Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008570.1 Hibiscus syriacus cultivar Beakdansim tig00111495_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 912507
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 5
Found at i:418 original size:18 final size:18
Alignment explanation
Indices: 397--441 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
387 TCCACTTCGG
*
397 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
415 GAGCTATCACCTCACCCC
1 GAGCCATCACCTCACCCA
433 GAGCCATCA
1 GAGCCATCA
442 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.47, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:957 original size:19 final size:20
Alignment explanation
Indices: 903--969 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
893 TAGTTTACTT
* *
903 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
923 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
943 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
962 TCGCAACG
1 TCGCAACG
970 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:977 original size:14 final size:14
Alignment explanation
Indices: 958--1015 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
948 ATGCGAAATG
958 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
972 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
988 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1004 AAAATCGCAACG
1 AAAATCGCAACG
1016 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1000 original size:32 final size:32
Alignment explanation
Indices: 942--1031 Score: 162
Period size: 32 Copynumber: 2.8 Consensus size: 32
932 GGAAATGGCT
942 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
975 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAA
*
1007 ATCGCAACGCGAAATGAAATCGCAA
1 ATCGCAATGCGAAATGAAATCGCAA
1032 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 40 0.71
33 16 0.29
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAA
Found at i:1067 original size:14 final size:14
Alignment explanation
Indices: 1048--1105 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1038 TTGTGTTTCG
1048 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1062 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1078 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1094 CGTTGCGATTTT
1 CGTTGCGATTTT
1106 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1086 original size:32 final size:33
Alignment explanation
Indices: 1043--1121 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
1033 GCGATTTGTG
*
1043 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1075 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1108 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
1122 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 26 0.58
33 19 0.42
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:1120 original size:19 final size:19
Alignment explanation
Indices: 1064--1163 Score: 77
Period size: 19 Copynumber: 5.5 Consensus size: 19
1054 GATTTTGTCG
1064 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1082 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
1096 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*** *
1115 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
** *
1135 TTGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
1154 TTGCGATTTT
1 TTGCGATTTT
1164 AAGTTTCGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
14 6 0.09
15 3 0.04
16 4 0.06
17 4 0.06
18 9 0.13
19 24 0.36
20 17 0.25
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1140 original size:20 final size:19
Alignment explanation
Indices: 1106--1160 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
1096 TTGCGATTTT
*
1106 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1125 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
1145 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
1161 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:3173 original size:14 final size:14
Alignment explanation
Indices: 3154--3240 Score: 57
Period size: 14 Copynumber: 5.5 Consensus size: 14
3144 CGAAATGGCT
3154 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
3168 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
* *
3187 ATCGCAATGCGAAA
1 ATCGCAACGAGAAA
3201 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
3220 ATCGTAACGAGAAA
1 ATCGCAACGAGAAA
3234 ATCGCAA
1 ATCGCAA
3241 TTCGATTTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 28 0.49
15 1 0.02
16 3 0.05
17 3 0.05
18 1 0.02
19 21 0.37
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:3180 original size:33 final size:33
Alignment explanation
Indices: 3135--3241 Score: 151
Period size: 33 Copynumber: 3.2 Consensus size: 33
3125 AAAACAGACT
* ***
3135 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
* *
3168 ATCGCAATGCGAAATGAAAATCGCAATGCGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
3201 ATCGCAATGCGAAATGAAAATCGTAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
3234 ATCGCAAT
1 ATCGCAAT
3242 TCGATTTTCA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:3186 original size:19 final size:19
Alignment explanation
Indices: 3164--3223 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
3154 ATCGCAACGA
3164 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
3183 GAAAATCGCAATGC-----
1 GAAAATCGCAATGCGAAAT
3197 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
3216 GAAAATCG
1 GAAAATCG
3224 TAACGAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 14 0.39
19 22 0.61
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:3321 original size:20 final size:20
Alignment explanation
Indices: 3264--3321 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
3254 TCGCATTGCG
* *
3264 ATTTTCTCGTTGCGATAACC
1 ATTTTCACGTTGCGATAGCC
*
3284 ATTTTCGCGTTGCGATAGCC
1 ATTTTCACGTTGCGATAGCC
3304 ATTTTCACGTTGCGATAG
1 ATTTTCACGTTGCGATAG
3322 TCAAATGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTTTCACGTTGCGATAGCC
Found at i:4406 original size:24 final size:24
Alignment explanation
Indices: 4379--4432 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4369 GTATTCGAAA
* *
4379 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
4403 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
4427 TTTGAT
1 TTTGAT
4433 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:4624 original size:12 final size:12
Alignment explanation
Indices: 4607--4631 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4597 ATATAATCCT
4607 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4619 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4631 G
1 G
4632 TCCTCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:6961 original size:33 final size:33
Alignment explanation
Indices: 6918--7040 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
6908 ATTACTATCA
6918 CAATGCGAAATGAAAATCGCAACGAGAGAATCG
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCG
* ** * *
6951 TAATGCGAAATGAAAATCGCAACGCTA-ATTTTG
1 CAATGCGAAATGAAAATCGCAACGAGAGA-ATCG
*
6984 CAATGCGAAATGAAAATCGCAACGAGGGAATCG
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCG
7017 CAATGCGAAATGAAAATCGCAACG
1 CAATGCGAAATGAAAATCGCAACG
7041 CGAATTTAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
32 1 0.01
33 75 0.97
34 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGAGAGAATCG
Found at i:7000 original size:66 final size:66
Alignment explanation
Indices: 6918--7047 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 66
6908 ATTACTATCA
* *
6918 CAATGCGAAATGAAAATCGCAACGAGAGAATCGTAATGCGAAATGAAAATCGCAACGCTAATTTT
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTTT
6983 G
66 G
*
6984 CAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
7048 AATTTCGCGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (66 bp):
CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTTT
G
Found at i:7062 original size:19 final size:20
Alignment explanation
Indices: 7040--7082 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7030 AAATCGCAAC
7040 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
7059 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
7079 GCGA
1 GCGA
7083 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:7067 original size:14 final size:14
Alignment explanation
Indices: 7068--7101 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7058 TGCGATTTTC
7068 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
7082 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
7096 ATTTTC
1 ATTTTC
7102 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:7242 original size:14 final size:14
Alignment explanation
Indices: 7223--7273 Score: 84
Period size: 14 Copynumber: 3.6 Consensus size: 14
7213 CATCAATTAA
7223 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
7237 ACAAATCACCTTTT
1 ACAAATCAACTTTT
*
7251 ACAAATCACCTTTT
1 ACAAATCAACTTTT
7265 ACAAATCAA
1 ACAAATCAA
7274 TTAAACAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:8697 original size:21 final size:21
Alignment explanation
Indices: 8631--8697 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
8621 GTGAATCGGG
*
8631 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
8651 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
8673 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
8694 CTCT
1 CTCT
8698 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:8716 original size:42 final size:41
Alignment explanation
Indices: 8631--8753 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
8621 GTGAATCGGG
* * * * *
8631 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
8673 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
8715 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
8754 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:10782 original size:20 final size:19
Alignment explanation
Indices: 10751--10910 Score: 106
Period size: 19 Copynumber: 8.8 Consensus size: 19
10741 TCTTTTGGTT
10751 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
10770 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
10791 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
10810 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
10824 GAAATGACTATCG---CGA
1 GAAATGAAAATCGCAACGA
** * *
10840 -CCA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGA
* *
10857 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
10876 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
10895 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
10911 TGCGATTTTG
Statistics
Matches: 111, Mismatches: 18, Indels: 24
0.73 0.12 0.16
Matches are distributed among these distances:
14 17 0.15
15 1 0.01
16 4 0.04
17 4 0.04
18 1 0.01
19 53 0.48
20 29 0.26
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:10833 original size:33 final size:33
Alignment explanation
Indices: 10776--10861 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
10766 ACGAGATAAT
*
10776 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
10810 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
*
10843 GACAATCGCAACGCGAAAT
1 GAGAATCGCAACGCGAAAT
10862 AAAAATCGCA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 35 0.71
34 14 0.29
ACGTcount: A:0.38, C:0.26, G:0.24, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:10868 original size:19 final size:19
Alignment explanation
Indices: 10846--10915 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
10836 GCGACCAGAC
*
10846 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
10865 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
10884 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
10903 AATCGCAATGCGA
1 AATCGCAACGCGA
10916 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:10870 original size:33 final size:33
Alignment explanation
Indices: 10779--10910 Score: 129
Period size: 33 Copynumber: 3.8 Consensus size: 33
10769 AGATAATGAG
** * *
10779 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGAAAATCGCAACCAGAA
** * *
10813 AATCGCAACGCGAAATGACTATCGCGACCAGAC
1 AATCGCAACGCGAAATGAAAATCGCAACCAGAA
*
10846 AATCGCAACGCGAAATAAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAAC-C---A-GAA
10884 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
10911 TGCGATTTTG
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
33 43 0.51
34 12 0.14
37 1 0.01
38 28 0.33
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACCAGAA
Found at i:10963 original size:37 final size:39
Alignment explanation
Indices: 10911--10995 Score: 129
Period size: 37 Copynumber: 2.2 Consensus size: 39
10901 AAAATCGCAA
* *
10911 TGCGATTTTGGTTTCGCGTTGCGAT-TTTATTT-CGCGT
1 TGCGATTTTGATTTCGCGTTGCGATAGTTATTTCCGCGT
*
10948 TGCGATTTTTATTTCGCGTTGCGATAGTTATTTCCGCGT
1 TGCGATTTTGATTTCGCGTTGCGATAGTTATTTCCGCGT
10987 TGCGATTTT
1 TGCGATTTT
10996 CATTCTCGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 23 0.53
38 6 0.14
39 14 0.33
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.48
Consensus pattern (39 bp):
TGCGATTTTGATTTCGCGTTGCGATAGTTATTTCCGCGT
Found at i:10987 original size:20 final size:18
Alignment explanation
Indices: 10911--10995 Score: 116
Period size: 19 Copynumber: 4.5 Consensus size: 18
10901 AAAATCGCAA
*
10911 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-ATTTCGCGT
10930 TGCGATTTTATTTCGCGT
1 TGCGATTTTATTTCGCGT
10948 TGCGATTTTTATTTCGCGT
1 TGCGA-TTTTATTTCGCGT
*
10967 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTT-CGCGT
10987 TGCGATTTT
1 TGCGATTTT
10996 CATTCTCGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.23
19 35 0.58
20 11 0.18
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.48
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:11580 original size:21 final size:21
Alignment explanation
Indices: 11547--11647 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 21
11537 TGCGAAAGTA
* * *
11547 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
11568 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
*
11588 AGTATCGCATTGCGATTTTCCC
1 AGTATCGCATTGCGATTTT-TC
* *
11610 AAT-TCGCGTTGCGATTTACTT-
1 AGTATCGCATTGCGATTT--TTC
11631 A-T-TCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
11648 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.02
20 30 0.48
21 27 0.44
22 3 0.05
23 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:11603 original size:20 final size:20
Alignment explanation
Indices: 11510--11603 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
11500 CGCTATGTAA
*
11510 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
11530 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
11550 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
11571 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
11591 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
11604 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:11622 original size:41 final size:41
Alignment explanation
Indices: 11531--11665 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
11521 AAAGTCAGTA
* * * ** *
11531 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
11571 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
11613 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
11654 TCGCGTTGCGAT
1 TCGCGTTGCGAT
11666 TTTCCCAATT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:11657 original size:21 final size:21
Alignment explanation
Indices: 11592--11705 Score: 133
Period size: 21 Copynumber: 5.5 Consensus size: 21
11582 ATAGTCAGTA
11592 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
11613 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
11633 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
11654 TCGCGTTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
11675 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
11695 TCGCATTGCGA
1 TCGCATTGCGA
11706 ATTGGGAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
20 32 0.41
21 47 0.59
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:11697 original size:41 final size:41
Alignment explanation
Indices: 11592--11705 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 41
11582 ATAGTCAGTA
* **
11592 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTACCAATTCGCGTTGCGATTTACCAAT
* *
11633 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTACCAATTCGCGTTGCGA-TTTACCAAT
* ** *
11675 TCGCGTTGCGA-TTTACTTATTCGCATTGCGA
1 TCGCATTGCGATTTTACCAATTCGCGTTGCGA
11706 ATTGGGAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 48 0.75
42 16 0.25
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (41 bp):
TCGCATTGCGATTTTACCAATTCGCGTTGCGATTTACCAAT
Found at i:12231 original size:31 final size:31
Alignment explanation
Indices: 12162--12233 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
12152 AACTTAATTC
** * *
12162 GTAATCACTTTCGTTTTGTTTTAATCAATAT
1 GTAATCACTTTCAATTCGTTTTAATCAAGAT
* * *
12193 ATGATCACTTTCAATTCGTTTTAATTAAGAT
1 GTAATCACTTTCAATTCGTTTTAATCAAGAT
12224 GTAATCACTT
1 GTAATCACTT
12234 ACCTAAACAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (31 bp):
GTAATCACTTTCAATTCGTTTTAATCAAGAT
Found at i:12780 original size:86 final size:87
Alignment explanation
Indices: 12685--12880 Score: 340
Period size: 86 Copynumber: 2.3 Consensus size: 87
12675 GTCGGATGGT
* *
12685 AGAAAATATCCACTTTCGTTTGTATTATTGAAAATAAAATTTTCTGATCTTAAAATAAGGCATAC
1 AGAAAATATCCACTTTCGTTTGTATTATTGAAAAGAAAATTTTCTGATCTTAAAATAAGACATAC
12750 T-AAAAAATCATGAAATTTATC
66 TAAAAAAATCATGAAATTTATC
* *
12771 AGAAAATATCCACTTTCGTTTGTATTATTTAAAAGAAAATTTTCTGATCTTAAAATAATACATAC
1 AGAAAATATCCACTTTCGTTTGTATTATTGAAAAGAAAATTTTCTGATCTTAAAATAAGACATAC
*
12836 TAAAAAAATCATGAAATTTATT
66 TAAAAAAATCATGAAATTTATC
12858 AGAAAATATCCACTTTCGTTTGT
1 AGAAAATATCCACTTTCGTTTGT
12881 TTGTGAGGTG
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
86 62 0.60
87 42 0.40
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (87 bp):
AGAAAATATCCACTTTCGTTTGTATTATTGAAAAGAAAATTTTCTGATCTTAAAATAAGACATAC
TAAAAAAATCATGAAATTTATC
Found at i:15664 original size:21 final size:20
Alignment explanation
Indices: 15627--15665 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
15617 ATGATATTGG
* *
15627 CTCGATCGAAAACTGATTAA
1 CTCGATCAAAAAATGATTAA
15647 CTCGATTCAAAAAATGATT
1 CTCGA-TCAAAAAATGATT
15666 GATCTAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (20 bp):
CTCGATCAAAAAATGATTAA
Found at i:15778 original size:16 final size:16
Alignment explanation
Indices: 15757--15802 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
15747 TCAAAAAATG
*
15757 ATCGATTTAATATTAA
1 ATCGATTCAATATTAA
15773 ATCGATTCAATATTAA
1 ATCGATTCAATATTAA
15789 ATCGATTCAATATT
1 ATCGATTCAATATT
15803 CGACTTGTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (16 bp):
ATCGATTCAATATTAA
Found at i:25157 original size:32 final size:32
Alignment explanation
Indices: 25121--25187 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
25111 TTAATAAAAA
* *
25121 AATCAAATATAAACAATTTAGAGTAAGTTTTT
1 AATCAAATATAAACAATTTAGAATAAGATTTT
*
25153 AATCAAATATAAATAATTTAGAATAAGATTTT
1 AATCAAATATAAACAATTTAGAATAAGATTTT
25185 AAT
1 AAT
25188 TCTTTCTCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.37
Consensus pattern (32 bp):
AATCAAATATAAACAATTTAGAATAAGATTTT
Found at i:26897 original size:23 final size:23
Alignment explanation
Indices: 26866--26934 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
26856 TACCACAGCT
*
26866 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
26889 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
26912 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
26935 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:27178 original size:30 final size:30
Alignment explanation
Indices: 27142--27212 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
27132 TCACATAATT
* * *
27142 TTTATCACGTAGAAATATTATTTGCATACC
1 TTTATCACATAGAAATATCATTTCCATACC
*
27172 TTTATCACATAGACATATCATTTCCATACC
1 TTTATCACATAGAAATATCATTTCCATACC
27202 TTTATCACATA
1 TTTATCACATA
27213 ACTCATATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (30 bp):
TTTATCACATAGAAATATCATTTCCATACC
Found at i:51653 original size:3 final size:3
Alignment explanation
Indices: 51647--51684 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
51637 CCGCCCTTCT
* *
51647 TCC TCC TCC TCC TCC TCC TCC TCT TCC TCC TCT TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
51685 ATCGTCTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (3 bp):
TCC
Found at i:51786 original size:6 final size:6
Alignment explanation
Indices: 51777--51819 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
51767 TCATCATTCT
* * *
51777 GATTGG GATTGG GATTGG GATTGG AATTAG GATTGA GATTGG G
1 GATTGG GATTGG GATTGG GATTGG GATTGG GATTGG GATTGG G
51820 CTGTTGCCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (6 bp):
GATTGG
Found at i:53775 original size:2 final size:2
Alignment explanation
Indices: 53768--53799 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
53758 GAGAAGAATA
53768 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
53800 GTTTAGAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54748 original size:17 final size:17
Alignment explanation
Indices: 54705--54755 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
54695 CATGTATACA
*
54705 TTATAATAA--TATATT
1 TTATAATAATTTAAATT
54720 TT-TAATATATTTAAATT
1 TTATAATA-ATTTAAATT
54737 TTATAATAATTTATAATT
1 TTATAATAATTTA-AATT
54755 T
1 T
54756 ATCATTCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
17 12 0.40
18 10 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATAATAATTTAAATT
Found at i:54900 original size:23 final size:23
Alignment explanation
Indices: 54856--54901 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
54846 TATTTTTATA
**
54856 TTTATTTTTAAATATTTGAATTT
1 TTTATTTTTAAATATTAAAATTT
54879 TTTATATTTTAAAT-TTAAAATTT
1 TTTAT-TTTTAAATATTAAAATTT
54902 AAAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTATTTTTAAATATTAAAATTT
Found at i:54912 original size:30 final size:31
Alignment explanation
Indices: 54844--54912 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 31
54834 TTTTACTTCT
** *
54844 AATATTTT-TATATTTATTTTTAAATATTTG
1 AATATTTTATATATTTAAATTTAAATATTTA
*
54874 AATTTTTTATAT-TTTAAATTTAAA-ATTTAA
1 AATATTTTATATATTTAAATTTAAATATTT-A
54904 AATATTTTA
1 AATATTTTA
54913 AAAAAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
29 4 0.12
30 25 0.78
31 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (31 bp):
AATATTTTATATATTTAAATTTAAATATTTA
Found at i:55164 original size:21 final size:21
Alignment explanation
Indices: 55135--55202 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 21
55125 TTAAGAACAA
*
55135 TATCAATACCTATTG-AAGAAG
1 TATCGATACCTA-TGCAAGAAG
* *
55156 TATCGATA-CTATGCTAGTAG
1 TATCGATACCTATGCAAGAAG
55176 TATCGATACCTA-GCAAGAGGAG
1 TATCGATACCTATGCAAGA--AG
55198 TATCG
1 TATCG
55203 GTACTGGGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.05
20 19 0.50
21 10 0.26
22 7 0.18
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (21 bp):
TATCGATACCTATGCAAGAAG
Found at i:63159 original size:33 final size:34
Alignment explanation
Indices: 63099--63170 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
63089 CATTTACAAC
*
63099 TCCCTAGATTTTCACGGGCTAAACTAGAA-TATT
1 TCCCTAGATTTTCACGGGATAAACTAGAACTATT
* * * *
63132 TCCCTAGCTTTTCACGGGATCAGCTAGAACTTTT
1 TCCCTAGATTTTCACGGGATAAACTAGAACTATT
63166 TCCCT
1 TCCCT
63171 TTACAATGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 25 0.76
34 8 0.24
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (34 bp):
TCCCTAGATTTTCACGGGATAAACTAGAACTATT
Found at i:63642 original size:20 final size:20
Alignment explanation
Indices: 63617--63654 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
63607 GAGCAGTCAT
*
63617 AGGGGTATTGATACCCAGGC
1 AGGGGTATCGATACCCAGGC
*
63637 AGGGGTATCGGTACCCAG
1 AGGGGTATCGATACCCAG
63655 AGTATGGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.37, T:0.18
Consensus pattern (20 bp):
AGGGGTATCGATACCCAGGC
Found at i:63944 original size:18 final size:19
Alignment explanation
Indices: 63898--63959 Score: 90
Period size: 18 Copynumber: 3.2 Consensus size: 19
63888 TGTTTAATGA
63898 AAAAGATACCAATTGATTAC
1 AAAAGATACCAATTG-TTAC
63918 AAAAGGATACCAATTGTTA-
1 AAAA-GATACCAATTGTTAC
*
63937 AAAAGATACCAATTGTTAG
1 AAAAGATACCAATTGTTAC
63956 AAAA
1 AAAA
63960 TATATGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.35
19 8 0.20
20 7 0.17
21 11 0.28
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (19 bp):
AAAAGATACCAATTGTTAC
Found at i:66990 original size:21 final size:22
Alignment explanation
Indices: 66964--67004 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
66954 TGTCCATAAC
66964 AGGGGTATCAGTACT-CCTTCA
1 AGGGGTATCAGTACTACCTTCA
*
66985 AGGGGTATCGGTACTACCTT
1 AGGGGTATCAGTACTACCTT
67005 TGTTAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (22 bp):
AGGGGTATCAGTACTACCTTCA
Found at i:67191 original size:36 final size:35
Alignment explanation
Indices: 67123--67191 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
67113 GCAATCATAG
* * **
67123 GGGTATTGATACCCATGCAGGGGTATTTGTACCTA
1 GGGTATGGATACCCATGAAGGGGTATCGGTACCTA
*
67158 GGGTATGGATACCCTTTGAAGGGGTATCGGTACC
1 GGGTATGGATACCC-ATGAAGGGGTATCGGTACC
67192 CATTTGCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 13 0.46
36 15 0.54
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (35 bp):
GGGTATGGATACCCATGAAGGGGTATCGGTACCTA
Found at i:68639 original size:2 final size:2
Alignment explanation
Indices: 68632--68659 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
68622 TTAAATTAAG
68632 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
68660 GAGAAAATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68893 original size:20 final size:21
Alignment explanation
Indices: 68868--68919 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
68858 TTTTCCCAAT
*
68868 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
68888 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
68909 TCGCAATGCGA
1 TCGCAATGCGA
68920 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:68933 original size:20 final size:20
Alignment explanation
Indices: 68908--69002 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
68898 AATTGGGAAA
*
68908 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
68928 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
* *
68949 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTTACT
* * *
68969 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTTACT
*
68989 TTCGCAACGCGATA
1 ATCGCAACGCGATA
69003 ATACATAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.72
21 12 0.20
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:69218 original size:22 final size:22
Alignment explanation
Indices: 69190--69233 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
69180 CACTCTCTCA
69190 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
**
69212 CCCATCTCCGGTGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
69234 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:69550 original size:20 final size:20
Alignment explanation
Indices: 69496--69554 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
69486 GCGATTCTCT
**
69496 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
69516 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
69536 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
69555 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:69745 original size:25 final size:24
Alignment explanation
Indices: 69691--69745 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
69681 TGTTTATTAT
* *
69691 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
69715 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
69741 TGTTT
1 TGTTT
69746 ATTATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:70639 original size:33 final size:33
Alignment explanation
Indices: 70597--70723 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
70587 GGAAATTACT
70597 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
70630 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * * *
70662 TTTCGCAATGTGAAATGAAAATCACAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
70696 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
70724 CGAATTTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:70704 original size:66 final size:66
Alignment explanation
Indices: 70598--70730 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
70588 GAAATTACTA
* *
70598 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
70663 T
66 T
* *
70664 TCGCAATGTGAAATGAAAATCACAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
70729 T
66 T
70730 T
1 T
70731 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:70774 original size:33 final size:35
Alignment explanation
Indices: 70723--70817 Score: 113
Period size: 38 Copynumber: 2.7 Consensus size: 35
70713 AAATCGCAAC
* *
70723 GCGAATTTAATTTCGCGTTGCGATTC-TCTCG-TT
1 GCGATTTTCATTTCGCGTTGCGATTCATCTCGATT
*
70756 GCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATT
1 GCGATTTTCATTTCGCGTTGCGA--TTCATCTCG-ATT
*
70794 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
70818 AGTACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
33 21 0.40
35 3 0.06
36 5 0.09
38 24 0.45
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (35 bp):
GCGATTTTCATTTCGCGTTGCGATTCATCTCGATT
Found at i:70776 original size:19 final size:19
Alignment explanation
Indices: 70754--70817 Score: 119
Period size: 19 Copynumber: 3.4 Consensus size: 19
70744 GATTCTCTCG
*
70754 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
70773 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
70792 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
70811 TTGCGAT
1 TTGCGAT
70818 AGTACTTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:70943 original size:14 final size:14
Alignment explanation
Indices: 70924--70960 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
70914 CATCAATTAA
70924 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
70938 ACAAATCACCTTTT
1 ACAAATCAACTTTT
70952 ACAAATCAA
1 ACAAATCAA
70961 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:72363 original size:42 final size:40
Alignment explanation
Indices: 72286--72404 Score: 103
Period size: 42 Copynumber: 2.8 Consensus size: 40
72276 GTGAATCGGG
* * * *
72286 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGATAATGAC
1 CTCTTGAACGGTGGGAGGGA-CTCTT-GAGGATGATAAGGAC
* *
72328 CTCTTGAACGGTGGGAGAGGACTCTTGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTGAGG-ATGATAAGGAC
* * *
72370 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 CTCTTGAACGGTGGGAG-GGACTCTTGA-GGATGA
72405 CAGGCGAGTC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.03
42 57 0.89
43 5 0.08
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.24
Consensus pattern (40 bp):
CTCTTGAACGGTGGGAGGGACTCTTGAGGATGATAAGGAC
Found at i:72802 original size:91 final size:90
Alignment explanation
Indices: 72626--72810 Score: 291
Period size: 91 Copynumber: 2.0 Consensus size: 90
72616 ATTTCAAACT
*
72626 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
72691 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
72719 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
**
72783 GTTTTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
72810 T
1 T
72811 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 41 0.47
93 19 0.22
95 27 0.31
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:74526 original size:20 final size:20
Alignment explanation
Indices: 74497--74575 Score: 106
Period size: 20 Copynumber: 4.0 Consensus size: 20
74487 TTTTGGTTAA
*
74497 AATGAAAATCGCAACGAGAT
1 AATGAGAATCGCAACGAGAT
74517 AATGAGAATCGCAACGAGAT
1 AATGAGAATCGCAACGAGAT
*
74537 AATGAGAATCGCAACGCGGA-
1 AATGAGAATCGCAACG-AGAT
**
74557 AATGACTATCGCAACGAGA
1 AATGAGAATCGCAACGAGA
74576 GAATCGCAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
19 2 0.04
20 49 0.92
21 2 0.04
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (20 bp):
AATGAGAATCGCAACGAGAT
Found at i:74597 original size:33 final size:33
Alignment explanation
Indices: 74540--74638 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
74530 ACGAGATAAT
74540 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
* *
74574 GAGAATCGCAACACGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
74607 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
74639 CGAAATAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 46 0.78
34 13 0.22
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:74632 original size:19 final size:19
Alignment explanation
Indices: 74610--74698 Score: 160
Period size: 19 Copynumber: 4.7 Consensus size: 19
74600 GCGACGAGAG
74610 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
74629 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
74648 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
74667 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
74686 AATCGCAATGCGA
1 AATCGCAACGCGA
74699 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:74716 original size:19 final size:19
Alignment explanation
Indices: 74694--74738 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
74684 AAAATCGCAA
**
74694 TGCGATTTTGGTTTCACGT
1 TGCGATTTTCATTTCACGT
* *
74713 TGCGCTTTTCATTTCGCGT
1 TGCGATTTTCATTTCACGT
74732 TGCGATT
1 TGCGATT
74739 CTCTCGTTGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.09, C:0.20, G:0.24, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCACGT
Found at i:75317 original size:20 final size:20
Alignment explanation
Indices: 75292--75344 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
75282 GCGCTATGTA
75292 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
75312 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
75332 TATCTCGTTGCGA
1 AATCGCGTTGCGA
75345 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:75378 original size:20 final size:20
Alignment explanation
Indices: 75353--75406 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
75343 GATTTTTTAT
75353 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
75373 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
* *
75393 TATCACATTACGAT
1 TATCGCATTGCGAT
75407 TTTCCCAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:75407 original size:61 final size:61
Alignment explanation
Indices: 75293--75409 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
75283 CGCTATGTAA
* * * * * *
75293 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTACGATTTTTTATT
* * *
75354 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCACATTACGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTACGATTTT
75410 CCCAATTCGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTACGATTTTTTATT
Found at i:75425 original size:61 final size:61
Alignment explanation
Indices: 75293--75427 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
75283 CGCTATGTAA
* * * * * * ** *
75293 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTACGATTTTCCAAT
* * *
75354 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCACATTACGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTACGATTTT-CCAAT
75416 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
75428 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTACGATTTTCCAAT
Found at i:76643 original size:46 final size:47
Alignment explanation
Indices: 76592--76681 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
76582 CTAGTAGAGC
* *
76592 GCTACCTAAAATGTTA-TTTTTTCTACCGGAAATATTATTATCGACT
1 GCTACCTAAAATGTTACTTTTTTCTACCAGAAATATTAATATCGACT
* *
76638 GCTACCTAAAATTTTACTTTTTTCTACCAGAAATGTTAATATCG
1 GCTACCTAAAATGTTACTTTTTTCTACCAGAAATATTAATATCG
76682 GAAATATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 15 0.38
47 24 0.62
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (47 bp):
GCTACCTAAAATGTTACTTTTTTCTACCAGAAATATTAATATCGACT
Found at i:76714 original size:21 final size:21
Alignment explanation
Indices: 76690--76743 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
76680 CGGAAATATT
* *
76690 CATTTTAGGTAGTAAAATTAA
1 CATTTTAGGTAGAAAAAATAA
*
76711 CATTTCT-GATAGAAAAAATAA
1 CATTT-TAGGTAGAAAAAATAA
*
76732 CATTTTAAGTAG
1 CATTTTAGGTAG
76744 CGTTTTACCG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.35
Consensus pattern (21 bp):
CATTTTAGGTAGAAAAAATAA
Found at i:77945 original size:20 final size:20
Alignment explanation
Indices: 77909--77946 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
77899 TTTATATTTT
*
77909 TATTTTTTTAATTAAAATAA
1 TATTTTTTTAATCAAAATAA
77929 TATTTTTATT-ATCAAAAT
1 TATTTTT-TTAATCAAAAT
77947 TTAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTTTTTAATCAAAATAA
Found at i:81832 original size:51 final size:51
Alignment explanation
Indices: 81664--82081 Score: 373
Period size: 51 Copynumber: 7.9 Consensus size: 51
81654 TGACGAGTCT
* *
81664 GCTCTCTATTCCTTCAG-GAAGTATAAGACTCGAACAATTCTTC-ATAAAATGTGTCT
1 GCTCTCTATTCCTTCAGAG-AGTATAAGACTCG----A-TCTTCAAT-AAACGTGTCC
* * * * *
81720 GCTCTCTATTCATTCAGAGAGTATGAGACTCAAATAATCTTCAACAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTC----GATCTTCAATAAACGTGTCC
*
81775 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTCT
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTCC
* * * *
81826 GCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTCTATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAAGAC-T---CGATCTTCAAT-AAACGTGTCC
*
81882 GCTCTCTATTTCTTCAGAGAGTAT-AGAACTCGGAAAATCTTCAATAAACAG-GTCC
1 GCTCTCTATTCCTTCAGAGAGTATAAG-ACTC-G---ATCTTCAATAAAC-GTGTCC
* * * * * *
81937 GCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTTAACAAACGTGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTCC
*
81988 GCTCTCTATTCCTTCAGAGAGTA-ATAGACTCGATCTTC-ATAAAATGTGTCC
1 GCTCTCTATTCCTTCAGAGAGTATA-AGACTCGATCTTCAAT-AAACGTGTCC
* *
82039 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTC-ATAAA
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAA
82082 ATGAGTTTGC
Statistics
Matches: 302, Mismatches: 38, Indels: 50
0.77 0.10 0.13
Matches are distributed among these distances:
50 6 0.02
51 135 0.45
52 3 0.01
55 86 0.28
56 71 0.24
57 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (51 bp):
GCTCTCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTCC
Found at i:81923 original size:162 final size:162
Alignment explanation
Indices: 81660--82071 Score: 529
Period size: 162 Copynumber: 2.6 Consensus size: 162
81650 CAAATGACGA
* *
81660 GTCTGCTCTCTATTCCTTCAG-GAAGTATAAGACTCGAACAATTCTTCATAAAATGTGTCTGCTC
1 GTCTGCTCTCTATTCCTTCAGAG-AGTATAAGACTTGAACAA-TCTTCATAAAATGTGTCCGCTC
* *
81724 TCTA-TTCATTCAGAGAGTAT-GAGACTC-AAATAATCTTCAACAAACGGGTCCGCTCTCTATTC
64 TCTATTTC-TTCAGAGAGTATAGA-ACTCGAAATAATCTTCAACAAACAGGTCCGCTCCCTATTC
* *
81786 CTTCAGAGAGTATAAGACTCGATCTTCAATAAACGT
127 CTTCAGAGAGTATAAGACTCAATCTTCAACAAACGT
* * *
81822 GTCTGCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTCTATAAAACGGGTCCGCTCT
1 GTCTGCTCTCTATTCCTTCAGAGAGTATAAGACTTGAACAATCTTC-ATAAAATGTGTCCGCTCT
* * *
81887 CTATTTCTTCAGAGAGTATAGAACTCGGAA-AATCTTCAATAAACAGGTCCGCTCCCTATTCTTT
65 CTATTTCTTCAGAGAGTATAGAACTCGAAATAATCTTCAACAAACAGGTCCGCTCCCTATTCCTT
* *
81951 CAGAGAGTATAGGACTCAATCTTTAACAAACGT
130 CAGAGAGTATAAGACTCAATCTTCAACAAACGT
* * *
81984 GTCCGCTCTCTATTCCTTCAGAGAGTA-ATAGAC-T---CGATCTTCATAAAATGTGTCCGCTCC
1 GTCTGCTCTCTATTCCTTCAGAGAGTATA-AGACTTGAACAATCTTCATAAAATGTGTCCGCTCT
* *
82044 CTATTCCTTCAGAGAGTATAGGACTCGA
65 CTATTTCTTCAGAGAGTATAGAACTCGA
82072 TCTTCATAAA
Statistics
Matches: 221, Mismatches: 23, Indels: 17
0.85 0.09 0.07
Matches are distributed among these distances:
157 40 0.18
158 7 0.03
161 7 0.03
162 159 0.72
163 8 0.04
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (162 bp):
GTCTGCTCTCTATTCCTTCAGAGAGTATAAGACTTGAACAATCTTCATAAAATGTGTCCGCTCTC
TATTTCTTCAGAGAGTATAGAACTCGAAATAATCTTCAACAAACAGGTCCGCTCCCTATTCCTTC
AGAGAGTATAAGACTCAATCTTCAACAAACGT
Found at i:82127 original size:37 final size:36
Alignment explanation
Indices: 82086--82157 Score: 126
Period size: 37 Copynumber: 2.0 Consensus size: 36
82076 CATAAAATGA
82086 GTTTGCTTCACTAATCTTCCGTGAAGGCTTACAGATG
1 GTTTGCTTCACTAATCTTCCGTGAAGGCTTA-AGATG
*
82123 GTTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
1 GTTTGCTTCACTAATCTTCCGTGAAGGCTTAAGAT
82158 TGACCTGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 4 0.12
37 30 0.88
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (36 bp):
GTTTGCTTCACTAATCTTCCGTGAAGGCTTAAGATG
Found at i:83462 original size:16 final size:15
Alignment explanation
Indices: 83430--83591 Score: 81
Period size: 16 Copynumber: 10.7 Consensus size: 15
83420 TGAACCCTCC
*
83430 TTTT-ATTTCTCTTT
1 TTTTCATTTTTCTTT
*
83444 TTTTCATTTTTCATT
1 TTTTCATTTTTCTTT
**
83459 TTTTC----TTCCAT
1 TTTTCATTTTTCTTT
*
83470 TTTCCATTTTTTCTTT
1 TTTTCA-TTTTTCTTT
*
83486 TTTT-TTCTTTTCGTTT
1 TTTTCAT-TTTTC-TTT
83502 TTTCCATCATTTTTCTTT
1 TTT---TCATTTTTCTTT
83520 TTTCTCATTTTTCTTT
1 TTT-TCATTTTTCTTT
* *
83536 TCTTC-TTTTTCTTC
1 TTTTCATTTTTCTTT
*
83550 TTTTCATTTTTATTAT
1 TTTTCATTTTTCTT-T
*
83566 TATTT--TTTTTCATTA
1 T-TTTCATTTTTC-TTT
83581 TTTTCATTTTT
1 TTTTCATTTTT
83592 TCTCTTTTAT
Statistics
Matches: 112, Mismatches: 18, Indels: 34
0.68 0.11 0.21
Matches are distributed among these distances:
11 8 0.07
14 20 0.18
15 33 0.29
16 35 0.31
17 3 0.03
18 6 0.05
19 6 0.05
20 1 0.01
ACGTcount: A:0.09, C:0.16, G:0.01, T:0.74
Consensus pattern (15 bp):
TTTTCATTTTTCTTT
Found at i:83472 original size:19 final size:19
Alignment explanation
Indices: 83448--83484 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
83438 CTCTTTTTTT
*
83448 CATTTTTCATTTTTTCTTC
1 CATTTTCCATTTTTTCTTC
83467 CATTTTCCATTTTTTCTT
1 CATTTTCCATTTTTTCTT
83485 TTTTTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.68
Consensus pattern (19 bp):
CATTTTCCATTTTTTCTTC
Found at i:83492 original size:19 final size:19
Alignment explanation
Indices: 83441--83484 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
83431 TTTATTTCTC
*
83441 TTTTT-TTCATTTTT-CAT
1 TTTTTCTTCCTTTTTCCAT
*
83458 TTTTTCTTCCATTTTCCAT
1 TTTTTCTTCCTTTTTCCAT
83477 TTTTTCTT
1 TTTTTCTT
83485 TTTTTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 7 0.30
19 11 0.48
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTCTTCCTTTTTCCAT
Found at i:83497 original size:42 final size:40
Alignment explanation
Indices: 83435--83585 Score: 114
Period size: 40 Copynumber: 3.7 Consensus size: 40
83425 CCTCCTTTTA
*
83435 TTTCTCTTTTTTTCATTTTTCATTTTTTCTTCCATTTTCCATTT
1 TTTCTTTTTTTTTC--TTTTCATTTTTTCTT-CATTTT-CATTT
* *
83479 TTTCTTTTTTTTTCTTTTCGTTTTTTCCATCATTTTTC-TTT
1 TTTCTTTTTTTTTCTTTTCATTTTTT-CTTCA-TTTTCATTT
** *
83520 TTTC-TCATTTTTCTTTTCTTCTTTTTCTTC-TTTTCATTT
1 TTTCTTTTTTTTTCTTTTCAT-TTTTTCTTCATTTTCATTT
* *
83559 TTAT-TATTATTTT-TTTTCATTATTTTC
1 TT-TCTTTTTTTTTCTTTTCATT-TTTTC
83586 ATTTTTTCTC
Statistics
Matches: 88, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
38 6 0.07
39 16 0.18
40 21 0.24
41 12 0.14
42 14 0.16
43 6 0.07
44 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.01, T:0.74
Consensus pattern (40 bp):
TTTCTTTTTTTTTCTTTTCATTTTTTCTTCATTTTCATTT
Found at i:83538 original size:14 final size:14
Alignment explanation
Indices: 83508--83560 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
83498 GTTTTTTCCA
83508 TCATTTTTCTTTTTTC
1 TCATTTTTC--TTTTC
83524 TCATTTTTCTTTTC
1 TCATTTTTCTTTTC
*
83538 TTC-TTTTTCTTCTTT
1 -TCATTTTTCTT-TTC
83553 TCATTTTT
1 TCATTTTT
83561 ATTATTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 15 0.45
15 9 0.27
16 9 0.27
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (14 bp):
TCATTTTTCTTTTC
Found at i:83572 original size:57 final size:61
Alignment explanation
Indices: 83447--83560 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 61
83437 TCTCTTTTTT
* *
83447 TCATTTTTCATTTTTTCTTCCATTTTCCATTTTTTCTTTTTTTTTCTTTTCGTTTTTTCCA
1 TCATTTTTCATTTTTTCTTCCATTTTCCATTTTTTCTTTTTTCTTCTTTTCATTTTTTCCA
*
83508 TCATTTTTC-TTTTTTC-T-CATTTTTC-TTTTCTTC-TTTTTCTTCTTTTCATTTTT
1 TCATTTTTCATTTTTTCTTCCATTTTCCATTTT-TTCTTTTTTCTTCTTTTCATTTTT
83561 ATTATTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
57 22 0.45
58 10 0.20
59 1 0.02
60 7 0.14
61 9 0.18
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.73
Consensus pattern (61 bp):
TCATTTTTCATTTTTTCTTCCATTTTCCATTTTTTCTTTTTTCTTCTTTTCATTTTTTCCA
Found at i:83588 original size:31 final size:29
Alignment explanation
Indices: 83511--83591 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
83501 TTTTCCATCA
* * *
83511 TTTTTCTTTTTTCTCATTTTTCTTTTCTTC
1 TTTTTCTTATTT-TCATTTTTATTTTATTC
* *
83541 TTTTTCTTCTTTTCATTTTTATTATTATTT
1 TTTTTCTTATTTTCATTTTTATT-TTATTC
83571 TTTTTCATTATTTTCATTTTT
1 TTTTTC-TTATTTTCATTTTT
83592 TCTCTTTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 10 0.23
30 21 0.48
31 13 0.30
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.77
Consensus pattern (29 bp):
TTTTTCTTATTTTCATTTTTATTTTATTC
Found at i:93296 original size:45 final size:47
Alignment explanation
Indices: 93225--93335 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 47
93215 CCATGCTTTG
* *
93225 TTATTCACAAAAATAAATCCTAACCGCTTGATATCTAATTCGCATGC-
1 TTATTCA-AAAAACAAATCCTAACCGCATGATATCTAATTCGCATGCA
* *
93272 TTGTTCAAAAAACAAA-CCTAACCGCATGATATCTAGTTCGCATGCA
1 TTATTCAAAAAACAAATCCTAACCGCATGATATCTAATTCGCATGCA
93318 TTTATTCGAAAAAACAAA
1 -TTATTC-AAAAAACAAA
93336 AATAAATGAC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
45 27 0.48
46 8 0.14
47 11 0.20
48 10 0.18
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (47 bp):
TTATTCAAAAAACAAATCCTAACCGCATGATATCTAATTCGCATGCA
Found at i:101022 original size:13 final size:13
Alignment explanation
Indices: 101004--101030 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100994 TTACAGACGC
101004 GCATATGAAGACT
1 GCATATGAAGACT
101017 GCATATGAAGACT
1 GCATATGAAGACT
101030 G
1 G
101031 TTCAACTATG
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:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:114731 original size:41 final size:42
Alignment explanation
Indices: 114684--114802 Score: 197
Period size: 41 Copynumber: 2.9 Consensus size: 42
114674 TTTCCTCGAA
*
114684 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATG-T
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
114725 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
114767 TTCCCGTGGTTTGTTTCACGTAATTC-ATTTCCGGAA
1 TTCCCGT-GTTTGTTTCACGTAATTCGTTTTCCGGAA
114803 TGTAATTCAT
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
41 39 0.53
42 17 0.23
43 18 0.24
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:121829 original size:41 final size:41
Alignment explanation
Indices: 121784--121902 Score: 184
Period size: 41 Copynumber: 2.9 Consensus size: 41
121774 GCGAATTTGG
*
121784 AAAATCGCAATGTGATACTGACTATCGCATCGCGATAATAC
1 AAAATCGCAATGTGATACTGACTATCGCAACGCGATAATAC
* *
121825 AAAATCACAATATGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAATGTGATACTGACTATCGCAACGCGATAATAC
* * *
121866 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATA
1 AAAATCGCAATGTGATACTGACTATCGCAACGCGATA
121903 CTGACTTTCG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.22
Consensus pattern (41 bp):
AAAATCGCAATGTGATACTGACTATCGCAACGCGATAATAC
Found at i:121895 original size:20 final size:20
Alignment explanation
Indices: 121838--121982 Score: 157
Period size: 20 Copynumber: 7.2 Consensus size: 20
121828 ATCACAATAT
*
121838 GATACTGACTATCGCAACGC
1 GATACTGACTTTCGCAACGC
* **
121858 GATAAT-ACAAAATCGCAACGC
1 GATACTGAC--TTTCGCAACGC
121879 GATACTGACTTTCGCAACGC
1 GATACTGACTTTCGCAACGC
*
121899 GATACTGACTTTCGCAACAC
1 GATACTGACTTTCGCAACGC
* *
121919 AATTCTGACTTTCGCAACGC
1 GATACTGACTTTCGCAACGC
* *
121939 GATTCTGACTTTCGCAACGA
1 GATACTGACTTTCGCAACGC
* * *
121959 GATTCTGACTATCGCAACGA
1 GATACTGACTTTCGCAACGC
121979 GATA
1 GATA
121983 ATACAGAATC
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 90 0.83
21 15 0.14
22 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (20 bp):
GATACTGACTTTCGCAACGC
Found at i:125278 original size:20 final size:19
Alignment explanation
Indices: 125250--125304 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
125240 TAATCATCTT
*
125250 AATGTCTATCGCAACGCAGA
1 AATGACTATCGCAACGC-GA
*
125270 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
125289 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
125305 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:125319 original size:33 final size:33
Alignment explanation
Indices: 125277--125370 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
125267 AGAAATGACT
125277 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
125310 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
125343 ATCGCAAAGCGAAATGAAAATCACAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
125371 CGAATTTAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:125333 original size:19 final size:19
Alignment explanation
Indices: 125257--125335 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
125247 CTTAATGTCT
* **
125257 ATCGCAACGCAGAAATGACT
1 ATCGCAATGC-GAAATGAAA
125277 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
125296 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
125310 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
125329 ATCGCAA
1 ATCGCAA
125336 CGAGGGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 24 0.49
20 9 0.18
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:125392 original size:19 final size:19
Alignment explanation
Indices: 125370--125444 Score: 63
Period size: 19 Copynumber: 4.2 Consensus size: 19
125360 AAATCACAAC
125370 GCGAATTT-AGTTTCGCGTT
1 GCGAATTTCA-TTTCGCGTT
*
125389 GCG-ATTT--TGTCG--TT
1 GCGAATTTCATTTCGCGTT
*
125403 GCGATTTTCATTTCGCGTT
1 GCGAATTTCATTTCGCGTT
* *
125422 GCGATTTTCATTTCGTGTT
1 GCGAATTTCATTTCGCGTT
125441 GCGA
1 GCGA
125445 TTCTCTCGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
14 5 0.11
15 3 0.06
16 4 0.09
17 4 0.09
18 4 0.09
19 27 0.57
ACGTcount: A:0.12, C:0.17, G:0.25, T:0.45
Consensus pattern (19 bp):
GCGAATTTCATTTCGCGTT
Found at i:125445 original size:19 final size:18
Alignment explanation
Indices: 125400--125469 Score: 85
Period size: 19 Copynumber: 4.0 Consensus size: 18
125390 CGATTTTGTC
125400 GTTGCGATTTTCATTTCG
1 GTTGCGATTTTCATTTCG
125418 CGTTGCGATTTTCATTTCG
1 -GTTGCGATTTTCATTTCG
*
125437 TGTTGCGA--TTC-TCTC-
1 -GTTGCGATTTTCATTTCG
125452 GTTGCGATTTTCATTTCG
1 GTTGCGATTTTCATTTCG
125470 CATTGTGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
14 7 0.16
16 6 0.14
17 6 0.14
19 25 0.57
ACGTcount: A:0.10, C:0.20, G:0.21, T:0.49
Consensus pattern (18 bp):
GTTGCGATTTTCATTTCG
Found at i:125485 original size:52 final size:52
Alignment explanation
Indices: 125380--125486 Score: 151
Period size: 52 Copynumber: 2.1 Consensus size: 52
125370 GCGAATTTAG
* * * **
125380 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAGTCA
* *
125432 TTTCGTGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGTGATAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAGTCA
125484 TTT
1 TTT
125487 TTGCCTTCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.11, C:0.19, G:0.21, T:0.49
Consensus pattern (52 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAGTCA
Found at i:125604 original size:14 final size:14
Alignment explanation
Indices: 125585--125621 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
125575 CATCAATTAA
125585 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
125599 ACAAATCATCTTTT
1 ACAAATCAACTTTT
125613 ACAAATCAA
1 ACAAATCAA
125622 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:127642 original size:94 final size:94
Alignment explanation
Indices: 127481--127882 Score: 718
Period size: 94 Copynumber: 4.3 Consensus size: 94
127471 GAATAGTTTC
* * * *
127481 AATTGGCAGCAAACGAACAAATTTACTTTCAACCAAAAGACAAAATAAAGACAAATACTAATTTC
1 AATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
127546 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
*
127575 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
127640 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
127669 AATTGGCAGCAACCGAATAAATTTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
127733 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
127762 AATTGGCAGCAACCGAATAAATTTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTT
1 AATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTT
*
127826 CACAGTGTTAAAGAATAAACAGTTTAGCAG
65 CACAGTGTTAAAGAATACACAGTTTAGCAG
*
127856 TATTGGCAGCAACCGAATAAATTTACT
1 AATTGGCAGCAACCGAATAAATTTACT
127883 AAGCAATCTA
Statistics
Matches: 300, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
93 112 0.37
94 188 0.63
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (94 bp):
AATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
ACAGTGTTAAAGAATACACAGTTTAGCAG
Found at i:127814 original size:187 final size:187
Alignment explanation
Indices: 127481--127882 Score: 716
Period size: 187 Copynumber: 2.1 Consensus size: 187
127471 GAATAGTTTC
* * * *
127481 AATTGGCAGCAAACGAACAAATTTACTTTCAACCAAAAGACAAAATAAAGACAAATACTAATTTC
1 AATTGGCAGCAACCGAATAAATTTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
127546 ACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAA
65 ACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAA
*
127611 AAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAG
130 AAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAG
127669 AATTGGCAGCAACCGAATAAATTTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCA
1 AATTGGCAGCAACCGAATAAATTTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCA
*
127734 CAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTAC-TTCAACCAAA
66 CAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAA
127798 AGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAG
131 AGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAG
*
127856 TATTGGCAGCAACCGAATAAATTTACT
1 AATTGGCAGCAACCGAATAAATTTACT
127883 AAGCAATCTA
Statistics
Matches: 206, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
186 19 0.09
187 163 0.79
188 24 0.12
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (187 bp):
AATTGGCAGCAACCGAATAAATTTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCA
CAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAA
AGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAG
Found at i:129632 original size:19 final size:19
Alignment explanation
Indices: 129568--129647 Score: 124
Period size: 20 Copynumber: 4.1 Consensus size: 19
129558 TCTTTTGGTT
*
129568 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
129587 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
129607 GGAAATGAAAATCGCAACGC
1 -GAAATGAAAATCGCAACGC
*
129627 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
129646 GA
1 GA
129648 TTTTGGTTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
19 22 0.39
20 33 0.58
21 2 0.04
ACGTcount: A:0.47, C:0.17, G:0.24, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:129691 original size:33 final size:33
Alignment explanation
Indices: 129643--129735 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
129633 AAAATCGCAA
**
129643 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
129676 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
**
129709 TGCGATAGTCATTTCCGCGTTGCGATT
1 TGCGATTTTCATTT-CGCGTTGCGATT
129736 TTCATTCTCG
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 42 0.78
34 12 0.22
ACGTcount: A:0.11, C:0.22, G:0.25, T:0.43
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:129740 original size:20 final size:19
Alignment explanation
Indices: 129673--129741 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 19
129663 GCGATTATCT
129673 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
129692 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
**
129706 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTT-CG
129726 CGTTGCGATTTTCATT
1 CGTTGCGATTTTCATT
129742 CTCGAAACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
14 10 0.26
16 2 0.05
17 3 0.08
19 9 0.23
20 15 0.38
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:130310 original size:20 final size:20
Alignment explanation
Indices: 130287--130503 Score: 136
Period size: 20 Copynumber: 10.7 Consensus size: 20
130277 CGATAGTCAG
130287 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
130307 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
* *
130327 AATTCGCATTGTGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* *
130348 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
130368 ATTCGCATTGCGAATTATGAA
1 ATTCGCATTGCGATTTACG-T
* ** *
130389 AATCGCAACGCGA-ATACGT
1 ATTCGCATTGCGATTTACGT
* * *
130408 AAATCGCATTGTGATTT-TGT
1 -ATTCGCATTGCGATTTACGT
* *
130428 ATTATCGCGTTGCGATAGT-CAGT
1 A-T-TCGCATTGCGAT-TTAC-GT
* **
130451 A-TCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
130471 ATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGT
130491 ATTCGCATTGCGA
1 ATTCGCATTGCGA
130504 ATTGGGAAAA
Statistics
Matches: 149, Mismatches: 37, Indels: 22
0.72 0.18 0.11
Matches are distributed among these distances:
19 1 0.01
20 93 0.62
21 51 0.34
22 1 0.01
23 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:130343 original size:41 final size:40
Alignment explanation
Indices: 130287--130503 Score: 127
Period size: 41 Copynumber: 5.3 Consensus size: 40
130277 CGATAGTCAG
* *
130287 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * * *
130327 AATTCGCATTGTGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * * ** * *
130368 ATTCGCATTGCGAATTATGAAAATCGCAACGCGA-ATACGT
1 ATTCGCATTGCGATTTACG-TAATCGCATTGCGATTTACCT
* * * * * *
130408 AAATCGCATTGTGATTT-TGTATTATCGCGTTGCGATAGT-CAGT
1 -ATTCGCATTGCGATTTACGTA--ATCGCATTGCGAT-TTAC-CT
* ** *
130451 A-TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGTAA-TCGCATTGCGATTTACCT
130491 ATTCGCATTGCGA
1 ATTCGCATTGCGA
130504 ATTGGGAAAA
Statistics
Matches: 135, Mismatches: 30, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
39 1 0.01
40 26 0.19
41 102 0.76
42 3 0.02
43 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:130523 original size:21 final size:20
Alignment explanation
Indices: 130493--130574 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 20
130483 ATTTACTTAT
130493 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATT-GGAAAA
*
130514 TCGCAATGCGAAATTGGAAAA
1 TCGCATTGCG-AATTGGAAAA
* *
130535 TCGCATTGCG-ATAGTAATAA
1 TCGCATTGCGAATTGGAA-AA
*
130555 TCGCGTTGCGAATCTGGAAA
1 TCGCATTGCGAAT-TGGAAA
130575 CTGATTTGCG
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
19 5 0.10
20 11 0.22
21 27 0.54
22 7 0.14
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (20 bp):
TCGCATTGCGAATTGGAAAA
Found at i:131935 original size:79 final size:79
Alignment explanation
Indices: 131816--131972 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
131806 GTTAATATTT
* * * *
131816 TTTAATATTTTTGGTAAAGCGCTACCTAAAACATTATTTTTTTTACC-GAAAATATTAATATTGG
1 TTTAATATTTTCGATAAAACGCTACCTAAAACATTATTTTTTCTACCAG-AAATATTAATATTGG
*
131880 GCGCTACCTAAAATG
65 ACGCTACCTAAAATG
* * * *
131895 TTTAATATTTTCGATAAAATGCTACCTAAAATATTATTTTTTCTATCAGAAATGTTAATATTGGA
1 TTTAATATTTTCGATAAAACGCTACCTAAAACATTATTTTTTCTACCAGAAATATTAATATTGGA
*
131960 TGCTACCTAAAAT
66 CGCTACCTAAAAT
131973 ATTATTTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
79 66 0.99
80 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (79 bp):
TTTAATATTTTCGATAAAACGCTACCTAAAACATTATTTTTTCTACCAGAAATATTAATATTGGA
CGCTACCTAAAATG
Found at i:138279 original size:47 final size:47
Alignment explanation
Indices: 138210--138338 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 47
138200 GTCATAAAAA
* * *
138210 CACTGACAATGCCCCACGAGGGCAACTAAGGTAGCCTAACTACATAC
1 CACTGACAATGCCCCACAAGGGCAACTGAGGTAGCCTAACTACACAC
* * * * *
138257 CACTGATAATGCCCCACAAGGGCAACTGAGTTAACTTAGCTACACAC
1 CACTGACAATGCCCCACAAGGGCAACTGAGGTAGCCTAACTACACAC
* ** *
138304 CATTGGGAATGCCCCACTAGGGCAACTGAGGTAGC
1 CACTGACAATGCCCCACAAGGGCAACTGAGGTAGC
138339 TTCACCACAC
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (47 bp):
CACTGACAATGCCCCACAAGGGCAACTGAGGTAGCCTAACTACACAC
Found at i:141244 original size:18 final size:18
Alignment explanation
Indices: 141197--141238 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
141187 TATGATGTTA
141197 CTTATAACTATTGTAGTT
1 CTTATAACTATTGTAGTT
141215 CTTATAACTATTGTAGTT
1 CTTATAACTATTGTAGTT
141233 CTTATA
1 CTTATA
141239 TTTATTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.50
Consensus pattern (18 bp):
CTTATAACTATTGTAGTT
Found at i:142304 original size:2 final size:2
Alignment explanation
Indices: 142297--142361 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
142287 TTTCTTGTGT
142297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
142339 TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
142362 GGCAAATAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:143195 original size:16 final size:16
Alignment explanation
Indices: 143174--143207 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
143164 CCAAACACTT
143174 AAAATGATAACATTAA
1 AAAATGATAACATTAA
*
143190 AAAATGATACCATTAA
1 AAAATGATAACATTAA
143206 AA
1 AA
143208 GCATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAATGATAACATTAA
Found at i:157987 original size:15 final size:15
Alignment explanation
Indices: 157967--157998 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
157957 ATAATCTTTA
*
157967 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
157982 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
157997 TT
1 TT
157999 GGATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:164183 original size:31 final size:32
Alignment explanation
Indices: 164140--164199 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
164130 TACTATAATT
*
164140 TTAAAAATTATTCATTAAAGTTA-AAAAATGA
1 TTAAAAAATATTCATTAAAGTTATAAAAATGA
* *
164171 TTAAAAAATATTCTTTAAATTTATAAAAA
1 TTAAAAAATATTCATTAAAGTTATAAAAA
164200 ATAATCACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (32 bp):
TTAAAAAATATTCATTAAAGTTATAAAAATGA
Found at i:164214 original size:21 final size:21
Alignment explanation
Indices: 164190--164235 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
164180 ATTCTTTAAA
*
164190 TTTATAAAAAATAATCACTAT
1 TTTATAAAAAATAATCACCAT
* * *
164211 TTTATAACATATAATGACCAT
1 TTTATAAAAAATAATCACCAT
164232 TTTA
1 TTTA
164236 CAATAATTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (21 bp):
TTTATAAAAAATAATCACCAT
Found at i:166497 original size:21 final size:20
Alignment explanation
Indices: 166455--166497 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
166445 TTGAAACCCC
*
166455 AAGTTTAGAAACTTTGATAA
1 AAGTTTAGAAACTTTGAGAA
166475 AAGTTTCA-AAACTATTGAGAA
1 AAGTTT-AGAAACT-TTGAGAA
166496 AA
1 AA
166498 TATTGAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (20 bp):
AAGTTTAGAAACTTTGAGAA
Found at i:166542 original size:73 final size:69
Alignment explanation
Indices: 166455--166630 Score: 219
Period size: 73 Copynumber: 2.5 Consensus size: 69
166445 TTGAAACCCC
*
166455 AAGTTTAGAAACTTTGATAAAAGTTTCAAAACTATTGAGAAAATATTGAAACTTCTAAACACACT
1 AAGTTTA-AAACTTTGATAAAAGTTTCAAAACTATTGAGAAAATATCGAAACTTCT--A-ACACT
166520 ATTTTTAA
62 ATTTTTAA
* * *
166528 AAGTTTCAAAACTTTGATGAAAGTTTCAAAACTATTGAGAAAGTATCGAAACTTCTAACACTGTT
1 AAGTTT-AAAACTTTGATAAAAGTTTCAAAACTATTGAGAAAATATCGAAACTTCTAACACTATT
*
166593 TTTTA
65 TTTAA
* *
166598 AAGTTTTGAAAA-TTTGATAAAAGCTTCGAAACT
1 AAG-TTT-AAAACTTTGATAAAAGTTTCAAAACT
166631 CTTACTTAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
70 32 0.35
71 8 0.09
73 51 0.55
74 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (69 bp):
AAGTTTAAAACTTTGATAAAAGTTTCAAAACTATTGAGAAAATATCGAAACTTCTAACACTATTT
TTAA
Found at i:166552 original size:20 final size:19
Alignment explanation
Indices: 166527--166581 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
166517 ACTATTTTTA
166527 AAAGTTTCAAAACTTTGATG
1 AAAGTTTCAAAACTTTGA-G
166547 AAAGTTTCAAAACTATTGAG
1 AAAGTTTCAAAACT-TTGAG
* *
166567 AAAGTATCGAAACTT
1 AAAGTTTCAAAACTT
166582 CTAACACTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 27 0.84
21 4 0.12
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (19 bp):
AAAGTTTCAAAACTTTGAG
Found at i:172340 original size:25 final size:25
Alignment explanation
Indices: 172306--172358 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
172296 TTAAAAGTAA
* *
172306 AAATTTTCCTTTTACTTTTATGTAG
1 AAATCTTCCTTTTACTTCTATGTAG
*
172331 AAATCTTCCTTTTCCTTCTATGTAG
1 AAATCTTCCTTTTACTTCTATGTAG
172356 AAA
1 AAA
172359 ATCTACTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (25 bp):
AAATCTTCCTTTTACTTCTATGTAG
Found at i:172367 original size:25 final size:25
Alignment explanation
Indices: 172314--172367 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
172304 AAAAATTTTC
* *
172314 CTTTTACTTTTATGTAGAAATCTTC
1 CTTTTACTTCTATGTAGAAATCTTA
*
172339 CTTTTCCTTCTATGTAGAAAATC-TA
1 CTTTTACTTCTATGTAG-AAATCTTA
172364 CTTT
1 CTTT
172368 ATAGGTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.24, C:0.19, G:0.07, T:0.50
Consensus pattern (25 bp):
CTTTTACTTCTATGTAGAAATCTTA
Found at i:175472 original size:4 final size:4
Alignment explanation
Indices: 175454--175501 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
175444 ACCCCCACAT
**
175454 TTTC TTTAC -TTC TTTC TTTC TTTC TTTC TTTC TTCTC CCTC TTTC TTT
1 TTTC TTT-C TTTC TTTC TTTC TTTC TTTC TTTC TT-TC TTTC TTTC TTT
175502 TTCTCTCTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
3 1 0.03
4 33 0.89
5 3 0.08
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:175504 original size:19 final size:20
Alignment explanation
Indices: 175472--175532 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
175462 CTTCTTTCTT
175472 TCTTTCTTTCTT-TCTTCTCCC
1 TCTTTCTTT-TTCTC-TCTCCC
*
175493 TCTTTCTTTTTCTCTCTCCT
1 TCTTTCTTTTTCTCTCTCCC
*
175513 TATTTCTTTTCTCTCTCTCC
1 TCTTTCTTTT-TCTCTCTCC
175533 AAGAAGCTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (20 bp):
TCTTTCTTTTTCTCTCTCCC
Done.