Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001365.1 Hibiscus syriacus cultivar Beakdansim tig00002663_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: 129479
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:185 original size:20 final size:20
Alignment explanation
Indices: 131--189 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
121 GCGATTCTCT
**
131 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
151 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
171 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
190 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:1459 original size:18 final size:18
Alignment explanation
Indices: 1435--1475 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1425 CTTCGGGAGA
*
1435 CATCACCTCGCCCAGAGC
1 CATCACCTCACCCAGAGC
*
1453 TATCACCTCACCCAGAGC
1 CATCACCTCACCCAGAGC
1471 CATCA
1 CATCA
1476 TCTGATCGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
CATCACCTCACCCAGAGC
Found at i:1982 original size:20 final size:20
Alignment explanation
Indices: 1957--2002 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1947 TAGTTTACTT
1957 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * **
1977 TCGCAACGCGGAAATGGTTA
1 TCGCAACACGAAAATGACTA
1997 TCGCAA
1 TCGCAA
2003 TGCGAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:2031 original size:14 final size:14
Alignment explanation
Indices: 2012--2069 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2002 ATGCGAAATA
2012 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2026 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
2042 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2058 AAAATCGCAACG
1 AAAATCGCAACG
2070 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:2054 original size:32 final size:32
Alignment explanation
Indices: 1996--2086 Score: 146
Period size: 32 Copynumber: 2.8 Consensus size: 32
1986 GGAAATGGTT
*
1996 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1 ATCGCAATGCGAAAT-GAAATCGCAACGACAAA
2029 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAA
*
2061 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATG-AAATCGCAA
2087 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAA
Found at i:2122 original size:14 final size:14
Alignment explanation
Indices: 2103--2160 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
2093 TTGTGTTTCG
2103 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2117 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2133 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
2149 CGTTGCAATTTT
1 CGTTGCGATTTT
2161 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2137 original size:32 final size:33
Alignment explanation
Indices: 2098--2176 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
2088 GCGATTTGTG
*
2098 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCAATTTTCA
2130 TTTCGCGTTGCGATTTTGTCGTTGCAATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCAATTTTCA
*
2163 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
2177 AGCCATTTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCAATTTTCA
Found at i:2195 original size:20 final size:20
Alignment explanation
Indices: 2161--2216 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
2151 TTGCAATTTT
*
2161 CATTTC-GCATTGCGATAGC
1 CATTTCTGCGTTGCGATAGC
*
2180 CATTTCTGCGTTGCGATAGT
1 CATTTCTGCGTTGCGATAGC
2200 CATTT-TCGCGTTGCGAT
1 CATTTCT-GCGTTGCGAT
2217 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 7 0.21
20 26 0.79
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
CATTTCTGCGTTGCGATAGC
Found at i:2313 original size:27 final size:26
Alignment explanation
Indices: 2247--2315 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
2237 AGTAAACTAT
*
2247 TCTT-CTTCTGGAATGTTTATATATG
1 TCTTACTTCTGGAATGTTTATATAAG
* * **
2272 TTTTCCTT-TTAAATGTTTATATAAG
1 TCTTACTTCTGGAATGTTTATATAAG
2297 TGCTTACTTCTGGAATGTT
1 T-CTTACTTCTGGAATGTT
2316 ATCTGAGCAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
25 18 0.55
26 8 0.24
27 7 0.21
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (26 bp):
TCTTACTTCTGGAATGTTTATATAAG
Found at i:4120 original size:12 final size:12
Alignment explanation
Indices: 4077--4121 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
4067 TTGATTGTTT
4077 AATTGATTTGTA
1 AATTGATTTGTA
*
4089 AAATGATTTGTA
1 AATTGATTTGTA
*
4101 AATGTTGATTTGTT
1 AA--TTGATTTGTA
4115 AATTGAT
1 AATTGAT
4122 GTATATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 18 0.64
14 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (12 bp):
AATTGATTTGTA
Found at i:4218 original size:20 final size:20
Alignment explanation
Indices: 4193--4231 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4183 ATGTTGAAGG
4193 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
4213 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
4232 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:4261 original size:19 final size:19
Alignment explanation
Indices: 4237--4301 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
4227 GCAACGAGAG
4237 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4256 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4275 AATCGCAA--CG-AA--AA
1 AATCGCAATGCGAAATGAA
4289 AATCGCAATGCGA
1 AATCGCAATGCGA
4302 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.23
16 4 0.09
17 2 0.05
19 27 0.63
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4366 original size:20 final size:20
Alignment explanation
Indices: 4327--4396 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
4317 GCGATTTTGT
4327 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGCCATTTTCG
4346 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
4366 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
*
4386 TGTTGCGATAG
1 CGTTGCGATAG
4397 TCAAATGAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 14 0.29
20 35 0.71
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:5411 original size:24 final size:24
Alignment explanation
Indices: 5384--5437 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
5374 GTATTCGAAA
*
5384 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
5408 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
5432 TTTGAT
1 TTTGAT
5438 GATGTTTCAA
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:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:7973 original size:33 final size:33
Alignment explanation
Indices: 7929--8087 Score: 223
Period size: 33 Copynumber: 4.8 Consensus size: 33
7919 GAAATTACTA
7929 TCGCAATGCGAAATGAAAATCGCAACGAGAGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGA-AAT
** *
7963 T-GCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAAAT
** *
7995 TCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAAAT
*
8028 TCGCAATGCGAAATGAAAATCGCAACGAGGGAA-
1 TCGCAATGCGAAATGAAAATCGCAACGA-GAAAT
8061 TCGCAATGCGAAATGAAAATCGCAACG
1 TCGCAATGCGAAATGAAAATCGCAACG
8088 CGAATTTAAT
Statistics
Matches: 116, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
32 3 0.03
33 111 0.96
34 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAAAT
Found at i:8119 original size:14 final size:14
Alignment explanation
Indices: 8102--8158 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
8092 TTTAATTTCG
8102 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
8116 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
8133 CGTGTTGCGATTCTCT
1 C--GTTGCGATTCTCT
8149 CGTTGCGATT
1 CGTTGCGATT
8159 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 17 0.47
16 6 0.17
17 6 0.17
19 7 0.19
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:8140 original size:33 final size:33
Alignment explanation
Indices: 8087--8176 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
8077 AAATCGCAAC
* *
8087 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
8120 GCGATTTTCATTTCGTGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
8153 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
8177 AGTACTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.44
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:8141 original size:19 final size:18
Alignment explanation
Indices: 8117--8167 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 18
8107 CGATTCTCTC
8117 GTTGCGATTTTCATTTCG
1 GTTGCGATTTTCATTTCG
*
8135 TGTTGCGA--TTC-TCTC-
1 -GTTGCGATTTTCATTTCG
8150 GTTGCGATTTTCATTTCG
1 GTTGCGATTTTCATTTCG
8168 CATTGCGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
14 7 0.27
16 6 0.23
17 6 0.23
19 7 0.27
ACGTcount: A:0.10, C:0.20, G:0.22, T:0.49
Consensus pattern (18 bp):
GTTGCGATTTTCATTTCG
Found at i:8176 original size:19 final size:17
Alignment explanation
Indices: 8115--8167 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
8105 TGCGATTCTC
8115 TCGTTGCGATTTTCATT
1 TCGTTGCGATTTTCATT
*
8132 TCGTGTTGCGA--TTC-TC
1 TC--GTTGCGATTTTCATT
8148 TCGTTGCGATTTTCATT
1 TCGTTGCGATTTTCATT
8165 TCG
1 TCG
8168 CATTGCGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 7 0.24
16 6 0.21
17 9 0.31
19 7 0.24
ACGTcount: A:0.09, C:0.21, G:0.21, T:0.49
Consensus pattern (17 bp):
TCGTTGCGATTTTCATT
Found at i:8302 original size:14 final size:14
Alignment explanation
Indices: 8283--8319 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
8273 CATCAATTAA
8283 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
8297 ACAAATCACCTTTT
1 ACAAATCAACTTTT
8311 ACAAATCAA
1 ACAAATCAA
8320 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:9741 original size:21 final size:21
Alignment explanation
Indices: 9675--9741 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
9665 GTGAATCGGG
*
9675 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
9695 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
9717 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
9738 CTCT
1 CTCT
9742 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:9760 original size:42 final size:41
Alignment explanation
Indices: 9675--9797 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
9665 GTGAATCGGG
* * * *
9675 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
9717 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
9759 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
9798 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:10192 original size:91 final size:93
Alignment explanation
Indices: 10015--10199 Score: 297
Period size: 91 Copynumber: 2.0 Consensus size: 93
10005 ATTTCAAACT
10015 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGTATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGTATACACAGTTTAGC
10080 AGAATTGGCAACAACCGAATAAATTTAC
66 AGAATTGGCAACAACCGAATAAATTTAC
10108 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AA-TA-A-ACAGTTTA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAAGTATACACAGTTTA
** *
10169 GCAGTTTTGGCAGCAACCGAATAAATTTAC
64 GCAGAATTGGCAACAACCGAATAAATTTAC
10199 T
1 T
10200 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 36 0.41
92 1 0.01
93 21 0.24
94 2 0.02
95 27 0.31
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (93 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGTATACACAGTTTAGC
AGAATTGGCAACAACCGAATAAATTTAC
Found at i:12005 original size:19 final size:19
Alignment explanation
Indices: 11983--12052 Score: 113
Period size: 19 Copynumber: 3.7 Consensus size: 19
11973 GCGACGAGAG
11983 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
12002 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
12021 AATTGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
12040 AATCGCAATGCGA
1 AATCGCAACGCGA
12053 TTTTTGTTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:12007 original size:33 final size:33
Alignment explanation
Indices: 11913--12011 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
11903 ACGAGATAAT
*
11913 GAGAATCGCAACGCGGAAATGACTATCACAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
11947 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
11980 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
12012 CGAAATAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
33 46 0.77
34 14 0.23
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:12070 original size:19 final size:19
Alignment explanation
Indices: 12048--12092 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
12038 AAAATCGCAA
* *
12048 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCCCGT
*
12067 TGCGTTTTTTATTTCCCGT
1 TGCGATTTTTATTTCCCGT
12086 TGCGATT
1 TGCGATT
12093 CTCTCGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.18, G:0.22, T:0.53
Consensus pattern (19 bp):
TGCGATTTTTATTTCCCGT
Found at i:12714 original size:20 final size:20
Alignment explanation
Indices: 12689--12742 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
12679 GATTTTGTAT
12689 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
12709 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
12729 TATCGCATTGCGAT
1 TATCGCATTGCGAT
12743 TTTACCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:12761 original size:61 final size:61
Alignment explanation
Indices: 12649--12763 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
12639 CGCTATGTAA
* * * ** *
12649 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
* *
12710 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTACCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATCGCATTGCGAT
12764 TTACTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
61 43 0.96
62 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
Found at i:12773 original size:20 final size:21
Alignment explanation
Indices: 12731--12782 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
12721 ATAGTCAGTA
12731 TCGCATTGCGATTTTACCAAT
1 TCGCATTGCGATTTTACCAAT
* **
12752 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
12772 TCGCATTGCGA
1 TCGCATTGCGA
12783 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACCAAT
Found at i:12853 original size:21 final size:21
Alignment explanation
Indices: 12813--12853 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
12803 ACTGTAGACC
**
12813 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
12834 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
12854 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:16518 original size:16 final size:18
Alignment explanation
Indices: 16480--16520 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
16470 TTATCCCAAA
16480 TATAAATATTAAATATAT
1 TATAAATATTAAATATAT
*
16498 T-TAAAT-TTCAATAT-T
1 TATAAATATTAAATATAT
16513 TATAAATA
1 TATAAATA
16521 ATTCATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 2 0.10
16 12 0.60
17 5 0.25
18 1 0.05
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TATAAATATTAAATATAT
Found at i:17613 original size:81 final size:83
Alignment explanation
Indices: 17434--17613 Score: 229
Period size: 81 Copynumber: 2.2 Consensus size: 83
17424 AATAATCGTT
* ** * * *
17434 CTTTATTGGCATTTTTAAACAAATGCCGCAATAGGGTACATATATCGTGGCATTTTTAAGGCAAA
1 CTTTAGTGGCATTTTTAAACAAATGCAACAATAGAGTACATATATAGTGGCATTTTTAAGACAAA
17499 CGACGCTAAAACCTAGTA
66 CGACGCTAAAACCTAGTA
* * * *
17517 CTTTAGTGGCGTTTTT-TATAAATGCAACAATAGAGTACATATATAGTGGCGTTTTT-AGACAAA
1 CTTTAGTGGCATTTTTAAACAAATGCAACAATAGAGTACATATATAGTGGCATTTTTAAGACAAA
** *
17580 CTCCGCTAAAATCTAGTA
66 CGACGCTAAAACCTAGTA
17598 CTTTAGTGGCATTTTT
1 CTTTAGTGGCATTTTT
17614 CTTACAAACG
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 36 0.43
82 33 0.40
83 14 0.17
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (83 bp):
CTTTAGTGGCATTTTTAAACAAATGCAACAATAGAGTACATATATAGTGGCATTTTTAAGACAAA
CGACGCTAAAACCTAGTA
Found at i:18121 original size:22 final size:22
Alignment explanation
Indices: 18096--18139 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18086 TTCTTTCCAC
18096 CACACGCCGTCCTTCTCGCCGT
1 CACACGCCGTCCTTCTCGCCGT
* *
18118 CACAGGCCGTCCTTCTCTCCGT
1 CACACGCCGTCCTTCTCGCCGT
18140 GAAAATCCAA
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:0.09, C:0.48, G:0.18, T:0.25
Consensus pattern (22 bp):
CACACGCCGTCCTTCTCGCCGT
Found at i:18466 original size:20 final size:21
Alignment explanation
Indices: 18424--18467 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18414 AACTTCATTG
*
18424 ATGGTAAAGGCACTTCTGGAA
1 ATGGTAAAGGCACTTCTGAAA
18445 ATGGTAAAGTG-AC-TCTGAAA
1 ATGGTAAAG-GCACTTCTGAAA
18465 ATG
1 ATG
18468 TTTTAGTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 11 0.52
22 1 0.05
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.25
Consensus pattern (21 bp):
ATGGTAAAGGCACTTCTGAAA
Found at i:20688 original size:6 final size:6
Alignment explanation
Indices: 20677--20737 Score: 95
Period size: 6 Copynumber: 10.2 Consensus size: 6
20667 GACACGTATT
* * *
20677 ACCACG ACCACG ACCACG ACCACG ACCTCG ACCTCG ACCTCG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
20725 ACCACG ACCACG A
1 ACCACG ACCACG A
20738 GCCGAGCCGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.30, C:0.49, G:0.16, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:20745 original size:5 final size:5
Alignment explanation
Indices: 20735--20788 Score: 81
Period size: 5 Copynumber: 10.8 Consensus size: 5
20725 ACCACGACCA
* * *
20735 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGTGC CGTGC CGAGC CGAGA
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
20785 CGAG
1 CGAG
20789 ACGGACGGAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.19, C:0.37, G:0.41, T:0.04
Consensus pattern (5 bp):
CGAGC
Found at i:25016 original size:6 final size:6
Alignment explanation
Indices: 25005--25155 Score: 266
Period size: 6 Copynumber: 25.2 Consensus size: 6
24995 GACACGTATT
25005 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
25053 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
* * * *
25101 ACCACG ACCACG ACCTCG ACCTCG ACCACG ACCTCG ACCTCG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
25149 ACCACG A
1 ACCACG A
25156 GCCGAGCCGA
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 141 1.00
ACGTcount: A:0.31, C:0.50, G:0.17, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:25163 original size:5 final size:5
Alignment explanation
Indices: 25153--25216 Score: 92
Period size: 5 Copynumber: 12.8 Consensus size: 5
25143 ACCACGACCA
* *
25153 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGTGC CGTGC CGAGC
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
* *
25203 CGAGA CGAGA CGAG
1 CGAGC CGAGC CGAG
25217 ACGGACGGCG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 56 1.00
ACGTcount: A:0.20, C:0.36, G:0.41, T:0.03
Consensus pattern (5 bp):
CGAGC
Found at i:41022 original size:21 final size:21
Alignment explanation
Indices: 40998--41038 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
40988 TATTATTACG
*
40998 GATTTCAATTTTGTTGTTATA
1 GATTTCAAGTTTGTTGTTATA
41019 GATTTCAAGTTTGTTGTTAT
1 GATTTCAAGTTTGTTGTTAT
41039 GGATGCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.05, G:0.17, T:0.56
Consensus pattern (21 bp):
GATTTCAAGTTTGTTGTTATA
Found at i:41048 original size:21 final size:21
Alignment explanation
Indices: 41007--41051 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
40997 GGATTTCAAT
**
41007 TTTGTTGTTATAGATTTCAAG
1 TTTGTTGTTATAGATGCCAAG
*
41028 TTTGTTGTTATGGATGCCAAG
1 TTTGTTGTTATAGATGCCAAG
41049 TTT
1 TTT
41052 ATTAGATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.07, G:0.22, T:0.51
Consensus pattern (21 bp):
TTTGTTGTTATAGATGCCAAG
Found at i:50009 original size:18 final size:18
Alignment explanation
Indices: 49972--50018 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
49962 CGCATACTAG
**
49972 GGTATCGATATCACCCTT
1 GGTATCGATATCAAACTT
*
49990 GGTATCGATATCAAATTT
1 GGTATCGATATCAAACTT
*
50008 GGTTTCGATAT
1 GGTATCGATAT
50019 TTGGAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (18 bp):
GGTATCGATATCAAACTT
Found at i:54186 original size:29 final size:29
Alignment explanation
Indices: 54150--54235 Score: 156
Period size: 29 Copynumber: 3.0 Consensus size: 29
54140 AGTGTTGACC
54150 GTAGGTCGCCATGC-CTTCCGGGCGACCTT
1 GTAGGTCGCCATGCAC-TCCGGGCGACCTT
54179 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCGCCATGCACTCCGGGCGACCTT
54208 GTAGGTCGCCATGCACTCCGGGCGACCT
1 GTAGGTCGCCATGCACTCCGGGCGACCT
54236 ACCCTTGCTC
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 55 0.98
30 1 0.02
ACGTcount: A:0.13, C:0.35, G:0.31, T:0.21
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCGGGCGACCTT
Found at i:54283 original size:11 final size:11
Alignment explanation
Indices: 54267--54292 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
54257 ATGAACGTGT
54267 TGCATGGCACA
1 TGCATGGCACA
54278 TGCATGGCACA
1 TGCATGGCACA
54289 TGCA
1 TGCA
54293 CGTCCCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (11 bp):
TGCATGGCACA
Found at i:59258 original size:23 final size:23
Alignment explanation
Indices: 59228--59306 Score: 97
Period size: 23 Copynumber: 3.4 Consensus size: 23
59218 GGTTACGCGC
59228 GGTCCTTCGGGACAATTCTATGT
1 GGTCCTTCGGGACAATTCTATGT
* *
59251 GGTCCTTCGGGACAATACTATGC
1 GGTCCTTCGGGACAATTCTATGT
* * *
59274 GGTCCTTCGGTACATTTATATGT
1 GGTCCTTCGGGACAATTCTATGT
59297 GG-CACTTCGG
1 GGTC-CTTCGG
59307 TGTAATTTCT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 1 0.02
23 47 0.98
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.33
Consensus pattern (23 bp):
GGTCCTTCGGGACAATTCTATGT
Found at i:59319 original size:24 final size:24
Alignment explanation
Indices: 59287--59341 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
59277 CCTTCGGTAC
* *
59287 ATTTATATGTGGCACTTCGGTGTA
1 ATTTATATGTGGCACTTCAGTGCA
*
59311 ATTTCTATGTGGCACTTCAGTGCA
1 ATTTATATGTGGCACTTCAGTGCA
59335 ATTTATA
1 ATTTATA
59342 CGAGCTGTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.42
Consensus pattern (24 bp):
ATTTATATGTGGCACTTCAGTGCA
Found at i:59610 original size:18 final size:18
Alignment explanation
Indices: 59587--59622 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
59577 ATACGCCTCA
59587 CTAAGTCTGTGACTTAGC
1 CTAAGTCTGTGACTTAGC
59605 CTAAGTCTGTGACTTAGC
1 CTAAGTCTGTGACTTAGC
59623 GTGTGACTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (18 bp):
CTAAGTCTGTGACTTAGC
Found at i:60592 original size:25 final size:25
Alignment explanation
Indices: 60564--60615 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
60554 AATTTCGAAA
**
60564 TTATCATTTGTTTATCTTTAGGATT
1 TTATCATTTGAATATCTTTAGGATT
* *
60589 TTATTATTTGAATATTTTTAGGATT
1 TTATCATTTGAATATCTTTAGGATT
60614 TT
1 TT
60616 GTCCTTAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.04, G:0.12, T:0.62
Consensus pattern (25 bp):
TTATCATTTGAATATCTTTAGGATT
Found at i:62082 original size:12 final size:12
Alignment explanation
Indices: 62054--62099 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
62044 ATATACAAAT
*
62054 ACCTAACTCTCTC
1 ACCTAACTAT-TC
62067 ACCTAACTATTC
1 ACCTAACTATTC
*
62079 ACCTAACTCTTC
1 ACCTAACTATTC
62091 ACCTAACTA
1 ACCTAACTA
62100 AATTTGATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 21 0.70
13 9 0.30
ACGTcount: A:0.30, C:0.39, G:0.00, T:0.30
Consensus pattern (12 bp):
ACCTAACTATTC
Found at i:69344 original size:81 final size:81
Alignment explanation
Indices: 69258--69554 Score: 219
Period size: 81 Copynumber: 3.6 Consensus size: 81
69248 GTTTACTATC
* * * *
69258 CAAACGCCACAAAATGAT-A-CTTTAGCGTCGTTTTTTTAAACAAACGCCGCAATAGAGTAGTAC
1 CAAACGCCACAAAATG-TCACCTATAGCGGCG-TTTTTTAAACAAACGCCGCAAAAGATTAGTAC
69321 TTTAGCGGCATTTTTATA
64 TTTAGCGGCATTTTTATA
** * * * * * * *
69339 CAAACGCCGTAATAGGTCCATCTATAGTGGCG-TTTTTAGACAAACGCCACAACAGATTAGTACT
1 CAAACGCCACAAAATGT-CACCTATAGCGGCGTTTTTTAAACAAACGCCGCAAAAGATTAGTACT
69403 TTAGCGGCATTTTTATAA
65 TTAGCGGCATTTTTAT-A
* * ** * * * *
69421 AAAATGCCACAATAGGGTTCACCTATAGTGGCGTTTTTTCCAACAAACGCCGCAAAATATTAGAA
1 CAAACGCCACAA-AATG-TCACCTATAGCGGCGTTTTTT-AAACAAACGCCGCAAAAGATTAGTA
* *
69486 CTGTAGCGGCATTTTTACA
63 CTTTAGCGGCATTTTTATA
* * * *
69505 CAAACGCTGCAAAAACATGT-A-CTTTAGCAGCGTTTTTTAGA-AAACGCCGC
1 CAAACGC--CACAAA-ATGTCACCTATAGCGGCGTTTTTTAAACAAACGCCGC
69555 TATAAAATGA
Statistics
Matches: 169, Mismatches: 36, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
80 1 0.01
81 65 0.38
82 11 0.07
83 37 0.22
84 13 0.08
85 37 0.22
86 5 0.03
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (81 bp):
CAAACGCCACAAAATGTCACCTATAGCGGCGTTTTTTAAACAAACGCCGCAAAAGATTAGTACTT
TAGCGGCATTTTTATA
Found at i:69346 original size:41 final size:41
Alignment explanation
Indices: 69290--69419 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
69280 TAGCGTCGTT
*
69290 TTTTTAAACAAACGCCGCAATAGAGTAGTACTTTAGCGGCA
1 TTTTTATACAAACGCCGCAATAGAGTAGTACTTTAGCGGCA
* * * *
69331 TTTTTATACAAACGCCGTAATAG-GTCCA-T-CTATAGTGGCG
1 TTTTTATACAAACGCCGCAATAGAGT--AGTACTTTAGCGGCA
* * * *
69371 TTTTTAGACAAACGCCACAACAGATTAGTACTTTAGCGGCA
1 TTTTTATACAAACGCCGCAATAGAGTAGTACTTTAGCGGCA
69412 TTTTTATA
1 TTTTTATA
69420 AAAAATGCCA
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
39 1 0.01
40 30 0.43
41 38 0.54
42 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (41 bp):
TTTTTATACAAACGCCGCAATAGAGTAGTACTTTAGCGGCA
Found at i:69498 original size:85 final size:81
Alignment explanation
Indices: 69289--69511 Score: 250
Period size: 81 Copynumber: 2.7 Consensus size: 81
69279 TTAGCGTCGT
* * * **
69289 TTTTTTAAACAAACGCCGCAATAGAGTAGTACTTTAGCGGCATTTTTATACAAACGCCGTAATAG
1 TTTTTT-AACAAACGCCGCAAAAGATTAGTACTTTAGCGGCATTTTTATAAAAACGCCACAATAG
*
69354 GTCCATCTATAGTGGCG
65 GTCCACCTATAGTGGCG
* * *
69371 -TTTTTAGACAAACGCCACAACAGATTAGTACTTTAGCGGCATTTTTATAAAAAATGCCACAATA
1 TTTTTTA-ACAAACGCCGCAAAAGATTAGTACTTTAGCGGCATTTTTAT-AAAAACGCCACAATA
*
69435 GGGTTCACCTATAGTGGCG
64 -GGTCCACCTATAGTGGCG
* * * * *
69454 TTTTTTCCAACAAACGCCGCAAAATATTAGAACTGTAGCGGCATTTTTACACAAACGC
1 TTTTTT--AACAAACGCCGCAAAAGATTAGTACTTTAGCGGCATTTTTATAAAAACGC
69512 TGCAAAAACA
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
80 1 0.01
81 43 0.36
82 11 0.09
83 16 0.14
84 11 0.09
85 35 0.30
86 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (81 bp):
TTTTTTAACAAACGCCGCAAAAGATTAGTACTTTAGCGGCATTTTTATAAAAACGCCACAATAGG
TCCACCTATAGTGGCG
Found at i:69688 original size:26 final size:26
Alignment explanation
Indices: 69629--69688 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 26
69619 CAAATCCCAT
69629 TCCCC-TTTTCAATCTGTTCCCACGA
1 TCCCCTTTTTCAATCTGTTCCCACGA
69654 TCCCCTTTTTC-ATCTGTTCCCACGA
1 TCCCCTTTTTCAATCTGTTCCCACGA
* *
69679 TTCTCTTTTT
1 TCCCCTTTTT
69689 GTATTTGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 27 0.84
26 5 0.16
ACGTcount: A:0.12, C:0.37, G:0.07, T:0.45
Consensus pattern (26 bp):
TCCCCTTTTTCAATCTGTTCCCACGA
Found at i:73456 original size:21 final size:21
Alignment explanation
Indices: 73414--73472 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
73404 TGATTTATTA
**
73414 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
73435 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
* *
73456 TTATAGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
73473 ATTGGAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.05, G:0.19, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:73688 original size:43 final size:44
Alignment explanation
Indices: 73619--73887 Score: 248
Period size: 43 Copynumber: 6.2 Consensus size: 44
73609 CTATAGATAT
*** *
73619 GACCTTTTGCGGCGTTTGTTCTAAAAAACGCCGCTATATAC-C-A
1 GACCTTTTGCGGCGTTTGTGGAAAAAAACGCCGCTAAAT-CTCAA
* * *
73662 GATCTTTTGCGGTGTTTGTGG-GAAAAACGCCGCTAAATCTCAA
1 GACCTTTTGCGGCGTTTGTGGAAAAAAACGCCGCTAAATCTCAA
* *
73705 GACCTATTGCGGCGTTTATGGAAAAAAACGCCGCTAAATCTCAA
1 GACCTTTTGCGGCGTTTGTGGAAAAAAACGCCGCTAAATCTCAA
* * *
73749 CACCTATTACGGCGTTTGTAGG-AAAAAA-GCCGCTAAATCTCAA
1 GACCTTTTGCGGCGTTTGT-GGAAAAAAACGCCGCTAAATCTCAA
* * * *
73792 CACCTATTGCGGCGTTTGTGG-GAAAAACTCCGCTAAATCTCAA
1 GACCTTTTGCGGCGTTTGTGGAAAAAAACGCCGCTAAATCTCAA
* * * * *
73835 CACCTATTGCGACGTTTGTTGG--AAAAACGCTGCTAAATATCAA
1 GACCTTTTGCGGCGTTTG-TGGAAAAAAACGCCGCTAAATCTCAA
*
73878 CACCTATTTG
1 GACCT-TTTG
73888 TTGGACAAAC
Statistics
Matches: 197, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 23 0.12
43 122 0.62
44 49 0.25
45 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (44 bp):
GACCTTTTGCGGCGTTTGTGGAAAAAAACGCCGCTAAATCTCAA
Found at i:73870 original size:86 final size:87
Alignment explanation
Indices: 73675--73885 Score: 316
Period size: 86 Copynumber: 2.4 Consensus size: 87
73665 CTTTTGCGGT
* *
73675 GTTTGTGGGAAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTATGGAAAAAAACGCCGCT
1 GTTTGTAGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTATGGAAAAAAACGCCGCT
*
73740 AAATCTCAACACCTATTACGGC
66 AAATCTCAACACCTATTACGAC
* * * *
73762 GTTTGTAGGAAAAAAGCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGG-GAAAAACTCCGCT
1 GTTTGTAGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTATGGAAAAAAACGCCGCT
*
73826 AAATCTCAACACCTATTGCGAC
66 AAATCTCAACACCTATTACGAC
* * *
73848 GTTTGTTGGAAAAACGCTGCTAAATATCAACACCTATT
1 GTTTGTAGGAAAAACGCCGCTAAATCTCAACACCTATT
73886 TGTTGGACAA
Statistics
Matches: 112, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
86 65 0.58
87 47 0.42
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (87 bp):
GTTTGTAGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTATGGAAAAAAACGCCGCT
AAATCTCAACACCTATTACGAC
Found at i:77319 original size:111 final size:111
Alignment explanation
Indices: 76995--77574 Score: 834
Period size: 111 Copynumber: 5.3 Consensus size: 111
76985 TGAAAACTGT
* * * *
76995 AATATATGAAAAATGAAAATGGGTCATTAAACTATGTTAAATTGGGCTAAGTTTATAT--AAAAA
1 AATATACGAATAATGAAAATGGGTCGTTAAACTATGTTAAATTGGGCTAAGTTTATGTCCAAAAA
* * *
77058 TATATATTTTTAATTTATTTGTGACTTGGTTTGGCCCATGAGTAAA
66 TATATACTTTAAATTGATTTGTGACTTGGTTTGGCCCATGAGTAAA
* * * *
77104 AATATAGGAATAATGAAAATGGATAGTTAAACTATGTTAAATTGGGC------TATGCCCAAAAA
1 AATATACGAATAATGAAAATGGGTCGTTAAACTATGTTAAATTGGGCTAAGTTTATGTCCAAAAA
* * * * *
77163 TATATACTTTAAAGTGATTTGTGATTTGGTCTGTCCCTTGAGTAAA
66 TATATACTTTAAATTGATTTGTGACTTGGTTTGGCCCATGAGTAAA
* * **
77209 AATATATGAATAATGAAAATGGGACGTTAAACTATGTTAAATTGTACTAAGTTTATGTCCAAAAA
1 AATATACGAATAATGAAAATGGGTCGTTAAACTATGTTAAATTGGGCTAAGTTTATGTCCAAAAA
* *
77274 TATATACTTTAAATTGATTTGTAACTTGGTTTGGCACATGAGTAAA
66 TATATACTTTAAATTGATTTGTGACTTGGTTTGGCCCATGAGTAAA
77320 AATATACGAATAATGAAAATGGGTCGTTAAACTATGTTAAATTGGGCTAAGTTTATGTCCAAAAA
1 AATATACGAATAATGAAAATGGGTCGTTAAACTATGTTAAATTGGGCTAAGTTTATGTCCAAAAA
* * *
77385 TATATACTTTAAATTGATTTGTGACTTGGTTTAGCCAATGAGAAAA
66 TATATACTTTAAATTGATTTGTGACTTGGTTTGGCCCATGAGTAAA
* * *
77431 AATATACGAATAATAAAAATGGGTCGTTAAACTAAGTTAAATTGGGCTAAGTTTATGTCTAAAAA
1 AATATACGAATAATGAAAATGGGTCGTTAAACTATGTTAAATTGGGCTAAGTTTATGTCCAAAAA
*
77496 TATATACTTTAAATTGATTTGTGACTTGGTTTGGCTCATGAGTAAA
66 TATATACTTTAAATTGATTTGTGACTTGGTTTGGCCCATGAGTAAA
*
77542 AATATACGAATAATGAAAATGGGTCATTAAACT
1 AATATACGAATAATGAAAATGGGTCGTTAAACT
77575 TGTCGGAACA
Statistics
Matches: 416, Mismatches: 47, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
103 3 0.01
105 84 0.20
109 42 0.10
111 287 0.69
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.35
Consensus pattern (111 bp):
AATATACGAATAATGAAAATGGGTCGTTAAACTATGTTAAATTGGGCTAAGTTTATGTCCAAAAA
TATATACTTTAAATTGATTTGTGACTTGGTTTGGCCCATGAGTAAA
Found at i:77935 original size:20 final size:20
Alignment explanation
Indices: 77885--77939 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
77875 TGTTAGATAG
77885 AAAAATAAATAAATAAAAATA
1 AAAAATAAA-AAATAAAAATA
***
77906 AAAGGCAAAAACAT-AAAATA
1 AAAAATAAAAA-ATAAAAATA
77926 AAAAATAAAAAATA
1 AAAAATAAAAAATA
77940 TAGTAGTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
19 2 0.08
20 16 0.62
21 8 0.31
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAAATAAAAAATAAAAATA
Found at i:78000 original size:26 final size:26
Alignment explanation
Indices: 77966--78015 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
77956 GAACCAAAAG
*
77966 AAAAAATAA-TTAAAATAAATAAAATC
1 AAAAAATAAGTT-AAAGAAATAAAATC
77992 AAAAAATAAGTTAAAGAAATAAAA
1 AAAAAATAAGTTAAAGAAATAAAA
78016 AATGAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (26 bp):
AAAAAATAAGTTAAAGAAATAAAATC
Found at i:78036 original size:22 final size:21
Alignment explanation
Indices: 77978--78041 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
77968 AAAATAATTA
*
77978 AAATAAATAAAATCAAAAAAT-
1 AAATAAAAAAAAT-AAAAAATG
* * *
77999 AAGTTAAAGAAATAAAAAATG
1 AAATAAAAAAAATAAAAAATG
78020 AAATAAAAAAAAGTAAAAAATG
1 AAATAAAAAAAA-TAAAAAATG
78042 TTAAATTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (21 bp):
AAATAAAAAAAATAAAAAATG
Found at i:78287 original size:90 final size:88
Alignment explanation
Indices: 78117--78289 Score: 195
Period size: 90 Copynumber: 1.9 Consensus size: 88
78107 ATAAAAGAAT
* * **
78117 TTTTTATTCAAAAATAAAAAAAAGGTCAAAAAGGTTGAAAAAAGAAAAAAGCAAAGGTTAACGTT
1 TTTTTATTCAAAAATAAAAAAAAGGTCAAAAAGGTTGAAAAAAGAAAAAAGAAAAAGCCAACGTT
78182 GAGGGAAAATAAAAATAATAATAAA
66 GA--GAAAATAAAAATAATAATAAA
* * * * * * *
78207 TTTTTATTTAAAAGTGAAAAGAAGGTCAAAAAGTTTGAAAACAAGTAAAAAGGAAAAAGCCAATG
1 TTTTTATTCAAAAATAAAAAAAAGGTCAAAAAGGTTGAAAA-AAG-AAAAAAGAAAAAGCCAACG
78272 TTGA-AAAATAGAAAATAA
64 TTGAGAAAATA-AAAATAA
78290 AAAAAATAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
89 6 0.09
90 43 0.62
91 3 0.04
92 17 0.25
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.22
Consensus pattern (88 bp):
TTTTTATTCAAAAATAAAAAAAAGGTCAAAAAGGTTGAAAAAAGAAAAAAGAAAAAGCCAACGTT
GAGAAAATAAAAATAATAATAAA
Found at i:78345 original size:13 final size:12
Alignment explanation
Indices: 78315--78348 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
78305 TTAATTAACA
78315 AAGAA-AAAAAT
1 AAGAATAAAAAT
78326 AAGAATAAAAAT
1 AAGAATAAAAAT
78338 AAGAAATAAAA
1 AAG-AATAAAA
78349 TAAAATAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.24
12 9 0.43
13 7 0.33
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (12 bp):
AAGAATAAAAAT
Found at i:79443 original size:16 final size:15
Alignment explanation
Indices: 79424--79484 Score: 63
Period size: 16 Copynumber: 4.1 Consensus size: 15
79414 AAATAAAAGA
79424 AATAATAAATATAAGT
1 AATAATAAATATAA-T
*
79440 AATAATAAAGATAAT
1 AATAATAAATATAAT
*
79455 AATAA-ATA-ATAAT
1 AATAATAAATATAAT
*
79468 AATAAATAAATAAAAT
1 AAT-AATAAATATAAT
79484 A
1 A
79485 TTTTTAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
13 8 0.21
14 4 0.11
15 8 0.21
16 18 0.47
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AATAATAAATATAAT
Found at i:79444 original size:13 final size:12
Alignment explanation
Indices: 79439--79480 Score: 59
Period size: 13 Copynumber: 3.5 Consensus size: 12
79429 TAAATATAAG
*
79439 TAATAATAAAGA
1 TAATAATAAATA
79451 TAATAATAAATAA
1 TAATAATAAAT-A
79464 TAATAATAAATA
1 TAATAATAAATA
79476 -AATAA
1 TAATAA
79481 AATATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 5 0.18
12 11 0.39
13 12 0.43
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
TAATAATAAATA
Found at i:79455 original size:28 final size:28
Alignment explanation
Indices: 79406--79477 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
79396 CCTTGAACAA
*
79406 AATAA-AAGAAATAAAAGAAATAATAAAT
1 AATAATAATAAAT-AAAGAAATAATAAAT
79434 -ATAAGTAAT-AATAAAGATAATAATAAAT
1 AATAA-TAATAAATAAAGA-AATAATAAAT
79462 AATAATAATAAATAAA
1 AATAATAATAAATAAA
79478 TAAAATATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
27 9 0.24
28 17 0.45
29 12 0.32
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (28 bp):
AATAATAATAAATAAAGAAATAATAAAT
Found at i:79578 original size:32 final size:31
Alignment explanation
Indices: 79542--79622 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 31
79532 ATATATATTA
*
79542 TATATAAATTTTCAAAAAAGTTTTTTTAAAAC
1 TATATAAATTTTCAAAAAAG-TTTTTAAAAAC
* * *
79574 TATATAATTTTTTAAAAATGTTTTTAAAAAC
1 TATATAAATTTTCAAAAAAGTTTTTAAAAAC
*
79605 TGTAT-AATTTTCAAAAAA
1 TATATAAATTTTCAAAAAA
79623 AAATGTTTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 10 0.24
31 14 0.34
32 17 0.41
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (31 bp):
TATATAAATTTTCAAAAAAGTTTTTAAAAAC
Found at i:79583 original size:31 final size:31
Alignment explanation
Indices: 79542--79645 Score: 102
Period size: 31 Copynumber: 3.2 Consensus size: 31
79532 ATATATATTA
*
79542 TATATAAATTTTCAAAAAA-GTTTTTTTAAAAC
1 TATAT-AATTTTCAAAAAATG-TTTTTAAAAAC
**
79574 TATATAATTTTTTAAAAATGTTTTTAAAAAC
1 TATATAATTTTCAAAAAATGTTTTTAAAAAC
* *
79605 TGTATAATTTTCAAAAAAAAATGTTTTCAAAAAAC
1 TATATAATTTTC---AAAAAATGTTTT-TAAAAAC
79640 TATATA
1 TATATA
79646 TTATATAAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
31 31 0.53
32 6 0.10
34 11 0.19
35 11 0.19
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (31 bp):
TATATAATTTTCAAAAAATGTTTTTAAAAAC
Found at i:79713 original size:37 final size:38
Alignment explanation
Indices: 79621--79799 Score: 226
Period size: 37 Copynumber: 4.8 Consensus size: 38
79611 ATTTTCAAAA
*
79621 AAAAATGTTTTCAAAAAACTATATATTATA-TAAGTTTTC
1 AAAAATGTTTT-AAAAAACTATATATTATATTTA-TTTTC
*
79660 AAAAAAATGTTTTAAAAAACTATATTTTATATTTATTTTC
1 --AAAAATGTTTTAAAAAACTATATATTATATTTATTTTC
* * *
79700 -AAAATGTTTT-AAAAACTATACAATATATATATTTTC
1 AAAAATGTTTTAAAAAACTATATATTATATTTATTTTC
79736 AAAAATGTTTT-AAAAACTATATATTATATTTATTTTC
1 AAAAATGTTTTAAAAAACTATATATTATATTTATTTTC
*
79773 AAAAATGTTTT--AAAACTATATAATATA
1 AAAAATGTTTTAAAAAACTATATATTATA
79800 GAAATGTTTT
Statistics
Matches: 126, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
36 37 0.29
37 54 0.43
40 22 0.17
41 13 0.10
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (38 bp):
AAAAATGTTTTAAAAAACTATATATTATATTTATTTTC
Found at i:79806 original size:63 final size:66
Alignment explanation
Indices: 79738--79865 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
79728 ATATTTTCAA
*
79738 AAATGTTTTAAAAACTATATA-T-TATAT-T-TATTTTCAAAAATGTTTTAAAACTATATAATAT
1 AAATGTTTTAAAAACTATATATTATATATATATATTTTC-AAAATATTTTAAAACTATATAATAT
79799 AG
65 AG
* *
79801 AAATGTTTTCAAAACTATATATTATATATATATATTTTCAAAATATTTTCAAACTATATAATATA
1 AAATGTTTTAAAAACTATATATTATATATATATATTTTCAAAATATTTTAAAACTATATAATATA
79866 TATATATATA
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
63 20 0.34
64 1 0.02
65 5 0.09
66 25 0.43
67 7 0.12
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (66 bp):
AAATGTTTTAAAAACTATATATTATATATATATATTTTCAAAATATTTTAAAACTATATAATATA
G
Found at i:79821 original size:29 final size:27
Alignment explanation
Indices: 79775--79826 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
79765 TTATTTTCAA
79775 AAATGTTTT-AAAACTATATAATATAG
1 AAATGTTTTCAAAACTATATAATATAG
*
79801 AAATGTTTTCAAAACTATATATTATA
1 AAATGTTTTCAAAACTATATAATATA
79827 TATATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (27 bp):
AAATGTTTTCAAAACTATATAATATAG
Found at i:79838 original size:29 final size:27
Alignment explanation
Indices: 79775--79843 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
79765 TTATTTTCAA
*
79775 AAATGTTTT-AAAACTATATAATATAG
1 AAATATTTTCAAAACTATATAATATAG
* *
79801 AAATGTTTTCAAAACTATATATTATATAT
1 AAATATTTTCAAAACTATATA--ATATAG
*
79830 ATATATTTTCAAAA
1 AAATATTTTCAAAA
79844 TATTTTCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.24
27 11 0.30
29 17 0.46
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (27 bp):
AAATATTTTCAAAACTATATAATATAG
Found at i:80595 original size:84 final size:83
Alignment explanation
Indices: 80444--81683 Score: 1254
Period size: 84 Copynumber: 14.8 Consensus size: 83
80434 TGCCTCTGAA
* * * * * * * *
80444 CTGAGCGTAATCGAACTCGAAGGTATTTGGTTGGAATATATCCCTTTTCGTCTTAAGCTATGCTG
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
*
80509 TAAATGATGTGCCTTGGAG
65 CAAATGATGTGCCTTGGAG
* * * * * *
80528 CTGAGTGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTG
1 CTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
* *
80593 TAAATGATGTGCCCTTGAAG
65 CAAATGATGTG-CCTTGGAG
* ** * * *
80613 CTGAGCGTAGTCGAACTCAAAGGTC-TT--AAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGT
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
80675 AAATGATGTGCCTTGGAG
66 AAATGATGTGCCTTGGAG
* *
80693 CTGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTG
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
*
80758 CAAATGATATGCCTTGGAG
65 CAAATGATGTGCCTTGGAG
* * * *
80777 CTGAGCGTAGTCAAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTG
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
80842 CAAATGATGTGCCTTGGAG
65 CAAATGATGTGCCTTGGAG
* * * * * * * * * *
80861 TTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGAAAATAGCCCTTCTTGCCTTGAA-CTATGTT
1 CTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTT-AAGTTATGCT
80925 GCAAATGATGTGCCTTGGAG
64 GCAAATGATGTGCCTTGGAG
* * * * * * * *
80945 CTGAGCATAATCAAACTCAAATGTCTTTGCTGGCAGATAACCCTTATCGACTTAAGTTATGCTAC
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
* * *
81010 AAATGATGGGCCCTCGAAG
66 AAATGATGTG-CCTTGGAG
* * * * * * *
81029 CTGAGTGTAATCGAACTTGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCAACTTAAGTTATACTA
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
*
81094 CAAATAATGTGCCTTGGAG
65 CAAATGATGTGCCTTGGAG
* * * * *
81113 CTAAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAAATAAACCTTCTCGACTTAAGTTATGCTA
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
* *
81178 CAAATGATTTGTCTTGGAG
65 CAAATGATGTGCCTTGGAG
* * ** * * *
81197 CTGAGCATAATCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTG
1 CTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
* * *
81262 TAAATAATGTGCCCTGGAG
65 CAAATGATGTGCCTTGGAG
* * * * * * *
81281 CTGAGTGTAATCGAAGTCGAGGGTC-TT--TGGCAGATAACCCTTCTCGA-TGTAAGCTATACTA
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACT-TAAGTTATGCTG
81342 CAAATGATGTGCCTTGGAG
65 CAAATGATGTGCCTTGGAG
* **
81361 CTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATAATG
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
* *
81426 CAAATGATGTGCCCTCGAAG
65 CAAATGATGTG-CCTTGGAG
* * * * * *
81446 CTGAGCATTGTCGAACTTGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTA
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
* * **
81511 AAAATGATGTGTCTTTCAG
65 CAAATGATGTGCCTTGGAG
* * * * *
81530 CTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGC
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
* * *
81595 AAATAATGTGCCCTCGATG
66 AAATGATGTGCCTTGGA-G
* * * * * *
81614 CTGAGTGTAATCGAACTCGAGGGTCTTTGGTTGGAAGATAGCCCTTCTCGACTTAAGTTATACTG
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
*
81679 TAAAT
65 CAAAT
81684 AGAAAAAATT
Statistics
Matches: 954, Mismatches: 181, Indels: 41
0.81 0.15 0.03
Matches are distributed among these distances:
79 1 0.00
80 90 0.09
81 40 0.04
82 4 0.00
83 77 0.08
84 551 0.58
85 191 0.20
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (83 bp):
CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
AAATGATGTGCCTTGGAG
Found at i:81510 original size:333 final size:332
Alignment explanation
Indices: 80444--81670 Score: 1506
Period size: 333 Copynumber: 3.7 Consensus size: 332
80434 TGCCTCTGAA
* * * * * * *
80444 CTGAGCGTAATCGAACTCGAAGGTATTTGGTTGGAATATATCCCTTTTCGTCTTAAGCTATGCTG
1 CTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTA
* *
80509 TAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTT
66 CAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTT
* * * * *
80574 CTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTTGAAGCTGAGCGTAGTCGAACTCAAAGGTCT
131 CTAGCCTTGAGTTATGCTGCAAATAATGTGCCC-TGGAGCTGAGCGTAATCGAACTCAAAGGTCT
** * ** *
80639 TAAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCATAGT
195 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * *
80704 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATATG
260 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTG
80769 CCTTGGAG
325 CCTTGGAG
* *
80777 CTGAGCGTAGTCAAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTG
1 CTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTA
* * * * *
80842 CAAATGATGTGCCTTGGAGTTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGA-AAATAGCCCT
66 CAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGT-GACAGATAACCCT
* ** * * * * * *
80906 TCTTGCCTTGAACTATGTTGCAAATGATGTGCCTTGGAGCTGAGCATAATCAAACTCAAATGTCT
130 TCTAGCCTTGAGTTATGCTGCAAATAATGTGCCCTGGAGCTGAGCGTAATCGAACTCAAAGGTC-
* * * * * *
80971 TTGCTGGCAGATAACCCTTATCGACTTAAGTTATGCTACAAATGATGGGCCCTCGAAGCTGAGTG
194 TT--TGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTG-CCTTGGAGCTGAGCG
* * * * * *
81036 TAATCGAACTTGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCAACTTAAGTTATACTACAAATAA
256 TAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGA
81101 TGTGCCTTGGAG
321 TGTGCCTTGGAG
* * * * ** *
81113 CTAAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAAATAAACCTTCTCGACTTAAGTTATGCTA
1 CTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTA
* * * * *
81178 CAAATGATTTGTCTTGGAGCTGAGCATAATCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTT
66 CAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTT
* * * * *
81243 CTAGCCTTGAGTTATGCTGTAAATAATGTGCCCTGGAGCTGAGTGTAATCGAAGTCGAGGGTCTT
131 CTAGCCTTGAGTTATGCTGCAAATAATGTGCCCTGGAGCTGAGCGTAATCGAACTCAAAGGTCTT
*
81308 TGGCAGATAACCCTTCTCGA-TGTAAGCTATACTACAAATGATGTGCCTTGGAGCTGAGCGTAGT
196 TGGCAGATAACCCTTCTCGACT-TAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGT
* *
81372 CAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATAATGCAAATGATGTG
260 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTG
* *
81437 CCCTCGAAG
325 -CCTTGGAG
* * * *
81446 CTGAGCATTGTCGAACTTGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTA
1 CTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTA
* * ** * *
81511 AAAATGATGTGTCTTTCAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTT
66 CAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTT
* * * * *
81575 CTAGCCTTGAGTTATACTGCAAATAATGTGCCCTCGATGCTGAGTGTAATCGAACTCGAGGGTCT
131 CTAGCCTTGAGTTATGCTGCAAATAATGTGCCCTGGA-GCTGAGCGTAATCGAACTCAAAGGTC-
* *
81640 TTGGTTGGAAGATAGCCCTTCTCGACTTAAG
194 -T--TTGGCAGATAACCCTTCTCGACTTAAG
81671 TTATACTGTA
Statistics
Matches: 761, Mismatches: 119, Indels: 24
0.84 0.13 0.03
Matches are distributed among these distances:
332 150 0.20
333 307 0.40
334 2 0.00
335 41 0.05
336 237 0.31
337 23 0.03
338 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (332 bp):
CTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTA
CAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTT
CTAGCCTTGAGTTATGCTGCAAATAATGTGCCCTGGAGCTGAGCGTAATCGAACTCAAAGGTCTT
TGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGC
CTTGGAG
Found at i:86070 original size:3 final size:3
Alignment explanation
Indices: 86062--86101 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
86052 TTTAAATTTA
*
86062 AAT AAT AAT AAT AAA AAT AAT AAT AAT AATT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT A
86102 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:86245 original size:31 final size:29
Alignment explanation
Indices: 86166--86245 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 29
86156 ATATGTATTA
**
86166 TATATAAATTTTCAAAAATATTTTTTTTAAC
1 TATAT-AATTTTCAAAAA-ATTTTTTAAAAC
**
86197 TATATAATTTTTTAAAAATGTTTTTAAAAAC
1 TATATAATTTTCAAAAAAT-TTTTT-AAAAC
*
86228 TGTATAATTTTCAAAAAA
1 TATATAATTTTCAAAAAA
86246 AAATGTTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 2 0.05
30 15 0.38
31 23 0.57
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (29 bp):
TATATAATTTTCAAAAAATTTTTTAAAAC
Found at i:86365 original size:37 final size:37
Alignment explanation
Indices: 86244--86505 Score: 255
Period size: 37 Copynumber: 6.9 Consensus size: 37
86234 ATTTTCAAAA
* *
86244 AAAAATGTTTTCATAAAGCTATATATTATATA-AGTTTTC
1 AAAAATGTTTT-A-AAAACTATATAATATATATA-TTTTC
* *
86283 AAAAAAAATGTTTTCAAAAACTATATATTATATTTATTTTC
1 ---AAAAATGTTTT-AAAAACTATATAATATATATATTTTC
*
86324 -AAAATGTTTTAAAAACTATACAATATATATATTTTC
1 AAAAATGTTTTAAAAACTATATAATATATATATTTTC
* *
86360 AAAAATGTTTTAAAAACTATATATTATATTTATTTTC
1 AAAAATGTTTTAAAAACTATATAATATATATATTTTC
* * *
86397 AAAAATATTTT-AAAACTATATAATATGTAAATGTTTTC
1 AAAAATGTTTTAAAAACTATATAATA--TATATATTTTC
* *
86435 AAACATGTTTTCAAAACTATATATTATATATATATTTT-
1 AAAAATGTTTTAAAAACTATATA--ATATATATATTTTC
* *
86473 AAAAATATTTT-TAAACTATATATATATATATAT
1 AAAAATGTTTTAAAAACTATATA-ATATATATAT
86506 ATATATATAA
Statistics
Matches: 193, Mismatches: 20, Indels: 20
0.83 0.09 0.09
Matches are distributed among these distances:
36 47 0.24
37 63 0.33
38 26 0.13
39 19 0.10
41 24 0.12
42 14 0.07
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (37 bp):
AAAAATGTTTTAAAAACTATATAATATATATATTTTC
Found at i:86452 original size:75 final size:74
Alignment explanation
Indices: 86286--86499 Score: 290
Period size: 73 Copynumber: 2.9 Consensus size: 74
86276 AGTTTTCAAA
* *
86286 AAAAATGTTTTCAAAAACTATATATTATATTTATTTTC-AAAATGTTTTAAAAACTATACAATA-
1 AAAAATGTTTTC-AAAACTATATATTATATTTATTTTCAAAAATATTTT-AAAACTATATAATAT
*
86349 TATATATTTTC
64 TAAATATTTTC
*
86360 AAAAATGTTTTAAAAACTATATATTATATTTATTTTCAAAAATATTTTAAAACTATATAATATGT
1 AAAAATGTTTTCAAAACTATATATTATATTTATTTTCAAAAATATTTTAAAACTATATAATAT-T
*
86425 AAATGTTTTC
65 AAATATTTTC
* *
86435 AAACATGTTTTCAAAACTATATATTATATATATATTTT-AAAAATATTTTTAAACTATATATATA
1 AAAAATGTTTTCAAAACTATATATTATAT-T-TATTTTCAAAAATATTTTAAAACTATATA-ATA
86499 T
63 T
86500 ATATATATAT
Statistics
Matches: 126, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
73 38 0.30
74 20 0.16
75 36 0.29
76 22 0.17
77 10 0.08
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (74 bp):
AAAAATGTTTTCAAAACTATATATTATATTTATTTTCAAAAATATTTTAAAACTATATAATATTA
AATATTTTC
Found at i:86496 original size:2 final size:2
Alignment explanation
Indices: 86489--86514 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
86479 ATTTTTAAAC
86489 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
86515 AACGGGACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88443 original size:11 final size:11
Alignment explanation
Indices: 88393--88443 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
88383 CTTTTAATAG
*
88393 TTATAAAATGA
1 TTATTAAATGA
88404 TTATTAAAT--
1 TTATTAAATGA
*
88413 TTATTAATTGA
1 TTATTAAATGA
*
88424 TTATAAAATGA
1 TTATTAAATGA
*
88435 TAATTAAAT
1 TTATTAAAT
88444 TTTATCAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 8 0.25
11 24 0.75
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (11 bp):
TTATTAAATGA
Found at i:97343 original size:29 final size:30
Alignment explanation
Indices: 97282--97359 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
97272 CTCATCAATC
* * *
97282 TTTTGGTATTCGGGTCAGATTTTTTTTTTAAA
1 TTTTGGGA-TCGGGTCGGA-TTTTTTTTAAAA
97314 TTTTGGGATC-GGTCGGATTTTTTTTAAAA
1 TTTTGGGATCGGGTCGGATTTTTTTTAAAA
*
97343 TTTTGGGTTCGGGTCGG
1 TTTTGGGATCGGGTCGG
97360 GTCAGATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 20 0.49
30 12 0.29
31 2 0.05
32 7 0.17
ACGTcount: A:0.15, C:0.08, G:0.27, T:0.50
Consensus pattern (30 bp):
TTTTGGGATCGGGTCGGATTTTTTTTAAAA
Found at i:97369 original size:35 final size:34
Alignment explanation
Indices: 97291--97371 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 34
97281 CTTTTGGTAT
*
97291 TCGGGTCAGATTTTTTTTTTAAATTTTGGGATCGG
1 TCGGGTCAGA-TTTTTTTTAAAATTTTGGGATCGG
*
97326 TC--G---GATTTTTTTTAAAATTTTGGGTTCGGG
1 TCGGGTCAGATTTTTTTTAAAATTTTGGGATC-GG
97356 TCGGGTCAGATTTTTT
1 TCGGGTCAGATTTTTT
97372 AAAGTTTGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
29 20 0.53
30 6 0.16
32 1 0.03
33 1 0.03
35 10 0.26
ACGTcount: A:0.16, C:0.09, G:0.26, T:0.49
Consensus pattern (34 bp):
TCGGGTCAGATTTTTTTTAAAATTTTGGGATCGG
Found at i:97387 original size:33 final size:33
Alignment explanation
Indices: 97350--97427 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
97340 AAATTTTGGG
*
97350 TTCGGGTCGGGTCAGATTTTT-TAAAGTTTGATA
1 TTCGGGTCGGGTCAGATTTTTGT-AAGTGTGATA
* *
97383 TTCGGGCCGGGTCGGATTTTTGTAAGTGTGATA
1 TTCGGGTCGGGTCAGATTTTTGTAAGTGTGATA
97416 TTCGGGTCGGGT
1 TTCGGGTCGGGT
97428 TTTTTTCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 39 0.98
34 1 0.03
ACGTcount: A:0.15, C:0.12, G:0.35, T:0.38
Consensus pattern (33 bp):
TTCGGGTCGGGTCAGATTTTTGTAAGTGTGATA
Found at i:97528 original size:119 final size:124
Alignment explanation
Indices: 97311--97548 Score: 308
Period size: 119 Copynumber: 1.9 Consensus size: 124
97301 TTTTTTTTTT
* * *
97311 AAATTTTGGGATCGGTCGGATTTTTTTTAAAATTTTGGGTTCGGGTCGGGTCAGATTTTTTAAAG
1 AAATTTCGGGATCGGTCAGATTTTTTTTAAAATTTTGGGTTC-GAT--GGTCAGATTTTTTAAAG
* * *
97376 TTTGATATTCGGGCCGGGTCGGATTTTTGTAAGTGTGATATTCGGGTCGGGTTTTTTTCAAA
63 TTTGATATTCAGGCCGGGTCGGATTTTTGTAAGTGTGAAATTCGGGTCGAGTTTTTTTCAAA
*
97438 AAATTTCGGGATCAGGTCAGATTTTTTTTAAAATTTTGGG-TC-AT-GTCGGA-TTTTT-AAG-T
1 AAATTTCGGGATC-GGTCAGATTTTTTTTAAAATTTTGGGTTCGATGGTCAGATTTTTTAAAGTT
* * *
97497 TGATATTCAGGTCGGGTCGGGTTTTTTTAAGTGTGAAATTCGGGTCGAGTTT
65 TGATATTCAGGCCGGGTCGGATTTTTGTAAGTGTGAAATTCGGGTCGAGTTT
97549 GGGCCGGATT
Statistics
Matches: 100, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
119 47 0.47
120 3 0.03
121 5 0.05
122 5 0.05
125 1 0.01
127 14 0.14
128 25 0.25
ACGTcount: A:0.20, C:0.09, G:0.28, T:0.42
Consensus pattern (124 bp):
AAATTTCGGGATCGGTCAGATTTTTTTTAAAATTTTGGGTTCGATGGTCAGATTTTTTAAAGTTT
GATATTCAGGCCGGGTCGGATTTTTGTAAGTGTGAAATTCGGGTCGAGTTTTTTTCAAA
Found at i:98114 original size:41 final size:41
Alignment explanation
Indices: 98076--98486 Score: 687
Period size: 41 Copynumber: 10.0 Consensus size: 41
98066 ACACGATAGT
* * * *
98076 CGAAGTTCGCGTTGAGATTCATTCCAAATCGTTGCGATAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
98117 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
98158 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGTGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
98199 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* *
98240 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGACATG
1 CGAAGTTCGCATTGCGATTCATTCC-AATTCGTTGCGACAGG
98282 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
98323 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
*
98364 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACATG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* *
98405 CGAAGTTCGCGTTACGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* *
98446 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCTACAG
1 CGAAGTTCGCATTGCGATTCATTCC-AATTCGTTGCGACAG
98487 TCCAAATATT
Statistics
Matches: 352, Mismatches: 16, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
41 299 0.85
42 53 0.15
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (41 bp):
CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
Found at i:98430 original size:206 final size:206
Alignment explanation
Indices: 98076--98481 Score: 731
Period size: 206 Copynumber: 2.0 Consensus size: 206
98066 ACACGATAGT
* * *
98076 CGAAGTTCGCGTTGAGATTCATTCCAAATCGTTGCGATAGGCGAAGTTCGCGTTGCGATTCATTC
1 CGAAGTTCGCATTGAGATTCATTCCAAATCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTC
*
98141 CAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGTGACAGGCGAAGTT
66 CAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTT
*
98206 CGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTC
131 CGCATTACGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTC
98271 GTTGCGACATG
196 GTTGCGACATG
* *
98282 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTC
1 CGAAGTTCGCATTGAGATTCATTCCAAATCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTC
*
98347 CAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACATGCGAAGTT
66 CAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTT
*
98412 CGCGTTACGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTC
131 CGCATTACGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTC
98477 GTTGC
196 GTTGC
98482 TACAGTCCAA
Statistics
Matches: 191, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
206 191 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (206 bp):
CGAAGTTCGCATTGAGATTCATTCCAAATCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTC
CAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTT
CGCATTACGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTC
GTTGCGACATG
Found at i:98553 original size:6 final size:6
Alignment explanation
Indices: 98542--98592 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
98532 AATTCGCGCG
98542 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC -CGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
98588 -CGACC
1 ACGACC
98593 CGAGACGGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.33
6 30 0.67
ACGTcount: A:0.29, C:0.53, G:0.18, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:99294 original size:6 final size:6
Alignment explanation
Indices: 99273--99309 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
99263 TCCCGTCTCG
*
99273 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GTTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
99310 AATACGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:99434 original size:42 final size:42
Alignment explanation
Indices: 99375--99671 Score: 494
Period size: 41 Copynumber: 7.2 Consensus size: 42
99365 AATATTTGGA
99375 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
99417 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* *
99459 CTATCGCAAC-AAATTGGAATGAATCGCAACACGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* *
99500 CTATCGCAACG-ATTTAGAATGAATCGCAACGCGAACTTCGA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
99541 CTATCGCAACG-ATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
*
99582 ATATCGCAACG-ATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* * *
99623 CTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
99665 CTATCGC
1 CTATCGC
99672 GTTGCGAATC
Statistics
Matches: 240, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
41 154 0.64
42 86 0.36
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (42 bp):
CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
Found at i:99527 original size:20 final size:20
Alignment explanation
Indices: 99502--99612 Score: 77
Period size: 20 Copynumber: 5.5 Consensus size: 20
99492 AACTTCGCCT
*
99502 ATCGCAACGATTTAGAATGA
1 ATCGCAACGATTTCGAATGA
* *
99522 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CG-ATTTCGAATGA
*
99543 ATCGCAACGATTTGGAATGA
1 ATCGCAACGATTTCGAATGA
* *
99563 ATCGCAACGCGAACTTCGCAT--
1 ATCGCAA--CG-ATTTCGAATGA
*
99584 ATCGCAACGATTTGGAATGA
1 ATCGCAACGATTTCGAATGA
99604 ATCGCAACG
1 ATCGCAACG
99613 CGAACTTCGC
Statistics
Matches: 69, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
18 12 0.17
19 4 0.06
20 23 0.33
21 14 0.20
22 4 0.06
23 12 0.17
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (20 bp):
ATCGCAACGATTTCGAATGA
Found at i:99670 original size:21 final size:20
Alignment explanation
Indices: 99398--99671 Score: 84
Period size: 21 Copynumber: 13.2 Consensus size: 20
99388 TTTGGAATGA
*
99398 ATCGCAACGCGAACTTCGCCT
1 ATCGCAA-GCGAACTTCGACT
* * *
99419 ATCGCAA-CGAATTTGGAAT
1 ATCGCAAGCGAACTTCGACT
*
99438 GAATCGCAACGCGAACTTCGCCT
1 --ATCGCAA-GCGAACTTCGACT
* * *
99461 ATCGCAA-C-AAATTGGAAT
1 ATCGCAAGCGAACTTCGACT
* *
99479 GAATCGCAACACGAACTTCGCCT
1 --ATCGCAA-GCGAACTTCGACT
* * *
99502 ATCGCAA-CG-ATTTAGAAT
1 ATCGCAAGCGAACTTCGACT
99520 GAATCGCAACGCGAACTTCGACT
1 --ATCGCAA-GCGAACTTCGACT
* * *
99543 ATCGCAA-CG-ATTTGGAAT
1 ATCGCAAGCGAACTTCGACT
99561 GAATCGCAACGCGAACTTCG-CAT
1 --ATCGCAA-GCGAACTTCGAC-T
* * *
99584 ATCGCAA-CG-ATTTGGAAT
1 ATCGCAAGCGAACTTCGACT
*
99602 GAATCGCAACGCGAACTTCGCCT
1 --ATCGCAA-GCGAACTTCGACT
* * *
99625 ATCGCAA-CGAATTTGGAAT
1 ATCGCAAGCGAACTTCGACT
99644 AAATCGCAATGCGAACTTCGACT
1 --ATCGCAA-GCGAACTTCGACT
99667 ATCGC
1 ATCGC
99672 GTTGCGAATC
Statistics
Matches: 180, Mismatches: 43, Indels: 60
0.64 0.15 0.21
Matches are distributed among these distances:
18 22 0.12
19 23 0.13
20 28 0.16
21 61 0.34
22 7 0.04
23 39 0.22
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAAGCGAACTTCGACT
Found at i:100572 original size:19 final size:20
Alignment explanation
Indices: 100533--100577 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
100523 GCAAGACAAT
100533 ATAATATTAATTTAATTAAA
1 ATAATATTAATTTAATTAAA
100553 ATAATATT-ATTT-ATTAAAA
1 ATAATATTAATTTAATT-AAA
100572 ATAATA
1 ATAATA
100578 AATACTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.12
19 13 0.54
20 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATATTAATTTAATTAAA
Found at i:101811 original size:20 final size:19
Alignment explanation
Indices: 101782--101821 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
101772 TTAATTTTTA
101782 TTTTTGATATTTTGATATT
1 TTTTTGATATTTTGATATT
101801 TTTTTGAATATTTTGATATT
1 TTTTTG-ATATTTTGATATT
101821 T
1 T
101822 AAAATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (19 bp):
TTTTTGATATTTTGATATT
Found at i:105300 original size:5 final size:5
Alignment explanation
Indices: 105290--105318 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
105280 ATTCGTTCGT
105290 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
105319 ATATCCCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (5 bp):
TTTTG
Found at i:113478 original size:21 final size:21
Alignment explanation
Indices: 113453--113502 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
113443 CTGCTGATAT
113453 ACTGCTTCTCTCTATGCTACC
1 ACTGCTTCTCTCTATGCTACC
* * *
113474 GCTGCTTCTCTCTCTGCTATC
1 ACTGCTTCTCTCTATGCTACC
113495 ACTGCTTC
1 ACTGCTTC
113503 ATTTTCAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.10, C:0.38, G:0.12, T:0.40
Consensus pattern (21 bp):
ACTGCTTCTCTCTATGCTACC
Found at i:113976 original size:2 final size:2
Alignment explanation
Indices: 113969--114014 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
113959 TCCCTAAATA
113969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114011 AT AT
1 AT AT
114015 GGTTTCATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115816 original size:13 final size:13
Alignment explanation
Indices: 115781--115816 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
115771 CGATTACCCC
*
115781 ACTGTTCACGGGT
1 ACTGTTCACTGGT
*
115794 ACTGTTCACTGTT
1 ACTGTTCACTGGT
115807 ACTGTTCACT
1 ACTGTTCACT
115817 ATTCATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (13 bp):
ACTGTTCACTGGT
Found at i:116306 original size:47 final size:47
Alignment explanation
Indices: 116229--116339 Score: 122
Period size: 44 Copynumber: 2.3 Consensus size: 47
116219 AGCTAATGAA
*
116229 TAATAAAAAATAATAATAAACTAAACATGTTCTAA-T-TC-TAATTCC
1 TAAT-AAAAATAATAATAAACTAAAAATGTTCTAACTATCTTAATTCC
*
116274 TAATAAAAATAATAATAAACTACGAATAATGTTTTAACTCGATCTTAATTCC
1 TAATAAAAATAATAATAAACTA--AA-AATGTTCTAACT--ATCTTAATTCC
116326 TAAT-AAAATAATAA
1 TAATAAAAATAATAA
116340 ATCTAATCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
44 18 0.32
45 4 0.07
46 2 0.04
47 8 0.14
48 1 0.02
51 12 0.21
52 11 0.20
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (47 bp):
TAATAAAAATAATAATAAACTAAAAATGTTCTAACTATCTTAATTCC
Found at i:121191 original size:21 final size:21
Alignment explanation
Indices: 121131--121182 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
121121 AAACGATGAT
* * *
121131 GGAGAAGCTGATGATTTCCCA
1 GGAGAAACTGATAAATTCCCA
121152 GGAGAAACTGATAAATTCCCA
1 GGAGAAACTGATAAATTCCCA
*
121173 TGAGAAACTG
1 GGAGAAACTG
121183 GTTACTTCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (21 bp):
GGAGAAACTGATAAATTCCCA
Found at i:124270 original size:17 final size:18
Alignment explanation
Indices: 124248--124286 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
124238 ATGTGGTTTC
124248 TTGTGGC-C-TACTTTATT
1 TTGTGGCGCTTAC-TTATT
124265 TTGTGGCGCTTACTTATT
1 TTGTGGCGCTTACTTATT
124283 TTGT
1 TTGT
124287 AAATCATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 10 0.50
19 3 0.15
ACGTcount: A:0.10, C:0.15, G:0.21, T:0.54
Consensus pattern (18 bp):
TTGTGGCGCTTACTTATT
Found at i:124464 original size:19 final size:21
Alignment explanation
Indices: 124426--124464 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
124416 TTGGAAAAAG
*
124426 TTTATATCATATTAGTTGTCT
1 TTTAAATCATATTAGTTGTCT
124447 TTTAAATCAT-TT-GTTGTC
1 TTTAAATCATATTAGTTGTC
124465 GGTCAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (21 bp):
TTTAAATCATATTAGTTGTCT
Done.