Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009150.1 Hibiscus syriacus cultivar Beakdansim tig00112674_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: 343037
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 2
Found at i:124907 original size:28 final size:28
Alignment explanation
Indices: 124850--124910 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
124840 CAAAGAAGCC
*
124850 AACCTGAAACACATTACCTCTCTAAATT
1 AACCTGAAACACATTACCTCTCCAAATT
*
124878 AACCTGAAACACATTACCT-TCCCAAGTT
1 AACCTGAAACACATTACCTCT-CCAAATT
124906 AACCT
1 AACCT
124911 AAGCCTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.38, C:0.31, G:0.05, T:0.26
Consensus pattern (28 bp):
AACCTGAAACACATTACCTCTCCAAATT
Found at i:126252 original size:58 final size:55
Alignment explanation
Indices: 126163--126391 Score: 204
Period size: 58 Copynumber: 4.1 Consensus size: 55
126153 CCCAAACAAC
* * * * *
126163 ATGATGTTTCAAAAGAA-TTT-AAAGAAACTAAGCATGATTTTCAAGGGCTTCTTG
1 ATGATATTTC-AAAGAATTTTAAAAGAAGCTAAGCCTAATTTTCAAGGGTTTCTTG
* * *
126217 ATGATGATTTCTAGAGAATTTCTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
1 ATGAT-ATTTC-AAAGAATTT-TAAAAGAAGCTAAGCCTAATTTTCAAGGGTTTCTTG
* *
126275 AT-AT-TTTCAAATGAGTTGTTAAAA-AA-CTAAGCCTAGTTTTC-AGGGATTTCTTG
1 ATGATATTTCAAA-GAATT-TTAAAAGAAGCTAAGCCTAATTTTCAAGGG-TTTCTTG
* *
126328 ATGATTATTTCCAAAGAATTTTTAAAAGAAGCTAAGCCTAATTTT-AAGGGTTTTTTA
1 ATGA-TATTT-CAAAGAA-TTTTAAAAGAAGCTAAGCCTAATTTTCAAGGGTTTCTTG
126385 ATGATAT
1 ATGATAT
126392 CTGAAAAATG
Statistics
Matches: 142, Mismatches: 18, Indels: 28
0.76 0.10 0.15
Matches are distributed among these distances:
52 3 0.02
53 22 0.15
54 10 0.07
55 23 0.16
56 17 0.12
57 20 0.14
58 47 0.33
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (55 bp):
ATGATATTTCAAAGAATTTTAAAAGAAGCTAAGCCTAATTTTCAAGGGTTTCTTG
Found at i:126672 original size:59 final size:60
Alignment explanation
Indices: 126589--126734 Score: 213
Period size: 59 Copynumber: 2.5 Consensus size: 60
126579 GTATTTCGTT
* * * *
126589 GCTCAATTCACAATACTTCGAATCAGTAATGCCCCACCAGAGGGGTTAACATTTCCTGT-
1 GCTCGATTCACAACACTTCGAATCAGCAATGCCCCACCAGAGGGGTTAACATTTCCTATG
* * * *
126648 TCTCGATTCAAAAGACTTCGAATCAGCAATGCCCCACCAGAGGGGTTAACATTTTCTATG
1 GCTCGATTCACAACACTTCGAATCAGCAATGCCCCACCAGAGGGGTTAACATTTCCTATG
126708 GCTCGATTCACAACACTTCGAATCAGC
1 GCTCGATTCACAACACTTCGAATCAGC
126735 TTAAGTCCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
59 52 0.68
60 24 0.32
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (60 bp):
GCTCGATTCACAACACTTCGAATCAGCAATGCCCCACCAGAGGGGTTAACATTTCCTATG
Found at i:126972 original size:287 final size:286
Alignment explanation
Indices: 126449--127252 Score: 1035
Period size: 288 Copynumber: 2.8 Consensus size: 286
126439 TCTTAATGAG
* * * *
126449 TAAGTCCTTTGGGACATCAGTATGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTATAA
1 TAAGTCCTTTGAGACATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
* * * * *
126514 GTTTTTCAAGTAAGATAATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGC-AGGATGTTTTCA
66 GTCTTTCGAGAAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGAGCAAGG-TGTTTTCA
* * * * * *
126578 A-GTATTTCGTTGCTCAATTCACAATACTTCGAATCAGTAATGCCCCACCAGAGGGGTTAACATT
130 ACAT-TTTCTTTGCTCAATTCACAACACTTCGAATCAGCAACG-CCCACCAGAGGGGTTCACATT
* * ** *
126642 TCCTGTTCTCGATTCAAAAGACTTCGAATCAGCAATGCCCCACCAGAGGGGTT-AACATTTTCTA
193 TCCT-TTCTCGATTCAAAACACTTTGAATCAGCAACACCCCACCAGAGGGGTTCAACATTTCCTA
126706 TGGCTCGATTCACAACACTTCGAA-TCAGCT
257 TGGCTCGATTCACAACACTTC-AATTCAGCT
* * * *
126736 TAAGTCCTTCGAGCCATCAGTAAGTCTTTCAAGCTTGATGCTTAAATTCTTCGGGTCATCTATAA
1 TAAGTCCTTTGAGACATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
*
126801 GTCTTTCGAGAAAGATGATAGGTCCTTCGGGCCATCCATAAGACCTTCGAGCAAGGTGTTTTCAA
66 GTCTTTCGAGAAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGAGCAAGGTGTTTTCAA
** * *
126866 CATTTTCTTTGCTTTATTCACAACAATTCGAATCAGCAACGCCACACCAGAGGGGTTCACAATTC
131 CATTTTCTTTGCTCAATTCACAACACTTCGAATCAGCAACGCC-CACCAGAGGGGTTCACATTTC
* * * *
126931 ATTTGCTCGATTCACAACACTTTGAAT-ACGTAACACCCCACCATAGGGGTTCAACATTTCCTAT
195 CTTT-CTCGATTCAAAACACTTTGAATCA-GCAACACCCCACCAGAGGGGTTCAACATTTCCTAT
*
126995 GGCTGGATTCACAACACTTCAATTCAGCT
258 GGCTCGATTCACAACACTTCAATTCAGCT
* *
127024 TAAGTCCTTTGAGTCATCAGTAAGTCTTTCAAGCCTGATGCTTAAATCCTTCGGGTCATCTATAA
1 TAAGTCCTTTGAGACATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
* * *
127089 GTCTTTCGAGCAAGATGATAAGTCCTTCTGGCCATCCATAAGACCTTC-AGGCAGGGTGTTTTCA
66 GTCTTTCGAGAAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGA-GCAAGGTGTTTTCA
* * * * *
127153 ACATTTCCTTTGCTCGATTCACAACACTTCGAATCAACAACGTCCTACCATAGGGGTTCACATTT
130 ACATTTTCTTTGCTCAATTCACAACACTTCGAATCAGCAACG-CCCACCAGAGGGGTTCACATTT
* * * *
127218 CCTTTACTCGATTTATAATACTTTGAATTAGCAAC
194 CCTTT-CTCGATTCAAAACACTTTGAATCAGCAAC
127253 GCATCACTCG
Statistics
Matches: 451, Mismatches: 56, Indels: 19
0.86 0.11 0.04
Matches are distributed among these distances:
286 5 0.01
287 203 0.45
288 240 0.53
289 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (286 bp):
TAAGTCCTTTGAGACATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
GTCTTTCGAGAAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGAGCAAGGTGTTTTCAA
CATTTTCTTTGCTCAATTCACAACACTTCGAATCAGCAACGCCCACCAGAGGGGTTCACATTTCC
TTTCTCGATTCAAAACACTTTGAATCAGCAACACCCCACCAGAGGGGTTCAACATTTCCTATGGC
TCGATTCACAACACTTCAATTCAGCT
Found at i:127650 original size:15 final size:15
Alignment explanation
Indices: 127632--127663 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
127622 AAACCCGAAG
127632 CCTAACTACCCAAAA
1 CCTAACTACCCAAAA
*
127647 CCTAGCTACCCAAAA
1 CCTAACTACCCAAAA
127662 CC
1 CC
127664 CGACTCAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.44, G:0.03, T:0.12
Consensus pattern (15 bp):
CCTAACTACCCAAAA
Found at i:128867 original size:6 final size:6
Alignment explanation
Indices: 128856--128912 Score: 98
Period size: 6 Copynumber: 9.7 Consensus size: 6
128846 TAGGTCCTTG
*
128856 TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TTTTTA
1 TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA
128904 T-TTTA TGTT
1 TGTTTA TGTT
128913 GTTTTTTTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
5 5 0.10
6 44 0.90
ACGTcount: A:0.16, C:0.00, G:0.14, T:0.70
Consensus pattern (6 bp):
TGTTTA
Found at i:130949 original size:16 final size:16
Alignment explanation
Indices: 130925--130955 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
130915 CGGCCAATTA
130925 TGTAATTTATTAAAAT
1 TGTAATTTATTAAAAT
*
130941 TGTATTTTATTAAAA
1 TGTAATTTATTAAAA
130956 ATACAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TGTAATTTATTAAAAT
Found at i:131092 original size:19 final size:20
Alignment explanation
Indices: 131068--131105 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
131058 AATTTTTAAA
*
131068 AAAATT-ATTTTTAAAAAAT
1 AAAATTAATGTTTAAAAAAT
131087 AAAATTAATGTTTAAAAAA
1 AAAATTAATGTTTAAAAAA
131106 ACAAAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATTAATGTTTAAAAAAT
Found at i:131104 original size:21 final size:19
Alignment explanation
Indices: 131068--131113 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
131058 AATTTTTAAA
* *
131068 AAAATTATTTTTAAAAAAT
1 AAAATTATTTTAAAAAAAC
131087 AAAATTAATGTTTAAAAAAAC
1 AAAATT-AT-TTTAAAAAAAC
131108 AAAATT
1 AAAATT
131114 TCTCTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 2 0.09
21 15 0.65
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTATTTTAAAAAAAC
Found at i:132744 original size:16 final size:14
Alignment explanation
Indices: 132713--132768 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
132703 TTAAAACAAC
*
132713 AAATAAATATATAA
1 AAATAAAAATATAA
132727 AAATAAAAATAGTAA
1 AAATAAAAATA-TAA
* *
132742 AAA-AACAACAT-A
1 AAATAAAAATATAA
132754 AAATAAAAA-ATAA
1 AAATAAAAATATAA
132767 AA
1 AA
132769 TAACATAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 8 0.23
14 15 0.43
15 6 0.17
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.18
Consensus pattern (14 bp):
AAATAAAAATATAA
Found at i:132766 original size:12 final size:13
Alignment explanation
Indices: 132726--132771 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
132716 TAAATATATA
*
132726 AAAATAAAAATAGT
1 AAAATAAAAACA-T
132740 AAAA-AAACAACAT
1 AAAATAAA-AACAT
132753 AAAATAAAAA-AT
1 AAAATAAAAACAT
132765 AAAATAA
1 AAAATAA
132772 CATAAGTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 9 0.31
13 10 0.34
14 10 0.34
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.15
Consensus pattern (13 bp):
AAAATAAAAACAT
Found at i:132771 original size:17 final size:17
Alignment explanation
Indices: 132713--132776 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 17
132703 TTAAAACAAC
132713 AAATAAATATATAAAAATA
1 AAATAAA-ATA-AAAAATA
* *
132732 AAA-ATAGTAAAAAA-A
1 AAATAAAATAAAAAATA
132747 CAACATAAAATAAAAAATA
1 -AA-ATAAAATAAAAAATA
*
132766 AAATAACATAA
1 AAATAAAATAA
132777 GTATAAGGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
15 1 0.03
16 7 0.19
17 11 0.31
18 13 0.36
19 4 0.11
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.19
Consensus pattern (17 bp):
AAATAAAATAAAAAATA
Found at i:133647 original size:3 final size:3
Alignment explanation
Indices: 133639--133675 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
133629 TATATTATAT
*
133639 TTA TTA TTA TATA GTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
133676 CTAATATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:134855 original size:2 final size:2
Alignment explanation
Indices: 134848--134887 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
134838 TTCTTTGTTC
134848 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
134888 TTGTTTAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:135084 original size:25 final size:23
Alignment explanation
Indices: 135038--135085 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
135028 TATAGCTTAG
135038 TTGGATATATATATATTAAATTA
1 TTGGATATATATATATTAAATTA
*
135061 TTGGAGTATATATTATATTTAATTA
1 TTGGA-TATATA-TATATTAAATTA
135086 GCCCATGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 6 0.27
25 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (23 bp):
TTGGATATATATATATTAAATTA
Found at i:146734 original size:8 final size:8
Alignment explanation
Indices: 146700--146777 Score: 72
Period size: 8 Copynumber: 10.1 Consensus size: 8
146690 TGCTTGAAGG
*
146700 AAAAAGGA
1 AAAAATGA
*
146708 ACAAATGA
1 AAAAATGA
* *
146716 AAAGATAA
1 AAAAATGA
146724 AAAAATGA
1 AAAAATGA
146732 AAAAATGA
1 AAAAATGA
*
146740 AGAAATG-
1 AAAAATGA
*
146747 AAGAA--A
1 AAAAATGA
*
146753 AAAAATAA
1 AAAAATGA
146761 AAAAATGA
1 AAAAATGA
146769 AAAAATGA
1 AAAAATGA
146777 A
1 A
146778 GAGAGAAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
6 4 0.07
7 3 0.05
8 48 0.87
ACGTcount: A:0.74, C:0.01, G:0.14, T:0.10
Consensus pattern (8 bp):
AAAAATGA
Found at i:146757 original size:21 final size:20
Alignment explanation
Indices: 146731--146773 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
146721 TAAAAAAATG
* *
146731 AAAAAATGAAGAAATGAAGAA
1 AAAAAATAAAAAAATGAA-AA
146752 AAAAAATAAAAAAATGAAAA
1 AAAAAATAAAAAAATGAAAA
146772 AA
1 AA
146774 TGAAGAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (20 bp):
AAAAAATAAAAAAATGAAAA
Found at i:146764 original size:29 final size:30
Alignment explanation
Indices: 146717--146779 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
146707 AACAAATGAA
* *
146717 AAGATAAAAAAATGAAAAAATGAAGAAATG
1 AAGATAAAAAAATAAAAAAATGAAAAAATG
146747 AAGA-AAAAAAATAAAAAAATGAAAAAATG
1 AAGATAAAAAAATAAAAAAATGAAAAAATG
146776 AAGA
1 AAGA
146780 GAGAAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (30 bp):
AAGATAAAAAAATAAAAAAATGAAAAAATG
Found at i:149392 original size:2 final size:2
Alignment explanation
Indices: 149385--149424 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
149375 TTCTTTGTTC
149385 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
149425 TTGTTTAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:149599 original size:44 final size:45
Alignment explanation
Indices: 149513--149599 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 45
149503 CCATATTTTA
**
149513 TTAACGTATAGCTTAGTTGGATATATATATATATTATTTTATTTGT
1 TTAACGTATAGCTTAGTTGGA-ATATATATATATTAAATTATTTGT
149559 TTAACGTATAGCTTAGTTGG-ATATATATATATTAAATTATT
1 TTAACGTATAGCTTAGTTGGAATATATATATATTAAATTATT
149600 GGAGTATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.49
46 20 0.51
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (45 bp):
TTAACGTATAGCTTAGTTGGAATATATATATATTAAATTATTTGT
Found at i:150018 original size:68 final size:68
Alignment explanation
Indices: 149936--150072 Score: 274
Period size: 68 Copynumber: 2.0 Consensus size: 68
149926 AAATAAATGC
149936 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTA
1 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTA
150001 ATT
66 ATT
150004 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTA
1 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTA
150069 ATT
66 ATT
150072 A
1 A
150073 ATTTATGTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (68 bp):
ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTA
ATT
Found at i:151613 original size:39 final size:39
Alignment explanation
Indices: 151539--152108 Score: 682
Period size: 39 Copynumber: 14.5 Consensus size: 39
151529 AGAAAAAAAA
* * * *
151539 ATCTCAAGTGAGAT-AAATATTCTGTTT--TGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * * * *
151575 ATCTCAAGCGAGAAAAAATCTTTTATTTAGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
*
151614 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* *
151653 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * * * **
151692 ATCTCAAGAGAGAAAAAATCTTTTGTTT-TAGTAAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
*
151730 ATCTCAAGCGAGATAAAATCATCTGTTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * *
151769 ATCTCAAGCGAGACAAAATCTTCTGTTTGAGGGAATCGATGGAAATT
1 ATCTCAAGCGAGATAAAATCTTCTG-TT-------TCGAGGGAAACT
* * *
151816 ATCTCAAGCAAGACAAAATCTTCTGTTTCGAGGGAAATT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * *
151855 ATCTCAAGCAAGACAAAATCTTCTG-GTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
151893 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
151932 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * * *
151971 ATCTTAGGCAAGATAAAATCTTCTATTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* *
152010 ATCTCAAGCAAGATAAAATCTTCTGTTTTGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * * * *
152049 ATCTGAAGCTAGAAAAAATCTTCTGTTTCAAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
152088 ATCTCAAGCGAGATAAAATCT
1 ATCTCAAGCGAGATAAAATCT
152109 GGTTTTAAGA
Statistics
Matches: 470, Mismatches: 51, Indels: 23
0.86 0.09 0.04
Matches are distributed among these distances:
36 12 0.03
37 10 0.02
38 66 0.14
39 344 0.73
40 2 0.00
46 2 0.00
47 34 0.07
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (39 bp):
ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
Found at i:152198 original size:76 final size:76
Alignment explanation
Indices: 152089--152355 Score: 344
Period size: 76 Copynumber: 3.5 Consensus size: 76
152079 AGTGAAACTA
* *
152089 TCTCAAGCGAGATAAAATCTGGTTTTAAGAAAAACAAT-TTATAGTGAAATGAAATGTCTTGTTT
1 TCTCAAGCGAGA-CAAATCTGGTTTTAAGAAAAACAATATT-TAGTGAAATGAAATGTCTTCTTT
* *
152153 TGAGTAAAAATTG
64 CGAATAAAAATTG
* * * *
152166 TCTCAAGCGAGACAAAGTAT-GTTTTAAGAAAAACAATCTTGAGTGAAATGAAATGTATTCTTTC
1 TCTCAAGCGAGACAAA-TCTGGTTTTAAGAAAAACAATATTTAGTGAAATGAAATGTCTTCTTTC
* *
152230 GATTAAAAACTG
65 GAATAAAAATTG
*
152242 TCTCAAGCGAGACAAATCT-ATTTTAAGAAAAA-AATATCTTGAGTGAAATGAAATGTCTTCTTT
1 TCTCAAGCGAGACAAATCTGGTTTTAAGAAAAACAATAT-TT-AGTGAAATGAAATGTCTTCTTT
152305 CGAATAAAAATTG
64 CGAATAAAAATTG
*
152318 TCTCAAGCGAGACAAATCTGGTTTTAAAGAAAGACAAT
1 TCTCAAGCGAGACAAATCTGGTTTT-AAGAAAAACAAT
152356 CTCAAGTGAG
Statistics
Matches: 166, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
74 4 0.02
75 15 0.09
76 117 0.70
77 20 0.12
78 7 0.04
79 3 0.02
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (76 bp):
TCTCAAGCGAGACAAATCTGGTTTTAAGAAAAACAATATTTAGTGAAATGAAATGTCTTCTTTCG
AATAAAAATTG
Found at i:152290 original size:152 final size:148
Alignment explanation
Indices: 152083--152408 Score: 392
Period size: 152 Copynumber: 2.1 Consensus size: 148
152073 GTTTCAAGTG
* * *
152083 AAACTATCTCAAGCGAGATAAAATCTGGTTTTAAGAAAAACAATTTATAGTGAAATGAAATGTCT
1 AAACTGTCTCAAGCGAGA-CAAATCTGATTTTAAGAAAAACAATTTATAGTGAAATGAAATGTCT
* * * **
152148 TGTTTTGAGTAAAAATTGTCTCAAGCGAGACAAAGTAT-GTTTT-AAGAAAAACAATCTTGAGTG
65 TCTTTCGAATAAAAATTGTCTCAAGCGAGACAAA-TATGGTTTTAAAGAAAAACAATCTCAAGTG
*
152211 AAATGAAATGTATTCTTTCGATTAA
129 AAAT-AAAT-T-TTCTGT--ATTAA
152236 AAACTGTCTCAAGCGAGACAAATCT-ATTTTAAGAAAAA-AATATCT-TGAGTGAAATGAAATGT
1 AAACTGTCTCAAGCGAGACAAATCTGATTTTAAGAAAAACAAT-T-TAT-AGTGAAATGAAATGT
* *
152298 CTTCTTTCGAATAAAAATTGTCTCAAGCGAGACAAATCTGGTTTTAAAGAAAGACAATCTCAAGT
63 CTTCTTTCGAATAAAAATTGTCTCAAGCGAGACAAATATGGTTTTAAAGAAAAACAATCTCAAGT
*
152363 GAGATAAATTTTCTGTATTAA
128 GAAATAAATTTTCTGTATTAA
152384 ATGAGACTGTCTCAAGCGAGACAAA
1 A--A-ACTGTCTCAAGCGAGACAAA
152409 ATTTGTTTAG
Statistics
Matches: 153, Mismatches: 12, Indels: 18
0.84 0.07 0.10
Matches are distributed among these distances:
148 6 0.04
150 9 0.06
151 37 0.24
152 64 0.42
153 37 0.24
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (148 bp):
AAACTGTCTCAAGCGAGACAAATCTGATTTTAAGAAAAACAATTTATAGTGAAATGAAATGTCTT
CTTTCGAATAAAAATTGTCTCAAGCGAGACAAATATGGTTTTAAAGAAAAACAATCTCAAGTGAA
ATAAATTTTCTGTATTAA
Found at i:153057 original size:28 final size:28
Alignment explanation
Indices: 153017--153070 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
153007 TTAGGATGCC
*
153017 TTGGGAAGGTAATGTGTTTCAAGTTAAT
1 TTGGGAAGATAATGTGTTTCAAGTTAAT
* *
153045 TTGGGCAGATAATGTGTTTCAGGTTA
1 TTGGGAAGATAATGTGTTTCAAGTTA
153071 GCTTCTTGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.26, C:0.06, G:0.30, T:0.39
Consensus pattern (28 bp):
TTGGGAAGATAATGTGTTTCAAGTTAAT
Found at i:153727 original size:7 final size:7
Alignment explanation
Indices: 153717--153863 Score: 115
Period size: 7 Copynumber: 20.4 Consensus size: 7
153707 TTCTTTCACC
153717 TTTTTCTT
1 TTTTTC-T
153725 TTTTTCCTT
1 TTTTT-C-T
153734 TTTTTCT
1 TTTTTCT
153741 TTTTTCT
1 TTTTTCT
*
153748 TCTTTC-
1 TTTTTCT
*
153754 TTCTTC-
1 TTTTTCT
153760 TTTTTCT
1 TTTTTCT
153767 TTTTTCT
1 TTTTTCT
*
153774 TTTTTTT
1 TTTTTCT
153781 TTTCTTCT
1 TTT-TTCT
153789 TTTTTCT
1 TTTTTCT
153796 TTTTT-T
1 TTTTTCT
*
153802 CTTTTC-
1 TTTTTCT
153808 TTTTTCGT
1 TTTTTC-T
153816 TTTTTCCT
1 TTTTT-CT
* *
153824 TCTCTCT
1 TTTTTCT
*
153831 TTCCTT-T
1 TT-TTTCT
153838 TTTTTCT
1 TTTTTCT
153845 TTTTTCCT
1 TTTTT-CT
153853 TTTTTACT
1 TTTTT-CT
153861 TTT
1 TTT
153864 CTTGTTCTTT
Statistics
Matches: 114, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
6 21 0.18
7 50 0.44
8 34 0.30
9 9 0.08
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:153747 original size:37 final size:36
Alignment explanation
Indices: 153695--153887 Score: 128
Period size: 37 Copynumber: 5.2 Consensus size: 36
153685 ATTGGATATG
*
153695 TTTTTTTCTTCTTTCTTTCACCTTTTTCTTTTTTTCC
1 TTTTTTTCTTTTTTCTTTC-CCTTTTTCTTTTTTTCC
153732 TTTTTTTCTTTTTTC-TT--CTTTCTTCTTCTTTTT-C
1 TTTTTTTCTTTTTTCTTTCCCTTT-TTCTT-TTTTTCC
* * *
153766 -TTTTTTCTTTTTTTTTTTCTTCTTTTTTCTTTTTTTCTT
1 TTTTTTTC-TTTTTTCTTTC--CCTTTTTCTTTTTTTC-C
* * * *
153805 TTCTTTTTCGTTTTTTCCTTCTCTCTTTCCTTTTTTTTC
1 TT-TTTTTC-TTTTTTCTTTCCCT-TTTTCTTTTTTTCC
* * * *
153844 TTTTTTCCTTTTTTACTTT-TCTTGTTCTTTTTATTCT
1 TTTTTTTCTTTTTT-CTTTCCCTTTTTCTTTTT-TTCC
153881 TTTTTTT
1 TTTTTTT
153888 TCTATATCTC
Statistics
Matches: 122, Mismatches: 19, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
33 11 0.09
34 12 0.10
35 7 0.06
36 10 0.08
37 36 0.30
38 13 0.11
39 6 0.05
40 12 0.10
41 15 0.12
ACGTcount: A:0.02, C:0.19, G:0.01, T:0.78
Consensus pattern (36 bp):
TTTTTTTCTTTTTTCTTTCCCTTTTTCTTTTTTTCC
Found at i:153902 original size:57 final size:52
Alignment explanation
Indices: 153717--153909 Score: 158
Period size: 56 Copynumber: 3.5 Consensus size: 52
153707 TTCTTTCACC
153717 TTTTTCTTTTT-TTCCTTTTTTTCTTTTTTCTTCTTTCTTCTTCTTTTTCTT-TTTT
1 TTTTTCTTTTTCTT-C-TTTTTTCTTTTTTC-T-TTTCTTCTTCTTTTT-TTCTTTT
* * *
153772 CTTTTTTTTTTTCTTCTTTTTTCTTTTTTTCTTTTCTTTTTCGTTTTTTCCTTCTCT
1 -TTTTTCTTTTTCTTCTTTTTTC-TTTTTTCTTTTCTTCTTC-TTTTTTTCTT-T-T
* * * *
153829 CTTTCCTTTTTTTTCTTTTTTCCTTTTTTACTTTTCTTGTTCTTTTTATTCTTTT
1 TTTTTCTTTTTCTTCTTTTTT-CTTTTTT-CTTTTCTTCTTCTTTTT-TTCTTTT
*
153884 TTTTTCTATATCTCTTC-TTTTTCTTT
1 TTTTTCT-T-TTTCTTCTTTTTTCTTT
153910 ATGTGTTGTC
Statistics
Matches: 113, Mismatches: 13, Indels: 23
0.76 0.09 0.15
Matches are distributed among these distances:
54 10 0.09
55 25 0.22
56 54 0.48
57 24 0.21
ACGTcount: A:0.02, C:0.19, G:0.01, T:0.78
Consensus pattern (52 bp):
TTTTTCTTTTTCTTCTTTTTTCTTTTTTCTTTTCTTCTTCTTTTTTTCTTTT
Found at i:155691 original size:149 final size:149
Alignment explanation
Indices: 155416--155705 Score: 400
Period size: 149 Copynumber: 1.9 Consensus size: 149
155406 TTGTCTTCAA
* ** * *
155416 AGCTTCTACTTCATCTCCTACTTTTAGAAACCTTTCGAGCTGGTTCGTGATCTTCAACTGTTGGC
1 AGCTCCTACTTCATCTCCTACTTCCAGAAACCTTTCAAGCTGATTCGTGATCTTCAACTGTTGGC
* * *
155481 TTCAACATCAAATCGTCTCAAGACCAACTTGTTACCTCGGCAAGCAGATGTCTAGCTCGTCTCCT
66 TTCAACATCAAATCATCTCAAGACCAACTTGTTACCTCAGCAAGCAGATGACTAGCTCGTCTCCT
*
155546 TGGTAGGTAGACTCCCTCT
131 TGGTAGATAGACTCCCTCT
* * **
155565 AGCTCCTACTTCATCTCCTACTTCCAGAAATCTTTTAATTTGATTCGTGATCTTCAACTGTTGGC
1 AGCTCCTACTTCATCTCCTACTTCCAGAAACCTTTCAAGCTGATTCGTGATCTTCAACTGTTGGC
* * * * * * *
155630 TTCAGCATCGAATCATCTCGAGTCCAACTTTTTACCTCAGCAGGCAGATGACTGGCTCGTCTCCT
66 TTCAACATCAAATCATCTCAAGACCAACTTGTTACCTCAGCAAGCAGATGACTAGCTCGTCTCCT
155695 TGGTAGATAGA
131 TGGTAGATAGA
155706 ATCTCCACTG
Statistics
Matches: 121, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
149 121 1.00
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.33
Consensus pattern (149 bp):
AGCTCCTACTTCATCTCCTACTTCCAGAAACCTTTCAAGCTGATTCGTGATCTTCAACTGTTGGC
TTCAACATCAAATCATCTCAAGACCAACTTGTTACCTCAGCAAGCAGATGACTAGCTCGTCTCCT
TGGTAGATAGACTCCCTCT
Found at i:158009 original size:22 final size:22
Alignment explanation
Indices: 157984--158043 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
157974 AAAAATTAAA
157984 AAATTAAAATATAACAGT-AGCT
1 AAATTAAAATATAACAGTGA-CT
*
158006 AAATCAAAA-ACTAACAGTGACT
1 AAATTAAAATA-TAACAGTGACT
*
158028 AAATTAAAATAAAACA
1 AAATTAAAATATAACA
158044 AAATAGAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 1 0.03
22 29 0.91
23 2 0.06
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.22
Consensus pattern (22 bp):
AAATTAAAATATAACAGTGACT
Found at i:159353 original size:23 final size:24
Alignment explanation
Indices: 159327--159373 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
159317 CTTAGGTAGG
159327 AAATTA-GTGTTTTA-GAGATTTGA
1 AAATTATG-GTTTTATGAGATTTGA
*
159350 AAATTATGGTTTTATGAGTTTTGA
1 AAATTATGGTTTTATGAGATTTGA
159374 GGTATTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (24 bp):
AAATTATGGTTTTATGAGATTTGA
Found at i:161282 original size:18 final size:17
Alignment explanation
Indices: 161254--161287 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
161244 TCAGCCGTTC
161254 CGGTTCGATCGGTTCAT
1 CGGTTCGATCGGTTCAT
161271 CGGTTCCGATCGGTTCA
1 CGGTT-CGATCGGTTCA
161288 CTAGTAGCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.12, C:0.26, G:0.29, T:0.32
Consensus pattern (17 bp):
CGGTTCGATCGGTTCAT
Found at i:161284 original size:10 final size:9
Alignment explanation
Indices: 161254--161286 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
161244 TCAGCCGTTC
161254 CGGTTCGAT
1 CGGTTCGAT
161263 CGGTTC-AT
1 CGGTTCGAT
161271 CGGTTCCGAT
1 CGGTT-CGAT
161281 CGGTTC
1 CGGTTC
161287 ACTAGTAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.32
9 8 0.36
10 7 0.32
ACGTcount: A:0.09, C:0.27, G:0.30, T:0.33
Consensus pattern (9 bp):
CGGTTCGAT
Found at i:161783 original size:87 final size:87
Alignment explanation
Indices: 161653--161815 Score: 283
Period size: 87 Copynumber: 1.9 Consensus size: 87
161643 TATATTATAT
*
161653 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAAATGTAATATG
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATAT-AATGTAATATG
161718 TAGCGCTTATATAATAAAATAGG
65 TAGCGCTTATATAATAAAATAGG
* *
161741 CATTTAACCGGAAATATT-TTAAGTACAATAACAAATTAGGTAGCGCTTATATAATGTAATATGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATATGT
161805 AGCGCTTATAT
66 AGCGCTTATAT
161816 TGACCTATTT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
86 23 0.32
87 31 0.43
88 18 0.25
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATATGT
AGCGCTTATATAATAAAATAGG
Found at i:162167 original size:198 final size:197
Alignment explanation
Indices: 161834--162326 Score: 557
Period size: 198 Copynumber: 2.5 Consensus size: 197
161824 TTTCTCATAA
* * * * * *
161834 AACCGGTAAATTTAAACCGGTTACATTATAAATTGACCTATTACATTAT-GTATATCGGTTTCGA
1 AACCGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAAT-TATCGGTTTTGA
** * * *
161898 TATTTTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCAACTAGTTTGTGCTT
65 T-TTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTACAACTAGGTTGTCCTT
* * * *
161962 TATTTTGGAAAAAAGTATAGACACATATTTAAATAGTGTCGATACATAATGTAGACCTATT-TGC
129 CATTTTGGAAAAAAGTATAGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTCT-C
*
162026 TAATT
193 TAATG
* * * *
162031 AACCGGTATATTTTAACCAGTTACATTGTAAATTTACCTGTTACATAATAATTATCGATTTTGAT
1 AACCGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGAT
* * * *
162096 GTTTCGAGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTACACCTCGGTTG-CCATT
66 TTTTTG-GGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTACAACTAGGTTGTCC-TT
* * * * *
162160 CATTTTGGAAAAATGTATCGACACAAATTAAAAAAGTGTCGATACTTTATGTTGACCTATTCTCT
129 CATTTTGGAAAAAAGTATAGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTCTCT
*
162225 CATG
194 AATG
* *
162229 AACCCGATATATTTCT-ACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTCTCT
1 AA-CCGGTATATTT-TAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGT-T-T
* *
162293 T-TTTTTTTGGGATCGATACTTGTTATAAATGTAT
62 TGATTTTTTGGGATCGATACTTTTTATAAATGTAT
162327 TTACACAAAA
Statistics
Matches: 247, Mismatches: 40, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
196 4 0.02
197 67 0.27
198 93 0.38
199 74 0.30
200 7 0.03
201 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (197 bp):
AACCGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGAT
TTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTACAACTAGGTTGTCCTTCA
TTTTGGAAAAAAGTATAGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTCTCTAA
TG
Found at i:165801 original size:17 final size:17
Alignment explanation
Indices: 165779--165814 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
165769 GAATCATTAG
165779 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
165796 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
165813 GA
1 GA
165815 AATATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (17 bp):
GATTAATATCTTTTCAT
Found at i:168795 original size:17 final size:17
Alignment explanation
Indices: 168773--168808 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
168763 GAATCATTAG
168773 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
168790 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
168807 GA
1 GA
168809 AATATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (17 bp):
GATTAATATCTTTTCAT
Found at i:169133 original size:18 final size:18
Alignment explanation
Indices: 169110--169148 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
169100 TTCTCCTCAT
169110 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
169128 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
169146 TTC
1 TTC
169149 AAATTTTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:169523 original size:15 final size:15
Alignment explanation
Indices: 169503--169532 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
169493 ACTATGTTTT
169503 CCCTGACCGTAATCC
1 CCCTGACCGTAATCC
*
169518 CCCTGACCGTCATCC
1 CCCTGACCGTAATCC
169533 ACCCCTCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.50, G:0.13, T:0.20
Consensus pattern (15 bp):
CCCTGACCGTAATCC
Found at i:169573 original size:9 final size:9
Alignment explanation
Indices: 169559--169592 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
169549 CTTCTTCCCT
169559 CTCCTCTGC
1 CTCCTCTGC
169568 CTCCTCTGC
1 CTCCTCTGC
*
169577 CTTCTCTGC
1 CTCCTCTGC
169586 CTCCTCT
1 CTCCTCT
169593 ACGTCCTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.00, C:0.53, G:0.09, T:0.38
Consensus pattern (9 bp):
CTCCTCTGC
Found at i:169858 original size:22 final size:24
Alignment explanation
Indices: 169830--169885 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
169820 AACCTGTATT
169830 TATAATAAAAT-TA-ATCATTTTA
1 TATAATAAAATATACATCATTTTA
*
169852 TATAAT-AACTATACCATCATTTTA
1 TATAATAAAATATA-CATCATTTTA
*
169876 TATAAAAAAA
1 TATAATAAAA
169886 CAAAAACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.11
22 8 0.30
24 14 0.52
25 2 0.07
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (24 bp):
TATAATAAAATATACATCATTTTA
Found at i:171247 original size:17 final size:17
Alignment explanation
Indices: 171225--171258 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
171215 ACCTCCCTAT
171225 TTCCTTCAAATGAATGG
1 TTCCTTCAAATGAATGG
171242 TTCCTTCAAATGAATGG
1 TTCCTTCAAATGAATGG
171259 GAACACTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (17 bp):
TTCCTTCAAATGAATGG
Found at i:171826 original size:20 final size:20
Alignment explanation
Indices: 171780--171826 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
171770 ACTGGTAGCG
171780 CTTTACCGGTTTTGTCATTT
1 CTTTACCGGTTTTGTCATTT
**
171800 CGATACCGGTTTTGTCATATT
1 CTTTACCGGTTTTGTCAT-TT
171821 -TTTACC
1 CTTTACC
171827 TATTATATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (20 bp):
CTTTACCGGTTTTGTCATTT
Found at i:173143 original size:182 final size:182
Alignment explanation
Indices: 171754--173126 Score: 2177
Period size: 182 Copynumber: 7.6 Consensus size: 182
171744 ATTAAAGTAC
* * * ** * * *
171754 CGACACTTTCAACATAACTGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCGGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
* * * **
171819 TTTTTACCTATTATATTGTTATGGATCGATACATTT-TCATAAAGTATCGATGCTTTTTAGGCGC
66 TTATTACCTGTTATATTGCTATGGATCGATACATTTGT-ATAAAGTATCGACACTTTTTAGGCGC
* **
171883 TATAATTTCTTCTCTTTTAAATTATGAAAGTGTCGATACTTATATTAATTTAT
130 TATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
*
171936 CGACACTTTCAATATATCCGGTAACTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
*
172001 TTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAATATCGACACTTTTTAGGCGCT
66 TTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCT
* *
172066 ATAACTGCTTCTCTTTTAAATATA-AAAAGTGTCGATAATTATATTAATTTAT
131 ATAACTTCTTCTCTTTTAAAT-TACAAAAGTGTCGATACTTATATTAATTTAT
172118 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
* * *
172183 TTATTACATGTTATATTGCTATGGATCGATATATTTGTATAAAGTATCGACACTTTTTAGGCTCT
66 TTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCT
172248 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
131 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* *
172300 CGACACTTTCAATATATCCGGTATCTTTTTACCGGTTTTATCATTTCGATACCTGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
*
172365 TTATTACCTGTTATATTGCTATGGATCGATACA-TTGTATAAAGTATCGATACTTTTTAGGCGCT
66 TTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCT
172429 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
131 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
*
172481 CGACACTTTCAATATATCCGGTATG-TTTTTATCGGTTTTATCATTTCGAGACCTGTTTTGTCAT
1 CGACACTTTCAATATATCCGGTA-GCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCAT
* * *
172545 ATTATTACCTGTTATATTGATATGGATCGATACATTTGTATAAA-TATCAACAATTTTTAGGCGC
65 ATTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGC
172609 TATAACTTCTTCTCTTTTAAA-TATCAAAAGTGTCGATACTTATATTAATTTAT
130 TATAACTTCTTCTCTTTTAAATTA-CAAAAGTGTCGATACTTATATTAATTTAT
*
172662 CGACACTTTCAATATATCCGATAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
* *
172727 TTATTACCTGTTATATTGCTATGGATTGATACATTTGTATAAAGTATTGACACTTTTTAGGCGCT
66 TTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCT
172792 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
131 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* ** * * * *
172844 CAACACTTTCAATATATCCGGTAGCGGTTTACCGGTTTTATCATAAT-GACACCGGTTTTGTCAC
1 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCAT-TTCGAGACCTGTTTTGTCAT
* *
172908 ATTATTACCTGTTATATTACTATGGATCGATACATTTGTATAAAGTATCGACACTTTATAGGCGC
65 ATTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGC
172973 TATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
130 TATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
** * * * * *
173026 CGACACTTTCAATATATCCGGTAGCGGTTTACCGATTTTATCATAAT-GACACCGGTTTTATCAT
1 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCAT-TTCGAGACCTGTTTTGTCAT
* *
173090 ATTTTTACCTGTTATATTTCTATGGATCGATACATTT
65 ATTATTACCTGTTATATTGCTATGGATCGATACATTT
173127 TTCATTTGTA
Statistics
Matches: 1117, Mismatches: 64, Indels: 20
0.93 0.05 0.02
Matches are distributed among these distances:
180 3 0.00
181 345 0.31
182 763 0.68
183 6 0.01
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
TTATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCT
ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
Found at i:175388 original size:54 final size:54
Alignment explanation
Indices: 175306--175413 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
175296 TAATAATCCT
175306 CACATATATATTTCACAAAGCGATCAAAGTGATAGATGATATGACCAAAATGGC
1 CACATATATATTTCACAAAGCGATCAAAGTGATAGATGATATGACCAAAATGGC
* *
175360 CACATATATATTTCACAAAGGGATCAAAGTGATAGATGATATGACTAAAATGGC
1 CACATATATATTTCACAAAGCGATCAAAGTGATAGATGATATGACCAAAATGGC
175414 ATGGGATCTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.25
Consensus pattern (54 bp):
CACATATATATTTCACAAAGCGATCAAAGTGATAGATGATATGACCAAAATGGC
Found at i:176297 original size:20 final size:21
Alignment explanation
Indices: 176254--176297 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
176244 TAATACTATA
*
176254 AAATAAGAGTCTTTTTAACCT
1 AAATAAGAGTCTTTTTAAACT
* *
176275 AAATAGGAGTC-TTTTAAATT
1 AAATAAGAGTCTTTTTAAACT
176295 AAA
1 AAA
176298 ATGAAATGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (21 bp):
AAATAAGAGTCTTTTTAAACT
Found at i:176299 original size:21 final size:22
Alignment explanation
Indices: 176252--176299 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
176242 ATTAATACTA
*
176252 TAAAATAAGAGTCTTTTTAACC
1 TAAAATAAGAGTCTTTTTAAAC
* *
176274 T-AAATAGGAGTC-TTTTAAAT
1 TAAAATAAGAGTCTTTTTAAAC
176294 TAAAAT
1 TAAAAT
176300 GAAATGTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 14 0.64
22 1 0.05
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (22 bp):
TAAAATAAGAGTCTTTTTAAAC
Found at i:179477 original size:16 final size:15
Alignment explanation
Indices: 179442--179477 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
179432 AACGTCTTTT
179442 AAAAATAATTTTAAG
1 AAAAATAATTTTAAG
*
179457 AAAAATCATTTTAAG
1 AAAAATAATTTTAAG
179472 ACAAAA
1 A-AAAA
179478 ACTGGTCCGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (15 bp):
AAAAATAATTTTAAG
Found at i:181569 original size:3 final size:3
Alignment explanation
Indices: 181549--181603 Score: 64
Period size: 3 Copynumber: 19.3 Consensus size: 3
181539 AAATATGTAA
181549 AAT AAT -AT AAT -AT CAAT AAT -AT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
181592 AAT -TT AAT AAT A
1 AAT AAT AAT AAT A
181604 TTTTAACCCG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 7 0.16
3 36 0.80
4 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:181569 original size:17 final size:17
Alignment explanation
Indices: 181549--181603 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
181539 AAATATGTAA
181549 AATAAT-ATAATATCAAT
1 AATAATAATAATAT-AAT
181566 AAT-ATAATAATAATAAT
1 AATAATAATAAT-ATAAT
*
181583 AATAATAATAATTTAAT
1 AATAATAATAATATAAT
181600 AATA
1 AATA
181604 TTTTAACCCG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
16 2 0.06
17 22 0.65
18 10 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAATAATAATATAAT
Found at i:181599 original size:14 final size:14
Alignment explanation
Indices: 181549--181603 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
181539 AAATATGTAA
181549 AATAATATAAT-AT
1 AATAATATAATAAT
181562 CAATAATATAATAAT
1 -AATAATATAATAAT
181577 AAT-A-ATAATAAT
1 AATAATATAATAAT
*
181589 AATAATTTAATAAT
1 AATAATATAATAAT
181603 A
1 A
181604 TTTTAACCCG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
12 11 0.30
13 2 0.05
14 22 0.59
15 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:195042 original size:25 final size:23
Alignment explanation
Indices: 195021--195065 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
195011 TACTATACTC
*
195021 TATGTACACACTATATATTATACA
1 TATG-ACAAACTATATATTATACA
*
195045 TATGCCAAACTATATATTATA
1 TATGACAAACTATATATTATA
195066 TACTACATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (23 bp):
TATGACAAACTATATATTATACA
Found at i:195926 original size:215 final size:215
Alignment explanation
Indices: 195670--196064 Score: 574
Period size: 215 Copynumber: 1.8 Consensus size: 215
195660 TTTGTGATAG
* * * *
195670 AATCGAACAAGATAAAATTGCGTTGATTCAACTCCTTTTGTGAAGAATCGAACGGAATGACACTA
1 AATCGAAAAAGATAAAATTACGTTGATTCAACTCATTTTGTGAAGAATCGAACGAAATGACACTA
* * * * *
195735 TTGACCAAAATCCTTCTGTGGAGAATCAATCAAAATGTCGAAGTTGTTATATCTCATTCTGTGAT
66 TTGACCAAAATCCATATGTGGAGAATCAAACAAAATGTCGAAGTTGATATACCTCATTCTGTGAT
* * *
195800 AGAATCGAGCAAGATGAAATTACGCTGATCCAACTCCTTCTGTGAAGAATTAAGCAAAAGGTTGG
131 AGAATCAAACAAAATGAAATTACGCTGATCCAACTCCTTCTGTGAAGAATTAAGCAAAAGGTTGG
195865 TACTTATCCATCTTTGATGA
196 TACTTATCCATCTTTGATGA
* *
195885 AATCGAAAAAGATAAAATTACGTTGATTCAACTCATTTTGTGAAGAATCGATCGAAATGATACTA
1 AATCGAAAAAGATAAAATTACGTTGATTCAACTCATTTTGTGAAGAATCGAACGAAATGACACTA
* * * * *
195950 TTGACCTAATTCCATATGTGGAGGATCAAACAAAATGTCGATGTTGATCTACCTCATTCTGTGAT
66 TTGACCAAAATCCATATGTGGAGAATCAAACAAAATGTCGAAGTTGATATACCTCATTCTGTGAT
* ** * *
196015 AGAATTAAACAAAATGATGTTATGTTGATCCAACTCCTTCTGTGAAGAAT
131 AGAATCAAACAAAATGAAATTACGCTGATCCAACTCCTTCTGTGAAGAAT
196065 CGAACAAAAT
Statistics
Matches: 156, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
215 156 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (215 bp):
AATCGAAAAAGATAAAATTACGTTGATTCAACTCATTTTGTGAAGAATCGAACGAAATGACACTA
TTGACCAAAATCCATATGTGGAGAATCAAACAAAATGTCGAAGTTGATATACCTCATTCTGTGAT
AGAATCAAACAAAATGAAATTACGCTGATCCAACTCCTTCTGTGAAGAATTAAGCAAAAGGTTGG
TACTTATCCATCTTTGATGA
Found at i:196056 original size:46 final size:46
Alignment explanation
Indices: 195974--196111 Score: 119
Period size: 46 Copynumber: 3.1 Consensus size: 46
195964 TATGTGGAGG
* * * *
195974 ATCAAACAAAAT-GTCG-ATGTTGATCTACCTCATTCTGTGATAGA
1 ATCAAACAAAATATTGGTATGTTGATCCAACTCATTCTGTGATAGA
* * *
196018 ATTAAACAAAATGA-TGTTATGTTGATCCAACTCCTTCTGTGA-AGA
1 ATCAAACAAAAT-ATTGGTATGTTGATCCAACTCATTCTGTGATAGA
* * *
196063 ATCGAACAAAATATTGGTA--TTGATCCATCTCTTTCTGTGAT-GAA
1 ATCAAACAAAATATTGGTATGTTGATCCAACTCATTCTGTGATAG-A
196107 ATCAA
1 ATCAA
196112 GCACCGAAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
43 20 0.26
44 17 0.22
45 18 0.24
46 21 0.28
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (46 bp):
ATCAAACAAAATATTGGTATGTTGATCCAACTCATTCTGTGATAGA
Found at i:196612 original size:10 final size:10
Alignment explanation
Indices: 196594--196640 Score: 60
Period size: 11 Copynumber: 4.6 Consensus size: 10
196584 CAGACTTCCA
*
196594 CTTTATTTTT
1 CTTTTTTTTT
196604 C-TTTTTTTT
1 CTTTTTTTTT
196613 CTTTTTTTTTT
1 C-TTTTTTTTT
196624 CTTTTTTTTT
1 CTTTTTTTTT
196634 CTCTTTT
1 CT-TTTT
196641 GCAACTGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
9 8 0.24
10 12 0.36
11 13 0.39
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:196621 original size:11 final size:11
Alignment explanation
Indices: 196605--196640 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
196595 TTTATTTTTC
196605 TTTTTTTTCTT
1 TTTTTTTTCTT
196616 TTTTTTTTCTT
1 TTTTTTTTCTT
196627 TTTTTTTCTCTT
1 TTTTTTT-TCTT
196639 TT
1 TT
196641 GCAACTGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:196622 original size:12 final size:12
Alignment explanation
Indices: 196605--196640 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
196595 TTTATTTTTC
196605 TTTTTTTTC-TT
1 TTTTTTTTCTTT
196616 TTTTTTTTCTTT
1 TTTTTTTTCTTT
*
196628 TTTTTTCTCTTT
1 TTTTTTTTCTTT
196640 T
1 T
196641 GCAACTGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:196640 original size:9 final size:9
Alignment explanation
Indices: 196594--196632 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
196584 CAGACTTCCA
196594 CTTTATTTTT
1 CTTT-TTTTT
196604 CTTTTTTTT
1 CTTTTTTTT
196613 CTTTTTTTTTT
1 C--TTTTTTTT
196624 CTTTTTTTT
1 CTTTTTTTT
196633 TCTCTTTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 14 0.52
10 4 0.15
11 9 0.33
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:199661 original size:15 final size:15
Alignment explanation
Indices: 199641--199674 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
199631 AACCTTACCC
*
199641 GCCCCGCATCTGCCT
1 GCCCCGCATCCGCCT
*
199656 GCCCCGTATCCGCCT
1 GCCCCGCATCCGCCT
199671 GCCC
1 GCCC
199675 ACTAAATACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.56, G:0.21, T:0.18
Consensus pattern (15 bp):
GCCCCGCATCCGCCT
Found at i:205463 original size:18 final size:20
Alignment explanation
Indices: 205423--205467 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
205413 TAGTATCGTC
*
205423 ATAGTAATAAGTAAAATACA
1 ATAGTAATAACTAAAATACA
205443 ATAGTAATAACT-AAA-ACA
1 ATAGTAATAACTAAAATACA
205461 ATAGTAA
1 ATAGTAA
205468 AACCTAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.42
19 3 0.12
20 11 0.46
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.24
Consensus pattern (20 bp):
ATAGTAATAACTAAAATACA
Found at i:209611 original size:21 final size:21
Alignment explanation
Indices: 209575--209629 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
209565 AACCTTACCC
* *
209575 AATCAAAAAAGATTTGTGACA
1 AATCCAAAAAGGTTTGTGACA
*
209596 AATCCAACAAGGTTTGTGACA
1 AATCCAAAAAGGTTTGTGACA
209617 AATCCAAAAAGGT
1 AATCCAAAAAGGT
209630 ATGGGGTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.22
Consensus pattern (21 bp):
AATCCAAAAAGGTTTGTGACA
Found at i:217399 original size:20 final size:20
Alignment explanation
Indices: 217374--217411 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
217364 TTTGGTTCAC
217374 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
217394 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
217412 GGAATAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:223811 original size:6 final size:6
Alignment explanation
Indices: 223794--223839 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
223784 CTCGATCAAG
223794 GCTCGA -CTCGA GCTCGA GCTCG- GACTCGA -CTCGA GCTCGA GCTCGA
1 GCTCGA GCTCGA GCTCGA GCTCGA G-CTCGA GCTCGA GCTCGA GCTCGA
223840 CTTGAGTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 11 0.31
6 25 0.69
ACGTcount: A:0.17, C:0.35, G:0.30, T:0.17
Consensus pattern (6 bp):
GCTCGA
Found at i:223822 original size:23 final size:23
Alignment explanation
Indices: 223795--223838 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
223785 TCGATCAAGG
223795 CTCGACTCGAGCTCGAGCTCGGA
1 CTCGACTCGAGCTCGAGCTCGGA
223818 CTCGACTCGAGCTCGAGCTCG
1 CTCGACTCGAGCTCGAGCTCG
223839 ACTTGAGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.16, C:0.36, G:0.30, T:0.18
Consensus pattern (23 bp):
CTCGACTCGAGCTCGAGCTCGGA
Found at i:224335 original size:25 final size:26
Alignment explanation
Indices: 224307--224361 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
224297 TTAATAAAAA
224307 AATAT-TTATCTAATGACAA-ATATTT
1 AATATATT-TCTAATGACAATATATTT
* *
224332 AATATATTTCTAATGATAATATTTTT
1 AATATATTTCTAATGACAATATATTT
224358 AATA
1 AATA
224362 ACTAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (26 bp):
AATATATTTCTAATGACAATATATTT
Found at i:224534 original size:21 final size:21
Alignment explanation
Indices: 224510--224556 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
224500 TTGTAATGAA
*
224510 CCCTAAACCCTAATTCTTAAT
1 CCCTAAACCCTAATCCTTAAT
*
224531 CCCTAAACCCTAATCCTTGAT
1 CCCTAAACCCTAATCCTTAAT
224552 CCCTA
1 CCCTA
224557 CGTCATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.38, G:0.02, T:0.30
Consensus pattern (21 bp):
CCCTAAACCCTAATCCTTAAT
Found at i:225999 original size:16 final size:16
Alignment explanation
Indices: 225980--226013 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
225970 TGAAGTTTTT
225980 TTTTTTTGAGTTTAAG
1 TTTTTTTGAGTTTAAG
*
225996 TTTTTTTGAGTTTGAG
1 TTTTTTTGAGTTTAAG
226012 TT
1 TT
226014 GAGTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.65
Consensus pattern (16 bp):
TTTTTTTGAGTTTAAG
Found at i:226077 original size:70 final size:70
Alignment explanation
Indices: 225982--226130 Score: 217
Period size: 70 Copynumber: 2.1 Consensus size: 70
225972 AAGTTTTTTT
* ** * * * * *
225982 TTTTTGAGTTTAAGTTTTTTTGAGTTTGAGTTGAGTTTTAATATTTTTTTTCGAGTTTGAGGTTT
1 TTTTCGAGTTTAAGCCTTTTTGAGTTCGAGTCGAGCTTTAATATTATCTTTCGAGTTTGAGGTTT
*
226047 TCGAG
66 GCGAG
226052 TTTTCGAGTTTAAGCCTTTTTGAGTTCGAGTCGAGCTTTAATATTATCTTTCGAGTTTGAGGTTT
1 TTTTCGAGTTTAAGCCTTTTTGAGTTCGAGTCGAGCTTTAATATTATCTTTCGAGTTTGAGGTTT
226117 GCGAG
66 GCGAG
226122 TTTTCGAGT
1 TTTTCGAGT
226131 CGAGTTTACA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.17, C:0.08, G:0.23, T:0.51
Consensus pattern (70 bp):
TTTTCGAGTTTAAGCCTTTTTGAGTTCGAGTCGAGCTTTAATATTATCTTTCGAGTTTGAGGTTT
GCGAG
Found at i:226316 original size:23 final size:23
Alignment explanation
Indices: 226289--226344 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 23
226279 ACTATTTTCT
226289 TTCTTCCAATGTTGTTAACATAC
1 TTCTTCCAATGTTGTTAACATAC
226312 TTCTT---A-GTATGTTAACATAC
1 TTCTTCCAATGT-TGTTAACATAC
226332 TTCTTCCAATGTT
1 TTCTTCCAATGTT
226345 TTAGTATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
19 2 0.07
20 17 0.61
23 7 0.25
24 2 0.07
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.46
Consensus pattern (23 bp):
TTCTTCCAATGTTGTTAACATAC
Found at i:228908 original size:20 final size:19
Alignment explanation
Indices: 228864--228908 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
228854 TAATTCACAT
* *
228864 ATCTCATGTTCATATGATC
1 ATCTTATGTTCATATCATC
228883 -TCTTATGTTCATATCATC
1 ATCTTATGTTCATATCATC
228901 GATCTTAT
1 -ATCTTAT
228909 AACAAATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 16 0.73
20 6 0.27
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (19 bp):
ATCTTATGTTCATATCATC
Found at i:231188 original size:24 final size:24
Alignment explanation
Indices: 231159--231218 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
231149 GCATAGATAG
231159 TGCATCGATGCACCCGTCTAGGGA
1 TGCATCGATGCACCCGTCTAGGGA
* *
231183 TGCATCGATACACTCGTCTAGGGA
1 TGCATCGATGCACCCGTCTAGGGA
231207 TGCATCGATGCA
1 TGCATCGATGCA
231219 TGCTTCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (24 bp):
TGCATCGATGCACCCGTCTAGGGA
Found at i:238854 original size:23 final size:23
Alignment explanation
Indices: 238811--238855 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
238801 TTGGTTTCCA
*
238811 AACATTAAACAGACATATTCACG
1 AACATTAAACAAACATATTCACG
* *
238834 AACATTAAACAAATATGTTCAC
1 AACATTAAACAAACATATTCAC
238856 TAACGTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (23 bp):
AACATTAAACAAACATATTCACG
Found at i:253647 original size:2 final size:2
Alignment explanation
Indices: 253640--253672 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
253630 GCTCATAATG
253640 TA TA 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 TA TA T
253673 CAAAATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:253730 original size:24 final size:23
Alignment explanation
Indices: 253692--253770 Score: 104
Period size: 24 Copynumber: 3.3 Consensus size: 23
253682 AACATAATTT
*
253692 AGGTCAAGTAGCATATCAGAATCC
1 AGGTCAAGTATCATATCA-AATCC
* *
253716 ATGTCAAGTATCATATAAAAATCC
1 AGGTCAAGTATCATAT-CAAATCC
253740 AGGTCAAGTATCATATCAAGATCC
1 AGGTCAAGTATCATATCAA-ATCC
253764 AGGTCAA
1 AGGTCAA
253771 AAACCATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 2 0.04
24 45 0.94
25 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (23 bp):
AGGTCAAGTATCATATCAAATCC
Found at i:253778 original size:24 final size:24
Alignment explanation
Indices: 253727--253782 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
253717 TGTCAAGTAT
** *
253727 CATATAAAAATCCAGGTCAAGTAT
1 CATATAAAAATCCAGGTCAAAAAC
* *
253751 CATATCAAGATCCAGGTCAAAAAC
1 CATATAAAAATCCAGGTCAAAAAC
253775 CATATAAA
1 CATATAAA
253783 CTATTCATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (24 bp):
CATATAAAAATCCAGGTCAAAAAC
Found at i:254556 original size:28 final size:29
Alignment explanation
Indices: 254473--254657 Score: 128
Period size: 28 Copynumber: 6.6 Consensus size: 29
254463 GAAAATAATC
**
254473 ATTTTCAAAA-AATTACCAAAATATCACC
1 ATTTTCAAAATAATTACCAAAATATCATT
*
254501 ATTTTCAAAACAATTACCAAAATATCATT
1 ATTTTCAAAATAATTACCAAAATATCATT
*
254530 ATTTT-AAAATAATTACTAAAATATCATT
1 ATTTTCAAAATAATTACCAAAATATCATT
* * ** *
254558 TTTTTTAAAAT--TTACCAAGTTATCTTT
1 ATTTTCAAAATAATTACCAAAATATCATT
* * * ** * * *
254585 TTTTTTAAAAAAATTATGAAATTAGCA-C
1 ATTTTCAAAATAATTACCAAAATATCATT
* * * **
254613 CTTTTCAAAATAATTACCAGAATAGCACC
1 ATTTTCAAAATAATTACCAAAATATCATT
*
254642 ATTTTCCAAATAATTA
1 ATTTTCAAAATAATTA
254658 TCAGAATAAC
Statistics
Matches: 127, Mismatches: 25, Indels: 9
0.79 0.16 0.06
Matches are distributed among these distances:
27 22 0.17
28 55 0.43
29 50 0.39
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTTTCAAAATAATTACCAAAATATCATT
Found at i:254655 original size:29 final size:28
Alignment explanation
Indices: 254607--254670 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
254597 ATTATGAAAT
254607 TAGCACCTTTTCAAAATAATTACCAGAA
1 TAGCACCTTTTCAAAATAATTACCAGAA
* *
254635 TAGCACCATTTTCCAAATAATTATCAGAA
1 TAGCACC-TTTTCAAAATAATTACCAGAA
*
254664 TAACACC
1 TAGCACC
254671 CGGTCAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 7 0.22
29 25 0.78
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.28
Consensus pattern (28 bp):
TAGCACCTTTTCAAAATAATTACCAGAA
Found at i:254704 original size:13 final size:13
Alignment explanation
Indices: 254686--254715 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
254676 AACGGTCAAT
254686 GGTCAACAGGTCG
1 GGTCAACAGGTCG
*
254699 GGTCAACGGGTCG
1 GGTCAACAGGTCG
254712 GGTC
1 GGTC
254716 GGGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:255368 original size:2 final size:2
Alignment explanation
Indices: 255361--255400 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
255351 CTATTTTTAT
* *
255361 TA TA TA TA TC T- TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
255401 GCATTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:255456 original size:17 final size:17
Alignment explanation
Indices: 255436--255496 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 17
255426 GTATATACAT
255436 TTTTTCTTAATATTATA
1 TTTTTCTTAATATTATA
**
255453 TTTTATGCGTTTTTATATATA
1 TTTT-T-C-TTAATAT-TATA
*
255474 TATTTTCTTAATATTCTA
1 T-TTTTCTTAATATTATA
255492 TTTTT
1 TTTTT
255497 GTTTTTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 6 0.18
21 6 0.18
22 3 0.09
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTTCTTAATATTATA
Found at i:255537 original size:5 final size:5
Alignment explanation
Indices: 255499--255566 Score: 52
Period size: 5 Copynumber: 13.8 Consensus size: 5
255489 CTATTTTTGT
* * *
255499 TTTTA -TTTA -TTTA TATATA TTATA TTATA TTTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA
* *
255549 TTTT- TTTTC TATTA TTTT
1 TTTTA TTTTA TTTTA TTTT
255567 TTTCTTAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
4 12 0.22
5 34 0.63
6 8 0.15
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:255563 original size:14 final size:14
Alignment explanation
Indices: 255531--255569 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
255521 TATTATATTT
*
255531 TTATTTTATTTTATT
1 TTATTTT-TTTTATA
*
255546 TTATTTTTTTTCTA
1 TTATTTTTTTTATA
255560 TTATTTTTTT
1 TTATTTTTTT
255570 CTTAATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (14 bp):
TTATTTTTTTTATA
Found at i:255775 original size:8 final size:9
Alignment explanation
Indices: 255760--255785 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
255750 AACATTTTGT
255760 TTATTTTTA
1 TTATTTTTA
255769 TTATTTTTA
1 TTATTTTTA
255778 TTATTTTT
1 TTATTTTT
255786 TACGTGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTATTTTTA
Found at i:258925 original size:11 final size:13
Alignment explanation
Indices: 258885--258933 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
258875 AGATTCAATC
*
258885 AAAACAAAAAGAG
1 AAAATAAAAAGAG
258898 AAAATAAAAAGAG
1 AAAATAAAAAGAG
*
258911 AAAATAAAAAGAA
1 AAAATAAAAAGAG
*
258924 AAAAGAAAAA
1 AAAATAAAAA
258934 AACAAAGGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.82, C:0.02, G:0.12, T:0.04
Consensus pattern (13 bp):
AAAATAAAAAGAG
Found at i:258944 original size:20 final size:18
Alignment explanation
Indices: 258898--258957 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
258888 ACAAAAAGAG
* *
258898 AAAATAAAAAGAGAAAATA
1 AAAAGAAAAA-AGAAAAAA
258917 AAAAGAAAAAAGAAAAAA
1 AAAAGAAAAAAGAAAAAA
**
258935 ACAAAGGAAAATTGAAAAAA
1 A-AAA-GAAAAAAGAAAAAA
258955 AAA
1 AAA
258958 GAAGACAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.23
19 14 0.40
20 13 0.37
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAAAA
Found at i:259129 original size:69 final size:69
Alignment explanation
Indices: 259018--259161 Score: 252
Period size: 69 Copynumber: 2.1 Consensus size: 69
259008 GATTCAAACT
*
259018 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
259083 TCAA
66 TCAA
* *
259087 ATGAGATTGATCGAGCACAATCATTTCCGAATCATTGAATCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
259152 TCAA
66 TCAA
*
259156 AAGAGA
1 ATGAGA
259162 GATACATACG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
TCAA
Found at i:261081 original size:65 final size:65
Alignment explanation
Indices: 261012--261176 Score: 188
Period size: 65 Copynumber: 2.5 Consensus size: 65
261002 TATGTTTTAT
* *
261012 TTGAAACAAATTTCATCTCCCTTAAGACAGTTTCTCTTGAAACATAAACATT-GAAAACATTTCC
1 TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTCTTGAAACA-AAACATTAGAAAACATTTCA
261076 C
65 C
** ** * ** * ** * *
261077 TTGAAACAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTATTAGAATATGTTTTAT
1 TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTCTTGAAACAAAACATTAGAAAACATTTCAC
261142 TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCT
1 TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCT
261177 TTTGGAACTA
Statistics
Matches: 80, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
64 5 0.06
65 75 0.94
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (65 bp):
TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTCTTGAAACAAAACATTAGAAAACATTTCAC
Found at i:262202 original size:106 final size:103
Alignment explanation
Indices: 262017--262382 Score: 360
Period size: 106 Copynumber: 3.5 Consensus size: 103
262007 ATGAAGGGGC
* * *
262017 TTCCCAGTTTCATAGCCAATTTCAACTTCACAGCTAGGGATATTGGACTTAAGACAACACAAGCT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAG--A-GGATATTGGACTCAAAACAACACAAGCT
*
262082 CAACTTCACAACGAAGGGGCGGCTGGCTGTCAACAAACATT
63 CAACTTCACAACGAAGGGGCGACTGGCTGTCAACAAACATT
*
262123 TTCCCAGTTTTAGAGCCAATTTCAACTTCACAGTGAGGGATATTGGACTCAAAACAACACAAGCT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACA--GA-GGATATTGGACTCAAAACAACACAAGCT
* * **
262188 CAAATTCATAACGAAGGGGCGACTGATTGTCAAC-AACAACTT
63 CAACTTCACAACGAAGGGGCGACTGGCTGTCAACAAAC-A-TT
* * * *
262230 TT--CAGTTTCATTCAGAGTCAATTTCAACTT--C-------ATTGAACTCGAGACAACACAAGC
1 TTCCCAG--T--TTCAGAGCCAATTTCAACTTCACAGAGGATATTGGACTCAAAACAACACAAGC
* *
262284 TCAACTTCACAGCGAAGGGGCGACTGGCTGTCAACAAACAAT
62 TCAACTTCACAACGAAGGGGCGACTGGCTGTCAACAAACATT
* *
262326 TTCCCAGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACTCGAAACAA
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCAC-A--GAGGATATTGGACTCAAAACAA
262383 TACTACCCAC
Statistics
Matches: 213, Mismatches: 24, Indels: 46
0.75 0.08 0.16
Matches are distributed among these distances:
94 18 0.08
96 5 0.02
97 51 0.24
98 6 0.03
105 6 0.03
106 102 0.48
107 6 0.03
108 1 0.00
109 18 0.08
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (103 bp):
TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGAGGATATTGGACTCAAAACAACACAAGCTCAA
CTTCACAACGAAGGGGCGACTGGCTGTCAACAAACATT
Found at i:263777 original size:2 final size:2
Alignment explanation
Indices: 263770--263813 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
263760 ACTATTTTAT
* *
263770 TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
263812 TA
1 TA
263814 GATGCATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:263964 original size:16 final size:17
Alignment explanation
Indices: 263940--263978 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
263930 TATATATATA
*
263940 TATTATATTTTTACT-T
1 TATTTTATTTTTACTAT
*
263956 TATTTTATTTTTTCTAT
1 TATTTTATTTTTACTAT
263973 TATTTT
1 TATTTT
263979 TTTCTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTATTTTTACTAT
Found at i:264257 original size:24 final size:25
Alignment explanation
Indices: 264212--264269 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
264202 TTTTATTATT
264212 TTATTATTATTTTTTACGTGTTTTG
1 TTATTATTATTTTTTACGTGTTTTG
* *
264237 TTATT-TTCATTTTTT-CTTGTTTTAT
1 TTATTATT-ATTTTTTACGTGTTTT-G
264262 TTATTATT
1 TTATTATT
264270 CTCACGTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 9 0.32
25 17 0.61
26 2 0.07
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (25 bp):
TTATTATTATTTTTTACGTGTTTTG
Found at i:270859 original size:24 final size:24
Alignment explanation
Indices: 270823--270923 Score: 130
Period size: 24 Copynumber: 4.2 Consensus size: 24
270813 CATAATACAA
* * *
270823 GTCAAGTAACATATCAGAATCCAT
1 GTCAAGTATCATATAAAAATCCAT
*
270847 ATCAAGTATCATATAAAAATCCAT
1 GTCAAGTATCATATAAAAATCCAT
*
270871 GTCAAGTATCATATAAAAATCCAG
1 GTCAAGTATCATATAAAAATCCAT
* * *
270895 GTCAAGTATCATATCAACATCCAG
1 GTCAAGTATCATATAAAAATCCAT
270919 GTCAA
1 GTCAA
270924 AAACCAGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCATATAAAAATCCAT
Found at i:271686 original size:29 final size:29
Alignment explanation
Indices: 271645--271815 Score: 116
Period size: 29 Copynumber: 6.0 Consensus size: 29
271635 AGTAGCATCA
* *
271645 TTTCAAAACAATTACCAAAATATCACCAT
1 TTTCAAAATAATTACCAAAATATCACCCT
** *
271674 TTTCAAAATAATTATTAAAATATCA-CTT
1 TTTCAAAATAATTACCAAAATATCACCCT
* * * * ***
271702 TTTTAAAAAAATTTACGAAATTATC-TTTT
1 TTTCAAAATAA-TTACCAAAATATCACCCT
* *
271731 TTTTAAAA-AATTA-CAAAATTAGCACCCT
1 TTTCAAAATAATTACCAAAA-TATCACCCT
* *
271759 TTTCAAAATAATTACCAGAATAGCACCCT
1 TTTCAAAATAATTACCAAAATATCACCCT
* * * *
271788 TTTCCAAATAATTATCAGAATAGCACCC
1 TTTCAAAATAATTACCAAAATATCACCC
271816 GGTTAATGAT
Statistics
Matches: 116, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.03
27 6 0.05
28 21 0.18
29 82 0.71
30 4 0.03
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.35
Consensus pattern (29 bp):
TTTCAAAATAATTACCAAAATATCACCCT
Found at i:274115 original size:85 final size:85
Alignment explanation
Indices: 273953--274118 Score: 235
Period size: 85 Copynumber: 2.0 Consensus size: 85
273943 ATACAATCAC
* *
273953 GACACACGAATGTGTGTTATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATA
1 GACACACAAATGTGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATA
* **
274018 AATGCGTGTCATAAATTTAT
66 AATGAGCCTCATAAATTTAT
* ** *
274038 GACACACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACGTGCAATG-AGTGTCAT
1 GACACACAAATGTGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTA-AGTCAT
274102 AAATGAGCCTCATAAAT
65 AAATGAGCCTCATAAAT
274119 GCGTGTCATA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 1 0.01
85 70 0.99
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (85 bp):
GACACACAAATGTGTGTCATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATA
AATGAGCCTCATAAATTTAT
Found at i:274133 original size:13 final size:13
Alignment explanation
Indices: 274090--274132 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
274080 AATGACGTGC
274090 AATGAGTGTCATA
1 AATGAGTGTCATA
**
274103 AATGAGCCTCATA
1 AATGAGTGTCATA
*
274116 AATGCGTGTCATA
1 AATGAGTGTCATA
274129 AATG
1 AATG
274133 CACATTATCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (13 bp):
AATGAGTGTCATA
Found at i:279846 original size:34 final size:35
Alignment explanation
Indices: 279786--279855 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
279776 GACTAAGACT
* *
279786 TTCCTGGATGTAACCTTTTTTGTAACAAATCTAAC
1 TTCCTAGATGTAACCTTTTTTCTAACAAATCTAAC
*
279821 TTCCTAGATGTAATC-TTTTTCTAACAAATCTAAC
1 TTCCTAGATGTAACCTTTTTTCTAACAAATCTAAC
279855 T
1 T
279856 CTTTGGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (35 bp):
TTCCTAGATGTAACCTTTTTTCTAACAAATCTAAC
Found at i:282035 original size:27 final size:25
Alignment explanation
Indices: 281996--282060 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
281986 TCGTTTGTAT
*
281996 TTTTTGAATTTTTGTGACTTTTTTTA
1 TTTTTG-ATTTTTGTGACCTTTTTTA
*
282022 GCTTTTTGATTTTTG-GCCCTTTTTTA
1 --TTTTTGATTTTTGTGACCTTTTTTA
282048 TTTTT-ATTTTTGT
1 TTTTTGATTTTTGT
282061 ATGAAAATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 7 0.21
24 5 0.15
26 9 0.26
27 7 0.21
28 6 0.18
ACGTcount: A:0.11, C:0.08, G:0.12, T:0.69
Consensus pattern (25 bp):
TTTTTGATTTTTGTGACCTTTTTTA
Found at i:284469 original size:26 final size:26
Alignment explanation
Indices: 284435--284495 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
284425 CCAGGAATTT
*
284435 ATTA-TGAAAATAACCGGATATGTAA
1 ATTACTGAAAATAACCGAATATGTAA
284460 ATTACTGAAAATAACCGAATATGTAA
1 ATTACTGAAAATAACCGAATATGTAA
284486 ATTACTGAAA
1 ATTACTGAAA
284496 TCCTTATATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (26 bp):
ATTACTGAAAATAACCGAATATGTAA
Found at i:284935 original size:6 final size:6
Alignment explanation
Indices: 284924--284967 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
284914 TCAATTGAGT
284924 ATCTAA ATCTAA ATCTAA ATCTAA ATCTAA ATCTAA ATCTAA AT
1 ATCTAA ATCTAA ATCTAA ATCTAA ATCTAA ATCTAA ATCTAA AT
284968 GGTAAAAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATCTAA
Found at i:285050 original size:29 final size:31
Alignment explanation
Indices: 285012--285094 Score: 125
Period size: 29 Copynumber: 2.7 Consensus size: 31
285002 ACATTGATGA
*
285012 AAAGAGAAGTAATGGGAAATTG-TTTTTTTT
1 AAAGAAAAGTAATGGGAAATTGTTTTTTTTT
285042 -AAGAAAAGTAATGGGAAATTGTTTTTTTTTT
1 AAAGAAAAGTAATGGGAAATTG-TTTTTTTTT
*
285073 AAAGAAAAGTAATGGAAAATTG
1 AAAGAAAAGTAATGGGAAATTG
285095 GAATGGTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
29 20 0.42
31 8 0.17
32 20 0.42
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (31 bp):
AAAGAAAAGTAATGGGAAATTGTTTTTTTTT
Found at i:287028 original size:23 final size:22
Alignment explanation
Indices: 286994--287047 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
286984 GTGTAGAAAT
*
286994 AGAGTTTTCGGTTTTGGTAAAC
1 AGAGTTTTCGGTTCTGGTAAAC
287016 AGAGTTTTTCGGTTCTGGTAAAC
1 AGAG-TTTTCGGTTCTGGTAAAC
287039 A-AGGTTTTC
1 AGA-GTTTTC
287048 TCGATTCTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.41
Consensus pattern (22 bp):
AGAGTTTTCGGTTCTGGTAAAC
Found at i:299152 original size:13 final size:13
Alignment explanation
Indices: 299134--299160 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
299124 ATAAAATTTT
299134 CAACGTCTTTGGC
1 CAACGTCTTTGGC
299147 CAACGTCTTTGGC
1 CAACGTCTTTGGC
299160 C
1 C
299161 GACCTAGTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.22, T:0.30
Consensus pattern (13 bp):
CAACGTCTTTGGC
Found at i:299452 original size:21 final size:22
Alignment explanation
Indices: 299426--299466 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
299416 AAAATCTCCC
299426 TCCTCTCATC-TTTTCTTTCTT
1 TCCTCTCATCTTTTTCTTTCTT
**
299447 TCCTCTTTTCTTTTTCTTTC
1 TCCTCTCATCTTTTTCTTTC
299467 GTCCTCAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (22 bp):
TCCTCTCATCTTTTTCTTTCTT
Found at i:300397 original size:24 final size:24
Alignment explanation
Indices: 300351--300399 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
300341 AAAAGTTAGA
*
300351 TTTTTAAATTTAATGTGACAATTT
1 TTTTTAAATTTAATGAGACAATTT
*
300375 TTTTTAAATATTAAT-AGATAATTT
1 TTTTTAAAT-TTAATGAGACAATTT
300399 T
1 T
300400 GAAATCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (24 bp):
TTTTTAAATTTAATGAGACAATTT
Found at i:304319 original size:43 final size:42
Alignment explanation
Indices: 304294--304523 Score: 112
Period size: 43 Copynumber: 5.3 Consensus size: 42
304284 TTCAACAAAT
304294 GCCGCAAAAGGTATTGATATTTAGCGGCGTTTATCATTAAAAC
1 GCCGCAAAAGGTATTGATATTTAGCGGCGTTTATCA-TAAAAC
* * * * ** *
304337 GCCGCAATAGGTTTTGATATTTAACGGCATTTGGCAGACAAAC
1 GCCGCAAAAGGTATTGATATTTAGCGGCGTTTATCATA-AAAC
* * * *
304380 GCCGCAATA-GTCGTTGATGTTTAGCGGCGTTT-TCTTCAAAAAC
1 GCCGCAAAAGGT-ATTGATATTTAGCGGCGTTTATCAT--AAAAC
* * * * * *
304423 GCTGCAGTAAA--TTTTTATTTTTACCGGCGTTT-TCCTAAAAAC
1 GCCGCA--AAAGGTATTGATATTTAGCGGCGTTTATCAT-AAAAC
* * *
304465 GCCGCAGAATATGTATTGAGATTTTGCGGCGTTTTTATCA-AAAAC
1 GCCGCA-AA-AGGTATTGATATTTAGCGGCG--TTTATCATAAAAC
* *
304510 GCCGCTAAATGTAT
1 GCCGCAAAAGGTAT
304524 GGTATATTGC
Statistics
Matches: 144, Mismatches: 31, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
41 2 0.01
42 16 0.11
43 93 0.65
44 16 0.11
45 12 0.08
46 3 0.02
47 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (42 bp):
GCCGCAAAAGGTATTGATATTTAGCGGCGTTTATCATAAAAC
Found at i:304915 original size:21 final size:21
Alignment explanation
Indices: 304851--304959 Score: 94
Period size: 21 Copynumber: 5.2 Consensus size: 21
304841 TGATATATTA
* * *
304851 CTTCTCTCTGTTCTGCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* * *
304872 CCTCTCTCTGTGCTGCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
304893 CTTCTCTCTCTGCTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* ** *
304914 CTGCTCTAGCTGCTTCCGCTA
1 CTTCTCTCTCTGCTTCCGCTG
* *
304935 CTGCTCTCTCTGTTTCC-CTTG
1 CTTCTCTCTCTGCTTCCGC-TG
304956 CTTC
1 CTTC
304960 ATTTTCCGCT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
20 1 0.01
21 72 0.99
ACGTcount: A:0.02, C:0.40, G:0.17, T:0.40
Consensus pattern (21 bp):
CTTCTCTCTCTGCTTCCGCTG
Found at i:314750 original size:41 final size:41
Alignment explanation
Indices: 314667--314825 Score: 234
Period size: 41 Copynumber: 3.9 Consensus size: 41
314657 GTTTATACAA
314667 AAAAACGCCACTATTGATTA-CACTATT-CTGGCGTTTGT-T
1 AAAAACGCCACTATTGATTATCACTATTGC-GGCGTTTGTCT
*
314706 AAAAACGCCACTATTGATTATCACTATTGCGGCGTTTTTCT
1 AAAAACGCCACTATTGATTATCACTATTGCGGCGTTTGTCT
* * **
314747 AAAAACGCCATTATTGATTAACACTATTATGGCGTTTGTCT
1 AAAAACGCCACTATTGATTATCACTATTGCGGCGTTTGTCT
*
314788 AAAAACACCACTATTGATTATCACTATTGCGGCGTTTG
1 AAAAACGCCACTATTGATTATCACTATTGCGGCGTTTG
314826 AGGAATAAAC
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 20 0.19
40 15 0.14
41 71 0.67
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (41 bp):
AAAAACGCCACTATTGATTATCACTATTGCGGCGTTTGTCT
Found at i:314791 original size:82 final size:80
Alignment explanation
Indices: 314667--314824 Score: 271
Period size: 82 Copynumber: 1.9 Consensus size: 80
314657 GTTTATACAA
* *
314667 AAAAACGCCACTATTGATTACACTATTCTGGCGTTTGTTAAAAACGCCACTATTGATTATCACTA
1 AAAAACGCCACTATTGATTACACTATTATGGCGTTTGTTAAAAACACCACTATTGATTATCACTA
314732 TTGCGGCGTTTTTCT
66 TTGCGGCGTTTTTCT
*
314747 AAAAACGCCATTATTGATTAACACTATTATGGCGTTTGTCTAAAAACACCACTATTGATTATCAC
1 AAAAACGCCACTATTGATT-ACACTATTATGGCGTTTGT-TAAAAACACCACTATTGATTATCAC
314812 TATTGCGGCGTTT
64 TATTGCGGCGTTT
314825 GAGGAATAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
80 18 0.25
81 18 0.25
82 37 0.51
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (80 bp):
AAAAACGCCACTATTGATTACACTATTATGGCGTTTGTTAAAAACACCACTATTGATTATCACTA
TTGCGGCGTTTTTCT
Found at i:314963 original size:42 final size:43
Alignment explanation
Indices: 314854--314986 Score: 152
Period size: 41 Copynumber: 3.2 Consensus size: 43
314844 ATGTGTAATA
*
314854 TATTGCGGCGTTTGTGGTATAAACG-C-CACAATTTACCACTC
1 TATTGCGGCGTTTGTGGTATAAACGCCGCAAAATTTACCACTC
* * *
314895 TATTGCGGCGTTT-TGGCT-CAATCGCCGCAAAATTTA-TACTC
1 TATTGCGGCGTTTGTGG-TATAAACGCCGCAAAATTTACCACTC
* * *
314936 TATTGTGGCGTTTGTGGTATAAACGCCGC-TAATTTACCACCC
1 TATTGCGGCGTTTGTGGTATAAACGCCGCAAAATTTACCACTC
314978 TATTGCGGC
1 TATTGCGGC
314987 ATTTTTTTGT
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
40 7 0.09
41 38 0.51
42 30 0.40
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (43 bp):
TATTGCGGCGTTTGTGGTATAAACGCCGCAAAATTTACCACTC
Found at i:314970 original size:41 final size:42
Alignment explanation
Indices: 314854--315052 Score: 165
Period size: 42 Copynumber: 4.8 Consensus size: 42
314844 ATGTGTAATA
* *
314854 TATTGCGGCGTTTGTGGTATAAACGCCAC-AATTTACCACTC
1 TATTGCGGCGTTTGTGGTAAAAACGCCGCTAATTTACCACTC
* * * *
314895 TATTGCGGCGTTT-TGGCT-CAATCGCCGCAAAATTTA-TACTC
1 TATTGCGGCGTTTGTGG-TAAAAACGCCGC-TAATTTACCACTC
* * *
314936 TATTGTGGCGTTTGTGGTATAAACGCCGCTAATTTACCACCC
1 TATTGCGGCGTTTGTGGTAAAAACGCCGCTAATTTACCACTC
* * * * *
314978 TATTGCGGCATTTTTTTGTAAAAACGCCGCTATATGT-CAACTC
1 TATTGCGGC-GTTTGTGGTAAAAACGCCGCTA-ATTTACCACTC
** **
315021 TATTGTAGCGTTTGTACTAAAAACGCCGCTAA
1 TATTGCGGCGTTTGTGGTAAAAACGCCGCTAA
315053 AGTATCAATT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
40 10 0.08
41 38 0.30
42 46 0.37
43 29 0.23
44 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (42 bp):
TATTGCGGCGTTTGTGGTAAAAACGCCGCTAATTTACCACTC
Found at i:315032 original size:85 final size:83
Alignment explanation
Indices: 314861--315052 Score: 210
Period size: 85 Copynumber: 2.3 Consensus size: 83
314851 ATATATTGCG
* * * *
314861 GCGTTTGTGGTATAAACGCCAC-AATTTACCACTCTATTGCGGCGTTTTGGCTCAATCGCCGCAA
1 GCGTTTGTGGTATAAACGCCGCTAATTTACCACCCTATTGCGGCGTTTTGGCTAAAACGCCGCAA
* *
314925 AATTTATACTCTATTGTG
66 AATTCATACTCTATTGTA
* *
314943 GCGTTTGTGGTATAAACGCCGCTAATTTACCACCCTATTGCGGCATTTTTTTG-TAAAAACGCCG
1 GCGTTTGTGGTATAAACGCCGCTAATTTACCACCCTATTGCGGC--GTTTTGGCT-AAAACGCCG
* *
315007 CTATATGTCA-ACTCTATTGTA
63 CAAAAT-TCATACTCTATTGTA
** *
315028 GCGTTTGTACTAAAAACGCCGCTAA
1 GCGTTTGTGGTATAAACGCCGCTAA
315053 AGTATCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
82 21 0.23
83 20 0.22
84 1 0.01
85 48 0.52
86 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (83 bp):
GCGTTTGTGGTATAAACGCCGCTAATTTACCACCCTATTGCGGCGTTTTGGCTAAAACGCCGCAA
AATTCATACTCTATTGTA
Found at i:318183 original size:14 final size:15
Alignment explanation
Indices: 318147--318183 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
318137 CCGTGACTAT
318147 GAGTACCCGCTAATG
1 GAGTACCCGCTAATG
318162 GAGTACCCGCTAATG
1 GAGTACCCGCTAATG
318177 G-GTACCC
1 GAGTACCC
318184 ATAAAATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (15 bp):
GAGTACCCGCTAATG
Found at i:319160 original size:21 final size:20
Alignment explanation
Indices: 319112--319188 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
319102 TCTGGAATCC
*
319112 AAGGGATTGATCCTTTTACA
1 AAGGGATCGATCCTTTTACA
*
319132 AGGGGATCGATCCTTTGGT-CA
1 AAGGGATCGATCCTTT--TACA
* * *
319153 AAGGGATCGATCCATGTACC
1 AAGGGATCGATCCTTTTACA
* *
319173 AAGAGATCAATCCTTT
1 AAGGGATCGATCCTTT
319189 GAGCCAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
19 1 0.02
20 27 0.61
21 15 0.34
22 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (20 bp):
AAGGGATCGATCCTTTTACA
Done.