Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1276
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: 176520
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:2947 original size:13 final size:13
Alignment explanation
Indices: 2929--3018 Score: 72
Period size: 13 Copynumber: 6.0 Consensus size: 13
2919 CATATTTTTG
2929 TGTATCGATACAT
1 TGTATCGATACAT
2942 TGTATCGATACATACATT
1 TGTATCG----ATACA-T
2960 GTGTATCGATACAT
1 -TGTATCGATACAT
2974 TGTATCGATACATACATT
1 TGTATCG----ATACA-T
2992 GTGTATCGATACAT
1 -TGTATCGATACAT
3006 TGTATCGATACAT
1 TGTATCGATACAT
3019 ACATTGTGTA
Statistics
Matches: 65, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 27 0.42
14 2 0.03
15 10 0.15
17 10 0.15
18 2 0.03
19 14 0.22
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2966 original size:19 final size:19
Alignment explanation
Indices: 2942--3036 Score: 106
Period size: 19 Copynumber: 5.6 Consensus size: 19
2932 ATCGATACAT
2942 TGTATCGATACATACATTG
1 TGTATCGATACATACATTG
2961 TGTATCG----ATACA-T-
1 TGTATCGATACATACATTG
2974 TGTATCGATACATACATTG
1 TGTATCGATACATACATTG
2993 TGTATCG----ATACA-T-
1 TGTATCGATACATACATTG
3006 TGTATCGATACATACATTG
1 TGTATCGATACATACATTG
3025 TGTATCGATACA
1 TGTATCGATACA
3037 AGTTTGGCTA
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 14 0.22
14 2 0.03
15 10 0.16
17 10 0.16
18 2 0.03
19 26 0.41
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATACATTG
Found at i:2967 original size:32 final size:32
Alignment explanation
Indices: 2909--3036 Score: 229
Period size: 32 Copynumber: 4.0 Consensus size: 32
2899 TACAAGCCAA
**
2909 TGTATCGATACATATTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CATTGTGTATCGATACAT
2942 TGTATCGATACATACATTGTGTATCGATACAT
1 TGTATCGATACATACATTGTGTATCGATACAT
2974 TGTATCGATACATACATTGTGTATCGATACAT
1 TGTATCGATACATACATTGTGTATCGATACAT
3006 TGTATCGATACATACATTGTGTATCGATACA
1 TGTATCGATACATACATTGTGTATCGATACA
3037 AGTTTGGCTA
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
32 79 0.85
33 14 0.15
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATACATTGTGTATCGATACAT
Found at i:4994 original size:13 final size:13
Alignment explanation
Indices: 4976--5000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4966 ACTGAAGTAA
4976 TGTATCGATACAT
1 TGTATCGATACAT
4989 TGTATCGATACA
1 TGTATCGATACA
5001 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5600 original size:23 final size:24
Alignment explanation
Indices: 5555--5601 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
5545 CAAAGAATTG
*
5555 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
5579 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
5602 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:8725 original size:13 final size:13
Alignment explanation
Indices: 8707--8732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8697 CATATTTTTG
8707 TGTATCGATACAT
1 TGTATCGATACAT
8720 TGTATCGATACAT
1 TGTATCGATACAT
8733 ACATTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8731 original size:33 final size:32
Alignment explanation
Indices: 8687--8750 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
8677 TACAAGCCAA
**
8687 TGTATCAATACATATTTTTGTGTATCGATACAT
1 TGTATCAATACATA-CATTGTGTATCGATACAT
*
8720 TGTATCGATACATACATTGTGTATCGATACA
1 TGTATCAATACATACATTGTGTATCGATACA
8751 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (32 bp):
TGTATCAATACATACATTGTGTATCGATACAT
Found at i:10528 original size:12 final size:13
Alignment explanation
Indices: 10492--10533 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
10482 CCAATAGTAT
10492 AAGTATATAAAAA
1 AAGTATATAAAAA
*
10505 ACAGTATCTAAAAA
1 A-AGTATATAAAAA
10519 AAGTA-ATAAACAA
1 AAGTATATAAA-AA
10532 AA
1 AA
10534 TGTAGTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 4 0.16
13 9 0.36
14 12 0.48
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (13 bp):
AAGTATATAAAAA
Found at i:12719 original size:2 final size:2
Alignment explanation
Indices: 12712--12787 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
12702 CTCTTGAAGC
12712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12754 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12788 TGATTTGATA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13109 original size:17 final size:17
Alignment explanation
Indices: 13087--13119 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13077 TCAAATTAAA
13087 AATAAAATTTTTAAAAT
1 AATAAAATTTTTAAAAT
*
13104 AATAAATTTTTTAAAA
1 AATAAAATTTTTAAAA
13120 AAAAGGTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAAAATTTTTAAAAT
Found at i:13110 original size:21 final size:21
Alignment explanation
Indices: 13071--13110 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13061 TAAAATTTTT
*
13071 AATTTTTCAAATTAAAAATAA
1 AATTTTTCAAAATAAAAATAA
13092 AATTTTT-AAAATAATAAAT
1 AATTTTTCAAAATAA-AAAT
13111 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTTTTCAAAATAAAAATAA
Found at i:13365 original size:12 final size:12
Alignment explanation
Indices: 13348--13391 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
13338 TAAAAATATT
*
13348 TTTATATTAATA
1 TTTATATTAAAA
13360 TTTATATTAAAA
1 TTTATATTAAAA
* *
13372 TTTAAATAAAAA
1 TTTATATTAAAA
13384 TTT-TATTA
1 TTTATATTA
13392 TTGAAATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 3 0.11
12 24 0.89
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTATATTAAAA
Found at i:14323 original size:16 final size:18
Alignment explanation
Indices: 14304--14341 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
14294 ATTTTACTGG
*
14304 AAATAACTTTTA-AAAA-
1 AAATAAATTTTAGAAAAT
14320 AAATAAATTTTAGAAAAT
1 AAATAAATTTTAGAAAAT
14338 AAAT
1 AAAT
14342 TTATTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 4 0.21
18 4 0.21
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATAAATTTTAGAAAAT
Found at i:14684 original size:21 final size:22
Alignment explanation
Indices: 14659--14709 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
14649 ATAAACACCA
*
14659 AAAAATATAAAAAAAT-ATTTT
1 AAAAATATAAAAAAATAATTCT
*
14680 AAAAATATAAACAAATGAATTCT
1 AAAAATATAAAAAAAT-AATTCT
14703 AAAAATA
1 AAAAATA
14710 AGTTATTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 15 0.58
23 11 0.42
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAAATATAAAAAAATAATTCT
Found at i:19629 original size:15 final size:15
Alignment explanation
Indices: 19609--19638 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19599 TGACTCGAAT
19609 CCAAAATAATTTGAA
1 CCAAAATAATTTGAA
19624 CCAAAATAATTTGAA
1 CCAAAATAATTTGAA
19639 AAAATACGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (15 bp):
CCAAAATAATTTGAA
Found at i:20460 original size:21 final size:22
Alignment explanation
Indices: 20420--20461 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20410 GTTAAGTATA
* *
20420 ATTGTTTTCAAGGCTTAAAATG
1 ATTGATTTCAAAGCTTAAAATG
20442 ATTGATTTCAAAG-TTAAAAT
1 ATTGATTTCAAAGCTTAAAAT
20462 ATATCAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (22 bp):
ATTGATTTCAAAGCTTAAAATG
Found at i:20668 original size:19 final size:19
Alignment explanation
Indices: 20644--20691 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
20634 TAGCCAAACT
*
20644 TGTATCGATACACAAAGTA
1 TGTATCAATACACAAAGTA
20663 TGTATCAATACACAAAGTA
1 TGTATCAATACACAAAGTA
20682 TGTATCAATA
1 TGTATCAATA
20692 TAATGTATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (19 bp):
TGTATCAATACACAAAGTA
Found at i:20726 original size:33 final size:32
Alignment explanation
Indices: 20662--20726 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
20652 TACACAAAGT
**
20662 ATGTATCAATACACAAAGTATGTATCAATATA
1 ATGTATCAATACACAAAAAATGTATCAATATA
* *
20694 ATGTATCGATACACAAAAAATTGTATCGATATA
1 ATGTATCAATACACAAAAAA-TGTATCAATATA
20727 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (32 bp):
ATGTATCAATACACAAAAAATGTATCAATATA
Found at i:24152 original size:15 final size:15
Alignment explanation
Indices: 24132--24162 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24122 TAAAAATGTC
*
24132 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
24147 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
24162 C
1 C
24163 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:26259 original size:13 final size:13
Alignment explanation
Indices: 26241--26278 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
26231 CATTTTTCTT
26241 TGTATCGATACAA
1 TGTATCGATACAA
*
26254 TGTATCGATACAT
1 TGTATCGATACAA
26267 TGTATCGATACA
1 TGTATCGATACA
26279 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:26442 original size:20 final size:20
Alignment explanation
Indices: 26399--26444 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
26389 AAATCTTTTG
26399 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
26420 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
26440 CAAAA
1 CAAAA
26445 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:28203 original size:47 final size:47
Alignment explanation
Indices: 28134--28229 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
28124 GGGAGAATGC
*
28134 GTAAATTTGCTAAAATTACCTTATTAAGGGGGAGAATGTACAAACTT
1 GTAAATTTGCTAAAATTACCTTATTAAGAGGGAGAATGTACAAACTT
28181 GTAAATTTGCTAAAATTACCTTATTAAGAGGGAGAATGTACAAACTT
1 GTAAATTTGCTAAAATTACCTTATTAAGAGGGAGAATGTACAAACTT
28228 GT
1 GT
28230 TAAAATTATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (47 bp):
GTAAATTTGCTAAAATTACCTTATTAAGAGGGAGAATGTACAAACTT
Found at i:32860 original size:20 final size:20
Alignment explanation
Indices: 32808--32889 Score: 112
Period size: 21 Copynumber: 4.0 Consensus size: 20
32798 AAAAAAAAAA
32808 ATTC-CAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
***
32827 ATTTGTAGAATGTATCGATAC
1 ATTCACA-AATGTATCGATAC
32848 ATTCACAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
32868 ATTCTACAAATGTATCGATAC
1 ATTC-ACAAATGTATCGATAC
32889 A
1 A
32890 GGGTCCCAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.05
20 18 0.33
21 34 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (20 bp):
ATTCACAAATGTATCGATAC
Found at i:32869 original size:41 final size:40
Alignment explanation
Indices: 32808--32889 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
32798 AAAAAAAAAA
* *
32808 ATTCCAAATGTATCGATACATTTGTA-GAATGTATCGATAC
1 ATTCCAAATGTATCGATACA-TTCTACAAATGTATCGATAC
32848 ATTCACAAATGTATCGATACATTCTACAAATGTATCGATAC
1 ATTC-CAAATGTATCGATACATTCTACAAATGTATCGATAC
32889 A
1 A
32890 GGGTCCCAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (40 bp):
ATTCCAAATGTATCGATACATTCTACAAATGTATCGATAC
Found at i:32949 original size:19 final size:19
Alignment explanation
Indices: 32925--32992 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
32915 AATTCAACGA
32925 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
32944 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
32959 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
32976 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
32993 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:32963 original size:32 final size:32
Alignment explanation
Indices: 32927--32989 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
32917 TTCAACGATT
*
32927 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
32959 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
32990 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:32964 original size:13 final size:13
Alignment explanation
Indices: 32946--32970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32936 ACATAAGTTT
32946 TGTATCGATACAA
1 TGTATCGATACAA
32959 TGTATCGATACA
1 TGTATCGATACA
32971 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:33050 original size:13 final size:13
Alignment explanation
Indices: 33032--33057 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33022 CATTTTTCTG
33032 TGTATCGATACAT
1 TGTATCGATACAT
33045 TGTATCGATACAT
1 TGTATCGATACAT
33058 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:33054 original size:33 final size:33
Alignment explanation
Indices: 33012--33078 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
33002 GCCAAGGAAA
***
33012 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
33045 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
33078 T
1 T
33079 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:35592 original size:28 final size:27
Alignment explanation
Indices: 35522--35595 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
35512 TTTCTTCACA
35522 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
35549 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
35575 TTCGAGGGGATACTCCAACCC
1 ATC--GGGGATACTCCAACCC
35596 TGATTTTATC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 4 0.09
27 23 0.53
28 16 0.37
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:35665 original size:52 final size:53
Alignment explanation
Indices: 35580--35749 Score: 147
Period size: 52 Copynumber: 3.3 Consensus size: 53
35570 TTATTTTCGA
* * *
35580 GGGGATACTCCAAC-CCTGATT-T-TATCGCTAAAACACTAATTTTTCCTCAATC
1 GGGGATACTCCAACTCC-GATTCTATTTC-CAAAAACACCAATTTTTCCTCAATC
* * * * *
35632 GGGGATACTCCAA-TCCCGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACT-CCGATTCTATTTCCAAAAACACCAATTTTTCC-TCAATC
* * *
35684 GGGGATATTCCAACTCCGATTCTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGATTCTATTTCCAAAAACACCAATTTTTCCTCAATC
*
35736 GAGGATACTCCAAC
1 GGGGATACTCCAAC
35750 CTCGTTATTT
Statistics
Matches: 94, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
51 6 0.06
52 68 0.72
53 14 0.15
54 6 0.06
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
GGGGATACTCCAACTCCGATTCTATTTCCAAAAACACCAATTTTTCCTCAATC
Found at i:35769 original size:28 final size:28
Alignment explanation
Indices: 35733--35809 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
35723 ATTTTTCACA
* * *
35733 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
35761 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
35789 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
35810 ATTTTTTTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:38954 original size:33 final size:32
Alignment explanation
Indices: 38890--38954 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
38880 TTTGAAGCAA
*
38890 TGTATCGATACAATTCATCATTTATCGATACAT
1 TGTATCGATACAATTCA-CATGTATCGATACAT
*
38923 TGTATCGATACAATATGC-CATGTATCTATACA
1 TGTATCGATACAAT-T-CACATGTATCGATACA
38955 AATAGTGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAATTCACATGTATCGATACAT
Found at i:39050 original size:32 final size:33
Alignment explanation
Indices: 39006--39067 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
38996 CAATTGTCCA
*
39006 TGTATCAATACAATG-A-ACATGTATCGATAGAT
1 TGTATCAATACAAAGCATA-ATGTATCGATAGAT
*
39038 TGTATCATTACAAAGCATAATGTATCGATA
1 TGTATCAATACAAAGCATAATGTATCGATA
39068 CATCTGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 13 0.50
33 12 0.46
34 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (33 bp):
TGTATCAATACAAAGCATAATGTATCGATAGAT
Found at i:39649 original size:22 final size:22
Alignment explanation
Indices: 39624--39670 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
39614 GGCTTTCGTT
*
39624 AAAAAATTT-T-CCCTTTGATA
1 AAAAAATTTCTCCCCCTTGATA
39644 AAAAAATTTCTCCCCCTTGATA
1 AAAAAATTTCTCCCCCTTGATA
39666 AAAAA
1 AAAAA
39671 TTTATTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
21 1 0.04
22 14 0.58
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (22 bp):
AAAAAATTTCTCCCCCTTGATA
Found at i:39671 original size:21 final size:19
Alignment explanation
Indices: 39623--39673 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 19
39613 AGGCTTTCGT
*
39623 TAAAAAATTTTCCCTTTGA
1 TAAAAAATTTTCCCCTTGA
39642 TAAAAAAATTTCTCCCCCTTGA
1 T-AAAAAATTT-T-CCCCTTGA
39664 TAAAAAATTT
1 TAAAAAATTT
39674 ATTTTCAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 9 0.32
21 10 0.36
22 8 0.29
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (19 bp):
TAAAAAATTTTCCCCTTGA
Found at i:39695 original size:24 final size:24
Alignment explanation
Indices: 39668--39715 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
39658 CCTTGATAAA
39668 AAATTTATTTTCAAAGCAATATTT
1 AAATTTATTTTCAAAGCAATATTT
39692 AAATTTATTTTCAAAGCAATATTT
1 AAATTTATTTTCAAAGCAATATTT
39716 CTTTCCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (24 bp):
AAATTTATTTTCAAAGCAATATTT
Found at i:39974 original size:46 final size:46
Alignment explanation
Indices: 39902--40038 Score: 247
Period size: 46 Copynumber: 3.0 Consensus size: 46
39892 GACTAATCCT
*
39902 AATATGAAGACTAAATCTAAGACTCATCGTCACTAGAGTTAGTCAC
1 AATACGAAGACTAAATCTAAGACTCATCGTCACTAGAGTTAGTCAC
*
39948 AATACGAAGACTAAATCTAAGACTCATTGTCACTAGAGTTAGTCAC
1 AATACGAAGACTAAATCTAAGACTCATCGTCACTAGAGTTAGTCAC
*
39994 AATACGAAGACTAAATCTAAGACTCATCGCCACTAGAGTTAGTCA
1 AATACGAAGACTAAATCTAAGACTCATCGTCACTAGAGTTAGTCA
40039 GAGTAGGAGA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.25
Consensus pattern (46 bp):
AATACGAAGACTAAATCTAAGACTCATCGTCACTAGAGTTAGTCAC
Found at i:41536 original size:22 final size:20
Alignment explanation
Indices: 41491--41565 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 20
41481 TTTGTTAATG
*
41491 ATTTTGATGAAAAATGAAGT
1 ATTTTGATGAAAAATGAAGA
41511 ATTTTGAAGTGAAAAAT-AAGA
1 ATTTTG-A-TGAAAAATGAAGA
* *
41532 AATTTGA--AAAAGATTTGATGA
1 ATTTTGATGAAAA-A--TGAAGA
41553 ATTTTGATGAAAA
1 ATTTTGATGAAAA
41566 GATGTTATGG
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
20 8 0.19
21 18 0.42
22 8 0.19
23 4 0.09
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (20 bp):
ATTTTGATGAAAAATGAAGA
Found at i:41537 original size:21 final size:22
Alignment explanation
Indices: 41498--41539 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
41488 ATGATTTTGA
* *
41498 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
41520 TGAAAAAT-AAGAAATTTGAA
1 TGAAAAATGAAGAAATTTGAA
41540 AAAGATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:47896 original size:82 final size:82
Alignment explanation
Indices: 47800--47978 Score: 304
Period size: 82 Copynumber: 2.2 Consensus size: 82
47790 TACAATGTGC
* *
47800 CATGTATCGATACAAAAAGTGGTAGGGTAGCTATTGCCTGTTTCATATATCGATACAATTGTCCA
1 CATGTATCGATACAAAAAGTGGTAGGGTAGCTACTGCCAGTTTCATATATCGATACAATTGTCCA
47865 TATATCGATACAATAAA
66 TATATCGATACAATAAA
* *
47882 CATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAGTTTCATATATCGGTACAATTGTCCA
1 CATGTATCGATACAAAAAGTGGTAGGGTAGCTACTGCCAGTTTCATATATCGATACAATTGTCCA
* *
47947 TGTATCGATACAATGAA
66 TATATCGATACAATAAA
47964 CATGTATCGATACAA
1 CATGTATCGATACAA
47979 TGTATCGATA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 91 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (82 bp):
CATGTATCGATACAAAAAGTGGTAGGGTAGCTACTGCCAGTTTCATATATCGATACAATTGTCCA
TATATCGATACAATAAA
Found at i:47958 original size:20 final size:20
Alignment explanation
Indices: 47929--47979 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
47919 CAGTTTCATA
* **
47929 TATCGGTACAATTGTCCATG
1 TATCGATACAATTGAACATG
47949 TATCGATACAA-TGAACATG
1 TATCGATACAATTGAACATG
47968 TATCGATACAAT
1 TATCGATACAAT
47980 GTATCGATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
TATCGATACAATTGAACATG
Found at i:47983 original size:13 final size:13
Alignment explanation
Indices: 47965--47991 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47955 TACAATGAAC
47965 ATGTATCGATACA
1 ATGTATCGATACA
47978 ATGTATCGATACA
1 ATGTATCGATACA
47991 A
1 A
47992 AGCATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:54547 original size:20 final size:18
Alignment explanation
Indices: 54522--54574 Score: 88
Period size: 20 Copynumber: 2.8 Consensus size: 18
54512 AAAAGACAGA
54522 ATGTATCGATACATTCAT
1 ATGTATCGATACATTCAT
54540 ACATGTATCGATACATTCAT
1 --ATGTATCGATACATTCAT
54560 ATGTATCGATACATT
1 ATGTATCGATACATT
54575 AAAAAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 15 0.45
20 18 0.55
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (18 bp):
ATGTATCGATACATTCAT
Found at i:55616 original size:28 final size:28
Alignment explanation
Indices: 55572--55728 Score: 181
Period size: 28 Copynumber: 5.6 Consensus size: 28
55562 TAAAGAAGTT
* * * *
55572 TGCCACCAACTTGTGGGCTTTAAAAGGA
1 TGCCACTAACTTATGGGCTTCAAAAGGG
* * *
55600 TGCCAATGATTTATGGGCTTCGAAAA-GG
1 TGCCACTAACTTATGGGCTTC-AAAAGGG
*
55628 TGCCACTAACTTGTGGGCTTCAAAAGGG
1 TGCCACTAACTTATGGGCTTCAAAAGGG
*
55656 TGCCACTAACTTATGGGCTTCGAAAGGG
1 TGCCACTAACTTATGGGCTTCAAAAGGG
* * *
55684 TGCCACTGACTTGTGGGCTTCGAAAGGG
1 TGCCACTAACTTATGGGCTTCAAAAGGG
*
55712 TGCCACTAACTTGTGGG
1 TGCCACTAACTTATGGG
55729 GTGCCATTGA
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 4 0.04
28 103 0.93
29 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (28 bp):
TGCCACTAACTTATGGGCTTCAAAAGGG
Found at i:55639 original size:56 final size:55
Alignment explanation
Indices: 55580--55951 Score: 357
Period size: 56 Copynumber: 6.8 Consensus size: 55
55570 TTTGCCACCA
* * * * *
55580 ACTTGTGGGCTTTAAAAGGATGCCAATGATTTATGGGCTTCGAAAAGGTGCCACTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTG-AAAGGTGCCACTG
** * * *
55636 ACTTGTGGGCTTCAAAAGGGTGCCACTAACTTATGGGCTTCGAAAGGGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAA-GGTGCCACTG
* * * * *
55692 ACTTGTGGGCTTCGAAAGGGTGCCACTAAC-T-T--G---TG--GGGTGCCATTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAAGGTGCCACTG
* * * * *
55738 ACTTGTGGGCTTCGAAAGGATGCCGCTGACATGTGGGCTTTGAAAGGATGCCATTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAAGG-TGCCACTG
* * * *
55794 ACATGTGGGCTTTGAAAGGATGCCACTGACTTGTAGGCTTTGAAAGGAAGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAAGG-TGCCACTG
* * *
55850 ACTTGTGGGCTTTGAAAGGATGCCACTGACATATGGGATTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTG-AAAGGTGCCACTG
* * * *
55906 ACATGTGGGCTTTGAAAGGATGCCACTAACTTGTGAGCTTTGAAAG
1 ACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAAG
55952 TGAAAGCTCA
Statistics
Matches: 270, Mismatches: 34, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
46 36 0.13
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
52 1 0.00
53 2 0.01
54 1 0.00
55 10 0.04
56 212 0.79
57 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (55 bp):
ACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAAGGTGCCACTG
Found at i:55688 original size:84 final size:84
Alignment explanation
Indices: 55572--55728 Score: 233
Period size: 84 Copynumber: 1.9 Consensus size: 84
55562 TAAAGAAGTT
* * *
55572 TGCCACCAACTTGTGGGCTTTAAAAGGATGCCAATGATTTATGGGCTTCGAAAAGGTGCCACTAA
1 TGCCACCAACTTATGGGCTTCAAAAGGATGCCAATGACTTATGGGCTTCGAAAAGGTGCCACTAA
55637 CTTGTGGGCTTCAAAAGGG
66 CTTGTGGGCTTCAAAAGGG
* * * * * *
55656 TGCCACTAACTTATGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTAA
1 TGCCACCAACTTATGGGCTTCAAAAGGATGCCAATGACTTATGGGCTTCGAAAAGGTGCCACTAA
55721 CTTGTGGG
66 CTTGTGGG
55729 GTGCCATTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 64 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (84 bp):
TGCCACCAACTTATGGGCTTCAAAAGGATGCCAATGACTTATGGGCTTCGAAAAGGTGCCACTAA
CTTGTGGGCTTCAAAAGGG
Found at i:55732 original size:18 final size:18
Alignment explanation
Indices: 55709--55746 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
55699 GGCTTCGAAA
55709 GGGTGCCACTAACTTGTG
1 GGGTGCCACTAACTTGTG
* *
55727 GGGTGCCATTGACTTGTG
1 GGGTGCCACTAACTTGTG
55745 GG
1 GG
55747 CTTCGAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.39, T:0.29
Consensus pattern (18 bp):
GGGTGCCACTAACTTGTG
Found at i:55772 original size:28 final size:28
Alignment explanation
Indices: 55730--55951 Score: 309
Period size: 28 Copynumber: 7.9 Consensus size: 28
55720 ACTTGTGGGG
* * *
55730 TGCCATTGACTTGTGGGCTTCGAAAGGA
1 TGCCACTGACATGTGGGCTTTGAAAGGA
*
55758 TGCCGCTGACATGTGGGCTTTGAAAGGA
1 TGCCACTGACATGTGGGCTTTGAAAGGA
*
55786 TGCCATTGACATGTGGGCTTTGAAAGGA
1 TGCCACTGACATGTGGGCTTTGAAAGGA
* *
55814 TGCCACTGACTTGTAGGCTTTGAAAGGA
1 TGCCACTGACATGTGGGCTTTGAAAGGA
* *
55842 AGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACATGTGGGCTTTGAAAGGA
* * *
55870 TGCCACTGACATATGGGATTTGAAAAGA
1 TGCCACTGACATGTGGGCTTTGAAAGGA
55898 TGCCACTGACATGTGGGCTTTGAAAGGA
1 TGCCACTGACATGTGGGCTTTGAAAGGA
* * *
55926 TGCCACTAACTTGTGAGCTTTGAAAG
1 TGCCACTGACATGTGGGCTTTGAAAG
55952 TGAAAGCTCA
Statistics
Matches: 172, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 172 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (28 bp):
TGCCACTGACATGTGGGCTTTGAAAGGA
Found at i:55773 original size:46 final size:46
Alignment explanation
Indices: 55681--55774 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
55671 GGCTTCGAAA
* *
55681 GGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTAACTTGTG
1 GGGTGCCACTGACTTGTGGGCTTCGAAAGGATGCCACTAACATGTG
* * *
55727 GGGTGCCATTGACTTGTGGGCTTCGAAAGGATGCCGCTGACATGTG
1 GGGTGCCACTGACTTGTGGGCTTCGAAAGGATGCCACTAACATGTG
55773 GG
1 GG
55775 CTTTGAAAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.17, C:0.20, G:0.37, T:0.26
Consensus pattern (46 bp):
GGGTGCCACTGACTTGTGGGCTTCGAAAGGATGCCACTAACATGTG
Found at i:55774 original size:74 final size:74
Alignment explanation
Indices: 55653--55790 Score: 204
Period size: 74 Copynumber: 1.9 Consensus size: 74
55643 GGCTTCAAAA
* * *
55653 GGGTGCCACTAACTTATGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCAC
1 GGGTGCCACTAACTTATGGGCTTCGAAAGGATGCCACTGACATGTGGGCTTCGAAAGGATGCCAC
55718 TAACTTGTG
66 TAACTTGTG
* * * * *
55727 GGGTGCCATTGACTTGTGGGCTTCGAAAGGATGCCGCTGACATGTGGGCTTTGAAAGGATGCCA
1 GGGTGCCACTAACTTATGGGCTTCGAAAGGATGCCACTGACATGTGGGCTTCGAAAGGATGCCA
55791 TTGACATGTG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 56 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.25
Consensus pattern (74 bp):
GGGTGCCACTAACTTATGGGCTTCGAAAGGATGCCACTGACATGTGGGCTTCGAAAGGATGCCAC
TAACTTGTG
Found at i:55833 original size:130 final size:130
Alignment explanation
Indices: 55613--55858 Score: 323
Period size: 130 Copynumber: 1.9 Consensus size: 130
55603 CAATGATTTA
* * *
55613 TGGGCTTCGAAAAGGTGCCACTAACTTGTGGGCTTCAAAAGGGTGCCACTAACTTATGGGCTTCG
1 TGGGCTTCGAAAAGGTGCCACTAACATGTGGGCTTCAAAAGGATGCCACTAACATATGGGCTTCG
* * **
55678 AAAGGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTAACTTGTGGGGTGCCATTGACTTG
66 AAAGGATGCCACTGACTTGTAGGCTTCGAAAGGAAGCCACTAACTTGTGGGGTGCCATTGACTTG
* * ** * * * *
55743 TGGGCTTCG-AAAGGATGCCGCTGACATGTGGGCTTTGAAAGGATGCCATTGACATGTGGGCTTT
1 TGGGCTTCGAAAAGG-TGCCACTAACATGTGGGCTTCAAAAGGATGCCACTAACATATGGGCTTC
* *
55807 GAAAGGATGCCACTGACTTGTAGGCTTTGAAAGGAAGCCACTGACTTGTGGG
65 GAAAGGATGCCACTGACTTGTAGGCTTCGAAAGGAAGCCACTAACTTGTGGG
55859 CTTTGAAAGG
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
129 5 0.05
130 93 0.95
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (130 bp):
TGGGCTTCGAAAAGGTGCCACTAACATGTGGGCTTCAAAAGGATGCCACTAACATATGGGCTTCG
AAAGGATGCCACTGACTTGTAGGCTTCGAAAGGAAGCCACTAACTTGTGGGGTGCCATTGACTTG
Found at i:55860 original size:158 final size:158
Alignment explanation
Indices: 55580--55876 Score: 380
Period size: 158 Copynumber: 1.9 Consensus size: 158
55570 TTTGCCACCA
* ** *
55580 ACTTGTGGGCTTTAAAAGGATGCCAATGATTTATGGGCTTCGAAAAGGTGCCACTAACTTGTGGG
1 ACTTGTGGGCTTCAAAAGGATGCCAATGACATATGGGCTTCGAAAAGGTGCCACTAACATGTGGG
* * **
55645 CTTCAAAAGGGTGCCACTAACTTATGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTCGAAAG
66 CTTCAAAAGGATGCCACTAACTTATAGGCTTCGAAAGGAAGCCACTGACTTGTGGGCTTCGAAAG
*
55710 GGTGCCACTAACTTGTGGGGTGCCATTG
131 GATGCCACTAACTTGTGGGGTGCCATTG
* ** * * * *
55738 ACTTGTGGGCTTCGAAAGGATGCCGCTGACATGTGGGCTTTG-AAAGGATGCCATTGACATGTGG
1 ACTTGTGGGCTTCAAAAGGATGCCAATGACATATGGGCTTCGAAAAGG-TGCCACTAACATGTGG
** * * * *
55802 GCTTTGAAAGGATGCCACTGACTTGTAGGCTTTGAAAGGAAGCCACTGACTTGTGGGCTTTGAAA
65 GCTTCAAAAGGATGCCACTAACTTATAGGCTTCGAAAGGAAGCCACTGACTTGTGGGCTTCGAAA
55867 GGATGCCACT
130 GGATGCCACT
55877 GACATATGGG
Statistics
Matches: 116, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
157 5 0.04
158 111 0.96
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (158 bp):
ACTTGTGGGCTTCAAAAGGATGCCAATGACATATGGGCTTCGAAAAGGTGCCACTAACATGTGGG
CTTCAAAAGGATGCCACTAACTTATAGGCTTCGAAAGGAAGCCACTGACTTGTGGGCTTCGAAAG
GATGCCACTAACTTGTGGGGTGCCATTG
Found at i:56658 original size:20 final size:22
Alignment explanation
Indices: 56628--56671 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
56618 TGATTTCCCG
56628 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
*
56649 TGTG-ATGTATCGTTACATATT
1 TGTGAATGTATCGATACATATT
56670 TG
1 TG
56672 AAAAATATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.43
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:56744 original size:13 final size:13
Alignment explanation
Indices: 56726--56751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56716 CAATTTTTTG
56726 TGTATCGATACAT
1 TGTATCGATACAT
56739 TGTATCGATACAT
1 TGTATCGATACAT
56752 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:56766 original size:32 final size:33
Alignment explanation
Indices: 56706--56769 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
56696 TACAAGCCAA
** *
56706 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
56739 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
56770 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:59106 original size:13 final size:13
Alignment explanation
Indices: 59088--59125 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
59078 ATAATCCCCC
59088 TGTATCGATACAG
1 TGTATCGATACAG
*
59101 TGTATCGATACAT
1 TGTATCGATACAG
59114 TGTATCGATACA
1 TGTATCGATACA
59126 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:59166 original size:20 final size:20
Alignment explanation
Indices: 59114--59170 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
59104 ATCGATACAT
**
59114 TGTATCGATACAAAGAAAAA
1 TGTATCGATACATTGAAAAA
59134 TGTATCGATACATTGAAAAA
1 TGTATCGATACATTGAAAAA
*
59154 TGTATCAATACATTGAA
1 TGTATCGATACATTGAA
59171 TTTCCAGATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATTGAAAAA
Found at i:61247 original size:15 final size:15
Alignment explanation
Indices: 61227--61257 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
61217 ATTTCGTTTG
*
61227 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
61242 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
61257 G
1 G
61258 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:65265 original size:20 final size:22
Alignment explanation
Indices: 65235--65278 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
65225 TGATTTCCCG
65235 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
65256 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
65277 TG
1 TG
65279 AAAAATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:65383 original size:19 final size:18
Alignment explanation
Indices: 65313--65383 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
65303 TACAAGCCAA
*
65313 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
65333 TGTATCGATAC-A-TT-G
1 TGTATCGATACAATTTGG
*
65348 TG--TCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
65365 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
65384 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 7 0.16
15 4 0.09
16 4 0.09
17 3 0.07
18 1 0.02
19 13 0.30
20 11 0.26
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:65798 original size:28 final size:28
Alignment explanation
Indices: 65752--65838 Score: 124
Period size: 28 Copynumber: 3.1 Consensus size: 28
65742 GATCCTAACA
65752 GAAAGGATGCCACTGACTTGTGGGCTTT
1 GAAAGGATGCCACTGACTTGTGGGCTTT
* *
65780 GAAAGGATGCTACTAACTTGTGAGG-TTT
1 GAAAGGATGCCACTGACTTGTG-GGCTTT
*
65808 GAAAGAATGCCACTGACTTGT-GGCTTT
1 GAAAGGATGCCACTGACTTGTGGGCTTT
65835 GAAA
1 GAAA
65839 AGGGTCGTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.04
27 7 0.13
28 41 0.79
29 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
GAAAGGATGCCACTGACTTGTGGGCTTT
Found at i:68000 original size:13 final size:13
Alignment explanation
Indices: 67982--68006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67972 ATATTGCACA
67982 GTATCGATACATT
1 GTATCGATACATT
67995 GTATCGATACAT
1 GTATCGATACAT
68007 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:68019 original size:20 final size:21
Alignment explanation
Indices: 67994--68046 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
67984 ATCGATACAT
*
67994 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
68014 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
68035 TGTATCGATACA
1 TGTATCGATACA
68047 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:68124 original size:13 final size:13
Alignment explanation
Indices: 68106--68131 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68096 TACACACAAG
68106 ATGTATCGATACA
1 ATGTATCGATACA
68119 ATGTATCGATACA
1 ATGTATCGATACA
68132 TCCCAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:72283 original size:13 final size:13
Alignment explanation
Indices: 72265--72290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72255 CAATTTTTTG
72265 TGTATCGATACAT
1 TGTATCGATACAT
72278 TGTATCGATACAT
1 TGTATCGATACAT
72291 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:72355 original size:21 final size:21
Alignment explanation
Indices: 72329--72404 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
72319 CTGCCAAGAA
72329 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
72350 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
72370 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
*
72391 ATGTATTGATACAT
1 ATGTATCGATACAT
72405 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:72374 original size:20 final size:20
Alignment explanation
Indices: 72349--72422 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
72339 ACATCTTTTT
72349 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
72369 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
*
72390 CATGTATTGATACATTGCAA
1 CATGTATCGATACATTGCAA
72410 CATGTATCGATAC
1 CATGTATCGATAC
72423 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:72386 original size:41 final size:41
Alignment explanation
Indices: 72329--72422 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
72319 CTGCCAAGAA
72329 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
72370 ATGTATCGATACATCTTTTTCATGTATTGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
72411 ATGTATCGATAC
1 ATGTATCGATAC
72423 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:74891 original size:13 final size:13
Alignment explanation
Indices: 74873--74911 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
74863 ATAATCACCC
*
74873 TGTATCGATACAG
1 TGTATCGATACAA
74886 TGTATCGATACAA
1 TGTATCGATACAA
74899 TGTATCGATACAA
1 TGTATCGATACAA
74912 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:74922 original size:20 final size:20
Alignment explanation
Indices: 74897--74975 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
74887 GTATCGATAC
74897 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
74917 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
74942 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
74962 CATGTATCGATACA
1 AATGTATCGATACA
74976 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:78843 original size:21 final size:21
Alignment explanation
Indices: 78814--78858 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
78804 AAGTTTTCAT
*
78814 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
78834 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
78856 TTT
1 TTT
78859 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:81090 original size:13 final size:13
Alignment explanation
Indices: 81072--81097 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81062 CAATTTTTTG
81072 TGTATCGATACAT
1 TGTATCGATACAT
81085 TGTATCGATACAT
1 TGTATCGATACAT
81098 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:81162 original size:21 final size:21
Alignment explanation
Indices: 81136--81211 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
81126 CTGCCAAGAA
81136 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
81157 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
81177 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
*
81198 ATGTATTGATACAT
1 ATGTATCGATACAT
81212 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:81181 original size:20 final size:20
Alignment explanation
Indices: 81156--81229 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
81146 ACATCTTTTT
81156 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
81176 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
*
81197 CATGTATTGATACATTGCAA
1 CATGTATCGATACATTGCAA
81217 CATGTATCGATAC
1 CATGTATCGATAC
81230 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:81193 original size:41 final size:41
Alignment explanation
Indices: 81136--81229 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
81126 CTGCCAAGAA
81136 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
81177 ATGTATCGATACATCTTTTTCATGTATTGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
81218 ATGTATCGATAC
1 ATGTATCGATAC
81230 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:84311 original size:13 final size:13
Alignment explanation
Indices: 84293--84317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84283 AAAACTCAGA
84293 TGTATCGATACAG
1 TGTATCGATACAG
84306 TGTATCGATACA
1 TGTATCGATACA
84318 AAGGGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:86823 original size:13 final size:13
Alignment explanation
Indices: 86805--86829 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86795 ATATTGCACA
86805 GTATCGATACATT
1 GTATCGATACATT
86818 GTATCGATACAT
1 GTATCGATACAT
86830 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:86947 original size:13 final size:13
Alignment explanation
Indices: 86929--86954 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86919 TACACACAAG
86929 ATGTATCGATACA
1 ATGTATCGATACA
86942 ATGTATCGATACA
1 ATGTATCGATACA
86955 TTAACACGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:91921 original size:15 final size:15
Alignment explanation
Indices: 91901--91935 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
91891 GATTTTGTGA
91901 TGGATAATTAGGTGG
1 TGGATAATTAGGTGG
**
91916 TGGATAATTTTGTGG
1 TGGATAATTAGGTGG
91931 TGGAT
1 TGGAT
91936 TTGGCGGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (15 bp):
TGGATAATTAGGTGG
Found at i:95768 original size:29 final size:29
Alignment explanation
Indices: 95726--95783 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
95716 GGGTATAGCA
95726 TAACGACATGTCCAAATGAAGGAGAAACC
1 TAACGACATGTCCAAATGAAGGAGAAACC
95755 TAACGACATGTCCAAATGAAGGAGAAACC
1 TAACGACATGTCCAAATGAAGGAGAAACC
95784 CCTTAACAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.14
Consensus pattern (29 bp):
TAACGACATGTCCAAATGAAGGAGAAACC
Found at i:99548 original size:40 final size:40
Alignment explanation
Indices: 99493--99569 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
99483 ATGGTAATAA
99493 GGCTAGAAAATGTGGTTGAAAAGGGGATCCTTTGCTATGG
1 GGCTAGAAAATGTGGTTGAAAAGGGGATCCTTTGCTATGG
*
99533 GGCTAGAATATGTGGTTGAAAAGGGGATCCTTTGCTA
1 GGCTAGAAAATGTGGTTGAAAAGGGGATCCTTTGCTA
99570 GGATTGCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.27, C:0.10, G:0.34, T:0.29
Consensus pattern (40 bp):
GGCTAGAAAATGTGGTTGAAAAGGGGATCCTTTGCTATGG
Found at i:100006 original size:20 final size:19
Alignment explanation
Indices: 99981--100055 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
99971 AAAAAGACAA
**
99981 AATGTATCGATACATTTTT
1 AATGTATCGATACATTCAT
100000 CAATGTATCGATACATTCAT
1 -AATGTATCGATACATTCAT
* *
100020 ACATGTATCGATACATTGAAA
1 A-ATGTATCGATACATT-CAT
100041 AATGTATCGATACAT
1 AATGTATCGATACAT
100056 CTACGTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.94
21 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (19 bp):
AATGTATCGATACATTCAT
Found at i:101032 original size:28 final size:28
Alignment explanation
Indices: 101009--101293 Score: 326
Period size: 28 Copynumber: 10.2 Consensus size: 28
100999 GTTGCCACCA
*
101009 ACTTGTGGGCTTTAAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* * *
101037 A-TTGTGGGCTTCGAAAGGGTGCCACTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
101064 ACTTGTGGGCTTCGAAA-GAGTGTCACTG
1 ACTTGTGGGCTTTGAAAGGA-TGCCACTG
101092 ACTTGTGGGCTTTGAAA-GAGTGCCACT-
1 ACTTGTGGGCTTTGAAAGGA-TGCCACTG
*
101119 AGCTTGTGGGCCTTGAAAGGATGCCACTG
1 A-CTTGTGGGCTTTGAAAGGATGCCACTG
* * *
101148 ACATGTGGGCTTTGAAAGGATGCTACTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* * **
101176 ACATGTGGGCTTTGAAATGATGCCGTTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
101204 ACTTGTGGTCTTTGAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* * *** *
101232 ACATATGAATTTTGAAAGGATGCCTCTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
101260 ACTTGTGGGCTTTGAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
101288 ACTTGT
1 ACTTGT
101294 AAAAAATTTG
Statistics
Matches: 216, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
27 25 0.12
28 188 0.87
29 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
ACTTGTGGGCTTTGAAAGGATGCCACTG
Found at i:103173 original size:16 final size:16
Alignment explanation
Indices: 103154--103186 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
103144 TTCGAGTCAA
103154 TTTAGGTTCAAGTTAT
1 TTTAGGTTCAAGTTAT
*
103170 TTTAGGTTCTAGTTAT
1 TTTAGGTTCAAGTTAT
103186 T
1 T
103187 ATCGGATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (16 bp):
TTTAGGTTCAAGTTAT
Found at i:108824 original size:19 final size:19
Alignment explanation
Indices: 108802--108843 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
108792 GAGGTTGCAG
108802 TGGAAGCTGCTAGAGTTGC
1 TGGAAGCTGCTAGAGTTGC
* *
108821 TGGAAGTTGCTGGAGTTGC
1 TGGAAGCTGCTAGAGTTGC
108840 TGGA
1 TGGA
108844 GGCTACCGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.19, C:0.12, G:0.40, T:0.29
Consensus pattern (19 bp):
TGGAAGCTGCTAGAGTTGC
Found at i:108837 original size:9 final size:9
Alignment explanation
Indices: 108771--108844 Score: 58
Period size: 9 Copynumber: 7.6 Consensus size: 9
108761 TTGGTTGCTA
*
108771 TGGAGCTGC
1 TGGAGTTGC
*
108780 TGGAAGTGGC
1 TGG-AGTTGC
108790 TGGAGGTTGC
1 TGGA-GTTGC
*
108800 AGTGGAAGCTGC
1 --TGG-AGTTGC
*
108812 TAGAGTTGC
1 TGGAGTTGC
108821 TGGAAGTTGC
1 TGG-AGTTGC
108831 TGGAGTTGC
1 TGGAGTTGC
108840 TGGAG
1 TGGAG
108845 GCTACCGTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
9 22 0.42
10 22 0.42
12 7 0.13
13 1 0.02
ACGTcount: A:0.18, C:0.12, G:0.45, T:0.26
Consensus pattern (9 bp):
TGGAGTTGC
Found at i:108863 original size:22 final size:22
Alignment explanation
Indices: 108837--108940 Score: 126
Period size: 22 Copynumber: 4.9 Consensus size: 22
108827 TTGCTGGAGT
108837 TGCTGGAGGCTACCGTGGAAGC
1 TGCTGGAGGCTACCGTGGAAGC
108859 TGCTGGAGGCTACCGTGGAAGC
1 TGCTGGAGGCTACCGTGGAAGC
* **
108881 TGCTGGAAG-TTGC-T-GAA-C
1 TGCTGGAGGCTACCGTGGAAGC
* * *
108899 TGCTAGAGGCTATCGTGGGAGC
1 TGCTGGAGGCTACCGTGGAAGC
108921 TGCTGGAGGCTACCGTGGAA
1 TGCTGGAGGCTACCGTGGAA
108941 ATTGTTGGAG
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
18 8 0.12
19 5 0.07
20 2 0.03
21 4 0.06
22 48 0.72
ACGTcount: A:0.19, C:0.20, G:0.39, T:0.21
Consensus pattern (22 bp):
TGCTGGAGGCTACCGTGGAAGC
Found at i:108922 original size:62 final size:63
Alignment explanation
Indices: 108818--108940 Score: 194
Period size: 62 Copynumber: 2.0 Consensus size: 63
108808 CTGCTAGAGT
** *
108818 TGCTGGAAGTTGCTGGAGTTGCTGGAGGCTACCGTGGAAGCTGCTGGAGGCTACCGTGGAAGC
1 TGCTGGAAGTTGCTGGAACTGCTAGAGGCTACCGTGGAAGCTGCTGGAGGCTACCGTGGAAGC
* *
108881 TGCTGGAAGTTGCT-GAACTGCTAGAGGCTATCGTGGGAGCTGCTGGAGGCTACCGTGGAA
1 TGCTGGAAGTTGCTGGAACTGCTAGAGGCTACCGTGGAAGCTGCTGGAGGCTACCGTGGAA
108941 ATTGTTGGAG
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
62 41 0.75
63 14 0.25
ACGTcount: A:0.19, C:0.19, G:0.40, T:0.23
Consensus pattern (63 bp):
TGCTGGAAGTTGCTGGAACTGCTAGAGGCTACCGTGGAAGCTGCTGGAGGCTACCGTGGAAGC
Found at i:108951 original size:31 final size:31
Alignment explanation
Indices: 108916--108990 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
108906 GGCTATCGTG
* * *
108916 GGAGCTGCTGGAGGCTACCGTGGAAATTGTT
1 GGAGCTGCTGGAAGCTACCGTGGAAACTGCT
* * *
108947 GGAGCTGCTGGAAGTTGCTGTGGAAACTGCT
1 GGAGCTGCTGGAAGCTACCGTGGAAACTGCT
108978 GGAGCTGCTGGAA
1 GGAGCTGCTGGAA
108991 ATTACTGTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (31 bp):
GGAGCTGCTGGAAGCTACCGTGGAAACTGCT
Found at i:109169 original size:124 final size:123
Alignment explanation
Indices: 108986--109211 Score: 335
Period size: 124 Copynumber: 1.8 Consensus size: 123
108976 CTGGAGCTGC
* * * * *
108986 TGGAAATTACTGTTGGTGTTGGTTTCGGATGCTTCTACTGTTGGAAGCTACTATCGGTGTTAGTT
1 TGGAAATTACTGCTGGTGTTGGTTTCGAATGCTCCTACTGCTAGAAGCTACTATCGGTGTTAGTT
109051 TTTTTATACTCTTGCTGCTAGAAGCTGCTGCTGGTGTTGGTTTCAGGTGCTCATGGAT
66 TTTTTATACTCTTGCTGCTAGAAGCTGCTGCTGGTGTTGGTTTCAGGTGCTCATGGAT
* * *
109109 TGGAAAGTTGCTGCTGGTGTTGGTTTCGAATGCTCCTACTGCTAGAAGCTGCTATCGGTGTTGGT
1 TGGAAA-TTACTGCTGGTGTTGGTTTCGAATGCTCCTACTGCTAGAAGCTACTATCGGTGTTAGT
* * * *
109174 TTTTTTATGCTCTTGTTGCTGGAAGTTGCTGCTGGTGT
65 TTTTTTATACTCTTGCTGCTAGAAGCTGCTGCTGGTGT
109212 CGGTGCTCAT
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
123 6 0.07
124 84 0.93
ACGTcount: A:0.14, C:0.15, G:0.30, T:0.41
Consensus pattern (123 bp):
TGGAAATTACTGCTGGTGTTGGTTTCGAATGCTCCTACTGCTAGAAGCTACTATCGGTGTTAGTT
TTTTTATACTCTTGCTGCTAGAAGCTGCTGCTGGTGTTGGTTTCAGGTGCTCATGGAT
Found at i:109325 original size:40 final size:41
Alignment explanation
Indices: 109268--109439 Score: 156
Period size: 40 Copynumber: 4.2 Consensus size: 41
109258 GCTCCTACTG
* * *
109268 CTAGAAGCTACTACTGGTGTTGGTTTTGGGTGCTCGTG-GA
1 CTAGAAGCTACTGCTGGTGTTGGTTTCGGATGCTCGTGCGA
* *
109308 CTGGAAGCTACTGCTGGTGTTAGTTTCGGATGCTTC-TGCTG-
1 CTAGAAGCTACTGCTGGTGTTGGTTTCGGATGC-TCGTGC-GA
* * *
109349 CTAGAAGCTGCTG-TCGGTGTTGGTTTCGGGTGCTTGTG-GA
1 CTAGAAGCTACTGCT-GGTGTTGGTTTCGGATGCTCGTGCGA
* ** * *
109389 CTAGAAGCTACTGCTGGGGTTGGTTTTTGATGCTCCTGCTA
1 CTAGAAGCTACTGCTGGTGTTGGTTTCGGATGCTCGTGCGA
*
109430 CTGGAAGCTA
1 CTAGAAGCTA
109440 TTGTCAATGT
Statistics
Matches: 105, Mismatches: 19, Indels: 15
0.76 0.14 0.11
Matches are distributed among these distances:
39 1 0.01
40 61 0.58
41 42 0.40
42 1 0.01
ACGTcount: A:0.14, C:0.17, G:0.34, T:0.35
Consensus pattern (41 bp):
CTAGAAGCTACTGCTGGTGTTGGTTTCGGATGCTCGTGCGA
Found at i:109368 original size:81 final size:80
Alignment explanation
Indices: 109251--109439 Score: 236
Period size: 81 Copynumber: 2.3 Consensus size: 80
109241 GTATTGGTTT
* * *
109251 TTTCGATGCTCCTACTGCTAGAAGCTACTACTGGTGTTGGTTTTGGGTGCTCGTGGACTGGAAGC
1 TTTCGATGCTCCTGCTGCTAGAAGCTACTACTGGTGTTGGTTTCGGGTGCTCGTGGACTAGAAGC
*
109316 TACTGCTGGTGTTAG
66 TACTGCTGGGGTTAG
* * * *
109331 TTTCGGATGCTTCTGCTGCTAGAAGCTGCT-GTCGGTGTTGGTTTCGGGTGCTTGTGGACTAGAA
1 TTTC-GATGCTCCTGCTGCTAGAAGCTACTACT-GGTGTTGGTTTCGGGTGCTCGTGGACTAGAA
*
109395 GCTACTGCTGGGGTTGG
64 GCTACTGCTGGGGTTAG
* * *
109412 TTTTTGATGCTCCTGCTACTGGAAGCTA
1 -TTTCGATGCTCCTGCTGCTAGAAGCTA
109440 TTGTCAATGT
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
80 5 0.05
81 84 0.91
82 3 0.03
ACGTcount: A:0.14, C:0.19, G:0.32, T:0.35
Consensus pattern (80 bp):
TTTCGATGCTCCTGCTGCTAGAAGCTACTACTGGTGTTGGTTTCGGGTGCTCGTGGACTAGAAGC
TACTGCTGGGGTTAG
Found at i:109573 original size:30 final size:31
Alignment explanation
Indices: 109530--109587 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
109520 TTTATAGCCA
*
109530 TTTTTTGCTTGTTG-AT-TTGCTGTTTTTTTC
1 TTTTTTGCATGTTGTATGTTGCT-TTTTTTTC
*
109560 TTTTTTTCATGTTGTATGTTGCTTTTTT
1 TTTTTTGCATGTTGTATGTTGCTTTTTT
109588 GCTGGCAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.50
31 7 0.29
32 5 0.21
ACGTcount: A:0.05, C:0.09, G:0.16, T:0.71
Consensus pattern (31 bp):
TTTTTTGCATGTTGTATGTTGCTTTTTTTTC
Found at i:109925 original size:22 final size:20
Alignment explanation
Indices: 109876--109930 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
109866 TTTTCTGTTC
109876 TTTTT-TTATTTTTTTTGGA
1 TTTTTATTATTTTTTTTGGA
* *
109895 TTTTGATTATTTTATTATTTGA
1 TTTTTATTATTTT-TT-TTGGA
109917 TTTTTATTATTTTT
1 TTTTTATTATTTTT
109931 AAATTTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 3 0.10
22 16 0.53
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.76
Consensus pattern (20 bp):
TTTTTATTATTTTTTTTGGA
Found at i:110960 original size:42 final size:42
Alignment explanation
Indices: 110901--111730 Score: 477
Period size: 42 Copynumber: 19.7 Consensus size: 42
110891 TAGATAAGGC
* * * * *
110901 AGTCTCCA-GGTTAAAGCCAATAGACAGATTGAAGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAGGAA
* * * * *
110942 AGTCTCTAGGGTCAAAGCCAACAGGTAGACTGAAAGATAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGA-AGGAA
* * * * * ** *
110985 AGTCTTCATGGTTAAAGCTGACAGGCAAACTTTA-GATGAGGCA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGA--AGGAA
** * *
111028 A-TCTCCAGGGTCAAAGCCGACAGATAGACTGAATGATGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAGGAA
* * * ** *
111069 AGTCTCTAGGGTCAAAACCGATAGGCAGACTTTAGTG-AGGCA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAG-GAAGGAA
** * * * ** ** *
111111 A-TCTTTAAGGTCAAAGTCGATAAACAGACTGAATTATGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAGGAA
* * ** *
111152 AGTCTCTAGGGTCAAAGTCGACAGGCAGACTTTA-GATGAGGCA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGA--AGGAA
* * * *
111195 A-TCTCCAAGGTCAAAGCCGATAGGCAAACTGAAGGATAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGA-AGGAA
** * * *
111237 AGTCTCCAGGGTCAAAATCAACAGGCAGACTAAAGGAAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAGGAA
*** ** *
111279 AGTCTCCAGGGTCAAAGCCGACAAATAGACTTTA-GATGAGG-C
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGA--AGGAA
* *
111321 AGTCTCCAGGGTTAAAGCTGACAGGCAGACTGAAGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAGGAA
* ** *
111363 AGTCTCCAAGGTCAAAGTTGACAGGCAGACTGAAGGAATGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAGGAA
* * * * **
111405 AGTTTCTAGGGTCAAAGCCGACAGGTAGACTGAAAGAAAAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAGGAA
* * * * * *
111447 AGTCTCTAGGGTCAAAACCAATAGGTAGACTGAAAGATAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGA-AGGAA
* ** * *
111490 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTA-GATGAGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAG-GAA
* * * * * *
111532 AGTCTCTAGGGTCAAAGTCGACAGACAAACTAAAGAAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAGGAA
* * ** *
111574 AGTCTCCAGGGTCAAAGTCGATAGGCAGACTTTA-GATGAGG-C
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGA--AGGAA
* * * *
111616 AGTCTCCAAGGTCAAAGCTGACAGGTAGACTGAAGGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAA-GGAAGGAA
* * *
111659 AATCTCTAGGGTCAAAG-CGAACAGGCAAACTGAA--AAGAGAAA
1 AGTCTCCAGGGTCAAAGCCG-ACAGGCAGACTGAAGGAAG-G-AA
* **
111701 AGTCT-CTGGGTCAAAGTTGACAGGCAGACT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACT
111731 TTAGATGAGG
Statistics
Matches: 594, Mismatches: 167, Indels: 56
0.73 0.20 0.07
Matches are distributed among these distances:
40 2 0.00
41 67 0.11
42 391 0.66
43 133 0.22
44 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (42 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAGGAA
Found at i:111099 original size:127 final size:128
Alignment explanation
Indices: 110840--111799 Score: 550
Period size: 127 Copynumber: 7.6 Consensus size: 128
110830 CTAAATCGAC
* * * * * *
110840 AGGCAGA-TGAAAGAT-GAAAAGATC-CCTAGGTCAAAGCCGACAAGCAAACTTTAGATAAGGC-
1 AGGCAGACTGAAAGATAGGAAAG-TCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCA
* * * * * * * *
110901 AGTCTCCA-GGTTAAAGCCAATAGACAGATTGAAGGAAGGAAAGTCTCTAGGGTCAAAGCCAAC
65 AGTCTCCAGGGTCAAAGCCGACAGACAGACTGAATGAAGGAAAGTCTCCAGGGTCAAAGCCGAT
* * * * * *
110964 AGGTAGACTGAAAGATAAGAAAGTCTTCATGGTTAAAGCTGACAGGCAAACTTTAGATGAGGCAA
1 AGGCAGACTGAAAGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAA
* * * *
111029 -TCTCCAGGGTCAAAGCCGACAGATAGACTGAATGATGGAAAGTCTCTAGGGTCAAAACCGAT
66 GTCTCCAGGGTCAAAGCCGACAGACAGACTGAATGAAGGAAAGTCTCCAGGGTCAAAGCCGAT
** * ** * ** * *
111091 AGGCAGACT-TTAG-TGAGGCAA-TCTTTAAGGTCAAAG-TCGATAAACAGAC-TGA-ATTATGG
1 AGGCAGACTGAAAGAT-AGGAAAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTTTAGATGA-GG
* * * * * * *
111150 AAAGTCTCTAGGGTCAAAGTCGACAGGCAGACTTTAGATG-AGGCAA-TCTCCAAGGTCAAAGCC
63 CAAGTCTCCAGGGTCAAAGCCGACAGACAGAC-TGA-ATGAAGGAAAGTCTCCAGGGTCAAAGCC
111213 GAT
126 GAT
* * * * * * * * **
111216 AGGCAAACTGAAGGATAGAAAAGTCTCCAGGGTCAAA-ATCAACAGGCAGAC--TAAAGGAAGAA
1 AGGCAGACTGAAAGATAGGAAAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTTTAGATG-AGGC
* * * * * *
111278 AAGTCTCCAGGGTCAAAGCCGACAAATAGACTTTAGATG-AGG-CAGTCTCCAGGGTTAAAGCTG
64 AAGTCTCCAGGGTCAAAGCCGACAGACAGAC-TGA-ATGAAGGAAAGTCTCCAGGGTCAAAGCCG
*
111341 AC
127 AT
* * **
111343 AGGCAGACTGAAGGA-AGGAAAGTCTCCAAGGTCAAAGTTGACAGGCAGACTGAAGGAATGA---
1 AGGCAGACTGAAAGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTA-G-ATGAGGC
* * ** * ** * * *
111404 AAGTTTCTAGGGTCAAAGCCGACAGGTAGACTGAAAGAAAAAAAGTCTCTAGGGTCAAAACCAAT
64 AAGTCTCCAGGGTCAAAGCCGACAGACAGACTGAATGAAGGAAAGTCTCCAGGGTCAAAGCCGAT
* * *
111469 AGGTAGACTGAAAGATAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGAC-A
1 AGGCAGACTGAAAGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAA
* * * * *
111533 GTCTCTAGGGTCAAAGTCGACAGACAAACT-AAAGAAAGGAAAGTCTCCAGGGTCAAAGTCGAT
66 GTCTCCAGGGTCAAAGCCGACAGACAGACTGAATG-AAGGAAAGTCTCCAGGGTCAAAGCCGAT
** * * ** * *
111596 AGGCAGACT-TTAGATGAGG-CAGTCTCCAAGGTCAAAGCTGACAGGTAGACTGAAG-GGTAGGA
1 AGGCAGACTGAAAGAT-AGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATG-AGGC
* * * * * **
111658 AAATCTCTAGGGTCAAAG-CGAACAGGCAAACTGAA--AAGAGAAAAGTCT-CTGGGTCAAAGTT
64 AAGTCTCCAGGGTCAAAGCCG-ACAGACAGACTGAATGAAG-G-AAAGTCTCCAGGGTCAAAGCC
*
111719 GAC
126 GAT
** * * ** * * *
111722 AGGCAGACT-TTAGATGAGG-CAGCCTGTAGGGTCAAAGCTGACAGGCACACTTTAGATGAGG-T
1 AGGCAGACTGAAAGAT-AGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCA
*
111784 AGTCTCCAGAGTCAAA
65 AGTCTCCAGGGTCAAA
111800 ACTGACAAGC
Statistics
Matches: 657, Mismatches: 141, Indels: 75
0.75 0.16 0.09
Matches are distributed among these distances:
123 3 0.00
124 15 0.02
125 103 0.16
126 252 0.38
127 277 0.42
128 4 0.01
129 1 0.00
130 2 0.00
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.18
Consensus pattern (128 bp):
AGGCAGACTGAAAGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTAGATGAGGCAA
GTCTCCAGGGTCAAAGCCGACAGACAGACTGAATGAAGGAAAGTCTCCAGGGTCAAAGCCGAT
Found at i:111798 original size:42 final size:42
Alignment explanation
Indices: 111710--111806 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
111700 AAGTCTCTGG
* * ** *
111710 GTCAAAGTTGACAGGCAGACTTTAGATGAGGCAGCCTGTAGG
1 GTCAAAGCTGACAGGCACACTTTAGATGAGGCAGCCTCCAGA
* *
111752 GTCAAAGCTGACAGGCACACTTTAGATGAGGTAGTCTCCAGA
1 GTCAAAGCTGACAGGCACACTTTAGATGAGGCAGCCTCCAGA
*
111794 GTCAAAACTGACA
1 GTCAAAGCTGACA
111807 AGCAAACTGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.21
Consensus pattern (42 bp):
GTCAAAGCTGACAGGCACACTTTAGATGAGGCAGCCTCCAGA
Found at i:112337 original size:22 final size:22
Alignment explanation
Indices: 112288--112337 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
112278 TGTTCATGAT
*
112288 TTGATTTGATTCTTTCTATGTC
1 TTGATTTGATTCTTTCTATGGC
112310 TT-ATTTG-TTCATTT-TCATGGC
1 TTGATTTGATTC-TTTCT-ATGGC
112331 TTGATTT
1 TTGATTT
112338 ACTCCACCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 4 0.17
21 14 0.58
22 6 0.25
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.60
Consensus pattern (22 bp):
TTGATTTGATTCTTTCTATGGC
Found at i:113002 original size:20 final size:20
Alignment explanation
Indices: 112979--113055 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
112969 AAGTACCCAG
112979 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* * *
112999 ATGTATCAATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
113019 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
113039 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
113056 GTCTTTTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:115155 original size:9 final size:9
Alignment explanation
Indices: 115141--115170 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
115131 CCGGTCAGCA
115141 TTTTATATC
1 TTTTATATC
115150 TTTTATATC
1 TTTTATATC
115159 TTTTATATC
1 TTTTATATC
115168 TTT
1 TTT
115171 AGTCCATGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATATC
Found at i:121495 original size:27 final size:27
Alignment explanation
Indices: 121458--122053 Score: 687
Period size: 27 Copynumber: 21.7 Consensus size: 27
121448 TTTCTTTTCA
*
121458 AAGTCCACAACTTCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
121485 AAGTTCACAACTTCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
121512 AAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* *
121540 AAAGTCCATAACTCCATGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* *
121568 AAGTCCACAACTTCGTGGCA-CCCTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
121594 AAGGTCCACAACTCCGTGGCA-CCATTTT
1 AA-GTCCACAACTCCGTGGCATCC-TTTT
* ** * *
121622 AAAGTCCACCACTTTGTGTCATCATTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
121650 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
** *
121677 AAAGTCCACAACTCTATGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* *
121705 AAAATCCACAACTTCGTGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* * *
121733 ATGTCCATAACTCCGTGGAATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
121760 AAGTCCATAACTCTGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
121787 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
121814 AAAGTCCACCACTCCGTGGCATCTTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
*
121842 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
121869 AAAGTCCACAACTCCGTGGCACCCTATTA
1 -AAGTCCACAACTCCGTGGCATCCT-TTT
* *
121898 AAGTTCACAACTTCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
121925 AAAGTCCACAACTCCGTGGCA-CTCTTTT
1 -AAGTCCACAACTCCGTGGCATC-CTTTT
* *
121953 AAAGTCCACCACTCCGTGG-ACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* * *
121980 AAGTGCACAACTCTGTGGTATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
122007 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
122034 AAGTCCATAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
122054 GCACCCTTTT
Statistics
Matches: 486, Mismatches: 70, Indels: 26
0.84 0.12 0.04
Matches are distributed among these distances:
26 22 0.05
27 234 0.48
28 225 0.46
29 5 0.01
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:121531 original size:28 final size:28
Alignment explanation
Indices: 121424--122157 Score: 749
Period size: 28 Copynumber: 26.5 Consensus size: 28
121414 ACTGTGACTC
* * * *
121424 TTTAAAGTCCACGATTCAGTGGCATTTCT
1 TTTAAAGTCCACAACTCCGTGGCA-TCCT
*
121453 TTTCAAAGTCCACAACTTCGTGGCATCCT
1 TTT-AAAGTCCACAACTCCGTGGCATCCT
* * *
121482 TTT-AAGTTCACAACTTCATGGCATCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
*
121509 TTTAAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* *
121537 TTTAAAGTCCATAACTCCATGGCATCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* *
121565 TTT-AAGTCCACAACTTCGTGGCA-CCC
1 TTTAAAGTCCACAACTCCGTGGCATCCT
*
121591 TTTAAGGTCCACAACTCCGTGGCA-CCAT
1 TTTAAAGTCCACAACTCCGTGGCATCC-T
* ** * *
121619 TTTAAAGTCCACCACTTTGTGTCATCAT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
121647 TTT-AAGTCCACAACTCCGTGGCATCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
** *
121674 TTTAAAGTCCACAACTCTATGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* *
121702 TTTAAAATCCACAACTTCGTGGCATCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* * *
121730 TTT-ATGTCCATAACTCCGTGGAATCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* * *
121757 TTT-AAGTCCATAACTCTGTGGCA-CCC
1 TTTAAAGTCCACAACTCCGTGGCATCCT
*
121783 TTTAAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
*
121811 TTTAAAGTCCACCACTCCGTGGCAT-CT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* *
121838 TTTTAAGTCCACAACTCTGTGGCATCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
*
121866 TTTAAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* * *
121894 ATTAAAGTTCACAACTTCGTGGCATCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
121922 TTTAAAGTCCACAACTCCGTGGCA-CTCT
1 TTTAAAGTCCACAACTCCGTGGCATC-CT
* *
121950 TTTAAAGTCCACCACTCCGTGG-ACCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* * *
121977 TTT-AAGTGCACAACTCTGTGGTATCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
122004 TTT-AAGTCCACAACTCCGTGGCATCCT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* *
122031 TTT-AAGTCCATAACTCCGTGGCAGCACCCT
1 TTTAAAGTCCACAACTCCGT-G--GCATCCT
* * ** *
122061 TTTAAAGCCCACAAGTTAGTGGCATCAT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* * * * *
122089 TTCAAAGCCCACAAGTCAGTGGCATCAT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* * * * *
122117 TTCAAAGCCCACAAGTCAGTGGCATCAT
1 TTTAAAGTCCACAACTCCGTGGCATCCT
* *
122145 TTCAAAGCCCACA
1 TTTAAAGTCCACA
122158 CAAGTCGGTA
Statistics
Matches: 603, Mismatches: 86, Indels: 33
0.84 0.12 0.05
Matches are distributed among these distances:
26 25 0.04
27 218 0.36
28 312 0.52
29 10 0.02
30 27 0.04
31 11 0.02
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (28 bp):
TTTAAAGTCCACAACTCCGTGGCATCCT
Found at i:121785 original size:192 final size:191
Alignment explanation
Indices: 121458--122053 Score: 801
Period size: 192 Copynumber: 3.1 Consensus size: 191
121448 TTTCTTTTCA
* * *
121458 AAGTCCACAACTTCGTGGCATCCTTTT-AAGTTCACAACT-TCATGGCATCCTTTTAAAGTCCAC
1 AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCT-ATGGCACCCTTTTAAAGTCCAC
* * *
121521 AACTCCGTGGCACCCTTTTAAAGTCCATAACTCCATGGCATCCTTTTAAGTCCACAACT-TCGTG
65 AACTTCGTGGCATCCTTTTAAAGTCCATAACTCCGTGGCATCCTTTTAAGTCCACAACTCT-GTG
** *
121585 GCACCCTTTAAGGTCCACAACTCCGTGGCACCATTTTAAAGTCCACCACTTTGTGTCATCATTTT
129 GCACCCTTTAA-GTCCACAACTCCGTGGCACC-TTTTAAAGTCCACCACTCCGTGGCATCATTTT
*
121650 AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCTATGGCACCCTTTTAAAATCCACA
1 AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCTATGGCACCCTTTTAAAGTCCACA
* * *
121715 ACTTCGTGGCATCCTTTT-ATGTCCATAACTCCGTGGAATCCTTTTAAGTCCATAACTCTGTGGC
66 ACTTCGTGGCATCCTTTTAAAGTCCATAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGC
*
121779 ACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACCACTCCGTGGCATCTTTTT
131 ACCCTTT-AAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACCACTCCGTGGCATCATTTT
* ** * *
121842 AAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTATTAAAGTTCACA
1 AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCTATGGCACCCTTTTAAAGTCCACA
* * *
121907 ACTTCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA-CTCTTTTAAAGTCCACCACTCCGTG
66 ACTTCGTGGCATCCTTTTAAAGTCCATAACTCCGTGGCATC-CTTTT-AAGTCCACAACTCTGTG
* * * * *
121971 G-ACCCTTTTAAGTGCACAACTCTGTGGTATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTT
129 GCACCC-TTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACCACTCCGTGGCATCATTTT
*
122034 AAGTCCATAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
122054 GCACCCTTTT
Statistics
Matches: 361, Mismatches: 34, Indels: 18
0.87 0.08 0.04
Matches are distributed among these distances:
192 240 0.66
193 102 0.28
194 19 0.05
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (191 bp):
AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCTATGGCACCCTTTTAAAGTCCACA
ACTTCGTGGCATCCTTTTAAAGTCCATAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGC
ACCCTTTAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCACCACTCCGTGGCATCATTTT
Found at i:122162 original size:30 final size:29
Alignment explanation
Indices: 122064--123084 Score: 768
Period size: 28 Copynumber: 34.3 Consensus size: 29
122054 GCACCCTTTT
*
122064 AAAGCCCACAAGTTAGTGGCA-TCATTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
122092 AAAGCCCACAAGTCAGTGGCA-TCATTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
122120 AAAGCCCACAAGTCAGTGGCA-TCATTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
* ** *
122148 AAAGCCCACACAAGTCGGTAGTAACTCATTTG
1 AAAG-CC-CACAAGTCAGT-GGCACTCATTTC
** *
122180 AAAGCCCACACAAGTTTGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ACTCATTTC
* * *
122212 AAAGCCCACACAAGTCGGTGGAAACTCATTTG
1 AAAG-CC-CACAAGTCAGTGG-CACTCATTTC
* *
122244 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ACTCATTTC
** * *
122276 AAAGCCTACACAAGTTGGTGGTAACCCATTTC
1 AAAGCC--CACAAGTCAGTGG-CACTCATTTC
*
122308 AAAGCCCACAAGACAGTGGCA-TCATTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
* * *
122336 AAAGCCCACACAAATCGGTGGCAACTCATTTA
1 AAAG-CC-CACAAGTCAGTGGC-ACTCATTTC
* ** *
122368 AAAGCCTATACAAGTTGGTGGCAACCCATTTC
1 AAAGCC--CACAAGTCAGTGGC-ACTCATTTC
*
122400 AAAGCCCACACAAGTCAGTGGCA-TCACTTC
1 AAAG-CC-CACAAGTCAGTGGCACTCATTTC
* * *
122430 AAAGCCCACACAAATCGGTGGCAACTCATTTG
1 AAAG-CC-CACAAGTCAGTGGC-ACTCATTTC
* ** * * *
122462 AAAGCCCACACAATTTGGTAGCAACTTATTCC
1 AAAG-CC-CACAAGTCAGTGGC-ACTCATTTC
* *
122494 AAAGCCCATAAGTCAGTGGCA-TCTTTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
* *
122522 AAAACCCACATGAGTC-GATGGCAACTCTTTTC
1 AAAGCCCACA--AGTCAG-TGGC-ACTCATTTC
* *
122554 AAAGACCACAAGTCAGTGGCA-TCTTTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
** * * *
122582 AAAGCCCATGAGTCGGTGACAACTCTTTTC
1 AAAGCCCACAAGTCAGTGGC-ACTCATTTC
*
122612 AAAGCCCACAAGTCAGTGGCA-TCTTTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
* * * *
122640 AAAGCCTACGAGTCTGTGGCAACTCTTTTC
1 AAAGCCCACAAGTCAGTGGC-ACTCATTTC
* *
122670 AAAGCCCACAAGTTAGTGGCA-TCCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
* *
122698 AAA-CTCCACAAGTCAGTTGCAC-CCTTTC
1 AAAGC-CCACAAGTCAGTGGCACTCATTTC
* * *
122726 AAAGCTCACCAGTTAGTGGCA--CATTTTC
1 AAAGCCCACAAGTCAGTGGCACTCA-TTTC
122754 AAAGCCCACAAGTCAGTGGCACTC-TTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
*
122782 AAAGCCCACAAGTCAGTGGCAC-CCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
* *
122810 AAAGCCCACGCAAGTCAATGGCAC-CCTTTC
1 AAAGCCCA--CAAGTCAGTGGCACTCATTTC
* * *
122840 AAAGCCCACGCAAGTCACTAGCACTCTTTTC
1 AAAGCCCA--CAAGTCAGTGGCACTCATTTC
* *
122871 AAAGCCCACAAGTTAGTGGCAC-CCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
* *
122899 AAAGCCCACAAGTCAATGGCACTCTTTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
* *
122928 AAAGCCCACAAGTTAGTGGCA-TCCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
*
122956 AAAGCCCACAAGTCAGTGGCAC-CCTTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
* * *
122984 AAAACCCACAAGTCAGTGGCATTCTTTTC
1 AAAGCCCACAAGTCAGTGGCACTCATTTC
* * * *
123013 AAAGCCCACAAGCCAGTGGTAATTCTTTTC
1 AAAGCCCACAAGTCAGTGG-CACTCATTTC
* * *
123043 AAAGTCCACACGAGTCGGTGGCAACTCTTTTC
1 AAAG-CC-CACAAGTCAGTGGC-ACTCATTTC
123075 AAAGCCCACA
1 AAAGCCCACA
123085 CAAGTTAGTG
Statistics
Matches: 833, Mismatches: 116, Indels: 86
0.80 0.11 0.08
Matches are distributed among these distances:
27 3 0.00
28 308 0.37
29 70 0.08
30 185 0.22
31 31 0.04
32 234 0.28
33 2 0.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACTCATTTC
Found at i:122621 original size:58 final size:57
Alignment explanation
Indices: 122054--123103 Score: 747
Period size: 58 Copynumber: 17.7 Consensus size: 57
122044 CTCCGTGGCA
* * *
122054 GCACCCTTTT-AAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCAGTG
1 GCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTG
* * *
122110 GCA-TCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGGTAG
1 GCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAG-CC-CACAAGTCAGT-G
** * * ** * * *
122169 TAACTCATTTGAAAGCCCACACAAGTTTGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTG
1 GCACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTG
* * * * * * **
122232 GAAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCTACACAAGTTGGTG
1 G-CACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTTTTCAAAGCC--CACAAGTCAGTG
* * * * * * *
122296 GTAACCCATTTCAAAGCCCACAAGACAGTGGCATCATTTCAAAGCCCACACAAATCGGTG
1 G-CACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAG-CC-CACAAGTCAGTG
* * * ** * *
122356 GCAACTCATTTAAAAGCCTATACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTG
1 GC-ACTCTTTTCAAAGCC--CACAAGTCAGTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTG
** * * * * * ** *
122420 GCA-TCACTTCAAAGCCCACACAAATCGGTGGCAACTCATTTGAAAGCCCACACAATTTGGTA
1 GCACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTG
* * *
122482 GCAACT-TATTCCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAACCCACATGAGTC-GATG
1 GC-ACTCT-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACA--AGTCAG-TG
* ** *
122542 GCAACTCTTTTCAAAGACCACAAGTCAGTGGCATCTTTTCAAAGCCCATGAGTCGGTG
1 GC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTG
* * * *
122600 ACAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCTACGAGTCTGTG
1 GC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTG
* * *
122658 GCAACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAA-CTCCACAAGTCAGTT
1 GC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC-CCACAAGTCAGTG
* * * *
122716 GCAC-CCTTTCAAAGCTCACCAGTTAGTGGCA-CATTTTCAAAGCCCACAAGTCAGTG
1 GCACTCTTTTCAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTCAGTG
* * *
122772 GCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGCAAGTCAATG
1 GCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCA--CAAGTCAGTG
* * * *
122830 GCAC-CCTTTCAAAGCCCACGCAAGTCACTAGCACTCTTTTCAAAGCCCACAAGTTAGTG
1 GCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTG
* * *
122889 GCAC-CCTTTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTG
1 GCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTG
* * * *
122946 GCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAGTG
1 GCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTG
* * * * *
123002 GCATTCTTTTCAAAGCCCACAAGCCAGTGGTAATTCTTTTCAAAGTCCACACGAGTCGGTG
1 GCACTCTTTTCAAAGCCCACAAGTCAGTGG-CA-TCTTTTCAAAG-CC-CACAAGTCAGTG
* *
123063 GCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCATATTTT
1 GC-ACTCTTTTCAAAG-CC-CACAAGTCAGTGGCATCTTTT
123104 TTTAAAAAAA
Statistics
Matches: 839, Mismatches: 109, Indels: 86
0.81 0.11 0.08
Matches are distributed among these distances:
55 5 0.01
56 139 0.17
57 99 0.12
58 150 0.18
59 40 0.05
60 111 0.13
61 32 0.04
62 109 0.13
63 16 0.02
64 138 0.16
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (57 bp):
GCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTG
Found at i:123227 original size:45 final size:47
Alignment explanation
Indices: 123175--123271 Score: 135
Period size: 49 Copynumber: 2.1 Consensus size: 47
123165 GCTAGCATTA
*
123175 AATCAGCATATTGG-CACCTTT-ATTAGCCCAATGTCGCTGGCCTTG
1 AATCAGCACATTGGCCACCTTTCATTAGCCCAATGTCGCTGGCCTTG
* *
123220 AATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTCGCTGGCCTTG
1 AATCAGCACATTGG-CCACCTTT-CATTAGCCCAATGTCGCTGGCCTTG
123269 AAT
1 AAT
123272 TGGCACTCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
45 13 0.29
47 6 0.13
49 26 0.58
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.31
Consensus pattern (47 bp):
AATCAGCACATTGGCCACCTTTCATTAGCCCAATGTCGCTGGCCTTG
Found at i:130444 original size:13 final size:13
Alignment explanation
Indices: 130426--130451 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
130416 TACACCAAGT
130426 ATGTATCGATACA
1 ATGTATCGATACA
130439 ATGTATCGATACA
1 ATGTATCGATACA
130452 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:130449 original size:32 final size:33
Alignment explanation
Indices: 130408--130471 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
130398 TAGCCAAACT
* **
130408 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
130440 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
130472 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:130537 original size:20 final size:22
Alignment explanation
Indices: 130506--130549 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
130496 CTATATTTTT
130506 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
130527 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
130548 CA
1 CA
130550 CGGAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:136650 original size:13 final size:13
Alignment explanation
Indices: 136632--136656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
136622 CATTTTTCTT
136632 TGTATCGATACAA
1 TGTATCGATACAA
136645 TGTATCGATACA
1 TGTATCGATACA
136657 GGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:139220 original size:13 final size:13
Alignment explanation
Indices: 139202--139227 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139192 TACACCAAGT
139202 ATGTATCGATACA
1 ATGTATCGATACA
139215 ATGTATCGATACA
1 ATGTATCGATACA
139228 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:139313 original size:20 final size:22
Alignment explanation
Indices: 139282--139325 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
139272 CTATATTTTT
139282 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
139303 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
139324 CA
1 CA
139326 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:140159 original size:21 final size:20
Alignment explanation
Indices: 140132--140187 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 20
140122 CTGCCAGTTT
140132 CATGTATCGATACAATTTG-A
1 CATGTATCGATACAA-TTGAA
140152 CTATGTATCGATACAA-TGAA
1 C-ATGTATCGATACAATTGAA
140172 CATGTATCGATACAAT
1 CATGTATCGATACAAT
140188 GTATCGATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 16 0.48
20 3 0.09
21 14 0.42
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:140191 original size:13 final size:13
Alignment explanation
Indices: 140173--140199 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
140163 TACAATGAAC
140173 ATGTATCGATACA
1 ATGTATCGATACA
140186 ATGTATCGATACA
1 ATGTATCGATACA
140199 A
1 A
140200 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:140214 original size:33 final size:32
Alignment explanation
Indices: 140154--140218 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
140144 CAATTTGACT
*
140154 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
140186 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
140219 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:151711 original size:14 final size:14
Alignment explanation
Indices: 151694--151724 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
151684 GAATTTTTCA
151694 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
151708 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
151722 TTT
1 TTT
151725 AAAAAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (14 bp):
TTTTTTGTTTTTTT
Found at i:152174 original size:71 final size:71
Alignment explanation
Indices: 152084--152267 Score: 208
Period size: 71 Copynumber: 2.6 Consensus size: 71
152074 GCTGGAAATG
* * * * * * * *
152084 GCTGGAGGTTGCGATGGAAGCTGTTGGAGTTGCTGGAAGTTGCTGAGCTACTAGAGGCT-GTCAT
1 GCTGGAGGCTACGGTGGAAGCTGCTGGAGCTGCTAGAAGTTGCTGAACTACTAGAGGCTACT-AT
152148 GGGAGCT
65 GGGAGCT
* * * *
152155 GCTGGAGGCTACGGTGGAAGCTGCTGGAGCTGCTAAAAGTTGCTGAACTGCTGGAGGCTACTGTG
1 GCTGGAGGCTACGGTGGAAGCTGCTGGAGCTGCTAGAAGTTGCTGAACTACTAGAGGCTACTATG
152220 GGAGCT
66 GGAGCT
* * * *
152226 ACTGAAGGCTACTGTGGAAGCGGCTGGAGCTGCTAGAAGTTG
1 GCTGGAGGCTACGGTGGAAGCTGCTGGAGCTGCTAGAAGTTG
152268 TTGTGGAAGC
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
71 94 0.99
72 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (71 bp):
GCTGGAGGCTACGGTGGAAGCTGCTGGAGCTGCTAGAAGTTGCTGAACTACTAGAGGCTACTATG
GGAGCT
Found at i:152176 original size:22 final size:22
Alignment explanation
Indices: 152151--152254 Score: 75
Period size: 22 Copynumber: 4.5 Consensus size: 22
152141 CTGTCATGGG
152151 AGCTGCTGGAGGCTACGGTGGA
1 AGCTGCTGGAGGCTACGGTGGA
* *
152173 AGCTGCTGGAGCTGCTAAAAGTTGCTGA
1 AGCTGCTGGAG--GCT--ACGGTG--GA
* *
152201 A-CTGCTGGAGGCTACTGTGGG
1 AGCTGCTGGAGGCTACGGTGGA
* * *
152222 AGCTACTGAAGGCTACTGTGGA
1 AGCTGCTGGAGGCTACGGTGGA
*
152244 AGCGGCTGGAG
1 AGCTGCTGGAG
152255 CTGCTAGAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
21 2 0.03
22 36 0.57
23 3 0.05
24 3 0.05
25 3 0.05
26 4 0.06
27 9 0.14
28 3 0.05
ACGTcount: A:0.21, C:0.18, G:0.39, T:0.21
Consensus pattern (22 bp):
AGCTGCTGGAGGCTACGGTGGA
Found at i:152432 original size:40 final size:40
Alignment explanation
Indices: 152375--152762 Score: 254
Period size: 40 Copynumber: 9.5 Consensus size: 40
152365 CTCCTGCTGT
*
152375 TGGAAGCTGCTGCTGGTGTTGGTTTTGGGTGCTCGTGGAC
1 TGGAAGCTGCTGCTGGTGTTGGTTTTGGATGCTCGTGGAC
* *
152415 TAGAAGCTGCTGCTGGTGTTGGTTTTAGATGCTTC-TGCTG-C
1 TGGAAGCTGCTGCTGGTGTTGGTTTTGGATGC-TCGTG--GAC
* * ** *
152456 TGGAAGCTGCTG-TCGATGTTAGTTTTTTTATGCTCCT--AC
1 TGGAAGCTGCTGCT-GGTGTT-GGTTTTGGATGCTCGTGGAC
* *
152495 TGTTGAAAGCTGCTGCTGGTGTTGGTTTCAGG-TGCTCGTGGAT
1 TG--G-AAGCTGCTGCTGGTGTTGGTTT-TGGATGCTCGTGGAC
* * * * *
152538 TGGAAACTGCTG-TCGGTGTTAGTTTTTTCGATGCTCCTACTG-C
1 TGGAAGCTGCTGCT-GGTGTT-G-GTTTTGGATGCTCGT--GGAC
** * *
152581 TGGAAGCTGCTGCTGGCATTGGTTCTGGGTGCTCGTGGAC
1 TGGAAGCTGCTGCTGGTGTTGGTTTTGGATGCTCGTGGAC
* * * *
152621 TGGAAGCTGTTGCTGGTATTGGTTTCGGATGCTCTTGCTG-C
1 TGGAAGCTGCTGCTGGTGTTGGTTTTGGATGCTCGTG--GAC
* * * *
152662 TGAAAGCTGCTGTTGGTGTTGGTTTCGGGTGCTCGTGGAC
1 TGGAAGCTGCTGCTGGTGTTGGTTTTGGATGCTCGTGGAC
* * * * **
152702 TGGAAGCTGTTGTTGGTGTTGGTTTTTGATGCTCCTACTAC
1 TGGAAGCTGCTGCTGGTGTTGGTTTTGGATGCTCGT-GGAC
*
152743 TGGAAGCTGCTGCTGATGTT
1 TGGAAGCTGCTGCTGGTGTT
152763 TTTTTCTTTG
Statistics
Matches: 268, Mismatches: 54, Indels: 51
0.72 0.14 0.14
Matches are distributed among these distances:
39 6 0.02
40 109 0.41
41 96 0.36
42 36 0.13
43 19 0.07
44 2 0.01
ACGTcount: A:0.12, C:0.17, G:0.34, T:0.38
Consensus pattern (40 bp):
TGGAAGCTGCTGCTGGTGTTGGTTTTGGATGCTCGTGGAC
Done.