Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold143
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: 1221646
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 8
Found at i:1000 original size:13 final size:13
Alignment explanation
Indices: 982--1006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
972 CATATTGCAA
982 TGTATCGATACAT
1 TGTATCGATACAT
995 TGTATCGATACA
1 TGTATCGATACA
1007 CCTTGCAATG
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:1006 original size:33 final size:33
Alignment explanation
Indices: 962--1028 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
952 CACATGAAAA
*
962 TGTATCAATACATATTGCAATGTATCGATACAT
1 TGTATCAATACACATTGCAATGTATCGATACAT
* *
995 TGTATCGATACACCTTGCAATGTATCGATACAT
1 TGTATCAATACACATTGCAATGTATCGATACAT
1028 T
1 T
1029 ATGTGAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
TGTATCAATACACATTGCAATGTATCGATACAT
Found at i:1120 original size:21 final size:21
Alignment explanation
Indices: 1073--1152 Score: 96
Period size: 21 Copynumber: 3.8 Consensus size: 21
1063 CTACCATTCA
1073 AATGTATCGATACACATAT--AGG
1 AATGTATCGATACA-AT-TCCA-G
1095 AATGTATCGATACAATTCCAG
1 AATGTATCGATACAATTCCAG
1116 AATGTATCGATAC-A-TCCAG
1 AATGTATCGATACAATTCCAG
1135 AATTGTATCGATACAATT
1 AA-TGTATCGATACAATT
1153 AGCCCAACGA
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.13
20 13 0.25
21 17 0.32
22 16 0.30
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACAATTCCAG
Found at i:4800 original size:19 final size:19
Alignment explanation
Indices: 4776--4827 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
4766 CGATACATTA
** *
4776 TATCGATACATGTTAATTG
1 TATCGATACATGACAAGTG
4795 TATCGATACATGGACAAGTG
1 TATCGATACAT-GACAAGTG
4815 TATCGATACATGA
1 TATCGATACATGA
4828 GATTGGCGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (19 bp):
TATCGATACATGACAAGTG
Found at i:4899 original size:20 final size:20
Alignment explanation
Indices: 4855--4908 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
4845 CTACCACTGT
4855 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
*
4875 ATGTATCGATACATGATG-A-A
1 TTGTATCGATACATG--GCACA
4895 TTGTATCGATACAT
1 TTGTATCGATACAT
4909 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGGCACA
Found at i:11073 original size:13 final size:13
Alignment explanation
Indices: 11055--11091 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
11045 ATATTCCATA
11055 TATCGATACATTG
1 TATCGATACATTG
*
11068 TATCGATACACTG
1 TATCGATACATTG
11081 TATCGATACAT
1 TATCGATACAT
11092 AGGGTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:13615 original size:13 final size:13
Alignment explanation
Indices: 13597--13623 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13587 ACATTATGCT
13597 TTGTATCGATACA
1 TTGTATCGATACA
13610 TTGTATCGATACA
1 TTGTATCGATACA
13623 T
1 T
13624 GTTAATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:13633 original size:19 final size:19
Alignment explanation
Indices: 13609--13664 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
13599 GTATCGATAC
**
13609 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGACA
13628 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GACA
*
13648 ATTGTATCAATACATGA
1 ATTGTATCGATACATGA
13665 GATTGGCAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:13652 original size:20 final size:20
Alignment explanation
Indices: 13609--13663 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
13599 GTATCGATAC
**
13609 ATTGTATCGATACAT-GTTA
1 ATTGTATCGATACATGGACA
13628 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
*
13648 ATTGTATCAATACATG
1 ATTGTATCGATACATG
13664 AGATTGGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:13736 original size:20 final size:20
Alignment explanation
Indices: 13692--13745 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
13682 CTACCACTGT
13692 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
*
13712 ATGTATCGATACATGATG-A-A
1 TTGTATCGATACATG--GCACA
13732 TTGTATCGATACAT
1 TTGTATCGATACAT
13746 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGGCACA
Found at i:14871 original size:16 final size:15
Alignment explanation
Indices: 14850--14892 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
14840 TAGAAAAATC
*
14850 AATTCAAAATTGAATT
1 AATTCAAAAAT-AATT
14866 AATTCATAAAATAATT
1 AATTCA-AAAATAATT
*
14882 AATTTAAAAAT
1 AATTCAAAAAT
14893 TAGAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 15 0.62
17 4 0.17
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (15 bp):
AATTCAAAAATAATT
Found at i:15500 original size:15 final size:15
Alignment explanation
Indices: 15480--15509 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15470 GTAAAAAAAA
*
15480 TGAAAGCTTTTTGCC
1 TGAAAGCATTTTGCC
15495 TGAAAGCATTTTGCC
1 TGAAAGCATTTTGCC
15510 GTTGGCGCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (15 bp):
TGAAAGCATTTTGCC
Found at i:16420 original size:125 final size:125
Alignment explanation
Indices: 16198--16448 Score: 459
Period size: 125 Copynumber: 2.0 Consensus size: 125
16188 TATATAAGTG
*
16198 AACACTGCATCATGCTTATGGTATTTCTAGATTTTGGTGAAATGACCAAATTATATTGATAAGTT
1 AACACTGCATCATGCTTATGGTATTCCTAGATTTTGGTGAAATGACCAAATTATATTGATAAGTT
16263 GGTTCCTAAAAGGTTTCTACAAGGTTATTATTAACTCTTTAACATTTGGATGATCATGAT
66 GGTTCCTAAAAGGTTTCTACAAGGTTATTATTAACTCTTTAACATTTGGATGATCATGAT
* *
16323 AACACTGCATCATGCTTATGGTCTTCCTAGGATTTT-GTGAAATGATCAAATTATATTGATAAGT
1 AACACTGCATCATGCTTATGGTATTCCTA-GATTTTGGTGAAATGACCAAATTATATTGATAAGT
16387 TGGTTCCTAAAAGGTTTCTACAAGGTTATTATTAACTCTTTAACATTTGGATGATCATGAT
65 TGGTTCCTAAAAGGTTTCTACAAGGTTATTATTAACTCTTTAACATTTGGATGATCATGAT
16448 A
1 A
16449 GGTTACCAGA
Statistics
Matches: 122, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
125 116 0.95
126 6 0.05
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (125 bp):
AACACTGCATCATGCTTATGGTATTCCTAGATTTTGGTGAAATGACCAAATTATATTGATAAGTT
GGTTCCTAAAAGGTTTCTACAAGGTTATTATTAACTCTTTAACATTTGGATGATCATGAT
Found at i:16852 original size:23 final size:24
Alignment explanation
Indices: 16826--16891 Score: 62
Period size: 28 Copynumber: 2.5 Consensus size: 24
16816 AAAATAGATA
*
16826 TTGT-TAAGATAATATGGATAAGT
1 TTGTCTAAGATAATATGGATAAGG
16849 TTGTCTTGCTAAGATAATATGGATAAGG
1 TTG---T-CTAAGATAATATGGATAAGG
16877 TTGTCTTAACGATAA
1 TTGTC-TAA-GATAA
16892 AATGTCTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
23 3 0.09
24 1 0.03
25 4 0.11
26 6 0.17
28 21 0.60
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGTCTAAGATAATATGGATAAGG
Found at i:16870 original size:28 final size:28
Alignment explanation
Indices: 16830--16883 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
16820 TAGATATTGT
*
16830 TAAGATAATATGGATAAGTTTGTCTTGC
1 TAAGATAATATGGATAAGGTTGTCTTGC
16858 TAAGATAATATGGATAAGGTTGTCTT
1 TAAGATAATATGGATAAGGTTGTCTT
16884 AACGATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (28 bp):
TAAGATAATATGGATAAGGTTGTCTTGC
Found at i:17010 original size:82 final size:82
Alignment explanation
Indices: 16954--17150 Score: 367
Period size: 82 Copynumber: 2.4 Consensus size: 82
16944 AGACAATGTC
*
16954 TAAAATAGACATGTCTTAAGATAAGTTGTCTTGATGTTTTAATAAGACAATATGGATAAGGTTGT
1 TAAAATAGACATTTCTTAAGATAAGTTGTCTTGATGTTTTAATAAGACAATATGGATAAGGTTGT
*
17019 ATTAATAAAACAATATT
66 ATTAATAAAACAATATA
17036 TAAAATAGACATTTCTTAAGATAAGTTGTCTTGATGTTTTAATAAGACAATATGGATAAGGTTGT
1 TAAAATAGACATTTCTTAAGATAAGTTGTCTTGATGTTTTAATAAGACAATATGGATAAGGTTGT
*
17101 ATCAATAAAACAATATA
66 ATTAATAAAACAATATA
17118 TAAAATAGACATTTCTTAAGATAAGTTGTCTTG
1 TAAAATAGACATTTCTTAAGATAAGTTGTCTTG
17151 GCCAAACTTG
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 112 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (82 bp):
TAAAATAGACATTTCTTAAGATAAGTTGTCTTGATGTTTTAATAAGACAATATGGATAAGGTTGT
ATTAATAAAACAATATA
Found at i:20586 original size:51 final size:52
Alignment explanation
Indices: 20509--20624 Score: 209
Period size: 52 Copynumber: 2.2 Consensus size: 52
20499 TTATAACAAA
20509 AAGGGGAGAAAATCTTGAAATTTTTTTTT-AGAGAGCCTTTATTATTTTATC
1 AAGGGGAGAAAATCTTGAAATTTTTTTTTAAGAGAGCCTTTATTATTTTATC
20560 AAGGGGGAGAAAATCTTG-AATTTTTTTTTAAGAGAGCCTTTATTATTTTATC
1 AA-GGGGAGAAAATCTTGAAATTTTTTTTTAAGAGAGCCTTTATTATTTTATC
20612 AAGGGGAGAAAAT
1 AAGGGGAGAAAAT
20625 ATTTTTAAGG
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
51 24 0.38
52 39 0.62
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.39
Consensus pattern (52 bp):
AAGGGGAGAAAATCTTGAAATTTTTTTTTAAGAGAGCCTTTATTATTTTATC
Found at i:21502 original size:34 final size:35
Alignment explanation
Indices: 21464--21530 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
21454 CCTTACAATA
21464 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
21498 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
21531 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:22018 original size:13 final size:13
Alignment explanation
Indices: 22000--22025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21990 ACTATTTATG
22000 ATGTATCGATACA
1 ATGTATCGATACA
22013 ATGTATCGATACA
1 ATGTATCGATACA
22026 TGAATAGTGA
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:22128 original size:21 final size:22
Alignment explanation
Indices: 22096--22173 Score: 140
Period size: 22 Copynumber: 3.6 Consensus size: 22
22086 ACAGTGACCT
*
22096 ATGAACTGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
22118 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
22139 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
22161 ATGAACAGTGATG
1 ATGAACAGTGATG
22174 AACAGTGAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
21 20 0.37
22 34 0.63
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:22273 original size:53 final size:53
Alignment explanation
Indices: 22205--22340 Score: 254
Period size: 53 Copynumber: 2.6 Consensus size: 53
22195 CTACTACCAA
22205 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
22258 TGTATCGATAAATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
22311 TGTATCGATACATATTGTGTGTATCGATAC
1 TGTATCGATACATATTGTGTGTATCGATAC
22341 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 80 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:22373 original size:20 final size:20
Alignment explanation
Indices: 22311--22380 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
22301 GCCAATGTCC
*
22311 TGTATCGATACATATT-GTG
1 TGTATCGATACATATTAATG
* *
22330 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
22350 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
*
22370 TGTATCAATAC
1 TGTATCGATAC
22381 TTTTCAGGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 3 0.07
19 11 0.27
20 26 0.63
21 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:23078 original size:13 final size:13
Alignment explanation
Indices: 23060--23084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23050 ACTGAAGTAA
23060 TGTATCGATACAT
1 TGTATCGATACAT
23073 TGTATCGATACA
1 TGTATCGATACA
23085 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:30191 original size:21 final size:21
Alignment explanation
Indices: 30152--30191 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30142 ATGCATTTCT
* *
30152 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
30173 TCATCTTCATCATCATCTT
1 TCATCTTCATCAACATCTT
30192 CAACAATTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.30, G:0.03, T:0.45
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:31324 original size:34 final size:35
Alignment explanation
Indices: 31286--31352 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
31276 CCTTACAACA
31286 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
31320 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
31353 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:31840 original size:13 final size:13
Alignment explanation
Indices: 31822--31847 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31812 ACTATTTATG
31822 ATGTATCGATACA
1 ATGTATCGATACA
31835 ATGTATCGATACA
1 ATGTATCGATACA
31848 TGAATAGTGA
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:31919 original size:36 final size:33
Alignment explanation
Indices: 31835--31927 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 33
31825 TATCGATACA
*
31835 ATGTATCGATACATGAATAGTG-ATGTACAGTG
1 ATGTATCGATACATGAATAGTGAATGAACAGTG
* *
31867 ATTTTTATCGATACATGAATAGTGACCTATGAACTGTG
1 A--TGTATCGATACATGAATAGTGA---ATGAACAGTG
*
31905 ATGTATCGATACATGAACAGTGA
1 ATGTATCGATACATGAATAGTGA
31928 TGTATCGATA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
32 1 0.02
34 20 0.40
36 20 0.40
38 9 0.18
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACATGAATAGTGAATGAACAGTG
Found at i:31927 original size:22 final size:22
Alignment explanation
Indices: 31895--31951 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
31885 ATAGTGACCT
*
31895 ATGAACTGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
31917 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
31939 ATGAACAGTGATG
1 ATGAACAGTGATG
31952 AACAGTGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:32049 original size:53 final size:53
Alignment explanation
Indices: 31983--32118 Score: 254
Period size: 53 Copynumber: 2.6 Consensus size: 53
31973 CTACTGCCAA
*
31983 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTGGGCTACTGCCAATGACC
*
32036 TGTATCGATACATATTGTGTGTATCGATACAAATTGGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTGGGCTACTGCCAATGACC
32089 TGTATCGATACATATTGTGTGTATCGATAC
1 TGTATCGATACATATTGTGTGTATCGATAC
32119 TATGCAATCT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 81 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTGGGCTACTGCCAATGACC
Found at i:32151 original size:20 final size:20
Alignment explanation
Indices: 32089--32158 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
32079 GCCAATGTCC
*
32089 TGTATCGATACATATT-GTG
1 TGTATCGATACATATTAATG
* *
32108 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
32128 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
32148 TGTATCGATAC
1 TGTATCGATAC
32159 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 3 0.07
19 11 0.26
20 27 0.64
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:32224 original size:21 final size:21
Alignment explanation
Indices: 32198--32238 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
32188 GTCAACCTTG
32198 TGTATTGATACCAATA-GTATA
1 TGTATTGATA-CAATACGTATA
32219 TGTATTGATACAATACGTAT
1 TGTATTGATACAATACGTAT
32239 TTTTACTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (21 bp):
TGTATTGATACAATACGTATA
Found at i:32534 original size:13 final size:13
Alignment explanation
Indices: 32516--32540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32506 CATGGCACAT
32516 TGTATCGATACAA
1 TGTATCGATACAA
32529 TGTATCGATACA
1 TGTATCGATACA
32541 TGAAGAATTA
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:33602 original size:13 final size:13
Alignment explanation
Indices: 33584--33609 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33574 AATATTTTGG
33584 TGTATCGATACAT
1 TGTATCGATACAT
33597 TGTATCGATACAT
1 TGTATCGATACAT
33610 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:33621 original size:32 final size:34
Alignment explanation
Indices: 33563--33627 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
33553 TACAAGCCAA
*
33563 TGTATCGATACAATATTTTGGTGTATCGATACAT
1 TGTATCGATACAATATCTTGGTGTATCGATACAT
33597 TGTATCGATAC-ATA-CTTGGTGTATCGATACA
1 TGTATCGATACAATATCTTGGTGTATCGATACA
33628 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 16 0.53
33 3 0.10
34 11 0.37
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (34 bp):
TGTATCGATACAATATCTTGGTGTATCGATACAT
Found at i:36199 original size:13 final size:13
Alignment explanation
Indices: 36181--36205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36171 ATAATCCCCC
36181 TGTATCGATACAT
1 TGTATCGATACAT
36194 TGTATCGATACA
1 TGTATCGATACA
36206 AAGAAAAATG
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:41833 original size:13 final size:13
Alignment explanation
Indices: 41815--41840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41805 AATTTTTTGG
41815 TGTATCGATACAT
1 TGTATCGATACAT
41828 TGTATCGATACAT
1 TGTATCGATACAT
41841 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:46681 original size:28 final size:29
Alignment explanation
Indices: 46641--46979 Score: 356
Period size: 28 Copynumber: 11.7 Consensus size: 29
46631 CTAGAATGTT
*
46641 CATCTC-TTCAAAGCCCACAGGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
46669 CATCTC-TTCAAAGCCCACAGGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* * *
46697 TATC-CTTTTAAAGCCCATAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
46725 CATCTC-TTCAAAGCCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
46753 CATC-CTTTCAAAGCCCATAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
46781 CA-CCCTTTTCAAAGCCCACAAGTCGGTGG
1 CATCTC-TTTCAAAGCCCACAAGTCAGTGG
*
46810 CAACTCTTTTCAAAGTCCACACAAGTCAGTGG
1 CATCTC-TTTCAAAG-CC-CACAAGTCAGTGG
* * *
46842 CAACTCTTTTCAAAGCCCACACAAATCGGTGG
1 CATCTC-TTTCAAAG-CC-CACAAGTCAGTGG
*
46874 CA-CCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
46902 CATACCCTTTCAAAGCCCACAAGTC-GATGG
1 CAT-CTCTTTCAAAGCCCACAAGTCAG-TGG
* * *
46932 CA-CCCTTTCAAACCCCACAAGTCAATGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* *
46960 CA-CCCTTTTAAAGCCCACAA
1 CATCTCTTTCAAAGCCCACAA
46980 AAGTCGGTGG
Statistics
Matches: 277, Mismatches: 22, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.01
28 155 0.56
29 27 0.10
30 45 0.16
31 4 0.01
32 43 0.16
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
CATCTCTTTCAAAGCCCACAAGTCAGTGG
Found at i:46991 original size:30 final size:29
Alignment explanation
Indices: 46647--47025 Score: 314
Period size: 28 Copynumber: 12.9 Consensus size: 29
46637 TGTTCATCTC
* *
46647 TTCAAAGCCCAC-AGGTCAGTGGCA-TCT
1 TTCAAAGCCCACAAAGTCAGTGGCACCCT
* * *
46674 CTTCAAAGCCCAC-AGGTCAGTGGTATCCT
1 -TTCAAAGCCCACAAAGTCAGTGGCACCCT
* * *
46703 TTTAAAGCCCA-TAAGTCAGTGGCA-TCT
1 TTCAAAGCCCACAAAGTCAGTGGCACCCT
*
46730 CTTCAAAGCCCAC-AAGTCAGTGGCATCCT
1 -TTCAAAGCCCACAAAGTCAGTGGCACCCT
*
46759 TTCAAAGCCCA-TAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAAGTCAGTGGCACCC-T
* *
46788 TTCAAAGCCCAC-AAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAAGTCAGTGGC-AC-CCT
* *
46818 TTCAAAGTCCACACAAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACA-AAGTCAGTGGC-AC-CCT
* *
46850 TTCAAAGCCCACACAAATCGGTGGCACCCT
1 TTCAAAGCCCACA-AAGTCAGTGGCACCCT
46880 TTCAAAGCCCAC-AAGTCAGTGGCATACCCT
1 TTCAAAGCCCACAAAGTCAGTGGC--ACCCT
46910 TTCAAAGCCCAC-AAGTC-GATGGCACCCT
1 TTCAAAGCCCACAAAGTCAG-TGGCACCCT
* *
46938 TTCAAACCCCAC-AAGTCAATGGCACCCT
1 TTCAAAGCCCACAAAGTCAGTGGCACCCT
* * *
46966 TTTAAAGCCCACAAAAGTCGGTGGCAACACT
1 TTCAAAGCCCAC-AAAGTCAGTGGC-ACCCT
* * *
46997 TTCAGAGGCCCATACAAGTTAGTGGCACC
1 TTCA-AAGCCCACA-AAGTCAGTGGCACC
47026 TTTTTTTAAA
Statistics
Matches: 298, Mismatches: 32, Indels: 39
0.81 0.09 0.11
Matches are distributed among these distances:
27 2 0.01
28 139 0.47
29 27 0.09
30 63 0.21
31 13 0.04
32 54 0.18
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (29 bp):
TTCAAAGCCCACAAAGTCAGTGGCACCCT
Found at i:47956 original size:20 final size:20
Alignment explanation
Indices: 47931--48054 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
47921 TTTTACTGAG
*
47931 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
47951 ATGTATCGATACATTCTATCTTTCACTA
1 ATGTATCGATACA---T-T-TTT--C-A
47979 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * * *
48000 ATGTATCGATACGTGTATGA
1 ATGTATCGATACATTTTTCA
48020 ATGTATCGATACATTCTTT-A
1 ATGTATCGATACATT-TTTCA
48040 ATGTATCGATACATT
1 ATGTATCGATACATT
48055 CTATCGTTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
20 57 0.66
21 3 0.03
22 1 0.01
23 1 0.01
24 4 0.05
25 4 0.05
26 1 0.01
27 1 0.01
28 1 0.01
29 13 0.15
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:54588 original size:29 final size:29
Alignment explanation
Indices: 54554--54610 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
54544 GTGTGGCACC
* *
54554 CTTTTCCGAAGCCCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGCCAGTGGCAT
54583 CTTTTCCAAAGCCCACAAGCCAGTGGCA
1 CTTTTCCAAAGCCCACAAGCCAGTGGCA
54611 ACCTTCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.21
Consensus pattern (29 bp):
CTTTTCCAAAGCCCACAAGCCAGTGGCAT
Found at i:54756 original size:34 final size:34
Alignment explanation
Indices: 54623--54781 Score: 189
Period size: 33 Copynumber: 4.7 Consensus size: 34
54613 CTTCTAAAGT
* *
54623 CCACAACTCTGTGGCACCTTTTTTTCTTTTTAAAGC
1 CCACAACTCTGTGGCA-CTCTTTTTCCTTTT-AAGC
* *
54659 CCACAACTCTGTGGCACTC-TTTTCCTTCTAAGT
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
* *
54692 CCACAA-TGCCGTGGCACT-TTCTTCCTTTTAAGC
1 CCACAACT-CTGTGGCACTCTTTTTCCTTTTAAGC
*
54725 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
* *
54759 CCATAACTCTGTGGCACCCTTTT
1 CCACAACTCTGTGGCACTCTTTT
54782 AAGCCCACAA
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
32 1 0.01
33 44 0.42
34 43 0.41
35 2 0.02
36 16 0.15
ACGTcount: A:0.18, C:0.31, G:0.13, T:0.38
Consensus pattern (34 bp):
CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
Found at i:54773 original size:67 final size:68
Alignment explanation
Indices: 54612--54775 Score: 226
Period size: 67 Copynumber: 2.4 Consensus size: 68
54602 CCAGTGGCAA
* *
54612 CCTTCTAAAGTCCACAACTCTGTGGCACCTTTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACT
1 CCTTCT-AAGTCCACAACTCTGTGGCA-CTTTTCTTCCTTTTAAAGCCCACAACTCTGTGGCACT
54677 CTTTT
64 CTTTT
*
54682 CCTTCTAAGTCCACAA-TGCCGTGGCAC-TTTCTTCCTTTT-AAGCCCACAACTCTGTGGCACTC
1 CCTTCTAAGTCCACAACT-CTGTGGCACTTTTCTTCCTTTTAAAGCCCACAACTCTGTGGCACTC
54744 TTTTT
65 -TTTT
* *
54749 CCTTTTAAGTCCATAACTCTGTGGCAC
1 CCTTCTAAGTCCACAACTCTGTGGCAC
54776 CCTTTTAAGC
Statistics
Matches: 85, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
66 23 0.27
67 36 0.42
68 3 0.04
69 17 0.20
70 6 0.07
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.37
Consensus pattern (68 bp):
CCTTCTAAGTCCACAACTCTGTGGCACTTTTCTTCCTTTTAAAGCCCACAACTCTGTGGCACTCT
TTT
Found at i:54780 original size:27 final size:28
Alignment explanation
Indices: 54749--54820 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
54739 CACTCTTTTT
* *
54749 CCTTTTAAGTCCATAACTCT-GTGGCA-C
1 CCTTTTAAGCCCACAACT-TGGTGGCACC
*
54776 CCTTTTAAGCCCACAAGTTGGTGGCACC
1 CCTTTTAAGCCCACAACTTGGTGGCACC
54804 CCTTTTAAAGCCCACAA
1 CCTTTT-AAGCCCACAA
54821 GTCAGTGGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 21 0.54
28 7 0.18
29 10 0.26
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (28 bp):
CCTTTTAAGCCCACAACTTGGTGGCACC
Found at i:54819 original size:29 final size:28
Alignment explanation
Indices: 54769--54876 Score: 103
Period size: 28 Copynumber: 3.8 Consensus size: 28
54759 CCATAACTCT
*
54769 GTGGCACCCTTT-TAAGCCCACAAGTTG
1 GTGGCACCCTTTAAAAGCCCACAAGTTG
* **
54796 GTGGCACCCCTTTTAAAGCCCACAAGTCA
1 GTGGCA-CCCTTTAAAAGCCCACAAGTTG
* * *
54825 GTGGCAACCTTCAAAAGCACACAAGTTG
1 GTGGCACCCTTTAAAAGCCCACAAGTTG
*
54853 AT-GCAACCCTTTCAAAAGCCCACA
1 GTGGC-ACCCTTT-AAAAGCCCACA
54877 CAAGTTGATG
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
27 8 0.12
28 28 0.44
29 28 0.44
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (28 bp):
GTGGCACCCTTTAAAAGCCCACAAGTTG
Found at i:55237 original size:19 final size:18
Alignment explanation
Indices: 55212--55276 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
55202 ATTTCAACGA
55212 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
55230 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
55246 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
55262 TTTTGTATCGATACA
1 -TTTGTATCGATACA
55277 ATGTACAGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:55250 original size:32 final size:32
Alignment explanation
Indices: 55214--55281 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
55204 TTCAACGATT
55214 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
55246 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
55278 TGTA
1 TGTA
55282 CAGTGACGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:55251 original size:13 final size:13
Alignment explanation
Indices: 55233--55257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55223 ACATAAGTGT
55233 TGTATCGATACAA
1 TGTATCGATACAA
55246 TGTATCGATACA
1 TGTATCGATACA
55258 TAAGTTTTGT
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:55427 original size:52 final size:52
Alignment explanation
Indices: 55341--55465 Score: 234
Period size: 52 Copynumber: 2.4 Consensus size: 52
55331 CACTGATCTT
*
55341 TGTATAGATACA-GCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
55392 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
55444 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
55466 ATTTCATATT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
51 11 0.15
52 61 0.85
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:56359 original size:20 final size:20
Alignment explanation
Indices: 56322--56360 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56312 ACAACCTTGA
*
56322 TCATGCATTTTTACCATGTT
1 TCATGCATTTATACCATGTT
*
56342 TCATGCATTTATAGCATGT
1 TCATGCATTTATACCATGT
56361 CCAGCACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TCATGCATTTATACCATGTT
Found at i:62159 original size:28 final size:28
Alignment explanation
Indices: 62015--62298 Score: 246
Period size: 28 Copynumber: 9.6 Consensus size: 28
62005 TTCAAAGTCT
* *
62015 CCTTTCCAAAGCCCACAAGTTAGTGGTAC
1 CCTTT-CAAAGCCCACAAGTCAGTGGCAC
* *
62044 CCTTTTCAAAGCCCACAAGTTAGTGGTAAC
1 CC-TTTCAAAGCCCACAAGTCAGTGG-CAC
*
62074 TCTTTTCAAAGTCCACACAAGTC-GATGGCAAC
1 -CCTTTCAAAG-CC-CACAAGTCAG-TGGC-AC
* *
62106 TCTTTTCAAAGCCCACACAAATCAGTGGCAC
1 -CCTTTCAAAG-CC-CACAAGTCAGTGGCAC
* *
62137 CCTTCCAAAGCCCACAAATCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
62165 CCTTTCAAAGACCACAAGTTAGTGGCATAC
1 CCTTTCAAAGCCCACAAGTCAGTGGC--AC
*
62195 CCTTTCAAAGCCCACAAGTCGGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
62223 TCTTTCAAAGCCCACAAGACGGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
62251 CCTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTTCAAAG-CC-CACAAGTCAGTGGC-AC
* *
62282 TCTTTTCGAAGCCCACA
1 -CCTTTCAAAGCCCACA
62299 CAAGTTAGTG
Statistics
Matches: 220, Mismatches: 21, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
28 75 0.34
29 26 0.12
30 63 0.29
31 10 0.05
32 45 0.20
33 1 0.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:62197 original size:58 final size:57
Alignment explanation
Indices: 62015--62311 Score: 258
Period size: 58 Copynumber: 5.0 Consensus size: 57
62005 TTCAAAGTCT
* * *
62015 CCTTTCCAAAGCCCACAAGTTAGTGGTACCCTTTTCAAAGCCCACAAGTTAGTGGTAAC
1 CCTTT-CAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTTAGTGGCAAC
* * * *
62074 TCTTTTCAAAGTCCACACAAGTC-GATGGCAACTCTTTTCAAAGCCCACACAAATCAGTGGC-AC
1 -CCTTTCAAAG-CC-CACAAGTCAG-TGGC-AC-CCTTTCAAAG-CC-CACAAGTTAGTGGCAAC
* * *
62137 CCTTCCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGACCACAAGTTAGTGGCATAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCA-AC
* * ***
62195 CCTTTCAAAGCCCACAAGTCGGTGGCACTCTTTCAAAGCCCACAAGACGGTGGC-AC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAAC
* * *
62251 CCTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCGAAGCCCACACAAGTTAGTGGCA
1 CCTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTTAGTGGCA
62312 GTTTTTTTAA
Statistics
Matches: 192, Mismatches: 28, Indels: 31
0.76 0.11 0.12
Matches are distributed among these distances:
56 24 0.12
57 3 0.02
58 71 0.37
59 9 0.05
60 25 0.13
61 15 0.08
62 29 0.15
63 5 0.03
64 11 0.06
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (57 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAAC
Found at i:62353 original size:34 final size:31
Alignment explanation
Indices: 62057--62353 Score: 114
Period size: 32 Copynumber: 9.7 Consensus size: 31
62047 TTTCAAAGCC
** * * *
62057 CACAAGTTAGTGGTAACTCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACT-TTTTAAAAGCCCA
* *
62089 CACAAGTCGATGGCAACTCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACT-TTTTAAAAGCCCA
* * ** **
62121 CACAAATCAGTGGC-ACCCTTCCAAAGCCCA
1 CACAAGTCGGTGGCAACTTTTTAAAAGCCCA
* ** * *
62151 CA-AA-TCAGTGGC-ACCCTTTCAAAG-AC-
1 CACAAGTCGGTGGCAACTTTTTAAAAGCCCA
** ** *
62177 CACAAGTTAGTGGCATACCCTTTCAAAG-CC-
1 CACAAGTCGGTGGCA-ACTTTTTAAAAGCCCA
* *
62207 CACAAGTCGGTGGC-ACTCTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTTTTTAAAAGCCCA
* ** *
62235 CACAAGACGGTGGC-ACCCTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTTTTTAAAAGCCCA
**
62265 CACAAGTCGGTGGCAACTCTTTTCGAAGCCCA
1 CACAAGTCGGTGGCAACT-TTTTAAAAGCCCA
** **
62297 CACAAGTTAGTGGCAGTTTTTTTAAAAAAGCCCA
1 CACAAGTCGGTGGCA-ACTTTTT--AAAAGCCCA
*
62331 CATAAGTCGGTGGCAACCTTTTT
1 CACAAGTCGGTGGCAA-CTTTTT
62354 CAAATCACCA
Statistics
Matches: 218, Mismatches: 35, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.01
27 3 0.01
28 63 0.29
29 4 0.02
30 51 0.23
31 4 0.02
32 66 0.30
33 1 0.00
34 24 0.11
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (31 bp):
CACAAGTCGGTGGCAACTTTTTAAAAGCCCA
Found at i:63223 original size:30 final size:31
Alignment explanation
Indices: 63189--63264 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
63179 TACATTTTCA
*
63189 ATGTATTGATACATTCTA-TCTTCTACCCAG
1 ATGTATCGATACATTCTATTCTTCTACCCAG
* *
63219 ATGTATCGATACATTCTATTTTTTTACCCAG
1 ATGTATCGATACATTCTATTCTTCTACCCAG
63250 ATGTATCGATACATT
1 ATGTATCGATACATT
63265 TTTCAATGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 17 0.40
31 25 0.60
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.42
Consensus pattern (31 bp):
ATGTATCGATACATTCTATTCTTCTACCCAG
Found at i:67108 original size:46 final size:46
Alignment explanation
Indices: 67002--67184 Score: 152
Period size: 46 Copynumber: 4.0 Consensus size: 46
66992 AAACAAACTT
* * * * * *
67002 TTTTCATCCTCGTTTGACAGTATTGGTTATCACGCTAGTCAAACCC
1 TTTTCATCCTTGTTTGACTGTATCGGTTACCACTCTAGTCAAACCA
** * * * *
67048 TTTTGGTTCTTGTTTGACTGTATTGGTAACCACTTTAGTCAAACCA
1 TTTTCATCCTTGTTTGACTGTATCGGTTACCACTCTAGTCAAACCA
* * * *
67094 TTTTCATCCGTGTTTGACTGTATCGATTACCACCCTAGTCAGA-CA
1 TTTTCATCCTTGTTTGACTGTATCGGTTACCACTCTAGTCAAACCA
* * * * * *
67139 CTTTTCATCTTTATTTGACTGTATCAGTCATCACTTTAGTCAAACC
1 -TTTTCATCCTTGTTTGACTGTATCGGTTACCACTCTAGTCAAACC
67185 CTGGTCAAAC
Statistics
Matches: 105, Mismatches: 30, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
45 2 0.02
46 102 0.97
47 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TTTTCATCCTTGTTTGACTGTATCGGTTACCACTCTAGTCAAACCA
Found at i:67459 original size:42 final size:41
Alignment explanation
Indices: 67319--67460 Score: 131
Period size: 41 Copynumber: 3.4 Consensus size: 41
67309 CCAGGTAAAT
* * *
67319 CCTTTTATCCTTTTTTGACTTATTAGTTCAATCTCGGTCAA
1 CCTTTTATCCTTTGTTGACTTATTAGTTTAATCCCGGTCAA
* * * * * ** *
67360 CCTTTTATCCTTTGTTTACCTATCAATTTAGTCTCAAGTAAA
1 CCTTTTATCCTTTGTTGACTTATTAGTTTAATC-CCGGTCAA
* * *
67402 TCCTTTTATCGTTTGTTGACTTGTTGGTTTAATCCCGGTCAA
1 -CCTTTTATCCTTTGTTGACTTATTAGTTTAATCCCGGTCAA
67444 CCTTTTTATCCTTTGTT
1 CC-TTTTATCCTTTGTT
67461 TACCTATCGG
Statistics
Matches: 75, Mismatches: 23, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
41 28 0.37
42 22 0.29
43 25 0.33
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.49
Consensus pattern (41 bp):
CCTTTTATCCTTTGTTGACTTATTAGTTTAATCCCGGTCAA
Found at i:67486 original size:85 final size:85
Alignment explanation
Indices: 67261--67712 Score: 456
Period size: 85 Copynumber: 5.3 Consensus size: 85
67251 AATTTGTCAG
* * * * *
67261 TTCATTCCCGGTTAACCTTTTTATCCTTTATTTACCTATCGGCTTAGCCCAG-GTAAATCCTTTT
1 TTCAATCCCGGTCAACCTTTTTATCCTTTGTTTACCTATCGGCTTAGTCTAGAGTAAATCCTTTT
* *
67325 ATCCTTTTTTGACTTATT-A
66 ATCCTTTGTTGACTTGTTGA
* ***
67344 GTTCAATCTCGGTCAACC-TTTTATCCTTTGTTTACCTATCAATTTAGTCTCA-AGTAAATCCTT
1 -TTCAATCCCGGTCAACCTTTTTATCCTTTGTTTACCTATCGGCTTAGTCT-AGAGTAAATCCTT
* *
67407 TTATCGTTTGTTGACTTGTTGG
64 TTATCCTTTGTTGACTTGTTGA
* *
67429 TTTAATCCCGGTCAACCTTTTTATCCTTTGTTTACCTATCGGCTTAGTCTAGAGTAAATCCTTTC
1 TTCAATCCCGGTCAACCTTTTTATCCTTTGTTTACCTATCGGCTTAGTCTAGAGTAAATCCTTTT
* *
67494 ATCCTTTATTGACTTGTCGA
66 ATCCTTTGTTGACTTGTTGA
* * *
67514 TTCAATCCCAGTCAA-CTCTTTCATCCTTTGTTTACCTATCAGCTTAGTCCTAG-GTAAATCCTT
1 TTCAATCCCGGTCAACCT-TTTTATCCTTTGTTTACCTATCGGCTTAGT-CTAGAGTAAATCCTT
**
67577 TTATCCTTTGTTGACTTGTCAA
64 TTATCCTTTGTTGACTTGTTGA
* * * * *
67599 TTCAATCCTGATCAACTCTTTCTT-TCC-TTGTTTACCTGTTGGCTTAGTCTCA-AGTAAATCTT
1 TTCAATCCCGGTCAAC-CTTT-TTATCCTTTGTTTACCTATCGGCTTAGTCT-AGAGTAAATCCT
* **
67661 TTTATCCTTTCTTGGTTTGTTGA
63 TTTATCCTTTGTTGACTTGTTGA
* * * *
67684 TTTAA-CCCTAGTCAACCTTTGTATGCTTT
1 TTCAATCCC-GGTCAACCTTTTTATCCTTT
67713 ATCTACCTGT
Statistics
Matches: 304, Mismatches: 49, Indels: 29
0.80 0.13 0.08
Matches are distributed among these distances:
83 27 0.09
84 70 0.23
85 195 0.64
86 9 0.03
87 3 0.01
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.46
Consensus pattern (85 bp):
TTCAATCCCGGTCAACCTTTTTATCCTTTGTTTACCTATCGGCTTAGTCTAGAGTAAATCCTTTT
ATCCTTTGTTGACTTGTTGA
Found at i:67499 original size:43 final size:42
Alignment explanation
Indices: 67279--67588 Score: 184
Period size: 42 Copynumber: 7.3 Consensus size: 42
67269 CGGTTAACCT
* * * *
67279 TTTTATCCTTTATTTACCTATCGGCTTAGCCCAGGTAAATCC
1 TTTTATCCTTTGTTTACCTATCAGCTTAGTCTAGGTAAATCC
* * * * *
67321 TTTTATCCTTT-TTTGACTTATTAG-TTCAATCTCGGTCAA-CC
1 TTTTATCCTTTGTTT-ACCTATCAGCTT-AGTCTAGGTAAATCC
** *
67362 TTTTATCCTTTGTTTACCTATCAATTTAGTCTCAAGTAAATCC
1 TTTTATCCTTTGTTTACCTATCAGCTTAGTCT-AGGTAAATCC
* * * * ** * * ** *
67405 TTTTATCGTTTGTTGACTTGTTGGTTTAATCCCGGTCAA-CC
1 TTTTATCCTTTGTTTACCTATCAGCTTAGTCTAGGTAAATCC
*
67446 TTTTTATCCTTTGTTTACCTATCGGCTTAGTCTAGAGTAAATCC
1 -TTTTATCCTTTGTTTACCTATCAGCTTAGTCTAG-GTAAATCC
* * * * * * * * *
67490 TTTCATCCTTTATTGACTTGTC-GATTCAATCCCA-GTCAA-CTC
1 TTTTATCCTTTGTTTACCTATCAGCTT-AGT-CTAGGTAAATC-C
*
67532 TTTCATCCTTTGTTTACCTATCAGCTTAGTCCTAGGTAAATCC
1 TTTTATCCTTTGTTTACCTATCAGCTTAGT-CTAGGTAAATCC
67575 TTTTATCCTTTGTT
1 TTTTATCCTTTGTT
67589 GACTTGTCAA
Statistics
Matches: 198, Mismatches: 55, Indels: 29
0.70 0.20 0.10
Matches are distributed among these distances:
41 31 0.16
42 93 0.47
43 69 0.35
44 5 0.03
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (42 bp):
TTTTATCCTTTGTTTACCTATCAGCTTAGTCTAGGTAAATCC
Found at i:67589 original size:170 final size:169
Alignment explanation
Indices: 67254--67670 Score: 504
Period size: 170 Copynumber: 2.5 Consensus size: 169
67244 ATTAGTTAAT
* * * * * *
67254 TTGTCAGTTCATTCCCGGTTAACCTTTTTATCCTTTATTTACCTATCGGCTTAGCCCAG-GTAAA
1 TTGTCAATTCAATCCCGGTCAACCTTTTTATCCTTTGTTTACCTATCGGCTTAGTCTAGAGTAAA
* * * * *
67318 TCCTTTTATCCTTTTTTGACTTATTAGTTCAATCTCGGTCAACCTTTTATCCTTTGTTTACCTAT
66 TCCTTTTATCCTTTATTGACTTATGAGTTCAATCCCAGTCAACCTTTCATCCTTTGTTTACCTAT
* *
67383 CAATTTAGTCTCAAGTAAATCCTTTTATCGTTTGTTGAC
131 CAACTTAGTCTCAAGTAAATCCTTTTATCCTTTGTTGAC
*** *
67422 TTGTTGGTTTAATCCCGGTCAACCTTTTTATCCTTTGTTTACCTATCGGCTTAGTCTAGAGTAAA
1 TTGTCAATTCAATCCCGGTCAACCTTTTTATCCTTTGTTTACCTATCGGCTTAGTCTAGAGTAAA
* *
67487 TCCTTTCATCCTTTATTGACTTGTCGA-TTCAATCCCAGTCAACTCTTTCATCCTTTGTTTACCT
66 TCCTTTTATCCTTTATTGACTTAT-GAGTTCAATCCCAGTCAAC-CTTTCATCCTTTGTTTACCT
* *
67551 ATCAGCTTAGTC-CTAGGTAAATCCTTTTATCCTTTGTTGAC
129 ATCAACTTAGTCTC-AAGTAAATCCTTTTATCCTTTGTTGAC
* * * *
67592 TTGTCAATTCAATCCTGATCAACTCTTTCTT-TCC-TTGTTTACCTGTTGGCTTAGTCTCA-AGT
1 TTGTCAATTCAATCCCGGTCAAC-CTTT-TTATCCTTTGTTTACCTATCGGCTTAGTCT-AGAGT
*
67654 AAATCTTTTTATCCTTT
63 AAATCCTTTTATCCTTT
67671 CTTGGTTTGT
Statistics
Matches: 213, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
168 51 0.24
169 41 0.19
170 111 0.52
171 8 0.04
172 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (169 bp):
TTGTCAATTCAATCCCGGTCAACCTTTTTATCCTTTGTTTACCTATCGGCTTAGTCTAGAGTAAA
TCCTTTTATCCTTTATTGACTTATGAGTTCAATCCCAGTCAACCTTTCATCCTTTGTTTACCTAT
CAACTTAGTCTCAAGTAAATCCTTTTATCCTTTGTTGAC
Found at i:68826 original size:170 final size:175
Alignment explanation
Indices: 68467--68884 Score: 412
Period size: 181 Copynumber: 2.4 Consensus size: 175
68457 TTATCCGTAA
* * *
68467 GGGTATAAAAATATTTAAAACTTTTCGTATCTTTTCGATTTTCTTTTAAGGTACAAAATAAAATT
1 GGGTATAAAAATATTCAAAACTTTTCGTATCTTTTAGATTTTCTATTAAGGTACAAAATAAAATT
* *
68532 TTTGAAAATAAAAAATTATAAAATAAATAAAATAATAGATAAATATTATTTTATCACTAAATAAA
66 TTTGAAAAT----AA-TATAAAATAAATAAAATAATAAATAAATATTACTTTAT-ACTAAATAAA
* * * **
68597 AATATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCAATAG
125 AATATCACCTTAATTTTTCAAAATTTCTAATATTCCTATGGTCATCAATAG
* * *
68648 GGGTATAAAAATCTTCAAAACTTTTCGTATCTATTTAG-TTCTT-TATTAAGGTACGAAATAGAA
1 GGGTATAAAAATATTCAAAACTTTTCGTATCT-TTTAGATT-TTCTATTAAGGTACAAAATAAAA
*
68711 TTTTTGAGAAT-A-A-AAAAT-AATAAAATAATAAATAAATATTACTTTAT-CT-AATAAAAATT
64 TTTTTGAAAATAATATAAAATAAATAAAATAATAAATAAATATTACTTTATACTAAATAAAAA-T
**
68770 ATCACCTTAAATTTTT-AAAATTTCTAATATT-CTCATAGG-CATCCGT-G
128 ATCACCTT-AATTTTTCAAAATTTCTAATATTCCT-AT-GGTCATCAATAG
* * * ** * * *
68817 TGGGTATAAAAATTTTCAAAACTTTTTGTA-CTTTTCGATCCTCTATTAAGGCATAAAATGAAAT
1 -GGGTATAAAAATATTCAAAACTTTTCGTATCTTTTAGATTTTCTATTAAGGTACAAAATAAAAT
68881 TTTT
65 TTTT
68885 TAGAAAACAA
Statistics
Matches: 202, Mismatches: 26, Indels: 30
0.78 0.10 0.12
Matches are distributed among these distances:
168 5 0.02
169 34 0.17
170 55 0.27
171 9 0.04
172 27 0.13
173 5 0.02
174 1 0.00
176 1 0.00
181 59 0.29
182 6 0.03
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (175 bp):
GGGTATAAAAATATTCAAAACTTTTCGTATCTTTTAGATTTTCTATTAAGGTACAAAATAAAATT
TTTGAAAATAATATAAAATAAATAAAATAATAAATAAATATTACTTTATACTAAATAAAAATATC
ACCTTAATTTTTCAAAATTTCTAATATTCCTATGGTCATCAATAG
Found at i:72009 original size:52 final size:53
Alignment explanation
Indices: 71896--72031 Score: 136
Period size: 52 Copynumber: 2.6 Consensus size: 53
71886 CTTCATTCGA
* * * * *
71896 TTAAGTAAAAGATCGATAAAGTTTGTTTTTTTTTTTTAAATTCATTACATTTGG
1 TTAAGTAGAAGATCGATAGAG-TTGATTTTTTTCTTTAAATCCATTACATTTGG
* **
71950 TTAAGTAGAAGATCGATAGAGTTGGTTTTTTTCTTT-AATCCATTTTATCTT-G
1 TTAAGTAGAAGATCGATAGAGTTGATTTTTTTCTTTAAATCCATTACAT-TTGG
72002 TTAAGTAGATA-ATC-AGTAGAGTTGATTTTT
1 TTAAGTAGA-AGATCGA-TAGAGTTGATTTTT
72032 CTTTTAGTCC
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
51 1 0.01
52 35 0.49
53 16 0.23
54 19 0.27
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (53 bp):
TTAAGTAGAAGATCGATAGAGTTGATTTTTTTCTTTAAATCCATTACATTTGG
Found at i:76447 original size:33 final size:32
Alignment explanation
Indices: 76405--76472 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
76395 CGTTACAAGC
**
76405 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
* *
76438 CAATGTATCGATATATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
76470 CAA
1 CAA
76473 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:76551 original size:20 final size:21
Alignment explanation
Indices: 76504--76558 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
76494 GCCAATGACT
**
76504 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTAGTCA
*
76525 AGTATCGATACATT-TAGTCA
1 TGTATCGATACATTCTAGTCA
76545 TGTATCGATACATT
1 TGTATCGATACATT
76559 GTATCGATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTAGTCA
Found at i:77166 original size:22 final size:21
Alignment explanation
Indices: 77124--77167 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
77114 TTTTCTTTTC
*
77124 TCTCCCCCTTAATCAAAAATT
1 TCTCCCCCTTAATAAAAAATT
*
77145 TCTCCCCCTTAGTAAAATAATT
1 TCTCCCCCTTAATAAAA-AATT
77167 T
1 T
77168 AACACTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.32, C:0.30, G:0.02, T:0.36
Consensus pattern (21 bp):
TCTCCCCCTTAATAAAAAATT
Found at i:78576 original size:20 final size:21
Alignment explanation
Indices: 78547--78586 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
78537 TGGGGGCTTC
*
78547 CCGGTTGCGACCT-GTGGGTA
1 CCGGTCGCGACCTGGTGGGTA
78567 CCGGTCGCGACCTGGTGGGT
1 CCGGTCGCGACCTGGTGGGT
78587 GCTGCCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.07, C:0.28, G:0.42, T:0.23
Consensus pattern (21 bp):
CCGGTCGCGACCTGGTGGGTA
Found at i:78879 original size:20 final size:21
Alignment explanation
Indices: 78850--78890 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
78840 TGTTTTTGTT
78850 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
78869 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
78891 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:85234 original size:13 final size:13
Alignment explanation
Indices: 85216--85241 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85206 ACATTTTATG
85216 ATGTATCGATACA
1 ATGTATCGATACA
85229 ATGTATCGATACA
1 ATGTATCGATACA
85242 TACTGTGTGT
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:85237 original size:33 final size:32
Alignment explanation
Indices: 85195--85261 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
85185 ATTACAAGCT
**
85195 AATGTATCGATACATTTTATGATGTATCGATAC
1 AATGTATCGATACATACTATG-TGTATCGATAC
*
85228 AATGTATCGATACATACTGTGTGTATCGATAC
1 AATGTATCGATACATACTATGTGTATCGATAC
85260 AA
1 AA
85262 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATACTATGTGTATCGATAC
Found at i:85340 original size:20 final size:21
Alignment explanation
Indices: 85293--85347 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
85283 GCCAATGACT
**
85293 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
85314 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
85334 TGTATCGATACATT
1 TGTATCGATACATT
85348 GTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:85352 original size:13 final size:13
Alignment explanation
Indices: 85334--85358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85324 CATTTGGTCA
85334 TGTATCGATACAT
1 TGTATCGATACAT
85347 TGTATCGATACA
1 TGTATCGATACA
85359 ATGCAATCTG
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:85390 original size:20 final size:20
Alignment explanation
Indices: 85347--85395 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
85337 ATCGATACAT
*
85347 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
85367 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
85387 TGTATCGAT
1 TGTATCGAT
85396 GCTTTTCAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:89773 original size:20 final size:19
Alignment explanation
Indices: 89731--89814 Score: 67
Period size: 20 Copynumber: 4.6 Consensus size: 19
89721 AAACCTTATT
*
89731 TGTATCGATACACA-TGTAGA
1 TGTATCGATACA-ATTGCA-A
89751 TGTATCGATACAAGTTGCAA
1 TGTATCGATACAA-TTGCAA
89771 TGTAT-GATAC-A-T----
1 TGTATCGATACAATTGCAA
89783 TGTATCGATACAAATTGCAA
1 TGTATCGATAC-AATTGCAA
89803 TGTATCGATACA
1 TGTATCGATACA
89815 TTAGGTGAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 21
0.71 0.01 0.28
Matches are distributed among these distances:
12 5 0.09
13 5 0.09
15 1 0.02
16 2 0.04
18 1 0.02
19 7 0.13
20 29 0.55
21 3 0.06
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAATTGCAA
Found at i:89792 original size:32 final size:33
Alignment explanation
Indices: 89751--89816 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
89741 CACATGTAGA
*
89751 TGTATCGATACAAGTTGCAATGTAT-GATACAT
1 TGTATCGATACAAATTGCAATGTATCGATACAT
89783 TGTATCGATACAAATTGCAATGTATCGATACAT
1 TGTATCGATACAAATTGCAATGTATCGATACAT
89816 T
1 T
89817 AGGTGAAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 24 0.75
33 8 0.25
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAAATTGCAATGTATCGATACAT
Found at i:92428 original size:20 final size:20
Alignment explanation
Indices: 92403--92456 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
92393 AAAACCCTTA
92403 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
92423 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
92443 AAAGTATCGATACA
1 AAAGTATCGATACA
92457 TGTTGCAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAGTATCGATACACAATTC
Found at i:101285 original size:13 final size:13
Alignment explanation
Indices: 101267--101292 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101257 TACACCAAGT
101267 ATGTATCGATACA
1 ATGTATCGATACA
101280 ATGTATCGATACA
1 ATGTATCGATACA
101293 CCAAAAAATT
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:101805 original size:20 final size:20
Alignment explanation
Indices: 101782--101854 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
101772 ACAATTCAAA
101782 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
101802 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
101823 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
101843 GTATCGATACAT
1 GTATCGATACAT
101855 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:101826 original size:21 final size:21
Alignment explanation
Indices: 101800--101875 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
101790 ACATGTTGCA
101800 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
101821 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
101841 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
101862 ATGTATCGATACAT
1 ATGTATCGATACAT
101876 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:101833 original size:41 final size:41
Alignment explanation
Indices: 101782--101875 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
101772 ACAATTCAAA
*
101782 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
101823 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
101864 GTATCGATACAT
1 GTATCGATACAT
101876 TTCTTGGCAG
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:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:101932 original size:13 final size:13
Alignment explanation
Indices: 101914--101939 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101904 TACAGCAAGT
101914 ATGTATCGATACA
1 ATGTATCGATACA
101927 ATGTATCGATACA
1 ATGTATCGATACA
101940 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:106021 original size:15 final size:15
Alignment explanation
Indices: 106001--106031 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
105991 TAAAAATGTC
*
106001 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
106016 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
106031 C
1 C
106032 CAAACGAAAT
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:108124 original size:20 final size:20
Alignment explanation
Indices: 108045--108124 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
108035 AATGTCCAAA
*
108045 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
108065 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
108090 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
108110 TTGTATCGATACATT
1 ATGTATCGATACATT
108125 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:108128 original size:13 final size:13
Alignment explanation
Indices: 108110--108148 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
108100 ACATTTTTCT
108110 TTGTATCGATACA
1 TTGTATCGATACA
108123 TTGTATCGATACA
1 TTGTATCGATACA
*
108136 CTGTATCGATACA
1 TTGTATCGATACA
108149 GGGTGATTAT
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:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:110614 original size:20 final size:20
Alignment explanation
Indices: 110591--110663 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
110581 ACAATTCAAA
110591 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
110611 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
110632 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
110652 GTATCGATACAT
1 GTATCGATACAT
110664 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:110635 original size:21 final size:21
Alignment explanation
Indices: 110609--110684 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
110599 ACATGTTGCA
110609 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
110630 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
110650 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
110671 ATGTATCGATACAT
1 ATGTATCGATACAT
110685 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:110642 original size:41 final size:41
Alignment explanation
Indices: 110591--110684 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
110581 ACAATTCAAA
*
110591 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
110632 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
110673 GTATCGATACAT
1 GTATCGATACAT
110685 TTCTTGGCAG
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:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:110741 original size:13 final size:13
Alignment explanation
Indices: 110723--110748 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110713 TACAGCAAGT
110723 ATGTATCGATACA
1 ATGTATCGATACA
110736 ATGTATCGATACA
1 ATGTATCGATACA
110749 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:111076 original size:23 final size:22
Alignment explanation
Indices: 111050--111092 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
111040 TTTGTTTATA
111050 TTGTCATTATT-TTTCTAAGCTCT
1 TTGT-ATTATTATTTC-AAGCTCT
*
111073 TTGTATTCTTATTTCAAGCT
1 TTGTATTATTATTTCAAGCT
111093 TAAATTCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.56
Consensus pattern (22 bp):
TTGTATTATTATTTCAAGCTCT
Found at i:117059 original size:13 final size:13
Alignment explanation
Indices: 117041--117065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117031 GGTTGCCAAT
117041 AATTGAACCTTGA
1 AATTGAACCTTGA
117054 AATTGAACCTTG
1 AATTGAACCTTG
117066 CTTGTCAGAA
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):
AATTGAACCTTGA
Found at i:122608 original size:28 final size:28
Alignment explanation
Indices: 122507--122607 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
122497 CTAGAACGTT
**
122507 CATCTCTTCAAAGCCCACAAGCCAGTGG
1 CATCTCTTCAAAGCCCACAAGTTAGTGG
122535 CATC-CTTTCAAAGCCCACAAGTTAGTGG
1 CATCTC-TTCAAAGCCCACAAGTTAGTGG
* *
122563 CATCTCTTCAAAGCCCATAGGTTAGTGG
1 CATCTCTTCAAAGCCCACAAGTTAGTGG
*
122591 CATCTTTTCAAAGCCCA
1 CATCTCTTCAAAGCCCA
122608 TCTTTTCAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.02
28 64 0.97
29 1 0.02
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (28 bp):
CATCTCTTCAAAGCCCACAAGTTAGTGG
Found at i:122611 original size:15 final size:15
Alignment explanation
Indices: 122591--122622 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
122581 AGGTTAGTGG
122591 CATCTTTTCAAAGCC
1 CATCTTTTCAAAGCC
122606 CATCTTTTCAAAGCC
1 CATCTTTTCAAAGCC
122621 CA
1 CA
122623 CAAGTCAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.34, G:0.06, T:0.31
Consensus pattern (15 bp):
CATCTTTTCAAAGCC
Found at i:122633 original size:43 final size:43
Alignment explanation
Indices: 122563--122646 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
122553 AAGTTAGTGG
* * * *
122563 CATCTCTTCAAAGCCCATAGGTTAGTGGCATCTTTTCAAAGCC
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCC
*
122606 CATCTTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAG
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAG
122647 TCCACAAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (43 bp):
CATCTCTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCC
Found at i:122658 original size:71 final size:71
Alignment explanation
Indices: 122535--122678 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
122525 AAGCCAGTGG
* * * *
122535 CATCCTTTCAAAGCCCACAAGTTAGTGGCATCTCTTCAAAGCCCATAGGTTAGTGGCA-TCTTTT
1 CATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCCCACAAGTTAGAGGCACTCTTTT
122599 CAAAGCC
66 -AAAGCC
* *
122606 CATCTTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGTCCACAAGTTAGAGGCACTCTTTT
1 CATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCCCACAAGTTAGAGGCACTCTTTT
122671 AAAGCC
66 AAAGCC
122677 CA
1 CA
122679 CAAGTTAGTG
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 60 0.91
72 6 0.09
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (71 bp):
CATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAGCCCACAAGTTAGAGGCACTCTTTT
AAAGCC
Found at i:122678 original size:99 final size:99
Alignment explanation
Indices: 122507--122706 Score: 287
Period size: 99 Copynumber: 2.0 Consensus size: 99
122497 CTAGAACGTT
*
122507 CATCTCTTCAAAGCCCACAAGCCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTCTTC
1 CATCTCTTCAAAGCCCACAAGCCAGTGGCATCCTTTCAAAGCCCACAAGTTAGAGGCATCTCTTC
* * * *
122572 AAAGCCCATAGGTTAGTGGCATCTTTTCAAAGCC
66 AAAGCCCACAAGTTAGTGGCATCCTTGCAAAGCC
* * *
122606 CATCTTTTCAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAGTCCACAAGTTAGAGGCA-CTCTT
1 CATCTCTTCAAAGCCCACAAGCCAGTGGCATCCT-TTCAAAGCCCACAAGTTAGAGGCATCTC-T
*
122669 TTAAAGCCCACAAGTTAGTGGCATCCTTGCAAAGCC
64 TCAAAGCCCACAAGTTAGTGGCATCCTTGCAAAGCC
122705 CA
1 CA
122707 CAAGTCAGTG
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 5 0.06
99 85 0.94
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (99 bp):
CATCTCTTCAAAGCCCACAAGCCAGTGGCATCCTTTCAAAGCCCACAAGTTAGAGGCATCTCTTC
AAAGCCCACAAGTTAGTGGCATCCTTGCAAAGCC
Found at i:122946 original size:28 final size:28
Alignment explanation
Indices: 122609--123078 Score: 332
Period size: 28 Copynumber: 16.3 Consensus size: 28
122599 CAAAGCCCAT
*
122609 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
122637 CTCTTCAAAGTCCACAAGTTAGAGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
122665 TCTTTT-AAAGCCCACAAGTTAGTGGCATC
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* *
122694 C-TTGCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
122721 CTTTTCAAAGCCCACAAG-CAAGTGGCAC
1 CTTTTCAAAGCCCACAAGTC-AGTGGCAC
* *
122749 TCTTTT-TAAGCCCACAAGTCGGTGGCATC
1 -CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* *
122778 C-TTCCAAAGCCCACAAGCCAGTGGCACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * **
122806 CTTTT-TAAGTCCACAAGTTGGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
122833 CCTTCCAAAGCCCACAAG-CAAGTGGCACC
1 CTTTTCAAAGCCCACAAGTC-AGTGGCA-C
*
122862 CATTTT--AAGCCCACAAGTCAGTGTCAC
1 C-TTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
122889 CCTTCCAAAGCCTACAGGTCAGTGGTAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
** *
122917 CTTTTTTAAGCGCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
122945 CTTTCCAAAACCTATAGGTCAGTGGCACTC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA--C
*
122975 CTTTTCAAAGTCCACACAAGTCGGT-GCAAC
1 CTTTTCAAAG-CC-CACAAGTCAGTGGC-AC
*
123005 CTTTTTC-AAGCCCACACAAGTCGGTGGCAC
1 C-TTTTCAAAG-CC-CACAAGTCAGTGGCAC
*
123035 TTCTTTTTAAAGGCCAACACAAGTCAGTGGCAAC
1 --CTTTTCAAA-GCC--CACAAGTCAGTGGC-AC
123069 TCTTTTCAAA
1 -CTTTTCAAA
123079 ACACCACTTT
Statistics
Matches: 345, Mismatches: 67, Indels: 55
0.74 0.14 0.12
Matches are distributed among these distances:
26 2 0.01
27 12 0.03
28 228 0.66
29 17 0.05
30 32 0.09
31 15 0.04
32 13 0.04
33 24 0.07
34 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:123020 original size:30 final size:32
Alignment explanation
Indices: 122966--123074 Score: 118
Period size: 33 Copynumber: 3.4 Consensus size: 32
122956 CTATAGGTCA
* *
122966 GTGGC-ACTCCTTTTCAAAGTCCACACAAGTCG
1 GTGGCAACTCTTTTTC-AAGCCCACACAAGTCG
122998 GT-GCAAC-CTTTTTCAAGCCCACACAAGTCG
1 GTGGCAACTCTTTTTCAAGCCCACACAAGTCG
* * *
123028 GTGGC-ACTTCTTTTTAAAGGCCAACACAAGTCA
1 GTGGCAAC-TCTTTTTCAA-GCCCACACAAGTCG
123061 GTGGCAACTCTTTT
1 GTGGCAACTCTTTT
123075 CAAAACACCA
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
30 19 0.29
31 10 0.15
32 12 0.18
33 23 0.35
34 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (32 bp):
GTGGCAACTCTTTTTCAAGCCCACACAAGTCG
Found at i:123065 original size:33 final size:32
Alignment explanation
Indices: 122962--123074 Score: 117
Period size: 30 Copynumber: 3.6 Consensus size: 32
122952 AAACCTATAG
* *
122962 GTCAGTGGC-ACTCCTTTTCAAAGTCCACACAA
1 GTCAGTGGCAACT-CTTTTTAAAGGCCACACAA
* * *
122994 GTCGGT-GCAAC-CTTTTTCAAGCCCACACAA
1 GTCAGTGGCAACTCTTTTTAAAGGCCACACAA
*
123024 GTCGGTGGC-ACTTCTTTTTAAAGGCCAACACAA
1 GTCAGTGGCAAC-TCTTTTTAAAGGCC-ACACAA
123057 GTCAGTGGCAACTCTTTT
1 GTCAGTGGCAACTCTTTT
123075 CAAAACACCA
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
30 24 0.35
31 4 0.06
32 18 0.26
33 20 0.29
34 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (32 bp):
GTCAGTGGCAACTCTTTTTAAAGGCCACACAA
Found at i:123996 original size:20 final size:20
Alignment explanation
Indices: 123971--124041 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
123961 TTTTACTTAG
123971 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
123991 ATGTATTGATACATTTATGA
1 ATGTATCGATACATTTTTCA
*
124011 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
124031 ATGTATTGATA
1 ATGTATCGATA
124042 TATTCTGTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:127839 original size:21 final size:22
Alignment explanation
Indices: 127782--127842 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
127772 CTACCCTTCA
127782 AATGTATCGATAC-ATATATAGG
1 AATGTATCGATACAAT-TATAGG
** *
127804 AATGTATCGGCACAATTCTA-G
1 AATGTATCGATACAATTATAGG
127825 AATGTATCGATACAATTA
1 AATGTATCGATACAATTA
127843 GCCCAATGGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 16 0.50
22 14 0.44
23 2 0.06
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (22 bp):
AATGTATCGATACAATTATAGG
Found at i:128315 original size:34 final size:34
Alignment explanation
Indices: 128270--128404 Score: 191
Period size: 34 Copynumber: 4.0 Consensus size: 34
128260 GAAGTGATTG
* * *
128270 AGAGGTACTATCTTAGCCTTCAAAAAGATAGTGT
1 AGAGGTTCTATCTTAGCCTTCGAAAAGATAGTGA
*
128304 AGAGGTTCTATCTTAGCCTTTGAAAAGATAAG-GA
1 AGAGGTTCTATCTTAGCCTTCGAAAAGAT-AGTGA
* *
128338 AGAGGTTCTATCTTAGCCTTCTAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTCGAAAAGATAGTGA
*
128372 AGAGGTTCTATCCTAGCCTTCGAAAAGATAGTG
1 AGAGGTTCTATCTTAGCCTTCGAAAAGATAGTG
128405 TTGTAAGGTT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
33 2 0.02
34 86 0.96
35 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTCGAAAAGATAGTGA
Found at i:131001 original size:20 final size:21
Alignment explanation
Indices: 130976--131030 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
130966 GTATCGATAC
*
130976 AATGTATCGATACATG-ACCA-
1 AATGTATCGATACATGCA-AAG
*
130996 AATGTATCGATACTTGCAAAG
1 AATGTATCGATACATGCAAAG
131017 AATGTATCGATACA
1 AATGTATCGATACA
131031 GGTGATTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATGCAAAG
Found at i:131103 original size:15 final size:14
Alignment explanation
Indices: 131083--131115 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
131073 GTATCGATAC
131083 ATACAAGATGTATCG
1 ATACAA-ATGTATCG
131098 ATAC-AATGTATCG
1 ATACAAATGTATCG
131111 ATACA
1 ATACA
131116 TGACCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.71
14 1 0.06
15 4 0.24
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (14 bp):
ATACAAATGTATCG
Found at i:131108 original size:13 final size:13
Alignment explanation
Indices: 131090--131115 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
131080 TACATACAAG
131090 ATGTATCGATACA
1 ATGTATCGATACA
131103 ATGTATCGATACA
1 ATGTATCGATACA
131116 TGACCAAATT
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:131134 original size:34 final size:32
Alignment explanation
Indices: 131072--131136 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
131062 CTTAACTGTT
131072 TGTATCGATACATACAAGATGTATCGATACAA
1 TGTATCGATACATACAAGATGTATCGATACAA
131104 TGTATCGATACATGACCAA-ATTGTATCGATACA
1 TGTATCGATACAT-A-CAAGA-TGTATCGATACA
131137 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.43
33 2 0.07
34 15 0.50
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (32 bp):
TGTATCGATACATACAAGATGTATCGATACAA
Found at i:137241 original size:13 final size:13
Alignment explanation
Indices: 137223--137258 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
137213 GCATTCTCTA
*
137223 TATCGATACATTG
1 TATCGATACAGTG
137236 TATCGATACAGTG
1 TATCGATACAGTG
137249 TATCGATACA
1 TATCGATACA
137259 AAGGGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:139752 original size:20 final size:21
Alignment explanation
Indices: 139727--139781 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
139717 GTATCGATAC
*
139727 AATGTATCGATACATG-ACCA-
1 AATGTATCGATACATGCA-AAG
*
139747 AATGTATCGATACTTGCAAAG
1 AATGTATCGATACATGCAAAG
139768 AATGTATCGATACA
1 AATGTATCGATACA
139782 GGTGATTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATGCAAAG
Found at i:139754 original size:33 final size:33
Alignment explanation
Indices: 139695--139759 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
139685 ACATCTTCGG
* *
139695 ATGTATCGATACATAATGCACAGTATCGATACA
1 ATGTATCGATACATAATCCAAAGTATCGATACA
*
139728 ATGTATCGATACATGA-CCAAATGTATCGATAC
1 ATGTATCGATACATAATCCAAA-GTATCGATAC
139760 TTGCAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACATAATCCAAAGTATCGATACA
Found at i:139868 original size:21 final size:20
Alignment explanation
Indices: 139822--139875 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
139812 CCTTAACTGT
139822 TTGTATCGATACATACAAGA
1 TTGTATCGATACATACAAGA
139842 -TGTATCGATACATGACCAA-A
1 TTGTATCGATACAT-A-CAAGA
*
139862 TTGTATCAATACAT
1 TTGTATCGATACAT
139876 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 13 0.43
20 2 0.07
21 15 0.50
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACATACAAGA
Found at i:140889 original size:26 final size:26
Alignment explanation
Indices: 140860--140911 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
140850 GGTAAAGGTC
140860 ATTATTTACAAATCTCATGTTGTCTT
1 ATTATTTACAAATCTCATGTTGTCTT
140886 ATTATTTACAAATCTCATGTTGTCTT
1 ATTATTTACAAATCTCATGTTGTCTT
140912 TCGTTGAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (26 bp):
ATTATTTACAAATCTCATGTTGTCTT
Found at i:141320 original size:13 final size:13
Alignment explanation
Indices: 141302--141326 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141292 AGATTGCACA
141302 GTATCGATACATT
1 GTATCGATACATT
141315 GTATCGATACAT
1 GTATCGATACAT
141327 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:141339 original size:20 final size:21
Alignment explanation
Indices: 141314--141366 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
141304 ATCGATACAT
*
141314 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AATAA
*
141334 TGTATCGATACTTGTAAATAA
1 TGTATCGATACATGTAAATAA
141355 TGTATCGATACA
1 TGTATCGATACA
141367 GGTCATTGGC
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:0.15, G:0.15, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATGTAAATAA
Found at i:141444 original size:13 final size:13
Alignment explanation
Indices: 141426--141451 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
141416 TACACACAAG
141426 ATGTATCGATACA
1 ATGTATCGATACA
141439 ATGTATCGATACA
1 ATGTATCGATACA
141452 TCCCAAAATG
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:141468 original size:33 final size:32
Alignment explanation
Indices: 141408--141471 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
141398 CTTAACTGTT
*
141408 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
141440 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
141472 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:142421 original size:19 final size:18
Alignment explanation
Indices: 142374--142422 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
142364 ATATAAATAC
142374 TAAT-CTAAAATAAATTT
1 TAATACTAAAATAAATTT
* *
142391 TAATACTTAAATATATTTT
1 TAATACTAAAATA-AATTT
*
142410 TAATAGTAAAATA
1 TAATACTAAAATA
142423 GGCTTATAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 4 0.15
18 7 0.27
19 15 0.58
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
TAATACTAAAATAAATTT
Found at i:143184 original size:7 final size:7
Alignment explanation
Indices: 143172--143205 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
143162 TACCTTAAAA
143172 TATATAT
1 TATATAT
143179 TATATAT
1 TATATAT
143186 TATA-AT
1 TATATAT
143192 TATATAT
1 TATATAT
*
143199 AATATAT
1 TATATAT
143206 ATGTAACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:143195 original size:13 final size:14
Alignment explanation
Indices: 143172--143205 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
143162 TACCTTAAAA
143172 TATATATTATATAT
1 TATATATTATATAT
143186 TATA-ATTATATAT
1 TATATATTATATAT
*
143199 AATATAT
1 TATATAT
143206 ATGTAACCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATATTATATAT
Found at i:145095 original size:18 final size:18
Alignment explanation
Indices: 145059--145093 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
145049 TTAACTTAGG
*
145059 TAAATTCTATTAATGAAA
1 TAAATTCTATTAATAAAA
145077 TAAATT-TATTAATAAAA
1 TAAATTCTATTAATAAAA
145094 ATTTTAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
TAAATTCTATTAATAAAA
Found at i:145144 original size:18 final size:20
Alignment explanation
Indices: 145121--145160 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
145111 CAAAATTAAT
145121 ATTTTTA-TAA-ATTAAAAA
1 ATTTTTATTAATATTAAAAA
*
145139 ATTTTTATTAATATTTAAAA
1 ATTTTTATTAATATTAAAAA
145159 AT
1 AT
145161 AATTTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 3 0.16
20 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTTTATTAATATTAAAAA
Found at i:148021 original size:16 final size:15
Alignment explanation
Indices: 147993--148046 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
147983 AATGAAAGTC
**
147993 AAAAAATCAAAAATGG
1 AAAAAAT-AAAAAAAG
148009 AAAAAATAAAAAAAG
1 AAAAAATAAAAAAAG
*
148024 ATAAAAAT-AAAAAAC
1 A-AAAAATAAAAAAAG
148039 AAAAAATA
1 AAAAAATA
148047 TTGGTCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 6 0.18
15 14 0.42
16 13 0.39
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.11
Consensus pattern (15 bp):
AAAAAATAAAAAAAG
Found at i:162107 original size:21 final size:21
Alignment explanation
Indices: 162081--162122 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
162071 AAAAGAGCAT
*
162081 AAAAATTTTATTAAGGGGGAG
1 AAAAATTTTATTAAGGAGGAG
162102 AAAAATTTTATTAAGGAGGAG
1 AAAAATTTTATTAAGGAGGAG
162123 TTATATATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (21 bp):
AAAAATTTTATTAAGGAGGAG
Found at i:162179 original size:101 final size:102
Alignment explanation
Indices: 162049--162241 Score: 352
Period size: 102 Copynumber: 1.9 Consensus size: 102
162039 GAATGAGAAG
*
162049 TTTGTTTTAGAAATCTTATTAAAAAAGAGCATAAAA-ATTTTATTAAGGGGGAGAAAAATTTTAT
1 TTTGTTTTAGAAATCTTATTAAAAAAGAGCATAAAATATTTTATTAAGAGGGAGAAAAATTTTAT
162113 TAAGGAGGAGTTATATATTGAAAATTTGCATTAAAAA
66 TAAGGAGGAGTTATATATTGAAAATTTGCATTAAAAA
*
162150 TTTGTTTTAGAAATCTTATTAAAAGAGAGCATAAAATATTTTATTAAGAGGGAGAAAAATTTTAT
1 TTTGTTTTAGAAATCTTATTAAAAAAGAGCATAAAATATTTTATTAAGAGGGAGAAAAATTTTAT
*
162215 TAAGGGGGAGTTATATATTGAAAATTT
66 TAAGGAGGAGTTATATATTGAAAATTT
162242 ACCTTAAACC
Statistics
Matches: 88, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
101 35 0.40
102 53 0.60
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.37
Consensus pattern (102 bp):
TTTGTTTTAGAAATCTTATTAAAAAAGAGCATAAAATATTTTATTAAGAGGGAGAAAAATTTTAT
TAAGGAGGAGTTATATATTGAAAATTTGCATTAAAAA
Found at i:162198 original size:23 final size:21
Alignment explanation
Indices: 162172--162218 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
162162 ATCTTATTAA
*
162172 AAGAGAGCATAAAATATTTTATT
1 AAGAG-GCAGAAAA-ATTTTATT
*
162195 AAGAGGGAGAAAAATTTTATT
1 AAGAGGCAGAAAAATTTTATT
162216 AAG
1 AAG
162219 GGGGAGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 6 0.27
23 5 0.23
ACGTcount: A:0.49, C:0.02, G:0.19, T:0.30
Consensus pattern (21 bp):
AAGAGGCAGAAAAATTTTATT
Done.