Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007777.1 Hibiscus syriacus cultivar Beakdansim tig00110059_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: 1720799
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:1035034 original size:6 final size:6
Alignment explanation
Indices: 1035003--1035059 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
1034993 AAGATGAAGC
* * * * *
1035003 TGACGA TGAAGC TGACGA TGAAGA TGACGA TGATGA TGACGA TGATGA
1 TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA
*
1035051 TGATGA TGA
1 TGACGA TGA
1035060 TGAAGATGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.23
Consensus pattern (6 bp):
TGACGA
Found at i:1035039 original size:3 final size:3
Alignment explanation
Indices: 1035019--1035072 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
1035009 TGAAGCTGAC
* * * *
1035019 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1035067 GAT GAT
1 GAT GAT
1035073 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:1035054 original size:18 final size:18
Alignment explanation
Indices: 1035003--1035072 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
1034993 AAGATGAAGC
* * *
1035003 TGACGATGAAGCTGACGA
1 TGACGATGATGATGATGA
* *
1035021 TGAAGATGACGATGATGA
1 TGACGATGATGATGATGA
1035039 TGACGATGATGATGATGA
1 TGACGATGATGATGATGA
* *
1035057 TGATGAAGATGATGAT
1 TGACGATGATGATGAT
1035073 CCAAACAAGT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.24
Consensus pattern (18 bp):
TGACGATGATGATGATGA
Found at i:1035060 original size:12 final size:12
Alignment explanation
Indices: 1035003--1035072 Score: 86
Period size: 12 Copynumber: 5.8 Consensus size: 12
1034993 AAGATGAAGC
* *
1035003 TGACGATGAAGC
1 TGACGATGATGA
*
1035015 TGACGATGAAGA
1 TGACGATGATGA
1035027 TGACGATGATGA
1 TGACGATGATGA
1035039 TGACGATGATGA
1 TGACGATGATGA
*
1035051 TGATGATGATGA
1 TGACGATGATGA
* *
1035063 AGATGATGAT
1 TGACGATGAT
1035073 CCAAACAAGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 54 1.00
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.24
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:1037178 original size:181 final size:183
Alignment explanation
Indices: 1036495--1037378 Score: 1612
Period size: 183 Copynumber: 4.8 Consensus size: 183
1036485 TTTCAACATA
** * * *
1036495 TTATAATAAAATAGGTAAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGTGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1036560 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
*
1036625 ATGTGTCGATACGATTTAAAAAAGTATCGAAATTTACACATCGGAACCCAGAT
131 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
1036678 TTATAATGTAATAGATAATTTTGTAATAT-ACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
* * *
1036742 GTCTACAACCTATCTCAACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
1036807 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
131 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
1036860 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1036925 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
* * *
1036990 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAA
131 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
*
1037043 TTATAATGTAATAGATAATTTTAT-A-ATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1037106 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
1037171 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
131 ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
1037224 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
*
1037289 GTCTACAACATATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
*
1037354 ATGTGTCGATACCATTTAAAAAAGT
131 ATGTGTCGATACGATTTAAAAAAGT
1037379 GTCGGTAATT
Statistics
Matches: 676, Mismatches: 22, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
181 176 0.26
182 179 0.26
183 321 0.47
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
ATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
Found at i:1037251 original size:364 final size:365
Alignment explanation
Indices: 1036495--1037382 Score: 1634
Period size: 364 Copynumber: 2.4 Consensus size: 365
1036485 TTTCAACATA
** * * *
1036495 TTATAATAAAATAGGTAAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGTGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1036560 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
* *
1036625 ATGTGTCGATACGATTTAAAAAAGTATCGAAATTTACACATCGGAACCCAGATTTATAATGTAAT
131 ATGTGTCGATACGATTTAAAAAAGTGTCGAAATTTACACATCGGAACCCAGAATTATAATGTAAT
*
1036690 AGATAATTTTGTAATATACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTAT
196 AGATAATTTTATAATATACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTAT
*
1036755 CTCAACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACG
261 ATCAACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACG
1036820 ATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
326 ATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
1036860 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1036925 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
* *
1036990 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAAT
131 ATGTGTCGATACGATTTAAAAAAGTGTCGAAATTTACACATCGGAACCCAGAATTATAATGTAAT
1037055 AGATAATTTTATAATA-ACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTAT
196 AGATAATTTTATAATATACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTAT
* *
1037119 ATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACG
261 ATCAACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACG
1037184 ATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
326 ATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
1037224 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1 TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
*
1037289 GTCTACAACATATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
*
1037354 ATGTGTCGATACCATTTAAAAAAGTGTCG
131 ATGTGTCGATACGATTTAAAAAAGTGTCG
1037383 GTAATTTTAA
Statistics
Matches: 508, Mismatches: 15, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
364 307 0.60
365 201 0.40
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (365 bp):
TTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
ATGTGTCGATACGATTTAAAAAAGTGTCGAAATTTACACATCGGAACCCAGAATTATAATGTAAT
AGATAATTTTATAATATACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTAT
ATCAACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACG
ATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAT
Found at i:1039881 original size:25 final size:25
Alignment explanation
Indices: 1039847--1039911 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
1039837 TTATCATTAA
1039847 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
1039872 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
1039897 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
1039912 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1040180 original size:21 final size:22
Alignment explanation
Indices: 1040134--1040180 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
1040124 AAATTACATA
1040134 ACTTTTAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAGTATCGATC
* * *
1040156 -CTTTTTATAAAAGTATGGA-C
1 ACTTTTAAAAAAAGTATCGATC
1040176 ACTTT
1 ACTTT
1040181 CAATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (22 bp):
ACTTTTAAAAAAAGTATCGATC
Found at i:1040229 original size:23 final size:23
Alignment explanation
Indices: 1040198--1040261 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1040188 ATAGGTAAAC
*
1040198 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1040221 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1040244 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1040262 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1040268 original size:23 final size:23
Alignment explanation
Indices: 1040198--1040270 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1040188 ATAGGTAAAC
* **
1040198 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1040221 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1040244 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1040267 ATAT
1 ATAT
1040271 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1040490 original size:25 final size:25
Alignment explanation
Indices: 1040456--1040506 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1040446 ACAACAAATC
*
1040456 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
1040481 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
1040506 A
1 A
1040507 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:1040911 original size:18 final size:18
Alignment explanation
Indices: 1040890--1040926 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1040880 GTAATTGGAG
1040890 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1040908 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1040926 T
1 T
1040927 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1040934 original size:24 final size:24
Alignment explanation
Indices: 1040882--1040928 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1040872 TTTCATATGT
* *
1040882 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
1040906 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
1040929 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:1041227 original size:39 final size:39
Alignment explanation
Indices: 1041184--1041270 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1041174 TCCGATGCTC
*
1041184 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
1041223 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1041262 ATCAAAATC
1 ATCAAAATC
1041271 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:1041701 original size:23 final size:23
Alignment explanation
Indices: 1041670--1041742 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1041660 ATAGGTAAAC
*
1041670 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1041693 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1041716 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1041739 ATAT
1 ATAT
1041743 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1042430 original size:335 final size:329
Alignment explanation
Indices: 1041785--1042449 Score: 1231
Period size: 335 Copynumber: 2.0 Consensus size: 329
1041775 CATACTTTTT
*
1041785 TCACTGTGGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1041850 TATAGGCGTCTAATGATTTATTTTTTCGTTACGATATATATTATTATTAAATTAAAATTCTAAAT
66 TATAGGCGTCTAATGATTTATTTTTTCGTTACGATATATATTATTATTAAATTAAAATTCTAAAT
* * *
1041915 ATTATTTTAAAATATCAAAACAATCGAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATT
131 AATATTTTAAAATATCAAAACAATCAAATAATTTTTTGTACAAATGAAATTATTAAATTAATATT
*
1041980 GTAGGTGGAAAACATGAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
196 GTAGGTGGAAAACATGAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAAT
1042045 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATTTGCA
261 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATTTGCA
1042110 ATGC
326 ATGC
1042114 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1042179 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTT-CGTTACGATATATATTATTATTAAATT-AAAATTCTAA
1042244 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTACAAATGAAATTATTAAATTAA
129 ATAATA-TTT-TAAAATATCAAAACAATCAAATAATTTTTTGTACAAATGAAATTATTAAATTAA
1042309 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
192 TATTGTAGGTGGAAAACATG-AACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAA
1042374 AGAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAA
255 AGAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAA
1042439 TTTGCAATGC
320 TTTGCAATGC
1042449 T
1 T
1042450 ATCGGTATAA
Statistics
Matches: 325, Mismatches: 5, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
329 90 0.28
330 27 0.08
331 15 0.05
332 3 0.01
333 72 0.22
334 9 0.03
335 109 0.34
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (329 bp):
TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
TATAGGCGTCTAATGATTTATTTTTTCGTTACGATATATATTATTATTAAATTAAAATTCTAAAT
AATATTTTAAAATATCAAAACAATCAAATAATTTTTTGTACAAATGAAATTATTAAATTAATATT
GTAGGTGGAAAACATGAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAAT
ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATTTGCA
ATGC
Found at i:1043521 original size:15 final size:15
Alignment explanation
Indices: 1043501--1043543 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
1043491 AGTGGGTGGG
1043501 CGGATGTGGGGCGGC
1 CGGATGTGGGGCGGC
*
1043516 CGGATGTGGGGCGGG
1 CGGATGTGGGGCGGC
*
1043531 CGGATGTAGGGCG
1 CGGATGTGGGGCG
1043544 AGTAAGGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.09, C:0.16, G:0.60, T:0.14
Consensus pattern (15 bp):
CGGATGTGGGGCGGC
Found at i:1044736 original size:15 final size:14
Alignment explanation
Indices: 1044710--1044757 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
1044700 TATCTATAAA
1044710 TTATTTATAATATAT
1 TTATTTA-AATATAT
*
1044725 TTTTTTGAAATATTAT
1 TTATTT-AAATA-TAT
*
1044741 ATATTTAAATATAT
1 TTATTTAAATATAT
1044755 TTA
1 TTA
1044758 AATGTCACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
14 5 0.19
15 14 0.52
16 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TTATTTAAATATAT
Found at i:1045145 original size:16 final size:16
Alignment explanation
Indices: 1045124--1045157 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1045114 ATGAACATCA
*
1045124 AGCTTAACGAGTAATG
1 AGCTTAACGAGCAATG
1045140 AGCTTAACGAGCAATG
1 AGCTTAACGAGCAATG
1045156 AG
1 AG
1045158 TCGAGCAATG
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:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (16 bp):
AGCTTAACGAGCAATG
Found at i:1047519 original size:4 final size:4
Alignment explanation
Indices: 1047510--1047557 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
1047500 AAAATAAGAA
* *
1047510 AAAT AAAT AAAT AAAT AAAT AAAT -TAT AAAT AAGT AAAAT AAAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAA
1047558 ACAGAAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 2 0.05
4 28 0.74
5 8 0.21
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:1047554 original size:5 final size:5
Alignment explanation
Indices: 1047500--1047583 Score: 63
Period size: 5 Copynumber: 17.4 Consensus size: 5
1047490 AATTGGACCG
* * *
1047500 AAAAT AAGA- AAAAT -AAAT -AAAT -AAAT -AAAT AAATT ATAAAT -AAGT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT
*
1047545 AAAAT AAAAT AAAACAG AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT -AAA-AT AAAAT AAAAT AAAAT AAAAT AA
1047584 TATGTATATT
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
4 22 0.34
5 33 0.51
6 9 0.14
7 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:1047577 original size:36 final size:35
Alignment explanation
Indices: 1047500--1047578 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 35
1047490 AATTGGACCG
*
1047500 AAAATAAGAAAAATAAATAAATAAATAAATAAATT
1 AAAATAAGAAAAATAAATAAATAAATAAATAAAAT
*
1047535 ATAAATAAGTAAAATAAAATAAA-ACAGA-AAATAAAAT
1 A-AAATAAGAAAAAT-AAATAAATA-A-ATAAATAAAAT
1047572 AAAATAA
1 AAAATAA
1047579 AATAATATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
35 1 0.03
36 19 0.50
37 17 0.45
38 1 0.03
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (35 bp):
AAAATAAGAAAAATAAATAAATAAATAAATAAAAT
Found at i:1047788 original size:74 final size:75
Alignment explanation
Indices: 1047696--1047983 Score: 292
Period size: 74 Copynumber: 3.9 Consensus size: 75
1047686 ACATGTTTTT
1047696 AAAATATTTTTAAAAACTATATATTATATGTTTTCAAAAAAACGTTTTCAAAAACTATATTATAT
1 AAAATATTTTTAAAAACTATATATTATATGTTTTCAAAAAAACGTTTTCAAAAACTATATTATAT
1047761 ATACATTTCA
66 ATACATTTCA
* *
1047771 AAAATA-TTTTAAAAACTATATATTATATGTTTTC-CAAAACCGATTTT-AAAAACTATA-TATT
1 AAAATATTTTTAAAAACTATATATTATATGTTTTCAAAAAAACG-TTTTCAAAAACTATATTA-T
*
1047832 ATATACGTTTTCA
64 ATATAC-ATTTCA
* * *** *
1047845 AAAATATGTTTTCAAAACTATATATTATACGTTTTCAAAAATGTGTTTTC-AAAACCAT-TTATA
1 AAAATAT-TTTTAAAAACTATATATTATATGTTTTCAAAAAAACGTTTTCAAAAACTATATTATA
* *
1047908 CATATATTTTCA
65 TATACA-TTTCA
** *
1047920 AAAACTGATTTTTAAAAA--A-ACTA-TATATG-TTTCAAAAAAAATTCTTTCAAAAACTATACT
1 AAAA-T-ATTTTTAAAAACTATA-TATTATATGTTTTCAAAAAAACGT-TTTCAAAAACTATATT
1047980 ATAT
62 ATAT
1047984 TATTATATAT
Statistics
Matches: 176, Mismatches: 22, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
72 12 0.07
73 33 0.19
74 53 0.30
75 24 0.14
76 48 0.27
77 6 0.03
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.41
Consensus pattern (75 bp):
AAAATATTTTTAAAAACTATATATTATATGTTTTCAAAAAAACGTTTTCAAAAACTATATTATAT
ATACATTTCA
Found at i:1047886 original size:37 final size:37
Alignment explanation
Indices: 1047672--1047899 Score: 225
Period size: 37 Copynumber: 6.2 Consensus size: 37
1047662 TTTTCAAAAA
* * * *
1047672 AAAAACTATATACTACATGTTTT-TAAAATAT-TTTT
1 AAAAACTATATATTATACGTTTTCAAAAATATGTTTT
* * *
1047707 AAAAACTATATATTATATGTTTTCAAAAAAACGTTTT
1 AAAAACTATATATTATACGTTTTCAAAAATATGTTTT
*
1047744 CAAAAACTATATTATATATAC-ATTTCAAAAATA--TTTT
1 -AAAAACTATA-TAT-TATACGTTTTCAAAAATATGTTTT
* * **
1047781 AAAAACTATATATTATATGTTTTCCAAAA-CCGATTTT
1 AAAAACTATATATTATACGTTTTCAAAAATATG-TTTT
1047818 AAAAACTATATATTATATACGTTTTCAAAAATATGTTTT
1 AAAAACTATATA-T-TATACGTTTTCAAAAATATGTTTT
* *
1047857 CAAAACTATATATTATACGTTTTCAAAAATGTGTTTT
1 AAAAACTATATATTATACGTTTTCAAAAATATGTTTT
*
1047894 CAAAAC
1 AAAAAC
1047900 CATTTATACA
Statistics
Matches: 163, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
34 4 0.02
35 32 0.20
36 15 0.09
37 53 0.33
38 12 0.07
39 42 0.26
40 5 0.03
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (37 bp):
AAAAACTATATATTATACGTTTTCAAAAATATGTTTT
Found at i:1056214 original size:19 final size:20
Alignment explanation
Indices: 1056190--1056236 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
1056180 TGTAAAAATG
1056190 GTATCGATACC-GTATAGTA
1 GTATCGATACCAGTATAGTA
*
1056209 GTATCGGTACCATGGTATAGTA
1 GTATCGATACCA--GTATAGTA
1056231 GTATCG
1 GTATCG
1056237 GTTCTATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
22 14 0.58
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (20 bp):
GTATCGATACCAGTATAGTA
Found at i:1056664 original size:54 final size:54
Alignment explanation
Indices: 1056601--1057075 Score: 591
Period size: 54 Copynumber: 8.8 Consensus size: 54
1056591 TACCAAACAT
1056601 GCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCA
1 GCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCA
* ** * * *
1056655 GCACTAAGTGTGAAAAGCA-GAGAATTCATCATATGTTGATGAATAATCGTTTCG
1 GCACTAAGTGTGCAATTCACG-GAATTCATCATATGTTGATGAATAACCATTTCA
* * * * *
1056709 GCACTAAGTG-GCACATTCACGAAATTCATTATATGTTTATAAATAACCATTTCG
1 GCACTAAGTGTGCA-ATTCACGGAATTCATCATATGTTGATGAATAACCATTTCA
* * *
1056763 GCACTAAGTGTACAATTCACGGAATTCATAATACGTTGATGAATAACCATTTC-
1 GCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCA
* * * ** *
1056816 GACATTAAGTGTGCAAAGT-ACGAAATTCATCATATGTTGATGAATAACTGTTTCC
1 G-CACTAAGTGTGC-AATTCACGGAATTCATCATATGTTGATGAATAACCATTTCA
* ** ** *
1056871 GCACTAAGTGTGAAAAACACTAAATTCATCATATGTTGATGAATAACCGTTTC-
1 GCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCA
* *
1056924 GACACTAAGTGTGCAATTCACGAAATTCATCATATATTGATGAATAACCATTTCA
1 G-CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCA
*
1056979 GCACTAAGTGTGCAATTCACAGAATTCATCATATGTTGATGAATAACCATTTCA
1 GCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCA
* *
1057033 GCACTAAGTGTACAATTCACAGAATTCATCATATGTTGATGAA
1 GCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAA
1057076 AGTACGGAAT
Statistics
Matches: 366, Mismatches: 45, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
53 7 0.02
54 351 0.96
55 8 0.02
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (54 bp):
GCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTCA
Found at i:1057032 original size:26 final size:26
Alignment explanation
Indices: 1056949--1057032 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
1056939 ATTCACGAAA
*
1056949 TTCATCATATATTGATGAATAACCAT
1 TTCATCATATGTTGATGAATAACCAT
* * * * *
1056975 TTCAGCACTAAG-TG-TGCAATTCACAGAA
1 TTCATCA-TATGTTGATG-AA-TAAC-CAT
1057003 TTCATCATATGTTGATGAATAACCAT
1 TTCATCATATGTTGATGAATAACCAT
1057029 TTCA
1 TTCA
1057033 GCACTAAGTG
Statistics
Matches: 41, Mismatches: 11, Indels: 12
0.64 0.17 0.19
Matches are distributed among these distances:
25 2 0.05
26 15 0.37
27 11 0.27
28 11 0.27
29 2 0.05
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (26 bp):
TTCATCATATGTTGATGAATAACCAT
Found at i:1057086 original size:28 final size:28
Alignment explanation
Indices: 1057054--1057157 Score: 92
Period size: 28 Copynumber: 3.8 Consensus size: 28
1057044 ACAATTCACA
1057054 GAATTCATCATATGTTGATGAAAGTACG
1 GAATTCATCATATGTTGATGAAAGTACG
* *
1057082 GAATTCATCATACGTTGATG-AA-TAACC
1 GAATTCATCATATGTTGATGAAAGT-ACG
* * *
1057109 G-TTTCAGCACTAAG-TG-TGCAAAGTACG
1 GAATTCATCA-TATGTTGATG-AAAGTACG
*
1057136 AAATTCATCATATGTTGATGAA
1 GAATTCATCATATGTTGATGAA
1057158 TAACCGTTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
25 2 0.03
26 9 0.16
27 15 0.26
28 30 0.52
29 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (28 bp):
GAATTCATCATATGTTGATGAAAGTACG
Found at i:1057141 original size:82 final size:82
Alignment explanation
Indices: 1057000--1057157 Score: 248
Period size: 82 Copynumber: 1.9 Consensus size: 82
1056990 GCAATTCACA
* *
1057000 GAATTCATCATATGTTGATGAATAACCATTTCAGCACTAAGTGTACAATTCACAGAATTCATCAT
1 GAATTCATCATACGTTGATGAATAACCATTTCAGCACTAAGTGTACAAGTCACAGAATTCATCAT
1057065 ATGTTGATGAAAGTACG
66 ATGTTGATGAAAGTACG
* *
1057082 GAATTCATCATACGTTGATGAATAACCGTTTCAGCACTAAGTGTGCAAAGT-AC-GAAATTCATC
1 GAATTCATCATACGTTGATGAATAACCATTTCAGCACTAAGTGTAC-AAGTCACAG-AATTCATC
1057145 ATATGTTGATGAA
64 ATATGTTGATGAA
1057158 TAACCGTTTC
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
81 1 0.01
82 66 0.94
83 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (82 bp):
GAATTCATCATACGTTGATGAATAACCATTTCAGCACTAAGTGTACAAGTCACAGAATTCATCAT
ATGTTGATGAAAGTACG
Found at i:1057156 original size:54 final size:54
Alignment explanation
Indices: 1057074--1057183 Score: 184
Period size: 54 Copynumber: 2.0 Consensus size: 54
1057064 TATGTTGATG
*
1057074 AAAGTACGGAATTCATCATACGTTGATGAATAACCGTTTCAGCACTAAGTGTGC
1 AAAGTACGAAATTCATCATACGTTGATGAATAACCGTTTCAGCACTAAGTGTGC
* * *
1057128 AAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTATGTGTGC
1 AAAGTACGAAATTCATCATACGTTGATGAATAACCGTTTCAGCACTAAGTGTGC
1057182 AA
1 AA
1057184 CCCACAGAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (54 bp):
AAAGTACGAAATTCATCATACGTTGATGAATAACCGTTTCAGCACTAAGTGTGC
Found at i:1057191 original size:136 final size:136
Alignment explanation
Indices: 1056947--1057194 Score: 374
Period size: 136 Copynumber: 1.8 Consensus size: 136
1056937 CAATTCACGA
* *
1056947 AATTCATCATATATTGATGAATAACCATTTCAGCACTAAGTGTGCAATTCACAGAATTCATCATA
1 AATTCATCATACATTGATGAATAACCATTTCAGCACTAAGTGTGCAAGTCACAGAATTCATCATA
**
1057012 TGTTGATGAATAACCATTTCAGCACTAAGTGTACAATTCACAGAATTCATCATATGTTGATGAAA
66 TGTTGATGAATAACCATTTCAGCACTAAGTGTACAACCCACAGAATTCATCATATGTTGATGAAA
1057077 GTACGG
131 GTACGG
* *
1057083 AATTCATCATACGTTGATGAATAACCGTTTCAGCACTAAGTGTGCAAAGT-AC-GAAATTCATCA
1 AATTCATCATACATTGATGAATAACCATTTCAGCACTAAGTGTGC-AAGTCACAG-AATTCATCA
* * * *
1057146 TATGTTGATGAATAACCGTTTCGGCACTATGTGTGCAACCCACAGAATT
64 TATGTTGATGAATAACCATTTCAGCACTAAGTGTACAACCCACAGAATT
1057195 ATAATGAGTT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
135 1 0.01
136 96 0.96
137 3 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (136 bp):
AATTCATCATACATTGATGAATAACCATTTCAGCACTAAGTGTGCAAGTCACAGAATTCATCATA
TGTTGATGAATAACCATTTCAGCACTAAGTGTACAACCCACAGAATTCATCATATGTTGATGAAA
GTACGG
Found at i:1063557 original size:9 final size:9
Alignment explanation
Indices: 1063534--1063584 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
1063524 AATTGGACCG
1063534 AAAATAAGA-
1 AAAATAA-AT
1063543 AAAATAAAT
1 AAAATAAAT
*
1063552 ATAATAAAT
1 AAAATAAAT
1063561 --AATAAAT
1 AAAATAAAT
*
1063568 AAAATAATT
1 AAAATAAAT
1063577 AAAATAAA
1 AAAATAAA
1063585 ATGGAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 7 0.19
8 1 0.03
9 28 0.78
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (9 bp):
AAAATAAAT
Found at i:1063572 original size:12 final size:12
Alignment explanation
Indices: 1063543--1063602 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
1063533 GAAAATAAGA
1063543 AAAATAAATATAAT
1 AAAAT-AATA-AAT
1063557 -AAATAATAAAT
1 AAAATAATAAAT
1063568 AAAATAATTAAAAT
1 AAAATAA-T-AAAT
*
1063582 AAAATGGA-AAAT
1 AAAAT-AATAAAT
1063594 AAAATAATA
1 AAAATAATA
1063603 TGTATATTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
11 4 0.10
12 20 0.51
13 5 0.13
14 9 0.23
15 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:1063694 original size:26 final size:25
Alignment explanation
Indices: 1063656--1063708 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 25
1063646 AAAATAATCA
*
1063656 TTTTAAAAACTATATATTATATGTT
1 TTTTAAAAACTATATACTATATGTT
1063681 TTTTAAAAAACTATATACTATATGTT
1 TTTT-AAAAACTATATACTATATGTT
1063707 TT
1 TT
1063709 CAAAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.51
Consensus pattern (25 bp):
TTTTAAAAACTATATACTATATGTT
Found at i:1063729 original size:61 final size:65
Alignment explanation
Indices: 1063631--1063752 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 65
1063621 TGTTTCCAAG
**
1063631 ACTATATGTTTTCCAAAAATAATCATTTTAAAAACTATATATTATATGTTTTTTAAAAAACTATA
1 ACTATATGTTTTCCAAAAATAAT-ATTTTAAAAACTATATATTATATGTTTTCAAAAAAACTATA
1063696 T
65 T
1063697 ACTATATGTTTT-C-AAAAT-AT-TTTTAAAAACTATATATTATATGTTTTCAAAAAAAC
1 ACTATATGTTTTCCAAAAATAATATTTTAAAAACTATATATTATATGTTTTCAAAAAAAC
1063753 GTTTCAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 34 0.63
63 2 0.04
64 5 0.09
65 1 0.02
66 12 0.22
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.43
Consensus pattern (65 bp):
ACTATATGTTTTCCAAAAATAATATTTTAAAAACTATATATTATATGTTTTCAAAAAAACTATAT
Found at i:1063730 original size:35 final size:35
Alignment explanation
Indices: 1063680--1063886 Score: 211
Period size: 39 Copynumber: 5.6 Consensus size: 35
1063670 TATTATATGT
*
1063680 TTTTTAAAAAACTATATACTATATGTTTTCAAAATA
1 TTTTT-AAAAACTATATATTATATGTTTTCAAAATA
*
1063716 TTTTTAAAAACTATATATTATATGTTTTCAAAAAAA
1 TTTTTAAAAACTATATATTATATGTTTTC-AAAATA
* * *
1063752 CGTTTCAAAAACTATATTATATATACGTTTTCAAAATA
1 -TTTTTAAAAACTATA-TAT-TATATGTTTTCAAAATA
*
1063790 -TTTTAAAAACTATATATTATATGTTTTCCAAAACCGA
1 TTTTTAAAAACTATATATTATATGTTTT-CAAAA--TA
* *
1063827 -TTTTAAAAACAATATATTATATACATTTTCAAAAATA
1 TTTTTAAAAACTATATATTATAT--GTTTTC-AAAATA
*
1063864 TGTTTTCAAAACTATATATTATA
1 T-TTTTAAAAACTATATATTATA
1063887 CTTTTTAAAA
Statistics
Matches: 145, Mismatches: 14, Indels: 21
0.81 0.08 0.12
Matches are distributed among these distances:
34 9 0.06
35 31 0.21
36 23 0.16
37 36 0.25
38 9 0.06
39 37 0.26
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (35 bp):
TTTTTAAAAACTATATATTATATGTTTTCAAAATA
Found at i:1063733 original size:37 final size:36
Alignment explanation
Indices: 1063680--1063960 Score: 193
Period size: 39 Copynumber: 7.6 Consensus size: 36
1063670 TATTATATGT
*
1063680 TTTTTAAAAAACTATATA-CTATATGTTTTCAAAATA
1 TTTTT-AAAAACTATATATATATATGTTTTCAAAATA
*
1063716 TTTTTAAAAACTATATAT-TATATGTTTTCAAAAAAA
1 TTTTTAAAAACTATATATATATATGTTTTC-AAAATA
* * *
1063752 CGTTTCAAAAACTATATTATATATACGTTTTCAAAATA
1 -TTTTTAAAAACTATA-TATATATATGTTTTCAAAATA
*
1063790 -TTTTAAAAACTATATAT-TATATGTTTTCCAAAACCGA
1 TTTTTAAAAACTATATATATATATGTTTT-CAAAA--TA
* **
1063827 -TTTTAAAAACAATATATTATATACATTTTCAAAAATA
1 TTTTTAAAAACTATATA-TATATATGTTTTC-AAAATA
* *
1063864 TGTTTTCAAAACTATATAT-TATACT-TTTTAAAAACT-
1 T-TTTTAAAAACTATATATATATA-TGTTTTCAAAA-TA
* * * *
1063900 TGTTTTCAAAA-TCATATTATACATATATTTTCAAAAAAA
1 T-TTTTAAAAACT-ATA-TATATATATGTTTTC-AAAATA
*
1063939 TCTTTCAAAAACTATACTATAT
1 T-TTTTAAAAACTATA-TATAT
1063961 TATTATATAT
Statistics
Matches: 199, Mismatches: 24, Indels: 41
0.75 0.09 0.16
Matches are distributed among these distances:
34 9 0.05
35 32 0.16
36 41 0.21
37 43 0.22
38 18 0.09
39 55 0.28
40 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (36 bp):
TTTTTAAAAACTATATATATATATGTTTTCAAAATA
Found at i:1063800 original size:73 final size:74
Alignment explanation
Indices: 1063686--1063886 Score: 268
Period size: 73 Copynumber: 2.7 Consensus size: 74
1063676 ATGTTTTTTA
1063686 AAAAACTATATACTATAT--GTTTTCAAAATATTTTTAAAAACTATATATTATATGTTTTCAAAA
1 AAAAACTATATACTATATACGTTTTCAAAATATTTTTAAAAACTATATATTATATGTTTTC-AAA
1063749 AAACG-TTTC
65 AAACGATTTC
*
1063758 AAAAACTATATTA-TATATACGTTTTCAAAATA-TTTTAAAAACTATATATTATATGTTTTCCAA
1 AAAAACTATA-TACTATATACGTTTTCAAAATATTTTTAAAAACTATATATTATATGTTTTCAAA
* *
1063821 AACCGATTTT
65 AAACGATTTC
* * * *
1063831 AAAAACAATATATTATATACATTTTCAAAAATATGTTTTCAAAACTATATATTATA
1 AAAAACTATATACTATATACGTTTTC-AAAATAT-TTTTAAAAACTATATATTATA
1063887 CTTTTTAAAA
Statistics
Matches: 115, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
72 23 0.20
73 54 0.47
74 18 0.16
76 20 0.17
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.41
Consensus pattern (74 bp):
AAAAACTATATACTATATACGTTTTCAAAATATTTTTAAAAACTATATATTATATGTTTTCAAAA
AACGATTTC
Found at i:1063936 original size:75 final size:73
Alignment explanation
Indices: 1063705--1063954 Score: 260
Period size: 73 Copynumber: 3.4 Consensus size: 73
1063695 ATACTATATG
*
1063705 TTTTCAAAATATTTTTAAAAACTATATATTATATGTTTTCAAAAAAACG-TTTCAAAAACTATAT
1 TTTTCAAAATATTTTTAAAAACTATATATTATATGTTTTC-AAAAACCGTTTTCAAAAAC-ATAT
* *
1063769 TATATATACG
64 TATACATACA
*
1063779 TTTTCAAAATA-TTTTAAAAACTATATATTATATGTTTTCCAAAACCGATTTT-AAAAACA-ATA
1 TTTTCAAAATATTTTTAAAAACTATATATTATATGTTTTCAAAAACCG-TTTTCAAAAACATAT-
*
1063841 TATTATATACA
64 TA-TACATACA
* * *
1063852 TTTTCAAAAATATGTTTTCAAAACTATATATTATACT-TTTT-AAAAACTTGTTTTCAAAATCAT
1 TTTTC-AAAATAT-TTTTAAAAACTATATATTATA-TGTTTTCAAAAAC-CGTTTTCAAAAACAT
*
1063915 ATTATACATATA
62 ATTATACATACA
* *
1063927 TTTTCAAAAAAATCTTTCAAAAACTATA
1 TTTTC-AAAATAT-TTTTAAAAACTATA
1063955 CTATATTATT
Statistics
Matches: 152, Mismatches: 13, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
71 2 0.01
72 9 0.06
73 46 0.30
74 20 0.13
75 39 0.26
76 33 0.22
77 3 0.02
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (73 bp):
TTTTCAAAATATTTTTAAAAACTATATATTATATGTTTTCAAAAACCGTTTTCAAAAACATATTA
TACATACA
Found at i:1078633 original size:22 final size:24
Alignment explanation
Indices: 1078605--1078658 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
1078595 CAATATTCTA
1078605 ATAAATTTTAA-TATT-TT-TTTTT
1 ATAAATTTTAAGT-TTCTTATTTTT
1078627 ATAAATTTTAAGTTTCTTATTTTT
1 ATAAATTTTAAGTTTCTTATTTTT
1078651 -TAAATTTT
1 ATAAATTTT
1078659 TTAATTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 13 0.45
23 11 0.38
24 5 0.17
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (24 bp):
ATAAATTTTAAGTTTCTTATTTTT
Found at i:1078677 original size:16 final size:16
Alignment explanation
Indices: 1078656--1078707 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
1078646 TTTTTTAAAT
1078656 TTTTTAATTTCTTAGA
1 TTTTTAATTTCTTAGA
*
1078672 TTTTT-ATTT-TTATCCA
1 TTTTTAATTTCTTA--GA
1078688 -TTTTAATTTCTTAGA
1 TTTTTAATTTCTTAGA
1078703 TTTTT
1 TTTTT
1078708 TTAATCTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 9 0.31
16 14 0.48
17 3 0.10
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTTTAATTTCTTAGA
Found at i:1078682 original size:31 final size:31
Alignment explanation
Indices: 1078647--1078707 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1078637 AGTTTCTTAT
**
1078647 TTTTTAAATTTTTTAATTTCTTAGATTTTTA
1 TTTTTAAACATTTTAATTTCTTAGATTTTTA
**
1078678 TTTTTATCCATTTTAATTTCTTAGATTTTT
1 TTTTTAAACATTTTAATTTCTTAGATTTTT
1078708 TTAATCTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (31 bp):
TTTTTAAACATTTTAATTTCTTAGATTTTTA
Found at i:1084662 original size:27 final size:28
Alignment explanation
Indices: 1084609--1084664 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
1084599 ACCCCCATTG
1084609 TTCATGGGTACACTATTCACTATTCATAA
1 TTCATGGGTA-ACTATTCACTATTCATAA
* *
1084638 TTCATGGGT-ACTGTTCATTATTCATAA
1 TTCATGGGTAACTATTCACTATTCATAA
1084665 AAAAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.64
29 9 0.36
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (28 bp):
TTCATGGGTAACTATTCACTATTCATAA
Found at i:1102947 original size:86 final size:86
Alignment explanation
Indices: 1102715--1103719 Score: 660
Period size: 86 Copynumber: 11.6 Consensus size: 86
1102705 AGTTAAATGG
* * * * ** * * * *
1102715 AATCAAACTCGAAGGT-GTTTGTTGATAGATAACCCTTCTCCCCTTGTGTTATGCTGTAAGTTGG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTAAGCTATACTGTAAATTTG
* *
1102779 ATATGCCTTTGAGCTGAATGT
66 ATGTGCCTTTGAGCTGAGTGT
* **
1102800 AATCGAACTCGAAGGTCTTTTTGTTGAAAGATAGA-CCTTCTCGCCTTAAGCTATGTTGTAAACT
1 AATCGAACTCGAAGGTC-TTTTGTTGACAGATA-ACCCTTCTCGCCTTAAGCTATACTGTAAA-T
1102864 TT-ATGTGCCTTTGAGCTGAGTGT
63 TTGATGTGCCTTTGAGCTGAGTGT
* *
1102887 AATCGAACTCGAAGGTCTTTTGTTGACAGATATCTCTTCTCGCCTTAAGCTATACTGTAAATTTG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTAAGCTATACTGTAAATTTG
1102952 ATGTGCCTTTGAGCTGAGTGT
66 ATGTGCCTTTGAGCTGAGTGT
* * *
1102973 AATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAATTTG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTAAGCTATACTGTAAATTTG
* *
1103038 ATATGCCTTTGAGTTGAGTGT
66 ATGTGCCTTTGAGCTGAGTGT
* ** *
1103059 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGTTGTAAACTTG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTAAGCTATACTGTAAATTTG
1103124 ATGTGCCTTTGAGCTGAGTGT
66 ATGTGCCTTTGAGCTGAGTGT
* * * ***
1103145 AATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTAGGTTGTAAATTGT
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTAAGCTATACTGTAAATT-T
* ***
1103209 TATGTTGTAAATTGA--T-A-T-T
65 GATG-TG-CCTTTGAGCTGAGTGT
** * * ** * * ** * * ** * *
1103228 CCTTTGAGCT-G-AGTGT-AATTGAACTCGA-AGGT--CTTTTGTTGACAGATAACCATTCTCAC
1 -AATCGAACTCGAAG-GTCTTTTG---TTGACAGATAACCCTTCTCG-C-CTTAAGC--TAT-A-
** ** * ***
1103287 CT-TGAGCTAAGCTGTAAATTTGATGTGCCTTTGAGCTG-
55 CTGT-AAATTTGATGTGCCTTTGA---G-C--TGAG-TGT
* * * * * ** *
1103325 AGT-GTAATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTGGCCTTGAGTTATGTTATA
1 AATCG--A---A-CTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTAAGCTATACTGTA
* *
1103388 AA-TTGATATGCCTTTGAGCTAAGTGT
60 AATTTGATGTGCCTTTGAGCTGAGTGT
* * *
1103414 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTTGCCTT--GATATATTGTAAATTTG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTAAGCTATACTGTAAATTTG
* *
1103477 ATGTGCCTTTGAGATAAGTGT
66 ATGTGCCTTTGAGCTGAGTGT
* * * **
1103498 AATC-AGACTCGAA-GT-TATTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAA-T
1 AATCGA-ACTCGAAGGTCT-TTTGTTGACAGATAACCCTTCTCGCCTTAAGCTATACTGTAAATT
*
1103559 TGATATGCCTTTGAGCTGAGTGT
64 TGATGTGCCTTTGAGCTGAGTGT
* * * * * ** * *
1103582 AATCGAACTAGAAGGTC-TTTGTCGACAGATAGCCCTTCTTGCCTTGAGCTATGTTGTGAATTGG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTAAGCTATACTGTAAATTTG
*
1103646 ATATGCCTTTGAGCTGAGTGT
66 ATGTGCCTTTGAGCTGAGTGT
* * * * *
1103667 AATCTAACTCAAATGTCTTTTGTTGACAGATAACCCTTCTCACCTTGAGCTAT
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTAAGCTAT
1103720 GATGCAAATA
Statistics
Matches: 732, Mismatches: 128, Indels: 119
0.75 0.13 0.12
Matches are distributed among these distances:
82 3 0.00
83 50 0.07
84 118 0.16
85 142 0.19
86 279 0.38
87 74 0.10
88 13 0.02
89 8 0.01
90 1 0.00
91 1 0.00
92 1 0.00
94 1 0.00
95 10 0.01
96 3 0.00
97 3 0.00
98 2 0.00
99 3 0.00
100 5 0.01
101 3 0.00
102 10 0.01
103 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.36
Consensus pattern (86 bp):
AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTAAGCTATACTGTAAATTTG
ATGTGCCTTTGAGCTGAGTGT
Found at i:1103215 original size:15 final size:15
Alignment explanation
Indices: 1103192--1103222 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1103182 CTCGCCTTGA
1103192 GTTAGGTTGTAAATT
1 GTTAGGTTGTAAATT
*
1103207 GTTATGTTGTAAATT
1 GTTAGGTTGTAAATT
1103222 G
1 G
1103223 ATATTCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (15 bp):
GTTAGGTTGTAAATT
Found at i:1103303 original size:100 final size:100
Alignment explanation
Indices: 1103109--1103377 Score: 300
Period size: 100 Copynumber: 2.8 Consensus size: 100
1103099 CGCCTTGAGC
*
1103109 TATGTTGTAAACTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGA
1 TATGTTGTAAACTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGA
* * * * *
1103174 TAACCCTTCTCGCCTTGAGTTAGGTTGTAAATTGT
66 TAACCATTCTCACCTTGAGCTAAGCTGTAAATTGT
* * *
1103209 TATGTTGTAAA-TTGATATTCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTGACAG
1 TATGTTGTAAACTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGACAG
1103273 ATAACCATTCTCACCTTGAGCTAAGCTGT-AA----
65 ATAACCATTCTCACCTTGAGCTAAGCTGTAAATTGT
*
1103304 -AT-TTG---A--TG-T-G-CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGA
1 TATGTTGTAAACTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGA
* **
1103359 TAACCCTTCTGGCCTTGAG
66 TAACCATTCTCACCTTGAG
1103378 TTATGTTATA
Statistics
Matches: 153, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
85 27 0.18
86 32 0.21
88 1 0.01
89 2 0.01
90 1 0.01
93 3 0.02
94 2 0.01
99 40 0.26
100 45 0.29
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (100 bp):
TATGTTGTAAACTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGA
TAACCATTCTCACCTTGAGCTAAGCTGTAAATTGT
Found at i:1103347 original size:185 final size:177
Alignment explanation
Indices: 1102691--1103715 Score: 1123
Period size: 172 Copynumber: 5.9 Consensus size: 177
1102681 TACCATACGG
* * * * * * * *
1102691 TTGATATGCCATTGAGTTAAATGGAATCAAACTCGAAGGT-GTTTGTTGATAGATAACCCTTCTC
1 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTC
* * * * * * * * *
1102755 CCCTTGTGTTATGCTGTAAGTTGGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTT
66 GCCTTGAGCTAAGTTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC--T
* * *
1102820 TTGTTGAAAGATAGA-CCTTCTCGCCTT-A-----A-GCTATGTTGTAAA
129 TGGTTGACAGATA-ACCCTTCTCGCCTTGAGTTGTATGTTATGTTGTAAA
* * * *
1102862 CTTTATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATATCTCTTCT
1 -TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCT
* * *
1102927 CGCCTTAAGCTATA-CTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCT
65 CGCCTTGAGCTA-AGTTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-
* *
1102991 TTTGTTGACAGATAACCCTTCTCGCCTTGAG-T-TA---TA--CTGTAAA
128 TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTGTATGTTATGTTGTAAA
*
1103034 TTTGATATGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCT
1 -TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCT
* *
1103099 CGCCTTGAGCTATGTTGTAAACTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTT
65 CGCCTTGAGCTAAGTTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTT
1103164 GGTTGACAGATAACCCTTCTCGCCTTGAGTTAGGTTGTAAATTGTTATGTTGTAAA
130 GGTTGACAGATAACCCTTCTCGCCTT--G--A-GTTGT--A-TGTTATGTTGTAAA
* * *
1103220 TTGATATTCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTGACAGATAACCATTCTC
1 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTC
* *
1103285 ACCTTGAGCTAAGCTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTG
66 GCCTTGAGCTAAGTTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTG
*
1103350 GTTGACAGATAACCCTTCTGGCCTTGAG-T-TATGTTA-----TAAA
131 GTTGACAGATAACCCTTCTCGCCTTGAGTTGTATGTTATGTTGTAAA
* *
1103390 TTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTT
1 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTC
* * * *
1103455 GCCTTGA--TATA-TTGTAAATTTGATGTGCCTTTGAGATAAGTGTAATC-AGACTCGAAGTTAT
66 GCCTTGAGCTA-AGTTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGA-ACTCGAAGGTCT
1103516 TGGTTGACAGATAACCCTTCTCGCC-----TTG-A-GTTATGTTGTAAA
129 TGGTTGACAGATAACCCTTCTCGCCTTGAGTTGTATGTTATGTTGTAAA
* * * *
1103558 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTAGAAGGTC-TTTGTCGACAGATAGCCCTTCTT
1 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTC
* * * * * * *
1103622 GCCTTGAGCTATGTTGTGAATTGGATATGCCTTTGAGCTGAGTGTAATCTAACTCAAATGTCTTT
66 GCCTTGAGCTAAGTTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TT
* *
1103687 TGTTGACAGATAACCCTTCTCACCTTGAG
130 GGTTGACAGATAACCCTTCTCGCCTTGAG
1103716 CTATGATGCA
Statistics
Matches: 737, Mismatches: 74, Indels: 81
0.83 0.08 0.09
Matches are distributed among these distances:
163 4 0.01
164 2 0.00
167 29 0.04
168 112 0.15
169 41 0.06
170 95 0.13
171 28 0.04
172 180 0.24
173 73 0.10
174 2 0.00
175 6 0.01
176 3 0.00
177 1 0.00
178 2 0.00
179 1 0.00
180 2 0.00
181 1 0.00
183 1 0.00
184 2 0.00
185 146 0.20
186 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (177 bp):
TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTC
GCCTTGAGCTAAGTTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTG
GTTGACAGATAACCCTTCTCGCCTTGAGTTGTATGTTATGTTGTAAA
Found at i:1103418 original size:84 final size:85
Alignment explanation
Indices: 1103209--1103720 Score: 678
Period size: 84 Copynumber: 6.0 Consensus size: 85
1103199 TGTAAATTGT
* *
1103209 TATGTTGTAAATTGATATTCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTGACAGA
1 TATGTTGTAAATTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGA
* *
1103274 TAACCATTCTCACCTTGAGC
66 TAACCCTTCTCGCCTTGAGC
* * * *
1103294 TAAGCTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGACAG
1 TATGTTGTAAA-TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAG
* *
1103358 ATAACCCTTCTGGCCTTGAGT
65 ATAACCCTTCTCGCCTTGAGC
* *
1103379 TATGTTATAAATTGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGA
1 TATGTTGTAAATTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGA
*
1103444 TAACCCTTCTTGCCTTGA--
66 TAACCCTTCTCGCCTTGAGC
* * * * *
1103462 TATATTGTAAATTTGATGTGCCTTTGAGATAAGTGTAATC-AGACTCGAA-GT-TATTGGTTGAC
1 TATGTTGTAAA-TTGATATGCCTTTGAGCTGAGTGTAATCGA-ACTCGAAGGTCT-TTTGTTGAC
*
1103524 AGATAACCCTTCTCGCCTTGAGT
63 AGATAACCCTTCTCGCCTTGAGC
* *
1103547 TATGTTGTAAATTGATATGCCTTTGAGCTGAGTGTAATCGAACTAGAAGGTC-TTTGTCGACAGA
1 TATGTTGTAAATTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGA
* *
1103611 TAGCCCTTCTTGCCTTGAGC
66 TAACCCTTCTCGCCTTGAGC
* * * *
1103631 TATGTTGTGAATTGGATATGCCTTTGAGCTGAGTGTAATCTAACTCAAATGTCTTTTGTTGACAG
1 TATGTTGTAAATT-GATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAG
*
1103696 ATAACCCTTCTCACCTTGAGC
65 ATAACCCTTCTCGCCTTGAGC
1103717 TATG
1 TATG
1103721 ATGCAAATAG
Statistics
Matches: 373, Mismatches: 42, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
82 1 0.00
83 40 0.11
84 142 0.38
85 120 0.32
86 70 0.19
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (85 bp):
TATGTTGTAAATTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGA
TAACCCTTCTCGCCTTGAGC
Found at i:1105066 original size:93 final size:88
Alignment explanation
Indices: 1104904--1105087 Score: 269
Period size: 93 Copynumber: 2.0 Consensus size: 88
1104894 GGCATCTCAA
* * *
1104904 TATTATAATTACCTTTATCAGGCTAGCTGAATATCCATAAAGCCGGGGCGTTTAACCAATTGCTT
1 TATTATAATCACCTTTATCAGGCTAGCTGAATATCAATAAAGCCGGGGCGTTTAACCAATTGCTC
1104969 TAGAGGGACAACTCAAGCTTTATTG
66 TAGAGGGACAACTCAAG-TTT-TTG
*
1104994 TATTATAATCACCTTTATCAGGCTAGTTGAATCTTATCAATAAAGCCGGGGCGTTTAACCAATTG
1 TATTATAATCACCTTTATCAGGCTAGCTGAA---TATCAATAAAGCCGGGGCGTTTAACCAATTG
* *
1105059 CTCTAGAGGGATAGCTCAAGTTTTTG
63 CTCTAGAGGGACAACTCAAGTTTTTG
1105085 TAT
1 TAT
1105088 ACATATAATA
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
90 29 0.34
91 6 0.07
92 3 0.04
93 47 0.55
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (88 bp):
TATTATAATCACCTTTATCAGGCTAGCTGAATATCAATAAAGCCGGGGCGTTTAACCAATTGCTC
TAGAGGGACAACTCAAGTTTTTG
Found at i:1111036 original size:2 final size:2
Alignment explanation
Indices: 1111029--1111054 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1111019 TCCCCTATCA
1111029 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
1111055 CAGTCAATAG
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:1114224 original size:31 final size:32
Alignment explanation
Indices: 1114182--1114248 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
1114172 TTGGTAATAA
* *
1114182 TTGTAATAGTTCTAT-AAATTTAATGATCATT
1 TTGTAAGAGTTCCATAAAATTTAATGATCATT
**
1114213 TTGTAAGAGTTCCATAAAATTTGGTGATCATT
1 TTGTAAGAGTTCCATAAAATTTAATGATCATT
1114245 TTGT
1 TTGT
1114249 TATCATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 13 0.42
32 18 0.58
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.46
Consensus pattern (32 bp):
TTGTAAGAGTTCCATAAAATTTAATGATCATT
Found at i:1115440 original size:33 final size:33
Alignment explanation
Indices: 1115342--1115441 Score: 191
Period size: 33 Copynumber: 3.0 Consensus size: 33
1115332 GTTCCTCTGC
*
1115342 TAACCGAAGCTGGTGCTATTGCAAAATCATCCA
1 TAACCGAAGCTGGTGCTATTGCAAAATCATCCG
1115375 TAACCGAAGCTGGTGCTATTGCAAAATCATCCG
1 TAACCGAAGCTGGTGCTATTGCAAAATCATCCG
1115408 TAACCGAAGCTGGTGCTATTGCAAAATCATCCG
1 TAACCGAAGCTGGTGCTATTGCAAAATCATCCG
1115441 T
1 T
1115442 TTAGAATATA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (33 bp):
TAACCGAAGCTGGTGCTATTGCAAAATCATCCG
Found at i:1117608 original size:37 final size:39
Alignment explanation
Indices: 1117566--1117674 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 39
1117556 GTTATTATAT
*
1117566 CTTATTAAAATAA-AAT-TATTATAAATTATATTAATTA
1 CTTATTAAAATAATAATATATTATAAATTATATTAACTA
* *
1117603 TTTATTAAAATAAGAATAATATATTATTAATTATATTAACTA
1 CTTATTAAAAT---AATAATATATTATAAATTATATTAACTA
* * *
1117645 CATATTAAAATATTAA-AAATTATAATATTA
1 CTTATTAAAATAATAATATATTATAA-ATTA
1117675 AAATAAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
37 10 0.17
38 7 0.12
39 8 0.14
40 2 0.03
41 3 0.05
42 28 0.48
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (39 bp):
CTTATTAAAATAATAATATATTATAAATTATATTAACTA
Found at i:1117659 original size:8 final size:8
Alignment explanation
Indices: 1117646--1117688 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
1117636 TATTAACTAC
1117646 ATATTAAA
1 ATATTAAA
1117654 ATATTAAA
1 ATATTAAA
*
1117662 A-ATTATA
1 ATATTAAA
1117669 ATATTAAA
1 ATATTAAA
1117677 ATA--AAA
1 ATATTAAA
1117683 ATATTA
1 ATATTA
1117689 TGTTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 6 0.20
7 6 0.20
8 18 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATTAAA
Found at i:1117671 original size:15 final size:15
Alignment explanation
Indices: 1117648--1117688 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
1117638 TTAACTACAT
1117648 ATTAAAATATTAAAA
1 ATTAAAATATTAAAA
*
1117663 ATTATAATATT-AAA
1 ATTAAAATATTAAAA
*
1117677 ATAAAAATATTA
1 ATTAAAATATTA
1117689 TGTTATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTAAAATATTAAAA
Found at i:1123814 original size:21 final size:20
Alignment explanation
Indices: 1123771--1123821 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1123761 AAAAGAATTA
* *
1123771 ATAATTAATATTTTTATTAAT
1 ATAATT-ATATTATTATAAAT
1123792 ATAATTATATTATTATAATAT
1 ATAATTATATTATTATAA-AT
1123813 ATAA-TATAT
1 ATAATTATAT
1123822 AAAAAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAATTATATTATTATAAAT
Found at i:1124129 original size:2 final size:2
Alignment explanation
Indices: 1124122--1124152 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1124112 GTATCTTTTC
1124122 AT AT AT 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 AT AT AT A
1124153 ATACTCCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1124461 original size:2 final size:2
Alignment explanation
Indices: 1124454--1124498 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1124444 CATATTGTAC
1124454 CT CT CT CT CT CT CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1124495 CT CT
1 CT CT
1124499 ATATATATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1124503 original size:2 final size:2
Alignment explanation
Indices: 1124498--1124560 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
1124488 TCTCTCTCTC
1124498 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
1124540 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
1124561 TCATGAATTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1127422 original size:29 final size:27
Alignment explanation
Indices: 1127390--1127443 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
1127380 ACACTATCTT
*
1127390 ATATTCAAAAGAGCATTTTATAACTTTAA
1 ATATTC-AAAG-GAATTTTATAACTTTAA
*
1127419 ATATTCACAGGAATTTTATAACTTT
1 ATATTCAAAGGAATTTTATAACTTT
1127444 TTATAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 14 0.61
28 3 0.13
29 6 0.26
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (27 bp):
ATATTCAAAGGAATTTTATAACTTTAA
Found at i:1134508 original size:75 final size:75
Alignment explanation
Indices: 1134417--1134574 Score: 289
Period size: 75 Copynumber: 2.1 Consensus size: 75
1134407 CGTCGAATTT
*
1134417 AGCATTTGACAGGGAGCAGATTGGTTTTAATTGGAGGGGAAATGGTTGGTTGGGAATTGGCCCTT
1 AGCATTTTACAGGGAGCAGATTGGTTTTAATTGGAGGGGAAATGGTTGGTTGGGAATTGGCCCTT
1134482 TCAGAGTAGA
66 TCAGAGTAGA
* *
1134492 AGCATTTTACAGGGAGCAGATTGGTTTTAATTGGAGGGGAGATGTTTGGTTGGGAATTGGCCCTT
1 AGCATTTTACAGGGAGCAGATTGGTTTTAATTGGAGGGGAAATGGTTGGTTGGGAATTGGCCCTT
1134557 TCAGAGTAGA
66 TCAGAGTAGA
1134567 AGCATTTT
1 AGCATTTT
1134575 TATGGAGGGC
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 80 1.00
ACGTcount: A:0.25, C:0.09, G:0.34, T:0.32
Consensus pattern (75 bp):
AGCATTTTACAGGGAGCAGATTGGTTTTAATTGGAGGGGAAATGGTTGGTTGGGAATTGGCCCTT
TCAGAGTAGA
Found at i:1135820 original size:2 final size:2
Alignment explanation
Indices: 1135813--1135837 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1135803 ATGTCCTCTT
1135813 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1135838 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1135944 original size:52 final size:55
Alignment explanation
Indices: 1135883--1135997 Score: 155
Period size: 56 Copynumber: 2.1 Consensus size: 55
1135873 ATTTTTAGGG
* * *
1135883 ATAATTATTATAATGTC-CTCTATA-TTTTTTA-AATTATTTTCTATTTTACAGA
1 ATAAATATTATAATGTCACTCTATATTTTTTTATAATAATTTTCTATTTTACACA
* *
1135935 ATAAATATTATAATGTCATCTCTCTATTTTTTTATAATAATTTTCTATTTTATACA
1 ATAAATATTATAATGTCA-CTCTATATTTTTTTATAATAATTTTCTATTTTACACA
1135991 ATAAATA
1 ATAAATA
1135998 AAAAAAAACT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
52 16 0.30
54 6 0.11
55 7 0.13
56 25 0.46
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.52
Consensus pattern (55 bp):
ATAAATATTATAATGTCACTCTATATTTTTTTATAATAATTTTCTATTTTACACA
Found at i:1136270 original size:11 final size:11
Alignment explanation
Indices: 1136254--1136298 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
1136244 TTAAATAATC
1136254 ATAAATATTAT
1 ATAAATATTAT
*
1136265 ATAAATATTGT
1 ATAAATATTAT
*
1136276 AT-AATATAAT
1 ATAAATATTAT
*
1136286 ATGAATATTAT
1 ATAAATATTAT
1136297 AT
1 AT
1136299 TTATATTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (11 bp):
ATAAATATTAT
Found at i:1142116 original size:11 final size:11
Alignment explanation
Indices: 1142091--1142131 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
1142081 ACGAATTTTC
1142091 AAATTATTA-T
1 AAATTATTATT
*
1142101 AAATTATCATT
1 AAATTATTATT
1142112 AAATT-TTATT
1 AAATTATTATT
1142122 AAAATTATTA
1 -AAATTATTA
1142132 AAAAAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 12 0.46
11 11 0.42
12 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
AAATTATTATT
Found at i:1144535 original size:25 final size:25
Alignment explanation
Indices: 1144505--1144555 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
1144495 CACATGTAAT
1144505 AAATTAAGGAAATGAAAAAAATAAA
1 AAATTAAGGAAATGAAAAAAATAAA
*
1144530 AAATTAAGGAAATGAATAAAATAAA
1 AAATTAAGGAAATGAAAAAAATAAA
1144555 A
1 A
1144556 GGAGAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.18
Consensus pattern (25 bp):
AAATTAAGGAAATGAAAAAAATAAA
Found at i:1146620 original size:67 final size:68
Alignment explanation
Indices: 1146498--1146632 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 68
1146488 GAAGACCCTG
1146498 GGTATTCGAGTAAAATATATATACATCGTAGTGTTAACCTGCACTAAGCTTACACTCTAGTGCTA
1 GGTATTCGAGTAAAATATATATACATCGTAGTGTTAACCTGCACTAAGCTTACACTCTAGTGCTA
1146563 ATC
66 ATC
1146566 GGTATTCGAGT-AAA-ATATATACATCGTAGTGTTAAACCTGCACTAAGCTTACACTCTAGTGCT
1 GGTATTCGAGTAAAATATATATACATCGTAGTGTT-AACCTGCACTAAGCTTACACTCTAGTGCT
1146629 AATC
65 AATC
1146633 CGATATGACA
Statistics
Matches: 66, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
66 19 0.29
67 36 0.55
68 11 0.17
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (68 bp):
GGTATTCGAGTAAAATATATATACATCGTAGTGTTAACCTGCACTAAGCTTACACTCTAGTGCTA
ATC
Found at i:1147164 original size:61 final size:64
Alignment explanation
Indices: 1147092--1147236 Score: 190
Period size: 61 Copynumber: 2.3 Consensus size: 64
1147082 CTGCACTAAG
* *
1147092 CTTACACTCTAGTGCTAATCCGGATATGACACATATGGTCGTACCCACCACCTACAC-TAG-GT
1 CTTACACTCTAGTGCTAATCCAGATATGACACATAAGGTCGTACCCACCACCTACACTTAGTGT
* * **
1147154 -TTACACTCTAGTGTTAATCCATATATGACACATAAGGTCGTGTCCACCACCTACACTTAGTGT
1 CTTACACTCTAGTGCTAATCCAGATATGACACATAAGGTCGTACCCACCACCTACACTTAGTGT
1147217 CCTTACA-TACTAGTGCTAAT
1 -CTTACACT-CTAGTGCTAAT
1147237 ATAAACATAC
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
61 50 0.70
62 3 0.04
63 2 0.03
64 1 0.01
65 15 0.21
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (64 bp):
CTTACACTCTAGTGCTAATCCAGATATGACACATAAGGTCGTACCCACCACCTACACTTAGTGT
Found at i:1151124 original size:15 final size:15
Alignment explanation
Indices: 1151081--1151128 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1151071 ACGGGTATCT
1151081 GGTAATCGGGTACCC
1 GGTAATCGGGTACCC
* **
1151096 AGATTTTGCGGGTACCC
1 -GGTAAT-CGGGTACCC
1151113 GGTAATCGGGTACCC
1 GGTAATCGGGTACCC
1151128 G
1 G
1151129 ATACCCGGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
15 10 0.40
16 6 0.24
17 9 0.36
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.23
Consensus pattern (15 bp):
GGTAATCGGGTACCC
Found at i:1151350 original size:16 final size:16
Alignment explanation
Indices: 1151326--1151356 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1151316 AAATAAAAAC
*
1151326 TAACTGGGTACTCGGG
1 TAACCGGGTACTCGGG
1151342 TAACCGGGTACTCGG
1 TAACCGGGTACTCGG
1151357 AAAAACTAGA
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:0.19, C:0.23, G:0.35, T:0.23
Consensus pattern (16 bp):
TAACCGGGTACTCGGG
Found at i:1153143 original size:16 final size:16
Alignment explanation
Indices: 1153122--1153155 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1153112 AGTAGCGATA
1153122 AGTACCACAAACGACG
1 AGTACCACAAACGACG
*
1153138 AGTACCACTAACGACG
1 AGTACCACAAACGACG
1153154 AG
1 AG
1153156 CAAACTTAAT
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:0.41, C:0.29, G:0.21, T:0.09
Consensus pattern (16 bp):
AGTACCACAAACGACG
Found at i:1154902 original size:29 final size:29
Alignment explanation
Indices: 1154869--1154929 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
1154859 AGTCCATTAT
1154869 TCTTTTACTCAACAGTGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
*
1154898 TCTTTTACTCAACAGTGTTTCACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
1154927 TCT
1 TCT
1154930 AACTAGCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.43
Consensus pattern (29 bp):
TCTTTTACTCAACAGTGTTTAACCGTTCA
Found at i:1155016 original size:68 final size:68
Alignment explanation
Indices: 1154923--1155242 Score: 432
Period size: 68 Copynumber: 4.7 Consensus size: 68
1154913 TGTTTCACCG
* * * *
1154923 TTCATCTAACT-AGCATAATTAACACCTTTTTG-CCAATCGCTCAGTTAGGCCTCAAAGGCACTT
1 TTCATCTAACTGA-CATAATTGACACCTTTCTGTCAAAT-GCACAGTTAGGCCTCAAAGGCACTT
1154986 AGCCT
64 AGCCT
*
1154991 TTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAATGCACTTAG
1 TTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1155056 CCT
66 CCT
* ** *
1155059 TTCATATAACTGGTATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTGAG
1 TTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1155124 CCT
66 CCT
* * *
1155127 TTCATCTAACTGGCATAATTGACACATTTGC-GTCAAATGCACAGTTAGGCCTCAAAGACACTTA
1 TTCATCTAACTGACATAATTGACACCTTT-CTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTA
1155191 GCCT
65 GCCT
* * * *
1155195 TTCATCTAACT-AGTATAATTGACACCTTTCTGCCAATTGCTCAGTTAG
1 TTCATCTAACTGA-CATAATTGACACCTTTCTGTCAAATGCACAGTTAG
1155243 ACAATTAATC
Statistics
Matches: 226, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
67 1 0.00
68 219 0.97
69 6 0.03
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:1155149 original size:136 final size:135
Alignment explanation
Indices: 1154923--1155242 Score: 482
Period size: 136 Copynumber: 2.3 Consensus size: 135
1154913 TGTTTCACCG
* * * * *
1154923 TTCATCTAACTAGCATAATTAACACCTTTTTGCCAATCGCTCAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTAGTATAATTGACACCTTTCTGCAAAT-GCTCAGTTAGGCCTCAAAGGCACTGAG
*
1154988 CCTTTCATCTAACTGACATAATTGACACCTTT-CTGTCAAATGCACAGTTAGGCCTCAAATG-CA
65 CCTTTCATCTAACTGACATAATTGACACATTTGC-GTCAAATGCACAGTTAGGCCTCAAA-GACA
1155051 CTTAGCCT
128 CTTAGCCT
* * *
1155059 TTCATATAACTGGTATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTGAG
1 TTCATCTAACTAGTATAATTGACACCTTTCTG-CAAATGCTCAGTTAGGCCTCAAAGGCACTGAG
*
1155124 CCTTTCATCTAACTGGCATAATTGACACATTTGCGTCAAATGCACAGTTAGGCCTCAAAGACACT
65 CCTTTCATCTAACTGACATAATTGACACATTTGCGTCAAATGCACAGTTAGGCCTCAAAGACACT
1155189 TAGCCT
130 TAGCCT
*
1155195 TTCATCTAACTAGTATAATTGACACCTTTCTGCCAATTGCTCAGTTAG
1 TTCATCTAACTAGTATAATTGACACCTTTCTG-CAAATGCTCAGTTAG
1155243 ACAATTAATC
Statistics
Matches: 166, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
135 1 0.01
136 160 0.96
137 5 0.03
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (135 bp):
TTCATCTAACTAGTATAATTGACACCTTTCTGCAAATGCTCAGTTAGGCCTCAAAGGCACTGAGC
CTTTCATCTAACTGACATAATTGACACATTTGCGTCAAATGCACAGTTAGGCCTCAAAGACACTT
AGCCT
Found at i:1155638 original size:23 final size:23
Alignment explanation
Indices: 1155610--1155678 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
1155600 TTATTTATGG
1155610 CATACTTTCATGCCTTAATGCAT
1 CATACTTTCATGCCTTAATGCAT
1155633 CATACTTTCATGCCTTAATGCAT
1 CATACTTTCATGCCTTAATGCAT
1155656 C---CTTTCATGCCTTAATGCAT
1 CATACTTTCATGCCTTAATGCAT
1155676 CAT
1 CAT
1155679 TTCATACATT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
20 20 0.45
23 24 0.55
ACGTcount: A:0.25, C:0.28, G:0.09, T:0.39
Consensus pattern (23 bp):
CATACTTTCATGCCTTAATGCAT
Found at i:1155662 original size:20 final size:20
Alignment explanation
Indices: 1155609--1155868 Score: 153
Period size: 20 Copynumber: 11.7 Consensus size: 20
1155599 TTTATTTATG
*
1155609 GCATACTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
1155629 GCATCATACTTTCATGCCTTAAT
1 GCATC---CTTTCATGCCTTAAT
1155652 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* * *
1155672 GCATCATTTCATACATTTTATTTAT
1 GCATCCTTTCATGC--CTTA---AT
*
1155697 GGCAT-CTTCCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
1155717 GCATCCTTTCATGCATTTTATTTAT
1 GCATCCTTTCATGC--CTTA---AT
1155742 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
1155763 GCATCATTTCATGCATTTTATTGAT
1 GCATCCTTTCATGC--CTTA---AT
*
1155788 GGCATCCTTTCACGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
1155809 ACATCCTTTCATGCATTTTATTTAT
1 GCATCCTTTCATGC--CTTA---AT
1155834 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
1155855 GCCTCCTTTTATGC
1 GCATCCTTTCATGC
1155869 ATTTTATTTA
Statistics
Matches: 189, Mismatches: 23, Indels: 56
0.71 0.09 0.21
Matches are distributed among these distances:
19 4 0.02
20 78 0.41
21 6 0.03
22 12 0.06
23 23 0.12
24 9 0.05
25 14 0.07
26 43 0.23
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.43
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:1155753 original size:26 final size:25
Alignment explanation
Indices: 1155672--1155894 Score: 137
Period size: 26 Copynumber: 9.6 Consensus size: 25
1155662 ATGCCTTAAT
* *
1155672 GCATCATTTCATACATTTTATTTATG
1 GCATCCTTTCATGCATTTTA-TTATG
* *
1155698 GCAT-CTTCCATGC--CTTA--AT-
1 GCATCCTTTCATGCATTTTATTATG
1155717 GCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTA-TTATG
*
1155743 GCATCCTTTCATGC--CTTA--AT-
1 GCATCCTTTCATGCATTTTATTATG
*
1155763 GCATCATTTCATGCATTTTATTGATG
1 GCATCCTTTCATGCATTTTATT-ATG
* *
1155789 GCATCCTTTCACGC--CTTA--AT-
1 GCATCCTTTCATGCATTTTATTATG
*
1155809 ACATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTA-TTATG
*
1155835 GCATCCTTTCATGC--CTTA--AT-
1 GCATCCTTTCATGCATTTTATTATG
* *
1155855 GCCTCCTTTTATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTA-TTATG
*
1155881 ACATCCTTTCATGC
1 GCATCCTTTCATGC
1155895 CAATCTAATT
Statistics
Matches: 149, Mismatches: 23, Indels: 50
0.67 0.10 0.23
Matches are distributed among these distances:
19 4 0.03
20 47 0.32
21 6 0.04
22 12 0.08
23 3 0.02
24 9 0.06
25 14 0.09
26 54 0.36
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (25 bp):
GCATCCTTTCATGCATTTTATTATG
Found at i:1155773 original size:46 final size:46
Alignment explanation
Indices: 1155596--1155895 Score: 407
Period size: 46 Copynumber: 6.6 Consensus size: 46
1155586 CGTTAAATTT
*
1155596 CATTTTATTTATGGCATACTTTCATGCCTTAATGCATCATACTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATC--A-TTTCATG
* *
1155645 C--CTTA---AT-GCATCCTTTCATGCCTTAATGCATCATTTCATA
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
* *
1155685 CATTTTATTTATGGCAT-CTTCCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
1155730 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
* * * *
1155776 CATTTTATTGATGGCATCCTTTCACGCCTTAATACATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
* * *
1155822 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCCTCCTTTTATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
*
1155868 CATTTTATTTATGACATCCTTTCATGCC
1 CATTTTATTTATGGCATCCTTTCATGCC
1155896 AATCTAATTA
Statistics
Matches: 225, Mismatches: 19, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
40 7 0.03
41 1 0.00
42 3 0.01
43 24 0.11
44 2 0.01
45 44 0.20
46 140 0.62
47 3 0.01
49 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (46 bp):
CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
Found at i:1157904 original size:12 final size:12
Alignment explanation
Indices: 1157889--1157921 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1157879 TTAATCATAT
1157889 GAATAATTATAA
1 GAATAATTATAA
*
1157901 GAATAATGATAA
1 GAATAATTATAA
1157913 GAATAATTA
1 GAATAATTA
1157922 ATTGATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (12 bp):
GAATAATTATAA
Found at i:1157981 original size:6 final size:6
Alignment explanation
Indices: 1157926--1157979 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
1157916 TAATTAATTG
* *
1157926 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATGTGT TTATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
1157974 TTATGT
1 ATATGT
1157980 TTTGATGCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.54
Consensus pattern (6 bp):
ATATGT
Found at i:1163419 original size:23 final size:23
Alignment explanation
Indices: 1163393--1163455 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
1163383 AAATTTATAT
* *
1163393 GGCACTACGATGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
1163416 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
1163439 GGCACTTCGGTGCAATT
1 GGCACTTCGGTGCAATT
1163456 TATACGAGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:1164009 original size:21 final size:21
Alignment explanation
Indices: 1163985--1164028 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1163975 AGCTGAAGTT
*
1163985 ACTGTAGCAGTGCATCGGTAC
1 ACTGTAGCAGTGCATCGATAC
*
1164006 ACTGTAGTAGTGCATCGATAC
1 ACTGTAGCAGTGCATCGATAC
1164027 AC
1 AC
1164029 AATTTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATAC
Found at i:1165370 original size:2 final size:2
Alignment explanation
Indices: 1165365--1165405 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1165355 ATTAAAAAAC
1165365 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT A
1165406 AATTTAAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1165834 original size:22 final size:20
Alignment explanation
Indices: 1165789--1165842 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
1165779 ATGTTGCGTA
*
1165789 GTATCGATACCCTTACCATG
1 GTATCGATACCCATACCATG
*
1165809 GTATCGATACTACCATACTATG
1 GTATCGATAC--CCATACCATG
*
1165831 GTATTGATACCC
1 GTATCGATACCC
1165843 CTTCCGGTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.41
22 17 0.59
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (20 bp):
GTATCGATACCCATACCATG
Found at i:1165857 original size:18 final size:18
Alignment explanation
Indices: 1165836--1165877 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1165826 CTATGGTATT
1165836 GATACCCCTTCCGGTACC
1 GATACCCCTTCCGGTACC
*
1165854 GATACCCCTTCCGGTATC
1 GATACCCCTTCCGGTACC
1165872 GATACC
1 GATACC
1165878 AGTTTTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.40, G:0.17, T:0.24
Consensus pattern (18 bp):
GATACCCCTTCCGGTACC
Found at i:1169909 original size:26 final size:25
Alignment explanation
Indices: 1169859--1169909 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1169849 TTTATTTTCT
*
1169859 TTTTCTATAAAATTTTTTAAGTTTA
1 TTTTCTATAAAATTTTTAAAGTTTA
* *
1169884 TTTTCTCTAAAATTTTATAAATTTTA
1 TTTTCTATAAAATTTT-TAAAGTTTA
1169910 AATGAAGCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTCTATAAAATTTTTAAAGTTTA
Found at i:1171864 original size:21 final size:21
Alignment explanation
Indices: 1171840--1171891 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1171830 TAATTTATAC
1171840 AATTATTTTAATTGAGATAGG
1 AATTATTTTAATTGAGATAGG
*
1171861 AATTATTTTAATTGAGTTAGG
1 AATTATTTTAATTGAGATAGG
1171882 AATTATTTTA
1 AATTATTTTA
1171892 TTCTAAGATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (21 bp):
AATTATTTTAATTGAGATAGG
Found at i:1173853 original size:14 final size:14
Alignment explanation
Indices: 1173836--1173880 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1173826 TCTTCTCCCT
1173836 TTTTTTTTCTTCGA
1 TTTTTTTTCTTCGA
*
1173850 TTTTTTTGCTTC--
1 TTTTTTTTCTTCGA
1173862 -TTTTTTTCTTCTGA
1 TTTTTTTTCTTC-GA
1173876 TTTTT
1 TTTTT
1173881 CGGGTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
11 10 0.40
14 11 0.44
15 4 0.16
ACGTcount: A:0.04, C:0.13, G:0.07, T:0.76
Consensus pattern (14 bp):
TTTTTTTTCTTCGA
Found at i:1174615 original size:3 final size:3
Alignment explanation
Indices: 1174607--1174670 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
1174597 AAATAAACGT
1174607 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1174655 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
1174671 GAGTATCAGG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1175088 original size:134 final size:134
Alignment explanation
Indices: 1174872--1175415 Score: 741
Period size: 134 Copynumber: 4.1 Consensus size: 134
1174862 TTTTGTTCAT
* * * *
1174872 GGAATATTGAATCGGAATCGATTTGCTTCACTACTCTTCGGGAAGATCAAATCTGAAAGAAGAAG
1 GGAAGATTGAATCAGAATCGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAGAAG
* * *
1174937 AATATGCTCCACTACTCTTTAAGGGAGATCAGACTCGATAAAACTTTGATCCACTTCACTGCTCT
66 AATCTGCTCCACTACTCTTTAAGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCT
1175002 TTAG
131 TTAG
* *
1175006 GGAATATTGAATCAGAATCGATTTGCTTCACTACTCTTCAAGAAGACCAAATCTGAAAGAAGAAG
1 GGAAGATTGAATCAGAATCGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAGAAG
* * * * ***
1175071 AATCTGTTTCACTACTCTTTAAGGGAGACCAGACTCGAGAAAATTTTGATTCACTTTGTTGCTCT
66 AATCTGCTCCACTACTCTTTAAGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCT
1175136 TTAG
131 TTAG
* * * * * *
1175140 GGAAGATTAAATCATAATCGATTTCCTTCACTGCTCTTCATGAAGGCCAAATCTGAAAGAAGAAG
1 GGAAGATTGAATCAGAATCGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAGAAG
**
1175205 AATCTGCTCCACTACTC-TTAAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTTGCTGCT-
66 AATCTGCTCCACTACTCTTTAA-GGGAGATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTC
1175268 TTTCAG
130 TTT-AG
* * * *
1175274 GGAAGATTGAATTAGAATCGATTTGCTTCACTGCTCTTCTGGAAGACCAAATCTCAAAGAAGAAG
1 GGAAGATTGAATCAGAATCGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAGAAG
* * * * **
1175339 AATCTGCTCCACTATTCTTTAGGGGAGATCAGACTTGAGAAAATTATGATCCACTTCACTATTCT
66 AATCTGCTCCACTACTCTTTAAGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCT
*
1175404 TCAG
131 TTAG
1175408 GGAAGATT
1 GGAAGATT
1175416 TAATTGAACC
Statistics
Matches: 363, Mismatches: 43, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
133 7 0.02
134 351 0.97
135 5 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (134 bp):
GGAAGATTGAATCAGAATCGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAGAAG
AATCTGCTCCACTACTCTTTAAGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCT
TTAG
Found at i:1176085 original size:45 final size:45
Alignment explanation
Indices: 1176020--1176369 Score: 334
Period size: 45 Copynumber: 7.8 Consensus size: 45
1176010 GAAATATACT
* * *
1176020 ACTAAAATATTGACTCTTCTTCGTGAGAAAGTCAAGAAGGACAAC
1 ACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAAC
* ** *
1176065 ACTAAAAGATCGACTTTTCTTTGCGAGAAAGT-AAGAAAGGACAAC
1 ACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAG-AAGGACAAC
* * * * *
1176110 ACTAAAATATTGACTCCTCTTCACGAGAAAGTCAAGGAA-AATAAT
1 ACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAA-GAAGGACAAC
* * * *
1176155 ACCAAAAGATTGACTCATCTTCGCGAGAAAGTCAAGAAGAACAAT
1 ACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAAC
* *
1176200 ACTAAAAGATTGACTCATCTTCACGAGAAAGTCAAGGAA-GACAAC
1 ACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAA-GAAGGACAAC
* * * * *
1176245 ACTTAAAGATTGACTTCTATTCGCGAGAAAGTCAAGAATGACAAT
1 ACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAAC
* * * ** *
1176290 ACTGAGAGATTGACTTCTCTTCATGAGAAAGTCAAG-A--ATAAC
1 ACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAAC
* * * *
1176332 ACTAAAAGATTGATTCATCTTCACGAGGAAGTCAAGAA
1 ACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAA
1176370 TAATAAAGAT
Statistics
Matches: 255, Mismatches: 43, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
42 32 0.13
43 1 0.00
44 10 0.04
45 204 0.80
46 7 0.03
47 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (45 bp):
ACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAAC
Found at i:1176138 original size:90 final size:90
Alignment explanation
Indices: 1176019--1176369 Score: 390
Period size: 90 Copynumber: 3.9 Consensus size: 90
1176009 GGAAATATAC
* * ** * *
1176019 TACTAAAATATTGACTCTTCTTCGTGAGAAAGTCAA-GAAGGACAACACTAAAAGATCGACTTTT
1 TACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGGAA-GACAACACTAAAAGATTGACTTAT
*
1176083 CTTTGCGAGAAAGT-AAGAAAGGACAA
65 CTTCGCGAGAAAGTCAAG-AAGGACAA
* * * * * * *
1176109 CACTAAAATATTGACTCCTCTTCACGAGAAAGTCAAGGAAAATAATACCAAAAGATTGACTCATC
1 TACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACTTATC
*
1176174 TTCGCGAGAAAGTCAAGAAGAACAA
66 TTCGCGAGAAAGTCAAGAAGGACAA
* * * *
1176199 TACTAAAAGATTGACTCATCTTCACGAGAAAGTCAAGGAAGACAACACTTAAAGATTGACTTCTA
1 TACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACTTATC
*
1176264 TTCGCGAGAAAGTCAAGAATGACAA
66 TTCGCGAGAAAGTCAAGAAGGACAA
* * * * *
1176289 TACTGAGAGATTGACTTCTCTTCATGAGAAAGTCAA-G-A-ATAACACTAAAAGATTGA-TTCAT
1 TACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACTT-AT
* *
1176350 CTTCACGAGGAAGTCAAGAA
65 CTTCGCGAGAAAGTCAAGAA
1176370 TAATAAAGAT
Statistics
Matches: 221, Mismatches: 37, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
86 2 0.01
87 34 0.15
88 1 0.00
89 1 0.00
90 177 0.80
91 6 0.03
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (90 bp):
TACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACTTATC
TTCGCGAGAAAGTCAAGAAGGACAA
Found at i:1176227 original size:135 final size:133
Alignment explanation
Indices: 1176008--1176369 Score: 408
Period size: 135 Copynumber: 2.7 Consensus size: 133
1175998 AGTCAAGTTG
* * *
1176008 AGGAAATATACTACTAAAATATTGACTCTTCTTCGTGAGAAAGTCAAGAAGGACAACACTAAAAG
1 AGGAAA-ATAATACTAAAAGATTGACTC-TCTTCGTGAGAAAGTCAAGAAGAACAA-ACTAAAAG
* ** ** * *
1176073 ATCGACTTTTCTTTGCGAGAAAGT-AAGAAAGGACAACACTAAAATATTGACTCCTCTTCACGAG
63 ATTGACTCATCTTCACGAGAAAGTCAAGAAA-GACAACACTAAAAGATTGACTCCTATTCACGAG
1176137 AAAGTCA
127 AAAGTCA
* *
1176144 AGGAAAATAATACCAAAAGATTGACTCATCTTCGCGAGAAAGTCAAGAAGAACAATACTAAAAGA
1 AGGAAAATAATACTAAAAGATTGACTC-TCTTCGTGAGAAAGTCAAGAAGAACAA-ACTAAAAGA
* * * *
1176209 TTGACTCATCTTCACGAGAAAGTCAAGGAAGACAACACTTAAAGATTGACTTCTATTCGCGAGAA
64 TTGACTCATCTTCACGAGAAAGTCAAGAAAGACAACACTAAAAGATTGACTCCTATTCACGAGAA
1176274 AGTCA
129 AGTCA
* * * * * *
1176279 A-GAATGACAATACTGAGAGATTGACTTCTCTTCATGAGAAAGTCAAGAATAAC--ACTAAAAGA
1 AGGAA-AATAATACTAAAAGATTGAC-TCTCTTCGTGAGAAAGTCAAGAAGAACAAACTAAAAGA
* *
1176341 TTGATTCATCTTCACGAGGAAGTCAAGAA
64 TTGACTCATCTTCACGAGAAAGTCAAGAA
1176370 TAATAAAGAT
Statistics
Matches: 194, Mismatches: 29, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
132 35 0.18
134 3 0.02
135 143 0.74
136 13 0.07
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (133 bp):
AGGAAAATAATACTAAAAGATTGACTCTCTTCGTGAGAAAGTCAAGAAGAACAAACTAAAAGATT
GACTCATCTTCACGAGAAAGTCAAGAAAGACAACACTAAAAGATTGACTCCTATTCACGAGAAAG
TCA
Found at i:1176391 original size:38 final size:38
Alignment explanation
Indices: 1176296--1177147 Score: 941
Period size: 38 Copynumber: 22.0 Consensus size: 38
1176286 CAATACTGAG
* *
1176296 AGATTGACTTCTCTTCATGAGAAAGTCAAGAATAACACTAAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-AC--AA
*
1176338 AGATTGA-TTCATCTTCACGAGGAAGTCAAGAATAATAA
1 AGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAACAA
* * *
1176376 AGATCGAATTCTCTTCATGAGGAAGTCAAGAATAACATTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC----AA
** * * *
1176418 AGATTGAC-TCTTCTTTGCGAGGGAGTCAGGAATAATAA
1 AGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAACAA
*
1176456 AGATTGACTTCTCTTAACGAGGAAGTCAA-AAGTAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAA-TAACAA
1176494 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* * *
1176532 AGATCGACTTCTCTTCATGAGGAATTCAAGAATAACATTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC----AA
** * * *
1176574 AGATTGACACCTCTTCGCGAGGGA-CCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* * *
1176611 AGATTGACTTCTCTTTACGAGGAAGTCAAGAGTAATAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* * *
1176649 AGATTGACTTCTTTTCACGAGGAAGTTAAGAATAAAAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* *
1176687 AGATTGATTTCTCTTAACGAGGAAGTCAAGAATAACATTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC----AA
* * * *
1176729 AGATTGAC-TCATATTCGCAAGGGAA-TCAGGAATAACAA
1 AGATTGACTTC-TCTTCACGA-GGAAGTCAAGAATAACAA
* * * *
1176767 AGATTGACTTCTATTCACGATGAAGTCAATAGTAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
*
1176805 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAAAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* * *
1176843 AGATCGAATTCTCTTCACGAGGAAGTCAAGAGTAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
1176881 AGATTGA-TCTCTCTTCACGAGGAAGTCAAGAATAACAA
1 AGATTGACT-TCTCTTCACGAGGAAGTCAAGAATAACAA
1176919 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* *
1176957 ATATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
*
1176995 AGATTGACTCCTCTTCACGA-GAGAGTCAAGAATAA-AA
1 AGATTGACTTCTCTTCACGAGGA-AGTCAAGAATAACAA
* *
1177032 AAAGTTGACTTCTTTTCACGAGGAAGTCAAGAATAACAA
1 AGA-TTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* * * *
1177071 ATATCGACTTCTCTTCACGAAGAAGTCAAGAAGGAA-AA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAA-TAACAA
* * *
1177109 AGATTAACTTATCTTCAAGAGGAAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
1177147 A
1 A
1177148 TATCAACTGA
Statistics
Matches: 688, Mismatches: 91, Indels: 66
0.81 0.11 0.08
Matches are distributed among these distances:
37 34 0.05
38 515 0.75
39 18 0.03
40 1 0.00
41 18 0.03
42 98 0.14
43 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (38 bp):
AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
Found at i:1178977 original size:7 final size:7
Alignment explanation
Indices: 1178951--1179042 Score: 60
Period size: 7 Copynumber: 12.7 Consensus size: 7
1178941 TACTTAATTT
1178951 TTTTTTC
1 TTTTTTC
* *
1178958 TCTTTCC
1 TTTTTTC
1178965 TCTTTTTC
1 T-TTTTTC
1178973 -TTTTTC
1 TTTTTTC
1178979 TTTTTCTC
1 TTTTT-TC
*
1178987 TTTTCTC
1 TTTTTTC
*
1178994 TTTTTTA
1 TTTTTTC
*
1179001 TTTCCTATC
1 TTT--TTTC
*
1179010 TTTTCTC
1 TTTTTTC
*
1179017 TTTTCTC
1 TTTTTTC
1179024 TTTTTTC
1 TTTTTTC
* *
1179031 CTTCTTC
1 TTTTTTC
1179038 TTTTT
1 TTTTT
1179043 CTATATTTTC
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
6 6 0.09
7 44 0.68
8 10 0.15
9 5 0.08
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTTC
Found at i:1178978 original size:21 final size:21
Alignment explanation
Indices: 1178948--1179044 Score: 83
Period size: 21 Copynumber: 4.6 Consensus size: 21
1178938 AAATACTTAA
1178948 TTTT-TTTTTCTCTTTCCTCT
1 TTTTCTTTTTCTCTTTCCTCT
*
1178968 TTTTCTTTTTCT-TTTTCTCT
1 TTTTCTTTTTCTCTTTCCTCT
* *
1178988 TTTCTCTTTTT-TATTTCCTAT
1 TTT-TCTTTTTCTCTTTCCTCT
**
1179009 CTTTTCTCTTTTCTCTTTTTTCCT
1 -TTTTCT-TTTTCTCTTTCCT-CT
*
1179033 TCTTCTTTTTCT
1 TTTTCTTTTTCT
1179045 ATATTTTCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
20 15 0.24
21 23 0.37
22 13 0.21
23 10 0.16
24 1 0.02
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCTTTTTCTCTTTCCTCT
Found at i:1178982 original size:5 final size:6
Alignment explanation
Indices: 1178965--1179044 Score: 56
Period size: 6 Copynumber: 12.5 Consensus size: 6
1178955 TTCTCTTTCC
* *
1178965 TCTTTT TCTTTT TCTTTT TCTCTTT TCTCTTT T-TTATT TC-CTA TCTTTT
1 TCTTTT TCTTTT TCTTTT TCT-TTT TCT-TTT TCTT-TT TCTTTT TCTTTT
*
1179014 CTCTTTT CTCTTTTT TCCTTCT TCTTTT TCT
1 -TCTTTT -TC-TTTT T-CTTTT TCTTTT TCT
1179045 ATATTTTCTC
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
5 4 0.07
6 27 0.44
7 25 0.41
8 5 0.08
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (6 bp):
TCTTTT
Found at i:1179052 original size:38 final size:37
Alignment explanation
Indices: 1178974--1179055 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 37
1178964 CTCTTTTTCT
*
1178974 TTTTCT-TTTTCTCTTTTCTCTTTTTTATTTCCTATC
1 TTTTCTCTTTTCTCTTTTCTCTTTTTTATTTCCTATA
*
1179010 TTTTCTCTTTTCTCTTTTTTCCTTCTTCTT-TTT-CTATA
1 TTTTCTCTTTTCTCTTTTCT-CTT-TT-TTATTTCCTATA
1179048 TTTTCTCT
1 TTTTCTCT
1179056 CTCTCTCTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
36 6 0.15
37 12 0.30
38 15 0.38
39 5 0.12
40 2 0.05
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (37 bp):
TTTTCTCTTTTCTCTTTTCTCTTTTTTATTTCCTATA
Found at i:1180166 original size:19 final size:19
Alignment explanation
Indices: 1180142--1180180 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1180132 GTAAATAAAG
1180142 AAAGGAAGAACAAAAACAA
1 AAAGGAAGAACAAAAACAA
*
1180161 AAAGGAAGAACAAAAGCAA
1 AAAGGAAGAACAAAAACAA
1180180 A
1 A
1180181 CTCAAACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.72, C:0.10, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAGGAAGAACAAAAACAA
Found at i:1182120 original size:18 final size:18
Alignment explanation
Indices: 1182097--1182148 Score: 95
Period size: 18 Copynumber: 2.8 Consensus size: 18
1182087 GCAAAACCAT
1182097 AATGCAAATGCGAATACA
1 AATGCAAATGCGAATACA
1182115 AATGCAAATGCGAATACA
1 AATGCAAATGCGAATACA
1182133 AATGCAAATGCAGAAT
1 AATGCAAATGC-GAAT
1182149 GTGTTAATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 29 0.88
19 4 0.12
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (18 bp):
AATGCAAATGCGAATACA
Found at i:1182122 original size:6 final size:6
Alignment explanation
Indices: 1182097--1182149 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
1182087 GCAAAACCAT
* * * *
1182097 AATGCA AATGCG AATACA AATGCA AATGCG AATACA AATGCA AATGCA
1 AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA
1182145 GAATG
1 -AATG
1182150 TGTTAATTCC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (6 bp):
AATGCA
Found at i:1183239 original size:43 final size:43
Alignment explanation
Indices: 1183191--1183285 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
1183181 CCTCCAACCG
*
1183191 AACACACCATAATGTGTAGGTTTCCCAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1183234 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1183277 AACACACCA
1 AACACACCA
1183286 AGTAAGGCCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.37, C:0.37, G:0.11, T:0.16
Consensus pattern (43 bp):
AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
Found at i:1183516 original size:24 final size:24
Alignment explanation
Indices: 1183401--1183519 Score: 159
Period size: 24 Copynumber: 5.0 Consensus size: 24
1183391 AAACATAATT
* *
1183401 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
1183425 CAGGTCAAGTATCATATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
1183449 CAAGTCAAGTATCAGATTAGAATC
1 CATGTCAAGTATCAGATCAGAATC
1183473 CATGTC-AGATATCAGATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
*
1183497 CATCTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
1183520 TCAAATCGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.02
24 81 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:1183535 original size:48 final size:48
Alignment explanation
Indices: 1183435--1183537 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
1183425 CAGGTCAAGT
* * * ** *
1183435 ATCATATCAGAATCCAAGTCAAGTATCAGATTAGAATCCATGTCAGAT
1 ATCAGATCAGAATCCAACTCAAGTATCAGATCAGAATCCAAATCAGAA
* *
1183483 ATCAGATCAGAATCCATCTCAAGTATCAGATCAGAATTCAAATC-GAAA
1 ATCAGATCAGAATCCAACTCAAGTATCAGATCAGAATCCAAATCAG-AA
1183531 ATCAGAT
1 ATCAGAT
1183538 AAAATATTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.02
48 45 0.98
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (48 bp):
ATCAGATCAGAATCCAACTCAAGTATCAGATCAGAATCCAAATCAGAA
Found at i:1183535 original size:72 final size:72
Alignment explanation
Indices: 1183401--1183537 Score: 170
Period size: 72 Copynumber: 1.9 Consensus size: 72
1183391 AAACATAATT
* * * * *
1183401 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCATATCAGAATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCAGATCAAAATCCAGCTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGAT
1183466 TAGAATC
66 TAGAATC
* * *
1183473 CATGTC-AGATATCAGATCAGAATCCATCTCAAGTATCAGATCAGAATTCAAATCGAA-AATCAG
1 CATGTCAAG-TATCAGATCAAAATCCAGCTCAAGTATCAGATCAGAATCCAAATC-AAGAATCAG
1183536 AT
64 AT
1183538 AAAATATTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
71 2 0.04
72 51 0.93
73 2 0.04
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.26
Consensus pattern (72 bp):
CATGTCAAGTATCAGATCAAAATCCAGCTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGAT
TAGAATC
Found at i:1185578 original size:17 final size:17
Alignment explanation
Indices: 1185556--1185593 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1185546 TAATTAGTTA
1185556 CATAATTTCTAACACAT
1 CATAATTTCTAACACAT
1185573 CATAATTTCTAACACAT
1 CATAATTTCTAACACAT
1185590 CATA
1 CATA
1185594 CCGAGTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (17 bp):
CATAATTTCTAACACAT
Found at i:1193092 original size:43 final size:43
Alignment explanation
Indices: 1193031--1193125 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
1193021 CCTCCAACCG
*
1193031 AACACACCATAATGTGTAGGTTTCCCAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1193074 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1193117 AACACACCA
1 AACACACCA
1193126 AGTAAGGCCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.37, C:0.37, G:0.11, T:0.16
Consensus pattern (43 bp):
AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
Found at i:1193254 original size:24 final size:24
Alignment explanation
Indices: 1193241--1193359 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
1193231 AAACATAATT
* *
1193241 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
1193265 CAGGTCAAGTATCATATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
*
1193289 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
*
1193313 CATGTC-AGATATCAGATCATAATC
1 CATGTCAAG-TATCAGATCAGAATC
1193337 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
1193360 TCAAGTCGAA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 2 0.02
24 82 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:1193375 original size:48 final size:47
Alignment explanation
Indices: 1193224--1193377 Score: 164
Period size: 48 Copynumber: 3.2 Consensus size: 47
1193214 GGATATATCA
* * * * * *
1193224 AAAATCAAAACATAATTCATGTCAAGTATCATATCAAAATCCAGGTC
1 AAAATCAGATCATAATCCATGTCAAGTATCAGATCAGAATCCAAGTC
* * * * *
1193271 AAGTATCATATCAGAATCCAAGTCAAGTATCAGATCAGAATCCATGTC
1 AA-AATCAGATCATAATCCATGTCAAGTATCAGATCAGAATCCAAGTC
* *
1193319 AGATATCAGATCATAATCCATGTCAAGTATCAGATCAGAATTCAAGTC
1 A-AAATCAGATCATAATCCATGTCAAGTATCAGATCAGAATCCAAGTC
1193367 GAAAATCAGAT
1 -AAAATCAGAT
1193378 AAAATATTCA
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
47 2 0.02
48 85 0.96
49 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (47 bp):
AAAATCAGATCATAATCCATGTCAAGTATCAGATCAGAATCCAAGTC
Found at i:1193375 original size:72 final size:72
Alignment explanation
Indices: 1193241--1193377 Score: 188
Period size: 72 Copynumber: 1.9 Consensus size: 72
1193231 AAACATAATT
* * *
1193241 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCATATCAGAATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAGTCAAGAATCAGAT
1193306 CAGAATC
66 CAGAATC
* * *
1193313 CATGTC-AGATATCAGATCATAATCCATGTCAAGTATCAGATCAGAATTCAAGTCGAA-AATCAG
1 CATGTCAAG-TATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAGTC-AAGAATCAG
1193376 AT
64 AT
1193378 AAAATATTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
71 2 0.04
72 53 0.93
73 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.26
Consensus pattern (72 bp):
CATGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAGTCAAGAATCAGAT
CAGAATC
Found at i:1195904 original size:18 final size:18
Alignment explanation
Indices: 1195881--1195921 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1195871 CAACGGTTAA
* *
1195881 CGGGTCGGGTCAATGTGT
1 CGGGTCGGGTCAACGGGT
1195899 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
1195917 CGGGT
1 CGGGT
1195922 GAACGAGTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.20, G:0.49, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:1195915 original size:13 final size:13
Alignment explanation
Indices: 1195899--1195936 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1195889 GTCAATGTGT
1195899 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
1195912 CGGGTCGGGTGAA
1 CGGGTCGGGTCAA
*
1195925 CGAGTCGGGTCA
1 CGGGTCGGGTCA
1195937 GGTTGTGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.21, G:0.47, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:1197625 original size:18 final size:18
Alignment explanation
Indices: 1197602--1197636 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1197592 GCCGGTCAAC
1197602 GGTCAACGGGCCGGGTCG
1 GGTCAACGGGCCGGGTCG
*
1197620 GGTCAACGGGTCGGGTC
1 GGTCAACGGGCCGGGTC
1197637 AGGTTGTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.26, G:0.49, T:0.14
Consensus pattern (18 bp):
GGTCAACGGGCCGGGTCG
Found at i:1197629 original size:13 final size:13
Alignment explanation
Indices: 1197613--1197637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1197603 GTCAACGGGC
1197613 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
1197626 CGGGTCGGGTCA
1 CGGGTCGGGTCA
1197638 GGTTGTGACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:1199318 original size:13 final size:13
Alignment explanation
Indices: 1199300--1199332 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1199290 CGGGGGTCAA
*
1199300 CGGGTCAACGGTT
1 CGGGTCAACGGGT
1199313 CGGGTCAACGGGT
1 CGGGTCAACGGGT
1199326 CGGGTCA
1 CGGGTCA
1199333 GGTTGTGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.42, T:0.18
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:1203640 original size:3 final size:3
Alignment explanation
Indices: 1203632--1203699 Score: 129
Period size: 3 Copynumber: 23.0 Consensus size: 3
1203622 AAATAAACAT
1203632 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1203680 TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
1203700 CGAGTATCCA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1204407 original size:22 final size:22
Alignment explanation
Indices: 1204380--1204431 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
1204370 AGATCAATTC
1204380 TTTGTTATTTTTTTCTTGTCAA
1 TTTGTTATTTTTTTCTTGTCAA
*
1204402 TTTGTT-GTTTTTTCTTGTCAA
1 TTTGTTATTTTTTTCTTGTCAA
*
1204423 TTTTTTATT
1 TTTGTTATT
1204432 CATTAATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.71
Consensus pattern (22 bp):
TTTGTTATTTTTTTCTTGTCAA
Found at i:1204745 original size:25 final size:25
Alignment explanation
Indices: 1204711--1204759 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1204701 TTACATAAAA
*
1204711 CACCGTCCCTACTGAACAAACCGAC
1 CACCGTCCCTACTGAAAAAACCGAC
*
1204736 CACCTTCCCTACTGAAAAAACCGA
1 CACCGTCCCTACTGAAAAAACCGA
1204760 TCAAGTGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.41, G:0.10, T:0.14
Consensus pattern (25 bp):
CACCGTCCCTACTGAAAAAACCGAC
Found at i:1204820 original size:2 final size:2
Alignment explanation
Indices: 1204813--1204847 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1204803 TACTCTTTGT
1204813 TA 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 TA T
1204848 TTGTAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1211638 original size:46 final size:45
Alignment explanation
Indices: 1211585--1211683 Score: 130
Period size: 43 Copynumber: 2.2 Consensus size: 45
1211575 GCTAAAGTTC
* *
1211585 GCGGCGTTTTTTTGTTAGAAAACGCCGCAATAGGTATTGATATTTA
1 GCGGCGTTTTTGTGTT-CAAAACGCCGCAATAGGTATTGATATTTA
* * *
1211631 GCGGCG--TTTGTGTTCCAAATGCCGCAATAGGTATTGGTATTTA
1 GCGGCGTTTTTGTGTTCAAAACGCCGCAATAGGTATTGATATTTA
1211674 GCGGCGTTTT
1 GCGGCGTTTT
1211684 ACAAACGCCG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 31 0.67
44 7 0.15
45 2 0.04
46 6 0.13
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.36
Consensus pattern (45 bp):
GCGGCGTTTTTGTGTTCAAAACGCCGCAATAGGTATTGATATTTA
Done.