*
7099 AT AT AA 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
7129 GCACATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11084 original size:17 final size:18
Alignment explanation
Indices: 11050--11088 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
11040 AATACCCCTT
11050 ATATATATTTTTCAATTAA
1 ATATATATTTTT-AATTAA
*
11069 ATATTTATTTTT-ATTAA
1 ATATATATTTTTAATTAA
11086 ATA
1 ATA
11089 AAAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATATATTTTTAATTAA
Found at i:17798 original size:22 final size:22
Alignment explanation
Indices: 17770--17831 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
17760 TACACTTGAA
*
17770 GAAAAATGGAAAAATAAAAAAG
1 GAAAAATGGAAAAAAAAAAAAG
*
17792 GAAAAAT-TAAGAAAAAAAAAAG
1 GAAAAATGGAA-AAAAAAAAAAG
* *
17814 GAAAGA-GGAAAAAGAAAA
1 GAAAAATGGAAAAAAAAAA
17832 TAGAAAAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 9 0.27
22 24 0.73
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (22 bp):
GAAAAATGGAAAAAAAAAAAAG
Found at i:20176 original size:20 final size:21
Alignment explanation
Indices: 20148--20199 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
20138 TATTAAAAAT
20148 AATAGAGATAGAG-AAAAATCG
1 AATA-AGATAGAGAAAAAATCG
*
20169 AATAAGATAGAGAAAAAAATGG
1 AATAAGATAGAG-AAAAAATCG
20191 AATAAGATA
1 AATAAGATA
20200 TGGATATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 8 0.29
21 4 0.14
22 16 0.57
ACGTcount: A:0.62, C:0.02, G:0.21, T:0.15
Consensus pattern (21 bp):
AATAAGATAGAGAAAAAATCG
Found at i:21236 original size:29 final size:29
Alignment explanation
Indices: 21194--21269 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
21184 GGAGCATGAG
*** *
21194 GGAGTGCATGGCGACCTTGTAGGTCGTCA
1 GGAGTGCATGGCGACCTACAAGGTCGCCA
*
21223 GGAGTGCATGGCGACCTACAAGGTCGCCC
1 GGAGTGCATGGCGACCTACAAGGTCGCCA
*
21252 GGAGGGCATGGCGACCTA
1 GGAGTGCATGGCGACCTA
21270 TGCTTGGGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.20, C:0.25, G:0.38, T:0.17
Consensus pattern (29 bp):
GGAGTGCATGGCGACCTACAAGGTCGCCA
Found at i:22097 original size:6 final size:6
Alignment explanation
Indices: 22086--22135 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
22076 CGCGACGTAT
22086 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
22134 GA
1 GA
22136 GACGAACGGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.34, C:0.48, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:22761 original size:21 final size:21
Alignment explanation
Indices: 22735--22911 Score: 177
Period size: 21 Copynumber: 8.4 Consensus size: 21
22725 ATTTTGGACT
22735 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
22756 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
22777 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
22798 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
22819 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
* *
22840 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
22861 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
22882 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
*
22903 ATTGCAACG
1 ATCGCAACG
22912 CGAACTTCGA
Statistics
Matches: 135, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
19 19 0.14
21 98 0.73
23 18 0.13
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:22790 original size:42 final size:42
Alignment explanation
Indices: 22728--22890 Score: 208
Period size: 42 Copynumber: 3.9 Consensus size: 42
22718 CGTTGCGATT
22728 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* *
22770 TTCGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAAT
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * * *
22810 TTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAAC
22854 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACG
22891 AATTTGGAAT
Statistics
Matches: 101, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
40 18 0.18
42 64 0.63
44 19 0.19
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:22807 original size:63 final size:62
Alignment explanation
Indices: 22728--22890 Score: 265
Period size: 63 Copynumber: 2.6 Consensus size: 62
22718 CGTTGCGATT
* *
22728 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA-CGAAT
1 TTGGAATATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACCGAAC
22789 TTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAAC
1 TTGGAAT--ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAAC-CGAAC
*
22854 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACG
1 TTGGAATATCGCAACGAATTTGGAATAAATCGCAACG
22891 AATTTGGAAT
Statistics
Matches: 95, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
61 6 0.06
63 79 0.83
65 10 0.11
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (62 bp):
TTGGAATATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACCGAAC
Found at i:22876 original size:84 final size:84
Alignment explanation
Indices: 22756--22951 Score: 356
Period size: 84 Copynumber: 2.3 Consensus size: 84
22746 TTTGGAATAA
*
22756 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAATAAAT
1 ATCGCAACGCGAACTTAGACTATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAATAAAT
22821 CGCAACGCGAACTTCGACT
66 CGCAACGCGAACTTCGACT
*
22840 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAATAAAT
1 ATCGCAACGCGAACTTAGACTATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAATAAAT
*
22905 TGCAACGCGAACTTCGACT
66 CGCAACGCGAACTTCGACT
*
22924 ATGGCAACGCGAACTTAGACTATCGCAA
1 ATCGCAACGCGAACTTAGACTATCGCAA
22952 TGCGAATATG
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 108 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (84 bp):
ATCGCAACGCGAACTTAGACTATCGCAACGAATTTGGAATAAATCGCAACGAATTTGGAATAAAT
CGCAACGCGAACTTCGACT
Found at i:22910 original size:63 final size:62
Alignment explanation
Indices: 22728--22932 Score: 263
Period size: 63 Copynumber: 3.3 Consensus size: 62
22718 CGTTGCGATT
*
22728 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAAC-CGAACTTCGACTATCGCAACGCGAAC
*
22789 TTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGAATTTGGAATAAATCGCAAC-CGAACTTCGACTATCGCAACGCGAAC
* * * *
22854 TTGGACTATCGCAACGAATTTGGAATAAATCGCAA-CGAATTTGGAATAAATTGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACCGAACTTCGACT--ATCGCAACGCGAAC
* *
22917 TTCGACTATGGCAACG
1 TTGGACTATCGCAACG
22933 CGAACTTAGA
Statistics
Matches: 129, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
61 15 0.12
63 104 0.81
65 10 0.08
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (62 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACCGAACTTCGACTATCGCAACGCGAAC
Found at i:22930 original size:21 final size:21
Alignment explanation
Indices: 22906--22957 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
22896 GGAATAAATT
* *
22906 GCAACGCGAACTTCGACTATG
1 GCAACGCGAACTTAGACTATC
22927 GCAACGCGAACTTAGACTATC
1 GCAACGCGAACTTAGACTATC
*
22948 GCAATGCGAA
1 GCAACGCGAA
22958 TATGTAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.17
Consensus pattern (21 bp):
GCAACGCGAACTTAGACTATC
Found at i:23455 original size:23 final size:23
Alignment explanation
Indices: 23429--23476 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
23419 ATAAAGTACA
* *
23429 ATAACATACTAGGTATCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
23452 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
23475 AT
1 AT
23477 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:23721 original size:30 final size:29
Alignment explanation
Indices: 23681--23747 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
23671 TCATTTGCAC
* * *
23681 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
23711 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
23740 AATAATAT
1 AA-AATAT
23748 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:23929 original size:23 final size:23
Alignment explanation
Indices: 23903--23965 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
23893 ATATAACCAC
23903 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
23926 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
23949 TACCTATTACATCATAT
1 TACCTATTACATTATAT
23966 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:24427 original size:34 final size:34
Alignment explanation
Indices: 24387--24452 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
24377 AAGTTGTAGA
*
24387 TTTTGATTTCCTTTTGCTTGGCATCATATGAGAT
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
24421 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
24453 CTTTGGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.48
Consensus pattern (34 bp):
TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
Found at i:24750 original size:18 final size:18
Alignment explanation
Indices: 24727--24763 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24717 CGAAATATAT
24727 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
24745 ATTGAAATTGAAATTCAA
1 ATTGAAATTCAAACTCAA
24763 A
1 A
24764 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:25224 original size:23 final size:23
Alignment explanation
Indices: 25198--25260 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
25188 ATATAACCAC
25198 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
25221 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
25244 TACCTATTACATCATAT
1 TACCTATTACATTATAT
25261 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:25500 original size:25 final size:25
Alignment explanation
Indices: 25443--25508 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
25433 CACTCAAAAG
*
25443 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
25468 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
25493 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
25509 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:28287 original size:183 final size:183
Alignment explanation
Indices: 27975--28804 Score: 1513
Period size: 183 Copynumber: 4.5 Consensus size: 183
27965 TTAAAATTAC
*
27975 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* * * *
28039 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
* * *
28104 TATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATAT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* * *
28158 CGATACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
28222 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
28287 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
28341 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
28406 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATA-CGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
28470 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
28523 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
28588 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
28653 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
28706 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
28771 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATT
28805 TTCCATTCAT
Statistics
Matches: 632, Mismatches: 13, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
182 182 0.29
183 447 0.71
184 3 0.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:28646 original size:365 final size:366
Alignment explanation
Indices: 27975--28804 Score: 1513
Period size: 365 Copynumber: 2.3 Consensus size: 366
27965 TTAAAATTAC
*
27975 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* * * *
28039 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
* *
28104 TATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATATCGATACTTTTT
130 TATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATATCGACACTTTTT
* *
28169 TAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTG
195 AAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAGATTAAAAAGTG
28234 TCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAA
260 TCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAA
28299 TTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
325 TTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
28341 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
28406 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATA-CGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* *
28470 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTA
131 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATATCGACACTTTTTA
*
28535 ACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAGATTAAAAAGTG
196 A-AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAGATTAAAAAGTG
28599 TCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAA
260 TCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAA
28664 TTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
325 TTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
28706 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
28771 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATT
28805 TTCCATTCAT
Statistics
Matches: 450, Mismatches: 12, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
365 329 0.73
366 118 0.26
367 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (366 bp):
CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATATCGACACTTTTTA
AAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAGATTAAAAAGTGT
CGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
TATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:29392 original size:199 final size:199
Alignment explanation
Indices: 28812--29672 Score: 1591
Period size: 199 Copynumber: 4.3 Consensus size: 199
28802 ATTTTCCATT
28812 CATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATG
1 CATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATG
28877 GGTGCACCCTGTTTTCCATTCATTATGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACA
66 GGTGCACCCTGTTTTCCATTCATTATGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACA
* *
28942 CATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACTGGTTAGATTGAAAAATTACAT
131 CATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
29007 ATTA
196 ATTA
29011 CATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT-
1 CATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATG
*
29075 GGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACTATATTAGTGTCGACA
66 GGTGCACCCTGTTTTCCATTCATTATGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACA
29139 CATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
131 CATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
29204 ATTA
196 ATTA
*
29208 CATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATAGATCGACACTTTATG
1 CATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATG
29273 GGTGCACCCTGTTTTCCATTCATTATGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACA
66 GGTGCACCCTGTTTTCCATTCATTATGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACA
*
29338 CATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
131 CATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
29403 ATTA
196 ATTA
29407 CATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATG
1 CATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATG
* * **
29472 GGTTCACCCTGTTTTCCATTCATTCTGGGGAAAAAATATCGACACAAACTATATTAGTGTCGACA
66 GGTGCACCCTGTTTTCCATTCATTATGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACA
29537 CATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
131 CATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
29602 ATTA
196 ATTA
* * *
29606 CATTATACTTTTGGTTTTCGATGTTTTTGGGATTGACACTTTTTATATATGGATCGACACTTTAT
1 CATTATACTTTTGG-GTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
29671 GG
65 GG
29673 TAAATTTGCC
Statistics
Matches: 644, Mismatches: 15, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
197 166 0.26
198 54 0.08
199 375 0.58
200 49 0.08
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (199 bp):
CATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATG
GGTGCACCCTGTTTTCCATTCATTATGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACA
CATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
ATTA
Found at i:29827 original size:19 final size:19
Alignment explanation
Indices: 29781--29829 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
29771 TTATATTCAC
*
29781 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
29800 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
29819 ATACAAAATTA
1 ATACAAAATTA
29830 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:31411 original size:18 final size:17
Alignment explanation
Indices: 31378--31431 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
31368 CATCGACTTC
*
31378 CTTCCTCCTCATTTCTT
1 CTTCCTCCTCTTTTCTT
*
31395 C--CAT-CTCTTCTTCTT
1 CTTCCTCCTCTT-TTCTT
31410 CTTCCTCCCTCTTTTCTT
1 CTTCCT-CCTCTTTTCTT
31428 CTTC
1 CTTC
31432 ATATTTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
14 4 0.14
15 8 0.28
17 3 0.10
18 9 0.31
19 5 0.17
ACGTcount: A:0.04, C:0.43, G:0.00, T:0.54
Consensus pattern (17 bp):
CTTCCTCCTCTTTTCTT
Found at i:31426 original size:15 final size:15
Alignment explanation
Indices: 31378--31428 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
31368 CATCGACTTC
*
31378 CTTCCT-CCTCATTT
1 CTTCCTCCCTCTTTT
*
31392 CTTCCATCTCTTCTTCTT
1 CTTCC-TC-CCTCTT-TT
31410 CTTCCTCCCTCTTTT
1 CTTCCTCCCTCTTTT
31425 CTTC
1 CTTC
31429 TTCATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 5 0.17
17 6 0.20
18 7 0.23
ACGTcount: A:0.04, C:0.43, G:0.00, T:0.53
Consensus pattern (15 bp):
CTTCCTCCCTCTTTT
Found at i:31739 original size:21 final size:21
Alignment explanation
Indices: 31714--31778 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
31704 CCCCTTATGC
* *
31714 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
31735 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
31756 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
31777 CT
1 CT
31779 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:31881 original size:15 final size:15
Alignment explanation
Indices: 31861--31893 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
31851 ACTCTATTTT
*
31861 CCCTCACCGTCGTCC
1 CCCTCACCGTCATCC
31876 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
31891 CCC
1 CCC
31894 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.64, G:0.09, T:0.18
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:34174 original size:20 final size:20
Alignment explanation
Indices: 34147--34193 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
34137 TCCGGTAACG
34147 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
34166 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
34187 TTTTACC
1 TTTTACC
34194 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:34238 original size:181 final size:181
Alignment explanation
Indices: 33936--34405 Score: 676
Period size: 182 Copynumber: 2.6 Consensus size: 181
33926 CGTACTTACG
* * * *
33936 AAGTATCGACACTTTCAATATATCCGGTATCATTTTACC-GATTTATCATTTTGATACCGGTTTT
1 AAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTTT
* * *
34000 ATCATATTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTATAG
66 ATCATATTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAG
* *
34065 GCGCTATAACTGCTGCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TA
131 GAGCTAAAACTGCTGCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTA
* *
34115 AAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTTT
1 AAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTTT
* *
34180 ATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTATA
66 ATCATA-TTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATA
** * *
34245 GGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATTA
130 GGAGCTAAAACTGCTGCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTA
* * * * *
34297 AAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTTT
1 AAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTTT
* *
34361 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TATCATA-TTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
34406 AATTTGGATC
Statistics
Matches: 260, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
179 36 0.14
180 29 0.11
181 96 0.37
182 98 0.38
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTTT
ATCATATTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAG
GAGCTAAAACTGCTGCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTA
Found at i:34746 original size:22 final size:22
Alignment explanation
Indices: 34719--34766 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
34709 GTATGGACAC
34719 TTTTATAAAAATAATATATACT
1 TTTTATAAAAATAATATATACT
*
34741 TTTTATAAAAATGATATATACT
1 TTTTATAAAAATAATATATACT
34763 TTTT
1 TTTT
34767 TGAAAGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTATAAAAATAATATATACT
Found at i:34937 original size:255 final size:250
Alignment explanation
Indices: 34486--34979 Score: 871
Period size: 255 Copynumber: 2.0 Consensus size: 250
34476 GTCTGGACAC
34486 TTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGT
1 TTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGT
*
34551 GTTTCATGTTTTCCACCTACAATATTAAATTAATAATTTAATTTACACAAAATATTATTTGATTG
66 GTTTCATGTTTTCCACCTACAATATTAAATTAATAATTTAATTTACACAAAAAATTATTTGATTG
*
34616 TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATA
131 TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
34681 AATAAATATGTTTTCAACAGTGAAATAAGTATGGACACTTTTATAAAAATAATATATACT
196 AAT--ATA--TTTTC-ACAGTGAAATAAGTATGGACACTTTTATAAAAATAATATATACT
* *
34741 TTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
1 TTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGT
* *
34806 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTG
66 GTTTCATGTTTTCCACCTACAATATTAAATTAATAATTTAATTTACACAAAAAATTATTTGATTG
* *
34871 TTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATA
131 TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
34936 AATATATTTTCACAGTGAAATAAGTATGGACACTTTTATAAAAA
196 AATATATTTTCACAGTGAAATAAGTATGGACACTTTTATAAAAA
34980 ATGATAGATA
Statistics
Matches: 231, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
250 33 0.14
251 5 0.02
253 3 0.01
255 190 0.82
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (250 bp):
TTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGT
GTTTCATGTTTTCCACCTACAATATTAAATTAATAATTTAATTTACACAAAAAATTATTTGATTG
TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
AATATATTTTCACAGTGAAATAAGTATGGACACTTTTATAAAAATAATATATACT
Found at i:35597 original size:20 final size:20
Alignment explanation
Indices: 35574--35613 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35564 AATAATTATT
35574 AATTTT-ATTCAATAAAATAA
1 AATTTTAATTCAA-AAAATAA
*
35594 AATTTTAATTGAAAAAATAA
1 AATTTTAATTCAAAAAATAA
35614 TATTACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATTTTAATTCAAAAAATAA
Found at i:42937 original size:35 final size:34
Alignment explanation
Indices: 42853--42937 Score: 84
Period size: 35 Copynumber: 2.4 Consensus size: 34
42843 AATATAATTT
*
42853 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* * *
42887 TAAATGATAATAAAATTACAATAACTGATATTAAATTG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
42925 T-AATA-AACAAAAT
1 TAAATACAACAAAAT
42938 GAACTGAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
34 5 0.12
35 22 0.52
36 1 0.02
37 4 0.10
38 10 0.24
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.29
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:43195 original size:18 final size:18
Alignment explanation
Indices: 43172--43212 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
43162 ATCATCACCA
*
43172 TCATCGTCGTCGTCGTCG
1 TCATCGTCATCGTCGTCG
*
43190 TCATCGTCATTGTCGTCG
1 TCATCGTCATCGTCGTCG
43208 TCATC
1 TCATC
43213 CTGAGCAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.32, G:0.22, T:0.37
Consensus pattern (18 bp):
TCATCGTCATCGTCGTCG
Found at i:45335 original size:19 final size:19
Alignment explanation
Indices: 45263--45336 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 19
45253 AAAAAATTAT
45263 ATTAGTAAAATATTAAATAA
1 ATTA-TAAAATATTAAATAA
*
45283 AGTA-AAAATACTTAAATAA
1 ATTATAAAATA-TTAAATAA
45302 ATTAAATACATAATATTAAA-AA
1 ATT--ATA-A-AATATTAAATAA
45324 TATTATAAAATAT
1 -ATTATAAAATAT
45337 ACCTTAAACG
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
18 6 0.13
19 15 0.33
20 4 0.09
21 4 0.09
22 3 0.07
23 9 0.20
24 4 0.09
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (19 bp):
ATTATAAAATATTAAATAA
Found at i:45367 original size:10 final size:10
Alignment explanation
Indices: 45348--45378 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
45338 CCTTAAACGA
*
45348 GAGAGTATTT
1 GAGAGAATTT
45358 GAGAGAATTT
1 GAGAGAATTT
45368 GAGAGAATTT
1 GAGAGAATTT
45378 G
1 G
45379 GTGTGATGAA
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:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:45605 original size:51 final size:50
Alignment explanation
Indices: 45469--45625 Score: 149
Period size: 51 Copynumber: 3.1 Consensus size: 50
45459 GCCCTTGCAC
** * *
45469 CGCGCTATACCCCACGTGTCAGATAAAT-AG-GTATAGCGCGGAGCAGGGCG
1 CGCGCTATACCCCACGTGTC-GCCAAATCAGCATATAGCGCGG-GCAGGGGG
* ** * * *
45519 CGCGCTATA-GCCACGTGTAACCCAGTCAGCTTATAGCGCGGTGCAGGGGG
1 CGCGCTATACCCCACGTGTCGCCAAATCAGCATATAGCGCGG-GCAGGGGG
* *
45569 CGCGCTATACCCCACGTGGCGCCAAATCAGCATATAGCGTGGGTCAGGGGG
1 CGCGCTATACCCCACGTGTCGCCAAATCAGCATATAGCGCGGG-CAGGGGG
45620 CGCGCT
1 CGCGCT
45626 TTACTGCTAC
Statistics
Matches: 85, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
48 2 0.02
49 10 0.12
50 36 0.42
51 37 0.44
ACGTcount: A:0.22, C:0.29, G:0.33, T:0.17
Consensus pattern (50 bp):
CGCGCTATACCCCACGTGTCGCCAAATCAGCATATAGCGCGGGCAGGGGG
Found at i:49295 original size:2 final size:2
Alignment explanation
Indices: 49288--49320 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
49278 ATCATGCCCC
49288 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49321 AAGAGTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49866 original size:18 final size:19
Alignment explanation
Indices: 49837--49877 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
49827 TTATTGAAAA
*
49837 AATTATATAATTTTTATTT
1 AATTATATAATTTTTATTG
49856 AATTA-ATAATTTTTATTG
1 AATTATATAATTTTTATTG
49874 AATT
1 AATT
49878 TTCTCATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
AATTATATAATTTTTATTG
Found at i:51135 original size:24 final size:24
Alignment explanation
Indices: 51108--51175 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 24
51098 ACGCTAGATG
*
51108 AACACGTTCGTGAACATATAAACA
1 AACACGTTCGCGAACATATAAACA
* * *
51132 AACACATTCACGAACAT-TAAACG
1 AACACGTTCGCGAACATATAAACA
* *
51155 AACATGTTTGCGAACA-ATAAA
1 AACACGTTCGCGAACATATAAA
51176 TAATCGAACA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 21 0.60
24 14 0.40
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.21
Consensus pattern (24 bp):
AACACGTTCGCGAACATATAAACA
Found at i:57002 original size:20 final size:19
Alignment explanation
Indices: 56951--57007 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
56941 AACCAATAAT
56951 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
56970 GATGAAAAAAAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
56991 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
57008 GAAGACAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 12 0.39
20 12 0.39
21 7 0.23
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:57127 original size:28 final size:27
Alignment explanation
Indices: 57090--57147 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
57080 AAGAAACTAA
* *
57090 AAATATAATAA-AAATAAATAAATAGTAT
1 AAATAAAATAATAAA-AAATAAA-AATAT
57118 AAATAAAATAATAAAAAATAAAAATAT
1 AAATAAAATAATAAAAAATAAAAATAT
57145 AAA
1 AAA
57148 AATGTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 17 0.63
29 3 0.11
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (27 bp):
AAATAAAATAATAAAAAATAAAAATAT
Found at i:57204 original size:27 final size:27
Alignment explanation
Indices: 57157--57242 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
57147 AAATGTATGT
*
57157 ATAAT-ATAATAAA-ATACTAAATAGTA
1 ATAATAATAATAAATA-AATAAATAGTA
*
57183 ATAATAATAATAAATAAATAAATAATAA
1 ATAATAATAATAAATAAATAAATAGT-A
* * *
57211 ATATACATATAAATAACTAAAAAAATAGTA
1 ATA-ATA-AT-AATAAATAAATAAATAGTA
57241 AT
1 AT
57243 CATAGAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 5 0.10
27 16 0.33
28 5 0.10
29 2 0.04
30 5 0.10
31 15 0.31
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.29
Consensus pattern (27 bp):
ATAATAATAATAAATAAATAAATAGTA
Found at i:57422 original size:16 final size:15
Alignment explanation
Indices: 57400--57451 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
57390 ACGCAAAGAA
57400 AAATAAAAAA-AAATT
1 AAATAAAAAATAAA-T
57415 ATAATAAATAAATAAAT
1 A-AATAAA-AAATAAAT
* *
57432 AAATAAAATATAATT
1 AAATAAAAAATAAAT
57447 AAATA
1 AAATA
57452 TATACATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 12 0.38
16 12 0.38
17 5 0.16
18 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAAAAATAAAT
Found at i:57962 original size:37 final size:37
Alignment explanation
Indices: 57869--57972 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 37
57859 ATGCTTGTGG
* * ** *
57869 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
57906 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
57943 ATCTTATTTTTAGGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
57973 GGACGAAAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:58875 original size:106 final size:106
Alignment explanation
Indices: 58689--59963 Score: 1978
Period size: 106 Copynumber: 12.0 Consensus size: 106
58679 GTATTGTTCC
* * * * *
58689 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
58753 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
58795 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
58860 CCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
58901 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
58966 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
59007 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
59072 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** * *
59113 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCAAAATTAGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
59178 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
59219 GAGTCCAATATCTTTCGCTGTGGAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
59284 CTAGGGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
59325 GATTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
59390 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
59431 GAGTCCAATATCGTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
59496 CCAGCGGTCCCTTCG-CGAGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
59536 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
59601 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
59642 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTATATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
59707 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
59748 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
59813 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
59854 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
59919 CCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
59960 GAGT
1 GAGT
59964 GGCACGATAT
Statistics
Matches: 1077, Mismatches: 90, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
105 97 0.09
106 979 0.91
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:61584 original size:15 final size:15
Alignment explanation
Indices: 61566--61634 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
61556 TTGTCCCTTT
61566 TTCTTTTTATTTTTG
1 TTCTTTTTATTTTTG
*
61581 TTCTTTCTTTTTTTTG
1 TTCTTT-TTATTTTTG
61597 TT-TTCTTCT-TTTTTG
1 TTCTT-TT-TATTTTTG
61612 CTTC-TTTTATTTTTTG
1 -TTCTTTTTA-TTTTTG
61628 TT-TTTTT
1 TTCTTTTT
61635 GCCCTTTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 16
0.73 0.02 0.26
Matches are distributed among these distances:
14 1 0.02
15 23 0.51
16 21 0.47
ACGTcount: A:0.03, C:0.10, G:0.06, T:0.81
Consensus pattern (15 bp):
TTCTTTTTATTTTTG
Found at i:61586 original size:21 final size:19
Alignment explanation
Indices: 61550--61610 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 19
61540 TTTGGATGTG
*
61550 TTTTTTTTGTCCCTTTTTCTT
1 TTTTTTTTGT-TCTTTTT-TT
61571 TTTATTTTTGTTCTTTCTTTT
1 TTT-TTTTTGTTCTTT-TTTT
*
61592 TTTTGTTTTCTTCTTTTTT
1 TTTT-TTTTGTTCTTTTTT
61611 GCTTCTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 4 0.11
21 22 0.63
22 9 0.26
ACGTcount: A:0.02, C:0.13, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTTTTTTGTTCTTTTTTT
Found at i:61596 original size:16 final size:15
Alignment explanation
Indices: 61566--61634 Score: 70
Period size: 16 Copynumber: 4.5 Consensus size: 15
61556 TTGTCCCTTT
*
61566 TTCTTTTTATTTTTG
1 TTCTTTTTTTTTTTG
61581 TTCTTTCTTTTTTTTG
1 TTCTTT-TTTTTTTTG
*
61597 TT-TTCTTCTTTTTTG
1 TTCTT-TTTTTTTTTG
*
61612 CTTCTTTTATTTTTTG
1 -TTCTTTTTTTTTTTG
61628 TT-TTTTT
1 TTCTTTTT
61635 GCCCTTTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
14 4 0.09
15 18 0.39
16 22 0.48
17 2 0.04
ACGTcount: A:0.03, C:0.10, G:0.06, T:0.81
Consensus pattern (15 bp):
TTCTTTTTTTTTTTG
Found at i:61605 original size:17 final size:17
Alignment explanation
Indices: 61564--61610 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
61554 TTTTGTCCCT
61564 TTTTCTT-TTTATTTTTG
1 TTTTCTTCTTT-TTTTTG
*
61581 TTCT-TTCTTTTTTTTG
1 TTTTCTTCTTTTTTTTG
61597 TTTTCTTCTTTTTT
1 TTTTCTTCTTTTTT
61611 GCTTCTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (17 bp):
TTTTCTTCTTTTTTTTG
Found at i:65980 original size:18 final size:18
Alignment explanation
Indices: 65935--65980 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
65925 AATAATAAAC
* *
65935 ATAAAAT-AATTGGATGA
1 ATAAAATAAATTGAATAA
65952 A-AAAATGAAATTGAATAA
1 ATAAAAT-AAATTGAATAA
65970 ATAAAATAAAT
1 ATAAAATAAAT
65981 GAAGACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 5 0.21
17 1 0.04
18 13 0.54
19 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (18 bp):
ATAAAATAAATTGAATAA
Found at i:66108 original size:25 final size:23
Alignment explanation
Indices: 66073--66127 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
66063 ATATAATGAA
*
66073 AATAAATAAATAGTATAAATAAAAT
1 AATAAAAAAATA-TATAAA-AAAAT
*
66098 AATAAAAAAATATATATAAAAAT
1 AATAAAAAAATATATAAAAAAAT
66121 -ATAAAAA
1 AATAAAAA
66128 TGTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 5 0.18
24 5 0.18
25 11 0.39
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (23 bp):
AATAAAAAAATATATAAAAAAAT
Found at i:66109 original size:44 final size:45
Alignment explanation
Indices: 66059--66144 Score: 115
Period size: 44 Copynumber: 1.9 Consensus size: 45
66049 CAAAGAAACT
*
66059 AAAAATATA-ATGAAAATA-AATAAATAGTATAAATAA-AATAATAA
1 AAAAATATATATAAAAATATAA-AAAT-GTATAAATAATAATAATAA
*
66103 AAAAATATATATAAAAATATAAAAATGTATATATAATAATAA
1 AAAAATATATATAAAAATATAAAAATGTATAAATAATAATAA
66145 ATACTAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
44 18 0.49
45 17 0.46
46 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (45 bp):
AAAAATATATATAAAAATATAAAAATGTATAAATAATAATAATAA
Found at i:66111 original size:22 final size:22
Alignment explanation
Indices: 66059--66145 Score: 65
Period size: 22 Copynumber: 4.0 Consensus size: 22
66049 CAAAGAAACT
66059 AAAAATAT-AATGAAAATAA-ATA
1 AAAAATATAAAT-AAAATAATA-A
* *
66081 AATAGTATAAATAAAATAATAA
1 AAAAATATAAATAAAATAATAA
* *
66103 AAAAATATATAT-AAA-AATAT
1 AAAAATATAAATAAAATAATAA
* * *
66123 AAAAATGTATATATAATAATAA
1 AAAAATATAAATAAAATAATAA
66145 A
1 A
66146 TACTAAATAG
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
20 15 0.29
21 5 0.10
22 28 0.54
23 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (22 bp):
AAAAATATAAATAAAATAATAA
Found at i:66126 original size:20 final size:20
Alignment explanation
Indices: 66058--66135 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 20
66048 GCAAAGAAAC
*
66058 TAAAAATATA-ATGAAAATA
1 TAAAAATATATATAAAAATA
66077 -AATAAATAGTATAAATAAAATAATA
1 TAA-AAATA-TAT--AT-AAA-AATA
*
66102 AAAAAATATATATAAAAATA
1 TAAAAATATATATAAAAATA
*
66122 TAAAAATGTATATA
1 TAAAAATATATATA
66136 TAATAATAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
18 2 0.04
19 5 0.10
20 18 0.38
21 3 0.06
22 2 0.04
23 2 0.04
24 5 0.10
25 9 0.19
26 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
TAAAAATATATATAAAAATA
Found at i:66290 original size:14 final size:14
Alignment explanation
Indices: 66267--66317 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
66257 ATAACGTTAG
*
66267 AAAAATATAGTAAA
1 AAAAACATAGTAAA
66281 AAAAACATAGTAAA
1 AAAAACATAGTAAA
66295 TAAGTAAACATAGATAAA
1 -AA--AAACATAG-TAAA
66313 AAAAA
1 AAAAA
66318 TAATAATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
14 13 0.41
15 5 0.16
17 10 0.31
18 4 0.12
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.18
Consensus pattern (14 bp):
AAAAACATAGTAAA
Found at i:66936 original size:37 final size:37
Alignment explanation
Indices: 66851--66947 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
66841 GGATCCTATC
* * *
66851 TTTAGGAGTTTAAATAATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTGAATCATAGTAAAACTCTATCATATT
* * *
66888 TTTAGGAGTTTGAATCCTAGTAAAATTCTATCTTATT
1 TTTAGGAGTTTGAATCATAGTAAAACTCTATCATATT
*
66925 TTTAGGAGTTTGAATCTTAGTAA
1 TTTAGGAGTTTGAATCATAGTAA
66948 GACGAAAAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCATAGTAAAACTCTATCATATT
Found at i:68710 original size:20 final size:20
Alignment explanation
Indices: 68687--68733 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
68677 GTTTCCAAAT
68687 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
*
68707 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATCTGTAAA
68727 TCGCAAC
1 TCGCAAC
68734 ACATAAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:68746 original size:60 final size:59
Alignment explanation
Indices: 68682--68954 Score: 256
Period size: 60 Copynumber: 4.5 Consensus size: 59
68672 TCACAGTTTC
*
68682 CAAATTCGCAACGCGAA-TCTGTAAA-TCGCAACGCGAATTTGTAAATCGCAACACATAAGT
1 CAAATTCGCAACACGAAGTC---AAATTCGCAACGCGAATTTGTAAATCGCAACACATAAGT
*
68742 CAAATTCGCAACACAGAAGTCAAATTCGCAACGCG-A-TAGTCAAATTCGCAACAC-TGAAGT
1 CAAATTCGCAACAC-GAAGTCAAATTCGCAACGCGAATTTGT-AAA-TCGCAACACAT-AAGT
* * * *
68802 CAAATTCGCAACACAAAAGTCAAATTCGCAAAGCGAATTTGTAAATCTCAACACAGAAGT
1 CAAATTCGCAACAC-GAAGTCAAATTCGCAACGCGAATTTGTAAATCGCAACACATAAGT
* * * **
68862 CAAATTCGCAACACATAAGTCAAATTCGCAACGCG-A-TAGTCAAATTCACAACGTGAT-AGT
1 CAAATTCGCAACAC-GAAGTCAAATTCGCAACGCGAATTTGT-AAA-TCGCAAC-ACATAAGT
*
68922 CAAATTCGCAACACTGAATTTCAAATTCGCAAC
1 CAAATTCGCAACAC-GAA-GTCAAATTCGCAAC
68955 ACAAAAGTCA
Statistics
Matches: 183, Mismatches: 17, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
58 6 0.03
59 12 0.07
60 139 0.76
61 21 0.11
62 5 0.03
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.21
Consensus pattern (59 bp):
CAAATTCGCAACACGAAGTCAAATTCGCAACGCGAATTTGTAAATCGCAACACATAAGT
Found at i:68750 original size:20 final size:20
Alignment explanation
Indices: 68727--68993 Score: 246
Period size: 20 Copynumber: 13.3 Consensus size: 20
68717 AATTTGTAAA
68727 TCGCAACACATAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
68747 TCGCAACACAGAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
68767 TCGCAACGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
68787 TCGCAACAC-TGAAGTCAAAT
1 TCGCAACACAT-AAGTCAAAT
*
68807 TCGCAACACAAAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
**
68827 TCGCAA-AGCGAATTTGT-AAA-
1 TCGCAACA-C--ATAAGTCAAAT
* *
68847 TCTCAACACAGAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
68867 TCGCAACACATAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
68887 TCGCAACGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
* **
68907 TCACAACGTGAT-AGTCAAAT
1 TCGCAAC-ACATAAGTCAAAT
*
68927 TCGCAACAC-TGAATTTCAAAT
1 TCGCAACACAT-AA-GTCAAAT
*
68948 TCGCAACACAAAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
**
68968 TCGCAATGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
68988 TCGCAA
1 TCGCAA
68994 AGCGCGTTTA
Statistics
Matches: 203, Mismatches: 27, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.02
19 4 0.02
20 166 0.82
21 25 0.12
22 3 0.01
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.21
Consensus pattern (20 bp):
TCGCAACACATAAGTCAAAT
Found at i:69178 original size:22 final size:22
Alignment explanation
Indices: 69153--69198 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
69143 CTATGGCGAC
*
69153 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCACATCTCCGACGAA
* *
69175 ATCCGTCCACATCTTCGGCGAA
1 ATCCGTCCACATCTCCGACGAA
69197 AT
1 AT
69199 TCATCTATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.22
Consensus pattern (22 bp):
ATCCGTCCACATCTCCGACGAA
Found at i:69595 original size:14 final size:14
Alignment explanation
Indices: 69563--69596 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
69553 ACACGAAAAT
*
69563 GAAAATCGCAACTC
1 GAAAATCGCAACGC
*
69577 CAAAATCGCAACGC
1 GAAAATCGCAACGC
69591 GAAAAT
1 GAAAAT
69597 GAAAATCGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.26, G:0.15, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAACGC
Found at i:69648 original size:20 final size:20
Alignment explanation
Indices: 69609--69696 Score: 64
Period size: 20 Copynumber: 4.8 Consensus size: 20
69599 AAATCGCAAC
69609 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCAGTTTCGCGTT
* *
69628 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCAGTTTCGCGTT
*
69648 GCAATTTTC----T--CGTT
1 GCGATTTTCAGTTTCGCGTT
* *
69662 ACGATTTTCATTTTCGCGTT
1 GCGATTTTCAGTTTCGCGTT
* *
69682 GCGAATTTAAGTTTC
1 GCGATTTTCAGTTTC
69697 AGAAACTACT
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
14 10 0.19
16 1 0.02
18 1 0.02
19 8 0.15
20 32 0.62
ACGTcount: A:0.15, C:0.17, G:0.19, T:0.49
Consensus pattern (20 bp):
GCGATTTTCAGTTTCGCGTT
Found at i:69672 original size:34 final size:35
Alignment explanation
Indices: 69619--69689 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 35
69609 GCGATTTTAG
* *
69619 TTTCGCGTTGCGATTTTCATTTTCGTGTTGC-AAT
1 TTTCGCGTTACGATTTTCATTTTCGCGTTGCGAAT
*
69653 TTTCTCGTTACGATTTTCATTTTCGCGTTGCGAAT
1 TTTCGCGTTACGATTTTCATTTTCGCGTTGCGAAT
69688 TT
1 TT
69690 AAGTTTCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 28 0.85
35 5 0.15
ACGTcount: A:0.13, C:0.18, G:0.18, T:0.51
Consensus pattern (35 bp):
TTTCGCGTTACGATTTTCATTTTCGCGTTGCGAAT
Found at i:71337 original size:21 final size:21
Alignment explanation
Indices: 71313--71374 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
71303 ACCTCATGAT
* *
71313 AGGCCCTTGTCATCGTTCAAG
1 AGGCCCCTATCATCGTTCAAG
** *
71334 AGGCCCCTCCCATCATTCAAG
1 AGGCCCCTATCATCGTTCAAG
71355 AGGCCCCTATCATCGTTCAA
1 AGGCCCCTATCATCGTTCAA
71375 TGGGTCCCTC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (21 bp):
AGGCCCCTATCATCGTTCAAG
Found at i:71360 original size:42 final size:42
Alignment explanation
Indices: 71313--71398 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
71303 ACCTCATGAT
* * *
71313 AGGCCCTTGTCATCGTTCAA-GAGGCCCCTCCCATCATTCAAG
1 AGGCCCCTATCATCGTTCAATG-GGCCCCTCCCACCATTCAAG
*
71355 AGGCCCCTATCATCGTTCAATGGGTCCCTCCCACCATTCAAG
1 AGGCCCCTATCATCGTTCAATGGGCCCCTCCCACCATTCAAG
71397 AG
1 AG
71399 CCCGATTCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (42 bp):
AGGCCCCTATCATCGTTCAATGGGCCCCTCCCACCATTCAAG
Found at i:72862 original size:65 final size:67
Alignment explanation
Indices: 72726--72886 Score: 231
Period size: 66 Copynumber: 2.4 Consensus size: 67
72716 CTGGGTACAC
72726 TTTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAATTGATGAGGAAATAA
1 TTTTTTTGCTTGTTTAATTG-ATTTGTA-A-T-AAAGTTGATTTGTTTAATTGATGAGGAAATAA
72790 GAATTA
62 GAATTA
* *
72796 -TTTTTTGCTTGTTTAATTGATTTGT-A-AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAA
1 TTTTTTTGCTTGTTTAATTGATTTGTAATAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAA
72858 TTA
65 TTA
72861 TTTTTTTGCTTGTTTAATTGATTTGT
1 TTTTTTTGCTTGTTTAATTGATTTGT
72887 TGTTTTAAAT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
64 17 0.20
65 19 0.22
66 25 0.29
67 1 0.01
68 4 0.05
69 20 0.23
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.53
Consensus pattern (67 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAATAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAAT
TA
Found at i:72967 original size:20 final size:20
Alignment explanation
Indices: 72942--73010 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
72932 TTGAAGGTAC
*
72942 AAATTCACAACGCGAAAGGT
1 AAATTCACAACACGAAAGGT
* **
72962 AAATTCGCAACACGAAAGCCA
1 AAATTCACAACACGAAAG-GT
*
72983 AAATTCGCAACACGAAA-GT
1 AAATTCACAACACGAAAGGT
73002 CAAATTCAC
1 -AAATTCAC
73011 GTTGCAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.46, C:0.25, G:0.14, T:0.14
Consensus pattern (20 bp):
AAATTCACAACACGAAAGGT
Found at i:72988 original size:21 final size:21
Alignment explanation
Indices: 72962--73005 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
72952 CGCGAAAGGT
72962 AAATTCGCAACACGAAAGCCA
1 AAATTCGCAACACGAAAGCCA
*
72983 AAATTCGCAACACGAAAGTCA
1 AAATTCGCAACACGAAAGCCA
73004 AA
1 AA
73006 TTCACGTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.25, G:0.14, T:0.11
Consensus pattern (21 bp):
AAATTCGCAACACGAAAGCCA
Found at i:73285 original size:6 final size:6
Alignment explanation
Indices: 73276--73322 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
73266 TTGTAATTGA
* * **
73276 GATTTT GATTGT GATTGT GATTTT GATTGC GATTTT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
73323 CCTTTTGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.02, G:0.23, T:0.57
Consensus pattern (6 bp):
GATTTT
Found at i:73287 original size:18 final size:18
Alignment explanation
Indices: 73264--73304 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
73254 AAGTGAAGTC
73264 GATTGTAATTGAGATTTT
1 GATTGTAATTGAGATTTT
* *
73282 GATTGTGATTGTGATTTT
1 GATTGTAATTGAGATTTT
73300 GATTG
1 GATTG
73305 CGATTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (18 bp):
GATTGTAATTGAGATTTT
Found at i:73309 original size:18 final size:18
Alignment explanation
Indices: 73271--73321 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
73261 GTCGATTGTA
* *
73271 ATTGAGATTTTGATTGTG
1 ATTGTGATTTTGATTGCG
73289 ATTGTGATTTTGATTGCG
1 ATTGTGATTTTGATTGCG
*
73307 ATTTTGATTTTGATT
1 ATTGTGATTTTGATT
73322 TCCTTTTGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.55
Consensus pattern (18 bp):
ATTGTGATTTTGATTGCG
Found at i:75393 original size:3 final size:3
Alignment explanation
Indices: 75385--75409 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
75375 TCTTCGGGGA
75385 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
75410 AAGGTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:75653 original size:24 final size:24
Alignment explanation
Indices: 75584--75653 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
75574 CTGAAACATC
* * *
75584 ATCAAAATCTGAATATTGACCAAG
1 ATCAAAGTCCGAATATTGACTAAG
* *
75608 ATCAAAGTCCGAGTATTAACTAAG
1 ATCAAAGTCCGAATATTGACTAAG
* * *
75632 ATCAAATTTCGAATACTGACTA
1 ATCAAAGTCCGAATATTGACTA
75654 GTACTCACAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (24 bp):
ATCAAAGTCCGAATATTGACTAAG
Found at i:76596 original size:19 final size:18
Alignment explanation
Indices: 76553--76599 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
76543 CAAAACATTT
76553 GTGTTGCGAAACTAAAAC
1 GTGTTGCGAAACTAAAAC
* * *
76571 CTGTTGCGAAATTAAATTC
1 GTGTTGCGAAACTAAA-AC
76590 GTGTTGCGAA
1 GTGTTGCGAA
76600 TTCAAAAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (18 bp):
GTGTTGCGAAACTAAAAC
Found at i:76633 original size:19 final size:19
Alignment explanation
Indices: 76573--76701 Score: 100
Period size: 19 Copynumber: 6.6 Consensus size: 19
76563 ACTAAAACCT
* *
76573 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTGAAATTC-A
** *
76592 GTTGCGAATTCAAAAATCGA
1 GTTGCGAATTTGAAATTC-A
* *
76612 GTTACAAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
76631 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
*
76650 ATTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
* *
76669 GTGTTACGAATTTGACTATTGC-
1 --GTTGCGAATTTGA-AATT-CA
76691 GTTGCGAATTT
1 GTTGCGAATTT
76702 ACATTGCTTT
Statistics
Matches: 89, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
19 45 0.51
20 29 0.33
21 11 0.12
22 3 0.03
23 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:78681 original size:82 final size:83
Alignment explanation
Indices: 78557--79050 Score: 429
Period size: 82 Copynumber: 6.0 Consensus size: 83
78547 TTAGCGGCGT
* * * * * ** * * * *
78557 TTTTAAG--CAAACGCCGGTAAATACTTGTGCTTTAGTGACGTTTTTATATTAATGCCGCTAAAT
1 TTTTAAGCACAAACGCCGCTAAATGCTCGTACTTTAGTGGCGTTTTTATACAAACGCCACCAAAG
78620 ACT-GTACTTTAGTGGCA
66 ACTCGTACTTTAGTGGCA
* * *
78637 TTTTAAGCACAAATGCCGCTAAATGCTCGTACTTTAGTGGCGTTTCTATATAAACGCCACTC-AA
1 TTTTAAGCACAAACGCCGCTAAATGCTCGTACTTTAGTGGCGTTTTTATACAAACGCCAC-CAAA
* * * *
78701 TACT-ATTCTTTAGTGGCG
65 GACTCGTACTTTAGTGGCA
* * * * ** * * * * *
78719 TTTTAAGCATAAACGCCGCTAAATTCTCATACTTTAGCGATGTTTTTGTATAAACACCACTAAAT
1 TTTTAAGCACAAACGCCGCTAAATGCTCGTACTTTAGTGGCGTTTTTATACAAACGCCACCAAAG
*
78784 A-TAGTACTTTAGTGGCA
66 ACTCGTACTTTAGTGGCA
* * * * *
78801 TTTTAAGCACAAATGCCGCTAAATGTTCGTACTATAGTGGCGTTTCTATACAAACGGCACCAAAG
1 TTTTAAGCACAAACGCCGCTAAATGCTCGTACTTTAGTGGCGTTTTTATACAAACGCCACCAAAG
*
78866 ACTCGTACTTTAGTGGCG
66 ACTCGTACTTTAGTGGCA
* * * * *
78884 TTTCT-A-TACAAACGCTGCCAAA-GACTCGCACTTTAGTGGCGTTTTTATGCAAACGCCACCAA
1 TTT-TAAGCACAAACGCCGCTAAATG-CTCGTACTTTAGTGGCGTTTTTATACAAACGCCACCAA
78946 AGACTCGTACTTTAGTGGCAA
64 AGACTCGTACTTTAGTGGC-A
* * * *
78967 TTTT-A-TACAAACGCTGCCAAA-GACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAA
1 TTTTAAGCACAAACGCCGCTAAATG-CTCGTACTTTAGTGGCGTTTTTATACAAACGCCACCAAA
*
79029 GA-TCCGTACTTTAATGGCA
65 GACT-CGTACTTTAGTGGCA
79048 TTT
1 TTT
79051 CTGCCGCTAA
Statistics
Matches: 343, Mismatches: 61, Indels: 19
0.81 0.14 0.04
Matches are distributed among these distances:
80 7 0.02
81 7 0.02
82 307 0.90
83 21 0.06
84 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (83 bp):
TTTTAAGCACAAACGCCGCTAAATGCTCGTACTTTAGTGGCGTTTTTATACAAACGCCACCAAAG
ACTCGTACTTTAGTGGCA
Found at i:79027 original size:41 final size:41
Alignment explanation
Indices: 78541--79046 Score: 344
Period size: 41 Copynumber: 12.3 Consensus size: 41
78531 GTTTTTAGCG
* ** * *
78541 GTACTTTTAGCGGCGTTTTTA-AGCAAACGCCGGTAAATACTT
1 GTAC-TTTAGTGGCGTTTTTATA-CAAACGCCGCCAAAGACTC
* * ** * * *
78583 GTGCTTTAGTGACGTTTTTATATTAATGCCGCTAAATACT-
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAAGACTC
* * * * *
78623 GTACTTTAGTGGCATTTTAAGCACAAATGCCGCTAAATG-CTC
1 GTACTTTAGTGGCGTTTTTA-TACAAACGCCGCCAAA-GACTC
* * * *
78665 GTACTTTAGTGGCGTTTCTATATAAACGCCACTC-AATACT-
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGC-CAAAGACTC
* * * * * * **
78705 ATTCTTTAGTGGCGTTTTAAGCATAAACGCCGCTAAATTCTC
1 GTACTTTAGTGGCGTTTTTA-TACAAACGCCGCCAAAGACTC
* * ** * * * * * * *
78747 ATACTTTAGCGATGTTTTTGTATAAACACCACTAAATA-TA
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAAGACTC
* * * * * *
78787 GTACTTTAGTGGCATTTTAAGCACAAATGCCGCTAAATG-TTC
1 GTACTTTAGTGGCGTTTTTA-TACAAACGCCGCCAAA-GACTC
* * * *
78829 GTACTATAGTGGCGTTTCTATACAAACGGCACCAAAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAAGACTC
* *
78870 GTACTTTAGTGGCGTTTCTATACAAACGCTGCCAAAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAAGACTC
* * *
78911 GCACTTTAGTGGCGTTTTTATGCAAACGCCACCAAAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAAGACTC
** *
78952 GTACTTTAGTGGCAATTTTATACAAACGCTGCCAAAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAAGACTC
78993 GTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAAGA-TCC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAAGACT-C
*
79034 GTACTTTAATGGC
1 GTACTTTAGTGGC
79047 ATTTCTGCCG
Statistics
Matches: 364, Mismatches: 86, Indels: 29
0.76 0.18 0.06
Matches are distributed among these distances:
40 48 0.13
41 264 0.73
42 52 0.14
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (41 bp):
GTACTTTAGTGGCGTTTTTATACAAACGCCGCCAAAGACTC
Found at i:81951 original size:43 final size:42
Alignment explanation
Indices: 81883--82209 Score: 384
Period size: 43 Copynumber: 7.6 Consensus size: 42
81873 ATGGTAATTA
*
81883 GCGGCGTTTGTATCCAACAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* * *
81926 ACGGCGTTTGTATCTAAAAATGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* * * *
81969 GCGGTGTTTGTTTCAAAAACTCCGCTATAGATCTGTCCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
* * * * *
82011 GCGGCGTTTGTTCCAAAAACACCACTGTAGATCTTGACCTATA
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATC-TGACCTTTT
* * *
82054 GCGGCGTTTGTATCCAAAAACGCCGCTAAATATCTAACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* *
82097 GCGGCATTTGTTCCATAAACGCCGCTATAGATCTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GACCTTTT
* ** * * *
82140 ACAACGTTTGTTCTAAAAACGCCGCTATAGATATCGACATTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GACCTTTT
82183 GCGGCGTTTGTTCCAAAAACGCCGCTA
1 GCGGCGTTTGTTCCAAAAACGCCGCTA
82210 ACTTTAGCGA
Statistics
Matches: 237, Mismatches: 44, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
42 74 0.31
43 146 0.62
44 17 0.07
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:82079 original size:128 final size:129
Alignment explanation
Indices: 81883--82210 Score: 394
Period size: 128 Copynumber: 2.6 Consensus size: 129
81873 ATGGTAATTA
* *
81883 GCGGCGTTTGTATCCAACAACGCCGCTATAGATC-TGACCTTTTA-CGGCGTTTGTATCTAAAAA
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTTGACC-TTTAGCGGCGTTTGTATCCAAAAA
* * * ** * * *
81946 TGCCGCTATAGATCTGACCTTTTGCGGTGTTTGTTTCAAAAACTCCGCTATAGATCT-GTCCTTT
64 CGCCGCTAAAGATCTAACCTTTTGCGGCATTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTT
82010 T
129 T
* * * *
82011 GCGGCGTTTGTTCCAAAAACACCACTGTAGATCTTGACCTATAGCGGCGTTTGTATCCAAAAACG
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTAGCGGCGTTTGTATCCAAAAACG
* *
82076 CCGCTAAATATCTAACCTTTTGCGGCATTTGTTCCATAAACGCCGCTATAGATCTCGACCTTTT
66 CCGCTAAAGATCTAACCTTTTGCGGCATTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
* ** * * * * *
82140 ACAACGTTTGTTCTAAAAACGCCGCTATAGATATCGACATTTTGCGGCGTTTGT-TCCAAAAACG
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTAGCGGCGTTTGTATCCAAAAACG
82204 CCGCTAA
66 CCGCTAA
82211 CTTTAGCGAC
Statistics
Matches: 169, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
127 21 0.12
128 99 0.59
129 49 0.29
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (129 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTAGCGGCGTTTGTATCCAAAAACG
CCGCTAAAGATCTAACCTTTTGCGGCATTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
Found at i:84285 original size:22 final size:24
Alignment explanation
Indices: 84260--84314 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
84250 AAAAATAAAG
84260 TTTTAAAAGTTTT-GAGTTT-TTT
1 TTTTAAAAGTTTTAGAGTTTATTT
* * *
84282 TTTTAAGATTTTTAAGATTTTATTT
1 TTTTAAAAGTTTT-AGAGTTTATTT
84307 TTTTAAAA
1 TTTTAAAA
84315 TAAAAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 11 0.42
24 5 0.19
25 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (24 bp):
TTTTAAAAGTTTTAGAGTTTATTT
Found at i:84350 original size:7 final size:7
Alignment explanation
Indices: 84338--84363 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
84328 AATTACTCGA
84338 ACATGAC
1 ACATGAC
84345 ACATGAC
1 ACATGAC
84352 ACATGAC
1 ACATGAC
84359 ACATG
1 ACATG
84364 TCACTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (7 bp):
ACATGAC
Found at i:85118 original size:16 final size:16
Alignment explanation
Indices: 85099--85129 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85089 ATAATATTTT
85099 TTTATTATAATTATTG
1 TTTATTATAATTATTG
*
85115 TTTATTATGATTATT
1 TTTATTATAATTATT
85130 TGAAAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTATTATAATTATTG
Found at i:87648 original size:18 final size:18
Alignment explanation
Indices: 87603--87641 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
87593 ATCTACAAAA
*
87603 AATTGCTGTATCAAATGG
1 AATTGTTGTATCAAATGG
87621 AATTGTTGTATCAAATGG
1 AATTGTTGTATCAAATGG
87639 AAT
1 AAT
87642 GTATGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (18 bp):
AATTGTTGTATCAAATGG
Found at i:88487 original size:34 final size:33
Alignment explanation
Indices: 88449--88532 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 33
88439 ATAATAAACA
* *
88449 AAATTAACCAAAATACATTAACAAA-AAGTCCAA-C
1 AAATTAA-CAAAATA-AATAA-AAATAAATCCAACC
88483 AAATTTAACAAAATAAATAAAAATAAATCCAACC
1 AAA-TTAACAAAATAAATAAAAATAAATCCAACC
**
88517 AAATTAATGAAATAAA
1 AAATTAACAAAATAAA
88533 GTAAGTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
32 3 0.07
33 22 0.51
34 14 0.33
35 4 0.09
ACGTcount: A:0.63, C:0.14, G:0.02, T:0.20
Consensus pattern (33 bp):
AAATTAACAAAATAAATAAAAATAAATCCAACC
Found at i:89274 original size:18 final size:19
Alignment explanation
Indices: 89241--89276 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
89231 TTGAACCACT
89241 CATAATAAACGTCAGTAAC
1 CATAATAAACGTCAGTAAC
*
89260 CATAA-AAAGGTCAGTAA
1 CATAATAAACGTCAGTAA
89277 AAATGGGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (19 bp):
CATAATAAACGTCAGTAAC
Found at i:91907 original size:20 final size:19
Alignment explanation
Indices: 91884--91930 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
91874 CGATATACCA
91884 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
91904 GGTATCAAAATGATAAAACT
1 GGTA-AAAAATGATAAAACC
91924 GGTAAAA
1 GGTAAAA
91931 CATTACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:92018 original size:181 final size:181
Alignment explanation
Indices: 91672--92144 Score: 653
Period size: 181 Copynumber: 2.6 Consensus size: 181
91662 GATCCAAATT
* * * **
91672 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACTGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * * * *
91737 AAACCGGTAAAGCGCTGCCGGATACATTTAAAGTGTCGGTAATTTAATATAAGAATCGACACTTC
66 AAACTGGTAAAAC-ATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTC
* * *
91802 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 GTGAATTTAAAAGAGAAGAAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
91854 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
91919 AAACTGGTAAAACATTACCGGATATATAGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACTGGTAAAACA-TACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTC
** *
91983 GTGAATTTAAAAGAGAAGAAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
130 GTGAATTTAAAAGAGAAGAAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * * *
92035 AAAAATATATCGATCCACAATGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
92100 AAA-TCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACT-GGTAAAAC-ATACCGGATATATTGAAAGTGTCGATACTTT
92145 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
180 1 0.00
181 163 0.63
182 95 0.37
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACTGGTAAAACATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTCG
TGAATTTAAAAGAGAAGAAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:94360 original size:21 final size:21
Alignment explanation
Indices: 94334--94398 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
94324 AAGATAATCA
*
94334 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
*
94355 AGAGTCGAAGAGAAACCTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
94376 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
94397 AG
1 AG
94399 GCATAAGGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:94474 original size:33 final size:33
Alignment explanation
Indices: 94432--94497 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
94422 AAATAGATGG
**
94432 AGTGGTGAAAGAAGTAGAGGTGTTGGGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
94465 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
94498 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.50, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:96311 original size:19 final size:19
Alignment explanation
Indices: 96287--96334 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
96277 AATATAGGGT
*
96287 TAATTTTGTATATGATTTA
1 TAATTTTGTATACGATTTA
96306 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
96325 TAATTTTGTA
1 TAATTTTGTA
96335 CGTGAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:96912 original size:200 final size:200
Alignment explanation
Indices: 96569--97904 Score: 2401
Period size: 200 Copynumber: 6.7 Consensus size: 200
96559 AATTTACAAT
96569 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
96634 CAAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
96699 ATGAGAAAATAGGTCTAAATAATGTTTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
96764 AATGA
196 AATGA
* *
96769 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
96834 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
96899 ATGAGAGAATAGGTCTAAATAATGTATCGATACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
96964 AATGA
196 AATGA
* * * *
96969 ATGGCAAACAGGGTGAAACAATAAAGTATCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
97034 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATATCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
97099 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
97164 AATGA
196 AATGA
97169 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
97234 CGAAACCCATGAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
97299 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
97364 AATGA
196 AATGA
97369 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAA--GT-G-TCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
97430 CGAAACCCATGAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
97495 ATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
97560 AATGA
196 AATGA
*
97565 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
97630 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
97695 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTTTGTCGATATTTTTGGTTCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
97760 AATGA
196 AATGA
*
97765 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAACTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
97830 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
97895 ATGGGAGAAT
131 ATGAGAGAAT
97905 TGGTATATAA
Statistics
Matches: 1097, Mismatches: 35, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
196 190 0.17
197 1 0.00
198 4 0.00
199 1 0.00
200 901 0.82
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:97705 original size:596 final size:598
Alignment explanation
Indices: 96569--97904 Score: 2451
Period size: 596 Copynumber: 2.2 Consensus size: 598
96559 AATTTACAAT
96569 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
96634 CAAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
96699 ATGAGAAAATAGGTCTAAATAATGTTTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
96764 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATA
196 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTC-A-CCGATA
*
96829 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCG
259 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
*
96894 GTTTTATGAGAGAATAGGTCTAAATAATGTATCGATACTTTTGTAGTTTGTGTCGATATTTTTGG
324 GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
96959 TCCAGAATGAATGGCAAACAGGGTGAAACAATAAAGTATCGATCCATATATAAAAAGTGTCGATC
389 TCCAGAATGAATGGCAAACAGGGTGAAACAATAAAGTATCGATCCATATATAAAAAGTGTCGATC
*
97024 CGATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTA
454 CCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTA
*
97089 TATCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATT
519 TACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATT
97154 TTTGGTCCAGAATGA
584 TTTGGTCCAGAATGA
97169 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
**
97234 CGAAACCCATGAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
97299 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
*
97364 AATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTC-CC-ATAAA
196 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCACCGATAAA
*
97427 CATCGAAACCCATGAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGT
261 CATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGT
*
97492 TTTATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTC
326 TTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTC
* *
97557 CAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC
391 CAGAATGAATGGCAAACAGGGTGAAACAATAAAGTATCGATCCATATATAAAAAGTGTCGATCCC
97622 ATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATA
456 ATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATA
*
97687 CCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTTTGTCGATATTTT
521 CCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTT
*
97752 TGGTTCAGAATGA
586 TGGTCCAGAATGA
*
97765 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAACTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
97830 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
97895 ATGGGAGAAT
131 ATGAGAGAAT
97905 TGGTATATAA
Statistics
Matches: 713, Mismatches: 23, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
596 467 0.65
597 2 0.00
600 244 0.34
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (598 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCACCGATAAA
CATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGT
TTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTC
CAGAATGAATGGCAAACAGGGTGAAACAATAAAGTATCGATCCATATATAAAAAGTGTCGATCCC
ATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATA
CCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTT
TGGTCCAGAATGA
Found at i:99393 original size:6 final size:6
Alignment explanation
Indices: 99382--99451 Score: 68
Period size: 6 Copynumber: 11.7 Consensus size: 6
99372 CAAGCGGTCA
* * * * *
99382 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * *
99430 ATGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGA
99452 TCCAAACAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.23
Consensus pattern (6 bp):
ATGAAG
Found at i:99404 original size:12 final size:12
Alignment explanation
Indices: 99382--99451 Score: 86
Period size: 12 Copynumber: 5.8 Consensus size: 12
99372 CAAGCGGTCA
*
99382 ATGAAGATGAAG
1 ATGACGATGAAG
*
99394 CTGACGATGAAG
1 ATGACGATGAAG
99406 ATGACGATGAAG
1 ATGACGATGAAG
*
99418 ATGACGATGATG
1 ATGACGATGAAG
* *
99430 ATGATGATGATG
1 ATGACGATGAAG
*
99442 ATGATGATGA
1 ATGACGATGA
99452 TCCAAACAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 53 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.23
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:99420 original size:18 final size:18
Alignment explanation
Indices: 99382--99451 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
99372 CAAGCGGTCA
* * *
99382 ATGAAGATGAAGCTGACG
1 ATGAAGATGATGATGAAG
*
99400 ATGAAGATGACGATGAAG
1 ATGAAGATGATGATGAAG
* *
99418 ATGACGATGATGATGATG
1 ATGAAGATGATGATGAAG
*
99436 ATGATGATGATGATGA
1 ATGAAGATGATGATGA
99452 TCCAAACAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.23
Consensus pattern (18 bp):
ATGAAGATGATGATGAAG
Found at i:99431 original size:3 final size:3
Alignment explanation
Indices: 99399--99452 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
99389 TGAAGCTGAC
* * * *
99399 GAT GAA GAT GAC GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
99447 GAT GAT
1 GAT GAT
99453 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:104169 original size:23 final size:23
Alignment explanation
Indices: 104138--104210 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
104128 ATAGGTAAAA
*
104138 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
104161 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
104184 ATATAATGTAATATGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
104207 ATAT
1 ATAT
104211 TGTAAAGTAT
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:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:104647 original size:23 final size:23
Alignment explanation
Indices: 104621--104693 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
104611 AATTGGTAAA
*
104621 ATATGATGTAATAGGTATCGCTT
1 ATATAATGTAATAGGTATCGCTT
* *
104644 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTATCGCTT
104667 ATATAATGTAATAGGTAGT-GCTT
1 ATATAATGTAATAGGTA-TCGCTT
104690 ATAT
1 ATAT
104694 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:104801 original size:483 final size:486
Alignment explanation
Indices: 103837--105091 Score: 2179
Period size: 483 Copynumber: 2.6 Consensus size: 486
103827 ACCATAAAGT
103837 GTCTAATGATTTATTTTTTACGTTG-GAGTATATATTATTATTAAATTAAAAA-AATAAACATAT
1 GTCTAATGATTTATTTTTTACGTTGCG-GTATATATTATTATTAAATTAAAAACAATAAACATAT
*
103900 ATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTAT
65 ATATTACATATTTATTATTATCTTTGGTTAATTTTGTTAAATTTAAATTCTAAATAATATTTTAT
103965 AAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG
130 AAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG
104030 AAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAATAAGTATCGATC
195 AAAACATGAAACACTATT--AAAAATTGAAACATAAATTACATAACTTTAAAATAAGTATCGATC
*
104095 ATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCT
258 -CTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCT
*
104160 TATATAATGTAATAGGTAGCGTTTATATAATGTAATATGTAGTGCTTATATTGTAAAGTATCTAT
322 TATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTAT
*
104225 CCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGA
387 CATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGA
*
104290 GTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
452 GTGAGCTTTAAGATATTAATTTAGTAATTATAGGC
104325 GTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAAAAACAATAAACATATA
1 GTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAAAAACAATAAACATATA
104390 TATTACATATTTATTATTATCTTTGGTTAATTTTGTTAAATTTAAATTCTAAATAATATTTTATA
66 TATTACATATTTATTATTATCTTTGGTTAATTTTGTTAAATTTAAATTCTAAATAATATTTTATA
104455 AAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGA
131 AAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGA
* *
104520 AAACATGAAATACTATT-AAAA-TGAAATATAAATTACATAACTTTAAAATAAGTATCGATCCTT
196 AAACATGAAACACTATTAAAAATTGAAACATAAATTACATAACTTTAAAATAAGTATCGATCCTT
* *
104583 TTATAAAAAGTATGGACACTTTCAATATAATTGGT-AAAATATGATGTAATAGGTATCGCTTATA
261 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
*
104647 TAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATTTATCATT
326 TAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATT
* * *
104712 TTTATAAAAGTGTCTATACTTTTTTTACTGTGAAAAATATTAATTTAAGGTTATCTTTTGAGTGA
391 TTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGA
104777 GCTTTAAGATATTAATTTAGTAATTATAGGC
456 GCTTTAAGATATTAATTTAGTAATTATAGGC
* * *
104808 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAAAAAACATATA
1 GTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAAAAACAATAAACATATA
*
104873 TATTACATATTTATTATTATCTTTGGTTAATATTT-TTAAATTTAAATTCTAAAT--T-TTATA-
66 TATTACATATTTATTATTATCTTTGGTTAAT-TTTGTTAAATTTAAATTCTAAATAATATTTTAT
**
104933 AAAATATCAAAACAATCAAATAATTTTTTGTGCGAATGAAATTATTAAATTAATATTGTAGGTGG
130 AAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG
*
104998 AAAACATGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
195 AAAACATGAAACACTATT-AAAAATTGAAACATAAATTACATAACTTTAAAATAAGTATCGATCC
*
105063 TTTTTATAAAAAAGTATGAACACTTTCAA
259 -TTTTAT-AAAAAGTATGGACACTTTCAA
105092 CATATTATAA
Statistics
Matches: 736, Mismatches: 23, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
479 80 0.11
480 4 0.01
481 5 0.01
482 38 0.05
483 300 0.41
484 59 0.08
485 38 0.05
486 4 0.01
488 50 0.07
489 158 0.21
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (486 bp):
GTCTAATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAAAAACAATAAACATATA
TATTACATATTTATTATTATCTTTGGTTAATTTTGTTAAATTTAAATTCTAAATAATATTTTATA
AAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGA
AAACATGAAACACTATTAAAAATTGAAACATAAATTACATAACTTTAAAATAAGTATCGATCCTT
TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
TAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATT
TTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGA
GCTTTAAGATATTAATTTAGTAATTATAGGC
Found at i:105088 original size:23 final size:22
Alignment explanation
Indices: 105043--105088 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
105033 ATTACATAAC
*
105043 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
105065 TTTATAAAAAAGTAT-GAACACTT
1 TTTA-AAAAAAGTATCGAAC-CTT
105088 T
1 T
105089 CAACATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:105194 original size:23 final size:23
Alignment explanation
Indices: 105165--105212 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
105155 AAATAGGTCA
* *
105165 ATATAAGCGCTACCTATTATATT
1 ATATAAGCACTACCTAATATATT
*
105188 ATATAAGCACTACCTAATATGTT
1 ATATAAGCACTACCTAATATATT
105211 AT
1 AT
105213 TGTACTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
ATATAAGCACTACCTAATATATT
Found at i:124360 original size:24 final size:24
Alignment explanation
Indices: 124311--124360 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
124301 TGGAAATAAT
* *
124311 AAAATAATAAAAATAAATGATGAG
1 AAAATAATAAAAATAAATAAAGAG
*
124335 AAAATAA-ATAAATAAATAAAGTAG
1 AAAATAATAAAAATAAATAAAG-AG
124359 AA
1 AA
124361 TAATTCAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (24 bp):
AAAATAATAAAAATAAATAAAGAG
Found at i:125168 original size:15 final size:15
Alignment explanation
Indices: 125150--125188 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
125140 ATTCCTAAAT
125150 AAATAAAAATAATAA
1 AAATAAAAATAATAA
*
125165 AAAT-AAAATAATCA
1 AAATAAAAATAATAA
*
125179 AAGTAAAAAT
1 AAATAAAAAT
125189 CTTAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
AAATAAAAATAATAA
Found at i:128084 original size:32 final size:32
Alignment explanation
Indices: 128042--128119 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
128032 CTTGGGGCCT
* *
128042 GAGAGCCTACCCAAGAAAGTTCTCGGGGCCACG
1 GAGA-CCTACCCAAGAAAGATCTCGGGGCCACA
* *
128075 GAGACCTACCCAAGAAAGATCTTGGGGCCGCA
1 GAGACCTACCCAAGAAAGATCTCGGGGCCACA
128107 GAG-CCTACCCAAG
1 GAGACCTACCCAAG
128120 GGTCCCCTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 10 0.24
32 27 0.66
33 4 0.10
ACGTcount: A:0.29, C:0.31, G:0.28, T:0.12
Consensus pattern (32 bp):
GAGACCTACCCAAGAAAGATCTCGGGGCCACA
Found at i:129921 original size:14 final size:13
Alignment explanation
Indices: 129885--129926 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
129875 TCGGTCAAAG
*
129885 TCAATGAGTTAAC
1 TCAATGAGTTGAC
*
129898 CCAATGAGTTGAC
1 TCAATGAGTTGAC
129911 TCAACTGAGTTGAC
1 TCAA-TGAGTTGAC
129925 TC
1 TC
129927 GATCGGGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (13 bp):
TCAATGAGTTGAC
Found at i:133463 original size:16 final size:15
Alignment explanation
Indices: 133444--133493 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
133434 AGGGATTTAG
133444 AAATAATGAAAATAAT
1 AAATAATGAAAA-AAT
133460 AAATAAT--AAAAAT
1 AAATAATGAAAAAAT
* *
133473 AAATTATGAGAAAAT
1 AAATAATGAAAAAAT
133488 AAATAA
1 AAATAA
133494 ATTAGAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 9 0.31
14 3 0.10
15 10 0.34
16 7 0.24
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (15 bp):
AAATAATGAAAAAAT
Found at i:134689 original size:3 final size:3
Alignment explanation
Indices: 134681--134707 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
134671 TGATTCAAGA
134681 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
134708 TTTCCAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:143721 original size:37 final size:37
Alignment explanation
Indices: 143668--143772 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
143658 CCTTTTCGTC
* *
143668 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
143705 TTGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
** *
143742 CTACTATAATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
143773 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:144374 original size:3 final size:3
Alignment explanation
Indices: 144366--144475 Score: 193
Period size: 3 Copynumber: 36.7 Consensus size: 3
144356 TTTTTATCCA
*
144366 TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
144414 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
144462 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
144476 ATTTATATTA
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 101 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:157234 original size:1 final size:1
Alignment explanation
Indices: 157228--157286 Score: 73
Period size: 1 Copynumber: 59.0 Consensus size: 1
157218 ATGCTTGAAG
* * * * *
157228 AAAAAAAAAAAAAGAAGAGAAAGAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
157287 GGGGTCAAGG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:157255 original size:23 final size:23
Alignment explanation
Indices: 157225--157287 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
157215 ATTATGCTTG
* *
157225 AAGAAAAAAAAAAAAAGAAGAGA
1 AAGAAAAAAAAAAAAAGAAAAAA
*
157248 AAGAAAAAAAAAAAAAAAAAAAA
1 AAGAAAAAAAAAAAAAGAAAAAA
157271 AAGAAAAAAAAAAAAAG
1 AAGAAAAAAAAAAAAAG
157288 GGGTCAAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (23 bp):
AAGAAAAAAAAAAAAAGAAAAAA
Found at i:157635 original size:16 final size:16
Alignment explanation
Indices: 157616--157658 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
157606 ATTTCAAGTG
*
157616 CAATTTATTTGAGATT
1 CAATTTATTTGAAATT
157632 CAATTTATTTTTGAAATT
1 CAATTTA--TTTGAAATT
157650 CAATTTATT
1 CAATTTATT
157659 CTTTTCTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 9 0.38
18 15 0.62
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (16 bp):
CAATTTATTTGAAATT
Found at i:157650 original size:18 final size:18
Alignment explanation
Indices: 157623--157658 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
157613 GTGCAATTTA
*
157623 TTTGAGATTCAATTTATT
1 TTTGAAATTCAATTTATT
157641 TTTGAAATTCAATTTATT
1 TTTGAAATTCAATTTATT
157659 CTTTTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (18 bp):
TTTGAAATTCAATTTATT
Found at i:158569 original size:50 final size:50
Alignment explanation
Indices: 158409--158558 Score: 291
Period size: 50 Copynumber: 3.0 Consensus size: 50
158399 TGAAAGATGA
158409 ATTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 ATTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
158459 ATTAGACAGAATATCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 ATTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
158509 ATTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 ATTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
158559 GTTTGGCAGA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 98 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (50 bp):
ATTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
Found at i:158711 original size:133 final size:133
Alignment explanation
Indices: 158468--158907 Score: 835
Period size: 133 Copynumber: 3.3 Consensus size: 133
158458 GATTAGACAG
*
158468 AATATCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
158533 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
158598 GCC
131 GCC
158601 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
158666 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
158731 GCC
131 GCC
158734 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
158799 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
**
158864 GTT
131 GCC
* *
158867 AATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTAATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
158908 GTTTGGTAAG
Statistics
Matches: 302, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 302 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (133 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
GCC
Found at i:159742 original size:113 final size:113
Alignment explanation
Indices: 159544--159976 Score: 748
Period size: 113 Copynumber: 3.8 Consensus size: 113
159534 TTAGCAAAGA
159544 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
159609 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
159657 TGAATCCATCATTTGGTGGATCAT-TTTTCCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TGAATCCATCATTTGGTGGATCATCTTTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
159721 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
*
159770 TGAATCCATCATGTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
159835 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
* * * *
159883 TGAATTCATCATTTGATGGATCA-CATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGA
159946 AGAAGGAAG-AGAAAGTTCATAATGAGAAGAA
65 AGAAGGAAGAAG-AAGTTCATAATGAGAAGAA
159977 CTCATCAAGA
Statistics
Matches: 308, Mismatches: 8, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
111 3 0.01
112 68 0.22
113 233 0.76
114 4 0.01
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (113 bp):
TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
Found at i:160233 original size:3 final size:3
Alignment explanation
Indices: 160225--160324 Score: 166
Period size: 3 Copynumber: 33.7 Consensus size: 3
160215 TTTTTATCCA
*
160225 TAT TAT TAT TAA TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
160272 TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
160320 TAT TA
1 TAT TA
160325 ATTTATATTA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
2 2 0.02
3 89 0.98
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Done.