Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003525.1 Hibiscus syriacus cultivar Beakdansim tig00007447_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: 193724
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
File 1 of 2
Found at i:3144 original size:31 final size:31
Alignment explanation
Indices: 3092--3150 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
3082 CGCAGAGTGA
*
3092 GAAAATGGCAGAGAGAGAAAGAGAAGAGTAC
1 GAAAATGGCAGAGAGAGAAAGAAAAGAGTAC
* *
3123 GAAAATGGTAGAGTGCA-AAAGAAAAGAG
1 GAAAATGGCAGAGAG-AGAAAGAAAAGAG
3151 AGACTTACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.96
32 1 0.04
ACGTcount: A:0.53, C:0.05, G:0.34, T:0.08
Consensus pattern (31 bp):
GAAAATGGCAGAGAGAGAAAGAAAAGAGTAC
Found at i:3968 original size:112 final size:111
Alignment explanation
Indices: 3850--4052 Score: 318
Period size: 112 Copynumber: 1.8 Consensus size: 111
3840 TTTTAAAAGT
* *
3850 ATACATTTAATGGGATAGATG-AAATACTTGTGATTATAATTTATGAAAAATATTATTTTTTATG
1 ATACATTTAATAGGATAGA-GAAAATACTTGTGATTATAATTTATGAAAAATATTA-TTTTCATG
*
3914 ATTTTTAATGTATTATTAAATTTATTTAACTTTAAAAGTCAATAATAG
64 ATTTTTAATGTATTATCAAATTTATTTAACTTTAAAAGTCAATAATAG
* * *
3962 ATACATTTAGTAGGATAGAGAAAATATTTGTGATTATAATTTATGAAAAATATTATTTTCCTGAT
1 ATACATTTAATAGGATAGAGAAAATACTTGTGATTATAATTTATGAAAAATATTATTTTCATGAT
*
4027 TTTTAATTTATTATCAAATTTATTTA
66 TTTTAATGTATTATCAAATTTATTTA
4053 TGTAAGGTTA
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
111 33 0.40
112 50 0.60
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.46
Consensus pattern (111 bp):
ATACATTTAATAGGATAGAGAAAATACTTGTGATTATAATTTATGAAAAATATTATTTTCATGAT
TTTTAATGTATTATCAAATTTATTTAACTTTAAAAGTCAATAATAG
Found at i:11565 original size:67 final size:67
Alignment explanation
Indices: 11400--11566 Score: 221
Period size: 66 Copynumber: 2.5 Consensus size: 67
11390 AGGGATAATT
* *
11400 TGTTTCAAGAGAAACTGTCTCAATAGAGACAAAACTTGTTTCAAGGGAAATAATCTCAAAATTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAATCTCAAAATTTT
*
11465 CC
66 CA
* * * * *
11467 T-TTTCAAGAGAAACTGTCTAAAGACAGACAAAATTTGTTTCAAGGGAAACAATTTCAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAATCTCAAA-ATTT
11531 T-A
65 TCA
* *
11533 TGTTTCAATAGAAATTGTCTCAAGAGAGACAAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
11567 AAAATTTATT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
66 53 0.62
67 33 0.38
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAATCTCAAAATTTT
CA
Found at i:11772 original size:99 final size:101
Alignment explanation
Indices: 11578--11764 Score: 240
Period size: 104 Copynumber: 1.8 Consensus size: 101
11568 AAATTTATTC
*
11578 AAGAGAAATTGTCTCAACTGAGACAAAACGTTTTTTCTAGAGAAACAATCTCAATGGTTTATCAA
1 AAGAAAAATTGTCTCAACTGAGACAAAAC-TTTTTTCTAGAGAAACAATCTCAATGG--TATCAA
* *
11643 TTTTGTTTCCAGTGAAACAACTTCAGAATTTGTGTTTTA
63 TTTTGTTTCAAGTAAAACAACTTCAGAATTTGTGTTTTA
* *
11682 AAGAAAAATTGTCTCAAGTGAGACAAAA-TTTGTTT-T-GAG-AACAATCTCAAGTGAG-ATTAA
1 AAGAAAAATTGTCTCAACTGAGACAAAACTTT-TTTCTAGAGAAACAATCTCAA-TG-GTATCAA
11742 TTTTGTTTCAAGTAAAACAACTT
63 TTTTGTTTCAAGTAAAACAACTT
11765 TGAAATTTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
99 25 0.33
100 11 0.15
101 5 0.07
102 5 0.07
103 3 0.04
104 26 0.35
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (101 bp):
AAGAAAAATTGTCTCAACTGAGACAAAACTTTTTTCTAGAGAAACAATCTCAATGGTATCAATTT
TGTTTCAAGTAAAACAACTTCAGAATTTGTGTTTTA
Found at i:11934 original size:36 final size:36
Alignment explanation
Indices: 11889--12034 Score: 141
Period size: 37 Copynumber: 4.0 Consensus size: 36
11879 AAAGGAAAAA
* *
11889 TGTCTCAAGCGAGACGAAATTTGTTTTGAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
* *
11925 TGTCTCAAGCAAGACAAAATTTGTTTTTAGAGAAAACT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAG-AAA-T
* * *
11963 T-TCTCAAGCGAGACAAAATTTATTTTTAAGAAAAAC
1 TGTCTCAAGCGAGACAAAATTT-GTTTTAAGAGAAAT
* * * * *
11999 TATCTCTAGCGAGACGACACTTTGTTTCAAGAGAAA
1 TGTCTCAAGCGAGAC-AAAATTTGTTTTAAGAGAAA
12035 CAATCTCAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
36 30 0.33
37 47 0.52
38 14 0.15
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
Found at i:11977 original size:37 final size:37
Alignment explanation
Indices: 11891--12013 Score: 153
Period size: 37 Copynumber: 3.4 Consensus size: 37
11881 AGGAAAAATG
* *
11891 TCTCAAGCGAGACGAAATTTGTTTTGAGAG-AAA-TT
1 TCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAACTT
*
11926 GTCTCAAGCAAGACAAAATTTGTTTTTAGAGAAAACTT
1 -TCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAACTT
* *
11964 TCTCAAGCGAGACAAAATTTATTTTTA-AGAAAAACTA
1 TCTCAAGCGAGACAAAATTTGTTTTTAGAG-AAAACTT
*
12001 TCTCTAGCGAGAC
1 TCTCAAGCGAGAC
12014 GACACTTTGT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
36 29 0.38
37 46 0.60
38 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (37 bp):
TCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAACTT
Found at i:13538 original size:2 final size:2
Alignment explanation
Indices: 13533--13561 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13523 TGTGTGTGTG
13533 TA TA 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 TA TA T
13562 TCTGGGTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17349 original size:23 final size:23
Alignment explanation
Indices: 17323--17386 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
17313 CAGCTCATAT
17323 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
17346 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
17369 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
17387 TATAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:17573 original size:103 final size:103
Alignment explanation
Indices: 17402--17722 Score: 552
Period size: 103 Copynumber: 3.1 Consensus size: 103
17392 TAATGTCCAT
* * *
17402 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
* **
17467 GACTTCACACATATTCCAAAGAATACATATATGTCCTT
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
17505 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATATGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
17570 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
17608 AAGGACCACATATCATTCATTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
17673 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
17711 AAGGACCACATA
1 AAGGACCACATA
17723 GACCCTCGAC
Statistics
Matches: 206, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 206 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:18564 original size:64 final size:62
Alignment explanation
Indices: 18459--18578 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 62
18449 TAATGAAGGT
* * *
18459 ATGCATCGATGCATTACTGATGCATCGGTGCATAAAATGCATTCGATGTTTATTTATTACTGGG
1 ATGCATCGATGCACTACTGATGCATCGATGCACAAAATGCATTCGATG--TATTTATTACTGGG
* * *
18523 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTATTTATT
1 ATGCATCGATGCACTACTGATGCATCGATGCACAAAATGCATTCGATGTATTTATT
18579 TTAAAAGAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
62 8 0.16
64 42 0.84
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (62 bp):
ATGCATCGATGCACTACTGATGCATCGATGCACAAAATGCATTCGATGTATTTATTACTGGG
Found at i:28468 original size:21 final size:21
Alignment explanation
Indices: 28442--28481 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
28432 CGAAACATCA
28442 TTCGTGTTCAGTAAAAAACAT
1 TTCGTGTTCAGTAAAAAACAT
28463 TTCGTGTTCAGTAAAAAAC
1 TTCGTGTTCAGTAAAAAAC
28482 TAATTGCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
TTCGTGTTCAGTAAAAAACAT
Found at i:29289 original size:83 final size:82
Alignment explanation
Indices: 29190--29416 Score: 240
Period size: 83 Copynumber: 2.7 Consensus size: 82
29180 ACTATATGTG
* * *
29190 TAATATATTGCGGCGTTTTTTGTCAAAACGCCGCCAATTTACCGCTCTATTGCGGCGTTTTGACT
1 TAATCTATTGAGGCGTTTTTTGT-AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTGACT
*
29255 CAATCGCCACAAAATTTA
65 AAATCGCCACAAAATTTA
* * * * * * * * *
29273 TACTCTATTGTGGCGTTTGTGGTAAAAACGCTGCCAGTTTACCACTATATTGCAGCGTTTTGGCT
1 TAATCTATTGAGGCGTTTTTTGT-AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTGACT
*
29338 AAATCGCCGCAAAATTTA
65 AAATCGCCACAAAATTTA
* * * * *
29356 TAATCTATTGAAGCG-TTTGTGATATAAACGCCGCTAATTTAGCACCCTATTGCGGCGTTTT
1 TAATCTATTGAGGCGTTTTTTG-TA-AAACGCCGCCAATTTACCACTCTATTGCGGCGTTTT
29417 TAGAAAAACG
Statistics
Matches: 115, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
82 4 0.03
83 111 0.97
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (82 bp):
TAATCTATTGAGGCGTTTTTTGTAAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTGACTA
AATCGCCACAAAATTTA
Found at i:29429 original size:83 final size:83
Alignment explanation
Indices: 29214--29472 Score: 236
Period size: 83 Copynumber: 3.1 Consensus size: 83
29204 GTTTTTTGTC
* * * * * *
29214 AAAACGCCGCCAATTTACCGCTCTATTGCGGCGTTTTGACTCAATCGCCACAAAATTTATACTCT
1 AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTTAGTAAATCGCCGCAAAATTTATAATCT
** *
29279 ATTGTGGCGTTTGTGGTA
66 ATTGAAGCGTTTGTGATA
* * * * *
29297 AAAACGCTGCCAGTTTACCACTATATTGCAGCG-TTTTGGCTAAATCGCCGCAAAATTTATAATC
1 AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTTAG-TAAATCGCCGCAAAATTTATAATC
29361 TATTGAAGCGTTTGTGATA
65 TATTGAAGCGTTTGTGATA
* * * * * * * * * *
29380 TAAACGCCGCTAATTTAGCACCCTATTGCGGCGTTTTTAGAAAAACGCCGTAATATGTA-AATTA
1 AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTTAGTAAATCGCCGCAAAATTTATAA-TC
* *
29444 TATTGCAGCGTTT-TTACTA
65 TATTGAAGCGTTTGTGA-TA
29463 AAAACGCCGC
1 AAAACGCCGC
29473 TAAAGTATCA
Statistics
Matches: 140, Mismatches: 32, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
82 7 0.05
83 128 0.91
84 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (83 bp):
AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTTAGTAAATCGCCGCAAAATTTATAATCT
ATTGAAGCGTTTGTGATA
Found at i:30486 original size:2 final size:2
Alignment explanation
Indices: 30479--30554 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
30469 CATGTAAACC
30479 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
30521 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
30555 CATAAAACGC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30846 original size:23 final size:23
Alignment explanation
Indices: 30820--30883 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
30810 CATCTCATAT
30820 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
30843 AATTGCACCGGAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
30866 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
30884 TATAATAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:31070 original size:103 final size:103
Alignment explanation
Indices: 30899--31219 Score: 597
Period size: 103 Copynumber: 3.1 Consensus size: 103
30889 TAATGTCTAT
* *
30899 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCAAAGGATCAAGTATGTGTCTCACCA
30964 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
31002 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCAAAAGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCAAAGGATCAAGTATGTGTCTCACCA
31067 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
31105 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCAAAGGATCAAGTATGTGTCTCACCA
*
31170 GACTTCACACATGTTCCAAAGAATACATATATGTTCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
31208 AAGGACCACATA
1 AAGGACCACATA
31220 GACCCTCGAC
Statistics
Matches: 212, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 212 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCAAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:32089 original size:64 final size:64
Alignment explanation
Indices: 31956--32112 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 64
31946 TAATGAAGGT
* * * ** *
31956 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTTGTTTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAAATGCATTCGATGTTTGTTTATTAAAGAG
* *
32020 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTATT-TATT-TTAAA-A
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAAATGCATTCGATGT-TTGT-TTATTAAAGA
32082 G
64 G
* * *
32083 AGTGCATCGATGCACTTCCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
32113 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
63 2 0.03
64 73 0.92
65 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAAATGCATTCGATGTTTGTTTATTAAAGAG
Found at i:34218 original size:14 final size:13
Alignment explanation
Indices: 34199--34238 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
34189 AAATAACATG
34199 AAAATAAAATAATA
1 AAAATAAAA-AATA
34213 AAAAT-AAAAATA
1 AAAATAAAAAATA
34225 AATAATAAAAAATA
1 AA-AATAAAAAATA
34239 TTATTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
14 12 0.50
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:34228 original size:16 final size:15
Alignment explanation
Indices: 34187--34238 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
34177 CAACATTAAC
*
34187 TAAAATAACATGAAAA
1 TAAAATAA-ATAAAAA
34203 TAAAAT-AATAAAAA
1 TAAAATAAATAAAAA
*
34217 TAAAAATAAATAATAA
1 T-AAAATAAATAAAAA
34233 -AAAATA
1 TAAAATA
34239 TTATTTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 13 0.41
15 6 0.19
16 13 0.41
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
TAAAATAAATAAAAA
Found at i:34238 original size:20 final size:20
Alignment explanation
Indices: 34199--34235 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
34189 AAATAACATG
34199 AAAATAAAATAATAAAAATA
1 AAAATAAAATAATAAAAATA
34219 AAAAT-AAATAATAAAAA
1 AAAATAAAATAATAAAAA
34236 ATATTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAATAAAATAATAAAAATA
Found at i:37132 original size:31 final size:31
Alignment explanation
Indices: 37062--37135 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
37052 TAAAAAACAC
*
37062 AAGTTTTGCTCACTTACATTATCATTTTATT
1 AAGTTTTGGTCACTTACATTATCATTTTATT
* * **
37093 AGGTTTTGGTCACTTACGTTATTGTTTTATT
1 AAGTTTTGGTCACTTACATTATCATTTTATT
37124 AAGTTTTGGTCA
1 AAGTTTTGGTCA
37136 TTTGGACGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (31 bp):
AAGTTTTGGTCACTTACATTATCATTTTATT
Found at i:41361 original size:19 final size:19
Alignment explanation
Indices: 41334--41370 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
41324 CACTTCGGTG
*
41334 AGACTGAAACCTCAAAGAA
1 AGACGGAAACCTCAAAGAA
*
41353 AGACGGAAACCTTAAAGA
1 AGACGGAAACCTCAAAGA
41371 TCATCAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.19, G:0.19, T:0.11
Consensus pattern (19 bp):
AGACGGAAACCTCAAAGAA
Found at i:44861 original size:31 final size:32
Alignment explanation
Indices: 44826--44910 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 32
44816 TTTTCCCATT
44826 AACTTTAATTTGTGTATCAATTTTAT-CACTA
1 AACTTTAATTTGTGTATCAATTTTATGCACTA
**
44857 AACTTTAAAATGCT-TA--AATTTTATGCACTA
1 AACTTTAATTTG-TGTATCAATTTTATGCACTA
* *
44887 AAATCTAATTT-TAGTATCAATTTT
1 AACTTTAATTTGT-GTATCAATTTT
44911 GTTCATACGA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
28 1 0.02
29 8 0.19
30 14 0.33
31 12 0.29
32 7 0.17
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (32 bp):
AACTTTAATTTGTGTATCAATTTTATGCACTA
Found at i:51182 original size:6 final size:6
Alignment explanation
Indices: 51173--51224 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
51163 AAGGATAAAG
* * * *
51173 AAAAAT AAAAAT GAAAAT AAAAAT -ATAAG AAAAAT AAAAAT GAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
51220 AAAAA
1 AAAAA
51225 GAATAAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 3 0.08
6 34 0.92
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:51189 original size:29 final size:30
Alignment explanation
Indices: 51147--51224 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
51137 TAATTAAACT
* * **
51147 AATATAAAGGAAAAATAAGGATA-AAGAAA
1 AATAAAAATGAAAAATAAAAATATAAGAAA
51176 AATAAAAATG-AAAATAAAAATATAAGAAA
1 AATAAAAATGAAAAATAAAAATATAAGAAA
51205 AATAAAAATG-AAAATAAAAA
1 AATAAAAATGAAAAATAAAAA
51225 GAATAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 10 0.23
29 34 0.77
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (30 bp):
AATAAAAATGAAAAATAAAAATATAAGAAA
Found at i:51211 original size:16 final size:16
Alignment explanation
Indices: 51156--51211 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
51146 TAATATAAAG
*
51156 GAAAAATAAGGATA-AA
1 GAAAAATAA-AATATAA
51172 GAAAAATAAAA-AT--
1 GAAAAATAAAATATAA
51185 G-AAAATAAAAATATAA
1 GAAAAAT-AAAATATAA
51201 GAAAAATAAAA
1 GAAAAATAAAA
51212 ATGAAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
12 5 0.15
13 5 0.15
14 3 0.09
15 1 0.03
16 14 0.42
17 5 0.15
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (16 bp):
GAAAAATAAAATATAA
Found at i:51234 original size:29 final size:29
Alignment explanation
Indices: 51170--51234 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 29
51160 AATAAGGATA
*
51170 AAGAAAAATAAAAATGAAAATAAAAATAT
1 AAGAAAAATAAAAATGAAAATAAAAAAAT
51199 AAGAAAAATAAAAATGAAAATAAAAAGAAT
1 AAGAAAAATAAAAATGAAAATAAAAA-AAT
51229 AA-AAAA
1 AAGAAAA
51235 GAAGATAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (29 bp):
AAGAAAAATAAAAATGAAAATAAAAAAAT
Found at i:51242 original size:21 final size:21
Alignment explanation
Indices: 51179--51242 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
51169 AAAGAAAAAT
51179 AAAAATGAAAATAA-AAATATAAG
1 AAAAAT-AAAA-AAGAAA-ATAAG
*
51202 AAAAATAAAAATGAAAATAA-
1 AAAAATAAAAAAGAAAATAAG
*
51222 AAAGAATAAAAAAGAAGATAA
1 AAA-AATAAAAAAGAAAATAA
51243 TAGTAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.08
21 20 0.56
22 7 0.19
23 6 0.17
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAAAGAAAATAAG
Found at i:59342 original size:17 final size:18
Alignment explanation
Indices: 59311--59349 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
59301 ATACGAATGT
59311 AAAAACATGGAAAATATAA
1 AAAAACATGGAAAATA-AA
59330 AAAAACAT-G-AAATAAA
1 AAAAACATGGAAAATAAA
59346 AAAA
1 AAAA
59350 TGCAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 5 0.25
18 1 0.05
19 8 0.40
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (18 bp):
AAAAACATGGAAAATAAA
Found at i:62615 original size:21 final size:20
Alignment explanation
Indices: 62584--62637 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 20
62574 AAAGAAAAAC
*
62584 AAAAATGAAAATAAAATATAA
1 AAAAATAAAAATAAAATA-AA
62605 GAAAAATAAAAAATAAAATAAA
1 -AAAAAT-AAAAATAAAATAAA
*
62627 AAGAATAAAAA
1 AAAAATAAAAA
62638 GGAAGATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 5 0.17
21 5 0.17
22 8 0.28
23 11 0.38
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.15
Consensus pattern (20 bp):
AAAAATAAAAATAAAATAAA
Found at i:68257 original size:9 final size:9
Alignment explanation
Indices: 68229--68273 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
68219 AATATGTTAG
68229 ATAAA-AAA
1 ATAAATAAA
68237 AT-AATAATA
1 ATAAATAA-A
68246 ATAAATAAA
1 ATAAATAAA
68255 ATAAATAAA
1 ATAAATAAA
68264 ATAAATAAA
1 ATAAATAAA
68273 A
1 A
68274 GAGGTCTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 2 0.06
8 4 0.12
9 23 0.68
10 5 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
ATAAATAAA
Found at i:68394 original size:25 final size:21
Alignment explanation
Indices: 68333--68384 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
68323 TTAAAAGGAT
68333 AAAACAAAAGAAATAATTAAA
1 AAAACAAAAGAAATAATTAAA
*
68354 AAATCAAAAGAAATAATTAAAA
1 AAAACAAAAGAAATAATT-AAA
68376 AAAACAAAA
1 AAAACAAAA
68385 ACGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.13
Consensus pattern (21 bp):
AAAACAAAAGAAATAATTAAA
Found at i:68532 original size:26 final size:26
Alignment explanation
Indices: 68503--68562 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
68493 AAACGCCCAA
68503 GAAGAACAAAGAGCTACAAAGAAAGT
1 GAAGAACAAAGAGCTACAAAGAAAGT
68529 GAAGAACAAAGAGCTACAAAGAAAGT
1 GAAGAACAAAGAGCTACAAAGAAAGT
68555 -AAGGAACA
1 GAA-GAACA
68563 GAGAAACAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 2 0.06
26 31 0.94
ACGTcount: A:0.58, C:0.12, G:0.23, T:0.07
Consensus pattern (26 bp):
GAAGAACAAAGAGCTACAAAGAAAGT
Found at i:71958 original size:22 final size:23
Alignment explanation
Indices: 71918--71970 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
71908 TATTTTAATC
71918 ATTGTTTATTTATAGTTTAATT-TT
1 ATTGTTTA--TATAGTTTAATTATT
71942 ATATGTTTATATA-TTTAATTATT
1 AT-TGTTTATATAGTTTAATTATT
71965 ATTGTT
1 ATTGTT
71971 ATTATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 11 0.41
23 8 0.30
24 2 0.07
25 6 0.22
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (23 bp):
ATTGTTTATATAGTTTAATTATT
Found at i:72063 original size:37 final size:35
Alignment explanation
Indices: 72008--72100 Score: 100
Period size: 35 Copynumber: 2.6 Consensus size: 35
71998 ATAAAATAAA
* *
72008 TAATATTTATTTATTTTTTTAAATAAAAATTATATTT
1 TAATATTTAATTA-TTTTTTAAA-AAAAATCATATTT
*
72045 ATAA-ATTTAAATTA-TTTTTAAAATAAATCATATTT
1 -TAATATTT-AATTATTTTTTAAAAAAAATCATATTT
*
72080 TAATATTTATTTATTTTTTAA
1 TAATATTTAATTATTTTTTAA
72101 TATTAAGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
34 7 0.15
35 22 0.46
36 8 0.17
37 4 0.08
38 7 0.15
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (35 bp):
TAATATTTAATTATTTTTTAAAAAAAATCATATTT
Found at i:72080 original size:17 final size:18
Alignment explanation
Indices: 72024--72082 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
72014 TTATTTATTT
*
72024 TTTTAAATAAAAATTATA
1 TTTTAAATATAAATTATA
*
72042 TTTATAAATTTAAATTAT-
1 TTT-TAAATATAAATTATA
*
72060 TTTTAAA-ATAAATCATA
1 TTTTAAATATAAATTATA
72077 TTTTAA
1 TTTTAA
72083 TATTTATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 7 0.20
17 10 0.29
18 6 0.17
19 12 0.34
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTAAATATAAATTATA
Found at i:72867 original size:24 final size:24
Alignment explanation
Indices: 72840--72904 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
72830 AATTTTTATA
72840 TATACTTATTATTTTCA-TAATATT
1 TATA-TTATTATTTTCATTAATATT
*
72864 TATATATATTATTTTTTATTAATATT
1 TATAT-TATTA-TTTTCATTAATATT
*
72890 TTTATT-TTATTTTCA
1 TATATTATTATTTTCA
72905 AGTATTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 6 0.17
24 12 0.34
25 6 0.17
26 11 0.31
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (24 bp):
TATATTATTATTTTCATTAATATT
Found at i:72880 original size:26 final size:26
Alignment explanation
Indices: 72824--72902 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 26
72814 AATTCTTTCC
* *
72824 TTTCAAAATTTTTATATATACTTATTAT
1 TTTCATAATATTTATATATA-TTATT-T
72852 TTTCATAATATTTATATATATTATTT
1 TTTCATAATATTTATATATATTATTT
*
72878 TTT-ATTAATATTT-T-TATTTTATTT
1 TTTCA-TAATATTTATATATATTATTT
72902 T
1 T
72903 CAAGTATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.21
25 2 0.04
26 12 0.26
27 5 0.11
28 18 0.38
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTCATAATATTTATATATATTATTT
Found at i:72893 original size:28 final size:30
Alignment explanation
Indices: 72824--72894 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 30
72814 AATTCTTTCC
72824 TTTCA-AA-ATTTTTATATATACTTATTAT
1 TTTCATAATATTTTTATATATACTTATTAT
72852 TTTCATAATA--TTTATATATA-TTATT-T
1 TTTCATAATATTTTTATATATACTTATTAT
72878 TTT-ATTAATATTTTTAT
1 TTTCA-TAATATTTTTAT
72895 TTTATTTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
25 1 0.03
26 9 0.24
27 5 0.13
28 20 0.53
29 2 0.05
30 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTCATAATATTTTTATATATACTTATTAT
Found at i:77653 original size:5 final size:5
Alignment explanation
Indices: 77643--77695 Score: 74
Period size: 5 Copynumber: 10.6 Consensus size: 5
77633 ACTCATTCAT
77643 CAAAA CAAAA CAAAA CAAAA -AAAA CAAAAA CAAAA CAAAA -AAAA CAACAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA C-AAAA CAAAA CAAAA CAAAA CAA-AA
77693 CAA
1 CAA
77696 CAAAAAAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.18
5 26 0.59
6 10 0.23
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:77671 original size:6 final size:6
Alignment explanation
Indices: 77644--77701 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
77634 CTCATTCATC
*
77644 AAAAC- AAAACAA AACAAAA AAAACA AAAAC- AAAACA AAAA-A AACAACA
1 AAAACA AAAAC-A AA-AACA AAAACA AAAACA AAAACA AAAACA AA-AACA
*
77692 ACAACA AAAA
1 AAAACA AAAA
77702 AAAGGAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
5 13 0.30
6 21 0.49
7 7 0.16
8 2 0.05
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:77672 original size:15 final size:15
Alignment explanation
Indices: 77643--77701 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
77633 ACTCATTCAT
77643 CAAAACAAAAC-AAAA
1 CAAAA-AAAACAAAAA
77658 CAAAAAAAACAAAAA
1 CAAAAAAAACAAAAA
*
77673 CAAAACAAA-AAAAA
1 CAAAAAAAACAAAAA
* *
77687 CAACAACAACAAAAA
1 CAAAAAAAACAAAAA
77702 AAAGGAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 16 0.42
15 22 0.58
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAAAAAAACAAAAA
Found at i:77674 original size:20 final size:20
Alignment explanation
Indices: 77644--77704 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
77634 CTCATTCATC
77644 AAAAC-AAAACAAAACAAAA
1 AAAACAAAAACAAAACAAAA
77663 AAAACAAAAACAAAACAAAA
1 AAAACAAAAACAAAACAAAA
*
77683 AAAACAACAAC--AACAAAA
1 AAAACAAAAACAAAACAAAA
77701 AAAA
1 AAAA
77705 GGAAAAAGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
18 11 0.28
19 5 0.12
20 24 0.60
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAACAAAAACAAAACAAAA
Found at i:80955 original size:75 final size:74
Alignment explanation
Indices: 80845--81029 Score: 180
Period size: 75 Copynumber: 2.5 Consensus size: 74
80835 ATACTGGGGT
** * * *
80845 ATGCTGAAAATCCATTTCAATCA-TAATCAGGAATATTGACACATTTTGAATGTTCACGTCA-A-
1 ATGCTGAAAGCCCATTTCAATCAGAAAT-TGGAATATTGACACATTTTGAACG-TC-CGT-ATAG
* *
80907 CAAATGT-TGGGGC
62 AAAAT-TATAGGGC
* * * * *
80920 ATGTTGAAAGCCTATTTCAATCAGAAATTGGAATATTGTCGCATTTTGAACGTCTGTATTAGAAA
1 ATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGACACATTTTGAACGTCCGTA-TAGAAA
80985 ATTATAGGGC
65 ATTATAGGGC
80995 ATGCTGAAAGCCCATTTCAATCAGAAATTGGAATA
1 ATGCTGAAAGCCCATTTCAATCAGAAATTGGAATA
81030 ACATTTTGAA
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
72 1 0.01
73 2 0.02
74 4 0.04
75 81 0.89
76 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (74 bp):
ATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGACACATTTTGAACGTCCGTATAGAAAA
TTATAGGGC
Found at i:81072 original size:70 final size:71
Alignment explanation
Indices: 80908--81078 Score: 193
Period size: 75 Copynumber: 2.4 Consensus size: 71
80898 TCACGTCAAC
* * * *
80908 AAATGTTGGGGCATGTTGAAAGCCTATTTCAATCAGAAATTGGAATATTGTCGCATTTTGAACGT
1 AAATGATGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATA---T-ACATTTTGAACGT
*
80973 CTGTATTAGA
62 CTATATTAGA
* *
80983 AAATTATAGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATA-ACATTTTGAACGT-TCA
1 AAATGATGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATACATTTTGAACGTCT-A
*
81046 TATTAGT
65 TATTAGA
* *
81053 AAATGCTGGGGCATGCTGAAGGCCCA
1 AAATGATGGGGCATGCTGAAAGCCCA
81079 CATCATTATG
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
69 1 0.01
70 40 0.48
75 42 0.51
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (71 bp):
AAATGATGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATACATTTTGAACGTCTAT
ATTAGA
Found at i:82452 original size:22 final size:21
Alignment explanation
Indices: 82421--82502 Score: 110
Period size: 22 Copynumber: 3.8 Consensus size: 21
82411 TCTACATTCC
82421 TCAAAGATGATAGATTCTCTCT
1 TCAAAGATGATAGATTCTCT-T
*
82443 TCAAAAATGATAGATTCTCTT
1 TCAAAGATGATAGATTCTCTT
82464 TCTAAAGATGATAGATTCTCTTT
1 TC-AAAGATGATAGATTCTC-TT
* *
82487 TCATAGATGAAAGATT
1 TCAAAGATGATAGATT
82503 TATTGGATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
21 3 0.06
22 47 0.87
23 4 0.07
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (21 bp):
TCAAAGATGATAGATTCTCTT
Found at i:82958 original size:20 final size:20
Alignment explanation
Indices: 82896--82960 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 20
82886 TCTAGGTAAA
82896 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* * * *
82916 ATCTGAAAAAGAAGAAGAA---
1 GT-TCATAATG-AGAAGAACTT
82935 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
82955 GTTCAT
1 GTTCAT
82961 CCTTTTGCTC
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
17 7 0.22
18 5 0.16
19 1 0.03
20 7 0.22
21 5 0.16
22 7 0.22
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.26
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:83092 original size:113 final size:112
Alignment explanation
Indices: 82859--83191 Score: 501
Period size: 112 Copynumber: 3.0 Consensus size: 112
82849 GCAAAGATTT
* * *
82859 GAATCCATCACTCAATGGATCAACATTTCTAGGTAAAGTTCATAATGAGAAGAACTTATCTGAAA
1 GAATTCATCACTCGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAAC-TATCTGAAA
*
82924 AA-GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCATCCTTTTGCTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
* * *
82971 GAATTCATCATTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAA
1 GAATTCATCACTCGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACT-ATCTGAAA
*
83036 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
* * *
83084 GAATTCATCACTCGATGCATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACATATCT-TA
1 GAATTCATCACTCGATGGATCAACATTTCCAG-GTAAAGTTCATAATGAGAAGAAC-TATCTGAA
*
83147 AGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
64 AAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
83192 CATGACTCTA
Statistics
Matches: 201, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
111 1 0.00
112 103 0.51
113 95 0.47
114 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (112 bp):
GAATTCATCACTCGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTATCTGAAAA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
Found at i:83183 original size:20 final size:20
Alignment explanation
Indices: 83121--83184 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
83111 TCCAGAGAAA
83121 GTTCATAATGAGAAGAACAT
1 GTTCATAATGAGAAGAACAT
* * * *
83141 -ATCTTAA-GAGGAAGAAGAA
1 GTTCATAATGA-GAAGAACAT
*
83160 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACAT
83180 GTTCA
1 GTTCA
83185 ACCTTTTCAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 16 0.50
21 2 0.06
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACAT
Found at i:83259 original size:83 final size:83
Alignment explanation
Indices: 83158--83345 Score: 340
Period size: 83 Copynumber: 2.3 Consensus size: 83
83148 GAGGAAGAAG
* *
83158 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCATGACTCTATCACAGAAGGAGATAGATCAG
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAA
*
83223 CATCAACATTTCCAGATA
66 CATCAACATTTCCAGAGA
*
83241 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTGCATGACTTTATCACAGAAGGAGATAGATCAA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAA
83306 CATCAACATTTCCAGAGA
66 CATCAACATTTCCAGAGA
83324 AAGTTCATAATGAGAAGAACTT
1 AAGTTCATAATGAGAAGAACTT
83346 ATCTGAAGAG
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 101 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (83 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAA
CATCAACATTTCCAGAGA
Found at i:83459 original size:123 final size:123
Alignment explanation
Indices: 83241--83517 Score: 436
Period size: 123 Copynumber: 2.3 Consensus size: 123
83231 TTTCCAGATA
* *
83241 AAGTTCATAATGAGAAGAACTTGTTCAACC-TTTGCATGACTTTATCACAGAAGGAGATAGATCA
1 AAGTTCATAATGAAAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCA
*
83305 ACATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGAAAGAAG
66 ACATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAGAAAGAAG
83363 AAGTTCATAATGAAAAGAACTTGTTCAACCTTTTGC-TCGACTCTATCACAGAAGGAGATAGATC
1 AAGTTCATAATGAAAAGAACTTGTTCAACCTTTTGCAT-GACTCTATCACAGAAGGAGATAGATC
* * *
83427 AACAGT-AACATTTCCAGATAAAGTTTATAATGAGAAGAACTTATCTGAAAAGGAAGAAG
65 AACA-TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAGAAAGAAG
*
83486 AAGTTCATAATGAGAAA-AACTTGTTCGACCTT
1 AAGTTCATAATGA-AAAGAACTTGTTCAACCTT
83518 AGCTTGATTC
Statistics
Matches: 144, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
122 30 0.21
123 110 0.76
124 4 0.03
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (123 bp):
AAGTTCATAATGAAAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCA
ACATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAGAAAGAAG
Found at i:83682 original size:136 final size:135
Alignment explanation
Indices: 83433--83790 Score: 370
Period size: 136 Copynumber: 2.6 Consensus size: 135
83423 GATCAACAGT
* *
83433 AACATTTCCAGATA-AAGTTTATAATGAGAAGAACTTATCTGAAAAGGAAGAAGAAGTTCATAAT
1 AACATTTCCAGA-AGAAGTTCATAAT--GAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAAT
* * * * *
83497 GAGAAAAACTTGTTCGACCTTAGCTTGATTCATCATCTATGGAGTTGAATGAAAGAAAAACC-TC
63 GAGAAGAACTTGTTCAACCTTAGCTTAATTCATCATCTATGAAGCTGAAT--AA-AAAAACCATC
**
83561 TCTTGATGATC
125 TCTTGAAAATC
* *
83572 AACATTTTCA-AAGAAAGTTCATAAT-AAGAACTCATCTGAATAGGAAGAAGAAGTTCATAATGA
1 AACATTTCCAGAAG-AAGTTCATAATGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATGA
* * * * *
83635 GAAGAACTTGTTCAAGCTT-GCCTTAATTCATCA-CATATGAAGCTGAATCAACAACCCATCTTT
65 GAAGAACTTGTTCAACCTTAG-CTTAATTCATCATC-TATGAAGCTGAATAAAAAAACCATCTCT
83698 TGAAAATC
128 TGAAAATC
* * * *
83706 AACATTTCCAGAAGCAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATCCATCAT
1 AACATTTCCAGAAGAAGTTCATAAT--GAAGAACTCATCTGAA-AAGGAAGAAGAAGTTCATAAT
*
83770 GAGAAGAATTTGTTCAACCTT
63 GAGAAGAACTTGTTCAACCTT
83791 TTACTAGATT
Statistics
Matches: 185, Mismatches: 24, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
133 5 0.03
134 30 0.16
135 5 0.03
136 74 0.40
137 48 0.26
138 4 0.02
139 19 0.10
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.27
Consensus pattern (135 bp):
AACATTTCCAGAAGAAGTTCATAATGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTAGCTTAATTCATCATCTATGAAGCTGAATAAAAAAACCATCTCTTGA
AAATC
Found at i:84025 original size:3 final size:3
Alignment explanation
Indices: 84011--84097 Score: 77
Period size: 3 Copynumber: 29.0 Consensus size: 3
84001 TTTGCTCGTT
* * * * *
84011 TTA TTT TTA TTA TTA TTA TAA TTA TTA TAA TTG TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
84059 TTA -TA TTT TTA TTA TTA TTAA TAA TAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
84098 CATATTACAG
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
2 2 0.03
3 62 0.94
4 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:84289 original size:16 final size:15
Alignment explanation
Indices: 84268--84297 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
84258 TCCAGCTTGA
84268 AACCCTAGGGTACCAT
1 AACCCTAGGG-ACCAT
84284 AACCCTAGGGACCA
1 AACCCTAGGGACCA
84298 CGCGGTGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.13
Consensus pattern (15 bp):
AACCCTAGGGACCAT
Found at i:85368 original size:22 final size:23
Alignment explanation
Indices: 85316--85373 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 23
85306 TATTTTAATC
85316 ATTGTTTATTTATAGTTTAATTTT
1 ATTGTTTA-TTATAGTTTAATTTT
*
85340 TTATGTTTA-TATA-TTTAATTATT
1 AT-TGTTTATTATAGTTTAATT-TT
85363 ATTG-TTATTAT
1 ATTGTTTATTAT
85374 TATTATGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 3 0.10
22 12 0.41
23 7 0.24
24 1 0.03
25 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (23 bp):
ATTGTTTATTATAGTTTAATTTT
Found at i:85486 original size:35 final size:35
Alignment explanation
Indices: 85414--85500 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 35
85404 AATAATATTT
*
85414 ATTT-ATT-TTTTTAATAAAAAATCCTATTTATAA
1 ATTTAATTATTTTTAATAAAAAATCATATTTATAA
*
85447 ATTTAAATTATTTTTAA-AATAAATCATATTT-TAA
1 ATTT-AATTATTTTTAATAAAAAATCATATTTATAA
*
85481 TATTTATTTATTTTTTAATA
1 -ATTTAATTA-TTTTTAATA
85501 TTAAGAAATG
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
33 4 0.09
34 7 0.16
35 26 0.58
36 8 0.18
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (35 bp):
ATTTAATTATTTTTAATAAAAAATCATATTTATAA
Found at i:85626 original size:133 final size:132
Alignment explanation
Indices: 85440--85705 Score: 371
Period size: 133 Copynumber: 2.0 Consensus size: 132
85430 AAAAATCCTA
*
85440 TTTATAAATTTAAATTATTTTTAAAATAAATCATATTTTAATATTTATTTATTTTTTAATATTAA
1 TTTATAAATTTAAATTATTTTTAAAAGAAATCATATTTTAATATTTATTTATTTTTTAATATTAA
* *
85505 GAAAT-GAGTTGTCTTAAAGCACCTAGAAGTCATTTTCT-G-ATATTCTTAAATAAATAAATATC
66 GAAATGGA-CTGTCTTAAAGCACCTAGAAGTCATTTTATGGAAT-TTC-TAAATAAATAAATATC
85567 TTATT
128 TTATT
* * *
85572 TTTATAAATTATATAATTATTTTT-AGAGAAAT-ATTTTATTAATATTTATTTATTTTTTTATAT
1 TTTATAAATT-TA-AATTATTTTTAAAAGAAATCATATT-TTAATATTTATTTATTTTTTAATAT
* *
85635 TAAGAAATGGACTGTCTTAAAGTACCTAGAAGTCATTTTATGGAATTTCTAAGTAAATAAATATC
63 TAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCATTTTATGGAATTTCTAAATAAATAAATATC
85700 TTATT
128 TTATT
85705 T
1 T
85706 ATAAAAATAA
Statistics
Matches: 120, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
132 14 0.12
133 88 0.73
134 16 0.13
135 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (132 bp):
TTTATAAATTTAAATTATTTTTAAAAGAAATCATATTTTAATATTTATTTATTTTTTAATATTAA
GAAATGGACTGTCTTAAAGCACCTAGAAGTCATTTTATGGAATTTCTAAATAAATAAATATCTTA
TT
Found at i:85725 original size:2 final size:2
Alignment explanation
Indices: 85718--85757 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
85708 AAAAATAAAG
85718 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- 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
85758 TTTCTTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90286 original size:15 final size:14
Alignment explanation
Indices: 90268--90304 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
90258 TAATAATCTC
90268 AATAATAATAATAGT
1 AATAATAATAA-AGT
90283 AATAATAA-AAAGT
1 AATAATAATAAAGT
90296 AAT-ATAATA
1 AATAATAATA
90305 TAAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 7 0.33
14 2 0.10
15 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (14 bp):
AATAATAATAAAGT
Found at i:90534 original size:2 final size:2
Alignment explanation
Indices: 90527--90606 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
90517 GATAAAAACG
90527 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90607 CGTATACAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90641 original size:11 final size:12
Alignment explanation
Indices: 90620--90657 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
90610 ATACAAAAAC
*
90620 ATAATAGAAATA
1 ATAATAAAAATA
90632 A-AATAAAAATA
1 ATAATAAAAATA
90643 ATAAT-AAAATA
1 ATAATAAAAATA
90654 ATAA
1 ATAA
90658 AAGGATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (12 bp):
ATAATAAAAATA
Found at i:92628 original size:65 final size:65
Alignment explanation
Indices: 92524--92698 Score: 244
Period size: 65 Copynumber: 2.7 Consensus size: 65
92514 AAGGGAGAAA
* * * * *
92524 ATTTTTTTTCAAGAGAAACTGTCTCGAGAGAGACGAAATTTGTTT-AAAGGAAAAAAGAGTAAAA
1 ATTTTGTTCCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGG-AAAAAGAGTAAAA
92588 G
65 G
* * * *
92589 ATTTTGTTCCAGGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGGAAATAGATTCAAAG
1 ATTTTGTTCCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGGAAAAAGAGTAAAAG
*
92654 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTT
1 ATTTTGTTCCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTT
92699 TAAAAGAATC
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
65 93 0.95
66 5 0.05
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (65 bp):
ATTTTGTTCCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGGAAAAAGAGTAAAAG
Found at i:92631 original size:36 final size:36
Alignment explanation
Indices: 92591--93009 Score: 321
Period size: 36 Copynumber: 12.2 Consensus size: 36
92581 AGTAAAAGAT
* *
92591 TTTGTTCCAGGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
92627 TTTGTTTCAAAGGAAA-TAGAT-TC-A-A-AG----AT
1 TTTGTTTCAAGGGAAACT-G-TCTCAAGAGAGACAAAA
92656 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* ** * * *
92692 TTTGTTTTAAAAGAATCTGTCTCAAGTGAAACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
92728 TTTGTTTCAAGGAAAACAGAT-TC-A-A-AG----AT
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
92757 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
92793 TTTGTATT-AAGAGAAAATATCTCAAGAGAGACAAAA
1 TTTGT-TTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
92829 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* ** *
92865 TTTGTTTTAAAAGAAACTGTCTCAAGGGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* ** **
92901 TTTGTTTCAAGGAAAACAAAT-TC-A-A-AG---ATT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
92931 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * * *
92967 TTTGTTTTAAGAGAAAATTTCTCAAGAGTGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
93003 TTTGTTT
1 TTTGTTT
93010 TGAGAGAAAC
Statistics
Matches: 303, Mismatches: 50, Indels: 60
0.73 0.12 0.15
Matches are distributed among these distances:
28 2 0.01
29 40 0.13
30 22 0.07
31 3 0.01
32 5 0.02
33 7 0.02
34 1 0.00
35 6 0.02
36 212 0.70
37 5 0.02
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:92712 original size:101 final size:101
Alignment explanation
Indices: 92603--92845 Score: 380
Period size: 101 Copynumber: 2.4 Consensus size: 101
92593 TGTTCCAGGG
*
92603 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGG-AAATAGATTCAAAGATTTTGTTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTC-AAGGAAAACAGATTCAAAGATTTTGTTTCAAG
*
92667 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAA
65 GGAAACTGTCTCAAGAGAGACAAAATTTGTATTAAAA
* * *
92704 GAATCTGTCTCAAGTGAAACAAAATTTGTTTCAAGGAAAACAGATTCAAAGATTTTGTTTCAAGG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACAGATTCAAAGATTTTGTTTCAAGG
*
92769 GAAACTGTCTCAAGAGAGACAAAATTTGTATTAAGA
66 GAAACTGTCTCAAGAGAGACAAAATTTGTATTAAAA
* * *
92805 GAAAATATCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAG-GAAAA
92846 TGTCTCAAGA
Statistics
Matches: 128, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
100 4 0.03
101 119 0.93
102 5 0.04
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (101 bp):
GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACAGATTCAAAGATTTTGTTTCAAGG
GAAACTGTCTCAAGAGAGACAAAATTTGTATTAAAA
Found at i:92901 original size:173 final size:174
Alignment explanation
Indices: 92656--93018 Score: 620
Period size: 173 Copynumber: 2.1 Consensus size: 174
92646 ATTCAAAGAT
* * * * *
92656 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAATCTGTCTCAAGTGA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTGTCTCAAGGGA
*
92721 AACAAAATTTGTTTCAAGGAAAACAGATTCAAAGA-TTTTGTTTCAAGGGAAACTGTCTCAAGAG
66 AACAAAATTTGTTTCAAGGAAAACAAATTCAAAGATTTTTGTTTCAAGGGAAACTGTCTCAAGAG
92785 AGACAAAATTTGTATTAAGAGAAAATATCTCAAGAGAGACAAAA
131 AGACAAAATTTGTATTAAGAGAAAATATCTCAAGAGAGACAAAA
92829 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTGTCTCAAGGGA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTGTCTCAAGGGA
*
92894 GACAAAATTTGTTTCAAGGAAAACAAATTCAAAGATTTTTGTTTCAAGGGAAACTGTCTCAAGAG
66 AACAAAATTTGTTTCAAGGAAAACAAATTCAAAGATTTTTGTTTCAAGGGAAACTGTCTCAAGAG
* * *
92959 AGACAAAATTTGTTTTAAGAGAAAATTTCTCAAGAGTGACAAAA
131 AGACAAAATTTGTATTAAGAGAAAATATCTCAAGAGAGACAAAA
*
93003 TTTGTTTTGAGAGAAA
1 TTTGTTTTAAGAGAAA
93019 CCATCTCAAA
Statistics
Matches: 178, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 93 0.52
174 85 0.48
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (174 bp):
TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTGTCTCAAGGGA
AACAAAATTTGTTTCAAGGAAAACAAATTCAAAGATTTTTGTTTCAAGGGAAACTGTCTCAAGAG
AGACAAAATTTGTATTAAGAGAAAATATCTCAAGAGAGACAAAA
Found at i:93010 original size:36 final size:36
Alignment explanation
Indices: 92931--93018 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
92921 TTCAAAGATT
* * *
92931 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
* *
92967 TTTGTTTTAAGAGAAAATTTCTCAAGAGTGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
*
93003 TTTGTTTTGAGAGAAA
1 TTTGTTTTAAGAGAAA
93019 CCATCTCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (36 bp):
TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
Found at i:93026 original size:36 final size:36
Alignment explanation
Indices: 92950--93027 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
92940 AGGGAAACTG
**
92950 TCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAATT
1 TCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAACA
* * *
92986 TCTCAAGAGTGACAAAATTTGTTTTGAGAGAAACCA
1 TCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAACA
93022 TCTCAA
1 TCTCAA
93028 AGGTGATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (36 bp):
TCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAACA
Found at i:94508 original size:95 final size:96
Alignment explanation
Indices: 94344--94529 Score: 311
Period size: 95 Copynumber: 1.9 Consensus size: 96
94334 ATGTAAACAC
* * * *
94344 CTTTATCGGGTTAGCTGAATATTATCCATAAATCCAGGGCGTTTAACCAATTGCTCTAGAGGGAC
1 CTTTATCAGGCTAGCTGAATATTATCCATAAATCCAAGGCGTTTAACCAACTGCTCTAGAGGGAC
94409 AACTCAAGCTTTATTGTATAT-TATAATCGT
66 AACTCAAGCTTTATTGTATATATATAATCGT
* *
94439 CTTTATCAGGCTAGCTGAATCTTATCCATAAATCCAAGGCGTTTAACCAACTGCTCTAGAGGGAT
1 CTTTATCAGGCTAGCTGAATATTATCCATAAATCCAAGGCGTTTAACCAACTGCTCTAGAGGGAC
94504 AACTCAAGCTTTATTGTATATATATA
66 AACTCAAGCTTTATTGTATATATATA
94530 TAATTATAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
95 80 0.95
96 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (96 bp):
CTTTATCAGGCTAGCTGAATATTATCCATAAATCCAAGGCGTTTAACCAACTGCTCTAGAGGGAC
AACTCAAGCTTTATTGTATATATATAATCGT
Found at i:94600 original size:14 final size:14
Alignment explanation
Indices: 94583--94614 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
94573 AAGAAGAATT
94583 TGTTATAGTCTAGG
1 TGTTATAGTCTAGG
*
94597 TGTTATAGTCTATG
1 TGTTATAGTCTAGG
94611 TGTT
1 TGTT
94615 GTTGAAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (14 bp):
TGTTATAGTCTAGG
Found at i:96210 original size:16 final size:15
Alignment explanation
Indices: 96185--96214 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
96175 TGGACCATCT
96185 ACATCTGATCTTCTA
1 ACATCTGATCTTCTA
96200 ACATCCTGATCTTCT
1 ACAT-CTGATCTTCT
96215 CTTCCATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (15 bp):
ACATCTGATCTTCTA
Found at i:98582 original size:2 final size:2
Alignment explanation
Indices: 98577--98601 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
98567 AATAAAAATA
98577 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
98602 GAAAAATACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:99161 original size:5 final size:5
Alignment explanation
Indices: 99146--99185 Score: 53
Period size: 5 Copynumber: 7.4 Consensus size: 5
99136 CAAAAAACAT
99146 AATAGA AATAA AATAAA AATAA AATAA AATAA TAATAA AA
1 AATA-A AATAA AAT-AA AATAA AATAA AATAA -AATAA AA
99186 GGATTAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 18 0.56
6 14 0.44
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:99165 original size:11 final size:11
Alignment explanation
Indices: 99146--99185 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
99136 CAAAAAACAT
*
99146 AATAGAAATAA
1 AATAAAAATAA
99157 AATAAAAATAA
1 AATAAAAATAA
99168 AAT-AAAATAA
1 AATAAAAATAA
99178 TAATAAAA
1 -AATAAAA
99186 GGATTAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 7 0.27
11 16 0.62
12 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:99170 original size:16 final size:16
Alignment explanation
Indices: 99146--99185 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
99136 CAAAAAACAT
99146 AATAGAAATAAAATAAA
1 AATA-AAATAAAATAAA
*
99163 AATAAAATAAAATAAT
1 AATAAAATAAAATAAA
99179 AATAAAA
1 AATAAAA
99186 GGATTAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AATAAAATAAAATAAA
Found at i:106982 original size:31 final size:31
Alignment explanation
Indices: 106910--106985 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 31
106900 CGAGGCCTGC
* *
106910 GAGCCTACCCAAGAAAATTCTCGGGGCCACA
1 GAGCCTACCCAAGAAAAATCTCAGGGCCACA
*
106941 GAGGCCTACCCAAGAAAAATCTCAGGGCCGCA
1 GA-GCCTACCCAAGAAAAATCTCAGGGCCACA
106973 GAGCCTACCCAAG
1 GAGCCTACCCAAG
106986 GGTCGCCTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 13 0.32
32 28 0.68
ACGTcount: A:0.33, C:0.33, G:0.24, T:0.11
Consensus pattern (31 bp):
GAGCCTACCCAAGAAAAATCTCAGGGCCACA
Found at i:110166 original size:74 final size:74
Alignment explanation
Indices: 110064--110236 Score: 296
Period size: 74 Copynumber: 2.4 Consensus size: 74
110054 AATGGGTACC
* *
110064 GATACCCCTTTAGA--GGTACTGATACCCCAAGGCTCCAACTGCTAGTTAATTTGAATTTAATGA
1 GATACCCC-TTAGAGGGGTACCGATACCCCAAGGCTCCAACGGCTAGTTAATTTGAATTTAATGA
110127 AGGTAGTATT
65 AGGTAGTATT
*
110137 GATACCCCTTAGAGGGGTACCGATACCCCAAGGCTCCAACGGCTAGTTGATTTGAATTTAATGAA
1 GATACCCCTTAGAGGGGTACCGATACCCCAAGGCTCCAACGGCTAGTTAATTTGAATTTAATGAA
110202 GGTAGTATT
66 GGTAGTATT
110211 GATACCCCTTAGAGGGGTACCGATAC
1 GATACCCCTTAGAGGGGTACCGATAC
110237 TCCTATCAAT
Statistics
Matches: 95, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
72 5 0.05
73 8 0.08
74 82 0.86
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (74 bp):
GATACCCCTTAGAGGGGTACCGATACCCCAAGGCTCCAACGGCTAGTTAATTTGAATTTAATGAA
GGTAGTATT
Found at i:112779 original size:21 final size:18
Alignment explanation
Indices: 112732--112789 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
112722 CAACAATTGG
*
112732 TAACGATTGGTATCTTTT
1 TAACAATTGGTATCTTTT
112750 TAACAATTGGTATCCTTTT
1 TAACAATTGGTAT-CTTTT
* *
112769 GTAATCAATTGATATATTTT
1 -TAA-CAATTGGTATCTTTT
112789 T
1 T
112790 CATTAAACGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 12 0.35
19 6 0.18
20 7 0.21
21 9 0.26
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (18 bp):
TAACAATTGGTATCTTTT
Found at i:113037 original size:22 final size:22
Alignment explanation
Indices: 113005--113065 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
112995 AATATTAAGA
113005 GGTATCGATACCCCTATGAATG
1 GGTATCGATACCCCTATGAATG
*
113027 GGTATCAATACCCCTATGAATG
1 GGTATCGATACCCCTATGAATG
*
113049 GGTATTGATACCCCTAT
1 GGTATCGATACCCCTAT
113066 CAATACCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (22 bp):
GGTATCGATACCCCTATGAATG
Found at i:118657 original size:24 final size:24
Alignment explanation
Indices: 118630--118680 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
118620 ATAATAAAGA
* * *
118630 AACACAAATGAACGAATATAAATG
1 AACACAAACGAACAAACATAAATG
118654 AACACAAACGAACAAACATAAATG
1 AACACAAACGAACAAACATAAATG
118678 AAC
1 AAC
118681 GAAACAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.61, C:0.18, G:0.10, T:0.12
Consensus pattern (24 bp):
AACACAAACGAACAAACATAAATG
Found at i:120971 original size:14 final size:15
Alignment explanation
Indices: 120951--120994 Score: 63
Period size: 14 Copynumber: 2.9 Consensus size: 15
120941 GATGTCAAGT
120951 TTGCCAACTTTCAAC
1 TTGCCAACTTTCAAC
*
120966 -TGCCAACTTTTAAC
1 TTGCCAACTTTCAAC
120980 TTTGCCAACTTTCAA
1 -TTGCCAACTTTCAA
120995 GCCAAACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 13 0.52
16 12 0.48
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.36
Consensus pattern (15 bp):
TTGCCAACTTTCAAC
Found at i:124492 original size:4 final size:4
Alignment explanation
Indices: 124483--124548 Score: 61
Period size: 4 Copynumber: 17.0 Consensus size: 4
124473 TTTTATGGAC
*
124483 TTTA TTTA TTTA -TT- TTTA TGTCT- TTTA TTTA TTTA TTTA TTTA TTTC
1 TTTA TTTA TTTA TTTA TTTA T-T-TA TTTA TTTA TTTA TTTA TTTA TTTA
124530 TTTA -TT- TTTA TTTAA TTTA
1 TTTA TTTA TTTA TTT-A TTTA
124549 CTTGTTATCG
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
3 9 0.17
4 36 0.69
5 6 0.12
6 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:124502 original size:23 final size:23
Alignment explanation
Indices: 124473--124520 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
124463 TTTCGTTTGC
124473 TTTTATGGAC-TTTATTTATTTAT
1 TTTTAT-GACTTTTATTTATTTAT
*
124496 TTTTATGTCTTTTATTTATTTAT
1 TTTTATGACTTTTATTTATTTAT
124519 TT
1 TT
124521 ATTTATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.71
Consensus pattern (23 bp):
TTTTATGACTTTTATTTATTTAT
Found at i:124556 original size:22 final size:22
Alignment explanation
Indices: 124514--124556 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
124504 CTTTTATTTA
* *
124514 TTTATTTATTTATTTCTTTATT
1 TTTATTTATTTACTTCGTTATT
124536 TTTATTTAATTTACTT-GTTAT
1 TTTATTT-ATTTACTTCGTTAT
124557 CGTTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTATTTATTTACTTCGTTATT
Found at i:127942 original size:69 final size:69
Alignment explanation
Indices: 127824--127961 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
127814 GATTCAAACT
*
127824 ATGAGATTGATCAAGCACAATCATTTCCTAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCTAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
127889 TCAA
66 TCAA
*
127893 ATGAGATTGATCAAGCACAATCATTT-CTAAATCACTGAATCACTCCACTCGAAGATCATAGAGC
1 ATGAGATTGATCAAGCACAATCATTTCCT-AATCACTGAACCACTCCACTCGAAGATCATAGAGC
127957 ATCAA
65 ATCAA
127962 GAGAGAGACA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 2 0.03
69 64 0.97
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCTAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
TCAA
Found at i:129482 original size:46 final size:43
Alignment explanation
Indices: 129387--129494 Score: 110
Period size: 46 Copynumber: 2.4 Consensus size: 43
129377 CACTTGCGTT
* * *
129387 TTCAACTCCATGACGAAGGATATCGTACCCACACATCCACAAT
1 TTCAACTCCACGACGAAGGATATCGTACCCACACATACACAAG
* *
129430 TTCAACTCCACGACGGAGGATATCGTGCCACCCGAGACA-ACACAAG
1 TTCAACTCCACGACGAAGGATATCGT---ACCC-ACACATACACAAG
* *
129476 TTCAACTTCACAACGAAGG
1 TTCAACTCCACGACGAAGG
129495 GACGGTTGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
43 24 0.45
46 25 0.47
47 4 0.08
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.18
Consensus pattern (43 bp):
TTCAACTCCACGACGAAGGATATCGTACCCACACATACACAAG
Found at i:129614 original size:106 final size:106
Alignment explanation
Indices: 129464--129762 Score: 449
Period size: 106 Copynumber: 2.8 Consensus size: 106
129454 GTGCCACCCG
* *
129464 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAATAATTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCCAGTTT
*
129529 CAGAGCCAATTTCAACTTCACAGCGAATG-ATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAG-GAAAGTATATTGGACTCA
**
129570 AGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAGTTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCCAGTTT
* * * *
129635 TAAAACCAATTTCAACTTCACAGGAAAGTATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAGGAAAGTATATTGGACTCA
* *
129676 AGACAACACAAGTT-AAGCTTCACAACGAAGGGACGGTTGGTTTTCAAAAAAACAATTTCCCAGT
1 AGACAACACAAGTTCAA-CTTCACAACGAAGGGACGGTTGGTTGTC-AACAAACAATTTCCCAGT
*
129740 TCCAGAGCCAATTTCAACTTCAC
64 TTCAGAGCCAATTTCAACTTCAC
129763 GACGGAGGAT
Statistics
Matches: 173, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
105 6 0.03
106 131 0.76
107 36 0.21
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (106 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCCAGTTT
CAGAGCCAATTTCAACTTCACAGGAAAGTATATTGGACTCA
Found at i:130209 original size:65 final size:65
Alignment explanation
Indices: 130117--130285 Score: 198
Period size: 65 Copynumber: 2.6 Consensus size: 65
130107 GAATCAGTTC
*
130117 CCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACATAAA-CATTGAAAAC-AT
1 CCCTTGAAAAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACA-AAATCATTG-AAACTAT
130180 TT
64 TT
** * * * * * *
130182 CCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCTTTGAATCTGTTT
1 CCCTTGAAAAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACAAAATCATTGAAACTATTT
* *
130247 CCCTTGAAACAAAATTTCGTCTCCCTTGAGACATTTTCT
1 CCCTTGAAA-AAAATTTTGTCTCCCTTGAGACAGTTTCT
130286 GTTGGAACTA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 6 0.07
65 58 0.67
66 23 0.26
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (65 bp):
CCCTTGAAAAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACAAAATCATTGAAACTATTT
Found at i:130546 original size:33 final size:34
Alignment explanation
Indices: 130508--130589 Score: 139
Period size: 35 Copynumber: 2.4 Consensus size: 34
130498 TGAATAAAAA
*
130508 TTCTCTTGAAACAC-AAAAAACCTTTGAAATTGT
1 TTCTCTTGAAACACAAAAAAACCTTTGAAAATGT
130541 TTCTCTTGAAACACAAAAAAAACCTTTGAAAATGT
1 TTCTCTTGAAACAC-AAAAAAACCTTTGAAAATGT
130576 TTCTCTTGAAACAC
1 TTCTCTTGAAACAC
130590 CAAACCCTCG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
33 14 0.30
35 32 0.70
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (34 bp):
TTCTCTTGAAACACAAAAAAACCTTTGAAAATGT
Found at i:132006 original size:32 final size:31
Alignment explanation
Indices: 131953--132027 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
131943 TTTCTAGTAT
131953 TTTATTTATTTCATTTGCTTTTATGAACTTTA
1 TTTATTTATTT-ATTTGCTTTTATGAACTTTA
****
131985 TTTATTTATTT-TTATGTCTTTTATTTTTTTTA
1 TTTATTTATTTATT-TG-CTTTTATGAACTTTA
132017 TTTATTTATTT
1 TTTATTTATTT
132028 CGTTTCTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 2 0.05
31 2 0.05
32 33 0.89
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (31 bp):
TTTATTTATTTATTTGCTTTTATGAACTTTA
Found at i:132052 original size:32 final size:29
Alignment explanation
Indices: 131981--132052 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 29
131971 TTTTATGAAC
131981 TTTATTTATTTATTTTTATGTCTTTTATT
1 TTTATTTATTTATTTTTATGTCTTTTATT
*
132010 TTT-TTTATTTATTTATT-TCGTTTCTTTATT
1 TTTATTTATTTATTT-TTAT-GTCT-TTTATT
132040 TTTATTTAATTTA
1 TTTATTT-ATTTA
132053 CTTGTTATCG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 12 0.32
29 8 0.22
30 9 0.24
31 3 0.08
32 5 0.14
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (29 bp):
TTTATTTATTTATTTTTATGTCTTTTATT
Found at i:132071 original size:33 final size:31
Alignment explanation
Indices: 132004--132078 Score: 80
Period size: 33 Copynumber: 2.4 Consensus size: 31
131994 TTTTATGTCT
* **
132004 TTTATTTTT-TTTATTTATTTATTTCGTTTC
1 TTTATTTTTATTTATTTACTTATTTCGTTAA
*
132034 TTTATTTTTATTTAATTTACTTGTTATCGTTAA
1 TTTATTTTTATTT-ATTTACTTATT-TCGTTAA
*
132067 TTTATTATTATT
1 TTTATTTTTATT
132079 CTTTCCTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 9 0.24
31 3 0.08
32 9 0.24
33 16 0.43
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (31 bp):
TTTATTTTTATTTATTTACTTATTTCGTTAA
Found at i:134129 original size:72 final size:72
Alignment explanation
Indices: 134036--134179 Score: 254
Period size: 72 Copynumber: 2.0 Consensus size: 72
134026 AAAGACAAGA
*
134036 AATGAAATTCGGGAAAGAACTATAACTTACATGGATATTGAAGTCATAAGGCAATGATGCTGGAA
1 AATGAAATTCGGGAAAGAACTATAACTTACATGGATATTGAAGCCATAAGGCAATGATGCTGGAA
134101 GAAGCTT
66 GAAGCTT
*
134108 AATGAAATTCGGG-AAGTAACTATAACTTACATGGATATTGAAGCCATAAGGCATTGATGCTGGA
1 AATGAAATTCGGGAAAG-AACTATAACTTACATGGATATTGAAGCCATAAGGCAATGATGCTGGA
134172 AGAAGCTT
65 AGAAGCTT
134180 CCTAAGTTCA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
71 3 0.04
72 66 0.96
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.26
Consensus pattern (72 bp):
AATGAAATTCGGGAAAGAACTATAACTTACATGGATATTGAAGCCATAAGGCAATGATGCTGGAA
GAAGCTT
Found at i:141988 original size:6 final size:6
Alignment explanation
Indices: 141977--142061 Score: 64
Period size: 6 Copynumber: 13.3 Consensus size: 6
141967 GTTAAAAGAG
* *
141977 AAAATA AAAATA AAACAAA GTAAAATA AAAA-A AGAAGTGA AAAATA AAAATA
1 AAAATA AAAATA AAA-ATA --AAAATA AAAATA A-AAAT-A AAAATA AAAATA
* * *
142029 AAATATA AAAATA ATAATA ATAATA ATAATA AA
1 AAA-ATA AAAATA AAAATA AAAATA AAAATA AA
142062 TAAAAGAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
5 2 0.03
6 46 0.70
7 11 0.17
8 4 0.06
9 3 0.05
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:142046 original size:3 final size:3
Alignment explanation
Indices: 142019--142094 Score: 63
Period size: 3 Copynumber: 26.3 Consensus size: 3
142009 AGAAGTGAAA
* *
142019 AAT AAA AAT AA- AAT -AT AAA AAT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* *
142063 AA- AAG AAA AAT -AT AAT AA- AAT AAT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
142095 GTAGTAAAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
2 10 0.17
3 44 0.73
4 6 0.10
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:142072 original size:46 final size:44
Alignment explanation
Indices: 141943--142094 Score: 120
Period size: 46 Copynumber: 3.4 Consensus size: 44
141933 TTTATAAAAC
*
141943 AAAAATAATAAAAT-ATAAAATAATGTTAAAAGAGAAAATAAAA-AT
1 AAAAATAATAAAATAATAAAATAA--ATAAAAGA-AAAATAAAATAT
* * * *
141988 AAAACA-AAGTAAAATAAAAAAAGAAGTGAAAAATAAAAATAAAATAT
1 AAAA-ATAA-TAAAATAATAAAATAAAT--AAAAGAAAAATAAAATAT
*
142035 AAAAATAATAATAATAATAATAATAAATAAAAGAAAAAT-ATA-AT
1 AAAAATAATAA-AATAATAA-AATAAATAAAAGAAAAATAAAATAT
142079 -AAAATAAT-AAATAATA
1 AAAAATAATAAAATAATA
142095 GTAGTAAAGA
Statistics
Matches: 89, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
41 7 0.08
42 1 0.01
43 8 0.09
44 2 0.02
45 9 0.10
46 30 0.34
47 27 0.30
48 5 0.06
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (44 bp):
AAAAATAATAAAATAATAAAATAAATAAAAGAAAAATAAAATAT
Found at i:142158 original size:18 final size:18
Alignment explanation
Indices: 142137--142179 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
142127 TTTATTTTTA
142137 AAATAAAA-AATAAGAATT
1 AAATAAAAGAA-AAGAATT
*
142155 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
142173 AAATAAA
1 AAATAAA
142180 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:142903 original size:12 final size:13
Alignment explanation
Indices: 142886--142914 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
142876 TAAAATAAAA
142886 TAAAATAATAT-T
1 TAAAATAATATCT
142898 TAAAATAATATCT
1 TAAAATAATATCT
142911 TAAA
1 TAAA
142915 TCCTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATAATATCT
Found at i:146957 original size:8 final size:8
Alignment explanation
Indices: 146940--147004 Score: 55
Period size: 8 Copynumber: 8.4 Consensus size: 8
146930 TTAATATTTC
146940 TAATAATA
1 TAATAATA
*
146948 TAATATTA
1 TAATAATA
*
146956 TATTAAT-
1 TAATAATA
*
146963 TAATATTA
1 TAATAATA
*
146971 TAATAAAA
1 TAATAATA
146979 TAATTAAT-
1 TAA-TAATA
*
146987 T-ATATTA
1 TAATAATA
146994 TAATAATA
1 TAATAATA
147002 TAA
1 TAA
147005 GATATTATAT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
6 3 0.07
7 7 0.16
8 30 0.70
9 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TAATAATA
Found at i:146968 original size:20 final size:19
Alignment explanation
Indices: 146943--147120 Score: 71
Period size: 20 Copynumber: 8.9 Consensus size: 19
146933 ATATTTCTAA
*
146943 TAATATAATATTATATTAAT
1 TAATAT-ATATTATAATAAT
* *
146963 TAATATTATAATAAAATAAT
1 TAATA-TATATTATAATAAT
146983 TAAT-TATATTATAATAAT
1 TAATATATATTATAATAAT
* * *
147001 ATAAGATATTATATTTTTAT-TT
1 -T-A-ATA-TATATTATAATAAT
* *
147023 TAATAATATATAATAAATTAT
1 TAAT-ATATATTAT-AATAAT
*
147044 TAATACA-ATTTATTAATAAT
1 TAATATATA-TTA-TAATAAT
* *
147064 GAATA-ATATTATTTATACATT
1 TAATATATATTA-TAATA-A-T
*
147085 TAATA-ATAATATAATAAT
1 TAATATATATTATAATAAT
*
147103 CTAATA-ATATTTTAATAA
1 -TAATATATATTATAATAA
147121 AGATATTTAA
Statistics
Matches: 121, Mismatches: 22, Indels: 31
0.70 0.13 0.18
Matches are distributed among these distances:
18 13 0.11
19 35 0.29
20 43 0.36
21 20 0.17
22 1 0.01
23 9 0.07
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.47
Consensus pattern (19 bp):
TAATATATATTATAATAAT
Found at i:146975 original size:31 final size:31
Alignment explanation
Indices: 146899--147002 Score: 95
Period size: 31 Copynumber: 3.3 Consensus size: 31
146889 TAATCAAAAT
* * *
146899 ATTAATTATTAAAAT-ATATAA-AATATATTT
1 ATTAA-TATTATAATAATATAATATTATATTA
*
146929 ATTAATATTTCTAATAATATAATATTATATTA
1 ATTAATA-TTATAATAATATAATATTATATTA
*
146961 ATTAATATTATAATAAAATAATTAATTATATTA
1 ATTAATATTATAATAATATAA-T-ATTATATTA
*
146994 TAATAATAT
1 -ATTAATAT
147003 AAGATATTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
29 2 0.03
30 10 0.16
31 18 0.30
32 15 0.25
33 9 0.15
34 7 0.11
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (31 bp):
ATTAATATTATAATAATATAATATTATATTA
Found at i:147004 original size:23 final size:24
Alignment explanation
Indices: 146940--147004 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 24
146930 TTAATATTTC
* *
146940 TAATAATATAATATTAT-ATTAAT
1 TAATATTATAATAATATAATTAAT
*
146963 TAATATTATAATAAAATAATTAAT
1 TAATATTATAATAATATAATTAAT
146987 T-ATATTATAATAATATAA
1 TAATATTATAATAATATAA
147005 GATATTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 30 0.81
24 7 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATATTATAATAATATAATTAAT
Found at i:147011 original size:23 final size:23
Alignment explanation
Indices: 146959--147015 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
146949 AATATTATAT
*
146959 TAATTAATATTATAATAAAATAAT
1 TAATT-ATATTATAATAAAATAAA
*
146983 TAATTATATTATAATAATATAAGA
1 TAATTATATTATAATAAAATAA-A
147007 T-ATTATATT
1 TAATTATATT
147016 TTTATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TAATTATATTATAATAAAATAAA
Found at i:147060 original size:34 final size:31
Alignment explanation
Indices: 147022--147102 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 31
147012 TATTTTTATT
147022 TTAATAATATATAATAAATTATTAATACAATTTA
1 TTAATAATATATAAT--ATTATTAATAC-ATTTA
*
147056 TTAATAATGA-ATAATATTATTTATACATTTA
1 TTAATAAT-ATATAATATTATTAATACATTTA
*
147087 ATAATAATATAATAAT
1 TTAATAATAT-ATAAT
147103 CTAATAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
30 1 0.02
31 12 0.29
32 15 0.36
34 13 0.31
35 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (31 bp):
TTAATAATATATAATATTATTAATACATTTA
Found at i:147101 original size:32 final size:33
Alignment explanation
Indices: 147021--147102 Score: 109
Period size: 31 Copynumber: 2.6 Consensus size: 33
147011 ATATTTTTAT
147021 TTTAATAAT-ATATAATAA-ATTATTAATACAA
1 TTTAATAATAATATAATAATATTATTAATACAA
* * *
147052 TTTATTAATAAT-GAATAATATTATTTATAC-A
1 TTTAATAATAATATAATAATATTATTAATACAA
147083 TTTAATAATAATATAATAAT
1 TTTAATAATAATATAATAAT
147103 CTAATAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
31 25 0.58
32 18 0.42
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (33 bp):
TTTAATAATAATATAATAATATTATTAATACAA
Found at i:147118 original size:19 final size:18
Alignment explanation
Indices: 147056--147120 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
147046 ATACAATTTA
*
147056 TTAATAATGAATAATATT
1 TTAATAATTAATAATATT
* *
147074 ATTTATACATTTAATAATAAT
1 -TTAATA-A-TTAATAATATT
*
147095 ATAATAATCTAATAATATT
1 TTAATAAT-TAATAATATT
147114 TTAATAA
1 TTAATAA
147121 AGATATTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 1 0.03
19 21 0.58
20 5 0.14
21 9 0.25
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (18 bp):
TTAATAATTAATAATATT
Found at i:147278 original size:13 final size:13
Alignment explanation
Indices: 147240--147278 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
147230 TATTAATATT
*
147240 TTTATTAATAAAA
1 TTTAATAATAAAA
*
147253 TTATAAAAATAAAA
1 TT-TAATAATAAAA
147267 TTTAATAATAAA
1 TTTAATAATAAA
147279 TGAATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAATAATAAAA
Found at i:165946 original size:3 final size:3
Alignment explanation
Indices: 165938--165996 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
165928 TATTTTTACA
*
165938 ATT ATT ATT ATT AAAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
165984 ATC ATC ATT ATT A
1 ATT ATT ATT ATT A
165997 AATAAATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 49 0.96
4 2 0.04
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:165956 original size:25 final size:25
Alignment explanation
Indices: 165928--165984 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
165918 TTTTCATTTT
*
165928 TATTTTTACAATTATTATTATTAAA
1 TATTATTACAATTATTATTATTAAA
** *
165953 TATTATTATTATTATTATTATT-AT
1 TATTATTACAATTATTATTATTAAA
165977 TATTATTA
1 TATTATTA
165985 TCATCATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
TATTATTACAATTATTATTATTAAA
Found at i:170776 original size:42 final size:42
Alignment explanation
Indices: 170715--170798 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
170705 AGATATGATT
* * * * *
170715 GATCAAGTAAAAAAGTTCCAGGGTGATTCAAATGAACAAATG
1 GATCAAGCAAAAAAATTCCAAGATGATTCAAAAGAACAAATG
*
170757 GATCAAGCAAAAAAATTCCAAGATGATTCAAAAGAGCAAATG
1 GATCAAGCAAAAAAATTCCAAGATGATTCAAAAGAACAAATG
170799 AAAAAACTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (42 bp):
GATCAAGCAAAAAAATTCCAAGATGATTCAAAAGAACAAATG
Found at i:173025 original size:72 final size:72
Alignment explanation
Indices: 172908--173051 Score: 236
Period size: 72 Copynumber: 2.0 Consensus size: 72
172898 ATACAATAAA
* *
172908 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATATTCAGCTAAT
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATATTCAGCTAAC
172973 ATGTTAT
66 ATGTTAT
* *
172980 GCTTGATTTATCCCCCTAAAGCAATTGGTTAATCA-CCCCGACTTTATGGATAATATTCAGCTAG
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAAT-AGCCCCGACTTTATGGATAATATTCAGCTAA
173044 CATGTTAT
65 CATGTTAT
173052 ACTATTATAC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
72 66 0.99
73 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATATTCAGCTAAC
ATGTTAT
Found at i:175952 original size:16 final size:17
Alignment explanation
Indices: 175933--175978 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
175923 AAAAAAATAT
*
175933 ATAAGTAAAATA-TTAA
1 ATAAATAAAATACTTAA
*
175949 ATAAATTAAATACTTAA
1 ATAAATAAAATACTTAA
*
175966 ATAAATTAAATAC
1 ATAAATAAAATAC
175979 AAAATATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
ATAAATAAAATACTTAA
Found at i:175958 original size:9 final size:9
Alignment explanation
Indices: 175944--175977 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
175934 TAAGTAAAAT
175944 ATTAAATAA
1 ATTAAATAA
175953 ATTAAAT-A
1 ATTAAATAA
*
175961 CTTAAATAA
1 ATTAAATAA
175970 ATTAAATA
1 ATTAAATA
175978 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:175976 original size:17 final size:17
Alignment explanation
Indices: 175940--175978 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
175930 TATATAAGTA
175940 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
175956 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
175973 AAATAC
1 AAATAC
175979 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:176782 original size:2 final size:2
Alignment explanation
Indices: 176742--176766 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
176732 CCCGACTAAA
176742 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
176767 ATTTTACCTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:177590 original size:2 final size:2
Alignment explanation
Indices: 177583--177608 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
177573 GTAAAAATTA
177583 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
177609 TATTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:177799 original size:40 final size:40
Alignment explanation
Indices: 177754--177973 Score: 132
Period size: 40 Copynumber: 5.4 Consensus size: 40
177744 TAGAGGCATT
177754 TTTTAAACAAACGCCGCTATAAAGTAGTATTTTAGTGGCG
1 TTTTAAACAAACGCCGCTATAAAGTAGTATTTTAGTGGCG
* * *
177794 TTTTAAGCATAAACACCGCTA-AAACTCA-TATTTTAGTGGCG
1 TTTTAA--ACAAACGCCGCTATAAAGT-AGTATTTTAGTGGCG
* * *
177835 TATTT-TATAAACGCCG-TAATAAAGTAGTACTTTAGTGGCG
1 T-TTTAAACAAACGCCGCT-ATAAAGTAGTATTTTAGTGGCG
** * * *
177875 TTTGTGCTTA-AAATGCCAC--TAAAGTACTAGTCTTTAGTGGCG
1 TTT-T--AAACAAACGCCGCTATAAAGTAGTA-T-TTTAGTGGCG
** * *
177917 TTTTTGTACAAACGCCGCTA-AAAATAGTACTTTAGTGGCG
1 -TTTTAAACAAACGCCGCTATAAAGTAGTATTTTAGTGGCG
177957 TTTTAAGCACAAACGCC
1 TTTTAA--ACAAACGCC
177974 ACTAAAGTAC
Statistics
Matches: 141, Mismatches: 19, Indels: 39
0.71 0.10 0.20
Matches are distributed among these distances:
38 1 0.01
39 17 0.12
40 45 0.32
41 34 0.24
42 39 0.28
43 5 0.04
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (40 bp):
TTTTAAACAAACGCCGCTATAAAGTAGTATTTTAGTGGCG
Found at i:177847 original size:81 final size:82
Alignment explanation
Indices: 177760--177985 Score: 243
Period size: 82 Copynumber: 2.8 Consensus size: 82
177750 CATTTTTTAA
* *
177760 ACAAACGCCGCTATAAAGTAGTATTTTAGTGGCGTTTTAAGCATAAACACCGCTAAA-ACTCA-T
1 ACAAACGCCGCTATAAAGTAGTACTTTAGTGGCGTTTTAAGCATAAACACCACTAAAGACT-AGT
*
177823 ATTTTAGTGGCGTATTT-T
65 -CTTTAGTGGCGTATTTGT
* *
177841 ATAAACGCCG-TAATAAAGTAGTACTTTAGTGGCGTTTGT--GCTTAAA-ATGCCACTAAAGTAC
1 ACAAACGCCGCT-ATAAAGTAGTACTTTAGTGGCGTTT-TAAGCATAAACA--CCACTAAAG-AC
*
177902 TAGTCTTTAGTGGCGTTTTTGT
61 TAGTCTTTAGTGGCGTATTTGT
* * *
177924 ACAAACGCCGCTA-AAAATAGTACTTTAGTGGCGTTTTAAGCACAAACGCCACTAAAGTACTA
1 ACAAACGCCGCTATAAAGTAGTACTTTAGTGGCGTTTTAAGCATAAACACCACTAAAG-ACTA
177986 CTTTATTGCG
Statistics
Matches: 122, Mismatches: 11, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
79 1 0.01
80 7 0.06
81 41 0.34
82 52 0.43
83 20 0.16
84 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (82 bp):
ACAAACGCCGCTATAAAGTAGTACTTTAGTGGCGTTTTAAGCATAAACACCACTAAAGACTAGTC
TTTAGTGGCGTATTTGT
Found at i:177969 original size:41 final size:39
Alignment explanation
Indices: 177760--177979 Score: 153
Period size: 41 Copynumber: 5.4 Consensus size: 39
177750 CATTTTTTAA
* *
177760 ACAAACGCCGCTATAAAGTAGTATTTTAGTGGCGTTTTAAGC
1 ACAAACGCCGCTA-AAAATAGTACTTTAGTGGCGTTTT--GC
* * * * *
177802 ATAAACACCGCTAAAACTCA-TATTTTAGTGGCGTATTT-T
1 ACAAACGCCGCTAAAAAT-AGTACTTTAGTGGCGT-TTTGC
*
177841 ATAAACGCCG-TAATAAAGTAGTACTTTAGTGGCGTTTGTGC
1 ACAAACGCCGCTAA-AAA-TAGTACTTTAGTGGCGTTT-TGC
* * * *
177882 TTA-AAATGCCACTAAAGTACTAGT-CTTTAGTGGCGTTTTTGT
1 --ACAAACGCCGCTAAA--AATAGTACTTTAGTGGCG-TTTTGC
177924 ACAAACGCCGCTAAAAATAGTACTTTAGTGGCGTTTTAAGC
1 ACAAACGCCGCTAAAAATAGTACTTTAGTGGCGTTTT--GC
*
177965 ACAAACGCCACTAAA
1 ACAAACGCCGCTAAA
177980 GTACTACTTT
Statistics
Matches: 144, Mismatches: 17, Indels: 35
0.73 0.09 0.18
Matches are distributed among these distances:
38 3 0.02
39 23 0.16
40 27 0.19
41 44 0.31
42 35 0.24
43 11 0.08
44 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (39 bp):
ACAAACGCCGCTAAAAATAGTACTTTAGTGGCGTTTTGC
Found at i:177988 original size:40 final size:38
Alignment explanation
Indices: 177854--178066 Score: 133
Period size: 42 Copynumber: 5.2 Consensus size: 38
177844 AACGCCGTAA
* *
177854 TAAAGTAGTACTTTAGTGGCGTTTGTGCTTA-AAATGCCAC
1 TAAAGTACTACTTTAGTGGCGTTT-TGC--ACAAACGCCAC
* *
177894 TAAAGTACTAGTCTTTAGTGGCGTTTTTGTACAAACGCCGC
1 TAAAGTACTA--CTTTAGTGGCG-TTTTGCACAAACGCCAC
* *
177935 TAAAAATAGTACTTTAGTGGCGTTTTAAGCACAAACGCCAC
1 T-AAAGTACTACTTTAGTGGCGTTTT--GCACAAACGCCAC
*
177976 TAAAGTACTACTTTATTGCGGCGTTTGTGC-CTAAAACGCCAC
1 TAAAGTACTACTTTA--GTGGCGTTT-TGCAC--AAACGCCAC
* * * * *
178018 TACAGTACGTGTCTTTAGCGGCGTTTATCCATAAAACGCCAC
1 TAAAGTAC-T-ACTTTAGTGGCGTTT-TGCA-CAAACGCCAC
*
178060 TGAAGTA
1 TAAAGTA
178067 TGAGTTTTAG
Statistics
Matches: 139, Mismatches: 18, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
39 4 0.03
40 34 0.24
41 22 0.16
42 69 0.50
43 5 0.04
44 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (38 bp):
TAAAGTACTACTTTAGTGGCGTTTTGCACAAACGCCAC
Found at i:178085 original size:41 final size:40
Alignment explanation
Indices: 177967--178102 Score: 125
Period size: 42 Copynumber: 3.3 Consensus size: 40
177957 TTTTAAGCAC
* * *
177967 AAACGCCACTAAAGTACT-ACTTTATTGCGGCGTTTGTGCCTA
1 AAACGCCACT-AAGTA-TGAGTTT-TAGCGGCGTTTATGCCTA
* *
178009 AAACGCCACTACAGTACGTGTCTTTAGCGGCGTTTAT-CCATA
1 AAACGCCACTA-AGTATGAGT-TTTAGCGGCGTTTATGCC-TA
*
178051 AAACGCCACTGAAGTATGAGTTTTAGCGGCGTTTATG-CTT
1 AAACGCCACT-AAGTATGAGTTTTAGCGGCGTTTATGCCTA
*
178091 AAACACCACTAA
1 AAACGCCACTAA
178103 ACTAGCGTGA
Statistics
Matches: 79, Mismatches: 9, Indels: 15
0.77 0.09 0.15
Matches are distributed among these distances:
39 2 0.03
40 10 0.13
41 19 0.24
42 45 0.57
43 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (40 bp):
AAACGCCACTAAGTATGAGTTTTAGCGGCGTTTATGCCTA
Done.