Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 140 of 207
Found at i:42879294 original size:39 final size:39
Alignment explanation
Indices: 42879218--42879294 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
42879208 CAGGGGCATG
* **
42879218 AATGTGCTTTAAGGACACCAAAGTGCAAGAAGGGGCACA
1 AATGTGATTTAAGGACACCAAAGTGCAAGAAAAGGCACA
* *
42879257 AATGTGATTTAGGGGCACCAAAGTGCAA-ATAAAGGCAC
1 AATGTGATTTAAGGACACCAAAGTGCAAGA-AAAGGCAC
42879295 CAAAGTGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (39 bp):
AATGTGATTTAAGGACACCAAAGTGCAAGAAAAGGCACA
Found at i:42890250 original size:22 final size:22
Alignment explanation
Indices: 42890208--42890250 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
42890198 ATGTTGTGAC
*
42890208 ACAGGCACTAGGGTGTCGCGAT
1 ACAGGCACTAGGGTATCGCGAT
*
42890230 ACAGGCACTAGGGTATTGCGA
1 ACAGGCACTAGGGTATCGCGA
42890251 CATCGACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.35, T:0.19
Consensus pattern (22 bp):
ACAGGCACTAGGGTATCGCGAT
Found at i:42899316 original size:26 final size:25
Alignment explanation
Indices: 42899273--42899333 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
42899263 AATTTTATCG
*
42899273 GGGGTAAAATAGTTAAAACTTTAAC-
1 GGGGTAAAATAGTCAAAA-TTTAACT
*
42899298 GCGGGTAAAAT-GATCAAAATTTTACT
1 G-GGGTAAAATAG-TCAAAATTTAACT
42899324 GGGGTAAAAT
1 GGGGTAAAAT
42899334 TGGGGTGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (25 bp):
GGGGTAAAATAGTCAAAATTTAACT
Found at i:42903320 original size:15 final size:15
Alignment explanation
Indices: 42903300--42903355 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
42903290 TAAACATGTT
42903300 TAATTAAATAATTTA
1 TAATTAAATAATTTA
* *
42903315 TAATTAATTAATTTT
1 TAATTAAATAATTTA
* * *
42903330 TAAATAAA-GATATA
1 TAATTAAATAATTTA
42903344 TATATTAAATAA
1 TA-ATTAAATAA
42903356 AAATAGGACA
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
14 5 0.17
15 24 0.80
16 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TAATTAAATAATTTA
Found at i:42903821 original size:24 final size:24
Alignment explanation
Indices: 42903794--42903842 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
42903784 TTGTGAAAAA
42903794 TGTTAATAAAGAATTCATATCCAT
1 TGTTAATAAAGAATTCATATCCAT
*
42903818 TGTTAATAAAGAATTCATATTCAT
1 TGTTAATAAAGAATTCATATCCAT
42903842 T
1 T
42903843 AAATGGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (24 bp):
TGTTAATAAAGAATTCATATCCAT
Found at i:42908274 original size:34 final size:34
Alignment explanation
Indices: 42908235--42908316 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 34
42908225 CTGTACTGTG
*
42908235 ATGGGCTAAGGCCCTAATGCT-TACTGATACT-AGA
1 ATGGGCTTAGGCCCTAAT-CTATACTGATACTGA-A
42908269 ATGGGCTTAGG-CCTAATCTGATACTGATACTGAA
1 ATGGGCTTAGGCCCTAATCT-ATACTGATACTGAA
*
42908303 AAGGGCTTAGGCCC
1 ATGGGCTTAGGCCC
42908317 AAACTGAGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.05
33 6 0.14
34 31 0.74
35 3 0.07
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (34 bp):
ATGGGCTTAGGCCCTAATCTATACTGATACTGAA
Found at i:42915829 original size:34 final size:34
Alignment explanation
Indices: 42915791--42915855 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
42915781 CCCTAATGCT
* * *
42915791 TACTGATACTGGAATGGGCTTAGGCCTAAACTGA
1 TACTGATACTGAAAAGGGCTTAGGCCCAAACTGA
42915825 TACTGATACTGAAAAGGGCTTAGGCCCAAAC
1 TACTGATACTGAAAAGGGCTTAGGCCCAAAC
42915856 CGAGATTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (34 bp):
TACTGATACTGAAAAGGGCTTAGGCCCAAACTGA
Found at i:42922096 original size:251 final size:251
Alignment explanation
Indices: 42921653--42922159 Score: 960
Period size: 251 Copynumber: 2.0 Consensus size: 251
42921643 AAAATTTGGA
*
42921653 AAAATAATTTTTTAATCATTTAAAATCCCCCAAATTCCAGATCTATAAATTTTGGTTTTTAATTG
1 AAAATAATTTTTAAATCATTTAAAATCCCCCAAATTCCAGATCTATAAATTTTGGTTTTTAATTG
42921718 ACAAAATTAATCAAGAAATTGAAGAGAAAAGAGACCTTACACAAGCTAGTCGAGAGAAACGACAA
66 ACAAAATTAATCAAGAAATTGAAGAGAAAAGAGACCTTACACAAGCTAGTCGAGAGAAACGACAA
*
42921783 TGTCACTTTCTTGGCAATGTTTGAGATCGATCTTGGAGTTCAAGATTTCAGATTTGGGGCTGATT
131 TGCCACTTTCTTGGCAATGTTTGAGATCGATCTTGGAGTTCAAGATTTCAGATTTGGGGCTGATT
*
42921848 TAATTGAGGAAAAATTAAAGCAATATGGTGCGGAATATGTTAACAAATCTTGTTAC
196 TAATTGAGGAAAAATTAAAGCAATATGGTGCGGAATATGTTAACAAATCTTGTGAC
* *
42921904 AAAATAATTTTTAAATCGTTTAAAATCCCCCAAATTCTAGATCTATAAATTTTGGTTTTTAATTG
1 AAAATAATTTTTAAATCATTTAAAATCCCCCAAATTCCAGATCTATAAATTTTGGTTTTTAATTG
42921969 ACAAAATTAATCAAGAAATTGAAGAGAAAAGAGACCTTACACAAGCTAGTCGAGAGAAACGACAA
66 ACAAAATTAATCAAGAAATTGAAGAGAAAAGAGACCTTACACAAGCTAGTCGAGAGAAACGACAA
42922034 TGCCACTTTCTTGGCAATGTTTGAGATCGATCTTGGAGTTCAAGATTTCAGATTTGGGGCTGATT
131 TGCCACTTTCTTGGCAATGTTTGAGATCGATCTTGGAGTTCAAGATTTCAGATTTGGGGCTGATT
*
42922099 TAATTGAGGAAAAATTAAAGCAATATGGTGGGGAATATGTTAACAAATCTTGTGAC
196 TAATTGAGGAAAAATTAAAGCAATATGGTGCGGAATATGTTAACAAATCTTGTGAC
42922155 AAAAT
1 AAAAT
42922160 GAAAAAAAGA
Statistics
Matches: 250, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
251 250 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (251 bp):
AAAATAATTTTTAAATCATTTAAAATCCCCCAAATTCCAGATCTATAAATTTTGGTTTTTAATTG
ACAAAATTAATCAAGAAATTGAAGAGAAAAGAGACCTTACACAAGCTAGTCGAGAGAAACGACAA
TGCCACTTTCTTGGCAATGTTTGAGATCGATCTTGGAGTTCAAGATTTCAGATTTGGGGCTGATT
TAATTGAGGAAAAATTAAAGCAATATGGTGCGGAATATGTTAACAAATCTTGTGAC
Found at i:42923629 original size:13 final size:13
Alignment explanation
Indices: 42923611--42923674 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
42923601 AGTTCTTCAT
42923611 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
42923624 TGCTTTTGAGAAA
1 TGCTTTTGAGAAG
*
42923637 TGCTTTTAAGAAG
1 TGCTTTTGAGAAG
*
42923650 TGCTTTTTAGAAG
1 TGCTTTTGAGAAG
42923663 TGCTTTTGAGAA
1 TGCTTTTGAGAA
42923675 ATTTGAGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:42923888 original size:24 final size:21
Alignment explanation
Indices: 42923843--42923961 Score: 66
Period size: 21 Copynumber: 5.5 Consensus size: 21
42923833 ACTTATTCTT
*
42923843 AATATTTTAATATTAATTTTA
1 AATATTTTAATATTAATATTA
42923864 AATATTTGTAAGTAATTAATATTA
1 AATATTT-TAA-T-ATTAATATTA
* * *
42923888 ATTATTTATAAAATTTA-ATTA
1 AATATTT-TAATATTAATATTA
* *
42923909 GAATA-TATAA-ACT-ATATTTA
1 -AATATTTTAATATTAATA-TTA
* * *
42923929 AATATTTAAATATAAAAATTA
1 AATATTTTAATATTAATATTA
42923950 AATATTTGTAAT
1 AATATTT-TAAT
42923962 TAGATATTGA
Statistics
Matches: 74, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
18 1 0.01
19 7 0.09
20 9 0.12
21 23 0.31
22 15 0.20
23 1 0.01
24 18 0.24
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (21 bp):
AATATTTTAATATTAATATTA
Found at i:42930902 original size:21 final size:21
Alignment explanation
Indices: 42930876--42930916 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42930866 ACCACCAAAC
* *
42930876 CACCATTAAACCACCTTCGAT
1 CACCATCAAACCACCATCGAT
42930897 CACCATCAAACCACCATCGA
1 CACCATCAAACCACCATCGA
42930917 CCGCCAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.41, G:0.05, T:0.17
Consensus pattern (21 bp):
CACCATCAAACCACCATCGAT
Found at i:42930913 original size:11 final size:11
Alignment explanation
Indices: 42930836--42930914 Score: 52
Period size: 11 Copynumber: 7.1 Consensus size: 11
42930826 AGGTCGCCAC
* *
42930836 CAAACTACCGT
1 CAAACCACCAT
42930847 CAAACCACCATT
1 CAAACCACCA-T
* * *
42930859 ACTAGCCACCAC
1 -CAAACCACCAT
42930871 CAAACCACCAT
1 CAAACCACCAT
* *
42930882 TAAACCACCTT
1 CAAACCACCAT
* *
42930893 C-GATCACCAT
1 CAAACCACCAT
42930903 CAAACCACCAT
1 CAAACCACCAT
42930914 C
1 C
42930915 GACCGCCAAT
Statistics
Matches: 49, Mismatches: 16, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
10 7 0.14
11 33 0.67
12 1 0.02
13 8 0.16
ACGTcount: A:0.38, C:0.43, G:0.04, T:0.15
Consensus pattern (11 bp):
CAAACCACCAT
Found at i:42932802 original size:27 final size:27
Alignment explanation
Indices: 42932774--42933101 Score: 383
Period size: 27 Copynumber: 12.1 Consensus size: 27
42932764 TATAACAGTT
* * * *
42932774 ATTTTACCCTATGGGGGTAATTCGATT
1 ATTTTACCTTGTGGGGGTAATTCGGTC
* *
42932801 ATTTTACCTTATAGGGGTAATTCGGTC
1 ATTTTACCTTGTGGGGGTAATTCGGTC
* **
42932828 ATTTTACCCTGTGGGGGGTAATTTAGTC
1 ATTTTACCTTGT-GGGGGTAATTCGGTC
*
42932856 ATTTTACCTTGTGGGGGTAATTCAGTC
1 ATTTTACCTTGTGGGGGTAATTCGGTC
*
42932883 ATTTTACCTTATGGGGGTAATTCGGTC
1 ATTTTACCTTGTGGGGGTAATTCGGTC
* * * *
42932910 ATTTTACCCTCTGGGGGTAATTCAGTT
1 ATTTTACCTTGTGGGGGTAATTCGGTC
* *
42932937 ACTTTT-CCTTCTAGGGGTAATTCGGTC
1 A-TTTTACCTTGTGGGGGTAATTCGGTC
42932964 ATTTTACCTTGTGGGGGTAATTCGGTC
1 ATTTTACCTTGTGGGGGTAATTCGGTC
* *
42932991 ATTTTACATTGTAGGGGTAATTCGGTC
1 ATTTTACCTTGTGGGGGTAATTCGGTC
* *
42933018 TTTTTACCTTGTGGGGGTAATTCAGTC
1 ATTTTACCTTGTGGGGGTAATTCGGTC
* * *
42933045 ATTTTATCTTGTGAGGGTAATTCGGTG
1 ATTTTACCTTGTGGGGGTAATTCGGTC
*
42933072 ATTTTATCC-TGT-GGGGTAATTTGGTC
1 ATTTTA-CCTTGTGGGGGTAATTCGGTC
42933098 ATTT
1 ATTT
42933102 ATTTACCTCT
Statistics
Matches: 259, Mismatches: 38, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
26 19 0.07
27 212 0.82
28 28 0.11
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.42
Consensus pattern (27 bp):
ATTTTACCTTGTGGGGGTAATTCGGTC
Found at i:42946776 original size:22 final size:23
Alignment explanation
Indices: 42946743--42946786 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
42946733 TCTATCTAAA
42946743 ATTATCAAAATTAATCAAAATTT
1 ATTATCAAAATTAATCAAAATTT
*
42946766 ATTAT-AAAATTAATTAAAATT
1 ATTATCAAAATTAATCAAAATT
42946787 CAACATGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATCAAAATTAATCAAAATTT
Found at i:42952568 original size:29 final size:29
Alignment explanation
Indices: 42952534--42952681 Score: 153
Period size: 29 Copynumber: 5.2 Consensus size: 29
42952524 TGAATTATTG
* *
42952534 GTGGCTATCCCTGTTAGAAGGATGCCTTT
1 GTGGCTATCTCTGTTAAAAGGATGCCTTT
* *
42952563 ATGGCTATCTCTGTTAAAATGATGCCTTT
1 GTGGCTATCTCTGTTAAAAGGATGCCTTT
* *
42952592 GTGACTATCTCTGTTAAAAGGAAGCCTTT
1 GTGGCTATCTCTGTTAAAAGGATGCCTTT
*
42952621 GTGGCCATCTCTGTT-AAAGGAATGCCTTCT
1 GTGGCTATCTCTGTTAAAAGG-ATGCCTT-T
* *
42952651 -T-GCAAAT-TCTGTT-AAAGGATGCCTTC
1 GTGGC-TATCTCTGTTAAAAGGATGCCTTT
42952677 GTGGC
1 GTGGC
42952682 AGAAATTGAA
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
27 8 0.08
28 20 0.20
29 72 0.71
30 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (29 bp):
GTGGCTATCTCTGTTAAAAGGATGCCTTT
Found at i:42955132 original size:23 final size:26
Alignment explanation
Indices: 42955104--42955150 Score: 73
Period size: 23 Copynumber: 1.9 Consensus size: 26
42955094 GAGTTGAAAC
42955104 ATGATATA-TGA-ATTGAT-GAATTG
1 ATGATATATTGAGATTGATAGAATTG
42955127 ATGATATATTGAGATTGATAGAAT
1 ATGATATATTGAGATTGATAGAAT
42955151 GTGAATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 3 0.14
25 6 0.29
26 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (26 bp):
ATGATATATTGAGATTGATAGAATTG
Found at i:42961593 original size:18 final size:20
Alignment explanation
Indices: 42961556--42961594 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
42961546 GCAGGACCTG
42961556 TATACTGTATAATCTGTTAC
1 TATACTGTATAATCTGTTAC
*
42961576 TATACTG-ATTAT-TGTTAC
1 TATACTGTATAATCTGTTAC
42961594 T
1 T
42961595 GTAATGGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (20 bp):
TATACTGTATAATCTGTTAC
Found at i:42963774 original size:33 final size:33
Alignment explanation
Indices: 42963727--42963801 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
42963717 TATTTATTTT
* * *
42963727 ATAACATATTTAAATAATTTAATATAACCATAC
1 ATAAAATATTTAAATAATTTAATAGAACAATAC
* *
42963760 ATAAAATATTTAAATAATTTAATAGAATAATAT
1 ATAAAATATTTAAATAATTTAATAGAACAATAC
42963793 ATAAAATAT
1 ATAAAATAT
42963802 AAATTAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.37
Consensus pattern (33 bp):
ATAAAATATTTAAATAATTTAATAGAACAATAC
Found at i:42964619 original size:12 final size:12
Alignment explanation
Indices: 42964598--42964631 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
42964588 TATATATTTT
*
42964598 AAAATTATATAA
1 AAAATAATATAA
42964610 AAAATAATATAA
1 AAAATAATATAA
*
42964622 AAATTAATAT
1 AAAATAATAT
42964632 GGGCAGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:42976714 original size:16 final size:16
Alignment explanation
Indices: 42976693--42976724 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
42976683 GATATATGAG
42976693 TTTTAAAATAAACCAA
1 TTTTAAAATAAACCAA
42976709 TTTTAAAATAAACCAA
1 TTTTAAAATAAACCAA
42976725 CATGAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (16 bp):
TTTTAAAATAAACCAA
Found at i:42977143 original size:40 final size:43
Alignment explanation
Indices: 42977097--42977209 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 43
42977087 TTGTCCTGAG
*
42977097 GTGGTTGCTTTCACA-TTGCTTCCTTTTTTTG-T-ACATAGAT
1 GTGGTTGCTTCCACAGTTGCTTCCTTTTTTTGCTGACATAGAT
42977137 GTGGTTGCTTCCACATGTTGCTT-CTTTTTTTGTCTGGACATAGAT
1 GTGGTTGCTTCCACA-GTTGCTTCCTTTTTTTG-CT-GACATAGAT
42977182 GTGGTTGCTTCCACACGTTGCTTCCTTT
1 GTGGTTGCTTCCACA-GTTGCTTCCTTT
42977210 GTCTTTTCTT
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
40 14 0.22
41 9 0.14
42 6 0.09
43 1 0.02
45 30 0.47
46 4 0.06
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (43 bp):
GTGGTTGCTTCCACAGTTGCTTCCTTTTTTTGCTGACATAGAT
Found at i:42981379 original size:99 final size:99
Alignment explanation
Indices: 42981257--42981437 Score: 263
Period size: 99 Copynumber: 1.8 Consensus size: 99
42981247 GGAGCAAGAT
* * * * * *
42981257 GAAGTTACAGTAGCAAATCTCATCTCCCTGAATATGTAGTGGAACAAGATGAAGCTACAACAGCG
1 GAAGCTACAGTAGCAAATCTCATCTCCCTAAAGATGCAGTGGAACAAGATAAAGCTACAACAGCA
* *
42981322 ACTCCTATATCCCTGAAGTTGTATGGAATGGAGA
66 AATCATATATCCCTGAAGTTGTATGGAATGGAGA
* * *
42981356 GAAGCTACAGTAGCAAATCTCATCTCCCTAAAGATGCAGTGGAGCGAGATAAAGCTACAACATCA
1 GAAGCTACAGTAGCAAATCTCATCTCCCTAAAGATGCAGTGGAACAAGATAAAGCTACAACAGCA
42981421 AATCATATATCCCTGAA
66 AATCATATATCCCTGAA
42981438 TTTATAGTGA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
99 71 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (99 bp):
GAAGCTACAGTAGCAAATCTCATCTCCCTAAAGATGCAGTGGAACAAGATAAAGCTACAACAGCA
AATCATATATCCCTGAAGTTGTATGGAATGGAGA
Found at i:42981384 original size:49 final size:50
Alignment explanation
Indices: 42981206--42981414 Score: 165
Period size: 50 Copynumber: 4.2 Consensus size: 50
42981196 TAGGATGGAG
* * * * * * * *
42981206 TGAAGCTACAGTAGCAAAACTTATATCCCTTAAGACGCAGTGGAGCAAGA
1 TGAAGCTACAGTAGCAAATCTCATCTCCCTGAATATGTAGTGGAACAAGA
*
42981256 TGAAGTTACAGTAGCAAATCTCATCTCCCTGAATATGTAGTGGAACAAGA
1 TGAAGCTACAGTAGCAAATCTCATCTCCCTGAATATGTAGTGGAACAAGA
** * * * **
42981306 TGAAGCTACAACAGCGACTC-CTATATCCCTGAAGT-TGTA-TGGAATGGAGA
1 TGAAGCTACAGTAGCAAATCTC-ATCTCCCTGAA-TATGTAGTGGAA-CAAGA
* * * * *
42981356 -GAAGCTACAGTAGCAAATCTCATCTCCCTAAAGATGCAGTGGAGCGAGA
1 TGAAGCTACAGTAGCAAATCTCATCTCCCTGAATATGTAGTGGAACAAGA
*
42981405 TAAAGCTACA
1 TGAAGCTACA
42981415 ACATCAAATC
Statistics
Matches: 124, Mismatches: 28, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
49 37 0.30
50 86 0.69
51 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (50 bp):
TGAAGCTACAGTAGCAAATCTCATCTCCCTGAATATGTAGTGGAACAAGA
Found at i:42982709 original size:28 final size:27
Alignment explanation
Indices: 42982666--42982719 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
42982656 CCTTAGGGGA
*
42982666 GAGAAAAAGAGAGAAATGACATTTTTTT
1 GAGAAAAAGAGAGAAAT-AAATTTTTTT
* *
42982694 GAGAAAATGAGTGAAATAAATTTTTT
1 GAGAAAAAGAGAGAAATAAATTTTTT
42982720 AAAACCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.31
Consensus pattern (27 bp):
GAGAAAAAGAGAGAAATAAATTTTTTT
Found at i:42987450 original size:9 final size:9
Alignment explanation
Indices: 42987436--42987466 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
42987426 GTTAAACGAA
42987436 TCGAGTTAT
1 TCGAGTTAT
*
42987445 TCGAGTTAA
1 TCGAGTTAT
42987454 TCGAGTTAT
1 TCGAGTTAT
42987463 TCGA
1 TCGA
42987467 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:42987537 original size:9 final size:9
Alignment explanation
Indices: 42987520--42987556 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
42987510 TGAGTTTTCA
42987520 AATTCGAAT
1 AATTCGAAT
*
42987529 AACTCGAAT
1 AATTCGAAT
42987538 AATTCGAAT
1 AATTCGAAT
42987547 AATTCGAAT
1 AATTCGAAT
42987556 A
1 A
42987557 CCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:42988583 original size:5 final size:5
Alignment explanation
Indices: 42988573--42988597 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
42988563 TCGAAAATTC
42988573 TCGAT TCGAT TCGAT TCGAT TCGAT
1 TCGAT TCGAT TCGAT TCGAT TCGAT
42988598 CGAATGCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TCGAT
Found at i:42992189 original size:21 final size:21
Alignment explanation
Indices: 42992165--42992204 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
42992155 AAAAATGAAA
*
42992165 TAAAAATAAGTAAAACAAAAT
1 TAAAAATAAATAAAACAAAAT
**
42992186 TAAAGCTAAATAAAACAAA
1 TAAAAATAAATAAAACAAA
42992205 TAAATGAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.17
Consensus pattern (21 bp):
TAAAAATAAATAAAACAAAAT
Found at i:42993348 original size:29 final size:26
Alignment explanation
Indices: 42993310--42993381 Score: 92
Period size: 25 Copynumber: 2.7 Consensus size: 26
42993300 AAAAATAAAA
*
42993310 ATTTACCAAAATATTATAACTTTTTTTTT
1 ATTTACCAAAATA-TATAA--TATTTTTT
*
42993339 ATTTATCAAAATATAT-ATATTTTTT
1 ATTTACCAAAATATATAATATTTTTT
42993364 ATTTACCAAAATATATAA
1 ATTTACCAAAATATATAA
42993382 AAAAATCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
25 22 0.56
26 1 0.03
27 1 0.03
28 3 0.08
29 12 0.31
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTTACCAAAATATATAATATTTTTT
Found at i:42993478 original size:27 final size:27
Alignment explanation
Indices: 42993448--42993514 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
42993438 CGCCAATGGG
42993448 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* * *
42993475 ATTGGCAGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
42993502 ATTGGCGGCACCA
1 ATTGGCGGCACCA
42993515 GTTAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:42993566 original size:4 final size:4
Alignment explanation
Indices: 42993557--42993699 Score: 86
Period size: 4 Copynumber: 35.0 Consensus size: 4
42993547 GAAGAAGAGG
* *
42993557 GAAA GAAA GAAA GAAA GAAA GAAA TAAA GAAA GGAGAG GAAA GAAA G-AA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA
* *
42993606 -AAA GAAG GAAA GAAAA GGAAA CG--A GAAGA GAAGA GAAA AAAA GAAA
1 GAAA GAAA GAAA G-AAA -GAAA -GAAA GAA-A GAA-A GAAA GAAA GAAA
*
42993652 GAAA G-AA G-AA G-AA GAAAA GGAAAA GAGAA G-AA GAAA GAAG GAAA
1 GAAA GAAA GAAA GAAA G-AAA -G-AAA GA-AA GAAA GAAA GAAA GAAA
42993696 GAAA
1 GAAA
42993700 AGGAAAGGAG
Statistics
Matches: 114, Mismatches: 11, Indels: 28
0.75 0.07 0.18
Matches are distributed among these distances:
2 1 0.01
3 17 0.15
4 63 0.55
5 26 0.23
6 7 0.06
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:42993689 original size:36 final size:35
Alignment explanation
Indices: 42993570--42993725 Score: 102
Period size: 36 Copynumber: 4.3 Consensus size: 35
42993560 AGAAAGAAAG
* * * *
42993570 AAAGAAAGAAATAAAG-AAAGGAGAGGAAAGAAAGAA
1 AAAGAAAGAAAGAAAGAAAAGAAAAGGAAA-AGAG-A
* * * *
42993606 AAAGAAGGAAAGAAAAGGAAACGAGAA-GAGAAGAGA
1 AAAGAAAGAAAG-AAA-GAAAAGAAAAGGAAAAGAGA
42993642 AAA-AAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGA
1 AAAGAAAGAAAG--A-AAGAA-AAGAAAAGGAAAAGAGA
* * *
42993680 AGAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGA
1 A-AAGAAAGAAAGAAAGAAAAGAAAAGGAAAAGAGA
*
42993716 AAAAAAAGAA
1 AAAGAAAGAA
42993726 GAGGGAAGGA
Statistics
Matches: 95, Mismatches: 16, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
35 15 0.16
36 35 0.37
37 18 0.19
38 14 0.15
39 6 0.06
40 7 0.07
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.01
Consensus pattern (35 bp):
AAAGAAAGAAAGAAAGAAAAGAAAAGGAAAAGAGA
Found at i:42993689 original size:79 final size:78
Alignment explanation
Indices: 42993560--42993716 Score: 221
Period size: 79 Copynumber: 2.0 Consensus size: 78
42993550 GAAGAGGGAA
* *
42993560 AGAAAGAAAGAAAGAAAGAAATAAAGAAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
1 AGAAAAAAAGAAAGAAAGAAATAAAGAAA-GAGAGAAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
42993625 AACGAGAAGAGAAG
65 AACGAGAAGAGAAG
42993639 AGAAAAAAAGAAAGAAAGAAGA-AGAAGAAA-AG-GAAAAGAGAAGAAGAAAGAAGGAAAGAAAA
1 AGAAAAAAAGAAAGAAAGAA-ATA-AAGAAAGAGAGAAAAGA-AAGAA-AAAGAAGGAAAGAAAA
*
42993701 GGAAAGGAGAAGAGAA
62 GGAAACGAGAAGAGAA
42993717 AAAAAAGAAG
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
77 6 0.08
78 7 0.10
79 51 0.72
80 7 0.10
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.01
Consensus pattern (78 bp):
AGAAAAAAAGAAAGAAAGAAATAAAGAAAGAGAGAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAA
ACGAGAAGAGAAG
Found at i:42993691 original size:53 final size:52
Alignment explanation
Indices: 42993593--42993754 Score: 138
Period size: 53 Copynumber: 3.0 Consensus size: 52
42993583 AAGAAAGGAG
* *
42993593 AGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAA-ACGAGAAGAGAAGAGAAAAAA
1 AGGAAAGAAAGAAGAAGAAGAAAAGAAAAGGAAGA--AGAA-AGAAGAGAAAAAA
42993647 A-GAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAGAAAGAAG-GAAAGAAA
1 AGGAAAGAAAGAAGAAGAAGAAAA-GAAAAG-GAAGAAGAAAGAAGAGAAA-AAA
* * *
42993700 AGGAAAGGAGAAG-AGAA-AA-AAAAGAAGAGGGAAGGAAGGAAAAAAAAGAAAAAA
1 AGGAAA-GA-AAGAAGAAGAAGAAAAGAA-AAGGAA-GAA-GAAAGAAGAGAAAAAA
42993754 A
1 A
42993755 AGGTAATTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 22
0.77 0.04 0.18
Matches are distributed among these distances:
52 10 0.11
53 38 0.41
54 27 0.29
55 13 0.14
56 4 0.04
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (52 bp):
AGGAAAGAAAGAAGAAGAAGAAAAGAAAAGGAAGAAGAAAGAAGAGAAAAAA
Found at i:42993711 original size:31 final size:32
Alignment explanation
Indices: 42993629--42993727 Score: 109
Period size: 31 Copynumber: 3.2 Consensus size: 32
42993619 AAAGGAAACG
*
42993629 AGAAGAGAAGAGAAAA-A-AAGAAAGAAAGAAGA
1 AGAAGAAAAG-GAAAAGAGAAG-AAGAAAGAAGA
*
42993661 AGAAGAAAAGGAAAAGAGAAGAAGAAAGAAGG
1 AGAAGAAAAGGAAAAGAGAAGAAGAAAGAAGA
* *
42993693 A-AAGAAAAGGAAAGGAGAAG-AGAAA-AAAA
1 AGAAGAAAAGGAAAAGAGAAGAAGAAAGAAGA
42993722 AGAAGA
1 AGAAGA
42993728 GGGAAGGAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
29 3 0.05
30 9 0.15
31 23 0.39
32 21 0.36
33 3 0.05
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (32 bp):
AGAAGAAAAGGAAAAGAGAAGAAGAAAGAAGA
Found at i:42993734 original size:27 final size:24
Alignment explanation
Indices: 42993614--42993751 Score: 75
Period size: 24 Copynumber: 5.3 Consensus size: 24
42993604 AAAAAGAAGG
* *
42993614 AAAGAAAAGGAAACGAGAAGAGAAGAG
1 AAAGAAAAGGAAA-G-GAAG-GAAAAA
* *
42993641 AAA-AAAA-GAAA-GAAAGAAGAA
1 AAAGAAAAGGAAAGGAAGGAAAAA
*
42993662 GAAGAAAAGGAAAAGAGAAGAAGAAAGAA
1 AAAGAAAAGG-AAAG-GAAG--GAAA-AA
42993691 GGAAAGAAAAGGAAAGGAGAAGAGAAAAA
1 --AAAGAAAAGGAAA-G-GAAG-GAAAAA
* *
42993720 AAAGAAGAGGGAAGGAAGGAAAAA
1 AAAGAAAAGGAAAGGAAGGAAAAA
42993744 AAAGAAAA
1 AAAGAAAA
42993752 AAAAGGTAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
21 7 0.08
22 7 0.08
23 1 0.01
24 16 0.18
25 8 0.09
26 8 0.09
27 14 0.15
28 3 0.03
29 4 0.04
30 8 0.09
31 15 0.16
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (24 bp):
AAAGAAAAGGAAAGGAAGGAAAAA
Found at i:42993739 original size:36 final size:37
Alignment explanation
Indices: 42993633--42993756 Score: 100
Period size: 36 Copynumber: 3.5 Consensus size: 37
42993623 GAAACGAGAA
** *
42993633 GAGAAGAG-AAAAAAAGAAAGAAAGAAGAAGAAGAAAAG
1 GAGAAGAGAAAAAAAAG-AAGAGGGAAG-AGAAGGAAAG
* * * *
42993671 GAAAAGAGAAGAAGAAAG-A-AGGAAAGAAAAGGAAAG
1 GAGAAGAGAA-AAAAAAGAAGAGGGAAGAGAAGGAAAG
42993707 GAGAAGAGAAAAAAAAGAAGAGGGAAG-GAAGGAAA-
1 GAGAAGAGAAAAAAAAGAAGAGGGAAGAGAAGGAAAG
*
42993742 -A-AAAAGAAAAAAAAG
1 GAGAAGAGAAAAAAAAG
42993757 GTAATTTTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
33 13 0.19
34 1 0.01
35 6 0.09
36 25 0.36
37 10 0.14
38 8 0.11
39 1 0.01
40 6 0.09
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (37 bp):
GAGAAGAGAAAAAAAAGAAGAGGGAAGAGAAGGAAAG
Found at i:42994311 original size:16 final size:15
Alignment explanation
Indices: 42994285--42994314 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
42994275 GTACTGAAAT
42994285 AATATAAAATAATAA
1 AATATAAAATAATAA
42994300 AATATGAAAATAATA
1 AATAT-AAAATAATA
42994315 TAGTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:42994854 original size:24 final size:25
Alignment explanation
Indices: 42994827--42994894 Score: 102
Period size: 24 Copynumber: 2.6 Consensus size: 25
42994817 GTTTTTTTTG
42994827 ATATATTTTGGTAAATAAAAAAAA-
1 ATATATTTTGGTAAATAAAAAAAAT
42994851 ATATATTTTGGTAAATAAAAAAAAGTT
1 ATATATTTTGGTAAATAAAAAAAA--T
42994878 ATAATATTTTGGTAAAT
1 AT-ATATTTTGGTAAAT
42994895 TTTTATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
24 24 0.60
27 2 0.05
28 14 0.35
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (25 bp):
ATATATTTTGGTAAATAAAAAAAAT
Found at i:42997231 original size:12 final size:11
Alignment explanation
Indices: 42997178--42997236 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
42997168 AATTTTAAAA
*
42997178 TTTTTAAAATT
1 TTTTTATAATT
*
42997189 TCTTTATAAATGT
1 TTTTTAT-AAT-T
*
42997202 TGTTTATAA--
1 TTTTTATAATT
42997211 TTTTTATAATT
1 TTTTTATAATT
42997222 TTTTTAATAATT
1 TTTTT-ATAATT
42997234 TTT
1 TTT
42997237 AAAATTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
9 8 0.21
11 10 0.26
12 14 0.36
13 7 0.18
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:43007020 original size:25 final size:25
Alignment explanation
Indices: 43006991--43007046 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
43006981 TATATTTAAT
43006991 ATATATATTTGATTAAAAATAAAAA
1 ATATATATTTGATTAAAAATAAAAA
*
43007016 ATATATATTTGATTAAAAATAAAAT
1 ATATATATTTGATTAAAAATAAAAA
43007041 ATATAT
1 ATATAT
43007047 TTAATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
ATATATATTTGATTAAAAATAAAAA
Found at i:43007487 original size:86 final size:87
Alignment explanation
Indices: 43007369--43007542 Score: 341
Period size: 86 Copynumber: 2.0 Consensus size: 87
43007359 AAAAATATGA
43007369 ATATATATATTCATATTTTTTTTCCTCCTCCTCCTCTCCATTCCACATCCTTTATGTATATATTT
1 ATATATATATTCATATTTTTTTTCCTCCTCCTCCTCTCCATTCCACATCCTTTATGTATATATTT
43007434 GTTAGAATCTTTAACTTTTAGT
66 GTTAGAATCTTTAACTTTTAGT
43007456 ATATATATATTCATA-TTTTTTTCCTCCTCCTCCTCTCCATTCCACATCCTTTATGTATATATTT
1 ATATATATATTCATATTTTTTTTCCTCCTCCTCCTCTCCATTCCACATCCTTTATGTATATATTT
43007520 GTTAGAATCTTTAACTTTTAGT
66 GTTAGAATCTTTAACTTTTAGT
43007542 A
1 A
43007543 CATAACATGC
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 72 0.83
87 15 0.17
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.50
Consensus pattern (87 bp):
ATATATATATTCATATTTTTTTTCCTCCTCCTCCTCTCCATTCCACATCCTTTATGTATATATTT
GTTAGAATCTTTAACTTTTAGT
Found at i:43008831 original size:23 final size:23
Alignment explanation
Indices: 43008799--43008842 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43008789 ACTACCATTT
43008799 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
43008822 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
43008843 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:43008835 original size:13 final size:11
Alignment explanation
Indices: 43008803--43008845 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
43008793 CCATTTTCTA
*
43008803 AATAAAATAAT
1 AATAAAATATT
43008814 AAT-AAATATCT
1 AATAAAATAT-T
43008825 AAGTAAAATATT
1 AA-TAAAATATT
43008837 AATAAAATA
1 AATAAAATA
43008846 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:43010808 original size:18 final size:17
Alignment explanation
Indices: 43010775--43010813 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
43010765 TTTTATAAAT
43010775 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
43010793 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
43010810 TGTG
1 TGTG
43010814 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:43011072 original size:23 final size:23
Alignment explanation
Indices: 43011042--43011160 Score: 145
Period size: 23 Copynumber: 5.2 Consensus size: 23
43011032 GTTATTGATC
43011042 AGTGGTAGCTTCGGCTACACT-TT
1 AGTGGTAGCTTCGGCTACA-TATT
43011065 AGTGGTAGCTAT-GGCTACATATT
1 AGTGGTAGCT-TCGGCTACATATT
43011088 AGTGGTAGCTTCGGCTACAT-TT
1 AGTGGTAGCTTCGGCTACATATT
* * *
43011110 CAGTGGTAGCTACGGCTACGTATC
1 -AGTGGTAGCTTCGGCTACATATT
* *
43011134 AGTGGTAGCTTTGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATT
43011157 AGTG
1 AGTG
43011161 TGGCACTTAT
Statistics
Matches: 85, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
22 4 0.05
23 79 0.93
24 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATT
Found at i:43011094 original size:46 final size:46
Alignment explanation
Indices: 43011039--43011160 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
43011029 AGTGTTATTG
*
43011039 ATCAGTGGTAGCTTCGGCTACACTTT-AGTGGTAGCTATGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACA-TTTCAGTGGTAGCTACGGCTACAT
* *
43011085 ATTAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* *
43011131 ATCAGTGGTAGCTTTGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
43011161 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 3 0.04
46 66 0.96
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:43013727 original size:231 final size:231
Alignment explanation
Indices: 43013302--43013732 Score: 630
Period size: 231 Copynumber: 1.9 Consensus size: 231
43013292 GATGTTACAA
* * *
43013302 AATGACTTCCATTAAAAGAGAAAAAAATCATTAAAAATTATAGAAATTCTAATGGTGAGAAAAGT
1 AATGACTTCCATTAAAAGAGAAAAAAAGCATTAAAAATTACAGAAACTCTAATGGTGAGAAAAGT
* * * *
43013367 GAATCTAGAATGAGAGAAAGATAGAAGGAGAAAGAAATGATTGTTTTGATGGTTAATCTGAACAG
66 GAATCTAGAAT-AGAGAAAGATAAAAGGAGAAAGAAATGATTGTCTTGATGGTTAATCCGAACAA
** *
43013432 AGAAAGCCTTCAATTGTGGAGAGTTCACAACAACAGCAACAATTTTTTGCTATTTAGTTTATCTT
130 AGAAAGCCTTCAACAGTGGAGAGTTCACAACAACAGCAACAATTTTTTGCTATTTAATTTATCTT
43013497 CATCTCTTTTTTTTATATATATTTTTGAATTGTAATG
195 CATCTCTTTTTTTTATATATATTTTTGAATTGTAATG
* * * * *
43013534 AATGTCTTCCATTAAAAGGGAAAAAAAAGCATTGAAAATTACAGAAGCTCTAATGGTGAGAAAGG
1 AATGACTTCCATTAAAAGAG-AAAAAAAGCATTAAAAATTACAGAAACTCTAATGGTGAGAAAAG
*
43013599 TGAATCTAGAAT-GAGAAAGATAAAAGGAGAAAGAAATGATTGTCTTGGTGGTTAATCCGAACAA
65 TGAATCTAGAATAGAGAAAGATAAAAGGAGAAAGAAATGATTGTCTTGATGGTTAATCCGAACAA
** * * * * *
43013663 AGAAAGCCTTTGACAGTGGAGAGTTCACAATAGCGGCGACGATTTTTTGCTATTTAATTTATCTT
130 AGAAAGCCTTCAACAGTGGAGAGTTCACAACAACAGCAACAATTTTTTGCTATTTAATTTATCTT
43013728 CATCT
195 CATCT
43013733 TTTAAAAAAA
Statistics
Matches: 175, Mismatches: 23, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
231 107 0.61
232 18 0.10
233 50 0.29
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (231 bp):
AATGACTTCCATTAAAAGAGAAAAAAAGCATTAAAAATTACAGAAACTCTAATGGTGAGAAAAGT
GAATCTAGAATAGAGAAAGATAAAAGGAGAAAGAAATGATTGTCTTGATGGTTAATCCGAACAAA
GAAAGCCTTCAACAGTGGAGAGTTCACAACAACAGCAACAATTTTTTGCTATTTAATTTATCTTC
ATCTCTTTTTTTTATATATATTTTTGAATTGTAATG
Found at i:43016615 original size:13 final size:13
Alignment explanation
Indices: 43016597--43016630 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
43016587 ATCCAACCCA
43016597 ACCCAACCCAATT
1 ACCCAACCCAATT
43016610 ACCCAACCCAATT
1 ACCCAACCCAATT
43016623 ACCCAACC
1 ACCCAACC
43016631 TAATAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.50, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:43016675 original size:38 final size:39
Alignment explanation
Indices: 43016615--43016692 Score: 124
Period size: 38 Copynumber: 2.0 Consensus size: 39
43016605 CAATTACCCA
*
43016615 ACCCAATTACCCAACCTAATAAAATTAAAACTAAAGTCT
1 ACCCAATTACCCAACCTAATAAAAATAAAACTAAAGTCT
43016654 ACCCAATTA-CCAA-CTCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCT-AATAAAAATAAAACTAAAGTCT
43016692 A
1 A
43016693 ATTCTAAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
37 2 0.05
38 26 0.70
39 9 0.24
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (39 bp):
ACCCAATTACCCAACCTAATAAAAATAAAACTAAAGTCT
Found at i:43016840 original size:37 final size:37
Alignment explanation
Indices: 43016799--43016885 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
43016789 AAGACTTACA
*
43016799 TTTTAATTGTGT-GTTAATTTC-AAGAATTATGTAATGT
1 TTTTAATTATGTAG-TAA-TTCAAAGAATTATGTAATGT
* *
43016836 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATGT
1 TTTTAATTATGTAGTAATTCAAAGAATTATGTAATGT
43016873 TTTTAATTATGTA
1 TTTTAATTATGTA
43016886 ATGATTTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
36 3 0.07
37 41 0.91
38 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (37 bp):
TTTTAATTATGTAGTAATTCAAAGAATTATGTAATGT
Found at i:43016843 original size:17 final size:17
Alignment explanation
Indices: 43016823--43016888 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
43016813 TAATTTCAAG
43016823 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
43016840 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
43016858 AGACTTATGTAATGTTTTT
1 A-A-TTATGTAATGTTTTT
43016877 AATTATGTAATG
1 AATTATGTAATG
43016889 ATTTAATTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 21 0.55
18 4 0.11
19 4 0.11
20 9 0.24
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.48
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:43016891 original size:37 final size:37
Alignment explanation
Indices: 43016820--43016891 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
43016810 TGTTAATTTC
*
43016820 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATGTTTTTAATTATGTAATGATTCA
*
43016857 AAGACTTATGTAATGTTTTTAATTATGTAATGATT
1 AAGAATTATGTAATGTTTTTAATTATGTAATGATT
43016892 TAATTCTGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (37 bp):
AAGAATTATGTAATGTTTTTAATTATGTAATGATTCA
Found at i:43018111 original size:15 final size:15
Alignment explanation
Indices: 43018088--43018121 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
43018078 GCCCGTTTTT
* *
43018088 TTAATGTGTTAGAAA
1 TTAACGTGTTACAAA
43018103 TTAACGTGTTACAAA
1 TTAACGTGTTACAAA
43018118 TTAA
1 TTAA
43018122 ATGTATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (15 bp):
TTAACGTGTTACAAA
Found at i:43018175 original size:13 final size:13
Alignment explanation
Indices: 43018157--43018222 Score: 87
Period size: 13 Copynumber: 5.0 Consensus size: 13
43018147 AATTTAAAAG
*
43018157 TTAAAACATTATA
1 TTAAAACAATATA
43018170 TTAAAACAATATAA
1 TTAAAACAATAT-A
* *
43018184 TTACAACAGTATA
1 TTAAAACAATATA
*
43018197 TTATAACAATATA
1 TTAAAACAATATA
43018210 TTAAAACAATATA
1 TTAAAACAATATA
43018223 ACCGAACTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
13 35 0.76
14 11 0.24
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (13 bp):
TTAAAACAATATA
Found at i:43018191 original size:27 final size:26
Alignment explanation
Indices: 43018157--43018222 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
43018147 AATTTAAAAG
*
43018157 TTAAAACATTATATTAAAACAATATAA
1 TTAAAACAATATATTAAAACAATAT-A
* * *
43018184 TTACAACAGTATATTATAACAATATA
1 TTAAAACAATATATTAAAACAATATA
43018210 TTAAAACAATATA
1 TTAAAACAATATA
43018223 ACCGAACTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (26 bp):
TTAAAACAATATATTAAAACAATATA
Found at i:43018873 original size:3 final size:3
Alignment explanation
Indices: 43018865--43018893 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
43018855 TCCAAAGCCA
43018865 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
43018894 AATCAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:43019320 original size:8 final size:8
Alignment explanation
Indices: 43019309--43019342 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
43019299 AGTGAAGCAC
43019309 CGTGGAGT
1 CGTGGAGT
43019317 CGTGGAGT
1 CGTGGAGT
43019325 CGTGGA-T
1 CGTGGAGT
43019332 -GTGGAGT
1 CGTGGAGT
43019339 CGTG
1 CGTG
43019343 AATCGGTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.21
7 2 0.08
8 17 0.71
ACGTcount: A:0.12, C:0.12, G:0.50, T:0.26
Consensus pattern (8 bp):
CGTGGAGT
Found at i:43019338 original size:22 final size:22
Alignment explanation
Indices: 43019310--43019360 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
43019300 GTGAAGCACC
* *
43019310 GTGGAGTCGTGGAGTC-GTGGAT
1 GTGGAGTCGT-GAATCGGTGGAG
43019332 GTGGAGTCGTGAATCGGTGGAG
1 GTGGAGTCGTGAATCGGTGGAG
43019354 GTGGAGT
1 GTGGAGT
43019361 TGGATCCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.16, C:0.08, G:0.51, T:0.25
Consensus pattern (22 bp):
GTGGAGTCGTGAATCGGTGGAG
Found at i:43024825 original size:38 final size:38
Alignment explanation
Indices: 43024772--43024950 Score: 200
Period size: 38 Copynumber: 4.7 Consensus size: 38
43024762 AACGTAATGT
*
43024772 TATTAGGGCTCTATGCCTAGC-GTGCTTTGTGCCAGTGA
1 TATTCGGGCTCTATGCCTAGCAG-GCTTTGTGCCAGTGA
* * *
43024810 TATTCGGGCTTTATGCCTAGCAGACTTTGTGCTAGTGA
1 TATTCGGGCTCTATGCCTAGCAGGCTTTGTGCCAGTGA
* * * *
43024848 TATTCGGGCTCTGTGTCTAGCAGGCTTTGTGTC-GATTA
1 TATTCGGGCTCTATGCCTAGCAGGCTTTGTGCCAG-TGA
* * * *
43024886 TATTCGGGCTCTATGCTTAGCAAGCTTTGTACCGGTGA
1 TATTCGGGCTCTATGCCTAGCAGGCTTTGTGCCAGTGA
* *
43024924 TATTTGGGCTCTATGCCTAGTAGGCTT
1 TATTCGGGCTCTATGCCTAGCAGGCTT
43024951 CATGTCGGTG
Statistics
Matches: 116, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 113 0.97
39 2 0.02
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (38 bp):
TATTCGGGCTCTATGCCTAGCAGGCTTTGTGCCAGTGA
Found at i:43024982 original size:41 final size:41
Alignment explanation
Indices: 43024937--43025016 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
43024927 TTGGGCTCTA
43024937 TGCCTAGTAGGCTTCATGT-C-GGTGTATTATATTAGGCTTTG
1 TGCCTAGTAGGCTT--TGTGCTGGTGTATTATATTAGGCTTTG
* *
43024978 TGCCTAGTAGGCTTTGTGCTGGTGTGTTATTTTAGGCTT
1 TGCCTAGTAGGCTTTGTGCTGGTGTATTATATTAGGCTT
43025017 CGAACCTGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 3 0.09
40 1 0.03
41 31 0.89
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.44
Consensus pattern (41 bp):
TGCCTAGTAGGCTTTGTGCTGGTGTATTATATTAGGCTTTG
Found at i:43031625 original size:62 final size:62
Alignment explanation
Indices: 43031404--43031614 Score: 314
Period size: 62 Copynumber: 3.4 Consensus size: 62
43031394 CTAAATCGCA
** *
43031404 AACAGTGAGTCACATGGCCTGGACACACACCCGTGTCTCTGGCCCGTGTGGTCTTTAATAGT
1 AACAGTGAGTCACATGGCCTGGACACACACCCGTGTCTCTGGCCCGTGCAGTCTTTAATAGC
* * ** *
43031466 AACAATGAGTTACACAGCCTGGACACACACCCGTGTCTCTGGCCCGTACAGTCTTTAATAGC
1 AACAGTGAGTCACATGGCCTGGACACACACCCGTGTCTCTGGCCCGTGCAGTCTTTAATAGC
* * *
43031528 AACAGTGTGTCACATGGCCTGGATACACACCCGTGTCTCTGGCCCGTGCAGTCTCTAATAGC
1 AACAGTGAGTCACATGGCCTGGACACACACCCGTGTCTCTGGCCCGTGCAGTCTTTAATAGC
*
43031590 AACAGTGAGTCACATGGCCTAGACA
1 AACAGTGAGTCACATGGCCTGGACA
43031615 TACGCTCGTG
Statistics
Matches: 130, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 130 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (62 bp):
AACAGTGAGTCACATGGCCTGGACACACACCCGTGTCTCTGGCCCGTGCAGTCTTTAATAGC
Found at i:43033778 original size:22 final size:22
Alignment explanation
Indices: 43033717--43033778 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
43033707 TAAATTACTA
43033717 AAATATAATAT-TGAAAATATAT
1 AAATAT-ATATGTGAAAATATAT
* * *
43033739 AAATACATGTAGAAGAAAATATAT
1 AAATATATAT-G-TGAAAATATAT
43033763 AAATATATATGTGAAA
1 AAATATATATGTGAAA
43033779 TTCAAACGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 3 0.10
22 9 0.29
23 1 0.03
24 18 0.58
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.31
Consensus pattern (22 bp):
AAATATATATGTGAAAATATAT
Found at i:43035362 original size:26 final size:26
Alignment explanation
Indices: 43035333--43035410 Score: 147
Period size: 26 Copynumber: 3.0 Consensus size: 26
43035323 GAGTAAAAAG
43035333 ATAGTGTAACGTTATGTTGAATGTGT
1 ATAGTGTAACGTTATGTTGAATGTGT
*
43035359 ATAGTGTAAAGTTATGTTGAATGTGT
1 ATAGTGTAACGTTATGTTGAATGTGT
43035385 ATAGTGTAACGTTATGTTGAATGTGT
1 ATAGTGTAACGTTATGTTGAATGTGT
43035411 GAATAGATGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.28, C:0.03, G:0.27, T:0.42
Consensus pattern (26 bp):
ATAGTGTAACGTTATGTTGAATGTGT
Found at i:43037310 original size:44 final size:43
Alignment explanation
Indices: 43037242--43038147 Score: 399
Period size: 44 Copynumber: 20.9 Consensus size: 43
43037232 GCTATCTTAG
* * *
43037242 TCTGTTCCACTGCACCTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAA
* * *
43037286 TCTGCTCCACTGCAACTTTAGGGAGATAAGATT-TGTCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-AA
* * * * *
43037331 TCTGC-CAAACTGTAACTTTA-GGAGGATAAGACT-T-GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTAA
* * * * ***
43037375 TCTGCTCCATTGTAACTTCAGGGAGATAAGACTA--GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * **
43037416 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTATGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
* * * *
43037459 TCCGCTCCACTGCAACTTTAGGGAGATAGGATTGTCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAA
* * * *
43037503 TCTGCTCCACTGTAACTTCAGGAAGATAAGATT-TGCCATCTTAGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TTA-A
** *
43037548 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTACTTAC-TTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTA-TGGCTTTAA
* * *
43037592 TCTGCTCCACTACAACTTCAGGGAGATAAGACTAAAT-GC---GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TATGGCTTTAA
* * * **
43037633 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
* *
43037676 TTTGCTCCAC-GCAACTTCAGGGAGATAGGATT-TCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAA
* *
43037718 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-AA
* * *
43037763 TCTTC-CTCACTGCAACTTCA-GGAGGATAAGACT-T-GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTAA
* * * ***
43037807 CCTGCTCCACTGCAACTTCAGGGAGATAAGACTA--GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * * * * **
43037848 TATGCT-CTCTGCAACTTTAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
* * *
43037891 T-TCGCTCCACTGCAACTTTAGGGAAATAGGATTATCGGCTTTAA
1 TCT-GCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAA
* * *
43037935 TCTGCTCCACTTCAACTTCAGGGAGATAAGATT-TGTCATCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATG---GCTTTAA
* *
43037980 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACT-T-GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTAA
* * * * ***
43038024 CCTGCTCCACTGCAACTTCAGAGAGATAAGACTA--GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * * ** *
43038065 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
* * * *
43038108 TCCGTTCCACTACAACTTCAGGGAGATAGGATTATCGGCT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCT
43038148 ACGGATTTGT
Statistics
Matches: 661, Mismatches: 137, Indels: 128
0.71 0.15 0.14
Matches are distributed among these distances:
39 2 0.00
40 85 0.13
41 27 0.04
42 25 0.04
43 81 0.12
44 303 0.46
45 134 0.20
46 2 0.00
48 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
Found at i:43037622 original size:217 final size:217
Alignment explanation
Indices: 43037247--43038147 Score: 1466
Period size: 217 Copynumber: 4.2 Consensus size: 217
43037237 CTTAGTCTGT
* *
43037247 TCCACTGCACCTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* ** * * *
43037312 TAAGATTTGTCATCTTCAGTCTGCCAAACTGTAACTTTAGGAGGATAAGACTTGCTTACTTAGTC
66 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
* *
43037377 TGCTCCATTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
131 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
*
43037442 AAGATCTATGATTTTAATCCGC
196 AAGATCTGTGATTTTAATCCGC
* * * *
43037464 TCCACTGCAACTTTAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGTAACTTCAGGAAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* *
43037529 TAAGATTTGCCATCTT-AGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTACTTACTTAGT
66 TAAGATTTGCCATCTTCA-GTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGC
* *
43037593 CTGCTCCACTACAACTTCAGGGAGATAAGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAGA
130 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
**
43037658 TAAGATCTGTGATTTTAATTTGC
195 TAAGATCTGTGATTTTAATCCGC
43037681 TCCAC-GCAACTTCAGGGAGATAGGATT-TCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
*
43037744 TAAGATTTGCCATCTTCAGTCTTCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
66 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
* *
43037809 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTTAGAGAGAT
131 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
*
43037874 AAGATCTGTGATTTTAATTCGC
196 AAGATCTGTGATTTTAATCCGC
* * *
43037896 TCCACTGCAACTTTAGGGAAATAGGATTATCGGCTTTAATCTGCTCCACTTCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* *
43037961 TAAGATTTGTCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
66 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
*
43038026 TGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
131 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
* *
43038091 AAGATCTGTGATTTTATTCCGT
196 AAGATCTGTGATTTTAATCCGC
*
43038113 TCCACTACAACTTCAGGGAGATAGGATTATCGGCT
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCT
43038148 ACGGATTTGT
Statistics
Matches: 635, Mismatches: 45, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
215 181 0.29
216 43 0.07
217 411 0.65
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (217 bp):
TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
AAGATCTGTGATTTTAATCCGC
Found at i:43038079 original size:432 final size:434
Alignment explanation
Indices: 43037247--43038147 Score: 1497
Period size: 432 Copynumber: 2.1 Consensus size: 434
43037237 CTTAGTCTGT
* *
43037247 TCCACTGCACCTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* * * *
43037312 TAAGATTTGTCATCTTCAGTCTGCCAAACTGTAACTTTAGGAGGATAAGACTTGCTTACTTAGTC
66 TAAGATTTGCCATCTTCAGTCTGCCAAACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
* * *
43037377 TGCTCCATTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
131 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAGAGAGAT
* *
43037442 AAGATCTATGATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGTCGGCTTTAATCTG
196 AAGATCTATGATTTTAATCCGCTCCACTGCAACTTTAGGGAAATAGGATTATCGGCTTTAATCTG
43037507 CTCCACTGTAACTTCAGGAAGATAAGATTTGCCATCTTAGGTCTGCCTCACTGCAACTTCAGGAG
261 CTCCACTGTAACTTCAGGAAGATAAGATTTGCCATCTTAGGTCTGCCTCACTGCAACTTCAGGAG
* *
43037572 GATAAGACTTACTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAAATGCGATCTG
326 GATAAGACTTACTTACTTAGCCTGCTCCACTACAACTTCAGAGAGATAAGACTAAATGCGATCTG
*
43037637 CTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATT-TGC
391 CTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTT-ATTCCGC
43037681 TCCAC-GCAACTTCAGGGAGATAGGATT-TCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* **
43037744 TAAGATTTGCCATCTTCAGTCTTCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
66 TAAGATTTGCCATCTTCAGTCTGCCAAACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
*
43037809 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTTAGAGAGAT
131 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAGAGAGAT
* *
43037874 AAGATCTGTGATTTTAATTCGCTCCACTGCAACTTTAGGGAAATAGGATTATCGGCTTTAATCTG
196 AAGATCTATGATTTTAATCCGCTCCACTGCAACTTTAGGGAAATAGGATTATCGGCTTTAATCTG
* *
43037939 CTCCACT-TCAACTTCAGGGAGATAAGATTTGTCATCTTTA-GTCTGCCTCACTGCAACTTCAGG
261 CTCCACTGT-AACTTCAGGAAGATAAGATTTGCCATC-TTAGGTCTGCCTCACTGCAACTTCAGG
* * *
43038002 AGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATC
324 AGGATAAGACTTACTTACTTAGCCTGCTCCACTACAACTTCAGAGAGATAAGACTAAATGCGATC
*
43038067 TGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTATTCCGT
389 TGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTATTCCGC
*
43038113 TCCACTACAACTTCAGGGAGATAGGATTATCGGCT
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCT
43038148 ACGGATTTGT
Statistics
Matches: 435, Mismatches: 27, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
431 4 0.01
432 375 0.86
433 45 0.10
434 11 0.03
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (434 bp):
TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTTGCCATCTTCAGTCTGCCAAACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAGAGAGAT
AAGATCTATGATTTTAATCCGCTCCACTGCAACTTTAGGGAAATAGGATTATCGGCTTTAATCTG
CTCCACTGTAACTTCAGGAAGATAAGATTTGCCATCTTAGGTCTGCCTCACTGCAACTTCAGGAG
GATAAGACTTACTTACTTAGCCTGCTCCACTACAACTTCAGAGAGATAAGACTAAATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTATTCCGC
Found at i:43052884 original size:46 final size:47
Alignment explanation
Indices: 43052790--43053077 Score: 526
Period size: 47 Copynumber: 6.2 Consensus size: 47
43052780 CAGCCAAGAC
43052790 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
43052837 AGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
43052883 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-A
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
43052929 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
43052976 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
43053023 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATAAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
43053070 AGTGTATA
1 AGTGTATA
43053078 GCATTTGTGT
Statistics
Matches: 235, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
46 92 0.39
47 143 0.61
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:43052892 original size:93 final size:94
Alignment explanation
Indices: 43052790--43053077 Score: 526
Period size: 93 Copynumber: 3.1 Consensus size: 94
43052780 CAGCCAAGAC
43052790 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
43052855 GGCCTAAT-GCCGATGTGATGAATGTGAA
66 GGCCTAATAGCCGATGTGATGAATGTGAA
43052883 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
43052947 GGCCTAATGGCCGATGTGATGAATGTGAA
66 GGCCTAATAGCCGATGTGATGAATGTGAA
* *
43052976 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
43053041 GGCCTAATAGCCGATGTGATAAATGTGAA
66 GGCCTAATAGCCGATGTGATGAATGTGAA
43053070 AGTGTATA
1 AGTGTATA
43053078 GCATTTGTGT
Statistics
Matches: 189, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
92 27 0.14
93 109 0.58
94 53 0.28
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:43053243 original size:37 final size:37
Alignment explanation
Indices: 43053187--43053264 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
43053177 CCGAGCTCTA
* *
43053187 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
43053224 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43053261 AAGA
1 AAGA
43053265 ATTCGTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43055186 original size:45 final size:44
Alignment explanation
Indices: 43055128--43055233 Score: 196
Period size: 45 Copynumber: 2.4 Consensus size: 44
43055118 TTGGTTTTCA
43055128 GCACT-AAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
43055171 GCACTAAGAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAA-AGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
43055216 GCACTAAAGTGTGCGGGC
1 GCACTAAAGTGTGCGGGC
43055234 TTGAAATGCA
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
43 5 0.08
44 12 0.20
45 44 0.72
ACGTcount: A:0.24, C:0.15, G:0.36, T:0.25
Consensus pattern (44 bp):
GCACTAAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:43055254 original size:29 final size:29
Alignment explanation
Indices: 43055214--43055288 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
43055204 GTTGTGAGAT
* *
43055214 TGGCACTAAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACT-AAGTGTGCGAG-TTGAAAGTACA
*
43055244 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43055273 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43055289 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 5 0.12
29 29 0.71
30 7 0.17
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43055791 original size:39 final size:40
Alignment explanation
Indices: 43055600--43055779 Score: 208
Period size: 39 Copynumber: 4.6 Consensus size: 40
43055590 TTGAATGATG
* * *
43055600 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TATA
* *
43055640 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
43055680 TCC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* ** * *
43055719 TCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
*
43055758 TCCGGGCT-AGGTCCGAAGAGCA
1 TCCGGGCTAAGTTCCGAAGAGCA
43055780 ATCATGCTGG
Statistics
Matches: 121, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 79 0.65
40 27 0.22
41 7 0.06
42 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:43059385 original size:47 final size:47
Alignment explanation
Indices: 43059327--43059862 Score: 865
Period size: 47 Copynumber: 11.4 Consensus size: 47
43059317 CAGCCAAGAC
*
43059327 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
43059374 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
43059421 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
43059468 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
43059515 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
43059562 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
43059609 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
43059656 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
43059703 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
43059750 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * * *
43059797 AGTGTATATATATGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
43059844 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
43059863 TCCCGAAGGG
Statistics
Matches: 462, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 462 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:43060037 original size:37 final size:37
Alignment explanation
Indices: 43059981--43060059 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43059971 CCGAGCTCTA
* *
43059981 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
43060018 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43060055 AAGAC
1 AAGAC
43060060 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43065100 original size:33 final size:33
Alignment explanation
Indices: 43065058--43065135 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
43065048 GTTTTAAGCA
43065058 CTCTAACCAACATATTTAAAAAATAAAAAAGTT
1 CTCTAACCAACATATTTAAAAAATAAAAAAGTT
* *
43065091 CTCTAACCAACATCTTTAAAAATTAAAAAAGTT
1 CTCTAACCAACATATTTAAAAAATAAAAAAGTT
43065124 CTCTAACCAACA
1 CTCTAACCAACA
43065136 GAGATCCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.27
Consensus pattern (33 bp):
CTCTAACCAACATATTTAAAAAATAAAAAAGTT
Found at i:43071119 original size:7 final size:7
Alignment explanation
Indices: 43071109--43071141 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
43071099 TTCTCTTTTT
43071109 TATAATA
1 TATAATA
43071116 TATAATA
1 TATAATA
43071123 TATAATA
1 TATAATA
43071130 TATAATTA
1 TATAA-TA
43071138 TATA
1 TATA
43071142 TAAATAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TATAATA
Found at i:43071148 original size:14 final size:14
Alignment explanation
Indices: 43071108--43071148 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
43071098 TTTCTCTTTT
43071108 TTATA-ATATATAA
1 TTATATATATATAA
43071121 -TATATAATATATAA
1 TTATAT-ATATATAA
*
43071135 TTATATATAAATAA
1 TTATATATATATAA
43071149 CTTTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.17
14 15 0.62
15 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTATATATATATAA
Found at i:43075181 original size:25 final size:25
Alignment explanation
Indices: 43075126--43075173 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
43075116 AAAATCTACT
43075126 CTAAAAAGAAAAGAGAAAACCTAAA
1 CTAAAAAGAAAAGAGAAAACCTAAA
*
43075151 CTAAAAATAAAA-AGAAAACCTAA
1 CTAAAAAGAAAAGAGAAAACCTAA
43075174 CCCTAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.69, C:0.12, G:0.08, T:0.10
Consensus pattern (25 bp):
CTAAAAAGAAAAGAGAAAACCTAAA
Found at i:43075697 original size:16 final size:16
Alignment explanation
Indices: 43075676--43075706 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43075666 TTCACTATTT
*
43075676 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
43075692 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
43075707 GCATGCATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:43083334 original size:41 final size:41
Alignment explanation
Indices: 43083266--43083492 Score: 248
Period size: 41 Copynumber: 5.5 Consensus size: 41
43083256 GAGTGTAAAT
* * *
43083266 AGGGGCACGTATGT-CTAATTTAGGGGTACCAAAGTACAATT
1 AGGGGCACGTATGTGC-AATTCAAGGGTACCAAAGTACAATA
* *
43083307 AGGAGCACGCATGTGCAATTCAAGGGTACCAAAGTACAGA-A
1 AGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTACA-ATA
* * *
43083348 AGGGGCAC-TCATGTGCAATTTAGGGGTATCAAAGTACAA-A
1 AGGGGCACGT-ATGTGCAATTCAAGGGTACCAAAGTACAATA
* *
43083388 TAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAA-A
1 -AGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTACAATA
* * *
43083429 CAAGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAATC
1 -AGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTACAATA
*
43083471 AGGGGCACATATGTGCAATTCA
1 AGGGGCACGTATGTGCAATTCA
43083493 GGGAATAATT
Statistics
Matches: 161, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
40 2 0.01
41 156 0.97
42 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.21
Consensus pattern (41 bp):
AGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTACAATA
Found at i:43083381 original size:82 final size:82
Alignment explanation
Indices: 43083266--43083492 Score: 298
Period size: 82 Copynumber: 2.8 Consensus size: 82
43083256 GAGTGTAAAT
* *
43083266 AGGGGCACGTATGT-CTAATTTAGGGGTACCAAAGTACAATTAGGAGCACGCATGTGCAATTCAA
1 AGGGGCACGTATGTGC-AATTTAGGGGTACCAAAGTACAATTAGGGGCACGTATGTGCAATTCAA
43083330 GGGTACCAAAGTACAGAA-
65 GGGTACCAAAGTACA-AAC
* * *
43083348 AGGGGCAC-TCATGTGCAATTTAGGGGTATCAAAGTACAAATAGGGGCACGTATGTGCAATTCAG
1 AGGGGCACGT-ATGTGCAATTTAGGGGTACCAAAGTACAATTAGGGGCACGTATGTGCAATTCAA
*
43083412 GGGTACCGAAGTACAAAC
65 GGGTACCAAAGTACAAAC
* * * * * *
43083430 AAGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAATCAGGGGCACATATGTGCAATTCA
1 AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAATTAGGGGCACGTATGTGCAATTCA
43083493 GGGAATAATT
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
81 3 0.02
82 122 0.96
83 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.21
Consensus pattern (82 bp):
AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAATTAGGGGCACGTATGTGCAATTCAAG
GGTACCAAAGTACAAAC
Found at i:43083459 original size:123 final size:123
Alignment explanation
Indices: 43083262--43083495 Score: 332
Period size: 123 Copynumber: 1.9 Consensus size: 123
43083252 ATCGGAGTGT
* **
43083262 AAATAGGGGCACGTATGTCTAATTTAGGGGTACCAAAGTACAATTAGGAGCACGCATGTGCAATT
1 AAATAGGGGCACGTATGTCTAATTCAGGGGTACCAAAGTACAACAAGGAGCACGCATGTGCAATT
*
43083327 CAAGGGTACCAAAGTACAGA-AAGGGGCAC-TCATGTGCAATTTAGGGGTATCAAAGTAC
66 CAAGGGTACCAAAGTACA-ATAAGGGGCACAT-ATGTGCAATTCAGGGGTATCAAAGTAC
* *
43083385 AAATAGGGGCACGTATGTGC-AATTCAGGGGTACCGAAGTACAAACAAGG-GCACGTATGTGCAA
1 AAATAGGGGCACGTATGT-CTAATTCAGGGGTACCAAAGTAC-AACAAGGAGCACGCATGTGCAA
* *
43083448 TTCAAGGGTACCGAAGTACAATCAGGGGCACATATGTGCAATTCAGGG
64 TTCAAGGGTACCAAAGTACAATAAGGGGCACATATGTGCAATTCAGGG
43083496 AATAATTAAG
Statistics
Matches: 99, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
122 1 0.01
123 91 0.92
124 7 0.07
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (123 bp):
AAATAGGGGCACGTATGTCTAATTCAGGGGTACCAAAGTACAACAAGGAGCACGCATGTGCAATT
CAAGGGTACCAAAGTACAATAAGGGGCACATATGTGCAATTCAGGGGTATCAAAGTAC
Found at i:43083493 original size:21 final size:21
Alignment explanation
Indices: 43083389--43083495 Score: 74
Period size: 21 Copynumber: 5.2 Consensus size: 21
43083379 AAGTACAAAT
*
43083389 AGGGGCACGTATGTGCAATTC
1 AGGGGCACCTATGTGCAATTC
* * * * *
43083410 AGGGGTACCGAAGTACAA-AC
1 AGGGGCACCTATGTGCAATTC
* *
43083430 AAGGGCACGTATGTGCAATTC
1 AGGGGCACCTATGTGCAATTC
* * * * *
43083451 AAGGGTACCGAAGTACAA-TC
1 AGGGGCACCTATGTGCAATTC
*
43083471 AGGGGCACATATGTGCAATTC
1 AGGGGCACCTATGTGCAATTC
43083492 AGGG
1 AGGG
43083496 AATAATTAAG
Statistics
Matches: 60, Mismatches: 24, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
20 27 0.45
21 33 0.55
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.19
Consensus pattern (21 bp):
AGGGGCACCTATGTGCAATTC
Found at i:43089680 original size:50 final size:50
Alignment explanation
Indices: 43089542--43089680 Score: 206
Period size: 50 Copynumber: 2.8 Consensus size: 50
43089532 CTGTACTACA
* *** *
43089542 AATGCCATATCCCAGACATGGTCTTATGGGGGACCTCTCATCTCAGCGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAGCGCC
* * *
43089592 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAGCGCC
43089642 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
43089681 TACCCAAATG
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAGCGCC
Found at i:43093637 original size:41 final size:41
Alignment explanation
Indices: 43093577--43093821 Score: 204
Period size: 41 Copynumber: 6.0 Consensus size: 41
43093567 GATTCAAAGT
* * * * *
43093577 TACCGGAGTATAAACAGGGGTACACATGTGCAATTTAGGGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGG
* * * *
43093618 TACCGAAGTATAAATAGGGGAACATATGTGCAATTGAGGGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGG
* * * * * * * *
43093659 TACTGAAATACAAATAAGGGCACGTATGTGTAGTTCAGAGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGG
* * *** * *
43093700 TATCGAAGCACAAACAATAGAACGTATGTGCAATTCAGGGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGG
* ** *
43093741 TACCGAAGTATAAACAGGGGCAGGTATGTGCAATTCAAGGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGG
**
43093782 TACCGAAGTACAATTAGGGGCACGA-ATGTGCAATTCAGGG
1 TACCGAAGTACAAACAGGGGCAC-ATATGTGCAATTCAGGG
43093822 AATAATTGAC
Statistics
Matches: 162, Mismatches: 41, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
41 162 1.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.21
Consensus pattern (41 bp):
TACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGG
Found at i:43093811 original size:82 final size:82
Alignment explanation
Indices: 43093577--43093821 Score: 233
Period size: 82 Copynumber: 3.0 Consensus size: 82
43093567 GATTCAAAGT
* * ** * * *
43093577 TACCGGAGTATAAACAGGGGTACACATGTGCAATTTAGGGGTACCGAAGTATAAATAGGGGAAC-
1 TACCGAAGTATAAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAATAGGGGAACG
*
43093641 ATATGTGCAATTGAGGGG
66 A-ATGTGCAATTCAGGGG
* * * * * * * * * * ***
43093659 TACTGAAATACAAATAAGGGCACGTATGTGTAGTTC-AGAGGTATCGAAGCACAAACAATAGAAC
1 TACCGAAGTATAAACAGGGGCACGTATGTGCAATTCAAG-GGTACCGAAGTACAAATAGGGGAAC
*
43093723 GTATGTGCAATTCAGGGG
65 GAATGTGCAATTCAGGGG
* * *
43093741 TACCGAAGTATAAACAGGGGCAGGTATGTGCAATTCAAGGGTACCGAAGTACAATTAGGGGCACG
1 TACCGAAGTATAAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAATAGGGGAACG
43093806 AATGTGCAATTCAGGG
66 AATGTGCAATTCAGGG
43093822 AATAATTGAC
Statistics
Matches: 121, Mismatches: 39, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
81 1 0.01
82 118 0.98
83 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.21
Consensus pattern (82 bp):
TACCGAAGTATAAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAATAGGGGAACG
AATGTGCAATTCAGGGG
Found at i:43099682 original size:82 final size:81
Alignment explanation
Indices: 43099566--43099721 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
43099556 AAATTGTACA
* * * *
43099566 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
43099630 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43099647 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
43099712 TGCGAGTTGA
65 TGCGAATTGA
43099722 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43099689 original size:55 final size:52
Alignment explanation
Indices: 43099565--43099718 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
43099555 TAAATTGTAC
* *
43099565 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
43099618 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
43099673 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
43099719 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:43099723 original size:27 final size:27
Alignment explanation
Indices: 43099566--43099721 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
43099556 AAATTGTACA
*
43099566 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
43099593 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
43099620 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
43099647 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
43099675 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
43099702 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
43099722 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:43099732 original size:27 final size:27
Alignment explanation
Indices: 43099558--43099742 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
43099548 GCGGGATTAA
*
43099558 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
43099585 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
43099612 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
43099639 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
43099667 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
43099694 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
43099721 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
43099743 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:43099733 original size:82 final size:81
Alignment explanation
Indices: 43099558--43099742 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
43099548 GCGGGATTAA
* * * *
43099558 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
43099623 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
43099639 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
43099703 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
43099721 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
43099743 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:43107750 original size:82 final size:81
Alignment explanation
Indices: 43107634--43107789 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
43107624 AAATTGTACA
* * * *
43107634 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
43107698 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43107715 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
43107780 TGCGAGTTGA
65 TGCGAATTGA
43107790 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43107757 original size:55 final size:52
Alignment explanation
Indices: 43107633--43107786 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
43107623 TAAATTGTAC
* *
43107633 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
43107686 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
43107741 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
43107787 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:43107791 original size:27 final size:27
Alignment explanation
Indices: 43107634--43107789 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
43107624 AAATTGTACA
*
43107634 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
43107661 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
43107688 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
43107715 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
43107743 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
43107770 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
43107790 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:43107800 original size:27 final size:27
Alignment explanation
Indices: 43107626--43107810 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
43107616 GCGGGATTAA
*
43107626 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
43107653 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
43107680 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
43107707 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
43107735 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
43107762 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
43107789 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
43107811 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:43107801 original size:82 final size:81
Alignment explanation
Indices: 43107626--43107810 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
43107616 GCGGGATTAA
* * * *
43107626 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
43107691 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
43107707 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
43107771 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
43107789 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
43107811 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:43114123 original size:22 final size:22
Alignment explanation
Indices: 43114107--43114149 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
43114097 AATGGTTATA
43114107 AACCATAATCAGGATGGCACAG
1 AACCATAATCAGGATGGCACAG
*
43114129 AGCCATAATCAGGATGGCACA
1 AACCATAATCAGGATGGCACA
43114150 AAGCTATCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (22 bp):
AACCATAATCAGGATGGCACAG
Found at i:43114505 original size:16 final size:16
Alignment explanation
Indices: 43114479--43114523 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
43114469 ATCCCAACCC
*
43114479 TATGCAAAATGTCATG
1 TATGCAGAATGTCATG
*
43114495 TTTGCAGAATGTCATG
1 TATGCAGAATGTCATG
*
43114511 TATGTAGAATGTC
1 TATGCAGAATGTC
43114524 TCGCCCATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (16 bp):
TATGCAGAATGTCATG
Found at i:43114681 original size:27 final size:27
Alignment explanation
Indices: 43114651--43114847 Score: 225
Period size: 27 Copynumber: 7.3 Consensus size: 27
43114641 TATTTCAATA
* *
43114651 ATTTTACCCCACAAGGGCATTACGGTC
1 ATTTTACCCTACAGGGGCATTACGGTC
* ** *
43114678 ATTTTTCCCTACAGGGATATTACAGTC
1 ATTTTACCCTACAGGGGCATTACGGTC
* * *
43114705 ATTTTACCCTATAGGGGCATTACAGTA
1 ATTTTACCCTACAGGGGCATTACGGTC
* *
43114732 ATTTTACCTTACAAGGGCATTACGGTC
1 ATTTTACCCTACAGGGGCATTACGGTC
* **
43114759 ATTTTA-ACTGAGTGGGGCATTACGGTC
1 ATTTTACCCT-ACAGGGGCATTACGGTC
*
43114786 ATTTTACCCTACAGGGGCATTACGGTT
1 ATTTTACCCTACAGGGGCATTACGGTC
*
43114813 ATTTTACCCTACAGGGGCATTACGATC
1 ATTTTACCCTACAGGGGCATTACGGTC
*
43114840 ATTATACC
1 ATTTTACC
43114848 TATTTTAGGG
Statistics
Matches: 140, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 137 0.98
28 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (27 bp):
ATTTTACCCTACAGGGGCATTACGGTC
Found at i:43114737 original size:81 final size:82
Alignment explanation
Indices: 43114620--43114842 Score: 254
Period size: 81 Copynumber: 2.7 Consensus size: 82
43114610 GGGGGAAAAT
* * * * *
43114620 AGTCATTTTACCCT-TTGGGGATATTTCAATAATTTTACCCCACAAGGGCATTACGGTCATTTTT
1 AGTCATTTTACCCTATAGGGG-CATTACAGTAATTTTACCCTACAAGGGCATTACGGTCATTTTT
** *
43114684 CCCT-ACAGGGATATTAC
65 AACTGACAGGGACATTAC
*
43114701 AGTCATTTTACCCTATAGGGGCATTACAGTAATTTTACCTTACAAGGGCATTACGGTCA-TTTTA
1 AGTCATTTTACCCTATAGGGGCATTACAGTAATTTTACCCTACAAGGGCATTACGGTCATTTTTA
** *
43114765 ACTGAGTGGGGCATTAC
66 ACTGACAGGGACATTAC
* * * * * *
43114782 GGTCATTTTACCCTACAGGGGCATTACGGTTATTTTACCCTACAGGGGCATTACGATCATT
1 AGTCATTTTACCCTATAGGGGCATTACAGTAATTTTACCCTACAAGGGCATTACGGTCATT
43114843 ATACCTATTT
Statistics
Matches: 120, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
80 6 0.05
81 108 0.90
82 6 0.05
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (82 bp):
AGTCATTTTACCCTATAGGGGCATTACAGTAATTTTACCCTACAAGGGCATTACGGTCATTTTTA
ACTGACAGGGACATTAC
Found at i:43122062 original size:45 final size:45
Alignment explanation
Indices: 43122013--43122131 Score: 132
Period size: 45 Copynumber: 2.6 Consensus size: 45
43122003 CGAAATAAGA
** *
43122013 AAGACCATAGTTGAAAGATACTATGGCATTAAACCGGGAT-TGGGT
1 AAGACCATAGTTGAAAGATACTATGGCATTAAA-CGGGATACAGAT
* * * ***
43122058 AAGACCATAGTCGAAAGATATTATGACATTAAATTTGATACAGAT
1 AAGACCATAGTTGAAAGATACTATGGCATTAAACGGGATACAGAT
*
43122103 AAGACCATAATTGAAAGATACTATGGCAT
1 AAGACCATAGTTGAAAGATACTATGGCAT
43122132 CACATCGGTA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 3 0.05
45 57 0.95
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (45 bp):
AAGACCATAGTTGAAAGATACTATGGCATTAAACGGGATACAGAT
Found at i:43125826 original size:21 final size:21
Alignment explanation
Indices: 43125802--43125845 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
43125792 ATGACCTAAT
*
43125802 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
43125823 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
43125844 TA
1 TA
43125846 CTAAATATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:43140597 original size:34 final size:34
Alignment explanation
Indices: 43140549--43140617 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
43140539 ATTTAGTAAA
*
43140549 TGTTAGGATGCGATTAGCATGTCAATAGGTCTTG
1 TGTTAGGATACGATTAGCATGTCAATAGGTCTTG
43140583 TGTTAGGATACGATTAGCATGTCAATAGGTCTTG
1 TGTTAGGATACGATTAGCATGTCAATAGGTCTTG
43140617 T
1 T
43140618 TCGCGCTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.36
Consensus pattern (34 bp):
TGTTAGGATACGATTAGCATGTCAATAGGTCTTG
Found at i:43141298 original size:21 final size:21
Alignment explanation
Indices: 43141274--43141313 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43141264 AATGCCTTGC
*
43141274 GTGGCGCGACATGCAATGTCT
1 GTGGCGCGACACGCAATGTCT
*
43141295 GTGGTGCGACACGCAATGT
1 GTGGCGCGACACGCAATGT
43141314 TTGCGTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.23
Consensus pattern (21 bp):
GTGGCGCGACACGCAATGTCT
Found at i:43151529 original size:22 final size:19
Alignment explanation
Indices: 43151498--43151544 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
43151488 AAAGATGATA
43151498 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
43151521 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
43151540 ATTAT
1 ATTAT
43151545 CAGCTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:43151540 original size:16 final size:15
Alignment explanation
Indices: 43151500--43151541 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
43151490 AGATGATAAT
43151500 TATTAATATATAATTA
1 TATTAAT-TATAATTA
43151516 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
43151532 TATTAATTAT
1 TATTAATTAT
43151542 TATCAGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:43159252 original size:12 final size:12
Alignment explanation
Indices: 43159235--43159266 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
43159225 TACCGAATTA
43159235 AATTAATTCTAT
1 AATTAATTCTAT
43159247 AATTAATTCTAT
1 AATTAATTCTAT
43159259 AATTAATT
1 AATTAATT
43159267 TAATTCAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTAATTCTAT
Found at i:43175140 original size:20 final size:20
Alignment explanation
Indices: 43175107--43175150 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
43175097 CAGCTTCCAA
* *
43175107 AGCTCATTTCAGCTCCAATC
1 AGCTCACTTCAGCTCAAATC
* *
43175127 AGCTCACTTGAGCTTAAATC
1 AGCTCACTTCAGCTCAAATC
43175147 AGCT
1 AGCT
43175151 AGTTTAAGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (20 bp):
AGCTCACTTCAGCTCAAATC
Found at i:43176669 original size:15 final size:15
Alignment explanation
Indices: 43176651--43176700 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
43176641 TTGTATTGTT
*
43176651 AAATTTGAAGTAAAA
1 AAATTCGAAGTAAAA
*
43176666 AAATTCGAGATTAAAA
1 AAATTCGA-AGTAAAA
*
43176682 AAATACGAAGTATAAA
1 AAATTCGAAGTA-AAA
43176698 AAA
1 AAA
43176701 AATTCGTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 10 0.34
16 19 0.66
ACGTcount: A:0.62, C:0.04, G:0.12, T:0.22
Consensus pattern (15 bp):
AAATTCGAAGTAAAA
Found at i:43176682 original size:16 final size:17
Alignment explanation
Indices: 43176661--43176719 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
43176651 AAATTTGAAG
43176661 TAAAAAAATTCGAG-AT
1 TAAAAAAATTCGAGTAT
*
43176677 TAAAAAAATACGAAGTAT
1 TAAAAAAATTCG-AGTAT
* *
43176695 AAAAAAAATTCGTGTAT
1 TAAAAAAATTCGAGTAT
43176712 TAAAAAAA
1 TAAAAAAA
43176720 AAGTGAAGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
16 11 0.31
17 13 0.36
18 12 0.33
ACGTcount: A:0.61, C:0.05, G:0.10, T:0.24
Consensus pattern (17 bp):
TAAAAAAATTCGAGTAT
Found at i:43176715 original size:18 final size:18
Alignment explanation
Indices: 43176662--43176720 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
43176652 AATTTGAAGT
43176662 AAAAAAATTCGAG-ATT-
1 AAAAAAATTCGAGTATTA
*
43176678 AAAAAAATACGAAGTA-TA
1 AAAAAAATTCG-AGTATTA
*
43176696 AAAAAAATTCGTGTATTA
1 AAAAAAATTCGAGTATTA
43176714 AAAAAAA
1 AAAAAAA
43176721 AGTGAAGTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 10 0.28
17 6 0.17
18 20 0.56
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.22
Consensus pattern (18 bp):
AAAAAAATTCGAGTATTA
Found at i:43178827 original size:18 final size:17
Alignment explanation
Indices: 43178801--43178842 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
43178791 ACAAAAGAAC
* *
43178801 ATGAAAAAGAAAATAAAA
1 ATGAGAAAG-AAAGAAAA
43178819 ATGAGAAAGAAAGAAAA
1 ATGAGAAAGAAAGAAAA
43178836 AT-AGAAA
1 ATGAGAAA
43178843 AATCGAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 5 0.23
17 9 0.41
18 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.10
Consensus pattern (17 bp):
ATGAGAAAGAAAGAAAA
Found at i:43178879 original size:16 final size:17
Alignment explanation
Indices: 43178854--43178891 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
43178844 ATCGAGAGAA
*
43178854 AAAAATTGAGCGTTGAG
1 AAAAATTGAGAGTTGAG
*
43178871 AAAAA-TGAGAGTTTAG
1 AAAAATTGAGAGTTGAG
43178887 AAAAA
1 AAAAA
43178892 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.53, C:0.03, G:0.24, T:0.21
Consensus pattern (17 bp):
AAAAATTGAGAGTTGAG
Found at i:43190535 original size:27 final size:26
Alignment explanation
Indices: 43190505--43190592 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 26
43190495 AATTTTCAAT
43190505 AAAGGCATCCCTTTTAGAGTTCGCCAC
1 AAAGGCAT-CCTTTTAGAGTTCGCCAC
* * ** * *
43190532 AAAGACTATTCTTTTTTATTTTGCCAC
1 AAAGGC-ATCCTTTTAGAGTTCGCCAC
* *
43190559 AGAGGCCATTCTTTTTAGAGTTCGCCAC
1 AAAGG-CA-TCCTTTTAGAGTTCGCCAC
43190587 AAAGGC
1 AAAGGC
43190593 TATTCTTAGT
Statistics
Matches: 43, Mismatches: 15, Indels: 6
0.67 0.23 0.09
Matches are distributed among these distances:
27 23 0.53
28 20 0.47
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (26 bp):
AAAGGCATCCTTTTAGAGTTCGCCAC
Found at i:43190586 original size:28 final size:28
Alignment explanation
Indices: 43190516--43190599 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
43190506 AAGGCATCCC
*
43190516 TTTTAGAGTTCGCCACAAAGACTATTCT
1 TTTTAGAGTTCGCCACAAAGGCTATTCT
* * * * *
43190544 TTTT-TATTTTGCCACAGAGGCCATTCT
1 TTTTAGAGTTCGCCACAAAGGCTATTCT
43190571 TTTTAGAGTTCGCCACAAAGGCTATTCT
1 TTTTAGAGTTCGCCACAAAGGCTATTCT
43190599 T
1 T
43190600 AGTTGTCGTG
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 21 0.48
28 23 0.52
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (28 bp):
TTTTAGAGTTCGCCACAAAGGCTATTCT
Found at i:43194773 original size:47 final size:46
Alignment explanation
Indices: 43194673--43194831 Score: 194
Period size: 47 Copynumber: 3.4 Consensus size: 46
43194663 GTCACAGTAA
43194673 TGCAGATAAACTGTCACTTATAATATTATGGACAAA-CCACCACTTT
1 TGCAGATAAACTGTCACTTATAATATTATGGA-AAAGCCACCACTTT
* * * *
43194719 TACAGATAAACTGTCAGTTAATAACATTGTGGAAAAGCCACCACTTT
1 TGCAGATAAACTGTCACTT-ATAATATTATGGAAAAGCCACCACTTT
* * * *
43194766 TGTAGATAAATTGCCACTTTATAATATTATGGACAAGCCACCACTTT
1 TGCAGATAAACTGTCAC-TTATAATATTATGGAAAAGCCACCACTTT
* *
43194813 TGCAAATAAACTGCCACTT
1 TGCAGATAAACTGTCACTT
43194832 CTTCCTCCTT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
46 22 0.23
47 71 0.75
48 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (46 bp):
TGCAGATAAACTGTCACTTATAATATTATGGAAAAGCCACCACTTT
Found at i:43194902 original size:20 final size:20
Alignment explanation
Indices: 43194877--43194916 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
43194867 ATATGGCCAC
*
43194877 AAAAATCACTTTTTCACTTT
1 AAAAATCAATTTTTCACTTT
43194897 AAAAATCAATTTTTCACTTT
1 AAAAATCAATTTTTCACTTT
43194917 GTCATGTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAAATCAATTTTTCACTTT
Found at i:43203994 original size:8 final size:8
Alignment explanation
Indices: 43203944--43203994 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
43203934 CTATATTTGG
*
43203944 ATTATTAT
1 ATTATTAA
43203952 ATTATTAA
1 ATTATTAA
* *
43203960 ATTACTAT
1 ATTATTAA
43203968 ATTA-TATA
1 ATTATTA-A
*
43203976 ATTATTTA
1 ATTATTAA
43203984 ATTATTAA
1 ATTATTAA
43203992 ATT
1 ATT
43203995 TAAATTTTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 2 0.06
8 32 0.91
9 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTATTAA
Found at i:43205552 original size:758 final size:758
Alignment explanation
Indices: 43204405--43205926 Score: 3026
Period size: 758 Copynumber: 2.0 Consensus size: 758
43204395 TTTCAAATTC
43204405 ACACCAAAATTTCTCAAACTAATCAAAATTTAATGGTCTTTTTGAAGTTGAAGCTACAACCAATT
1 ACACCAAAATTTCTCAAACTAATCAAAATTTAATGGTCTTTTTGAAGTTGAAGCTACAACCAATT
*
43204470 TAAATATTGGGTAAACTACACCAACATTCAACTAACTTTCAATTCAATCACTAAAATTTAGGAAA
66 TAAATATTGGGTAAACTACACCAACATTCAACTAACTTTCAACTCAATCACTAAAATTTAGGAAA
43204535 ATAACAAATCGGTCACTAACGTTATCGAAAAGTAACAAACCAGTCACCCATTAAAGTTTTTAGTT
131 ATAACAAATCGGTCACTAACGTTATCGAAAAGTAACAAACCAGTCACCCATTAAAGTTTTTAGTT
43204600 ATAGTCTTAACTGAATAGGGAATGTGGCTAGTTAACTTGCCATGTTGGACATGAGGAGTCGAATG
196 ATAGTCTTAACTGAATAGGGAATGTGGCTAGTTAACTTGCCATGTTGGACATGAGGAGTCGAATG
43204665 GACATAATTTTGGAGGGGAAGGACGGGAAAAGGGTACTAGAAGAGCTTTTCAAGCTATTGAAAAC
261 GACATAATTTTGGAGGGGAAGGACGGGAAAAGGGTACTAGAAGAGCTTTTCAAGCTATTGAAAAC
43204730 ATCATTCATTGTAATAGTTAGTTTTTCAGTGGTGACGGAACAGTGGTTTCGGGACCATAAATTTC
326 ATCATTCATTGTAATAGTTAGTTTTTCAGTGGTGACGGAACAGTGGTTTCGGGACCATAAATTTC
43204795 TGTTGTGTTGACTCATAAATATTAGTTGTAGAATATTTACGAAGTCATTAGAGTCGTATTAAAAT
391 TGTTGTGTTGACTCATAAATATTAGTTGTAGAATATTTACGAAGTCATTAGAGTCGTATTAAAAT
43204860 ATGTTTAAGAAATTTTATCGTTCAGATAATTAATTAAAGAAAATGACTAAATTGAAAAAGGTGCA
456 ATGTTTAAGAAATTTTATCGTTCAGATAATTAATTAAAGAAAATGACTAAATTGAAAAAGGTGCA
43204925 AAACTTAGTACTTATTGCGTTTAGGTGATCAAATAGTTTAATTACTTAAATGAGGGAAGACTTAT
521 AAACTTAGTACTTATTGCGTTTAGGTGATCAAATAGTTTAATTACTTAAATGAGGGAAGACTTAT
43204990 ACGATAATTATACCATGTTATATCTTAATGGATGGTTGTAGGTTTGTGTTTTGGTTTAATTGAAT
586 ACGATAATTATACCATGTTATATCTTAATGGATGGTTGTAGGTTTGTGTTTTGGTTTAATTGAAT
43205055 GTTTTACTAAAGGGCAAAAATTGTAATTTAGTAATTAAATTTAAGTAAAATAAAAATAAAACAAC
651 GTTTTACTAAAGGGCAAAAATTGTAATTTAGTAATTAAATTTAAGTAAAATAAAAATAAAACAAC
43205120 ATCTTCCTAAAATGACTTGGCTGCCGAATTAGAAAGAGGAAGA
716 ATCTTCCTAAAATGACTTGGCTGCCGAATTAGAAAGAGGAAGA
43205163 ACACCAAAATTTCTCAAACTAATCAAAATTTAATGGTCTTTTTGAAGTTGAAGCTACAACCAATT
1 ACACCAAAATTTCTCAAACTAATCAAAATTTAATGGTCTTTTTGAAGTTGAAGCTACAACCAATT
43205228 TAAATATTGGGTAAACTACACCAACATTCAACTAACTTTCAACTCAATCACTAAAATTTAGGAAA
66 TAAATATTGGGTAAACTACACCAACATTCAACTAACTTTCAACTCAATCACTAAAATTTAGGAAA
43205293 ATAACAAATCGGTCACTAACGTTATCGAAAAGTAACAAACCAGTCACCCATTAAAGTTTTTAGTT
131 ATAACAAATCGGTCACTAACGTTATCGAAAAGTAACAAACCAGTCACCCATTAAAGTTTTTAGTT
*
43205358 ATAGTCTTAACTGAATAGGGGATGTGGCTAGTTAACTTGCCATGTTGGACATGAGGAGTCGAATG
196 ATAGTCTTAACTGAATAGGGAATGTGGCTAGTTAACTTGCCATGTTGGACATGAGGAGTCGAATG
43205423 GACATAATTTTGGAGGGGAAGGACGGGAAAAGGGTACTAGAAGAGCTTTTCAAGCTATTGAAAAC
261 GACATAATTTTGGAGGGGAAGGACGGGAAAAGGGTACTAGAAGAGCTTTTCAAGCTATTGAAAAC
43205488 ATCATTCATTGTAATAGTTAGTTTTTCAGTGGTGACGGAACAGTGGTTTCGGGACCATAAATTTC
326 ATCATTCATTGTAATAGTTAGTTTTTCAGTGGTGACGGAACAGTGGTTTCGGGACCATAAATTTC
43205553 TGTTGTGTTGACTCATAAATATTAGTTGTAGAATATTTACGAAGTCATTAGAGTCGTATTAAAAT
391 TGTTGTGTTGACTCATAAATATTAGTTGTAGAATATTTACGAAGTCATTAGAGTCGTATTAAAAT
43205618 ATGTTTAAGAAATTTTATCGTTCAGATAATTAATTAAAGAAAATGACTAAATTGAAAAAGGTGCA
456 ATGTTTAAGAAATTTTATCGTTCAGATAATTAATTAAAGAAAATGACTAAATTGAAAAAGGTGCA
43205683 AAACTTAGTACTTATTGCGTTTAGGTGATCAAATAGTTTAATTACTTAAATGAGGGAAGACTTAT
521 AAACTTAGTACTTATTGCGTTTAGGTGATCAAATAGTTTAATTACTTAAATGAGGGAAGACTTAT
43205748 ACGATAATTATACCATGTTATATCTTAATGGATGGTTGTAGGTTTGTGTTTTGGTTTAATTGAAT
586 ACGATAATTATACCATGTTATATCTTAATGGATGGTTGTAGGTTTGTGTTTTGGTTTAATTGAAT
43205813 GTTTTACTAAAGGGCAAAAATTGTAATTTAGTAATTAAATTTAAGTAAAATAAAAATAAAACAAC
651 GTTTTACTAAAGGGCAAAAATTGTAATTTAGTAATTAAATTTAAGTAAAATAAAAATAAAACAAC
43205878 ATCTTCCTAAAATGACTTGGCTGCCGAATTAGAAAGAGGAAGA
716 ATCTTCCTAAAATGACTTGGCTGCCGAATTAGAAAGAGGAAGA
43205921 ACACCA
1 ACACCA
43205927 TTTTTAAGGT
Statistics
Matches: 762, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
758 762 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (758 bp):
ACACCAAAATTTCTCAAACTAATCAAAATTTAATGGTCTTTTTGAAGTTGAAGCTACAACCAATT
TAAATATTGGGTAAACTACACCAACATTCAACTAACTTTCAACTCAATCACTAAAATTTAGGAAA
ATAACAAATCGGTCACTAACGTTATCGAAAAGTAACAAACCAGTCACCCATTAAAGTTTTTAGTT
ATAGTCTTAACTGAATAGGGAATGTGGCTAGTTAACTTGCCATGTTGGACATGAGGAGTCGAATG
GACATAATTTTGGAGGGGAAGGACGGGAAAAGGGTACTAGAAGAGCTTTTCAAGCTATTGAAAAC
ATCATTCATTGTAATAGTTAGTTTTTCAGTGGTGACGGAACAGTGGTTTCGGGACCATAAATTTC
TGTTGTGTTGACTCATAAATATTAGTTGTAGAATATTTACGAAGTCATTAGAGTCGTATTAAAAT
ATGTTTAAGAAATTTTATCGTTCAGATAATTAATTAAAGAAAATGACTAAATTGAAAAAGGTGCA
AAACTTAGTACTTATTGCGTTTAGGTGATCAAATAGTTTAATTACTTAAATGAGGGAAGACTTAT
ACGATAATTATACCATGTTATATCTTAATGGATGGTTGTAGGTTTGTGTTTTGGTTTAATTGAAT
GTTTTACTAAAGGGCAAAAATTGTAATTTAGTAATTAAATTTAAGTAAAATAAAAATAAAACAAC
ATCTTCCTAAAATGACTTGGCTGCCGAATTAGAAAGAGGAAGA
Done.