Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold1650.1
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: 394711
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Warning! 311 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:2025 original size:10 final size:10
Alignment explanation
Indices: 2010--2072 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
2000 TTTATATTTT
2010 TAAAAAATTA
1 TAAAAAATTA
2020 TAAAAAATTA
1 TAAAAAATTA
2030 T--AAAATT-
1 TAAAAAATTA
*
2037 TAAAAAATAA
1 TAAAAAATTA
*
2047 TCTAAAAATATA
1 T-AAAAAAT-TA
2059 TTAAAAAATT-
1 -TAAAAAATTA
2069 TAAA
1 TAAA
2073 TTTAAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
7 1 0.02
8 6 0.14
9 9 0.21
10 12 0.28
11 7 0.16
12 7 0.16
13 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:2072 original size:20 final size:20
Alignment explanation
Indices: 2012--2072 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 20
2002 TATATTTTTA
2012 AAAAAT-TA-TAAAAAA-TT
1 AAAAATATATTAAAAAATTT
*
2029 ATAAA-AT-TTAAAAAATAATCT
1 AAAAATATATTAAAAAAT--T-T
2050 AAAAATATATTAAAAAATTT
1 AAAAATATATTAAAAAATTT
2070 AAA
1 AAA
2073 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
17 12 0.35
20 5 0.15
21 6 0.18
22 2 0.06
23 9 0.26
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATATATTAAAAAATTT
Found at i:2080 original size:38 final size:38
Alignment explanation
Indices: 2012--2091 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
2002 TATATTTTTA
2012 AAAAATTATAAAAAATTATAAAATTTAAAAAATAATCT
1 AAAAATTATAAAAAATTATAAAATTTAAAAAATAATCT
**
2050 AAAAATATATTAAAAAATT-T-AAATTTAAAAAATTTTCT
1 AAAAAT-TA-TAAAAAATTATAAAATTTAAAAAATAATCT
2088 AAAA
1 AAAA
2092 TAATAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 26 0.68
39 3 0.08
40 9 0.24
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.34
Consensus pattern (38 bp):
AAAAATTATAAAAAATTATAAAATTTAAAAAATAATCT
Found at i:18064 original size:11 final size:11
Alignment explanation
Indices: 18048--18078 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
18038 ATACCCATAC
18048 CCCATACCTTG
1 CCCATACCTTG
*
18059 CCCATACCTTT
1 CCCATACCTTG
18070 CCCATACCT
1 CCCATACCT
18079 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:20236 original size:34 final size:30
Alignment explanation
Indices: 20168--20238 Score: 81
Period size: 34 Copynumber: 2.2 Consensus size: 30
20158 AATTTAGTAT
*
20168 TATTTCTAAAAAGCATTTTTAAGACAAAAG
1 TATTTCTAAAAAGCATTTTTAAGACAAAAA
20198 TATTTCTAAACAAGCTATTTTTTTAGAGA-AAAAA
1 TATTTCTAAA-AAGC-A--TTTTTA-AGACAAAAA
20232 TATTTCT
1 TATTTCT
20239 CTCAAACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
30 10 0.29
31 4 0.11
32 1 0.03
34 17 0.49
35 3 0.09
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (30 bp):
TATTTCTAAAAAGCATTTTTAAGACAAAAA
Found at i:24316 original size:17 final size:18
Alignment explanation
Indices: 24296--24333 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
24286 ATTTTTCTCA
*
24296 TTTTGTCATCT-TAATTT
1 TTTTGTCATATCTAATTT
24313 TTTTGTCATATCTAATTT
1 TTTTGTCATATCTAATTT
24331 TTT
1 TTT
24334 GTTCAGGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTGTCATATCTAATTT
Found at i:30380 original size:20 final size:20
Alignment explanation
Indices: 30339--30380 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
30329 AAAAGAGTGA
* *
30339 AAATTTTATTTTCTAAGTAT
1 AAATTATATTTTCTAAGAAT
*
30359 AAATTATATTTTCTAGGAAT
1 AAATTATATTTTCTAAGAAT
30379 AA
1 AA
30381 TAATTCTACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (20 bp):
AAATTATATTTTCTAAGAAT
Found at i:30820 original size:30 final size:32
Alignment explanation
Indices: 30761--30823 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
30751 TGAAAGTGCG
* *
30761 AAATCGATTTAAAGAACCCTAACCCCCTTTTT
1 AAATCGATTTAAAAAACCATAACCCCCTTTTT
*
30793 AAATC-ATTTAAAAAACCATAACCCCTTTTTT
1 AAATCGATTTAAAAAACCATAACCCCCTTTTT
30824 GTACAGTCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.33
Consensus pattern (32 bp):
AAATCGATTTAAAAAACCATAACCCCCTTTTT
Found at i:31113 original size:16 final size:16
Alignment explanation
Indices: 31092--31125 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
31082 GGTTTTATTC
31092 TTGAAAGAATATTATA
1 TTGAAAGAATATTATA
31108 TTGAAAGAATATTATA
1 TTGAAAGAATATTATA
31124 TT
1 TT
31126 AACCTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (16 bp):
TTGAAAGAATATTATA
Found at i:31664 original size:21 final size:21
Alignment explanation
Indices: 31640--31694 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
31630 ATGTAAAGGT
31640 TGGTAAGGGTATTGAAAATGC
1 TGGTAAGGGTATTGAAAATGC
* * * *
31661 TGGTCAGTGTATGGAAAATGT
1 TGGTAAGGGTATTGAAAATGC
*
31682 TGGTGAGGGTATT
1 TGGTAAGGGTATT
31695 AAATATGGTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.36, T:0.33
Consensus pattern (21 bp):
TGGTAAGGGTATTGAAAATGC
Found at i:48518 original size:45 final size:46
Alignment explanation
Indices: 48451--48574 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
48441 CATATGACCT
*
48451 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
48494 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
48540 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
48575 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:48557 original size:46 final size:45
Alignment explanation
Indices: 48451--48685 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
48441 CATATGACCT
*
48451 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
48494 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
48540 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
48577 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
48614 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
48651 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
48686 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:48578 original size:37 final size:37
Alignment explanation
Indices: 48536--48712 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
48526 AGCTGAAGCT
* **
48536 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
48573 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
48610 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
48647 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
48684 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
48713 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:56217 original size:45 final size:46
Alignment explanation
Indices: 56150--56273 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
56140 CATATGACCT
*
56150 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
56193 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
56239 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
56274 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:56256 original size:46 final size:45
Alignment explanation
Indices: 56150--56384 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
56140 CATATGACCT
*
56150 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
56193 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
56239 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
56276 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
56313 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
56350 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
56385 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:56277 original size:37 final size:37
Alignment explanation
Indices: 56235--56411 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
56225 AGCTGAAGCT
* **
56235 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
56272 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
56309 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
56346 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
56383 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
56412 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:60029 original size:29 final size:28
Alignment explanation
Indices: 59975--60030 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
59965 TGCTCGAATT
*
59975 AAATTTAAAAAATAAACTCATTTTTTTA
1 AAATTTAAAAAATAAACTCAATTTTTTA
60003 AAATATTACAAAAATAAAC-CAATTTTTT
1 AAAT-TTA-AAAAATAAACTCAATTTTTT
60031 GTGTGCCACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 11 0.44
30 10 0.40
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATTTAAAAAATAAACTCAATTTTTTA
Found at i:60533 original size:29 final size:28
Alignment explanation
Indices: 60478--60542 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
60468 CTTATTCTCA
**
60478 TAAAATTTTAAAAAATTAATTTATTTTT
1 TAAAATTTTAAAAAAACAATTTATTTTT
*
60506 GTAATATTTTAAAAAAAACAATTT-TTTTT
1 -TAAAATTTT-AAAAAAACAATTTATTTTT
60535 TAAAATTT
1 TAAAATTT
60543 AGTCTAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 7 0.23
29 13 0.42
30 11 0.35
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (28 bp):
TAAAATTTTAAAAAAACAATTTATTTTT
Found at i:67294 original size:3 final size:3
Alignment explanation
Indices: 67286--67310 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
67276 AAAGATAAGT
67286 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
67311 AAATAGTGTA
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:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:76993 original size:12 final size:12
Alignment explanation
Indices: 76976--77000 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76966 TAGGTTTTCA
76976 AAAATGGAAATG
1 AAAATGGAAATG
76988 AAAATGGAAATG
1 AAAATGGAAATG
77000 A
1 A
77001 TCCGTTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:77743 original size:53 final size:53
Alignment explanation
Indices: 77686--77792 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
77676 GAGAGAAAAC
* **
77686 TTTTTCTAGTTCTGTGTTTTGATTCAATTGGTTAAGTCCACACTTGAAGCAAT
1 TTTTTCTAGTTCTGTATTTTGATTCAATTGGTTAAGTCCACACTCAAAGCAAT
77739 TTTTTCTAGTTCTGTATTTTGATTCAATTGGTTAAGTCCACACTCAAAGCAAT
1 TTTTTCTAGTTCTGTATTTTGATTCAATTGGTTAAGTCCACACTCAAAGCAAT
77792 T
1 T
77793 CATGGTACAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (53 bp):
TTTTTCTAGTTCTGTATTTTGATTCAATTGGTTAAGTCCACACTCAAAGCAAT
Found at i:86147 original size:30 final size:30
Alignment explanation
Indices: 86113--86175 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
86103 ACTTATTTTA
* *
86113 TTGTTAATTTTGTTGTTTTTTTAAAAACAT
1 TTGTTAATTTTGTTATTATTTTAAAAACAT
* *
86143 TTGTTAATTTTGTTATTATTTTAGAAATAT
1 TTGTTAATTTTGTTATTATTTTAAAAACAT
86173 TTG
1 TTG
86176 CTAGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAAACAT
Found at i:86328 original size:12 final size:12
Alignment explanation
Indices: 86298--86330 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
86288 TATATATTTT
86298 AAAATT-ATATA
1 AAAATTAATATA
86309 AAAA-TAATATA
1 AAAATTAATATA
86320 AAAATTAATAT
1 AAAATTAATAT
86331 GGGCGGCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:92807 original size:428 final size:428
Alignment explanation
Indices: 92010--92866 Score: 1705
Period size: 428 Copynumber: 2.0 Consensus size: 428
92000 TGATTTGTCA
*
92010 TCACTACCATCGGATTTTAACTCCTCAATTCGCTGGAGAGCCAGTTCGCATGTTTCACGGACTTC
1 TCACTACCATCGGATTTTAACTCCTCAATTCGCTGGAGAGCCAGTTCACATGTTTCACGGACTTC
92075 TGGAGCAGGATCTAGAACCAAACTATTCTTCAAAAGAGGAATGTTACTCTCCAAACCAATGGCAC
66 TGGAGCAGGATCTAGAACCAAACTATTCTTCAAAAGAGGAATGTTACTCTCCAAACCAATGGCAC
92140 CAAGTGCTTCAGCTGCCTGTAGCACAATAACATATGAACAATTGAAGGAAAACAGCCATTGTAGA
131 CAAGTGCTTCAGCTGCCTGTAGCACAATAACATATGAACAATTGAAGGAAAACAGCCATTGTAGA
92205 ACAGAGATAAATACAATACATAACCGTAGAACAACAGTGTAACATGAACCAACCTCATGACGAAC
196 ACAGAGATAAATACAATACATAACCGTAGAACAACAGTGTAACATGAACCAACCTCATGACGAAC
92270 GATGGGATGCAAAGAAAGATCATTTAGAACTACTTCCAAAGCAGGAATAGCTTCAGCATCTTGCA
261 GATGGGATGCAAAGAAAGATCATTTAGAACTACTTCCAAAGCAGGAATAGCTTCAGCATCTTGCA
92335 TTTGACCCAATGCAAATGCAGCTTCATGAGCCAACAAATTTGATGAATCCCTTGTCGCTGCAAGA
326 TTTGACCCAATGCAAATGCAGCTTCATGAGCCAACAAATTTGATGAATCCCTTGTCGCTGCAAGA
92400 ACATAGATTGCGACAAAGATTAGACTATTCAGTATGGT
391 ACATAGATTGCGACAAAGATTAGACTATTCAGTATGGT
92438 TCACTACCATCGGATTTTAACTCCTCAATTCGCTGGAGAGCCAGTTCACATGTTTCACGGACTTC
1 TCACTACCATCGGATTTTAACTCCTCAATTCGCTGGAGAGCCAGTTCACATGTTTCACGGACTTC
92503 TGGAGCAGGATCTAGAACCAAACTATTCTTCAAAAGAGGAATGTTACTCTCCAAACCAATGGCAC
66 TGGAGCAGGATCTAGAACCAAACTATTCTTCAAAAGAGGAATGTTACTCTCCAAACCAATGGCAC
92568 CAAGTGCTTCAGCTGCCTGTAGCACAATAACATATGAACAATTGAAGGAAAACAGCCATTGTAGA
131 CAAGTGCTTCAGCTGCCTGTAGCACAATAACATATGAACAATTGAAGGAAAACAGCCATTGTAGA
92633 ACAGAGATAAATACAATACATAACCGTAGAACAACAGTGTAACATGAACCAACCTCATGACGAAC
196 ACAGAGATAAATACAATACATAACCGTAGAACAACAGTGTAACATGAACCAACCTCATGACGAAC
92698 GATGGGATGCAAAGAAAGATCATTTAGAACTACTTCCAAAGCAGGAATAGCTTCAGCATCTTGCA
261 GATGGGATGCAAAGAAAGATCATTTAGAACTACTTCCAAAGCAGGAATAGCTTCAGCATCTTGCA
92763 TTTGACCCAATGCAAATGCAGCTTCATGAGCCAACAAATTTGATGAATCCCTTGTCGCTGCAAGA
326 TTTGACCCAATGCAAATGCAGCTTCATGAGCCAACAAATTTGATGAATCCCTTGTCGCTGCAAGA
92828 ACATAGATTGCGACAAAGATTAGACTATTCAGTATGGT
391 ACATAGATTGCGACAAAGATTAGACTATTCAGTATGGT
92866 T
1 T
92867 AACACTTAAC
Statistics
Matches: 428, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
428 428 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (428 bp):
TCACTACCATCGGATTTTAACTCCTCAATTCGCTGGAGAGCCAGTTCACATGTTTCACGGACTTC
TGGAGCAGGATCTAGAACCAAACTATTCTTCAAAAGAGGAATGTTACTCTCCAAACCAATGGCAC
CAAGTGCTTCAGCTGCCTGTAGCACAATAACATATGAACAATTGAAGGAAAACAGCCATTGTAGA
ACAGAGATAAATACAATACATAACCGTAGAACAACAGTGTAACATGAACCAACCTCATGACGAAC
GATGGGATGCAAAGAAAGATCATTTAGAACTACTTCCAAAGCAGGAATAGCTTCAGCATCTTGCA
TTTGACCCAATGCAAATGCAGCTTCATGAGCCAACAAATTTGATGAATCCCTTGTCGCTGCAAGA
ACATAGATTGCGACAAAGATTAGACTATTCAGTATGGT
Found at i:94437 original size:19 final size:17
Alignment explanation
Indices: 94413--94447 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
94403 ATTGTTTGGA
94413 TATTGTATAACTCTTGTTT
1 TATTGT-TAACT-TTGTTT
94432 TATTGTTAACTTTGTT
1 TATTGTTAACTTTGTT
94448 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (17 bp):
TATTGTTAACTTTGTTT
Found at i:94453 original size:18 final size:19
Alignment explanation
Indices: 94413--94453 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
94403 ATTGTTTGGA
*
94413 TATTGTATAACTCTTGTTT
1 TATTGTATAACTCTTGTTC
94432 TATTGT-TAACT-TTGTTAC
1 TATTGTATAACTCTTGTT-C
94450 TATT
1 TATT
94454 TTAGAGGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.59
Consensus pattern (19 bp):
TATTGTATAACTCTTGTTC
Found at i:97030 original size:20 final size:18
Alignment explanation
Indices: 97006--97054 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
96996 AATAGTATTT
97006 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
97024 GTGATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
97044 T-TTAATTTAAT
1 TATTAATTTAAT
97055 GTTTATCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.26
18 2 0.07
19 4 0.15
20 14 0.52
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:97041 original size:68 final size:72
Alignment explanation
Indices: 96965--97099 Score: 188
Period size: 72 Copynumber: 1.9 Consensus size: 72
96955 TTTAATAGAT
* * *
96965 TTAATATTAAATTAAATTTAATACTTAT-TT-TA-AT-AGTATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTAAATTTAATACTTATCTTACAGATAAATATTATATTAATTTAATATTAAAGT
97026 GATTATC
66 GATTATC
* **
97033 TTAATATTAAATTTAATTTAATGTTTATCTTACAGATAAATATTATATTAATTTAATATTAAAGT
1 TTAATATTAAATTAAATTTAATACTTATCTTACAGATAAATATTATATTAATTTAATATTAAAGT
97098 GA
66 GA
97100 CTAAGTTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
68 25 0.44
69 2 0.04
70 1 0.02
71 2 0.04
72 27 0.47
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (72 bp):
TTAATATTAAATTAAATTTAATACTTATCTTACAGATAAATATTATATTAATTTAATATTAAAGT
GATTATC
Found at i:106036 original size:229 final size:229
Alignment explanation
Indices: 105635--106093 Score: 918
Period size: 229 Copynumber: 2.0 Consensus size: 229
105625 TTTAAAATTT
105635 ACAGGGAAGATTAGAGATTTATAAAGGGGTTATATTGAATTAAAAAATTATTTATTCGATAAAAT
1 ACAGGGAAGATTAGAGATTTATAAAGGGGTTATATTGAATTAAAAAATTATTTATTCGATAAAAT
105700 CTGGTAATGCCTCATACTCTATTTCGACGATGAATACGGGTAAGGGTATTACATTTATTGGTATC
66 CTGGTAATGCCTCATACTCTATTTCGACGATGAATACGGGTAAGGGTATTACATTTATTGGTATC
105765 AGAGCTACGGTTTAGCCGGTTCTCGGACCGACGTAGCAAATACAAAATTAGCTATACATGCCATT
131 AGAGCTACGGTTTAGCCGGTTCTCGGACCGACGTAGCAAATACAAAATTAGCTATACATGCCATT
105830 TAAATTATTATTGATAGTGTGATATCTCCTGACC
196 TAAATTATTATTGATAGTGTGATATCTCCTGACC
105864 ACAGGGAAGATTAGAGATTTATAAAGGGGTTATATTGAATTAAAAAATTATTTATTCGATAAAAT
1 ACAGGGAAGATTAGAGATTTATAAAGGGGTTATATTGAATTAAAAAATTATTTATTCGATAAAAT
105929 CTGGTAATGCCTCATACTCTATTTCGACGATGAATACGGGTAAGGGTATTACATTTATTGGTATC
66 CTGGTAATGCCTCATACTCTATTTCGACGATGAATACGGGTAAGGGTATTACATTTATTGGTATC
105994 AGAGCTACGGTTTAGCCGGTTCTCGGACCGACGTAGCAAATACAAAATTAGCTATACATGCCATT
131 AGAGCTACGGTTTAGCCGGTTCTCGGACCGACGTAGCAAATACAAAATTAGCTATACATGCCATT
106059 TAAATTATTATTGATAGTGTGATATCTCCTGACC
196 TAAATTATTATTGATAGTGTGATATCTCCTGACC
106093 A
1 A
106094 TTTGAAATGT
Statistics
Matches: 230, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 230 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (229 bp):
ACAGGGAAGATTAGAGATTTATAAAGGGGTTATATTGAATTAAAAAATTATTTATTCGATAAAAT
CTGGTAATGCCTCATACTCTATTTCGACGATGAATACGGGTAAGGGTATTACATTTATTGGTATC
AGAGCTACGGTTTAGCCGGTTCTCGGACCGACGTAGCAAATACAAAATTAGCTATACATGCCATT
TAAATTATTATTGATAGTGTGATATCTCCTGACC
Found at i:108570 original size:67 final size:67
Alignment explanation
Indices: 108462--108597 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
108452 AAGCCGGAGC
*
108462 ATAACTCCTGGCTTCCTCGGGTTGGGCTCGATCGGCAGACATTTACTATAAGAAAATCACATTTC
1 ATAACTCCCGGCTTCCTCGGGTTGGGCTCGATCGGCAGACATTTACTATAAGAAAATCACATTTC
108527 AA
66 AA
108529 ATAACTCCCGGCTTCCTCGGGTTGGGCTCGATCGGCAGACATTTACTATAAGAAAATCACATTTC
1 ATAACTCCCGGCTTCCTCGGGTTGGGCTCGATCGGCAGACATTTACTATAAGAAAATCACATTTC
108594 AA
66 AA
108596 AT
1 AT
108598 GGTCAGGAGA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (67 bp):
ATAACTCCCGGCTTCCTCGGGTTGGGCTCGATCGGCAGACATTTACTATAAGAAAATCACATTTC
AA
Found at i:126249 original size:22 final size:21
Alignment explanation
Indices: 126207--126250 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
126197 AATTCTCATC
* **
126207 TTTTCTTTTCTTTTCTTAAGA
1 TTTTCCTTTCTTTTCCCAAGA
126228 TTTTCCTTTCTTTTTCCCAAGA
1 TTTTCCTTTC-TTTTCCCAAGA
126250 T
1 T
126251 CAAGGGGTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.14, C:0.20, G:0.05, T:0.61
Consensus pattern (21 bp):
TTTTCCTTTCTTTTCCCAAGA
Found at i:127098 original size:21 final size:21
Alignment explanation
Indices: 127074--127122 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
127064 GAAGAATTAA
*
127074 TAGGGTTAGGGTTAGGG-TGAT
1 TAGGGTTAGAGTT-GGGTTGAT
*
127095 TAGGGTTAGAGTTGGGTTTAT
1 TAGGGTTAGAGTTGGGTTGAT
127116 TAGGGTT
1 TAGGGTT
127123 CTGGGATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (21 bp):
TAGGGTTAGAGTTGGGTTGAT
Found at i:133030 original size:23 final size:23
Alignment explanation
Indices: 132982--133036 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
132972 AGCTTATTGA
* **
132982 AAATAAAAATGAATTGTATGTTT
1 AAATAAAAATGAATTGAATGAAT
133005 AAATAAAAATGAA-TGAATTGAAT
1 AAATAAAAATGAATTGAA-TGAAT
*
133028 AAAAAAAAA
1 AAATAAAAA
133037 GAGAAATAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (23 bp):
AAATAAAAATGAATTGAATGAAT
Found at i:133320 original size:26 final size:25
Alignment explanation
Indices: 133290--133338 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
133280 ACAAATTTTC
133290 TCAAAATTTTACTAGGAGTAAAATCG
1 TCAAAATTTTACT-GGAGTAAAATCG
*
133316 TCAAAATTTTACTTGAGTAAAAT
1 TCAAAATTTTACTGGAGTAAAAT
133339 TGGGATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (25 bp):
TCAAAATTTTACTGGAGTAAAATCG
Found at i:136539 original size:149 final size:151
Alignment explanation
Indices: 136351--136754 Score: 537
Period size: 157 Copynumber: 2.7 Consensus size: 151
136341 AAAAAAAAAG
** * *
136351 AGATTTTCTAAAATAAAAATATGTTTTTCTTAGTTATTTTAAAGGAAATTTTAAATTTTTAAAAC
1 AGATTTTGAAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGGAAATTTTAAATTTTTAAAAC
* * *
136416 AAAATTTTGATTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATCTTTAAGAAAAATAGTGTTT-
66 AAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAAGCTTTAAACTTTAAGAAAAATAGTGTTTG
**
136480 TTTTT-TTAAGAAGAAACTTT
131 TTTTTAAAAAGAAGAAACTTT
*
136500 AGATTTTGAAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTT-AAA
1 AGATTTTGAAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGGAAA-TTTTAAATTTTTAAAA
* ** *
136564 CAAAGTTTTAATTTTTTTTTCAACTACATCAAAATAAAATCTTTAAACTTTAAGAAAAATAGTGT
65 CAAAGTTTTGA--TTTTTTTCAACTATTTCAAAATAAAAGCTTTAAACTTTAAGAAAAATAGTGT
* *
136629 TTGTTTTTAAAAAAAAAGGAGAAAGTTT
128 TTGTTTTT----AAAAAGAAGAAACTTT
* * * *
136657 AGATTTTGAAAAATAAAAATTTGTTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAAC
1 AGATTTTGAAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGGAAATTTTAAATTTTTAAAAC
136722 AAAGTTTTGATTTTTTT-AACTATTTCAAAATAA
66 AAAGTTTTGATTTTTTTCAACTATTTCAAAATAA
136755 GGTTATGATT
Statistics
Matches: 221, Mismatches: 24, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
149 56 0.25
150 11 0.05
151 49 0.22
152 5 0.02
154 14 0.06
155 7 0.03
156 9 0.04
157 70 0.32
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (151 bp):
AGATTTTGAAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGGAAATTTTAAATTTTTAAAAC
AAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAAGCTTTAAACTTTAAGAAAAATAGTGTTTG
TTTTTAAAAAGAAGAAACTTT
Found at i:136740 original size:30 final size:31
Alignment explanation
Indices: 136706--136767 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
136696 TAAAGGAAAG
* *
136706 TTTAA-AATTTTAAAACAAAGTTTTGATTTT
1 TTTAACAATTTCAAAACAAAGTTATGATTTT
* * *
136736 TTTAACTATTTCAAAATAAGGTTATGATTTT
1 TTTAACAATTTCAAAACAAAGTTATGATTTT
136767 T
1 T
136768 AAGAAAAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (31 bp):
TTTAACAATTTCAAAACAAAGTTATGATTTT
Found at i:137309 original size:25 final size:24
Alignment explanation
Indices: 137281--137327 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
137271 TCACTTGCAT
137281 TTATACATTATATATTTAATGTTAA
1 TTATACATTATAT-TTTAATGTTAA
* *
137306 TTATGCATTTTATTTTAATGTT
1 TTATACATTATATTTTAATGTT
137328 TTATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.57
Consensus pattern (24 bp):
TTATACATTATATTTTAATGTTAA
Found at i:145526 original size:29 final size:30
Alignment explanation
Indices: 145493--145559 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
145483 TCTATGTTTG
145493 AAATTTAATATTTATA-TTTTTATA-TTTAA
1 AAATTTAATATTTATACTTTTT-TACTTTAA
* *
145522 AAATTTAATCTTTTTACTTTTTTACTTTAA
1 AAATTTAATATTTATACTTTTTTACTTTAA
*
145552 AATTTTAA
1 AAATTTAA
145560 GTTTATTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.58
Consensus pattern (30 bp):
AAATTTAATATTTATACTTTTTTACTTTAA
Found at i:149392 original size:22 final size:22
Alignment explanation
Indices: 149365--149493 Score: 98
Period size: 22 Copynumber: 5.6 Consensus size: 22
149355 CCAGACAAAA
*
149365 TACGCCACAAAGGTTATCAGAG
1 TACGCCACAAAGGCTATCAGAG
149387 TACGCCACAAAGGCTATCAGAG
1 TACGCCACAAAGGCTATCAGAG
* * * *
149409 TACACCACAAAGGCAACATAAAGAA
1 TACGCCACAAAGGC--TAT-CAGAG
* *
149434 TACG-AACAAAGGCTAACAGAG
1 TACGCCACAAAGGCTATCAGAG
* * * *
149455 TATGCCACAAACGCAACATACAGAA
1 TACGCCACAAAGGC--TAT-CAGAG
149480 TACGCCACAAAGGC
1 TACGCCACAAAGGC
149494 CAAATAAAAT
Statistics
Matches: 81, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
21 6 0.07
22 42 0.52
24 11 0.14
25 22 0.27
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.12
Consensus pattern (22 bp):
TACGCCACAAAGGCTATCAGAG
Found at i:149447 original size:46 final size:47
Alignment explanation
Indices: 149387--149493 Score: 144
Period size: 46 Copynumber: 2.3 Consensus size: 47
149377 GTTATCAGAG
* * *
149387 TACGCCACAAAGGCTATCAGAGTACACCACAAAGGCAACATAAAGAA
1 TACGCAACAAAGGCTAACAGAGTACACCACAAACGCAACATAAAGAA
** *
149434 TACG-AACAAAGGCTAACAGAGTATGCCACAAACGCAACATACAGAA
1 TACGCAACAAAGGCTAACAGAGTACACCACAAACGCAACATAAAGAA
*
149480 TACGCCACAAAGGC
1 TACGCAACAAAGGC
149494 CAAATAAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
46 40 0.77
47 12 0.23
ACGTcount: A:0.46, C:0.26, G:0.18, T:0.10
Consensus pattern (47 bp):
TACGCAACAAAGGCTAACAGAGTACACCACAAACGCAACATAAAGAA
Found at i:153817 original size:20 final size:19
Alignment explanation
Indices: 153789--153842 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
153779 AAAAAAACCA
*
153789 ATAAAATTCTTAAAGTTTTC
1 ATAAAATTC-TAAAATTTTC
*
153809 ATAAGATTCTAAAATTTTC
1 ATAAAATTCTAAAATTTTC
*
153828 -TAAAAATCTAAAATT
1 ATAAAATTCTAAAATT
153843 CCAAACAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 13 0.43
19 9 0.30
20 8 0.27
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (19 bp):
ATAAAATTCTAAAATTTTC
Found at i:159035 original size:24 final size:24
Alignment explanation
Indices: 158985--159038 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
158975 TTCGTAGGCC
* * **
158985 AAATAAATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATAAT
159009 AAATATATTATACTAATAAATAAT
1 AAATATATTATACTAATAAATAAT
159033 AAATAT
1 AAATAT
159039 TTTAGAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATACTAATAAATAAT
Found at i:159847 original size:3 final size:3
Alignment explanation
Indices: 159839--159876 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
159829 TATGTTAATT
159839 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
159877 TGAAAAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:160307 original size:26 final size:25
Alignment explanation
Indices: 160259--160307 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
160249 ATACTTCATT
*
160259 TATAATTTATATCATATATATTTCG
1 TATAATTTATATCATATAGATTTCG
* *
160284 TATAATTTTGTATCATTTAGATTT
1 TATAA-TTTATATCATATAGATTT
160308 GCTGTTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATAATTTATATCATATAGATTTCG
Found at i:160865 original size:17 final size:16
Alignment explanation
Indices: 160813--160865 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
160803 AATTTTAATC
**
160813 AATTTTAAAAAAAATT
1 AATTTTAAAAAATTTT
*
160829 AATGATTTAAAAACTTTT
1 AAT--TTTAAAAAATTTT
160847 AATTTTAAATAAATTTT
1 AATTTTAAA-AAATTTT
160864 AA
1 AA
160866 AAAATTTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.30
17 8 0.27
18 13 0.43
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
AATTTTAAAAAATTTT
Found at i:160961 original size:23 final size:23
Alignment explanation
Indices: 160924--160997 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
160914 TTCATTTACC
* *
160924 ATATTTTTCTAAATTTTATTTTA
1 ATATTTTTATAAATTTTATTATA
* *
160947 ATAATTTTTAT-AATTTTGTGATA
1 AT-ATTTTTATAAATTTTATTATA
* *
160970 ATATTTTTTTGAATTTTATTAT-
1 ATATTTTTATAAATTTTATTATA
160992 ATATTT
1 ATATTT
160998 ATTTTTCATT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
22 13 0.31
23 22 0.52
24 7 0.17
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (23 bp):
ATATTTTTATAAATTTTATTATA
Found at i:162779 original size:4 final size:4
Alignment explanation
Indices: 162772--162822 Score: 75
Period size: 4 Copynumber: 12.8 Consensus size: 4
162762 CACACACAAT
* * *
162772 ATAC ATAC ATAT ATAC ATAC ATAT ATAC ATAC ATAC ATAC AAAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
162820 ATA
1 ATA
162823 TATATATATG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:172487 original size:21 final size:20
Alignment explanation
Indices: 172447--172526 Score: 73
Period size: 20 Copynumber: 4.0 Consensus size: 20
172437 AAACATATCT
172447 AAAATATTTAAAATTTTATA
1 AAAATATTTAAAATTTTATA
172467 AAAATATATT-AAATTTCTATA
1 AAAATAT-TTAAAATTT-TATA
172488 AAAATCA--TAAAATTTT-T-
1 AAAAT-ATTTAAAATTTTATA
172505 AAAAT-TTATAAAATTATTATA
1 AAAATATT-TAAAATT-TTATA
172526 A
1 A
172527 TTGATATAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 19
0.72 0.00 0.28
Matches are distributed among these distances:
17 5 0.10
18 8 0.16
19 4 0.08
20 20 0.40
21 12 0.24
22 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATATTTAAAATTTTATA
Found at i:172507 original size:9 final size:9
Alignment explanation
Indices: 172446--172551 Score: 56
Period size: 9 Copynumber: 11.3 Consensus size: 9
172436 AAAACATATC
172446 TAAAATATT-
1 TAAAAT-TTA
172455 TAAAATTTTA
1 TAAAA-TTTA
*
172465 TAAAAATATA
1 T-AAAATTTA
*
172475 TTAAATTTCTA
1 -TAAAATT-TA
* *
172486 TAAAAATCA
1 TAAAATTTA
*
172495 TAAAATTTT
1 TAAAATTTA
172504 TAAAATTTA
1 TAAAATTTA
172513 TAAAA-TTA
1 TAAAATTTA
* *
172521 TTATAATTGA
1 -TAAAATTTA
*
172531 TATAAACTTA
1 TA-AAATTTA
172541 T-AAATTTA
1 TAAAATTTA
172549 TAA
1 TAA
172552 TAATAAAAAC
Statistics
Matches: 72, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
8 10 0.14
9 34 0.47
10 21 0.29
11 7 0.10
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (9 bp):
TAAAATTTA
Found at i:174884 original size:28 final size:29
Alignment explanation
Indices: 174836--174946 Score: 118
Period size: 29 Copynumber: 3.9 Consensus size: 29
174826 AAAAATAAAG
174836 AATTACATTTTAACCCCTAAACTTTTTGA
1 AATTACATTTTAACCCCTAAACTTTTTGA
* * *
174865 AATTGCA-TTTAACCCCTAAA-TTTCATAA
1 AATTACATTTTAACCCCTAAACTTT-TTGA
* * *
174893 AATTACATTTTGATCCATAAACTTTTTGA
1 AATTACATTTTAACCCCTAAACTTTTTGA
** *
174922 AATTATGTTTTGACCCCTAAACTTT
1 AATTACATTTTAACCCCTAAACTTT
174947 CTCAAAATTT
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
27 3 0.05
28 21 0.32
29 39 0.59
30 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.41
Consensus pattern (29 bp):
AATTACATTTTAACCCCTAAACTTTTTGA
Found at i:175216 original size:16 final size:16
Alignment explanation
Indices: 175197--175228 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
175187 AGTTTCGAAA
*
175197 AAAAGAGATAGGAGAG
1 AAAAGAGAAAGGAGAG
175213 AAAAGAGAAAGGAGAG
1 AAAAGAGAAAGGAGAG
175229 GAAGAAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (16 bp):
AAAAGAGAAAGGAGAG
Found at i:175321 original size:3 final size:3
Alignment explanation
Indices: 175313--175394 Score: 66
Period size: 3 Copynumber: 28.7 Consensus size: 3
175303 CCAATGCGTA
*
175313 AAG AAG AAG AAG AAC AAG AAG AAG AAG AA- AA- AAG AAG AAGG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG
* * * * *
175357 AAA AAG -AG AAA AAG -AG AA- AAA AAG AAA AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
175395 TAAAGCAGTC
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
2 10 0.16
3 50 0.79
4 3 0.05
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:175349 original size:16 final size:16
Alignment explanation
Indices: 175312--175391 Score: 87
Period size: 16 Copynumber: 5.1 Consensus size: 16
175302 ACCAATGCGT
175312 AAAGAAGAAGAAG-AA
1 AAAGAAGAAGAAGAAA
*
175327 CAAGAAGAAGAAGAAA
1 AAAGAAGAAGAAGAAA
175343 AAAGAAGAAGGAAG-AA
1 AAAGAAGAA-GAAGAAA
*
175359 AAAG-AGAAAAAGAGAA
1 AAAGAAGAAGAAGA-AA
*
175375 AAA-AAGAAAAAGAAA
1 AAAGAAGAAGAAGAAA
175390 AA
1 AA
175392 GAATAAAGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
14 3 0.05
15 20 0.35
16 30 0.53
17 4 0.07
ACGTcount: A:0.75, C:0.01, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAGAAGAAA
Found at i:175368 original size:8 final size:8
Alignment explanation
Indices: 175355--175391 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
175345 AGAAGAAGGA
175355 AGAAAAAG
1 AGAAAAAG
175363 AGAAAAAG
1 AGAAAAAG
*
175371 AGAAAAAA
1 AGAAAAAG
175379 AGAAAAAG
1 AGAAAAAG
175387 A-AAAA
1 AGAAAA
175392 GAATAAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 4 0.15
8 23 0.85
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AGAAAAAG
Found at i:175512 original size:11 final size:12
Alignment explanation
Indices: 175495--175537 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
175485 CAAAGCAGCC
*
175495 CAAAAAATAAAG
1 CAAAAAACAAAG
175507 -AAAAAACAAAG
1 CAAAAAACAAAG
*
175518 CAAAAAAAATAAG
1 CAAAAAACA-AAG
175531 CAAAAAA
1 CAAAAAA
175538 AAATGGGCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 10 0.37
12 7 0.26
13 10 0.37
ACGTcount: A:0.79, C:0.09, G:0.07, T:0.05
Consensus pattern (12 bp):
CAAAAAACAAAG
Found at i:175541 original size:14 final size:13
Alignment explanation
Indices: 175496--175539 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
175486 AAAGCAGCCC
175496 AAAAAATAAAG-AA
1 AAAAAAT-AAGCAA
*
175509 AAAACA-AAGCAA
1 AAAAAATAAGCAA
175521 AAAAAATAAGCAA
1 AAAAAATAAGCAA
175534 AAAAAA
1 AAAAAA
175540 ATGGGCAGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 3 0.11
12 7 0.26
13 17 0.63
ACGTcount: A:0.82, C:0.07, G:0.07, T:0.05
Consensus pattern (13 bp):
AAAAAATAAGCAA
Found at i:175642 original size:26 final size:25
Alignment explanation
Indices: 175608--175662 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
175598 AGCCAGCCTA
* *
175608 CCCAGCAGCGGCCCAAACCAGCGCAG
1 CCCAACAGCAGCCCAAACCAG-GCAG
* *
175634 CCCAACAGCAGCCCACAGCAGGCAG
1 CCCAACAGCAGCCCAAACCAGGCAG
175659 CCCA
1 CCCA
175663 GCAGAAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.29, C:0.47, G:0.24, T:0.00
Consensus pattern (25 bp):
CCCAACAGCAGCCCAAACCAGGCAG
Found at i:175673 original size:5 final size:5
Alignment explanation
Indices: 175665--175721 Score: 55
Period size: 5 Copynumber: 11.2 Consensus size: 5
175655 GCAGCCCAGC
* *
175665 AGAAA AGAAA AGAAAA AGAAAA AGAAA AGAAA A-AAA GAAAAA AGAAG
1 AGAAA AGAAA AG-AAA AG-AAA AGAAA AGAAA AGAAA -AGAAA AGAAA
175712 AGAAA A-AAA A
1 AGAAA AGAAA A
175722 TTCAATTTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
4 7 0.15
5 25 0.54
6 14 0.30
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:175683 original size:6 final size:6
Alignment explanation
Indices: 175667--175706 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
175657 AGCCCAGCAG
*
175667 AAAAG- AAAAGA AAAAGA AAAAGA AAAGAAA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA-AGA AAAAGA AAAA
175707 AGAAGAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 5 0.16
6 21 0.68
7 5 0.16
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:175683 original size:11 final size:11
Alignment explanation
Indices: 175665--175718 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
175655 GCAGCCCAGC
175665 AGAAAAG-AAA
1 AGAAAAGAAAA
175675 AGAAAAAGAAAA
1 AG-AAAAGAAAA
175687 AGAAAAGAAAA
1 AGAAAAGAAAA
*
175698 A-AAGA-AAAA
1 AGAAAAGAAAA
*
175707 AGAAGAGAAAA
1 AGAAAAGAAAA
175718 A
1 A
175719 AAATTCAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
9 5 0.13
10 9 0.23
11 20 0.51
12 5 0.13
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:175715 original size:12 final size:12
Alignment explanation
Indices: 175667--175719 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
175657 AGCCCAGCAG
175667 AAAAGAAAAG-A
1 AAAAGAAAAGAA
175678 AAAAGAAAAAGAA
1 AAAAG-AAAAGAA
*
175691 AAGAAAAAAAGAA
1 AA-AAGAAAAGAA
*
175704 AAAAGAAGAGAA
1 AAAAGAAAAGAA
175716 AAAA
1 AAAA
175720 AATTCAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 5 0.14
12 17 0.47
13 12 0.33
14 2 0.06
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:175715 original size:25 final size:24
Alignment explanation
Indices: 175667--175721 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
175657 AGCCCAGCAG
*
175667 AAAAGAAAAGAAAAAGAAAAAGAA
1 AAAAAAAAAGAAAAAGAAAAAGAA
*
175691 AAGAAAAAAAGAAAAA-AGAAGAGAA
1 AA-AAAAAAAGAAAAAGA-AAAAGAA
175716 AAAAAA
1 AAAAAA
175722 TTCAATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAGAAAAAGAAAAAGAA
Found at i:176113 original size:20 final size:19
Alignment explanation
Indices: 176082--176121 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
176072 TCTAGTTTCC
176082 AAATTTTCGTGTCTTCAAA
1 AAATTTTCGTGTCTTCAAA
*
176101 AAATTTCTCGTGTTTTCAAA
1 AAATTT-TCGTGTCTTCAAA
176121 A
1 A
176122 TTAAGGTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (19 bp):
AAATTTTCGTGTCTTCAAA
Found at i:176284 original size:18 final size:18
Alignment explanation
Indices: 176263--176534 Score: 165
Period size: 18 Copynumber: 15.3 Consensus size: 18
176253 CAGGTGTTTA
*
176263 AAAAAATTTCATGTTTTC
1 AAAAAATTTCGTGTTTTC
* *
176281 -AAAAATTCCCGTGTTTTT
1 AAAAAATT-TCGTGTTTTC
*
176299 AAAAAA-TTCAAT-TTTTC
1 AAAAAATTTC-GTGTTTTC
**
176316 AAAATTTTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
* * *
176334 TAAAAATTTCCATG-CTTC
1 AAAAAATTT-CGTGTTTTC
176352 -AAAAATTTCCGTGTTTTC
1 AAAAAATTT-CGTGTTTTC
**
176370 AAAATTTTTCGTG-TTTC
1 AAAAAATTTCGTGTTTTC
176387 -AAAAATCTTCGTGTTTT-
1 AAAAAAT-TTCGTGTTTTC
** *
176404 TGAAAATTCCG-GTGTTTC
1 AAAAAATTTCGTGT-TTTC
176422 AAAAAATTCTCGTGTTTT-
1 AAAAAATT-TCGTGTTTTC
*
176440 -AAAAATTTCTGGGTTTTC
1 AAAAAATTTC-GTGTTTTC
*
176458 AAAAATTTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
** * *
176476 AAAATTTTTCGT-ATCTC
1 AAAAAATTTCGTGTTTTC
* *
176493 -AAAAATCCTCGTGTTTTT
1 AAAAAAT-TTCGTGTTTTC
*
176511 AAAAATTTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
176529 AAAAAA
1 AAAAAA
176535 AATCTCGTGT
Statistics
Matches: 192, Mismatches: 41, Indels: 42
0.70 0.15 0.15
Matches are distributed among these distances:
16 12 0.06
17 65 0.34
18 81 0.42
19 32 0.17
20 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (18 bp):
AAAAAATTTCGTGTTTTC
Found at i:176285 original size:35 final size:35
Alignment explanation
Indices: 176240--176319 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 35
176230 AAATTGTTTC
* *
176240 TTTTTAAAAAAGTCAGGTG-TTTAAAAAAATTTC-A
1 TTTTTCAAAAAGTCACGTGTTTTAAAAAAA-TTCAA
* * *
176274 TGTTTTCAAAAATTCCCGTGTTTTTAAAAAATTCAA
1 T-TTTTCAAAAAGTCACGTGTTTTAAAAAAATTCAA
176310 TTTTTCAAAA
1 TTTTTCAAAA
176320 TTTTTCGTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
34 1 0.03
35 26 0.68
36 11 0.29
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (35 bp):
TTTTTCAAAAAGTCACGTGTTTTAAAAAAATTCAA
Found at i:176353 original size:71 final size:70
Alignment explanation
Indices: 176264--176533 Score: 232
Period size: 71 Copynumber: 3.8 Consensus size: 70
176254 AGGTGTTTAA
* * * *
176264 AAAAATTT-CATGTTTTCAAAAATTCCCGTGTTTTTAAAAAATTCAATTTTTCAAAATTTTTCGT
1 AAAAATTTCCATG-CTTCAAAAATTCCCGTGTTTTTAAAAATTTC-GTTTTTCAAAAATTTTCGT
176328 GTTTTCT
64 GTTTTCT
* * * * *
176335 AAAAATTTCCATGCTTCAAAAATTTCCGTGTTTTCAAAATTTTTCGTGTTTCAAAAATCTTCGTG
1 AAAAATTTCCATGCTTCAAAAATTCCCGTGTTTTTAAAA-ATTTCGTTTTTCAAAAATTTTCGTG
176400 TTTT-T
65 TTTTCT
* * * * *
176405 GAAAA-TTCCGGTGTTTCAAAAAATTCTCGTG-TTTTAAAAATTTCTGGGTTTTCAAAAATTTTC
1 AAAAATTTCC-ATGCTTC-AAAAATTCCCGTGTTTTTAAAAATTTC--GTTTTTCAAAAATTTTC
176468 GTGTTTTC-
62 GTGTTTTCT
* *
176476 AAAATTTTTCGTAT-C-TCAAAAA-TCCTCGTGTTTTTAAAAATTTTCGTGTTTTCAAAAA
1 AAAA-ATTTC-CATGCTTCAAAAATTCC-CGTGTTTTTAAAAA-TTTCGT-TTTTCAAAAA
176534 AAATCTCGTG
Statistics
Matches: 159, Mismatches: 26, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
69 10 0.06
70 27 0.17
71 107 0.67
72 11 0.07
73 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (70 bp):
AAAAATTTCCATGCTTCAAAAATTCCCGTGTTTTTAAAAATTTCGTTTTTCAAAAATTTTCGTGT
TTTCT
Found at i:176480 original size:35 final size:35
Alignment explanation
Indices: 176265--176482 Score: 151
Period size: 35 Copynumber: 6.2 Consensus size: 35
176255 GGTGTTTAAA
* ** *
176265 AAAATTTC-ATGTTTTCAAAAATTCCCGTGTTTTTA
1 AAAATTTCTAGGTTTTCAAAAATTTTCGTG-TTTTC
* ** *
176300 AAAAATTC-AATTTTTCAAAATTTTTCGTGTTTTC
1 AAAATTTCTAGGTTTTCAAAAATTTTCGTGTTTTC
* * * *
176334 TAAAAATTTCCATG-CTTCAAAAATTTCCGTGTTTTC
1 --AAAATTTCTAGGTTTTCAAAAATTTTCGTGTTTTC
** * *
176370 AAAATTT-TTCGTGTTTCAAAAATCTTCGTGTTTTTG
1 AAAATTTCTAGGT-TTTCAAAAATTTTCGTG-TTTTC
* * *
176406 AAAA-TTC-CGGTGTTTCAAAAAATTCTCGTGTTTTA
1 AAAATTTCTAGGT-TTTC-AAAAATTTTCGTGTTTTC
*
176441 AAAATTTCTGGGTTTTCAAAAATTTTCGTGTTTTC
1 AAAATTTCTAGGTTTTCAAAAATTTTCGTGTTTTC
176476 AAAATTT
1 AAAATTT
176483 TTCGTATCTC
Statistics
Matches: 145, Mismatches: 28, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
33 1 0.01
34 11 0.08
35 77 0.53
36 52 0.36
37 4 0.03
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (35 bp):
AAAATTTCTAGGTTTTCAAAAATTTTCGTGTTTTC
Found at i:176495 original size:35 final size:35
Alignment explanation
Indices: 176312--176533 Score: 171
Period size: 35 Copynumber: 6.3 Consensus size: 35
176302 AAATTCAATT
* * * * *
176312 TTTCAAAATTTTTCGTGTTTTCTAAAAATTTCCATG
1 TTTCAAAAATTTTCGTGTTTTC-AAAATTTTTCGTA
* * *
176348 CTTCAAAAATTTCCGTGTTTTCAAAATTTTTCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGTA
* * * *
176383 TTTCAAAAATCTTCGTGTTTTTGAAAA--TTCCGGTG
1 TTTCAAAAATTTTCGTG-TTTTCAAAATTTTTC-GTA
* * **
176418 TTTCAAAAAATTCTCGTGTTTTAAAAATTTCTGGGT-
1 TTTC-AAAAATTTTCGTGTTTTCAAAATTT-TTCGTA
176454 TTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGTA
1 TTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGTA
* ** * * *
176489 TCTCAAAAATCCTCGTGTTTTTAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGT-A
176525 TTTCAAAAA
1 TTTCAAAAA
176534 AAATCTCGTG
Statistics
Matches: 151, Mismatches: 27, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
34 6 0.04
35 91 0.60
36 50 0.33
37 3 0.02
38 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (35 bp):
TTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGTA
Found at i:176516 original size:53 final size:53
Alignment explanation
Indices: 176277--176532 Score: 238
Period size: 53 Copynumber: 4.8 Consensus size: 53
176267 AATTTCATGT
* * **
176277 TTTCAAAAAT-TCCCGTGTTTTTAAAAAATTCAAT-TTTTCAAAATTTTTCGTG
1 TTTCAAAAATCT-TCGTGTTTTTAAAAATTTCCGTGTTTTCAAAATTTTTCGTG
* * *
176329 TTTTCTAAAAAT-TTCCATG-CTTCAAAAATTTCCGTGTTTTCAAAATTTTTCGTG
1 -TTTC-AAAAATCTT-CGTGTTTTTAAAAATTTCCGTGTTTTCAAAATTTTTCGTG
* * *
176383 TTTCAAAAATCTTCGTGTTTTTGAAAA-TTCCG-GTGTTTCAAAAAATTCTCGTG
1 TTTCAAAAATCTTCGTGTTTTTAAAAATTTCCGTGT-TTTC-AAAATTTTTCGTG
* * * * *
176436 TTTTAAAAAT-TTCTGGGTTTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGTA
1 TTTCAAAAATCTTC-GTGTTTTTAAAAATTTCCGTGTTTTCAAAATTTTTCGTG
* * *
176489 TCTCAAAAATCCTCGTGTTTTTAAAAATTTTCGTGTTTTCAAAA
1 TTTCAAAAATCTTCGTGTTTTTAAAAATTTCCGTGTTTTCAAAA
176533 AAAATCTCGT
Statistics
Matches: 166, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
51 2 0.01
52 21 0.13
53 103 0.62
54 38 0.23
55 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (53 bp):
TTTCAAAAATCTTCGTGTTTTTAAAAATTTCCGTGTTTTCAAAATTTTTCGTG
Found at i:176562 original size:53 final size:52
Alignment explanation
Indices: 176352--176564 Score: 189
Period size: 53 Copynumber: 4.0 Consensus size: 52
176342 TCCATGCTTC
* *
176352 AAAAATTTCCGTGTTTTCAAAATTTTTCGTGTTTCAAAAATCTTCGTGTTTTT
1 AAAAATTTCCGTGTTTTCAAAAATTCTCGTGTTTCAAAAATCTTCG-GTTTTT
* * *
176405 GAAAA-TTCCG-GTGTTTCAAAAAATTCTCGTGTTTTAAAAAT-TTCTGGGTTTTC
1 AAAAATTTCCGTGT-TTTC-AAAAATTCTCGTGTTTCAAAAATCTTC--GGTTTTT
* * * * * *
176458 AAAAATTTTCGTGTTTTCAAAATTTTTCGTATCTCAAAAATCCTCGTGTTTTT
1 AAAAATTTCCGTGTTTTCAAAAATTCTCGTGTTTCAAAAATCTTCG-GTTTTT
* * * * *
176511 AAAAATTTTCGTGTTTTCAAAAAAAATCTCGTGTTTCATAAATTTTCGTTTTTT
1 AAAAATTTCCGTGTTTTC--AAAAATTCTCGTGTTTCAAAAATCTTCGGTTTTT
176565 TGAATTGTGT
Statistics
Matches: 127, Mismatches: 23, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
51 2 0.02
52 13 0.10
53 74 0.58
54 16 0.13
55 22 0.17
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (52 bp):
AAAAATTTCCGTGTTTTCAAAAATTCTCGTGTTTCAAAAATCTTCGGTTTTT
Found at i:179872 original size:11 final size:9
Alignment explanation
Indices: 179841--179866 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
179831 TTTTTTATAA
179841 TTTTTAAGT
1 TTTTTAAGT
179850 TTTTTAAGT
1 TTTTTAAGT
179859 TTTTTAAG
1 TTTTTAAG
179867 AGTTTTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (9 bp):
TTTTTAAGT
Found at i:180982 original size:42 final size:42
Alignment explanation
Indices: 180842--180995 Score: 191
Period size: 42 Copynumber: 3.6 Consensus size: 42
180832 ATGGCCTAGA
* * * * * *
180842 CACATGCCCATGTCCTTGTCCATGTGGCTCACACGGCATGGG
1 CACACGCCCATGTCCTTGCCCGTGTGGCTCACACAGCCTGAG
*
180884 CACACGCCCATGTCCTTGCTCGTGTGGCTCACACAGCCTGAG
1 CACACGCCCATGTCCTTGCCCGTGTGGCTCACACAGCCTGAG
*
180926 CACACGCCCATGTCCTTGCCCGTGTGGCTCACACAGCCTAAG
1 CACACGCCCATGTCCTTGCCCGTGTGGCTCACACAGCCTGAG
* * * *
180968 CACACACTCTTGTCCTCTACCCGTGTGG
1 CACACGCCCATGTCCT-TGCCCGTGTGG
180996 TTCTAAAACA
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
42 88 0.90
43 10 0.10
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.23
Consensus pattern (42 bp):
CACACGCCCATGTCCTTGCCCGTGTGGCTCACACAGCCTGAG
Found at i:190529 original size:59 final size:59
Alignment explanation
Indices: 190436--190584 Score: 226
Period size: 59 Copynumber: 2.5 Consensus size: 59
190426 GGCAAAAGTA
*
190436 TAATTTTGAGAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGAGGTTAAAATG
1 TAATTTT-AAAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGAGGTTAAAATG
* * *
190496 TAATTTTAAAAATTTTAGGGGTTGAAATGTAATTTTGAGAAAGTTTAGTGGTTAAAATG
1 TAATTTTAAAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGAGGTTAAAATG
* *
190555 CAATTTTAGAAAAGTTTAGGGGTCAAAATG
1 TAATTTTA-AAAAGTTTAGGGGTTAAAATG
190585 CAAAAATAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
59 55 0.69
60 25 0.31
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.37
Consensus pattern (59 bp):
TAATTTTAAAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGAGGTTAAAATG
Found at i:190587 original size:30 final size:30
Alignment explanation
Indices: 190436--190584 Score: 212
Period size: 30 Copynumber: 5.0 Consensus size: 30
190426 GGCAAAAGTA
190436 TAATTTTGAGAAAGTTTAGGGGTTAAAATG
1 TAATTTTGAGAAAGTTTAGGGGTTAAAATG
*
190466 TAATTTTGAGAAAGTTTAGAGGTTAAAATG
1 TAATTTTGAGAAAGTTTAGGGGTTAAAATG
* * *
190496 TAATTTT-AAAAATTTTAGGGGTTGAAATG
1 TAATTTTGAGAAAGTTTAGGGGTTAAAATG
*
190525 TAATTTTGAGAAAGTTTAGTGGTTAAAATG
1 TAATTTTGAGAAAGTTTAGGGGTTAAAATG
* *
190555 CAATTTT-AGAAAAGTTTAGGGGTCAAAATG
1 TAATTTTGAG-AAAGTTTAGGGGTTAAAATG
190585 CAAAAATAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
29 27 0.26
30 78 0.74
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.37
Consensus pattern (30 bp):
TAATTTTGAGAAAGTTTAGGGGTTAAAATG
Found at i:191506 original size:79 final size:79
Alignment explanation
Indices: 190772--192083 Score: 1748
Period size: 79 Copynumber: 17.0 Consensus size: 79
190762 AGAAATCGAG
* ** * *
190772 AATAGCTCGGCATGCAACCCGA-GCCCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAA
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA
* *
190836 GCA-AGAA-TT-GAA-A
64 ACAGA-AATTTAAAAGA
* * * *
190849 AATACCTC-G-ACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAAAAAT
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
*
190912 AGAAA-TT--GA-A
66 AGAAATTTAAAAGA
* * * * *
190922 AATTCCTCAGC--GTGACCCGAGGCTCAACTCACTTCTTGCATTATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
*
190985 AGAAATATAAAAGA
66 AGAAATTTAAAAGA
*
190999 AATACCTCGGCATGTGA-CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
191063 AGAAATTT---A-A
66 AGAAATTTAAAAGA
* * * * *
191073 AATACCTCAGCGTGCGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAG
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAA
* *
191138 CA-AAAATT-GAA-A
65 CAGAAATTTAAAAGA
* *
191150 AATACCTC-G-ACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA
* * *
191213 ATA-AAAATT-GAA-A
64 ACAGAAATTTAAAAGA
*
191226 AATACCTCAGCA--TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTGTGAAA
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG--ATTTT-TGAAA
*
191289 AACAAAAATTTAAAAGA
63 AACAGAAATTTAAAAGA
* *
191306 AATACCTCGACATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
*
191370 AGAAA-TTAAAAAA
66 AGAAATTTAAAAGA
*
191383 AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
191448 AGAAATTTAAAAGA
66 AGAAATTTAAAAGA
*
191462 AATACCTCGGCATGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
191527 AGAAATTTAAAAGA
66 AGAAATTTAAAAGA
*
191541 AATACCTCGGCATGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
191606 AGAAATTTAAAAGA
66 AGAAATTTAAAAGA
*
191620 AATACCTCGGCATGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
191685 AGAAATTTAAAAGA
66 AGAAATTTAAAAGA
*
191699 AATACCTCGGCATGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
191764 AGAAATTTAAAAGA
66 AGAAATTTAAAAGA
* **
191778 AATACCTCGGCATGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
*
191843 AGAAA-TT--GA-A
66 AGAAATTTAAAAGA
* * * * *
191853 AATTCCTCAGC--GTGACCCGAGGCTCAACTCACTTCTTGCATTATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
*
191916 AGAAATATAAAAGA
66 AGAAATTTAAAAGA
*
191930 AATACCTCGGCATGTGA-CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
*
191994 AGAAATTTAAAAAAA
66 AGAAATTT-AAAAGA
* **
192009 AATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAAC
1 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
*
192072 AGAAATTGAAAA
66 AGAAATTTAAAA
192084 ATATTTCTTG
Statistics
Matches: 1122, Mismatches: 78, Indels: 70
0.88 0.06 0.06
Matches are distributed among these distances:
73 111 0.10
74 32 0.03
75 94 0.08
76 116 0.10
77 74 0.07
78 227 0.20
79 421 0.38
80 11 0.01
81 34 0.03
82 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (79 bp):
AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
AGAAATTTAAAAGA
Found at i:193308 original size:41 final size:41
Alignment explanation
Indices: 193247--193360 Score: 147
Period size: 41 Copynumber: 2.8 Consensus size: 41
193237 TTAATTTAAA
* * *
193247 CAGATTCAACGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
* * *
193289 CAGATCACCGGCACGTAGCCTCCTTGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
* *
193330 CAAATCACCGGCACGTAGCCTGCTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTA
193361 AAGTCTGAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 57 0.93
42 4 0.07
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
Found at i:193858 original size:21 final size:21
Alignment explanation
Indices: 193829--193872 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
193819 GAAACATACC
*
193829 TTCGAACCACTTATATATATA
1 TTCGAACCACATATATATATA
* *
193850 TTCGCACCACATATATATGTA
1 TTCGAACCACATATATATATA
193871 TT
1 TT
193873 ATACATACCT
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:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (21 bp):
TTCGAACCACATATATATATA
Found at i:195888 original size:19 final size:17
Alignment explanation
Indices: 195840--195896 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
195830 TTCATCTTGA
*
195840 TTTTTCTTTCTTT-TTT
1 TTTTTCTTTTTTTGTTT
*
195856 CTTTTCTTTTTTTGCTTT
1 TTTTTCTTTTTTTG-TTT
*
195874 TTTTTGTTTTGTTTGTTT
1 TTTTTCTTTT-TTTGTTT
195892 TTTTT
1 TTTTT
195897 AGGCATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 11 0.32
18 19 0.56
19 4 0.12
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (17 bp):
TTTTTCTTTTTTTGTTT
Found at i:202470 original size:17 final size:17
Alignment explanation
Indices: 202437--202527 Score: 71
Period size: 17 Copynumber: 5.3 Consensus size: 17
202427 ACAAATTTTT
* *
202437 TTTTTTAAAAACG-AAA
1 TTTTTGAAACACGAAAA
202453 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
*
202470 TTTTAGAAACACGAAAAAAAA
1 TTTTTGAAACACG----AAAA
* *
202491 ATTTT--AACACGACAA
1 TTTTTGAAACACGAAAA
*
202506 TTTTTGAAACACGAGAA
1 TTTTTGAAACACGAAAA
202523 TTTTT
1 TTTTT
202528 CAAAATACAA
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
15 7 0.12
16 11 0.18
17 29 0.48
19 6 0.10
21 7 0.12
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:202662 original size:34 final size:35
Alignment explanation
Indices: 202580--202692 Score: 97
Period size: 34 Copynumber: 3.3 Consensus size: 35
202570 CATAATCCGA
* * ** *
202580 TTGAAATACGAGAATTAAAAAAAAACACGAGAA-TT
1 TTGAAACACGAAAATTTTAAAAAAA-ACGACAATTT
*
202615 TTGAAGCAC-AAAATTTTAAAAAAAACGA-AATTT
1 TTGAAACACGAAAATTTTAAAAAAAACGACAATTT
**** *
202648 TTGAAACACGAAAATTTTTTTTAACACGACAATTT
1 TTGAAACACGAAAATTTTAAAAAAAACGACAATTT
202683 TTGAAACACG
1 TTGAAACACG
202693 GGAATTTTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
32 2 0.03
33 14 0.22
34 26 0.41
35 22 0.34
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (35 bp):
TTGAAACACGAAAATTTTAAAAAAAACGACAATTT
Found at i:202795 original size:35 final size:35
Alignment explanation
Indices: 202756--203075 Score: 278
Period size: 35 Copynumber: 9.1 Consensus size: 35
202746 GAGTCGTTGA
* *
202756 AAACACGGAAATTTGTGAAAAAACGAAAATTTTTG
1 AAACACGGAAATTTTTGAAAACACGAAAATTTTTG
202791 AAACACGGAAATTTTTAGAAAACACGAAAA-TTTTG
1 AAACACGGAAATTTTT-GAAAACACGAAAATTTTTG
* * * *
202826 GATCTCCGG-AATTTTTGAAAACATGAAAATTTTTG
1 AAAC-ACGGAAATTTTTGAAAACACGAAAATTTTTG
202861 AAACATCGG-AATTTTTGAAAACAC-AAAGATTTTT-
1 AAACA-CGGAAATTTTTGAAAACACGAAA-ATTTTTG
* * ** *
202895 ATAGCAC-GAATTTTTTTTTAAATACGAAAATTTTTG
1 A-AACACGGAA-ATTTTTGAAAACACGAAAATTTTTG
* *
202931 AAAACACAGAAATTTTT-AAAACACGGAAATTTTTG
1 -AAACACGGAAATTTTTGAAAACACGAAAATTTTTG
* **
202966 AAACATC-AAAATTTTTGAAAACACGAGGATTTTTG
1 AAACA-CGGAAATTTTTGAAAACACGAAAATTTTTG
*** * *
203001 AAAACATAAAAATTTTTGAAAACGCGAAAATTTTTA
1 -AAACACGGAAATTTTTGAAAACACGAAAATTTTTG
* * *
203037 AAACACGAGAATTTTTTGAAAACATGAAAACTTTTG
1 AAACACG-GAAATTTTTGAAAACACGAAAATTTTTG
203073 AAA
1 AAA
203076 AATAGATTTT
Statistics
Matches: 231, Mismatches: 37, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
33 1 0.00
34 31 0.13
35 114 0.49
36 81 0.35
37 4 0.02
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (35 bp):
AAACACGGAAATTTTTGAAAACACGAAAATTTTTG
Found at i:203076 original size:18 final size:18
Alignment explanation
Indices: 202601--203076 Score: 276
Period size: 18 Copynumber: 27.2 Consensus size: 18
202591 GAATTAAAAA
*
202601 AAAACACGAGAA-TTTTG
1 AAAACACGAAAATTTTTG
* **
202618 -AAGCAC-AAAATTTTAA
1 AAAACACGAAAATTTTTG
*
202634 AAAAAACG-AAATTTTTG
1 AAAACACGAAAATTTTTG
*
202651 -AAACACGAAAATTTTTT
1 AAAACACGAAAATTTTTG
** *
202668 TTAACACGACAATTTTTG
1 AAAACACGAAAATTTTTG
**
202686 -AAACACGGGAATTTTTCG
1 AAAACACGAAAATTTTT-G
* ***
202704 -AAATAC--AAATTTAAAA
1 AAAACACGAAAATTT-TTG
* * *
202720 AAAACATGACAATTTGTG
1 AAAACACGAAAATTTTTG
* * * **
202738 -AAACACTAGAGTCGTTG
1 AAAACACGAAAATTTTTG
* *
202755 AAAACACGGAAATTTGTG
1 AAAACACGAAAATTTTTG
*
202773 AAAAAACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
202791 -AAACACGGAAATTTTTAG
1 AAAACACGAAAATTTTT-G
*
202809 AAAACACGAAAATTTTGG
1 AAAACACGAAAATTTTTG
*** *
202827 ATCTC-CG-GAATTTTTG
1 AAAACACGAAAATTTTTG
*
202843 AAAACATGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
202861 -AAACATCG-GAATTTTTG
1 AAAACA-CGAAAATTTTTG
202878 AAAACAC-AAAGATTTTT-
1 AAAACACGAAA-ATTTTTG
* * ** *
202895 ATAGCACGAATTTTTTTT
1 AAAACACGAAAATTTTTG
* *
202913 TAAATACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
202931 AAAACAC-AGAAATTTTT-
1 AAAACACGA-AAATTTTTG
*
202948 AAAACACGGAAATTTTTG
1 AAAACACGAAAATTTTTG
202966 -AAACATC-AAAATTTTTG
1 AAAACA-CGAAAATTTTTG
**
202983 AAAACACGAGGATTTTTG
1 AAAACACGAAAATTTTTG
**
203001 AAAACATAAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
203019 AAAACGCGAAAATTTTT-
1 AAAACACGAAAATTTTTG
*
203036 AAAACACGAGAATTTTTTG
1 AAAACACGA-AAATTTTTG
* *
203055 AAAACATGAAAACTTTTG
1 AAAACACGAAAATTTTTG
203073 AAAA
1 AAAA
203077 ATAGATTTTT
Statistics
Matches: 340, Mismatches: 90, Indels: 57
0.70 0.18 0.12
Matches are distributed among these distances:
15 3 0.01
16 28 0.08
17 127 0.37
18 155 0.46
19 27 0.08
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:203346 original size:20 final size:18
Alignment explanation
Indices: 203304--203369 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 18
203294 TTGCCTTATT
* * *
203304 TTTTTGAAAACGCGAAGAT
1 TTTTTG-AAACACGAAAAA
203323 TTTTTGAAACACAAGAAAAA
1 TTTTTGAAACAC--GAAAAA
203343 TTTTTGAAGACACGAAAAA
1 TTTTTGAA-ACACGAAAAA
203362 -TTTTGAAA
1 TTTTTGAAA
203370 AATATAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.02
18 12 0.29
19 12 0.29
20 12 0.29
21 4 0.10
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (18 bp):
TTTTTGAAACACGAAAAA
Found at i:203695 original size:11 final size:12
Alignment explanation
Indices: 203681--203740 Score: 63
Period size: 11 Copynumber: 5.1 Consensus size: 12
203671 TATTTTTTAT
203681 TTTTTTTC-CTC
1 TTTTTTTCTCTC
* *
203692 TTTTTTTCTTTT
1 TTTTTTTCTCTC
203704 TCTTTTTTCTCTC
1 T-TTTTTTCTCTC
203717 TTTTTTTCT-T-
1 TTTTTTTCTCTC
203727 TTTGTTTTCTCTC
1 TTT-TTTTCTCTC
203740 T
1 T
203741 GCTGGGCTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 3 0.08
11 15 0.38
12 11 0.28
13 11 0.28
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTTTCTCTC
Found at i:203696 original size:25 final size:25
Alignment explanation
Indices: 203682--203740 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
203672 ATTTTTTATT
203682 TTTTTTC-CTCTTTTTTTCTTTTTC
1 TTTTTTCTCTCTTTTTTTCTTTTTC
*
203706 TTTTTTCTCTCTTTTTTTCTTTTTG
1 TTTTTTCTCTCTTTTTTTCTTTTTC
*
203731 TTTTCTCTCT
1 TTTTTTCTCT
203741 GCTGGGCTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (25 bp):
TTTTTTCTCTCTTTTTTTCTTTTTC
Found at i:203697 original size:14 final size:14
Alignment explanation
Indices: 203680--203727 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 14
203670 TTATTTTTTA
*
203680 TTTTTT-TTCCTCT
1 TTTTTTCTTTCTCT
*
203693 TTTTTTCTTTTTC-
1 TTTTTTCTTTCTCT
203706 TTTTTTC--TCTCT
1 TTTTTTCTTTCTCT
203718 TTTTTTCTTT
1 TTTTTTCTTT
203728 TTGTTTTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
11 3 0.11
12 7 0.25
13 13 0.46
14 5 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTTCTCT
Found at i:203703 original size:26 final size:25
Alignment explanation
Indices: 203666--203740 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
203656 AATTGAACTC
* *
203666 CTTTTTAT-TTTTTATTTTTTTTCCT
1 CTTTTTTTCTTTTTATTTTTTCT-CT
*
203691 CTTTTTTTCTTTTTCTTTTTTCTCT
1 CTTTTTTTCTTTTTATTTTTTCTCT
* *
203716 CTTTTTTTCTTTTTGTTTTCTCTCT
1 CTTTTTTTCTTTTTATTTTTTCTCT
203741 GCTGGGCTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 32 0.73
26 12 0.27
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (25 bp):
CTTTTTTTCTTTTTATTTTTTCTCT
Found at i:203735 original size:23 final size:23
Alignment explanation
Indices: 203680--203740 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 23
203670 TTATTTTTTA
203680 TTTTTTTTC-CTCTTTTTTTCTTT
1 TTTTTTTTCTCTCTTTTTTTC-TT
203703 TTCTTTTTTCTCTCTTTTTTTCTT
1 TT-TTTTTTCTCTCTTTTTTTCTT
*
203727 TTTGTTTTCTCTCT
1 TTTTTTTTCTCTCT
203741 GCTGGGCTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
23 13 0.37
24 11 0.31
25 11 0.31
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTTTTTCTCTCTTTTTTTCTT
Found at i:204011 original size:7 final size:7
Alignment explanation
Indices: 203999--204023 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
203989 TTCTTCTTCC
203999 TCTTTTT
1 TCTTTTT
204006 TCTTTTT
1 TCTTTTT
204013 TCTTTTT
1 TCTTTTT
204020 TCTT
1 TCTT
204024 CTTCGTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TCTTTTT
Found at i:204557 original size:30 final size:29
Alignment explanation
Indices: 204516--204662 Score: 186
Period size: 30 Copynumber: 4.9 Consensus size: 29
204506 ATTTTGTGGC
204516 AAAAGTGTAATTTTGAGAAAGTTTAGGGGTT
1 AAAA-TGTAATTTT-AGAAAGTTTAGGGGTT
*
204547 AAAATGTAATTTTTAGAAAGTTTAGGGATT
1 AAAATGTAA-TTTTAGAAAGTTTAGGGGTT
*
204577 AAAATGTAATTTTAAAAAGTTTAGGGGTT
1 AAAATGTAATTTTAGAAAGTTTAGGGGTT
* * * *
204606 GAATTGTAATTTTGAGAAAGTTTAGTGGTG
1 AAAATGTAATTTT-AGAAAGTTTAGGGGTT
*
204636 AAAATGAAATTTTAGAAAAGTTTAGGG
1 AAAATGTAATTTTAG-AAAGTTTAGGG
204663 ATCGAAATGC
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
29 31 0.31
30 62 0.61
31 8 0.08
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTAGAAAGTTTAGGGGTT
Found at i:204614 original size:59 final size:59
Alignment explanation
Indices: 204516--204662 Score: 197
Period size: 59 Copynumber: 2.4 Consensus size: 59
204506 ATTTTGTGGC
* * *
204516 AAAAGTGTAATTTTGAGAAAGTTTAGGGGTTAAAATGTAATTTTTAGAAAGTTTAG-GGATT
1 AAAA-TGTAATTTT-AAAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGTGG-TG
* *
204577 AAAATGTAATTTTAAAAAGTTTAGGGGTTGAATTGTAATTTTGAGAAAGTTTAGTGGTG
1 AAAATGTAATTTTAAAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGTGGTG
*
204636 AAAATGAAATTTTAGAAAAGTTTAGGG
1 AAAATGTAATTTTA-AAAAGTTTAGGG
204663 ATCGAAATGC
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
59 51 0.65
60 23 0.29
61 4 0.05
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (59 bp):
AAAATGTAATTTTAAAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGTGGTG
Found at i:207545 original size:36 final size:35
Alignment explanation
Indices: 207504--207573 Score: 122
Period size: 36 Copynumber: 2.0 Consensus size: 35
207494 AAATATTAAA
207504 AAAAAATTGGAGGGGGGAGGGTTTGGGGTAGATGNT
1 AAAAAATTGGAGGGGGGAGGGTTTGGGGTAGATG-T
*
207540 AAAAAATTGGATGGGGGAGGGTTTGGGGTAGATG
1 AAAAAATTGGAGGGGGGAGGGTTTGGGGTAGATG
207574 GGAGGTGGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.47, T:0.23
Consensus pattern (35 bp):
AAAAAATTGGAGGGGGGAGGGTTTGGGGTAGATGT
Found at i:207954 original size:9 final size:9
Alignment explanation
Indices: 207937--207967 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
207927 TCAAGTTGAT
207937 TCGAATAAC
1 TCGAATAAC
*
207946 TCGATTAAC
1 TCGAATAAC
207955 TCGAATAAC
1 TCGAATAAC
207964 TCGA
1 TCGA
207968 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:218085 original size:82 final size:82
Alignment explanation
Indices: 217937--218908 Score: 1833
Period size: 82 Copynumber: 11.9 Consensus size: 82
217927 TACGTATGAT
* * * * * *
217937 CACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCATTTATCACTTTTTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
*
217999 TGATCAGATAAGTATAA
66 TGATCAGATAAGTGTAA
218016 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
218081 TGATCAGATAAGTGTAA
66 TGATCAGATAAGTGTAA
218098 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
218163 TGATCAGATAAGTGTAA
66 TGATCAGATAAGTGTAA
218180 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
218245 TGATCAGATAAGTGTAA
66 TGATCAGATAAGTGTAA
218262 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
218327 TGATCAGATAAGTGTAA
66 TGATCAGATAAGTGTAA
218344 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
218409 TGATCAGATAAGTGTAA
66 TGATCAGATAAGTGTAA
218426 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
218491 TGATCAGATAAGTGTAA
66 TGATCAGATAAGTGTAA
218508 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
218573 TGATCAGATAAGTGTAA
66 TGATCAGATAAGTGTAA
218590 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
218655 TGATCAGATAAGTGTAA
66 TGATCAGATAAGTGTAA
218672 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
218737 TGATCAGATAAGTGTAA
66 TGATCAGATAAGTGTAA
218754 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
218819 TGATCAGATAAGTGTAA
66 TGATCAGATAAGTGTAA
* * *
218836 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCCAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
218901 TGATCAGA
66 TGATCAGA
218909 AGTACTCAAA
Statistics
Matches: 880, Mismatches: 10, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
79 9 0.01
80 5 0.01
81 20 0.02
82 846 0.96
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCGCTTTGTCTCT
TGATCAGATAAGTGTAA
Found at i:218868 original size:36 final size:36
Alignment explanation
Indices: 218800--218870 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
218790 CTAAAGCTAC
* *
218800 CACTTATCGCTTTGTCTCTTGATCAGATAAGTGTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAA
*
218836 CACTTATCACTTTTTCACTTGATCAGATAAGTGTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTA
218871 GCCAAAGCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAA
Found at i:222936 original size:67 final size:67
Alignment explanation
Indices: 222822--223770 Score: 1814
Period size: 67 Copynumber: 14.2 Consensus size: 67
222812 AATATTTTCT
222822 ATTCAT-TTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
222886 AC
66 AC
222888 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
222953 AC
66 AC
222955 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
223020 AC
66 AC
223022 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
223087 AC
66 AC
223089 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
223154 AC
66 AC
223156 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
223221 AC
66 AC
223223 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
223288 AC
66 AC
223290 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
223355 AC
66 AC
223357 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
223422 AC
66 AC
223424 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
223489 AC
66 AC
223491 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
223556 AC
66 AC
223558 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
223623 AC
66 AC
* ***
223625 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTG-AAATTAATAATATT
1 ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTA-T
*
223689 TTC
65 TAC
223692 TATTCAT-TTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTAT
1 -ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTAT
223756 TAC
65 TAC
223759 ATTCATATTGTC
1 ATTCATATTGTC
223771 TCATGTTAGA
Statistics
Matches: 868, Mismatches: 10, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
66 20 0.02
67 834 0.96
68 14 0.02
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (67 bp):
ATTCATATTGTCAGATTTGGTGATCTCAAATCACCATTCTGACACCACTGAAAATTCAGGCTATT
AC
Found at i:227714 original size:42 final size:42
Alignment explanation
Indices: 227651--227774 Score: 151
Period size: 42 Copynumber: 3.0 Consensus size: 42
227641 TATTCATAGC
* * *
227651 CACA-GGCCTGGACATACGCCCATGTCCTTGTCCATGTGGCT
1 CACACGGCCTGGGCACACGCCCATGTCCTTGCCCATGTGGCT
* *
227692 CACACGGCCTGGGCACAGGCCCATGTCCTTGCCCGTGTGGCT
1 CACACGGCCTGGGCACACGCCCATGTCCTTGCCCATGTGGCT
* * * *
227734 CACACAGCTTGGGCACACACCTATGTCCTCTGCCCATGTGG
1 CACACGGCCTGGGCACACGCCCATGTCCT-TGCCCATGTGG
227775 TTCTAAAACA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
41 4 0.06
42 56 0.80
43 10 0.14
ACGTcount: A:0.16, C:0.36, G:0.26, T:0.22
Consensus pattern (42 bp):
CACACGGCCTGGGCACACGCCCATGTCCTTGCCCATGTGGCT
Found at i:227935 original size:105 final size:105
Alignment explanation
Indices: 227713--227906 Score: 248
Period size: 105 Copynumber: 1.9 Consensus size: 105
227703 GGCACAGGCC
* * * * * * *
227713 CATGTCCTTGCCCGTGTGGCTCACACAGCTTGGGCACACACCTATGTCCTCTGCCCATGTGGTTC
1 CATGTCTTTGCCCGTATGACTCACACAGCCTGGGCACACACCCATGTCCTCTGCCCATGCGGTCC
*
227778 TAAAACATAAACAGTGAGTTACACGATCTAGACAAACGCA
66 TAAAACATAAACAGTGAGTTACACGATCTAGACAAACACA
* **
227818 CATGTCTTTGCCCGTATGACTCACAC-GACCTGGGCACACACCCATGTCC-CTGGCTGTGCGGTC
1 CATGTCTTTGCCCGTATGACTCACACAG-CCTGGGCACACACCCATGTCCTCTGCCCATGCGGTC
**
227881 CTAAGTCATAAACAGTGAGTTACACG
65 CTAAAACATAAACAGTGAGTTACACG
227907 GCTTAGACAC
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
104 34 0.45
105 42 0.55
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (105 bp):
CATGTCTTTGCCCGTATGACTCACACAGCCTGGGCACACACCCATGTCCTCTGCCCATGCGGTCC
TAAAACATAAACAGTGAGTTACACGATCTAGACAAACACA
Found at i:231046 original size:6 final size:6
Alignment explanation
Indices: 231035--231089 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
231025 TACCAATAAA
* * * *
231035 ATAATT ATAATT ATAATT ATAATT GTAATT GTAATT GTAATT GTAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
231083 ATTAATT
1 A-TAATT
231090 GATTTTAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 41 0.89
7 5 0.11
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (6 bp):
ATAATT
Found at i:231058 original size:18 final size:18
Alignment explanation
Indices: 231035--231089 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
231025 TACCAATAAA
*
231035 ATAATTATAATTATAATT
1 ATAATTGTAATTATAATT
*
231053 ATAATTGTAATTGTAATT
1 ATAATTGTAATTATAATT
*
231071 GTAATTGTAATTATTAATT
1 ATAATTGTAATTA-TAATT
231090 GATTTTAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 27 0.84
19 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (18 bp):
ATAATTGTAATTATAATT
Found at i:235310 original size:13 final size:14
Alignment explanation
Indices: 235291--235328 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
235281 CTAGTTTTTC
235291 CTTTCTTTCTCTTT
1 CTTTCTTTCTCTTT
*
235305 -TTTCTTTTTCTTT
1 CTTTCTTTCTCTTT
235318 CTTTCTTTCTC
1 CTTTCTTTCTC
235329 CCCTGTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTCTTTCTCTTT
Found at i:235902 original size:16 final size:17
Alignment explanation
Indices: 235866--235902 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
235856 TAATATAATT
235866 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
235883 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
235898 TATAA
1 TATAA
235903 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:237019 original size:35 final size:37
Alignment explanation
Indices: 236949--237019 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 37
236939 AGAAGAGAAG
*
236949 AAAAGCAAAGAAGAAGTTTGGGGTCAGTTTAGGGTTA
1 AAAAGCAAAAAAGAAGTTTGGGGTCAGTTTAGGGTTA
* *
236986 AAAAG-AAAAAAGAA-TTTTGGGTTAGTTTAGGGTT
1 AAAAGCAAAAAAGAAGTTTGGGGTCAGTTTAGGGTT
237020 TAGTATTAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 18 0.58
36 8 0.26
37 5 0.16
ACGTcount: A:0.39, C:0.03, G:0.30, T:0.28
Consensus pattern (37 bp):
AAAAGCAAAAAAGAAGTTTGGGGTCAGTTTAGGGTTA
Found at i:237149 original size:22 final size:24
Alignment explanation
Indices: 237103--237150 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
237093 ATTTTTGTAA
*
237103 GTTTAGGGTTTAACAAATTTATTT
1 GTTTAAGGTTTAACAAATTTATTT
*
237127 GTTTAAGGTTT-ATAAA-TTATTT
1 GTTTAAGGTTTAACAAATTTATTT
237149 GT
1 GT
237151 AGAAGGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 4 0.18
24 10 0.45
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (24 bp):
GTTTAAGGTTTAACAAATTTATTT
Found at i:238681 original size:110 final size:111
Alignment explanation
Indices: 238475--238786 Score: 416
Period size: 110 Copynumber: 2.8 Consensus size: 111
238465 ATATTTGGCT
* * * * * ** *
238475 ATTTGGTTAAACGAG--AAATCGAAACCCAACACCTTAGGGTACGTTTCCTTAAATTTCCAAACA
1 ATTTGGTTGAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* ** * ** * *
238538 CAAAATATTATCTTA-CTTCGAAATTTTTAAAAAGGGTATTTAGCC
66 CAAAACATTGCCTTATTTTAAAAATTTTTAAAAAGGATATTAAGCC
*
238583 ATTTGGTTGAATGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
238648 CAAAACATTGCCTTATTTTAAAAATTTTT-AAAAGGATATTAAGCC
66 CAAAACATTGCCTTATTTTAAAAATTTTTAAAAAGGATATTAAGCC
*
238693 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
238758 CAAAACGTTGCCTTATTTGAAAAATTTTT
66 CAAAACATTGCCTTATTTTAAAAATTTTT
238787 GTTTTTTGAA
Statistics
Matches: 180, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
108 13 0.07
110 157 0.87
111 10 0.06
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (111 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAAATTTTTAAAAAGGATATTAAGCC
Found at i:238983 original size:17 final size:18
Alignment explanation
Indices: 238943--238985 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
238933 ATGGACATAT
* *
238943 AAATAAATACATAAATGA
1 AAATAAATAAATAAAGGA
*
238961 ACATAAA-AAATAAAGGA
1 AAATAAATAAATAAAGGA
238978 AAATAAAT
1 AAATAAAT
238986 GAAAATTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.19
Consensus pattern (18 bp):
AAATAAATAAATAAAGGA
Found at i:239283 original size:3 final size:3
Alignment explanation
Indices: 239275--239348 Score: 55
Period size: 3 Copynumber: 24.7 Consensus size: 3
239265 TAGATGAAGA
* * *
239275 AAT AAT AAT AAT AACT AAT AAT AAC AAT AAT AAT AAA AGAT GAT AA-
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* *
239321 AAT ATT AA- AAT AAT GAAG AA- AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
239349 AAATGCTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
2 6 0.11
3 44 0.79
4 6 0.11
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:239320 original size:22 final size:21
Alignment explanation
Indices: 239278--239324 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
239268 ATGAAGAAAT
*
239278 AATAATAATAACTAATAATAA
1 AATAATAATAACAAATAATAA
*
239299 CAATAATAATAA-AAGATGATAA
1 -AATAATAATAACAA-ATAATAA
239321 AATA
1 AATA
239325 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (21 bp):
AATAATAATAACAAATAATAA
Found at i:240342 original size:20 final size:21
Alignment explanation
Indices: 240319--240365 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
240309 GTTTTTGGGC
*
240319 TGGGTTTTAATTTT-TCT-TTT
1 TGGGTTGTAATTTTAT-TGTTT
*
240339 TGGGCTGTAATTTTATTGTTT
1 TGGGTTGTAATTTTATTGTTT
240360 TGGGTT
1 TGGGTT
240366 AGGTCTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.11, C:0.04, G:0.23, T:0.62
Consensus pattern (21 bp):
TGGGTTGTAATTTTATTGTTT
Found at i:240931 original size:44 final size:43
Alignment explanation
Indices: 240882--241777 Score: 318
Period size: 44 Copynumber: 20.6 Consensus size: 43
240872 GTTTTAATCC
*
240882 GCTCCACTGCAACTTCAGGGAGATATGATTGATTTCTTTCGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGATTT-TTTCGTCT
** * * *
240926 GCTCCACTATAACCTCAGGGAGATAAGACCTGA----TGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGATTTTTTCG-TCT
* * * * * **
240967 ACTCTACTGTAACTTCAGAGAGATAAGATCTG-TGATTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGAT-TTTTTCGTCT
* * * *
241011 GCTCCACTGTAACTTAAGGGAGATAGGATTTATTTCTTTCGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGATTT-TTTCGTCT
*
241055 GCTCCACTGCAACTTCAGGGAGATAAGATTGGA---TGT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GATTTTTTCG-TCT
* * * ** *
241096 GCTCTACTGCAACTTCAGAGAGATAAGATCTG-TGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGAT-TTTTTCGTCT
* * * **
241140 GCTCCACTGTAACTTCAGGGAGATAAGATTTG-TATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGATTTTTTC-GTCT
* * * * * *** *
241184 GCTCCACTACGATTTTAGGGAGATAAGTTTTGATCCAATTCGAC-
1 GCTCCACTGCAACTTCAGGGAGATAAG-ATTGAT-TTTTTCGTCT
* * * * * *
241228 -CT--ACTGCAACTTCAGAGG-TATATGATTCATCGTTTTCATCC
1 GCTCCACTGCAACTTCAG-GGAGATAAGATTGAT-TTTTTCGTCT
* * * * * *
241269 ACTCTATTGCAACTTCAGGGAGACACGATTGGTATTTTTCGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGAT-TTTTTCGTCT
* * * *
241313 TCTCCACTCCAACTTCAGGGAGACACA-ATTGGTATTTTTCGTCT
1 GCTCCACTGCAACTTCAGGGAGATA-AGATTGAT-TTTTTCGTCT
* ** * **
241357 GCTCCACTGTAACTTCAGGGAGATAAGATATGAAATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGATTTTTTC-GTCT
* * * *** *
241402 GCTCCACTACGACTTCAGGGAGATAAGGTTTGATCCAATTCGAC-
1 GCTCCACTGCAACTTCAGGGAGATAA-GATTGAT-TTTTTCGTCT
* * * * *
241446 -CT--ACTGCAACTTCAGAGG-TATATGATTCATTGTTTTCATCC
1 GCTCCACTGCAACTTCAG-GGAGATAAGATTGATT-TTTTCGTCT
* * * * *
241487 ACTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGAT-TTTTTCGTCT
* ** * **
241531 GCTCCACTGCAACTTCAGGGAGATAAGATCTAAAATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGATTTTTTC-GTCT
* * * ** *
241576 GCTCCACTACGACTTCAGGGAGATAAGGTTTGATCCAATTT-GAC-
1 GCTCCACTGCAACTTCAGGGAGATAA-GATTGAT--TTTTTCGTCT
* * * * * *
241620 -CT--ACTGCAACTTCAGAGG-TATATGATTCATCGTTTTCATCC
1 GCTCCACTGCAACTTCAG-GGAGATAAGATTGAT-TTTTTCGTCT
* * * * *
241661 ACTCCACTGCAACTTCAGAGAGACACGATTGGTATTTTTCGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGAT-TTTTTCGTCT
* *
241705 GCTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-ATTTTTTC-GTCT
* * *
241751 ACTCCACTGTAACCTCAGGGAGATAAG
1 GCTCCACTGCAACTTCAGGGAGATAAG
241778 GCCTGATGCG
Statistics
Matches: 628, Mismatches: 166, Indels: 114
0.69 0.18 0.13
Matches are distributed among these distances:
39 4 0.01
40 28 0.04
41 102 0.16
42 13 0.02
43 17 0.03
44 345 0.55
45 78 0.12
46 38 0.06
47 3 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGATTTTTTCGTCT
Found at i:241025 original size:129 final size:128
Alignment explanation
Indices: 240794--242879 Score: 750
Period size: 129 Copynumber: 15.9 Consensus size: 128
240784 CGGTCTTCAA
* * * ** * *
240794 TCTGCTCTACTGCATCTTCAGGGAGATAAGATTTG-TTACGATCTACTCTACTGTAATTTTAGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATT-CGATCTACTCTACTGTAACTTCAGAG
* ** * *
240858 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATATGATTGATTTCTTTCG
65 AGATAAGATCTGTGATTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATTGATTTC-TTCG
* * *
240923 TCTGCTCCACTATAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGATCTACTCTACTGTAACTTCAGAGA
* * * *
240988 GATAAGATCTGTGATTTTAATCTGCTCCACTGTAACTTAAGGGAGATAGGATTTATTTCTTTCG
66 GATAAGATCTGTGATTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATTGATTTC-TTCG
* * * *
241052 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGATGT-GATCTGCTCTACTGCAACTTCAGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACCT-GAT-TCGATCTACTCTACTGTAACTTCAGA
* ** *
241115 GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATTTG-TATCTTC
64 GAGATAAGATCTGTGATTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGA-TTGATTTCTTC
*
241179 AA
128 -G
* *** * * *** * * * *
241181 CCTGCTCCACTACGATTTTAGGGAGATAAGTTTTGATCCAATTCGAC-CTACTGCAACTTCAGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGA-TCTACTCTACTGTAACTTCAGAG
* * * * * * * * *
241245 -GTATATGATTCAT-CG-TTTTCATCCACTCTATTGCAACTTCAGGGAGACACGATTGGTATTT-
65 AG-ATAAGA-TC-TGTGATTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATT-G-ATTTC
241306 TTCG
125 TTCG
* ** * * * *
241310 TCTTCTCCACTCCAACTTCAGGGAGACACA-A-TTGGTATTTTTCG-TCTGCTCCACTGTAACTT
1 TCTGCTCCACTGTAACTTCAGGGAGATA-AGACCT-G-A---TTCGATCTACTCTACTGTAACTT
* * ** * * * *** *
241372 CAGGGAGATAAGATATGAAATCTTCAACCTGCTCCACTACGACTTCAGGGAGATAAGGTTTGA-T
60 CAGAGAGATAAGATCTGTGAT-TTTAATCTACTCCACTGTAACTTCAGGGAGATAA-GATTGATT
*
241436 CCAATTCG
123 TC--TTCG
* * * * * * * * *
241444 AC--CT--ACTGCAACTTCAGAGG-TATATGATTCATTGTTTTC-ATCCACTCCACTGCAACTTC
1 TCTGCTCCACTGTAACTTCAG-GGAGATAAGA--C-CTG-ATTCGATCTACTCTACTGTAACTTC
* * * * * * * **
241503 AGGGAGACACGAT-TG-GTATTTTTCATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAAA
61 AGAGAGATAAGATCTGTG-A-TTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGAT-TGATT
*
241566 TCTTCAA
123 TCTTC-G
* *** *** * * * *
241573 CCTGCTCCACTACGACTTCAGGGAGATAAGGTTTGATCCAATTTGAC-CTACTGCAACTTCAGAG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGATCT-ACTCTACTGTAACTTCAGAG
* * * * * * * *
241637 -GTATATGATTCAT-CG-TTTTCATCCACTCCACTGCAACTTCAGAGAGACACGATTGGTATTT-
65 AG-ATAAGA-TC-TGTGATTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATT-G-ATTTC
241698 TTCG
125 TTCG
* * * * *
241702 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACCTG--A---TTCGATCTACTCTACTGTAACTTC
* * * *** ** * *** *
241767 AGGGAGATAAG-GC-CTGA-TGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATT
61 AGAGAGATAAGATCTGTGATTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATTGATT-TC
**
241829 TTAA
125 TTCG
* * * * * * ** *
241833 TCCGCTCCACTGTAA-TCTCAGGGAGATAGGATTACT-ATCTTCAACCTGCTCCGCTGTAACCTC
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGA--CCTGA--TTCGATCTACTCTACTGTAACTTC
* * ** * * *
241896 AGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACATCAGGGAGATAAGATCTGAAATT
61 AGAGAGATAAGATCTGTGATTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGAT-TG-ATTT
241961 CTTCGG
124 CTTC-G
* * * *
241967 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGATCTACTCTACTGTAACTTCAGAGA
* * * * *
242032 GATAAGATCCT-TGATTTTAATCCACTCCACTATAACTTCAGGAAGGTAGGATT-ATCGGCTTCA
66 GATAAGAT-CTGTGATTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATTGAT----TTC-
*
242095 ATCTG
125 TTC-G
* * * * * * * *
242100 ATGTGATCTACTCTACTATAACTTCAGAGAGATAAGATCTTGGCTTCAATCTGCTCCACTGTAAC
1 -TCTG--CT-C-C-ACTGTAACTTCAGGGAGATAAGA-CCT-GATTCGATCTACTCTACTGTAAC
* * ** ** *
242165 CTCA-AGGGGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTT-AGGGAGATAAGACC
58 TTCAGA-GAGATAAGATCTGTGATT-TT-AATCTACTCCACTGTAA-CTTCAGGGAGATAAGA-T
*
242228 TGA----TGCG
118 TGATTTCTTCG
* *** * * ** * *
242235 ATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATAC-GCTCCACTGTAACTTC
1 -TCTGCTCCACTGTAACTTCAGGGAGATAAGA-CC-TGA-TTCGAT-CTACTCTACTGTAACTTC
* * * ** * * *
242299 AGGGAGATAGGAT-AGTG-TCTTCGATCTACTCCGCTGTAATCTT-AGGGAGATAAGATCT-CTG
61 AGAGAGATAAGATCTGTGAT-TTTAATCTACTCCACTGTAA-CTTCAGGGAGATAAGAT-TGATT
* *
242360 GCTTCAA
123 TCTTC-G
* * * *
242367 TCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGATCTACTCTACTGTAACTTCAGAGA
* * * * *
242432 GATAAGATCCT-TTATTTTAATAC-GCTCCACTGTAACTTCAGGGAGATAGGATAG-TGTCTTCG
66 GATAAGAT-CTGTGATTTTAAT-CTACTCCACTGTAACTTCAGGGAGATAAGATTGATTTCTTCG
* * * * * * *
242494 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCGGGCTTCAATCTGCTCCACTGTAACATC
1 -TCTGCTCCACTGTAACT-TCAGGGAGATAAGA-C-C-TGATTCGATCTACTCTACTGTAACTTC
* ** ** * *
242558 AGGGAGATAAGATCTGAAATTTTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAA
61 AGAGAGATAAGATCTGTGA-TTTT-AATCTACTCCACTGTAACTTCAGGGAGATAAGAT-TG-AT
242623 TTCTTCGG
122 TTCTTC-G
* * * *
242631 TCTACTCCACTGTAACCTT-AGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAG
1 TCTGCTCCACTGTAA-CTTCAGGGAGATAAGACCTGATTCGATCTACTCTACTGTAACTTCAGAG
* * * * *
242695 AGATAAGATCCT-TTATTTTAATAC-GCTCCACTGTAACTTCAGGGAGATAGGATAG-TGTCTTC
65 AGATAAGAT-CTGTGATTTTAAT-CTACTCCACTGTAACTTCAGGGAGATAAGATTGATTTCTTC
242757 G
128 G
* * * * * * * *
242758 ATCTACTCCGCTGTAATCTT-AGGGAGATAAGATCTCTGGCTTCAATCTGCCCCACTGTAACCTC
1 -TCTGCTCCACTGTAA-CTTCAGGGAGATAAGA-C-CT-GATTCGATCTACTCTACTGTAACTTC
* ** ** * *
242822 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCATTGTAACCTCAGGGAGATAAGA
61 AGAGAGATAAGATCTGTGATT-TT-AATCTACTCCACTGTAACTTCAGGGAGATAAGA
242880 CCTGATGCGA
Statistics
Matches: 1468, Mismatches: 348, Indels: 278
0.70 0.17 0.13
Matches are distributed among these distances:
127 2 0.00
128 143 0.10
129 456 0.31
130 166 0.11
131 287 0.20
132 78 0.05
133 142 0.10
134 64 0.04
135 6 0.00
136 33 0.02
137 3 0.00
138 2 0.00
139 20 0.01
140 5 0.00
141 32 0.02
142 2 0.00
143 22 0.01
144 4 0.00
145 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (128 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCTGTGATTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATTGATTTCTTCG
Found at i:241096 original size:85 final size:87
Alignment explanation
Indices: 240809--241169 Score: 240
Period size: 85 Copynumber: 4.2 Consensus size: 87
240799 TCTACTGCAT
*** * * * * * *
240809 CTTCAGGGAGATAAGATT-TG-TTACGATCTACTCTACTGTAATTTTAGAGAGATAAGATCTGTG
1 CTTCAGGGAGATAAGATTGTGATTGTAATCTGCTCCACTGCAACTTAAGAGAGATAAGATCTATG
*
240872 GTTTTAATCCGCTCCACTGCAA
66 GTTTTAATCCGCTCCACTGTAA
* * * ** ** * * * *
240894 CTTCAGGGAGATATGATTGAT-TTCTTTCGTCTGCTCCACTATAACCTCAGGGAGATAAGACCTG
1 CTTCAGGGAGATAAGATTG-TGAT-TGTAATCTGCTCCACTGCAACTTAAGAGAGATAAGATCT-
** *
240958 ATGCG-----ATCTACTCTACTGTAA
63 ATG-GTTTTAATCCGCTCCACTGTAA
* * * * * *
240979 CTTCAGAGAGATAAGATCTGTGATTTTAATCTGCTCCACTGTAACTTAAGGGAGATAGGATTTAT
1 CTTCAGGGAGATAAGAT-TGTGATTGTAATCTGCTCCACTGCAACTTAAGAGAGATAAGATCTAT
* ** * *
241044 -TTCTTTCGTCTGCTCCACTGCAA
65 GGT-TTTAATCCGCTCCACTGTAA
* * * *
241067 CTTCAGGGAGATAAGATTG-GA-TGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTG
1 CTTCAGGGAGATAAGATTGTGATTGTAATCTGCTCCACTGCAACTTAAGAGAGATAAGATCTATG
241130 GTTTTAATCCGCTCCACTGTAA
66 GTTTTAATCCGCTCCACTGTAA
241152 CTTCAGGGAGATAAGATT
1 CTTCAGGGAGATAAGATT
241170 TGTATCTTCA
Statistics
Matches: 212, Mismatches: 49, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
84 2 0.01
85 142 0.67
86 6 0.03
87 4 0.02
88 55 0.26
89 2 0.01
90 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (87 bp):
CTTCAGGGAGATAAGATTGTGATTGTAATCTGCTCCACTGCAACTTAAGAGAGATAAGATCTATG
GTTTTAATCCGCTCCACTGTAA
Found at i:241436 original size:218 final size:217
Alignment explanation
Indices: 241140--241553 Score: 720
Period size: 218 Copynumber: 1.9 Consensus size: 217
241130 GTTTTAATCC
* * * *
241140 GCTCCACTGTAACTTCAGGGAGATAAGATTTGTATCTTCAACCTGCTCCACTACGATTTTAGGGA
1 GCTCCACTGTAACTTCAGGGAGATAAGATATGAATCTTCAACCTGCTCCACTACGACTTCAGGGA
*
241205 GATAAGTTTTGATCCAATTCGACCTACTGCAACTTCAGAGGTATATGATTCATCGTTTTCATCCA
66 GATAAGGTTTGATCCAATTCGACCTACTGCAACTTCAGAGGTATATGATTCATCGTTTTCATCCA
* * * *
241270 CTCTATTGCAACTTCAGGGAGACACGATTGGTATTTTTCGTCTTCTCCACTCCAACTTCAGGGAG
131 CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCATCTGCTCCACTCCAACTTCAGGGAG
241335 ACACAATTGGTATTTTTCGTCT
196 ACACAATTGGTATTTTTCGTCT
241357 GCTCCACTGTAACTTCAGGGAGATAAGATATGAAATCTTCAACCTGCTCCACTACGACTTCAGGG
1 GCTCCACTGTAACTTCAGGGAGATAAGATATG-AATCTTCAACCTGCTCCACTACGACTTCAGGG
*
241422 AGATAAGGTTTGATCCAATTCGACCTACTGCAACTTCAGAGGTATATGATTCATTGTTTTCATCC
65 AGATAAGGTTTGATCCAATTCGACCTACTGCAACTTCAGAGGTATATGATTCATCGTTTTCATCC
*
241487 ACTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCATCTGCTCCACTGCAACTTCAGGGA
130 ACTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCATCTGCTCCACTCCAACTTCAGGGA
241552 GA
195 GA
241554 TAAGATCTAA
Statistics
Matches: 185, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
217 31 0.17
218 154 0.83
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (217 bp):
GCTCCACTGTAACTTCAGGGAGATAAGATATGAATCTTCAACCTGCTCCACTACGACTTCAGGGA
GATAAGGTTTGATCCAATTCGACCTACTGCAACTTCAGAGGTATATGATTCATCGTTTTCATCCA
CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCATCTGCTCCACTCCAACTTCAGGGAG
ACACAATTGGTATTTTTCGTCT
Found at i:241508 original size:174 final size:174
Alignment explanation
Indices: 241314--241745 Score: 774
Period size: 174 Copynumber: 2.5 Consensus size: 174
241304 TTTTCGTCTT
* * *
241314 CTCCACTCCAACTTCAGGGAGACACAATTGGTATTTTTCGTCTGCTCCACTGTAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCGTCTGCTCCACTGCAACTTCAGGGAG
*
241379 ATAAGATATGAAATCTTCAACCTGCTCCACTACGACTTCAGGGAGATAAGGTTTGATCCAATTCG
66 ATAAGATCTGAAATCTTCAACCTGCTCCACTACGACTTCAGGGAGATAAGGTTTGATCCAATTCG
*
241444 ACCTACTGCAACTTCAGAGGTATATGATTCATTGTTTTCATCCA
131 ACCTACTGCAACTTCAGAGGTATATGATTCATCGTTTTCATCCA
*
241488 CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCATCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCGTCTGCTCCACTGCAACTTCAGGGAG
* *
241553 ATAAGATCTAAAATCTTCAACCTGCTCCACTACGACTTCAGGGAGATAAGGTTTGATCCAATTTG
66 ATAAGATCTGAAATCTTCAACCTGCTCCACTACGACTTCAGGGAGATAAGGTTTGATCCAATTCG
241618 ACCTACTGCAACTTCAGAGGTATATGATTCATCGTTTTCATCCA
131 ACCTACTGCAACTTCAGAGGTATATGATTCATCGTTTTCATCCA
*
241662 CTCCACTGCAACTTCAGAGAGACACGATTGGTATTTTTCGTCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCGTCTGCTCCACTGCAACTTCAGGGAG
241727 ATAAGATCTGAAATTCTTC
66 ATAAGATCTGAAA-TCTTC
241746 GGTCTACTCC
Statistics
Matches: 246, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
174 241 0.98
175 5 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (174 bp):
CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCGTCTGCTCCACTGCAACTTCAGGGAG
ATAAGATCTGAAATCTTCAACCTGCTCCACTACGACTTCAGGGAGATAAGGTTTGATCCAATTCG
ACCTACTGCAACTTCAGAGGTATATGATTCATCGTTTTCATCCA
Found at i:241680 original size:218 final size:216
Alignment explanation
Indices: 241056--241602 Score: 579
Period size: 218 Copynumber: 2.5 Consensus size: 216
241046 CTTTCGTCTG
* * * * * *
241056 CTCCACTGCAACTTCAGGGAGATAAGATTGG-A--TGT-GATCTGCTCTACTGCAACTTCAGAGA
1 CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCG-TCTACTCCACTGCAACTTCAGGGA
*** * * ** * *
241117 GATAAGATCTG-TGGTTTTAATCC-GCTCCACTGTAACTTCAGGGAGATAAGATTTGTATCTTCA
65 GATAAGAT-TGAAAATCTTCA-CCTGCTCCACTACAACTTCAGGGAGATAAGATATGAATC-TCA
* * * * * *
241180 ACCTGCTCCACTACGATTTTAGGGAGATAAGTTTTGATCCAATTCGACCTACTGCAACTTCAGAG
127 ACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGATCCAATTCCACCCACTGCAACTTCAGAG
*
241245 GTATATGATTCATCGTTTTCATCCA
192 GTATATGATTCATTGTTTTCATCCA
* * * *
241270 CTCTATTGCAACTTCAGGGAGACACGATTGGTATTTTTCGTCTTCTCCACTCCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCGTCTACTCCACTGCAACTTCAGGGAG
* ** * * ** **
241335 ACACA-ATTGGTATTTTTCGTCTGCTCCACTGTAACTTCAGGGAGATAAGATATGAAATCTTCAA
66 ATA-AGATTGAAAATCTTCACCTGCTCCACTACAACTTCAGGGAGATAAGATATG-AATC-TCAA
* * * *
241399 CCTGCTCCACTACGACTTCAGGGAGATAAGGTTTGATCCAATTCGACCTACTGCAACTTCAGAGG
128 CCTGCTCCACTACAACTTCAGGGAGATAAGATTTGATCCAATTCCACCCACTGCAACTTCAGAGG
241464 TATATGATTCATTGTTTTCATCCA
193 TATATGATTCATTGTTTTCATCCA
* *
241488 CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCATCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCGTCTACTCCACTGCAACTTCAGGGAG
*
241553 ATAAGATCT-AAAATCTTCAACCTGCTCCACTACGACTTCAGGGAGATAAG
66 ATAAGAT-TGAAAATCTTC-ACCTGCTCCACTACAACTTCAGGGAGATAAG
241603 GTTTGATCCA
Statistics
Matches: 286, Mismatches: 36, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
214 27 0.09
215 1 0.00
216 3 0.01
217 64 0.22
218 164 0.57
219 27 0.09
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (216 bp):
CTCCACTGCAACTTCAGGGAGACACGATTGGTATTTTTCGTCTACTCCACTGCAACTTCAGGGAG
ATAAGATTGAAAATCTTCACCTGCTCCACTACAACTTCAGGGAGATAAGATATGAATCTCAACCT
GCTCCACTACAACTTCAGGGAGATAAGATTTGATCCAATTCCACCCACTGCAACTTCAGAGGTAT
ATGATTCATTGTTTTCATCCA
Found at i:241758 original size:46 final size:45
Alignment explanation
Indices: 241706--243841 Score: 768
Period size: 44 Copynumber: 48.5 Consensus size: 45
241696 TTTTCGTCTG
* **
241706 CTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTCTTCAATCTA
* ** * *
241752 CTCCACTGTAACCTCAGGGAGATAAGGCCTG-A---TGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCAATCTA
** * ** **
241793 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGAT-CTGAATTCTTCAATCTA
* * * *
241837 CTCCACTGTAA-TCTCAGGGAGATAGGAT-T-ACTATCTTCAACCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* * * *
241881 CTCCGCTGTAACCTCAGGGAGATAAGATCT--CTGGCTTCAATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* **
241925 CTCCACTGTAACATCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTCTTCAATCTA
* * * *
241971 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCAATCTA
** * *
242012 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTG-ATT-TT-AATCCA
1 CTCCACTGTAACTTCAGGGAGATAAGAT-C-TGAATTCTTCAATCTA
* * * * * ** *
242056 CTCCACTATAACTTCAGGAAGGTAGGATTATCGGCTTCAATCTGATGTGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGA-TCT-GAATTC--T-TCA----ATCTA
* * * * *
242110 CTCTACTATAACTTCAGAGAGATAAGATCT---TGGCTTCAATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* **
242153 CTCCACTGTAACCTCAAGGG-GATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACTTC-AGGGAGATAAGATCTG-AATTCTTCAATCTA
* * *
242199 CTCCACTGTAACCTT-AGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAA-CTTCAGGGAGATAAGATCTGAATTCTTCAATCTA
*** * ** *
242240 CTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATAC-G
1 CTCCACTGTAACTTCAGGGAGATAAGAT-CTGAATTCTTCAAT-CTA
* * *
242284 CTCCACTGTAACTTCAGGGAGATAGGA--T-AGTGTCTTCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* * * *
242327 CTCCGCTGTAATCTT-AGGGAGATAAGATCT--CTGGCTTCAATCTG
1 CTCCACTGTAA-CTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* * * *
242371 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCAATCTA
*** * ** *
242412 CTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATAC-G
1 CTCCACTGTAACTTCAGGGAGATAAGAT-CTGAATTCTTCAAT-CTA
* * * *
242456 CTCCACTGTAACTTCAGGGAGATAGGA--T-AGTGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* ** *
242499 CTCCGCTGTAA-TCTCAGGGAGATAAGATCTCG--GGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCT-GAATTCTTCAATCTA
* * **
242543 CTCCACTGTAACATCAGGGAGATAAGATCTGAAATTTTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTCTTCAATCTA
* **
242589 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTCTTCAATCTA
* * *
242635 CTCCACTGTAACCTT-AGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAA-CTTCAGGGAGATAAGATCTGAATTCTTCAATCTA
*** * ** *
242676 CTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATAC-G
1 CTCCACTGTAACTTCAGGGAGATAAGAT-CTGAATTCTTCAAT-CTA
* * *
242720 CTCCACTGTAACTTCAGGGAGATAGGA--T-AGTGTCTTCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* * * *
242763 CTCCGCTGTAATCTT-AGGGAGATAAGATCT--CTGGCTTCAATCTG
1 CTCCACTGTAA-CTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* * **
242807 CCCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTCTTCAATCTA
* * * * *
242853 CTCCATTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCAATCTA
** * ** **
242894 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGAT-CTGAATTCTTCAATCTA
* * * * *
242938 CTTCACTGTAACTTCAGGGAGATAGGA--T-AGTGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* ** * * *
242981 CTTCGTTGTAA-TCTCAGGGAGATAGGAT-T-ACTATCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* * * *
243025 CTCCGCTGTAA-TCTCAGGGAAATAAGATCT--CTGGCTTCAATCTA
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* * **
243069 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTCTTCAATCTA
* * * *
243115 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCAATCTA
* ** * * *
243156 TTCTGCTCTAACTTCAGAGAGATAAGATCCTTG-ATT-TT-AATCCA
1 CTCCACTGTAACTTCAGGGAGATAAGAT-C-TGAATTCTTCAATCTA
* * * * ** *
243200 CTCCACTATAACTTCAGGAAGATAGGATTATCGGCTTCAATCTGATGTGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGA-TCT-GAATTC--T-TCA----ATCTA
* * * * *
243254 CTCTACTATAACTTCAGAGAGATAAGATCT---TGGCTTCAATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* **
243297 CTCCACTGTAACCTCAAGGG-GATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACTTC-AGGGAGATAAGATCTG-AATTCTTCAATCTA
* * *
243343 CTCCACTGTAACCTT-AGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAA-CTTCAGGGAGATAAGATCTGAATTCTTCAATCTA
** * ** *
243384 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGAT-CTGAATTCTTCAATCTA
* * * *
243428 CTTCACTGTAACTTCAGGGAGATAGGA--T-AGTGTCTTCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* * * *
243471 CTCCGCTGTAATCTT-AGGGAGATAAGATCT--CTGGCTTCAATCTG
1 CTCCACTGTAA-CTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* * * *
243515 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCAATCTA
** * ** *
243556 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGAT-CTGAATTCTTCAATCTA
* * * * *
243600 CTTCACTGTAACTTCAGGGAGATAGGA--T-AGTGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* ** ** *
243643 CTTCGTTGTAA-TCTCAGGGAGATAAGATCTCG--GGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCT-GAATTCTTCAATCTA
* * * **
243687 CTCCACTGTAACATCAGGGAGATAAGACCTGAAATTTTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG-AATTCTTCAATCTA
* * * *
243733 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCAATCTA
** * ** *
243774 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGAT-CTGAATTCTTCAATCTA
*
243818 CTTCACTGTAACTTCAGGGAGATA
1 CTCCACTGTAACTTCAGGGAGATA
243842 GGATAGTGTC
Statistics
Matches: 1581, Mismatches: 350, Indels: 320
0.70 0.16 0.14
Matches are distributed among these distances:
40 15 0.01
41 295 0.19
42 38 0.02
43 229 0.14
44 582 0.37
45 34 0.02
46 304 0.19
47 15 0.01
48 4 0.00
49 4 0.00
50 4 0.00
53 4 0.00
54 53 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
CTCCACTGTAACTTCAGGGAGATAAGATCTGAATTCTTCAATCTA
Found at i:242268 original size:87 final size:85
Alignment explanation
Indices: 242199--243719 Score: 524
Period size: 87 Copynumber: 17.4 Consensus size: 85
242189 CTTCGGTCTA
**
242199 CTCCACTGTAACCTTAGGGAGATAAGACCTG-ATGCGATCTACTTTGCTGTAACTTCAGAGAGAT
1 CTCCACTGTAACCTTAGGGAGATAAGACCTGAATGCGATCTACTCCGCTGTAACTTCAGAGAGAT
242263 AAGATCCTTTATT-TT-AATAC-G
66 AAGAT-C--TATTCTTCAAT-CTG
* ** ** * *
242284 CTCCACTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAATCTT-AGGGA
1 CTCCACTGTAACCTT-AGGGAGATAAGA-CCTGAATGCGATCTACTCCGCTGTAA-CTTCAGAGA
* *
242347 GATAAGATCTCTGGCTTCAATCTG
63 GATAAGATCTAT-TCTTCAATCTG
* **
242371 CTCCACTGTAACCTCAGGGAGATAAGACCTG-ATGCGATCTACTTTGCTGTAACTTCAGAGAGAT
1 CTCCACTGTAACCTTAGGGAGATAAGACCTGAATGCGATCTACTCCGCTGTAACTTCAGAGAGAT
242435 AAGATCCTTTATT-TT-AATAC-G
66 AAGAT-C--TATTCTTCAAT-CTG
* ** ** * * *
242456 CTCCACTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAA-TCTCAGGGA
1 CTCCACTGTAACCTT-AGGGAGATAAGA-CCTGAATGCGATCTACTCCGCTGTAACT-TCAGAGA
***
242519 GATAAGATCTCGGGCTTCAATCTG
63 GATAAGATCT-ATTCTTCAATCTG
* * * * * * * *
242543 CTCCACTGTAACATCAGGGAGATAAGATCTGAAATTTTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCACTGTAACCTTAGGGAGATAAGACCTG-AA---TGCGATCTACTCCGCTGTAACTTCAGAG
** *
242608 AGATAAGATCTGAAATTCTTCGGTCTA
62 AGATAAGATCT---ATTCTTCAATCTG
**
242635 CTCCACTGTAACCTTAGGGAGATAAGACCTG-ATGCGATCTACTTTGCTGTAACTTCAGAGAGAT
1 CTCCACTGTAACCTTAGGGAGATAAGACCTGAATGCGATCTACTCCGCTGTAACTTCAGAGAGAT
242699 AAGATCCTTTATT-TT-AATAC-G
66 AAGAT-C--TATTCTTCAAT-CTG
* ** ** * *
242720 CTCCACTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAATCTT-AGGGA
1 CTCCACTGTAACCTT-AGGGAGATAAGA-CCTGAATGCGATCTACTCCGCTGTAA-CTTCAGAGA
* *
242783 GATAAGATCTCTGGCTTCAATCTG
63 GATAAGATCTAT-TCTTCAATCTG
* * * * * ** * *
242807 CCCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCATTGTAACCTCAGGG
1 CTCCACTGTAACCTTAGGGAGATAAGACCTG-AA---TGCGATCTACTCCGCTGTAACTTCAGAG
* * * *
242872 AGATAAGACCTGA---TGCGATCTA
62 AGATAAGATCT-ATTCTTCAATCTG
** * * * *** ** * * *
242894 CTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTTCACTGTAACTTCAGGGA
1 CTCCACTGTAACCTT-AGGGAGATAAGA-CC-TGAATGCGATCTACTCCGCTGTAACTTCAGAGA
* *
242958 GATAGGA--TAGTGTCTTCGATCTG
63 GATAAGATCTA-T-TCTTCAATCTG
* ** * * * * * * * * *
242981 CTTCGTTGTAATCTCAGGGAGATAGGATTACT-ATCTTCAATCTGCTCCGCTGTAA-TCTCAGGG
1 CTCCACTGTAACCTTAGGGAGATAAGA--CCTGA-ATGCGATCTACTCCGCTGTAACT-TCAGAG
* * * *
243044 AAATAAGATCTCTGGCTTCAATCTA
62 AGATAAGATCTAT-TCTTCAATCTG
* * * * * * *
243069 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCACTGTAACCTTAGGGAGATAAGACCTG-AA---TGCGATCTACTCCGCTGTAACTTCAGAG
* * * *
243134 AGATAAGACCTGATGCGATCTATTCTG
62 AGATAAGATCT-ATTC-TTC-AATCTG
* * *** * * *
243161 CT---C--TAA-CTTCAGAGAGATAAGATCCTTGATTTTAATCCACTCCACTATAACTTCAG-GA
1 CTCCACTGTAACCTT-AGGGAGATAAGA-CC-TGAATGCGATCTACTCCGCTGTAACTTCAGAG-
* *
243219 AGATAGGAT-TATCGGCTTCAATCTGATGTG
62 AGATAAGATCTAT--TCTTCAATC-----TG
* * * ** * * * * *
243249 ATCTACTCTACTATAA-CTTCAGAGAGATAAGATCTTGGCTTCAATCTGCTCCACTGTAACCTCA
1 --CT-C-C-ACTGTAACCTT-AGGGAGATAAGA-CCTGAATGCGATCTACTCCGCTGTAACTTCA
* ** *
243313 -AGGGGATAAGATCTGAAATTCTTCGGTCTA
59 GA-GAGATAAGATCT---ATTCTTCAATCTG
*
243343 CTCCACTGTAACCTTAGGGAGATAAGACCTG-ATGCGATCTACTCTGCTGTAACTTCAGAGAGAT
1 CTCCACTGTAACCTTAGGGAGATAAGACCTGAATGCGATCTACTCCGCTGTAACTTCAGAGAGAT
243407 AAGATCCTTTATT-TT-AATCTG
66 AAGAT-C--TATTCTTCAATCTG
* * ** ** * *
243428 CTTCACTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAATCTT-AGGGA
1 CTCCACTGTAACCTT-AGGGAGATAAGA-CCTGAATGCGATCTACTCCGCTGTAA-CTTCAGAGA
* *
243491 GATAAGATCTCTGGCTTCAATCTG
63 GATAAGATCTAT-TCTTCAATCTG
* *
243515 CTCCACTGTAACCTCAGGGAGATAAGACCTG-ATGCGATCTACTCTGCTGTAACTTCAGAGAGAT
1 CTCCACTGTAACCTTAGGGAGATAAGACCTGAATGCGATCTACTCCGCTGTAACTTCAGAGAGAT
243579 AAGATCCTTTATT-TT-AATCTG
66 AAGAT-C--TATTCTTCAATCTG
* * ** ** * * * * *
243600 CTTCACTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTTCGTTGTAA-TCTCAGGGA
1 CTCCACTGTAACCTT-AGGGAGATAAGA-CCTGAATGCGATCTACTCCGCTGTAACT-TCAGAGA
***
243663 GATAAGATCTCGGGCTTCAATCTG
63 GATAAGATCT-ATTCTTCAATCTG
* *
243687 CTCCACTGTAACATCAGGGAGATAAGACCTGAA
1 CTCCACTGTAACCTTAGGGAGATAAGACCTGAA
243720 ATTTTTCGGT
Statistics
Matches: 1080, Mismatches: 232, Indels: 247
0.69 0.15 0.16
Matches are distributed among these distances:
82 1 0.00
83 6 0.01
84 31 0.03
85 237 0.22
86 60 0.06
87 435 0.40
88 70 0.06
89 24 0.02
90 107 0.10
91 4 0.00
92 43 0.04
94 1 0.00
96 1 0.00
97 29 0.03
98 23 0.02
99 6 0.01
101 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (85 bp):
CTCCACTGTAACCTTAGGGAGATAAGACCTGAATGCGATCTACTCCGCTGTAACTTCAGAGAGAT
AAGATCTATTCTTCAATCTG
Found at i:242406 original size:172 final size:172
Alignment explanation
Indices: 242199--242574 Score: 698
Period size: 172 Copynumber: 2.2 Consensus size: 172
242189 CTTCGGTCTA
*
242199 CTCCACTGTAACCTTAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATA
242264 AGATCCTTTATTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACT
66 AGATCCTTTATTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACT
* *
242329 CCGCTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTG
131 CCGCTGTAATCTCAGGGAGATAAGATCTCGGGCTTCAATCTG
242371 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATA
*
242436 AGATCCTTTATTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCT
66 AGATCCTTTATTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACT
242501 CCGCTGTAATCTCAGGGAGATAAGATCTCGGGCTTCAATCTG
131 CCGCTGTAATCTCAGGGAGATAAGATCTCGGGCTTCAATCTG
* *
242543 CTCCACTGTAACATCAGGGAGATAAGATCTGA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGA
242575 AATTTTTCGG
Statistics
Matches: 198, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 198 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (172 bp):
CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACT
CCGCTGTAATCTCAGGGAGATAAGATCTCGGGCTTCAATCTG
Found at i:242674 original size:436 final size:436
Alignment explanation
Indices: 241693--243802 Score: 1669
Period size: 436 Copynumber: 4.8 Consensus size: 436
241683 ACACGATTGG
* *
241693 TATTTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCAC
1 TATTTTTCGTCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCAC
* * *
241758 TGTAACCTCAGGGAGATAAGGCCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCC
66 TGTAACCTTAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCC
* * * * * *
241823 TTTATTTTAATCCGCTCCACTGTAA-TCTCAGGGAGATAGGATTACTATCTTCAACCTGCTCCGC
131 TTTATTTTAATACGCTCCACTGTAACT-TCAGGGAGATAGGA-TAGTGTCTTCGATCTACTCCGC
* * * *
241887 TGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACATCAGGGAGATAAGA
194 TGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
* * * * **
241952 TCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTG
259 TCTG--A-T-TGCGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCAATCTACTCCA
** * * *
242017 CTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCCACTCCACTATAACTTCAGGAAGGTAGG
320 CTGTAACTTCAGAGAGATAAGATCAGTGATTTCAATCCACTCCACTATAACTTCAGGAAGATAAG
*
242082 ATTATCGGCTTCAATCTGATGTGATCTACTCTACTATAACTTCAGAGAGATAAGATC
385 ATTATCGGCTTCAATC----GTGA-CTACTCTACTATAACATCAGAGAGATAAGATC
** *
242139 T-TGGCTTCAATCTGCTCCACTGTAACCTCAAGGG-GATAAGATCTGAAATTCTTCGGTCTACTC
1 TAT-TTTTC-GTCTGCTCCACTGTAACCTC-AGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
242202 CACTGTAACCTTAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGA
63 CACTGTAACCTTAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGA
242267 TCCTTTATTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCG
128 TCCTTTATTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCG
242332 CTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
193 CTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
* *** * * ** *
242397 ACCTGA-TGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATAC-GCTCC
258 ATCTGATTGCGATCTACTCCACTGTAACCTCAGAGAGATAAGA-CC-TGA-TGCAAT-CTACTCC
* * * ** * * *
242460 ACTGTAACTTCAGGGAGATAGGAT-AGTG-TCTTCGATCTGCTCCGCTGTAA-TCTCAGGGAGAT
319 ACTGTAACTTCAGAGAGATAAGATCAGTGAT-TTCAATCCACTCCACTATAACT-TCAGGAAGAT
* * *
242522 AAGA-TCTCGGGCTTCAATC-TG-CT-C-C-ACTGTAACATCAGGGAGATAAGATC
382 AAGATTATC-GGCTTCAATCGTGACTACTCTACTATAACATCAGAGAGATAAGATC
*
242572 TGAAATTTTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACT
1 T---ATTTTTC-GTCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACT
242637 CCACTGTAACCTTAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAG
62 CCACTGTAACCTTAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAG
242702 ATCCTTTATTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCC
127 ATCCTTTATTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCC
*
242767 GCTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCCCCACTGTAACCTCAGGGAGATAA
192 GCTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
* * * * *
242832 GATCTGAAATTCTTCGGTCTACTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTC
257 GATCTG--A-T-TGCGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCAATCTACTC
** ** * * * * * *
242897 TGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTTCACTGTAACTTCAGGGAGATA
318 CACTGTAACTTCAGAGAGATAAGATCAGTGATTTCAATCCACTCCACTATAACTTCAGGAAGATA
* * * * * *
242962 GGA-TAGT-GTCTTCGATC-TG-CT--TCGT--TGTAATC-TCAGGGAGATAGGAT-
383 AGATTA-TCGGCTTCAATCGTGACTACTC-TACTATAA-CATCAGAGAGATAAGATC
* * * * * * * **
243009 TACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAAATAAGATCT---CTGGCTTCAATCTACT
1 TA-T-TTTTC-GTCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACT
* * * * *** * *
243071 CCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTACTCCACTGTAACCTCAGGGAG
62 CCACTGTAACCTTAGGGAGATAAGACCTG--A---TGCGATCTACTTTGCTGTAACTTCAGAGAG
* *** ** ** * * * ** **
243136 ATAAGA-CC-TGA-TGCGAT-CTATTCTGCTCTAACTTCAGAGAGATAAGATCCTTGAT-TTTAA
122 ATAAGATCCTTTATTTTAATAC-GCTCCACTGTAACTTCAGGGAGATAGGAT-AGTG-TCTTCGA
* * * * * *
243196 TCCACTCCACTATAA-CTTCAGGAAGATAGGAT-TATCGGCTTCAATCTGATGTGATCTACTCTA
184 TCTACTCCGCTGTAATCTT-AGGGAGATAAGATCTCT-GGCTTCAATC-----TG--CT-C-C-A
* * * * * * *
243259 CTATAACTTCAGAGAGATAAGATCTTGGCTT-CAATCTGCTCCACTGTAACCTCA-AGGGGATAA
237 CTGTAACCTCAGGGAGATAAGATC-T-GATTGCGATCTACTCCACTGTAACCTCAGA-GAGATAA
* * ** * * * * *
243322 GATCTGAAATTCTTCGGTCTACTCCACTGTAACCTT-AGGGAGATAAGA-C-CTGA-TGCGATCT
299 GACCTG--A---TGCAATCTACTCCACTGTAA-CTTCAGAGAGATAAGATCAGTGATTTCAATCC
** * ** **** * * *
243383 ACTCTGCTGTAACTTCA-GAGAGATAAGATCCTTTATTTTAATC-TG-CT--TC-ACTGTAACTT
358 ACTCCACTATAACTTCAGGA-AGATAAGATTATCGGCTTCAATCGTGACTACTCTACTATAACAT
* *
243442 CAGGGAGATAGGA--
422 CAGAGAGATAAGATC
* * * * * * * ** *
243455 TAGTGTCTTCGATCTACTCCGCTGTAATCTTAGGGAGATAAGATCT---CTGGCTTCAATCTGCT
1 TA-T-TTTTCG-TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACT
* *
243517 CCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAG
62 CCACTGTAACCTTAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAG
* * *
243582 ATCCTTTATTTTAAT-CTGCTTCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTT
127 ATCCTTTATTTTAATAC-GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTC
* * * *
243646 CGTTGTAATCTCAGGGAGATAAGATCTCGGGCTTCAATCTGCTCCACTGTAACATCAGGGAGATA
191 CGCTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATA
* * * * *
243711 AGACCTGAAATTTTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACT
256 AGATCTG--A--TTGCGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCAATCTACT
**
243776 CTGCTGTAACTTCAGAGAGATAAGATC
317 CCACTGTAACTTCAGAGAGATAAGATC
243803 CTTTATTTTA
Statistics
Matches: 1360, Mismatches: 221, Indels: 180
0.77 0.13 0.10
Matches are distributed among these distances:
430 3 0.00
431 28 0.02
432 2 0.00
433 45 0.03
434 41 0.03
435 10 0.01
436 348 0.26
437 43 0.03
438 67 0.05
439 62 0.05
440 5 0.00
441 87 0.06
442 12 0.01
443 76 0.06
444 89 0.07
445 5 0.00
446 196 0.14
447 203 0.15
448 7 0.01
449 28 0.02
450 3 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (436 bp):
TATTTTTCGTCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCAC
TGTAACCTTAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCC
TTTATTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTG
TAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATC
TGATTGCGATCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCAATCTACTCCACTGTAA
CTTCAGAGAGATAAGATCAGTGATTTCAATCCACTCCACTATAACTTCAGGAAGATAAGATTATC
GGCTTCAATCGTGACTACTCTACTATAACATCAGAGAGATAAGATC
Found at i:242686 original size:264 final size:260
Alignment explanation
Indices: 242318--243155 Score: 1094
Period size: 264 Copynumber: 3.2 Consensus size: 260
242308 GGATAGTGTC
* * * * ** * * *
242318 TTCGATCTACTCCGCTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAAC
1 TTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CTGAATGCGATCTACTCCACTGTAAC
*
242383 CTCAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATT
64 CTTAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATT
242448 TTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCT
129 TTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCT
* *
242513 CAGGGAGATAAGATCTCGGGCTTCAATCTGCTCCACTGTAACATCAGGGAGATAAGATCTGAAAT
194 CAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
242578 TT
259 TT
* * *
242580 TTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTA
1 TTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-AA---TGCGATCTACTCCACTGTA
242645 ACCTTAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTA
62 ACCTTAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTA
*
242710 TTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAAT
127 TTTTAATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
* *
242775 CTTAGGGAGATAAGATCTCTGGCTTCAATCTGCCCCACTGTAACCTCAGGGAGATAAGATCTGAA
192 CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAA
*
242840 ATTC
257 ATTT
* **
242844 TTCGGTCTACTCCATTGTAACCTCAGGGAGATAAGACCTG-ATGCGATCTACTCTGCTGTAA-CT
1 TTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGAATGCGATCTACTCCACTGTAACCT
* * *** ** ** * * ** *
242907 TCAGAGAGATAAGATCCTTTATTTTAATCCGCTTCACTGTAACTTCAGGGAGATAGGATAGTGT-
66 T-AGGGAGATAAGA-CC-TGA-TGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTA
* ** * ** * * *
242971 CTTCGAT-CTGCTTCGTTGTAA-TCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGT
127 TTTTAATAC-GCTCCACTGTAACT-TCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTCCGCTGT
* *
243034 AATCTCAGGGAAATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATCT
189 AATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
243099 GAAATTT
254 GAAATTT
243106 TTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-ATGCGATCTA
1 TTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGAATGCGATCTA
243156 TTCTGCTCTA
Statistics
Matches: 512, Mismatches: 53, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
258 3 0.01
259 27 0.05
260 7 0.01
261 29 0.06
262 200 0.39
264 246 0.48
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (260 bp):
TTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGAATGCGATCTACTCCACTGTAACCT
TAGGGAGATAAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTT
AATACGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCA
GGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTT
Done.