Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009323.1 Hibiscus syriacus cultivar Beakdansim tig00113084_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: 233993
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:359 original size:3 final size:3
Alignment explanation
Indices: 351--443 Score: 156
Period size: 3 Copynumber: 31.7 Consensus size: 3
341 ATGTAATGTA
351 AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
398 -AT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
442 AA
1 AA
444 ATATAAAAGA
Statistics
Matches: 86, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
2 6 0.07
3 77 0.90
4 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4859 original size:105 final size:105
Alignment explanation
Indices: 4731--4951 Score: 381
Period size: 105 Copynumber: 2.1 Consensus size: 105
4721 TTAAATTAAA
* *
4731 TTAAATTAAAACGTTAAAATGTTACCGGT-TCAGCAAAGTGTTGAGATATTTAATTGTTAATCTA
1 TTAAATT-AAACGTTAAAATGTTACC-GTATCAGCAAAGTGTCGAGATATTTAATTCTTAATCTA
*
4795 ATAATCATGCATTAAATAAATCAACTAATTATTACTAATAAT
64 ATAATCATGCATTAAATAAATCAACTAAATATTACTAATAAT
4837 TTAAATTAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATATTTAATTCTTAATCTAAT
1 TTAAATTAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATATTTAATTCTTAATCTAAT
*
4902 AATCATGTATTAAATAAATCAACTAAATATTACTAATAAT
66 AATCATGCATTAAATAAATCAACTAAATATTACTAATAAT
4942 TTAAATTAAA
1 TTAAATTAAA
4952 TTAAATTAAA
Statistics
Matches: 110, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
104 2 0.02
105 101 0.92
106 7 0.06
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (105 bp):
TTAAATTAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATATTTAATTCTTAATCTAAT
AATCATGCATTAAATAAATCAACTAAATATTACTAATAAT
Found at i:5105 original size:17 final size:18
Alignment explanation
Indices: 5062--5102 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
5052 GAATTATATT
5062 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
5079 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
5097 ATTAAA
1 AGTAAA
5103 TACATAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:5158 original size:12 final size:10
Alignment explanation
Indices: 5144--5184 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
5134 CTTAAAAAAA
*
5144 GAGAGTATTT
1 GAGAGAATTT
5154 GAGAGAAATTT
1 GAGAG-AATTT
5165 -AGAGAATTT
1 GAGAGAATTT
5174 GAGAGAATTT
1 GAGAGAATTT
5184 G
1 G
5185 GTATGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:6515 original size:18 final size:19
Alignment explanation
Indices: 6480--6516 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6470 CACGGAATGT
6480 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
6500 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
6517 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:6683 original size:15 final size:15
Alignment explanation
Indices: 6665--6695 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6655 AAATTCTAAA
6665 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
6680 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
6695 T
1 T
6696 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:11036 original size:15 final size:15
Alignment explanation
Indices: 11016--11054 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
11006 ATTTAAATTT
11016 TATAAAATAAAAATA
1 TATAAAATAAAAATA
*
11031 TATAAATTAAAAATA
1 TATAAAATAAAAATA
*
11046 -ATGAAATAA
1 TATAAAATAA
11055 TATATGTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TATAAAATAAAAATA
Found at i:16450 original size:3 final size:3
Alignment explanation
Indices: 16442--16505 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
16432 AAAAAATTTG
* * **
16442 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16486 TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA
16506 CGAAAAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 45 0.85
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:16851 original size:40 final size:41
Alignment explanation
Indices: 16751--16991 Score: 195
Period size: 40 Copynumber: 5.7 Consensus size: 41
16741 AAAGGTGATA
* *
16751 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-TGGATG
1 ACACGGTTCCTACGTGATGAAGACGGCTGG--ATCTGGGGATG
* * *
16793 ACACGGCTCATACGTGATGAAGA-GATCTGG-TCTGGGGATG
1 ACACGGTTCCTACGTGATGAAGACG-GCTGGATCTGGGGATG
* * * *
16833 ACACGGTTCCTACATGATGAGGACGGCTGGCCATCTAAAGGTGATA
1 ACACGGTTCCTACGTGATGAAGACGGCTGG--ATCT---GGGGATG
* ** *
16879 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
1 ACACGGTTCCTACGTGATGAAGACGGCTGG--ATCTGGGGATG
* *
16922 ACACGGCTCCTACGTGATGAAGA-GTTCTGG-TCTGGGGATG
1 ACACGGTTCCTACGTGATGAAGACG-GCTGGATCTGGGGATG
* *
16962 ACACGGTTCCTACATGATGAGGACGGCTGG
1 ACACGGTTCCTACGTGATGAAGACGGCTGG
16992 CCATCTTTAG
Statistics
Matches: 158, Mismatches: 30, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
39 3 0.02
40 59 0.37
41 3 0.02
42 25 0.16
43 30 0.19
46 38 0.24
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (41 bp):
ACACGGTTCCTACGTGATGAAGACGGCTGGATCTGGGGATG
Found at i:16900 original size:46 final size:43
Alignment explanation
Indices: 16702--16997 Score: 211
Period size: 46 Copynumber: 6.9 Consensus size: 43
16692 TGGTCGGGGA
* * * *
16702 ATGACACGGCTCATACGTGATGAAGA-GTTCTGGCCATCTAAAGGTG
1 ATGACACGGTTCCTACGTGATGAGGACG-GCTGGCCATCT---GGTG
* ** *
16748 ATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTTG-G
1 ATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTGGTG
* * * * *
16790 ATGACACGGCTCATACGTGATGAAGA-GATCTGG---TCTGGGG
1 ATGACACGGTTCCTACGTGATGAGGACG-GCTGGCCATCTGGTG
*
16830 ATGACACGGTTCCTACATGATGAGGACGGCTGGCCATCTAAAGGTG
1 ATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCT---GGTG
* **
16876 ATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT-
1 ATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATC--TGGTG
* * * *
16920 -TGACACGGCTCCTACGTGATGAAGA-GTTCTGG---TCTGGGG
1 ATGACACGGTTCCTACGTGATGAGGACG-GCTGGCCATCTGGTG
*
16959 ATGACACGGTTCCTACATGATGAGGACGGCTGGCCATCT
1 ATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCT
16998 TTAGGAGTTA
Statistics
Matches: 198, Mismatches: 33, Indels: 41
0.73 0.12 0.15
Matches are distributed among these distances:
38 3 0.02
39 4 0.02
40 55 0.28
41 3 0.02
42 28 0.14
43 33 0.17
45 3 0.02
46 67 0.34
47 1 0.01
48 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (43 bp):
ATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTGGTG
Found at i:16980 original size:129 final size:128
Alignment explanation
Indices: 16670--16997 Score: 516
Period size: 128 Copynumber: 2.6 Consensus size: 128
16660 GGACGAAACT
** * * * * * *
16670 GCTCCTACGCAATGAAGAGATATGGTC-GGGGAATGACACGGCTCATACGTGATGAAGA-GTTCT
1 GCTCCTACGTGATGAAGAGATCTGGTCTGGGG-ATGACACGGTTCCTACATGATGAGGACG-GCT
16733 GGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTTGGATGACACG
64 GGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTTGGATGACACG
*
16798 GCTCATACGTGATGAAGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGACGGCTGG
1 GCTCCTACGTGATGAAGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGACGGCTGG
*
16863 CCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACG
66 CCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-TGGATGACACG
*
16927 GCTCCTACGTGATGAAGAGTTCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGACGGCTGG
1 GCTCCTACGTGATGAAGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGACGGCTGG
16992 CCATCT
66 CCATCT
16998 TTAGGAGTTA
Statistics
Matches: 185, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
128 101 0.55
129 84 0.45
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (128 bp):
GCTCCTACGTGATGAAGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGACGGCTGG
CCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTTGGATGACACG
Found at i:17155 original size:36 final size:36
Alignment explanation
Indices: 17115--17189 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
17105 GTTTCAAAAG
*
17115 AAATGACTCAAAGATT-GTTTAAAGGAAAACTG-TCTC
1 AAATGACACAAA-ATTCGTTTAAAGGAAAA-TGATCTC
* *
17151 AAATGAGACAAAATTCGTTTAAAGGGAAATGATCTC
1 AAATGACACAAAATTCGTTTAAAGGAAAATGATCTC
17187 AAA
1 AAA
17190 GATGTTTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 5 0.15
36 29 0.85
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (36 bp):
AAATGACACAAAATTCGTTTAAAGGAAAATGATCTC
Found at i:17159 original size:63 final size:62
Alignment explanation
Indices: 17079--17196 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 62
17069 TTTCAAAAGC
*
17079 AACTGTCTCAAAAGAGACAAAATTTTGTTTCAAA-AGAAATGA-CTCAAAGATTGTTTAAAGGAA
1 AACTGTCTCAAAAGAGACAAAA-TTCGTTT-AAAGAGAAATGATCTCAAAGA-TGTTTAAAGGAA
* *
17142 AACTGTCTCAAATGAGACAAAATTCGTTTAAAGGGAAATGATCTCAAAGATGTTT
1 AACTGTCTCAAAAGAGACAAAATTCGTTTAAAGAGAAATGATCTCAAAGATGTTT
17197 GTTTTGTTTC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
61 3 0.06
62 18 0.36
63 29 0.58
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (62 bp):
AACTGTCTCAAAAGAGACAAAATTCGTTTAAAGAGAAATGATCTCAAAGATGTTTAAAGGAA
Found at i:17223 original size:35 final size:35
Alignment explanation
Indices: 17184--17263 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 35
17174 GGGAAATGAT
* * *
17184 CTCAAAGATGTTTG-TTTTGTT-TCAAAGGAAACATA
1 CTCAAAGATG-GTGATTTTGTTCCCAAA-GAAACAAA
17219 CTCAAAGATGGTGAATTTTGTTCCCAAAGAAACAAA
1 CTCAAAGATGGTG-ATTTTGTTCCCAAAGAAACAAA
17255 CTCAAAGAT
1 CTCAAAGAT
17264 TTTTCTCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 2 0.05
35 10 0.26
36 23 0.59
37 4 0.10
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (35 bp):
CTCAAAGATGGTGATTTTGTTCCCAAAGAAACAAA
Found at i:17666 original size:120 final size:120
Alignment explanation
Indices: 17520--17737 Score: 305
Period size: 121 Copynumber: 1.8 Consensus size: 120
17510 TGTCTCGAGA
* * ** *
17520 AATTTTTTTCAAAGGAAACAAACTCAAAGATT-TTTTTCTCAAAAGAAATTGTCTTTA-AGAGAT
1 AATTTTTTTCAAAGGAAACAAACTCAAAGATTGGTTTT-TCAAAAGAAACTGTCTCAAGAGAGAC
*
17583 AAAATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATTACATCTTAAGTGAGACG
65 AAAATTTTGTTTCAAAAGAAACAAACTCAAAGATGGATTACATCTTAAGTGAGACG
* * **
17639 AATTTTTTTCCAAAGGAAACAATCTCAAAGGTTGGTTTTTCATTAGAAACTGTCTCAAGAGAGAC
1 AATTTTTTT-CAAAGGAAACAAACTCAAAGATTGGTTTTTCAAAAGAAACTGTCTCAAGAGAGAC
*
17704 AAAATTTTGTTTCCAAAGAAACAAACTCAAAGAT
65 AAAATTTTGTTTCAAAAGAAACAAACTCAAAGAT
17738 TTTTTTAAGA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
119 9 0.11
120 35 0.41
121 41 0.48
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (120 bp):
AATTTTTTTCAAAGGAAACAAACTCAAAGATTGGTTTTTCAAAAGAAACTGTCTCAAGAGAGACA
AAATTTTGTTTCAAAAGAAACAAACTCAAAGATGGATTACATCTTAAGTGAGACG
Found at i:17754 original size:27 final size:27
Alignment explanation
Indices: 17713--17802 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
17703 CAAAATTTTG
* *
17713 TTTCCAAAGAAACAAACTCAAAGATTT
1 TTTCAAAAGGAACAAACTCAAAGATTT
* * *
17740 TTTTAAGAGGAACAAACTCCAAGATTT
1 TTTCAAAAGGAACAAACTCAAAGATTT
17767 TTTCAAAAGGAACAAACTCAAAGATTT
1 TTTCAAAAGGAACAAACTCAAAGATTT
17794 TTTCAAAAG
1 TTTCAAAAG
17803 AAATTGTCTT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.28
Consensus pattern (27 bp):
TTTCAAAAGGAACAAACTCAAAGATTT
Found at i:18128 original size:36 final size:35
Alignment explanation
Indices: 18044--18163 Score: 127
Period size: 36 Copynumber: 3.4 Consensus size: 35
18034 GAGAAAATGA
* * *
18044 TGTCTCAAGTGAGACGAAATTTG-CTTTAAGATAT
1 TGTCTCAAGTGAGACAAAATTTGTTTTTAAGAAAT
* *
18078 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGTGAGACAAAATTTGTTTTTA-AGAAAT
* *
18114 TGTCTCAAGCGAGACAAAGTTTGTTTTTAAGGAAA-
1 TGTCTCAAGTGAGACAAAATTTGTTTTTAA-GAAAT
*
18149 CGATCTCAAGTGAGA
1 TG-TCTCAAGTGAGA
18164 TCAACTTTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
34 20 0.28
35 6 0.08
36 45 0.63
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.32
Consensus pattern (35 bp):
TGTCTCAAGTGAGACAAAATTTGTTTTTAAGAAAT
Found at i:18302 original size:105 final size:102
Alignment explanation
Indices: 18115--18354 Score: 288
Period size: 105 Copynumber: 2.3 Consensus size: 102
18105 TAGAGAAATT
* * *
18115 GTCTCAAGCGAGAC-AAAGTTTGTTTTTAAGGAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTGTTTTAAAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
* *
18179 GTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
65 GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
18217 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT-AAAG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * * *
18281 TAA-GTGAATCGAATTCAAAATTTGTATCTCAAAGGAAAAAT
61 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
*
18322 GTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAA
1 GTCTCAAGCGAGACGAAATTTGTTTTAA-AGAA
18355 TTTGTCTCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
102 22 0.18
103 6 0.05
104 7 0.06
105 79 0.66
106 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.30
Consensus pattern (102 bp):
GTCTCAAGCGAGACGAAATTTGTTTTAAAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATG
TGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:18361 original size:36 final size:36
Alignment explanation
Indices: 18321--18455 Score: 143
Period size: 36 Copynumber: 3.8 Consensus size: 36
18311 AAAGGAAAAA
* * * *
18321 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATT
1 TGTCTCAAACGAGACAAAATTTGTTTTAAGAGAAAT
**
18357 TGTCTCAAACGAGAC-AAATTTGTTTT-AGA-AAGC
1 TGTCTCAAACGAGACAAAATTTGTTTTAAGAGAAAT
* * *
18390 TGTTTCAAGCGAGACAAAATTTGCTTTGAA-AGAAAT
1 TGTCTCAAACGAGACAAAATTTG-TTTTAAGAGAAAT
18426 TGTCTCAAACGAGACAAAAATTTGTTTTAA
1 TGTCTCAAACGAGAC-AAAATTTGTTTTAA
18456 AATTCTCAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
33 15 0.18
34 10 0.12
35 14 0.17
36 35 0.43
37 8 0.10
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (36 bp):
TGTCTCAAACGAGACAAAATTTGTTTTAAGAGAAAT
Found at i:18849 original size:12 final size:11
Alignment explanation
Indices: 18812--18853 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
18802 TGTATCATGT
18812 ATGTATGTGT-
1 ATGTATGTGTG
*
18822 ATGTATGTATG
1 ATGTATGTGTG
18833 TATGTATGTGTTG
1 -ATGTATGTG-TG
18846 ATGTATGT
1 ATGTATGT
18854 TTTCTCAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
12 16 0.59
13 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
ATGTATGTGTG
Found at i:18853 original size:4 final size:4
Alignment explanation
Indices: 18808--18841 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
18798 TTCATGTATC
18808 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
18842 GTTGATGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:22439 original size:30 final size:31
Alignment explanation
Indices: 22385--22444 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
22375 TGACAAAATG
*
22385 ACACAAACAAAAGAGAAGAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAAAATAAGTTAGTAT
22416 ACACAAACAAAA-AGAAAAATAAGTTAGTA
1 ACACAAACAAAAGAGAAAAATAAGTTAGTA
22445 CATGTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.62, C:0.10, G:0.13, T:0.15
Consensus pattern (31 bp):
ACACAAACAAAAGAGAAAAATAAGTTAGTAT
Found at i:24517 original size:226 final size:225
Alignment explanation
Indices: 24111--24561 Score: 829
Period size: 226 Copynumber: 2.0 Consensus size: 225
24101 ATTAGTTTAT
24111 GAAATGTTTAACCAATACGAGAGATATAAAGTGCTGACACAAAATAAATTAATATGATATAAATC
1 GAAATGTTTAACCAATACGAGAGATATAAAGTGCTGACACAAAATAAATTAATATGATATAAATC
24176 ATGGAAGAAAAGCAAATATATGTATATATAAGGCACAAGGTGGGCTCCACACGAAATACACATAA
66 ATGGAAGAAAAGCAAATATATGTATATATAAGGCACAAGGTGGGCTCCACACGAAATACACATAA
24241 ATACCTTAACATAACACTTATATACATAAAAAATAAATAAATCCCGAATATCATTC-ATTTGCAA
131 ATACCTTAACATAACACTTATATACATAAAAAATAAATAAATCCCGAATATCATTCAATTTGCAA
24305 ATTAG-AA-TTAATAGGAAGAA-AAAGTAA
196 ATTAGAAATTTAATAGGAAGAATAAAGTAA
24332 GAAATGTTTAACCAATACGAGAGATACATAAAGTGCTGACACAAAATAAATTAATATGAATATAA
1 GAAATGTTTAACCAATACGAGAGAT--ATAAAGTGCTGACACAAAATAAATTAATATG-ATATAA
24397 ATCATGGAAGAAAAGCAAATATATGTATATATAAGGCACAAAGGTGGGCTCCACACGAAATACAC
63 ATCATGGAAGAAAAGCAAATATATGTATATATAAGGCAC-AAGGTGGGCTCCACACGAAATACAC
24462 ATAAATACACTTAACATAACACTTATATACATAAAAAATAAATAAATCCCGAATATCATTCAATT
127 ATAAATAC-CTTAACATAACACTTATATACATAAAAAATAAATAAATCCCGAATATCATTCAATT
24527 TGCAAATTAGAAATTTAATAGGAAGAATAAAGTAA
191 TGCAAATTAGAAATTTAATAGGAAGAATAAAGTAA
24562 ATAAATCACA
Statistics
Matches: 221, Mismatches: 0, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
221 25 0.11
223 31 0.14
224 45 0.20
225 33 0.15
226 52 0.24
227 13 0.06
228 2 0.01
229 13 0.06
230 7 0.03
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (225 bp):
GAAATGTTTAACCAATACGAGAGATATAAAGTGCTGACACAAAATAAATTAATATGATATAAATC
ATGGAAGAAAAGCAAATATATGTATATATAAGGCACAAGGTGGGCTCCACACGAAATACACATAA
ATACCTTAACATAACACTTATATACATAAAAAATAAATAAATCCCGAATATCATTCAATTTGCAA
ATTAGAAATTTAATAGGAAGAATAAAGTAA
Found at i:26315 original size:3 final size:3
Alignment explanation
Indices: 26307--26373 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
26297 AAAAAATTTG
* * **
26307 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
26351 TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
26374 CGAAAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 48 0.86
4 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:27161 original size:29 final size:29
Alignment explanation
Indices: 27129--27191 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
27119 ATATTTTAAT
*
27129 AAATAAAAATATTAAAT-TAAATTATAA-AA
1 AAATAAAAATA-AAAATAT-AATTATAATAA
*
27158 AAATATAAATAAAAATATAATTATAATAA
1 AAATAAAAATAAAAATATAATTATAATAA
27187 AAATA
1 AAATA
27192 TTAAATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (29 bp):
AAATAAAAATAAAAATATAATTATAATAA
Found at i:27163 original size:23 final size:25
Alignment explanation
Indices: 27114--27197 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 25
27104 AATTTGAATT
*
27114 TATTAATATTTTAA-TA-AATAAAAA
1 TATTAA-ATTATAATTATAATAAAAA
27138 TATTAAATTA-AATTATAA-AAAAA
1 TATTAAATTATAATTATAATAAAAA
*
27161 TATAAATAAAAATATAATTATAATAAAAA
1 TAT---T-AAATTATAATTATAATAAAAA
27190 TATTAAAT
1 TATTAAAT
27198 GAATTTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
22 2 0.04
23 13 0.27
24 8 0.16
25 3 0.06
26 2 0.04
27 5 0.10
28 8 0.16
29 8 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TATTAAATTATAATTATAATAAAAA
Found at i:27166 original size:22 final size:23
Alignment explanation
Indices: 27133--27177 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
27123 TTTAATAAAT
* *
27133 AAAAATATTAAATTAAATTATAA
1 AAAAATATTAAATAAAAATATAA
27156 AAAAATA-TAAATAAAAATATAA
1 AAAAATATTAAATAAAAATATAA
27178 TTATAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAAATATTAAATAAAAATATAA
Found at i:27183 original size:14 final size:12
Alignment explanation
Indices: 27127--27177 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
27117 TAATATTTTA
27127 ATAAATAAAAAT
1 ATAAATAAAAAT
* *
27139 ATTAAATTAAATT
1 A-TAAATAAAAAT
27152 AT-AA-AAAAAT
1 ATAAATAAAAAT
27162 ATAAATAAAAAT
1 ATAAATAAAAAT
27174 ATAA
1 ATAA
27178 TTATAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 6 0.19
11 4 0.12
12 12 0.38
13 10 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
ATAAATAAAAAT
Found at i:27717 original size:21 final size:21
Alignment explanation
Indices: 27600--27735 Score: 55
Period size: 21 Copynumber: 6.6 Consensus size: 21
27590 ACGCGAAATA
**
27600 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
27620 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
27640 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* * ** *
27661 AAAATCGCGATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* * **
27682 ATATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * * *
27703 ATAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
27723 AAAATCGCAACGC
1 AAAATCGCAACGC
27736 AAACACATAA
Statistics
Matches: 83, Mismatches: 29, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
19 1 0.01
20 36 0.43
21 44 0.53
22 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:27766 original size:20 final size:20
Alignment explanation
Indices: 27743--28071 Score: 450
Period size: 20 Copynumber: 16.6 Consensus size: 20
27733 CGCAAACACA
27743 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
27763 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
**
27783 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACGCGTATCCG
*
27803 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
27823 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
27843 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
27863 TAAACCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
27883 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
27903 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
27923 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
27943 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
27963 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
27983 T-AATCGCAACG-ATATCCG
1 TAAATCGCAACGCGTATCCG
* * *
28001 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
28021 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
28041 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
28061 TAAATCACAAC
1 TAAATCGCAAC
28072 ACTGAAATTT
Statistics
Matches: 274, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.03
19 21 0.08
20 245 0.89
21 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:27772 original size:60 final size:60
Alignment explanation
Indices: 27705--28071 Score: 418
Period size: 60 Copynumber: 6.2 Consensus size: 60
27695 GATTTTCCAT
** * * *
27705 AATCGCAACGCGAATATGAAAATCGCAACGC-AAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGTAAC-CGTAAATCGCAACGCGTATCCGTA
* * *** *
27765 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGTAACCGTAAATCGCAACGCGTATCCGTA
* * * * *
27825 TATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGTAACCGTAAATCGCAACGCGTATCCGTA
* * *
27885 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGTAACCGTAAATCGCAACGCGTATCCGTA
** * *
27945 AATCGCAACGATAATCCGTAAATCGCAACGCGTATCCGT-AATCGCAACG-ATATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGTAACCGTAAATCGCAACGCGTATCCGTA
* * * * * *
28003 AATCGCAACGAGAATCTGTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGTAA-CCGTAAATCGCAACGCGTATCCGTA
*
28063 AATCACAAC
1 AATCGCAAC
28072 ACTGAAATTT
Statistics
Matches: 268, Mismatches: 35, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
57 2 0.01
58 40 0.15
59 20 0.07
60 205 0.76
61 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AATCGCAACGCGAATCCGTAAATCGCAACGCGTAACCGTAAATCGCAACGCGTATCCGTA
Found at i:28984 original size:12 final size:12
Alignment explanation
Indices: 28967--28991 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28957 ATATAATCCT
28967 GAAGAAGAAAAA
1 GAAGAAGAAAAA
28979 GAAGAAGAAAAA
1 GAAGAAGAAAAA
28991 G
1 G
28992 TCCCCGAAGA
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:29816 original size:20 final size:20
Alignment explanation
Indices: 29791--30013 Score: 286
Period size: 20 Copynumber: 11.2 Consensus size: 20
29781 GTTCGTTTAT
*
29791 ATTTACGGATACGCATTGCG
1 ATTTACGGATACGCGTTGCG
29811 ATTTACGGATACGCGTTGCG
1 ATTTACGGATACGCGTTGCG
* *
29831 ATTTACGGATACACATTGCG
1 ATTTACGGATACGCGTTGCG
*
29851 GTTTACGGATACGCGTTGCG
1 ATTTACGGATACGCGTTGCG
*
29871 ATTTACGGATACACGTTGCG
1 ATTTACGGATACGCGTTGCG
* *
29891 ATATACGGATACGCATTGCG
1 ATTTACGGATACGCGTTGCG
**
29911 ATTTACCCATACGCGTTGCG
1 ATTTACGGATACGCGTTGCG
*
29931 ATTTACGGATACACGTTGCG
1 ATTTACGGATACGCGTTGCG
29951 ATTTACGGATACGCGTTGCG
1 ATTTACGGATACGCGTTGCG
* *
29971 ATTTATGTG-TTCGCGTTGCG
1 ATTTACG-GATACGCGTTGCG
* ** *
29991 ATTTTCATATTCGCGTTGCG
1 ATTTACGGATACGCGTTGCG
30011 ATT
1 ATT
30014 ATGGAAAATC
Statistics
Matches: 176, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 175 0.99
21 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (20 bp):
ATTTACGGATACGCGTTGCG
Found at i:30076 original size:21 final size:20
Alignment explanation
Indices: 29981--30078 Score: 61
Period size: 21 Copynumber: 4.8 Consensus size: 20
29971 ATTTATGTGT
* *
29981 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
**
30001 TCGCGTTGCGATTATGGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** * **
30022 TCGCAATGCGAATTTCTACTA
1 TCGCGTTGCGATTTTC-AAAA
* * *
30043 TCGCATCGTGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
30064 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
30079 GGAAACTGAT
Statistics
Matches: 55, Mismatches: 20, Indels: 5
0.69 0.25 0.06
Matches are distributed among these distances:
20 15 0.27
21 40 0.73
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:30094 original size:20 final size:20
Alignment explanation
Indices: 30069--30120 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
30059 AAGAATCGCG
*
30069 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
30089 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
30109 TTGCGATTCTGG
1 TTGCGATTCTGG
30121 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:30272 original size:3 final size:3
Alignment explanation
Indices: 30259--30291 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
30249 ACGTATTTTA
30259 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
30292 TGATCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:32913 original size:178 final size:180
Alignment explanation
Indices: 32591--32954 Score: 678
Period size: 178 Copynumber: 2.0 Consensus size: 180
32581 AAGGAAGGAC
32591 TGTGTGGAAGAAACCCAAATGGCTATTTACCTGGGAAGATGGCTACTTTGATGACATTTTATGGT
1 TGTGTGGAAGAAACCCAAATGGCTATTTACCTGGGAAGATGGCTACTTTGATGACATTTTATGGT
*
32656 TTTATGTCTTTGGCTTACCTTGTGCTTGGCCTTGCCTGGTTTCTAAGGTTTTTTCAGTTTTGGAA
66 TTTATGTCTTTGGCTTACCTTGTGCTTGGCCTTGCCTGGTTTCTAAGGTTTGTTCAGTTTTGGAA
32721 GGATATCATTCATTTGCACTACCATATCACCCTTGTTATTGCTCTTGGAA
131 GGATATCATTCATTTGCACTACCATATCACCCTTGTTATTGCTCTTGGAA
* * *
32771 TGTGTGGAAG-AACCC-AATGGTTATTTACCTGGGAAGATGGCTCCTTTGATGTCATTTTATGGT
1 TGTGTGGAAGAAACCCAAATGGCTATTTACCTGGGAAGATGGCTACTTTGATGACATTTTATGGT
32834 TTTATGTCTTTGGCTTACCTTGTGCTTGGCCTTGCCTGGTTTCTAAGGTTTGTTCAGTTTTGGAA
66 TTTATGTCTTTGGCTTACCTTGTGCTTGGCCTTGCCTGGTTTCTAAGGTTTGTTCAGTTTTGGAA
32899 GGATATCATTCATTTGCACTACCATATCACCCTTGTTATTGCTCTTGGAA
131 GGATATCATTCATTTGCACTACCATATCACCCTTGTTATTGCTCTTGGAA
32949 TGTGTG
1 TGTGTG
32955 AAATGGATGT
Statistics
Matches: 180, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
178 165 0.92
179 5 0.03
180 10 0.06
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.41
Consensus pattern (180 bp):
TGTGTGGAAGAAACCCAAATGGCTATTTACCTGGGAAGATGGCTACTTTGATGACATTTTATGGT
TTTATGTCTTTGGCTTACCTTGTGCTTGGCCTTGCCTGGTTTCTAAGGTTTGTTCAGTTTTGGAA
GGATATCATTCATTTGCACTACCATATCACCCTTGTTATTGCTCTTGGAA
Found at i:45327 original size:31 final size:33
Alignment explanation
Indices: 45292--45353 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
45282 TAATATTTAA
*
45292 AAATAA-ATATTATTAAT-TTA-TAAAATTAATC
1 AAATAATATA-TATTAATATGACTAAAATTAATC
45323 AAATAATATATATTAATATGACTAAAATTAA
1 AAATAATATATATTAATATGACTAAAATTAA
45354 AGAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 13 0.48
32 5 0.19
33 9 0.33
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (33 bp):
AAATAATATATATTAATATGACTAAAATTAATC
Found at i:45360 original size:33 final size:31
Alignment explanation
Indices: 45292--45360 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
45282 TAATATTTAA
* *
45292 AAATAAATATTATTAATTTATAAAATTAATC
1 AAATAAATATTATTAATTGATAAAATTAAAC
*
45323 AAAT-AATATATATTAATATGACTAAAATTAAAG
1 AAATAAATAT-TATTAAT-TGA-TAAAATTAAAC
45356 AAATA
1 AAATA
45361 TAAAATGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 5 0.16
31 11 0.35
32 2 0.06
33 13 0.42
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (31 bp):
AAATAAATATTATTAATTGATAAAATTAAAC
Found at i:45395 original size:2 final size:2
Alignment explanation
Indices: 45388--45429 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
45378 TGAATAAAAC
*
45388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45430 AATACAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45579 original size:20 final size:20
Alignment explanation
Indices: 45556--45611 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
45546 GACTGAAATA
45556 AATAAAATTAAAATAACAGG
1 AATAAAATTAAAATAACAGG
*
45576 AATAAAATTAAAGTAACAGG
1 AATAAAATTAAAATAACAGG
45596 AATAAAATGTAAAATA
1 AATAAAAT-TAAAATA
45612 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 27 0.82
21 6 0.18
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.21
Consensus pattern (20 bp):
AATAAAATTAAAATAACAGG
Found at i:46820 original size:3 final size:3
Alignment explanation
Indices: 46812--46841 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
46802 TTTTGGGTCT
46812 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46842 TATGATGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47166 original size:78 final size:78
Alignment explanation
Indices: 47002--47411 Score: 609
Period size: 78 Copynumber: 5.3 Consensus size: 78
46992 AAGGTCCTAT
*
47002 CATCTTGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAAAAACATCAAAAAGCTCCCGAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAAACATCAAAAAGCTCCCGAA
*
47066 GACTTTTTGAAAA
66 GGCTTTTTGAAAA
* *
47079 CATTATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAAACATCAAAAAGCTCCCAAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAAACATCAAAAAGCTCCCGAA
47144 GGCTTTTTGAAAA
66 GGCTTTTTGAAAA
* * *
47157 CATCATGCACTATAGGGCTTACAGATGACCCTGAGGCTTTAAAATAA-A--AAAAA--TCCCGAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAAACATCAAAAAGCTCCCGAA
47217 GGCTTTTTGAAAA
66 GGCTTTTTGAAAA
* * * * * **
47230 CATCATACACTGTAGGTCTTACAAATGACCCTGAGGCTTTATAATAATAAAAAAAAGCTCCCGAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAAACATCAAAAAGCTCCCGAA
47295 GGCTTTTTGAAAA
66 GGCTTTTTGAAAA
* *
47308 CATCATGCATTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAAAAACATCAAAAAGCTCCCAAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAAACATCAAAAAGCTCCCGAA
*
47372 AGCTTTTTGAAAA
66 GGCTTTTTGAAAA
*
47385 CATCATGCATTGTAGGTCTTACAGATG
1 CATCATGCACTGTAGGTCTTACAGATG
47412 TGGGAAATAA
Statistics
Matches: 303, Mismatches: 24, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
73 61 0.20
74 1 0.00
75 5 0.02
76 5 0.02
77 96 0.32
78 135 0.45
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (78 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAAACATCAAAAAGCTCCCGAA
GGCTTTTTGAAAA
Found at i:47285 original size:151 final size:153
Alignment explanation
Indices: 47002--47407 Score: 593
Period size: 151 Copynumber: 2.6 Consensus size: 153
46992 AAGGTCCTAT
*
47002 CATCTTGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATCAAAAAGCTCCCGAAG
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACA-CAAAAA-CTCCCGAAG
* * * **
47067 ACTTTTTGAAAACATTATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAAACATCAA
64 GCTTTTTGAAAACATCATGCACTGTAGGTCTTACAAATGACCCTGAGGCTTTAAAAAAACAAAAA
47132 AAAGCTCCCAAAGGCTTTTTGAAAA
129 AAAGCTCCCAAAGGCTTTTTGAAAA
* *
47157 CATCATGCACTATAGGGCTTACAGATGACCCTGAGGCTTTAAAATAA-A-AAAAA-TCCCGAAGG
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAA-AACACAAAAACTCCCGAAGG
* * * *
47219 CTTTTTGAAAACATCATACACTGTAGGTCTTACAAATGACCCTGAGGCTTTATAATAATAAAAAA
65 CTTTTTGAAAACATCATGCACTGTAGGTCTTACAAATGACCCTGAGGCTTTAAAAAAACAAAAAA
*
47284 AAGCTCCCGAAGGCTTTTTGAAAA
130 AAGCTCCCAAAGGCTTTTTGAAAA
* * *
47308 CATCATGCATTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATCAAAAAGCTCCCAAAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACA-CAAAAA-CTCCCGAAG
*
47373 GCTTTTTGAAAACATCATGCATTGTAGGTCTTACA
64 GCTTTTTGAAAACATCATGCACTGTAGGTCTTACA
47408 GATGTGGGAA
Statistics
Matches: 225, Mismatches: 20, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
150 2 0.01
151 130 0.58
153 10 0.04
155 81 0.36
156 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (153 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACACAAAAACTCCCGAAGGC
TTTTTGAAAACATCATGCACTGTAGGTCTTACAAATGACCCTGAGGCTTTAAAAAAACAAAAAAA
AGCTCCCAAAGGCTTTTTGAAAA
Found at i:47745 original size:28 final size:28
Alignment explanation
Indices: 47713--47770 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
47703 CATGTTTGAA
*
47713 TGCACTCAGATGTATCAATGTAATGCAT
1 TGCACGCAGATGTATCAATGTAATGCAT
47741 TGCACGCAGATGTATCAATGTAATGCAT
1 TGCACGCAGATGTATCAATGTAATGCAT
47769 TG
1 TG
47771 TCTATTGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (28 bp):
TGCACGCAGATGTATCAATGTAATGCAT
Found at i:48120 original size:22 final size:22
Alignment explanation
Indices: 48095--48149 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
48085 AATAAAGCGT
48095 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
48117 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
48139 TCATCTTTGAA
1 TCATCTTTGAA
48150 GAGTGTAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:51535 original size:13 final size:13
Alignment explanation
Indices: 51517--51546 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
51507 TCTTCCCATG
51517 GAAAGGTTTAGTT
1 GAAAGGTTTAGTT
51530 GAAAGGTTTAGTT
1 GAAAGGTTTAGTT
51543 GAAA
1 GAAA
51547 ATTTATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (13 bp):
GAAAGGTTTAGTT
Found at i:53397 original size:178 final size:180
Alignment explanation
Indices: 53075--53438 Score: 687
Period size: 178 Copynumber: 2.0 Consensus size: 180
53065 AAGGAAGGAC
53075 TGTGTGGAAGAAACCCAAATGGCTATTTACCTGGGAAGATGGCTACTTTGATGACATTTTATGGT
1 TGTGTGGAAGAAACCCAAATGGCTATTTACCTGGGAAGATGGCTACTTTGATGACATTTTATGGT
53140 TTTATGTCTTTGGCTTACCTTGTGCTTGGCCTTGCCTGGTTTCTAAGGTTTGTTCAGTTTTGGAA
66 TTTATGTCTTTGGCTTACCTTGTGCTTGGCCTTGCCTGGTTTCTAAGGTTTGTTCAGTTTTGGAA
53205 GGATATCATTCATTTGCACTACCATATCACCCTTGTTATTGCTCTTGGAA
131 GGATATCATTCATTTGCACTACCATATCACCCTTGTTATTGCTCTTGGAA
* * *
53255 TGTGTGGAAG-AACCCAAA-GGTTATTTACCTGGGAAGATGGCTCCTTTGATGTCATTTTATGGT
1 TGTGTGGAAGAAACCCAAATGGCTATTTACCTGGGAAGATGGCTACTTTGATGACATTTTATGGT
53318 TTTATGTCTTTGGCTTACCTTGTGCTTGGCCTTGCCTGGTTTCTAAGGTTTGTTCAGTTTTGGAA
66 TTTATGTCTTTGGCTTACCTTGTGCTTGGCCTTGCCTGGTTTCTAAGGTTTGTTCAGTTTTGGAA
53383 GGATATCATTCATTTGCACTACCATATCACCCTTGTTATTGCTCTTGGAA
131 GGATATCATTCATTTGCACTACCATATCACCCTTGTTATTGCTCTTGGAA
53433 TGTGTG
1 TGTGTG
53439 AAATGGATGT
Statistics
Matches: 181, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
178 163 0.90
179 8 0.04
180 10 0.06
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.40
Consensus pattern (180 bp):
TGTGTGGAAGAAACCCAAATGGCTATTTACCTGGGAAGATGGCTACTTTGATGACATTTTATGGT
TTTATGTCTTTGGCTTACCTTGTGCTTGGCCTTGCCTGGTTTCTAAGGTTTGTTCAGTTTTGGAA
GGATATCATTCATTTGCACTACCATATCACCCTTGTTATTGCTCTTGGAA
Found at i:56423 original size:20 final size:20
Alignment explanation
Indices: 56400--56437 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56390 TATTATTATT
56400 TTTCAAAAATCTCCAAAATA
1 TTTCAAAAATCTCCAAAATA
* *
56420 TTTCTAAAATCTCGAAAA
1 TTTCAAAAATCTCCAAAA
56438 AATCCCAAAA
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:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (20 bp):
TTTCAAAAATCTCCAAAATA
Found at i:58536 original size:21 final size:21
Alignment explanation
Indices: 58492--58532 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58482 AGGACATATA
* *
58492 ATTAGTATAATTTTTTATTAT
1 ATTAATATAATTATTTATTAT
58513 ATTAATATAATTATTT-TTAT
1 ATTAATATAATTATTTATTAT
58533 TATTCTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTAATATAATTATTTATTAT
Found at i:65222 original size:207 final size:209
Alignment explanation
Indices: 64981--65398 Score: 806
Period size: 208 Copynumber: 2.0 Consensus size: 209
64971 CCCCGTCAAC
64981 ATGAAAGAAAGAAATCCCCCAACTGAAAGAATGATACCTGCCAGACCCAGAAATACACAAAAGAA
1 ATGAAAGAAAGAAATCCCCCAACTGAAAGAATGATACCTGCCAGACCCAGAAATACACAAAAG-A
65046 ATTTGAAGTTTCTGTTCATGTAATTTAACTATTTC-ATCAACATTTTTATGAACACGTTCAGATT
65 ATTTGAAGTTTCTGTTCATGTAATTTAACTATTTCAATCAACATTTTTATGAACACGTTCAGATT
65110 T-ACAACAATGCATATAGAGTTTCAGGTTGATCCAATAAGCCATCCACTCTGTCGTAACCGATTT
130 TAACAACAATGCATATAGAGTTTCAGGTTGATCCAATAAGCCATCCACTCTGTCGTAACCGATTT
65174 TCGTCCGGGCACGAA
195 TCGTCCGGGCACGAA
65189 ATGAAAGAAAGAAAT-CCCCAACTGAAAGAATGATACCTGCCAGACCCAGAAATACACAAAAGAA
1 ATGAAAGAAAGAAATCCCCCAACTGAAAGAATGATACCTGCCAGACCCAGAAATACACAAAAGAA
65253 TTTGAAGTTTCTGTTCATGTAATTTAACTATTTCAATCAACATTTTTATGAACACGTTCAGATTT
66 TTTGAAGTTTCTGTTCATGTAATTTAACTATTTCAATCAACATTTTTATGAACACGTTCAGATTT
65318 AACAACAATGCATATAGAGTTTCAGGTTGATCCAATAAGCCATCCACTCTGTCGTAACCGATTTT
131 AACAACAATGCATATAGAGTTTCAGGTTGATCCAATAAGCCATCCACTCTGTCGTAACCGATTTT
65383 CGTCCGGGCACGAA
196 CGTCCGGGCACGAA
65397 AT
1 AT
65399 TTTTACTTGG
Statistics
Matches: 208, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
206 36 0.17
207 77 0.37
208 95 0.46
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (209 bp):
ATGAAAGAAAGAAATCCCCCAACTGAAAGAATGATACCTGCCAGACCCAGAAATACACAAAAGAA
TTTGAAGTTTCTGTTCATGTAATTTAACTATTTCAATCAACATTTTTATGAACACGTTCAGATTT
AACAACAATGCATATAGAGTTTCAGGTTGATCCAATAAGCCATCCACTCTGTCGTAACCGATTTT
CGTCCGGGCACGAA
Found at i:65864 original size:33 final size:34
Alignment explanation
Indices: 65829--65891 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
65819 CTTAATATTA
*
65829 AAAAATATTAA-TAAGA-ATATA-ATAATTTTCCT
1 AAAAATAATAAGTAA-ATATATATATAATTTTCCT
65861 AAAAATAATAAGTAAATATATATATAATTTT
1 AAAAATAATAAGTAAATATATATATAATTTT
65892 ATAAGCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 11 0.41
33 8 0.30
34 8 0.30
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (34 bp):
AAAAATAATAAGTAAATATATATATAATTTTCCT
Found at i:66237 original size:18 final size:17
Alignment explanation
Indices: 66214--66263 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
66204 GACTGAAATA
66214 AATAAAATTAAAAACAGG
1 AATAAAATTAAAAACA-G
66232 AAT-AAATTAAAGTAACAG
1 AATAAAATTAAA--AACAG
66250 AATAAAATGTAAAA
1 AATAAAAT-TAAAA
66264 TATTAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 8 0.29
18 8 0.29
19 8 0.29
20 4 0.14
ACGTcount: A:0.66, C:0.04, G:0.10, T:0.20
Consensus pattern (17 bp):
AATAAAATTAAAAACAG
Found at i:67323 original size:3 final size:3
Alignment explanation
Indices: 67315--67350 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
67305 TTTTGGGTCT
67315 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
67351 TGATGATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:67866 original size:77 final size:77
Alignment explanation
Indices: 67507--67915 Score: 603
Period size: 77 Copynumber: 5.4 Consensus size: 77
67497 AAGGTCCTAT
*
67507 CATCTTGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATAAAAAAGCTCCCGAAG
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATAAAAAAGCTCCCGAAG
67572 GCTTTTTGAAAA
66 GCTTTTTGAAAA
* * * *
67584 CATTATGCACTGTAGGTCTTACAAATGACCCTGAGGCTTTAAAAAAACATCAAAAAGCTCCCAAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAAAAACATAAAAAAGCTCCCGAA
67649 GGCTTTTTGAAAA
65 GGCTTTTTGAAAA
* *
67662 CATCATGCACTGTAGGGCTTACAGATGACCCTGAGGCTTTAAAATA-A-AAAAAA-CTCCCGAAG
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATAAAAAAGCTCCCGAAG
67724 GCTTTTTGAAAA
66 GCTTTTTGAAAA
* * * * *
67736 CATCATACACTGTAGGTCTTACAAATGACCTTGAGGCTTTATAATA-ATAAAAAAAGCTCCCGAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACAT-AAAAAAGCTCCCGAA
67800 GGCTTTTTG-AAA
65 GGCTTTTTGAAAA
* * * *
67812 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATCAAAAAGTTCCCAAAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATAAAAAAGCTCCCGAAG
*
67877 TCTTTTTGAAAA
66 GCTTTTTGAAAA
*
67889 CATCATGCATTGTAGGTCTTACAGATG
1 CATCATGCACTGTAGGTCTTACAGATG
67916 TGGGAAATAA
Statistics
Matches: 299, Mismatches: 27, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
74 62 0.21
75 5 0.02
76 70 0.23
77 90 0.30
78 72 0.24
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (77 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAACATAAAAAAGCTCCCGAAG
GCTTTTTGAAAA
Found at i:68621 original size:22 final size:22
Alignment explanation
Indices: 68596--68650 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
68586 AATAAAGCGT
68596 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
68618 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
68640 TCATCTTTGAA
1 TCATCTTTGAA
68651 GAGTGTAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:73059 original size:10 final size:10
Alignment explanation
Indices: 73039--73067 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
73029 TTTGATTCAA
73039 TTTTTTC-TT
1 TTTTTTCTTT
73048 TTTTTTCTTT
1 TTTTTTCTTT
73058 TTTTTTCTTT
1 TTTTTTCTTT
73068 CTTCAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:76082 original size:43 final size:44
Alignment explanation
Indices: 76018--76104 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
76008 TCGTGCATCA
* * *
76018 AACAAAACTTTTACATGTAGGGGATATCTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGATAACTTTCACTCCTAACTTC
*
76062 AACAAAAC-TTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGATAACTTTCACTCCTAACTTC
76105 TCAAAAGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 31 0.79
44 8 0.21
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGGATAACTTTCACTCCTAACTTC
Found at i:78723 original size:18 final size:21
Alignment explanation
Indices: 78700--78739 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
78690 ACCATTTCTT
78700 AATATTAA-AA-AATA-AATA
1 AATATTAATAAGAATATAATA
78718 AATATTAATAAGAATATAATA
1 AATATTAATAAGAATATAATA
78739 A
1 A
78740 TTTTCCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 2 0.11
20 4 0.21
21 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (21 bp):
AATATTAATAAGAATATAATA
Found at i:78766 original size:2 final size:2
Alignment explanation
Indices: 78761--78785 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
78751 AATAATGAAG
78761 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
78786 TTATTAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78903 original size:31 final size:33
Alignment explanation
Indices: 78868--78929 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
78858 TAATATTTAA
*
78868 AAATAA-ATATTATTAAT-TTA-TAAAATTAATC
1 AAATAATAT-TTATTAATATGACTAAAATTAATC
78899 AAATAATATTTATTAATATGACTAAAATTAA
1 AAATAATATTTATTAATATGACTAAAATTAA
78930 AGAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 14 0.52
32 4 0.15
33 9 0.33
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (33 bp):
AAATAATATTTATTAATATGACTAAAATTAATC
Found at i:78936 original size:33 final size:31
Alignment explanation
Indices: 78868--78936 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
78858 TAATATTTAA
* *
78868 AAATAAATATTATTAATTTATAAAATTAATC
1 AAATAAATATTATTAATTGATAAAATTAAAC
*
78899 AAAT-AATATTTATTAATATGACTAAAATTAAAG
1 AAATAAATA-TTATTAAT-TGA-TAAAATTAAAC
78932 AAATA
1 AAATA
78937 TAAAATGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 4 0.13
31 12 0.39
32 2 0.06
33 13 0.42
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (31 bp):
AAATAAATATTATTAATTGATAAAATTAAAC
Found at i:80101 original size:22 final size:22
Alignment explanation
Indices: 80059--80102 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
80049 AGGTTTCCTA
* *
80059 GGTGAGTCACCATAGCTATGGT
1 GGTGACTCACCATAGCGATGGT
*
80081 GGTGACTCACCATAGGGATGGT
1 GGTGACTCACCATAGCGATGGT
80103 CGTGGGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (22 bp):
GGTGACTCACCATAGCGATGGT
Found at i:80393 original size:3 final size:3
Alignment explanation
Indices: 80385--80446 Score: 101
Period size: 3 Copynumber: 21.0 Consensus size: 3
80375 TTTTGGGTCT
80385 ATA ATA ATA ATA AT- ATA TATA ATA ATA ATA ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
80429 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
80447 TGATGATGGA
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.07
3 49 0.88
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:83412 original size:46 final size:46
Alignment explanation
Indices: 83359--83488 Score: 233
Period size: 46 Copynumber: 2.8 Consensus size: 46
83349 TAAAGCGATT
83359 TGCTTTCCTTCTTGGTATTTGAGTAAACTACACAAATGGTCCTTTA
1 TGCTTTCCTTCTTGGTATTTGAGTAAACTACACAAATGGTCCTTTA
83405 TGCTTTCCTTCTTGGTATTTGAGTAAACTACACAAATGGTCCTTTA
1 TGCTTTCCTTCTTGGTATTTGAGTAAACTACACAAATGGTCCTTTA
* * *
83451 TGCTTTCCTTCTTGTTATTTGGGTAAAGTACACAAATG
1 TGCTTTCCTTCTTGGTATTTGAGTAAACTACACAAATG
83489 CTCCATTGAC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (46 bp):
TGCTTTCCTTCTTGGTATTTGAGTAAACTACACAAATGGTCCTTTA
Found at i:84255 original size:21 final size:20
Alignment explanation
Indices: 84231--84517 Score: 165
Period size: 21 Copynumber: 13.8 Consensus size: 20
84221 CATATTCGCA
84231 TTGCGA-TAGTCCAAGTTCGCG
1 TTGCGATTAGTCCAAGTT--CG
*
84252 TTGCGA-TAGTCGAAGTTCACG
1 TTGCGATTAGTCCAAGTT--CG
* *
84273 TTGCGATTTATTCCAAATTCG
1 TTGCGA-TTAGTCCAAGTTCG
* * *
84294 TTGTGATTTATTCCAAATTCG
1 TTGCGA-TTAGTCCAAGTTCG
84315 TTGCGA-TAGTCCAAGTTCGCG
1 TTGCGATTAGTCCAAGTT--CG
*
84336 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTAGTCCAAGTT--CG
* * *
84357 TTGCAATTTATTCCAAATTCG
1 TTGCGA-TTAGTCCAAGTTCG
* * *
84378 TTGAGATTTATTCCAAATTCG
1 TTGCGA-TTAGTCCAAGTTCG
* *
84399 TTGCGATTTATTCCAAATTCG
1 TTGCGA-TTAGTCCAAGTTCG
84420 TTGCGA-TAGTCCAAGTTCGCG
1 TTGCGATTAGTCCAAGTT--CG
** *
84441 TTGTTATTTATTCCAAGTTCG
1 TTGCGA-TTAGTCCAAGTTCG
*
84462 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTAGTCCAAGTT--CG
* *
84483 TTGCGATTTATTCCAAATTCG
1 TTGCGA-TTAGTCCAAGTTCG
84504 TTGCGA-TAGTCCAA
1 TTGCGATTAGTCCAA
84518 AATCGCAACG
Statistics
Matches: 222, Mismatches: 30, Indels: 30
0.79 0.11 0.11
Matches are distributed among these distances:
19 34 0.15
21 154 0.69
23 34 0.15
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGCGATTAGTCCAAGTTCG
Found at i:84322 original size:63 final size:62
Alignment explanation
Indices: 84250--84517 Score: 201
Period size: 63 Copynumber: 4.3 Consensus size: 62
84240 TCCAAGTTCG
* **
84250 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGTGATTTATTCCAAATT
1 CGTTGCGATAGTCCAAGTTC-CGTTGCGATTTATTCCAAATTCGTTGCAATTTATTCCAAATT
* * *
84313 CGTTGCGATAGTCCAAGTTCGCGTTGCGA--TAGTCGAAGTTCGCGTTGCAATTTATTCCAAATT
1 CGTTGCGATAGTCCAAGTTC-CGTTGCGATTTATTCCAAATT--CGTTGCAATTTATTCCAAATT
* * * * * *
84376 CGTTGAGATTTATTCCAAATT-CGTTGCGATTTATTCCAAATTCGTTGCGA--TAGTCCAAGTT
1 CGTTGCGA--TAGTCCAAGTTCCGTTGCGATTTATTCCAAATTCGTTGCAATTTATTCCAAATT
** * * * * *
84437 CGCGTTGTTATTTATTCCAAGTT-CGTTGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAA
1 --CGTTGCGA--TAGTCCAAGTTCCGTTGCGATTTATTCCAAATT--CGTTGCAATTTATTCCAA
84499 ATT
60 ATT
84502 CGTTGCGATAGTCCAA
1 CGTTGCGATAGTCCAA
84518 AATCGCAACG
Statistics
Matches: 166, Mismatches: 27, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
61 32 0.19
63 108 0.65
65 26 0.16
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (62 bp):
CGTTGCGATAGTCCAAGTTCCGTTGCGATTTATTCCAAATTCGTTGCAATTTATTCCAAATT
Found at i:84360 original size:105 final size:104
Alignment explanation
Indices: 84225--84510 Score: 398
Period size: 105 Copynumber: 2.7 Consensus size: 104
84215 GATTTACATA
*
84225 TTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTC-CGTTGCGATTTATTCCAAA
*
84290 TTCGTTGTGATTTATTCCAAATTCGTTGCGATAGTCCAAG
65 TTCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAG
* * * * * *
84330 TTCGCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATT-CGTTGAGATTTATTCCAA
1 TTCGCGTTGCGATAGTCCAAGTTCGCGTTGCGA--TAGTCGAAGTTCCGTTGCGATTTATTCCAA
84394 ATTCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAG
64 ATTCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAG
** *
84435 TTCGCGTTGTTATTTATTCCAAGTT--CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCA
1 TTCGCGTTGCGA--TAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTC-CGTTGCGATTTATTCCA
84498 AATTCGTTGCGAT
63 AATTCGTTGCGAT
84511 AGTCCAAAAT
Statistics
Matches: 158, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
103 8 0.05
105 133 0.84
107 17 0.11
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (104 bp):
TTCGCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCCGTTGCGATTTATTCCAAAT
TCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAG
Found at i:84372 original size:84 final size:84
Alignment explanation
Indices: 84231--84464 Score: 355
Period size: 84 Copynumber: 2.8 Consensus size: 84
84221 CATATTCGCA
* *
84231 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTT
1 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTCGTT
*
84296 GTGATTTATTCCAAATTCG
66 GAGATTTATTCCAAATTCG
84315 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTCGTT
1 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTCGTT
84380 GAGATTTATTCCAAATTCG
66 GAGATTTATTCCAAATTCG
* * * ** *
84399 TTGCGATTTATTCCAAATT--CGTTGCGATAGTCCAAGTTCGCGTTGTTATTTATTCCAAGTTCG
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTCG
84462 TTG
64 TTG
84465 CGATAGTCGA
Statistics
Matches: 139, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
84 130 0.94
86 9 0.06
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (84 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTCGTT
GAGATTTATTCCAAATTCG
Found at i:84380 original size:42 final size:42
Alignment explanation
Indices: 84250--84517 Score: 296
Period size: 42 Copynumber: 6.4 Consensus size: 42
84240 TCCAAGTTCG
* *
84250 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
* * * * *
84292 CGTTGTGATTTATTCCAAATT--CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
* *
84332 CGCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATT
1 --CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
* * *
84376 CGTTGAGATTTATTCCAAATT--CGTTGCGATTTATTCCAAATT
1 CGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
** *
84418 CGTTGCGATAGTCCAAGTTCGCGTTGTTATTTATTCCAAGTT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
*
84460 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
84502 CGTTGCGATAGTCCAA
1 CGTTGCGATAGTCCAA
84518 AATCGCAACG
Statistics
Matches: 185, Mismatches: 29, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
40 26 0.14
42 134 0.72
44 25 0.14
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (42 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:84485 original size:84 final size:83
Alignment explanation
Indices: 84250--84517 Score: 335
Period size: 84 Copynumber: 3.2 Consensus size: 83
84240 TCCAAGTTCG
* * * *
84250 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGTGATTTATTCCAAATTCG
1 CGTTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGAGA-TTATTCCAAATTCG
* *
84315 TTGCGA--TAGTCCAAGTT
65 TTGCGATTTATTCCAAATT
*
84332 CGCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGAGATTTATTCCAAATT
1 --CGTTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGAGA-TTATTCCAAATT
84397 CGTTGCGATTTATTCCAAATT
63 CGTTGCGATTTATTCCAAATT
** * * * * *
84418 CGTTGCGATAGTCCAAGTTCGCGTTGTTATTTATTCCAAGTTCGTTGCGA-TAGTCGAAGTTCGC
1 CGTTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGAGATTATTCCAAATT--C
84482 GTTGCGATTTATTCCAAATT
64 GTTGCGATTTATTCCAAATT
84502 CGTTGCGATAGTCCAA
1 CGTTGCGATAGTCCAA
84518 AATCGCAACG
Statistics
Matches: 167, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
82 8 0.05
84 150 0.90
86 9 0.05
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (83 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGAGATTATTCCAAATTCGT
TGCGATTTATTCCAAATT
Found at i:85142 original size:6 final size:6
Alignment explanation
Indices: 85115--85157 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
85105 GTCTCGTCTC
85115 TGGTCG -GGTCG -GGTCG -GGTCG TGGTCG TGGTCG TGGTCG TGGT
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGT
85158 AATACGTGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 15 0.42
6 21 0.58
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.30
Consensus pattern (6 bp):
TGGTCG
Found at i:85315 original size:42 final size:42
Alignment explanation
Indices: 85250--85386 Score: 238
Period size: 42 Copynumber: 3.3 Consensus size: 42
85240 TGCGATTTTG
** * *
85250 GACTATCATAACGAACTTCGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
85292 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
85334 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
85376 GACTATCGCAA
1 GACTATCGCAA
85387 TGCGAACTTG
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:85405 original size:42 final size:42
Alignment explanation
Indices: 85261--85494 Score: 212
Period size: 42 Copynumber: 5.4 Consensus size: 42
85251 ACTATCATAA
*
85261 CGAACTTCGAATAAATCGCAACGCGAACTTCGACTATCGCAA--
1 CGAACTTGGAAT--ATCGCAACGCGAACTTCGACTATCGCAATG
*
85303 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--
1 CGAACTTGGAAT--ATCGCAACGCGAACTTCGACTATCGCAATG
*
85345 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATG
1 CGAACTTGGAAT--ATCGCAACGCGAACTTCGACTATCGCAATG
* *
85389 CGAACTTGGACTATCGCAATGCGAA-TAT-GTA-TATCGCAATG
1 CGAACTTGGAATATCGCAACGCGAACT-TCG-ACTATCGCAATG
* *
85430 CGATAGTCGAATTTGGAAAATCGCAACGCGAACTTTGACTATCGCAATG
1 CGA-A--C----TTGGAATATCGCAACGCGAACTTCGACTATCGCAATG
*
85479 CGAACTTGGACTATCG
1 CGAACTTGGAATATCG
85495 TATTGCGATT
Statistics
Matches: 168, Mismatches: 10, Indels: 28
0.82 0.05 0.14
Matches are distributed among these distances:
41 15 0.09
42 106 0.63
44 11 0.07
46 1 0.01
48 20 0.12
49 15 0.09
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (42 bp):
CGAACTTGGAATATCGCAACGCGAACTTCGACTATCGCAATG
Found at i:85405 original size:84 final size:83
Alignment explanation
Indices: 85250--85494 Score: 250
Period size: 84 Copynumber: 2.9 Consensus size: 83
85240 TGCGATTTTG
** * * *
85250 GACTATCATAACGAACTTCGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAATTTGGA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGA
*
85313 ATAAATCGCAACGCGAACT-T
66 CT--ATCGCAACGCGAA-TAT
85333 CGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGG
1 -GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGG
*
85398 ACTATCGCAATGCGAATAT
65 ACTATCGCAACGCGAATAT
*
85417 GTA-TATCGCAATGCGATAGTCGAATTTGG-A-AAATCGCAACGCGAACTTTGACTATCGCAATG
1 G-ACTAT--C---GC-A-A--CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATG
85479 CGAACTTGGACTATCG
56 CGAACTTGGACTATCG
85495 TATTGCGATT
Statistics
Matches: 140, Mismatches: 8, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
83 5 0.04
84 63 0.45
85 1 0.01
86 10 0.07
88 2 0.01
89 1 0.01
90 48 0.34
91 1 0.01
92 9 0.06
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (83 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGA
CTATCGCAACGCGAATAT
Found at i:85502 original size:21 final size:21
Alignment explanation
Indices: 85275--85494 Score: 155
Period size: 21 Copynumber: 10.2 Consensus size: 21
85265 CTTCGAATAA
* *
85275 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTGGACT
* *
85296 ATCGCAA--CGAATTTGGAAT
1 ATCGCAATGCGAACTTGGACT
* *
85315 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAATGCGAACTTGGACT
* *
85338 ATCGCAA--CGAATTTGGAAT
1 ATCGCAATGCGAACTTGGACT
* *
85357 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAATGCGAACTTGGACT
85380 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTGGACT
*
85401 ATCGCAATGCGAA-TATGTA-T
1 ATCGCAATGCGAACT-TGGACT
**
85421 ATCGCAATGCGATAGTCGAATTTGGAAA
1 ATCGCAATGCGA-A--C----TTGGACT
* *
85449 ATCGCAACGCGAACTTTGACT
1 ATCGCAATGCGAACTTGGACT
85470 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTGGACT
85491 ATCG
1 ATCG
85495 TATTGCGATT
Statistics
Matches: 158, Mismatches: 23, Indels: 36
0.73 0.11 0.17
Matches are distributed among these distances:
19 18 0.11
20 14 0.09
21 91 0.58
23 18 0.11
25 1 0.01
27 4 0.03
28 12 0.08
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (21 bp):
ATCGCAATGCGAACTTGGACT
Found at i:85516 original size:90 final size:92
Alignment explanation
Indices: 85345--85527 Score: 273
Period size: 90 Copynumber: 2.0 Consensus size: 92
85335 ACTATCGCAA
85345 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATG
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATG
**
85410 CGAATATGTATATCGCAATGCGATAGT
66 CGAATACATATATCGCAATGCGATAGT
* * *
85437 CGAATTTGG-A-AAATCGCAACGCGAACTTTGACTATCGCAATGCGAACTTGGACTATCGTATTG
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATG
* *
85500 CGATTTACATAT-TCGCATTGCGATAGT
66 CGA-ATACATATATCGCAATGCGATAGT
85527 C
1 C
85528 CAAGTTCGCA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
90 68 0.82
91 6 0.07
92 9 0.11
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (92 bp):
CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATG
CGAATACATATATCGCAATGCGATAGT
Found at i:85586 original size:14 final size:14
Alignment explanation
Indices: 85567--85595 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
85557 TCGCGCGATT
85567 GCATTGCGATAGTC
1 GCATTGCGATAGTC
85581 GCATTGCGATAGTC
1 GCATTGCGATAGTC
85595 G
1 G
85596 AAGTTCGCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (14 bp):
GCATTGCGATAGTC
Found at i:86108 original size:18 final size:18
Alignment explanation
Indices: 86085--86120 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
86075 ACCCGTTGGG
*
86085 GGCATCTTACTACCTTAC
1 GGCATCCTACTACCTTAC
86103 GGCATCCTACTACCTTAC
1 GGCATCCTACTACCTTAC
86121 CTCTTCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.36, G:0.11, T:0.31
Consensus pattern (18 bp):
GGCATCCTACTACCTTAC
Found at i:86635 original size:2 final size:2
Alignment explanation
Indices: 86628--86679 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
86618 GAAACCAGTA
86628 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
86670 AT AT AT AT AT
1 AT AT AT AT AT
86680 CTTCTTTGTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97797 original size:16 final size:16
Alignment explanation
Indices: 97778--97844 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
97768 TGTTATGTTA
97778 AAATTATTTTAAATTT
1 AAATTATTTTAAATTT
97794 AAATTATTTTAAATTT
1 AAATTATTTTAAATTT
* *
97810 AAATTA-CTTGAATTT
1 AAATTATTTTAAATTT
*
97825 GAATTATTTTAAATTT
1 AAATTATTTTAAATTT
97841 AAAT
1 AAAT
97845 GAATTTGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
15 12 0.27
16 32 0.73
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (16 bp):
AAATTATTTTAAATTT
Found at i:104086 original size:16 final size:17
Alignment explanation
Indices: 104048--104083 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
104038 ATCTCATATT
104048 AATAAAAATATAAAATAA
1 AATAAAAATAT-AAATAA
*
104066 AATAAAAATATAATTAA
1 AATAAAAATATAAATAA
104083 A
1 A
104084 TAAGTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAAAAATATAAATAA
Found at i:108176 original size:36 final size:35
Alignment explanation
Indices: 108135--108206 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
108125 AATCTATTTG
* *
108135 ACCAGTGAAAAATGTTCATATTGATAGATAGAAGAA
1 ACCAGTGAAAAATGTTCACATTAATAGATAG-AGAA
** *
108171 ACCAGTGAAATTTTTTCACATTAATAGATAGAGAA
1 ACCAGTGAAAAATGTTCACATTAATAGATAGAGAA
108206 A
1 A
108207 AAACTAGGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
35 5 0.16
36 26 0.84
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.28
Consensus pattern (35 bp):
ACCAGTGAAAAATGTTCACATTAATAGATAGAGAA
Found at i:115147 original size:149 final size:149
Alignment explanation
Indices: 114886--115170 Score: 401
Period size: 149 Copynumber: 1.9 Consensus size: 149
114876 AGTAGCGTCA
* *
114886 AGAGGGAGTCTACCTACCAAGTAGACAAGCCAGACATTTGCCTACTGAGGTAACAAGTTGGACTC
1 AGAGGGAGTCTACCTACCAAGGAGACAAGCCAAACATTTGCCTACTGAGGTAACAAGTTGGACTC
* * ** *
114951 GAGACGATTCGACTCTGAAGCCAACAGTTGAAGATCACGAACCAGCTCGAAGGATTTCTGGAAGT
66 GAGACGATTCGAATCCGAAGCCAACAGTTGAAGATCACGAACCAGCTCGAAAAATTTCTGAAAGT
115016 AGGAGAGGAAGTAGGAGCT
131 AGGAGAGGAAGTAGGAGCT
* * ** * **
115035 AGAGGGAGTCTATCTACCAAGGAGACGATTCAAACATTTGCTTGTTGAGGTAACAAGTTGGACTC
1 AGAGGGAGTCTACCTACCAAGGAGACAAGCCAAACATTTGCCTACTGAGGTAACAAGTTGGACTC
* * *
115100 GAGATGATTC-AATGCCGAAGCCAACAGTTGAAGATCGCGAACTAGCTCGAAAAATTTCTGAAAG
66 GAGACGATTCGAAT-CCGAAGCCAACAGTTGAAGATCACGAACCAGCTCGAAAAATTTCTGAAAG
115164 TAGGAGA
130 TAGGAGA
115171 TAAAGTAGAA
Statistics
Matches: 118, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
148 2 0.02
149 116 0.98
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.21
Consensus pattern (149 bp):
AGAGGGAGTCTACCTACCAAGGAGACAAGCCAAACATTTGCCTACTGAGGTAACAAGTTGGACTC
GAGACGATTCGAATCCGAAGCCAACAGTTGAAGATCACGAACCAGCTCGAAAAATTTCTGAAAGT
AGGAGAGGAAGTAGGAGCT
Found at i:116053 original size:49 final size:49
Alignment explanation
Indices: 115991--116089 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
115981 TTCCCAATCT
*
115991 AATCTTCCCAACAAAGTTCAAAATTCTAGAATTCGAAAAGTATAATGGG
1 AATCCTCCCAACAAAGTTCAAAATTCTAGAATTCGAAAAGTATAATGGG
116040 AATCCTCCCAACAAAGTTCAAAATTCTAGAATTCGAAAAGTATAATGGG
1 AATCCTCCCAACAAAGTTCAAAATTCTAGAATTCGAAAAGTATAATGGG
116089 A
1 A
116090 CCACATGTCC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (49 bp):
AATCCTCCCAACAAAGTTCAAAATTCTAGAATTCGAAAAGTATAATGGG
Found at i:117437 original size:12 final size:12
Alignment explanation
Indices: 117416--117471 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
117406 AATATACGAT
*
117416 ATGAATAGTATC
1 ATGAACAGTATC
*
117428 GTGAACAGTA--
1 ATGAACAGTATC
* *
117438 ATGAGCAGTACC
1 ATGAACAGTATC
117450 ATGAACAGTATC
1 ATGAACAGTATC
*
117462 GTGAACAGTA
1 ATGAACAGTA
117472 ATGAGCAGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
10 8 0.23
12 27 0.77
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (12 bp):
ATGAACAGTATC
Found at i:117460 original size:34 final size:34
Alignment explanation
Indices: 117416--117490 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
117406 AATATACGAT
*
117416 ATGAATAGTATCGTGAACAGTAATGAGCAGTACC
1 ATGAACAGTATCGTGAACAGTAATGAGCAGTACC
117450 ATGAACAGTATCGTGAACAGTAATGAGCAGTACC
1 ATGAACAGTATCGTGAACAGTAATGAGCAGTACC
*
117484 GTGAACA
1 ATGAACA
117491 TTACCGAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (34 bp):
ATGAACAGTATCGTGAACAGTAATGAGCAGTACC
Found at i:118116 original size:22 final size:22
Alignment explanation
Indices: 118091--118151 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
118081 GGCATGTGAA
*
118091 ATTTGTCCCGAAAGACCTATGT
1 ATTTGTCCCGAAGGACCTATGT
*
118113 ATTTGTCCCGAAGGACCTCTGT
1 ATTTGTCCCGAAGGACCTATGT
* *
118135 ATATATCCCGAAGGACC
1 ATTTGTCCCGAAGGACC
118152 GCGTAGACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCTATGT
Found at i:123446 original size:22 final size:22
Alignment explanation
Indices: 123421--123530 Score: 184
Period size: 22 Copynumber: 5.0 Consensus size: 22
123411 AATATACGGT
*
123421 ATGAACAATATCGTGAACAGTA
1 ATGAACAATACCGTGAACAGTA
**
123443 ATGAACAATAATGTGAACAGTA
1 ATGAACAATACCGTGAACAGTA
123465 ATGAACAATACCGTGAACAGTA
1 ATGAACAATACCGTGAACAGTA
*
123487 ATGAACAATACCGTAAACAGTA
1 ATGAACAATACCGTGAACAGTA
123509 ATGAACAATACCGTGAACAGTA
1 ATGAACAATACCGTGAACAGTA
123531 TCGAATGTCA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 82 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (22 bp):
ATGAACAATACCGTGAACAGTA
Found at i:123449 original size:10 final size:10
Alignment explanation
Indices: 123434--123493 Score: 57
Period size: 10 Copynumber: 5.6 Consensus size: 10
123424 AACAATATCG
123434 TGAACAGTAA
1 TGAACAGTAA
*
123444 TGAACAATAA
1 TGAACAGTAA
123454 TGTGAACAGTAA
1 --TGAACAGTAA
* *
123466 TGAACAATACCG
1 TGAACAGTA--A
123478 TGAACAGTAA
1 TGAACAGTAA
123488 TGAACA
1 TGAACA
123494 ATACCGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 23 0.57
12 17 0.43
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (10 bp):
TGAACAGTAA
Found at i:123527 original size:12 final size:12
Alignment explanation
Indices: 123466--123527 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 12
123456 TGAACAGTAA
123466 TGAACAATACCG
1 TGAACAATACCG
* *
123478 TGAACAGTA--A
1 TGAACAATACCG
123488 TGAACAATACCG
1 TGAACAATACCG
* * *
123500 TAAACAGTA--A
1 TGAACAATACCG
123510 TGAACAATACCG
1 TGAACAATACCG
123522 TGAACA
1 TGAACA
123528 GTATCGAATG
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
10 15 0.42
12 21 0.58
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (12 bp):
TGAACAATACCG
Found at i:123600 original size:20 final size:21
Alignment explanation
Indices: 123564--123602 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
123554 TTGCTTCAAG
123564 GGTATCGATACCCCTGCTACA
1 GGTATCGATACCCCTGCTACA
123585 GGTATCGATA-CCCTGCTA
1 GGTATCGATACCCCTGCTA
123603 TAGTACTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (21 bp):
GGTATCGATACCCCTGCTACA
Found at i:124127 original size:17 final size:17
Alignment explanation
Indices: 124105--124156 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
124095 TTCACATTGT
124105 AGAAGAGAAAAAGATGA
1 AGAAGAGAAAAAGATGA
124122 AGAAGA-AAAGAAGATGA
1 AGAAGAGAAA-AAGATGA
* *
124139 AGAAAAGAAGAAGATGA
1 AGAAGAGAAAAAGATGA
124156 A
1 A
124157 TTGTTTGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 3 0.10
17 26 0.84
18 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (17 bp):
AGAAGAGAAAAAGATGA
Found at i:124130 original size:14 final size:14
Alignment explanation
Indices: 124113--124152 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
124103 GTAGAAGAGA
*
124113 AAAAGATGAAGAAG
1 AAAAGAAGAAGAAG
*
124127 AAAAGAAGATGAAG
1 AAAAGAAGAAGAAG
124141 AAAAGAAGAAGA
1 AAAAGAAGAAGA
124153 TGAATTGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.05
Consensus pattern (14 bp):
AAAAGAAGAAGAAG
Found at i:131618 original size:20 final size:21
Alignment explanation
Indices: 131576--131619 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
131566 GTGAATAATA
*
131576 TATCTAAAATATTATTATTTT
1 TATCTAAAATATTAATATTTT
131597 TATCTAAAATATTAAT-TTTT
1 TATCTAAAATATTAATATTTT
131617 TAT
1 TAT
131620 TATTTCTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TATCTAAAATATTAATATTTT
Found at i:132112 original size:23 final size:23
Alignment explanation
Indices: 132069--132112 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
132059 ACAAATTAGA
* **
132069 TAGCTCTTATATAATGTAATATG
1 TAGCGCTTATATAATAAAATATG
132092 TAGCGCTTATATAATAAAATA
1 TAGCGCTTATATAATAAAATA
132113 GGTTAATTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (23 bp):
TAGCGCTTATATAATAAAATATG
Found at i:133132 original size:199 final size:198
Alignment explanation
Indices: 132277--133171 Score: 1037
Period size: 199 Copynumber: 4.5 Consensus size: 198
132267 ATTTCTAACT
* * *
132277 AAACCGATATATTTATACC-GTTAACATTGCAAATGTACCTATTACATTATAATTATCGGTTTCG
1 AAACCGGTATATTTATACCGGTT-ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* * *
132341 ATGTTTTTGGGATCGATACAATTT--TAAATGTATCGAGACTTTATGCGTGTACCTCGTTGGACA
65 ATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACA
* *
132404 TTCATTCTGAAAAA-AGTATCGACACAAACTTAAAACGTGTCGATGCATTAT-TTAGACATATTT
129 TTCATTCTGAAAAATAGTATCGACAC-AATTTAAAACGTGTCGATACATTATGTT-GACATATTT
*
132467 TCTCATA
192 TATCATA
* * * *
132474 AAACTGGTATATTTCTACCAGG-TGCATTGTAAATTTACCTATTACATTTTAATTATCGGTTTCG
1 AAACCGGTATATTTATACC-GGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* * * *
132538 ATATTTTTGGGATCGATACTTTTAATAAATGTATCAACACTTTATGCGTGCACCTCATTTGACAT
65 ATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACAT
* ** ** **
132603 TCACTCTGGACAAAAT-GTATTAACACTTTTTAAATTTGTGTCGATACATTATGTTGACATATTT
130 TCATTCT-GA-AAAATAGTATCGACACAATTTAAA-ACGTGTCGATACATTATGTTGACATATTT
132667 TATCATA
192 TATCATA
* * * *
132674 AAACCGATATATTTATACTGGTTACATTGTAAATTTACTTATTACATTATAATTATCAGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * * *
132739 TGTTTTTGTGATAGATACAATGT--TAAATGTATCGACACTTTACGCGTGCACCTCGTTGGACAT
66 TGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACAT
* ** *
132802 TCATTCTGAAAAAAAGTATCGACACAAACTAAAACGTGTCGA-AC-TTATGTAT-ACATATTTTC
130 TCATTCTGAAAAATAGTATCGACACAATTTAAAACGTGTCGATACATTATGT-TGACATATTTTA
132864 TCATA
194 TCATA
* * * *
132869 AAACCGGTATATTTCTACCGGATACATTGTAAATTTACCTATTACATTGTAATTATTGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* ** *
132934 TGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCATTTCGTTTGACATT
66 TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACATT
** ** * * *
132999 CATTCTGGACAAAATA-TATCGACACTTTTTAAATTTGTGTTGATACATTATGTTGACCTATTCT
131 CATTCT-GA-AAAATAGTATCGACACAATTTAAA-ACGTGTCGATACATTATGTTGACATATTTT
133063 ATCAT-
193 ATCATA
* * * * *
133068 AAACCGGTATATTTATACCGGTTACAATATAACTTTACCTATAACATTATAATTATTGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
133133 TGTTTTTGGGGTCGATACTTTTAGA-AAATGTATCGACAC
66 TGTTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
133172 ATATGTTTAT
Statistics
Matches: 588, Mismatches: 88, Indels: 42
0.82 0.12 0.06
Matches are distributed among these distances:
194 2 0.00
195 93 0.16
196 49 0.08
197 97 0.16
198 67 0.11
199 148 0.25
200 128 0.22
201 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (198 bp):
AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACATT
CATTCTGAAAAATAGTATCGACACAATTTAAAACGTGTCGATACATTATGTTGACATATTTTATC
ATA
Found at i:133164 original size:395 final size:395
Alignment explanation
Indices: 132244--133171 Score: 1339
Period size: 395 Copynumber: 2.3 Consensus size: 395
132234 CGCTTAATAA
* * * *
132244 TGTTGATAGCGTTATATTGACCTATTTCTAAC-TAAACCGATATATTTATACC-GTTAACATTGC
1 TGTTGATA-CATTATGTTGACCTA-TTCTATCATAAACCGATATATTTATACCGGTT-ACATTGT
*
132307 AAATGTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGT
63 AAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-ATTTTAAATGT
* * *
132372 ATCGAGACTTTATGCGTGTACCTCGTTGGACATTCATTCTGAAAAAAGTATCGACACAAACTTAA
127 ATCGACACTTTACGCGTGCACCTCGTTGGACATTCATTCTGAAAAAAGTATCGACACAAACTTAA
* * * *
132437 AACGTGTCGATGCATTATTTAGACATATTTTCTCATAAAACTGGTATATTTCTACCAGGTGCATT
192 AACGTGTCGATACATTATGTAGACATATTTTCTCATAAAACCGGTATATTTCTACCAGGTACATT
* *
132502 GTAAATTTACCTATTACATTTTAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTAATAAA
257 GTAAATTTACCTATTACATTGTAATTATCGGTTTCGATATTTTTGAGATCGATACTTTTAATAAA
* *
132567 TGTATCAACACTTTATGCGTGCACCTCATTTGACATTCACTCTGGACAAAATGTATTAACACTTT
322 TGTATCAACACTTTATGCGTGCACCTCATTTGACATTCACTCTGGACAAAATATATCAACACTTT
132632 TTAAATTTG
387 TTAAATTTG
* * * *
132641 TGTCGATACATTATGTTGACATATTTTATCATAAAACCGATATATTTATACTGGTTACATTGTAA
1 TGTTGATACATTATGTTGACCTATTCTATCAT-AAACCGATATATTTATACCGGTTACATTGTAA
* * * * *
132706 ATTTACTTATTACATTATAATTATCAGTTTCGATGTTTTTGTGATAGATACAATGTTAAATGTAT
65 ATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-ATTTTAAATGTAT
132771 CGACACTTTACGCGTGCACCTCGTTGGACATTCATTCTGAAAAAAAGTATCGACACAAAC-TAAA
129 CGACACTTTACGCGTGCACCTCGTTGGACATTCATTCTG-AAAAAAGTATCGACACAAACTTAAA
*
132835 ACGTGTCGA-AC-TTATGTATACATATTTTCTCATAAAACCGGTATATTTCTACC-GGATACATT
193 ACGTGTCGATACATTATGTAGACATATTTTCTCATAAAACCGGTATATTTCTACCAGG-TACATT
* *
132897 GTAAATTTACCTATTACATTGTAATTATTGGTTTCGATGTTTTTGAGATCGATACTTTTAATAAA
257 GTAAATTTACCTATTACATTGTAATTATCGGTTTCGATATTTTTGAGATCGATACTTTTAATAAA
* ** * * *
132962 TGTATCGACACTTTATGCGTGCATTTCGTTTGACATTCATTCTGGACAAAATATATCGACACTTT
322 TGTATCAACACTTTATGCGTGCACCTCATTTGACATTCACTCTGGACAAAATATATCAACACTTT
133027 TTAAATTTG
387 TTAAATTTG
* * * *
133036 TGTTGATACATTATGTTGACCTATTCTATCATAAACCGGTATATTTATACCGGTTACAATATAAC
1 TGTTGATACATTATGTTGACCTATTCTATCATAAACCGATATATTTATACCGGTTACATTGTAAA
* * *
133101 TTTACCTATAACATTATAATTATTGGTTTCGATGTTTTTGGGGTCGATAC-TTTTAGAAAATGTA
66 TTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACATTTT---AAATGTA
133165 TCGACAC
128 TCGACAC
133172 ATATGTTTAT
Statistics
Matches: 473, Mismatches: 50, Indels: 18
0.87 0.09 0.03
Matches are distributed among these distances:
392 3 0.01
394 73 0.15
395 219 0.46
396 14 0.03
397 141 0.30
398 23 0.05
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (395 bp):
TGTTGATACATTATGTTGACCTATTCTATCATAAACCGATATATTTATACCGGTTACATTGTAAA
TTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACATTTTAAATGTATCG
ACACTTTACGCGTGCACCTCGTTGGACATTCATTCTGAAAAAAGTATCGACACAAACTTAAAACG
TGTCGATACATTATGTAGACATATTTTCTCATAAAACCGGTATATTTCTACCAGGTACATTGTAA
ATTTACCTATTACATTGTAATTATCGGTTTCGATATTTTTGAGATCGATACTTTTAATAAATGTA
TCAACACTTTATGCGTGCACCTCATTTGACATTCACTCTGGACAAAATATATCAACACTTTTTAA
ATTTG
Found at i:133444 original size:21 final size:21
Alignment explanation
Indices: 133415--133470 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
133405 CAGTAAAAAT
* *
133415 TACCAAAAACATTATTATTTC
1 TACCTAAAACATCATTATTTC
133436 TACCTAAAACATCATTATTTC
1 TACCTAAAACATCATTATTTC
133457 TACCTAAAACATCA
1 TACCTAAAACATCA
133471 ATGTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (21 bp):
TACCTAAAACATCATTATTTC
Found at i:134769 original size:12 final size:12
Alignment explanation
Indices: 134754--134837 Score: 69
Period size: 12 Copynumber: 6.7 Consensus size: 12
134744 AATAGTAAGT
134754 AAAATAAATAAA
1 AAAATAAATAAA
*
134766 AAAATAAAGAAA
1 AAAATAAATAAA
* *
134778 AAAAGAAAAAGAA
1 AAAATAAATA-AA
*
134791 GAAAAAAATATAATA
1 -AAAATAA-ATAA-A
*
134806 AAAACAAATAAA
1 AAAATAAATAAA
*
134818 ATAATAAATAAA
1 AAAATAAATAAA
*
134830 AAAGTAAA
1 AAAATAAA
134838 AATAAATATA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
12 36 0.62
13 6 0.10
14 13 0.22
15 3 0.05
ACGTcount: A:0.80, C:0.01, G:0.06, T:0.13
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:134814 original size:15 final size:15
Alignment explanation
Indices: 134792--134874 Score: 66
Period size: 15 Copynumber: 5.5 Consensus size: 15
134782 GAAAAAGAAG
134792 AAAA-AAATATAATA
1 AAAATAAATATAATA
* *
134806 AAAACAAATAAAATA
1 AAAATAAATATAATA
134821 ATAAATAAA-A-AAGTA
1 A-AAATAAATATAA-TA
134836 AAAATAAATATATATA
1 AAAATAAATATA-ATA
* *
134852 TATATATAATA-AATA
1 AAAATA-AATATAATA
134867 AAAATAAA
1 AAAATAAA
134875 AAATAGTATA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
14 15 0.27
15 22 0.39
16 14 0.25
17 5 0.09
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (15 bp):
AAAATAAATATAATA
Found at i:134977 original size:21 final size:22
Alignment explanation
Indices: 134953--134994 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
134943 TAAAAAAATA
134953 AAATATACT-AAA-GTAAAAAAG
1 AAATATA-TAAAATGTAAAAAAG
*
134974 AAATGTATAAAATGTAAAAAA
1 AAATATATAAAATGTAAAAAA
134995 ATATTACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 1 0.06
21 9 0.50
22 8 0.44
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (22 bp):
AAATATATAAAATGTAAAAAAG
Found at i:136231 original size:87 final size:87
Alignment explanation
Indices: 136124--136292 Score: 275
Period size: 87 Copynumber: 1.9 Consensus size: 87
136114 TCTCAAGGGG
* * *
136124 GACAAAGTTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAAGGAAATGTTT
1 GACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAAGGAAATGTTT
136189 TCAATGTTTATGTTTCACGGGA
66 TCAATGTTTATGTTTCACGGGA
* * * *
136211 GACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGGAAATGTTT
1 GACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAAGGAAATGTTT
136276 TCAATGTTTATGTTTCA
66 TCAATGTTTATGTTTCA
136293 AGAGAAACTG
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.34
Consensus pattern (87 bp):
GACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAAGGAAATGTTT
TCAATGTTTATGTTTCACGGGA
Found at i:136737 original size:106 final size:106
Alignment explanation
Indices: 136599--136873 Score: 381
Period size: 106 Copynumber: 2.6 Consensus size: 106
136589 CTGGAACTAA
* ** **
136599 GAAATTATTTGTTGACAGCCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCC
1 GAAATTATTTGTTGACAACCAACCATCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCC
*
136664 AATATCCTTCGATGTGAAGTTGAAATTGGCTCCGAAATTGG
66 AATATCCTTCGATCTGAAGTTGAAATTGGCTCCGAAATTGG
* * *
136705 GAAATTGTTTGTTTACAACCAACCATCCCTTCGTTGTGAAGTTG-GACTTGTGTTTTCTCGAGTC
1 GAAATTATTTGTTGACAACCAACCATCCCTTCGTTGTGAAGTTGAG-CTTGTGTTGTCTCGAGTC
* * *
136769 CAATATCTTTCGCTCTGAAGTTGAAATTGGCTCTGAAATTGG
65 CAATATCCTTCGATCTGAAGTTGAAATTGGCTCCGAAATTGG
** * * *
136811 GAAATTATTTGTTGACAACCAGTCGTCCCTTCGTTGTGGAGTTGAACTTGTGTTGTCTCGAGT
1 GAAATTATTTGTTGACAACCAACCATCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGAGT
136874 GGCACGATAT
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
105 1 0.01
106 146 0.99
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (106 bp):
GAAATTATTTGTTGACAACCAACCATCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCC
AATATCCTTCGATCTGAAGTTGAAATTGGCTCCGAAATTGG
Found at i:138541 original size:69 final size:69
Alignment explanation
Indices: 138426--138563 Score: 179
Period size: 69 Copynumber: 2.0 Consensus size: 69
138416 TGTCTCTCTC
*
138426 TTGATGCTCCATGATATTCGAGTAGAGTGGTGCACTAATTCAGAAATGATTGTGATTGATCAATC
1 TTGATGATCCATGATATTCGAGTAGAGTGGTGCACTAATTCAGAAATGATTGTGATTGATCAATC
138491 TCAT
66 TCAT
* * * * * * * *
138495 TTGATGATCTATGATCTTCGAGT-GAAGTGGTTCAGTGATTCGGAAATGATTGTGCTTGATTAAT
1 TTGATGATCCATGATATTCGAGTAG-AGTGGTGCACTAATTCAGAAATGATTGTGATTGATCAAT
138559 CTCAT
65 CTCAT
138564 AGTTTAAATC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 1 0.02
69 58 0.98
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (69 bp):
TTGATGATCCATGATATTCGAGTAGAGTGGTGCACTAATTCAGAAATGATTGTGATTGATCAATC
TCAT
Found at i:138676 original size:15 final size:16
Alignment explanation
Indices: 138651--138680 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
138641 CTTTTTTTTC
138651 CTTTTTATTCTCTTTG
1 CTTTTTATTCTCTTTG
138667 CTTTTT-TTCTCTTT
1 CTTTTTATTCTCTTT
138681 TTTCTTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.73
Consensus pattern (16 bp):
CTTTTTATTCTCTTTG
Found at i:138685 original size:24 final size:24
Alignment explanation
Indices: 138643--138694 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
138633 CAATTTTCCT
138643 TTTTTTTCCTTTTTATTCTCTTTG
1 TTTTTTTCCTTTTTATTCTCTTTG
*
138667 CTTTTTTT-CTCTTTT-TTCTTTTTG
1 -TTTTTTTCCT-TTTTATTCTCTTTG
138691 TTTT
1 TTTT
138695 GATTGAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 4 0.16
24 10 0.40
25 11 0.44
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTTTTCCTTTTTATTCTCTTTG
Found at i:138687 original size:17 final size:18
Alignment explanation
Indices: 138644--138689 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
138634 AATTTTCCTT
138644 TTTTTTCCTTTTTATTCTC
1 TTTTTT-CTTTTTATTCTC
*
138663 --TTTGCTTTTT-TTCTC
1 TTTTTTCTTTTTATTCTC
138678 TTTTTTCTTTTT
1 TTTTTTCTTTTT
138690 GTTTTGATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 5 0.22
16 6 0.26
17 12 0.52
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTTCTTTTTATTCTC
Found at i:141747 original size:9 final size:9
Alignment explanation
Indices: 141729--141846 Score: 64
Period size: 9 Copynumber: 13.0 Consensus size: 9
141719 AAATAGTACG
*
141729 TAAAATAAA
1 TAAAAAAAA
141738 TAAAAAAAA
1 TAAAAAAAA
*
141747 T-AAAGAAA
1 TAAAAAAAA
141755 TAAAGAAAAA
1 TAAA-AAAAA
* *
141765 GAAGAAAAA
1 TAAAAAAAA
* *
141774 -AATATAAA
1 TAAAAAAAA
*
141782 -AAAACAAA
1 TAAAAAAAA
*
141790 TAAATAAAA
1 TAAAAAAAA
141799 TAAAAAAAA
1 TAAAAAAAA
141808 GTAAAAATAATA
1 -TAAAAA-AA-A
* * *
141820 TATATATATA
1 TA-AAAAAAA
141830 TAAAAAAAA
1 TAAAAAAAA
141839 -AAAAAAAA
1 TAAAAAAAA
141847 AATAGTATAT
Statistics
Matches: 84, Mismatches: 18, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
8 27 0.32
9 34 0.40
10 15 0.18
11 5 0.06
12 3 0.04
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:141755 original size:21 final size:20
Alignment explanation
Indices: 141730--141850 Score: 79
Period size: 21 Copynumber: 6.0 Consensus size: 20
141720 AATAGTACGT
141730 AAAATAAATAAAAAAAATAA
1 AAAATAAATAAAAAAAATAA
* * *
141750 AGAAATAAAGAAAAAGAAGAA
1 A-AAATAAATAAAAAAAATAA
*
141771 AAAA-ATATAAAAAAACA-AA
1 AAAATAAATAAAAAAA-ATAA
*
141790 TAAATAAAATAAAAAAAAGT-A
1 AAAAT-AAATAAAAAAAA-TAA
* * *
141811 AAAATAATATATATATATATAA
1 AAAATAA-ATA-AAAAAAATAA
*
141833 AAAA-AAAAAAAAAAAATA
1 AAAATAAATAAAAAAAATA
141851 GTATATATAT
Statistics
Matches: 76, Mismatches: 16, Indels: 19
0.68 0.14 0.17
Matches are distributed among these distances:
19 19 0.25
20 10 0.13
21 38 0.50
22 9 0.12
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (20 bp):
AAAATAAATAAAAAAAATAA
Found at i:141795 original size:39 final size:41
Alignment explanation
Indices: 141728--141821 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 41
141718 AAAATAGTAC
* *
141728 GTAAAATAAATA-AAAAAAATAAAGAAAT-AAAGAAAAAGAA
1 GTAAAA-AAATATAAAAAAACAAAGAAATAAAAGAAAAAAAA
* *
141768 G-AAAAAAATATAAAAAAACAAATAAATAAAATAAAAAAAA
1 GTAAAAAAATATAAAAAAACAAAGAAATAAAAGAAAAAAAA
141808 GTAAAAATAATATA
1 GTAAAAA-AATATA
141822 TATATATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 5 0.11
39 18 0.39
40 12 0.26
41 5 0.11
42 6 0.13
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (41 bp):
GTAAAAAAATATAAAAAAACAAAGAAATAAAAGAAAAAAAA
Found at i:141804 original size:31 final size:30
Alignment explanation
Indices: 141731--141814 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
141721 ATAGTACGTA
* *
141731 AAAT-AAATAAAAAAAATAAAGAAATAAAG
1 AAATAAAATAAAAAAAATAAAAAAACAAAG
* *
141760 AAA-AAGAAGAAAAAAATATAAAAAAACAAAT
1 AAATAA-AATAAAAAAA-ATAAAAAAACAAAG
141791 AAATAAAATAAAAAAAAGTAAAAA
1 AAATAAAATAAAAAAAA-TAAAAA
141815 TAATATATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
29 4 0.09
30 10 0.22
31 29 0.64
32 2 0.04
ACGTcount: A:0.81, C:0.01, G:0.06, T:0.12
Consensus pattern (30 bp):
AAATAAAATAAAAAAAATAAAAAAACAAAG
Found at i:141823 original size:44 final size:44
Alignment explanation
Indices: 141733--141846 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 44
141723 AGTACGTAAA
*
141733 ATAAATAAAAAAAATAAAGAAATAAAGAAAAAGAAGAAAAAAAT
1 ATAAATAAAAAAAATAAAAAAATAAAGAAAAAGAAGAAAAAAAT
*
141777 ATAAA-AAAACAAATAAATAAAATAAA-AAAAAGTAA-AAATAATATAT
1 ATAAATAAAAAAAATAAA-AAAATAAAGAAAAAG-AAGAAA-AA-A-AT
*
141823 ATATATATAAAAAAAAAAAAAAAA
1 ATA-A-ATAAAAAAAATAAAAAAA
141847 AATAGTATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
43 20 0.34
44 16 0.28
45 1 0.02
46 5 0.09
47 1 0.02
48 5 0.09
49 10 0.17
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (44 bp):
ATAAATAAAAAAAATAAAAAAATAAAGAAAAAGAAGAAAAAAAT
Found at i:141838 original size:34 final size:34
Alignment explanation
Indices: 141793--141865 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
141783 AAACAAATAA
*
141793 ATAAAATAAAAAAAAGTAAAAATAATATATATATAT
1 ATAAAA-AAAAAAAA-AAAAAATAATATATATATAT
*
141829 ATAAAAAAAAAAAAAAAAAATAGTATATATATAT
1 ATAAAAAAAAAAAAAAAAAATAATATATATATAT
141863 ATA
1 ATA
141866 TATAAATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 21 0.60
35 8 0.23
36 6 0.17
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (34 bp):
ATAAAAAAAAAAAAAAAAAATAATATATATATAT
Found at i:143001 original size:84 final size:85
Alignment explanation
Indices: 142892--143049 Score: 219
Period size: 84 Copynumber: 1.9 Consensus size: 85
142882 ACAATTTTAT
* * * * * *
142892 TGACAGATAGCCTTTTTTGCCTTGAGTTATGCTGTAAATGATGTGCCTTAG-AGCTGAGCATAGT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTAGAAGCTGAGCATAAT
142956 CGAACTCGAAGGTCTTTTGG
66 CGAACTCGAAGGTCTTTTGG
* * **
142976 TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTAGAAGCTGAGCATAAT
143041 CGAACTCGA
66 CGAACTCGA
143050 GGGTTTGGTG
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 44 0.70
85 19 0.30
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (85 bp):
TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTAGAAGCTGAGCATAAT
CGAACTCGAAGGTCTTTTGG
Found at i:143128 original size:39 final size:36
Alignment explanation
Indices: 143057--143146 Score: 94
Period size: 39 Copynumber: 2.5 Consensus size: 36
143047 CGAGGGTTTG
* * *
143057 GTGT-TTCAAGAGAAATATTTTCAAAGGTTTTTTGTGT
1 GTGTGTTCAAGAGAAACAATTTCAAAGGGTTTTT-T-T
* *
143094 GTGTGTCTCAAGAGAAACAATTTCGAGGGGTTTTTTT
1 GTGTGT-TCAAGAGAAACAATTTCAAAGGGTTTTTTT
143131 GTGT-TTCAAGAGAAAC
1 GTGTGTTCAAGAGAAAC
143147 TGTCTCAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
35 11 0.24
36 1 0.02
37 9 0.20
38 2 0.04
39 23 0.50
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (36 bp):
GTGTGTTCAAGAGAAACAATTTCAAAGGGTTTTTTT
Found at i:143203 original size:36 final size:36
Alignment explanation
Indices: 143132--143328 Score: 196
Period size: 36 Copynumber: 5.6 Consensus size: 36
143122 GGTTTTTTTG
* *
143132 TGTTTCAAGAGAAACTGTCTCAATA-AGGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGA-GACAAAATT
** * *
143168 TGTTTCAAAAGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * *
143204 TGTTTCAA-GGAAAATATATTC-A-A-AG----ATTT
1 TGTTTCAAGGGAAACTGT-CTCAAGAGAGACAAAATT
143233 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
143269 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AATT
*
143306 TGTTTCAAGGGAAACTCTCTCAA
1 TGTTTCAAGGGAAACTGTCTCAA
143329 AACTCATTTT
Statistics
Matches: 134, Mismatches: 16, Indels: 21
0.78 0.09 0.12
Matches are distributed among these distances:
29 13 0.10
30 8 0.06
31 1 0.01
32 2 0.01
33 2 0.01
35 7 0.05
36 75 0.56
37 26 0.19
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:143346 original size:101 final size:101
Alignment explanation
Indices: 143132--143315 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 101
143122 GGTTTTTTTG
* * *
143132 TGTTTCAAGAGAAACTGTCTCAATAAGGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGGGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAAGGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGAGAGA
* **
143197 CGAAATTTGTTTCAAGGAAAATATATTCAAAGATTT
66 CGAAATTTGTTTCAAGGAAAATATACTCAAAGATCA
**
143233 TGTTTCAAGGGAAACTGTCTCAAG-AGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAAG-GACAAAATTTGTTTCAAAAGAAACTGTCTCAAGAGAG
143297 AC-AAGATTTTGTTTCAAGG
65 ACGAA-A-TTTGTTTCAAGG
143316 GAAACTCTCT
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 4 0.05
101 59 0.79
102 12 0.16
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (101 bp):
TGTTTCAAGGGAAACTGTCTCAAGAAGGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGAGAGA
CGAAATTTGTTTCAAGGAAAATATACTCAAAGATCA
Found at i:143494 original size:102 final size:102
Alignment explanation
Indices: 143366--143605 Score: 338
Period size: 102 Copynumber: 2.4 Consensus size: 102
143356 ATATTTTGTG
* *
143366 TTTCAAGGGAAACGTTTTCAAG-GTTTATGTTTCAATAAAAACTATCTAAAGGGAGACAAAATTT
1 TTTCAAGGGAAATGTTTTC-AGTGTTTATGTTTCAAGAAAAACTATCTAAAGGGAGACAAAATTT
* *
143430 TGTTCCAAGGGAAACTATCTCAAGAGAGATAAAATTAA
65 TGTTCCAAGGGAAACTACCCCAAGAGAGATAAAATTAA
* * * * * *
143468 TTTCAAAGGAAATGTTTTCAGTGTTTATGTTTCAAGAGAAACTGTCTCAAGGGGGACAAAGTTTT
1 TTTCAAGGGAAATGTTTTCAGTGTTTATGTTTCAAGAAAAACTATCTAAAGGGAGACAAAATTTT
* * *
143533 GTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTA
66 GTTCCAAGGGAAACTACCCCAAGAGAGATAAAATTAA
*
143570 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
1 TTTCAAGGGAAATGTTTTCAGTGTTTATGTTTCAAG
143606 GGAGACAAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
101 2 0.02
102 120 0.98
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAGTGTTTATGTTTCAAGAAAAACTATCTAAAGGGAGACAAAATTTT
GTTCCAAGGGAAACTACCCCAAGAGAGATAAAATTAA
Found at i:143605 original size:87 final size:87
Alignment explanation
Indices: 143514--143692 Score: 304
Period size: 87 Copynumber: 2.1 Consensus size: 87
143504 AGAAACTGTC
* * *
143514 TCAAGGGGGACAAAGTTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGG
1 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
143579 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
* * *
143601 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
143666 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
143688 TCAAG
1 TCAAG
143693 AGAAACTGTC
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (87 bp):
TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
AAATGTTTTCAATGTTTATGTT
Done.