Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015272.1 Kokia drynarioides strain JFW-HI SEQ_130317, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 880760
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 613 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:675856 original size:122 final size:122
Alignment explanation
Indices: 675704--676081 Score: 556
Period size: 122 Copynumber: 3.2 Consensus size: 122
675694 TTGTTTTTAA
* * * **
675704 TAATTAACTAATTAAAGAATTAAATATTTGGGTTGTTTTTAATAATTAAATATTTGCTTAAATAT
1 TAATTAAATAATTAAATATTTAAATATTTGGGTTGTTTTTAATAATTAAATATTTATTTAAATAT
* *
675769 AATTAAATAATTAAATATTTTAAATTAAATATTTAAGTTTAGGGTTTAATAAATAAC
66 AATTAAATAATTAAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAAC
*
675826 TAATTAAATATTTAAATATTTAAATATTTGGGTTGTTTTTAATAATTAAATATTTATTTAAATAT
1 TAATTAAATAATTAAATATTTAAATATTTGGGTTGTTTTTAATAATTAAATATTTATTTAAATAT
* **
675891 AATTAAATAATTAAATATTTTGAATTAAATATTTGAGATTATAGTTTAATAAATAAC
66 AATTAAATAATTAAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAAC
* *
675948 TAATT--A-AA-T--A-A-CTAAATATTTGGATTGTTTTTAATAATTAAATATTTATTTAAATAT
1 TAATTAAATAATTAAATATTTAAATATTTGGGTTGTTTTTAATAATTAAATATTTATTTAAATAT
* * *
676005 AATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTTAGGATTTAATAAATAGC
66 AATTAAATAATTAAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAAC
676062 TAATTAAATAATTAAATATT
1 TAATTAAATAATTAAATATT
676082 GGGGTTGTTT
Statistics
Matches: 227, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
114 100 0.44
115 1 0.00
116 2 0.01
117 2 0.01
118 2 0.01
119 1 0.00
120 2 0.01
121 1 0.00
122 116 0.51
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (122 bp):
TAATTAAATAATTAAATATTTAAATATTTGGGTTGTTTTTAATAATTAAATATTTATTTAAATAT
AATTAAATAATTAAATATTTTGAATTAAATATTTGAGTTTAGGGTTTAATAAATAAC
Found at i:675900 original size:30 final size:30
Alignment explanation
Indices: 675866--676024 Score: 103
Period size: 30 Copynumber: 5.5 Consensus size: 30
675856 GGTTGTTTTT
675866 AATAATTAAATATTTATTTAAATATAATTA
1 AATAATTAAATATTTATTTAAATATAATTA
*
675896 AATAATTAAATATTTTGAATTAAATAT--TT-
1 AATAATTAAATA-TTT-ATTTAAATATAATTA
* * *
675925 GA-GATT--ATAGTTTA-ATAAATAACTAATTA
1 AATAATTAAATA-TTTATTTAAAT-A-TAATTA
*
675954 AATAACTAAATATTTGGATTGT---T-T--TT-
1 AATAATTAAATATTT--ATT-TAAATATAATTA
675980 AATAATTAAATATTTATTTAAATATAATTA
1 AATAATTAAATATTTATTTAAATATAATTA
676010 AATAATTAAATATTT
1 AATAATTAAATATTT
676025 TGAATTAAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 42
0.65 0.07 0.28
Matches are distributed among these distances:
23 1 0.01
24 8 0.08
25 2 0.02
26 22 0.22
27 3 0.03
28 5 0.05
29 5 0.05
30 31 0.32
31 6 0.06
32 13 0.13
33 1 0.01
35 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (30 bp):
AATAATTAAATATTTATTTAAATATAATTA
Found at i:676104 original size:34 final size:34
Alignment explanation
Indices: 676062--676223 Score: 141
Period size: 34 Copynumber: 4.4 Consensus size: 34
676052 AATAAATAGC
676062 TAATTAAATAATTAAAT-ATTGGGGTTGTTTTTAA
1 TAATTAAATAATTAAATAATT-GGGTTGTTTTTAA
676096 TAATTAAATATTTAATTAAATAATTAGATAATTGGGTTGTTTTTAA
1 TAATT-AA-A--TAATT--A-AA-T----AATTGGGTTGTTTTTAA
676142 TAATT-AATAATTAAATAATTGGGTTGTTTTTAA
1 TAATTAAATAATTAAATAATTGGGTTGTTTTTAA
* * *
676175 TAATTAAATAATTGAAT-ATTTGGTGAGTTTTTAA
1 TAATTAAATAATTAAATAATTGGGT-TGTTTTTAA
*
676209 TAATTAAATATTTAA
1 TAATTAAATAATTAA
676224 TTAAATAATT
Statistics
Matches: 108, Mismatches: 5, Indels: 30
0.76 0.03 0.21
Matches are distributed among these distances:
33 28 0.26
34 36 0.33
35 2 0.02
36 1 0.01
37 1 0.01
38 7 0.06
39 1 0.01
40 1 0.01
41 7 0.06
42 1 0.01
43 1 0.01
44 1 0.01
46 18 0.17
47 3 0.03
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.48
Consensus pattern (34 bp):
TAATTAAATAATTAAATAATTGGGTTGTTTTTAA
Found at i:676152 original size:33 final size:34
Alignment explanation
Indices: 676108--676218 Score: 156
Period size: 33 Copynumber: 3.3 Consensus size: 34
676098 ATTAAATATT
676108 TAATTAAATAATTAGATAATTGGGTTGTTTTTAA
1 TAATTAAATAATTAGATAATTGGGTTGTTTTTAA
*
676142 TAATT-AATAATTAAATAATTGGGTTGTTTTTAA
1 TAATTAAATAATTAGATAATTGGGTTGTTTTTAA
* *
676175 TAATTAAATAATT-GA-ATATTTGGTGAGTTTTTAA
1 TAATTAAATAATTAGATA-ATTGGGT-TGTTTTTAA
676209 TAATTAAATA
1 TAATTAAATA
676219 TTTAATTAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
32 1 0.01
33 39 0.56
34 30 0.43
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.47
Consensus pattern (34 bp):
TAATTAAATAATTAGATAATTGGGTTGTTTTTAA
Found at i:676223 original size:8 final size:8
Alignment explanation
Indices: 676221--676246 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
676211 ATTAAATATT
676221 TAATTAAA
1 TAATTAAA
676229 TAATTAAA
1 TAATTAAA
676237 TAATTAAA
1 TAATTAAA
676245 TA
1 TA
676247 TGTGTGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:676262 original size:113 final size:113
Alignment explanation
Indices: 676062--676274 Score: 288
Period size: 113 Copynumber: 1.9 Consensus size: 113
676052 AATAAATAGC
* *
676062 TAATTAAATAATTAAATATTGGGGTTGTTTTTAATAATTAAATATTTAATTAAATAATTAGATAA
1 TAATTAAATAATTAAATATTGGGGTAGTTTTTAATAATTAAATATTTAATTAAATAATTAAATAA
*** *
676127 TTGGGTTGTTTTTAATAATTAATAATTAAATAATTGGGTTGTTTTTAA
66 TTAAATTGTTGTTAATAATTAATAATTAAATAATTGGGTTGTTTTTAA
* *
676175 TAATTAAATAATTGAATATT-TGGTGAGTTTTTAATAATTAAATATTTAATTAAATAATTAAATA
1 TAATTAAATAATTAAATATTGGGGT-AGTTTTTAATAATTAAATATTTAATTAAATAATTAAATA
* *
676239 ATTAAATATGTGTGTT-GT-TTTAATAATTAAATAATT
65 ATTAAAT-TGT-TGTTAATAATTAATAATTAAATAATT
676275 ATTTTGTAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
112 3 0.03
113 77 0.89
114 4 0.05
115 3 0.03
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (113 bp):
TAATTAAATAATTAAATATTGGGGTAGTTTTTAATAATTAAATATTTAATTAAATAATTAAATAA
TTAAATTGTTGTTAATAATTAATAATTAAATAATTGGGTTGTTTTTAA
Found at i:679198 original size:35 final size:36
Alignment explanation
Indices: 679132--679201 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
679122 CATAAACGTC
*
679132 GCTATAGATCTATACCTTATTGTAGCGTTTTTCCCG
1 GCTATAGATCTATACCTTATTGTAGCATTTTTCCCG
* *
679168 GCTATTGATCTATA-CTTTTTGTAGCATTTTTCCC
1 GCTATAGATCTATACCTTATTGTAGCATTTTTCCC
679202 ATAAGAGTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 18 0.58
36 13 0.42
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (36 bp):
GCTATAGATCTATACCTTATTGTAGCATTTTTCCCG
Found at i:680628 original size:29 final size:29
Alignment explanation
Indices: 680596--680684 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
680586 TTGATTTAAT
680596 GTGCAATTATATACATGAACTTTAATTTG
1 GTGCAATTATATACATGAACTTTAATTTG
* * *
680625 GTGCAATTATACACGTGAATTTCTAATTATG
1 GTGCAATTATATACATGAACTT-TAATT-TG
* * *
680656 GTTCACA-TGTATACATGAAACTTCAATTT
1 GTGCA-ATTATATACATG-AACTTTAATTT
680685 TGATTTAATC
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
29 19 0.40
30 6 0.13
31 17 0.36
32 5 0.11
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (29 bp):
GTGCAATTATATACATGAACTTTAATTTG
Found at i:680872 original size:29 final size:30
Alignment explanation
Indices: 680840--680907 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
680830 TCAAATTTTA
*
680840 ATGTATAAAAATGTACA-AAATCAAAGTCT
1 ATGTATAAAAATGCACATAAATCAAAGTCT
* * *
680869 ATGTATACAATTGCACATTAAATCATAGTCT
1 ATGTATAAAAATGCACA-TAAATCAAAGTCT
680900 ATGTATAA
1 ATGTATAA
680908 TTTTAGTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 14 0.44
31 18 0.56
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (30 bp):
ATGTATAAAAATGCACATAAATCAAAGTCT
Found at i:681861 original size:24 final size:22
Alignment explanation
Indices: 681829--681892 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
681819 TAAGAGAATG
*
681829 AAAAATAAAATAAAAAAGTTAAA
1 AAAAATAAAAGAAAAAA-TTAAA
681852 AAAACATAAAAGAAAAAATTAAA
1 AAAA-ATAAAAGAAAAAATTAAA
** *
681875 TTAATTAAAACGAAAAAA
1 AAAAATAAAA-GAAAAAA
681893 AATATGAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 5 0.14
23 18 0.51
24 12 0.34
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAAATAAAAGAAAAAATTAAA
Found at i:689561 original size:59 final size:59
Alignment explanation
Indices: 689492--689688 Score: 215
Period size: 60 Copynumber: 3.3 Consensus size: 59
689482 TTAGAGGTTG
*
689492 AAATGTAATTTTTAAGAAAGTTTAGGGGTTAAAATGTAA-TTAAAAAAGGTTCGAGGGTT-A
1 AAATG-AATTTTT-AGAAAGTTTAGGGGTTAAAATGAAATTTAAAAAA-GTTCGAGGGTTAA
* * * *
689552 AAATGAATTTTTAGAAAGTTTAAGGGTTAAAATGAAATTTCTAGAAAGTT-TAGGGTTAA
1 AAATGAATTTTTAGAAAGTTTAGGGGTTAAAATGAAATTT-AAAAAAGTTCGAGGGTTAA
* * * *
689611 AAATGAAATTTTAGAAAG-TTCGGAGGTCGAAAATGAAATTCTAGAAAA-TTCGAGGGTTAA
1 AAATGAATTTTTAGAAAGTTTAGG-GGT-TAAAATGAAATT-TAAAAAAGTTCGAGGGTTAA
689671 AAATGAATTTTTAGAAAG
1 AAATGAATTTTTAGAAAG
689689 CTCGAGGGTA
Statistics
Matches: 116, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
58 32 0.28
59 35 0.30
60 48 0.41
61 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (59 bp):
AAATGAATTTTTAGAAAGTTTAGGGGTTAAAATGAAATTTAAAAAAGTTCGAGGGTTAA
Found at i:689577 original size:29 final size:29
Alignment explanation
Indices: 689487--689732 Score: 191
Period size: 30 Copynumber: 8.3 Consensus size: 29
689477 AAATTTTAGA
*
689487 GGTTGAAATGTAATTTTTAAGAAAGTTT-AGG
1 GGTTAAAATG-AATTTTT-AGAAAGTTTGA-G
* * *
689518 GGTTAAAATGTAA--TTAAAAAAGGTTCGAG
1 GGTTAAAATG-AATTTTTAGAAA-GTTTGAG
*
689547 GGTTAAAATGAATTTTTAGAAAGTTTAAG
1 GGTTAAAATGAATTTTTAGAAAGTTTGAG
*
689576 GGTTAAAATGAAATTTCTAGAAAGTTT-AG
1 GGTTAAAATG-AATTTTTAGAAAGTTTGAG
* *
689605 GGTTAAAAATGAAATTTTAGAAAGTTCG-G
1 GGTT-AAAATGAATTTTTAGAAAGTTTGAG
* * * * *
689634 AGGTCGAAAATGAAATTCTAGAAAATTCGAG
1 -GGT-TAAAATGAATTTTTAGAAAGTTTGAG
* *
689665 GGTTAAAAATGAATTTTTAGAAAGCTCGAG
1 GGTT-AAAATGAATTTTTAGAAAGTTTGAG
*
689695 GG-TAAAATTTGAATTTTTAGGAAGTTTG-G
1 GGTTAAAA--TGAATTTTTAGAAAGTTTGAG
689724 GGTTAAAAT
1 GGTTAAAAT
689733 ATTGTATTAA
Statistics
Matches: 178, Mismatches: 23, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
28 11 0.06
29 55 0.31
30 99 0.56
31 13 0.07
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.33
Consensus pattern (29 bp):
GGTTAAAATGAATTTTTAGAAAGTTTGAG
Found at i:689667 original size:60 final size:60
Alignment explanation
Indices: 689541--689688 Score: 196
Period size: 59 Copynumber: 2.5 Consensus size: 60
689531 TTAAAAAAGG
* * *
689541 TTCGAGGGTT-AAAATGAATTTTTAGAAAGTTTAAGGGTTAAAATGAAATTTCTAGAAAG
1 TTCGAGGGTTAAAAATGAATTTTTAGAAAGTTGAAGGGTGAAAATGAAATTTCTAGAAAA
* * *
689600 TT-TAGGGTTAAAAATGAAATTTTAGAAAGTTCGGA-GGTCGAAAATGAAA-TTCTAGAAAA
1 TTCGAGGGTTAAAAATGAATTTTTAGAAAGTT-GAAGGGT-GAAAATGAAATTTCTAGAAAA
689659 TTCGAGGGTTAAAAATGAATTTTTAGAAAG
1 TTCGAGGGTTAAAAATGAATTTTTAGAAAG
689689 CTCGAGGGTA
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
58 6 0.08
59 36 0.47
60 35 0.45
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (60 bp):
TTCGAGGGTTAAAAATGAATTTTTAGAAAGTTGAAGGGTGAAAATGAAATTTCTAGAAAA
Found at i:690941 original size:77 final size:77
Alignment explanation
Indices: 690847--691650 Score: 946
Period size: 77 Copynumber: 10.4 Consensus size: 77
690837 CAGGAAGATG
* * *
690847 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGCTTGTCTTCAATCTGCTCTCTGATTAAGGT
1 GCTTCAATCTGCTCCATGATCAGGGTAAGAGATTGCTTGTCTTCAATCTGCCCTCTGATTAAGGT
690912 AAAAGATTGGAT
66 AAAAGATTGGAT
* * * *
690924 ACTTCAATCTGCTCCATGATC-GGAGTAAAAGATTGCTTGTCTTTAATCTGCCCTCTGATTAGGG
1 GCTTCAATCTGCTCCATGATCAGG-GTAAGAGATTGCTTGTCTTCAATCTGCCCTCTGATTAAGG
690988 TAAAAGATTGGAT
65 TAAAAGATTGGAT
* * * *
691001 GCTTCAATCTGTTCCATGATC-GGAGTAAGAGATTGGTTGTCTTCAATTTGCCTTCTGATTAAGG
1 GCTTCAATCTGCTCCATGATCAGG-GTAAGAGATTGCTTGTCTTCAATCTGCCCTCTGATTAAGG
691065 TAAAAGATTGGAT
65 TAAAAGATTGGAT
* * *
691078 GCTTCAATCTAC-CTCATGATCAGGGTAAGAGATTG-TCTGTCTTCAATCTGCCCTTTGATTAGG
1 GCTTCAATCTGCTC-CATGATCAGGGTAAGAGATTGCT-TGTCTTCAATCTGCCCTCTGATTAAG
*
691141 GTAAGAGATT-GAGT
64 GTAAAAGATTGGA-T
* * *
691155 GCTTCAACCTGCTCCATGATC-GGAGTAAGAGATTGGTGTGTCTTTAATCTGCCCTCTGATTAAG
1 GCTTCAATCTGCTCCATGATCAGG-GTAAGAGATTGCT-TGTCTTCAATCTGCCCTCTGATTAAG
691219 GTAAAAGATTGGAT
64 GTAAAAGATTGGAT
* * * * *
691233 GCTTCAATCTGC-CTCATGATCAGGGTAATAAATTGCCTGTCTTCAACCTGCCCTCTGATTAGGG
1 GCTTCAATCTGCTC-CATGATCAGGGTAAGAGATTGCTTGTCTTCAATCTGCCCTCTGATTAAGG
691297 TAAAAGATTGGAT
65 TAAAAGATTGGAT
* * * *
691310 GCTTCAATCTGCTCCATGATCAGAGTAAGAGATTGGTTGTCTTCAATCTGCCTTTTGATTAAGGT
1 GCTTCAATCTGCTCCATGATCAGGGTAAGAGATTGCTTGTCTTCAATCTGCCCTCTGATTAAGGT
*
691375 AAAAGATTGAAT
66 AAAAGATTGGAT
* * * * *
691387 GCTTCATTCTG-TCCCATGATCGGGGTAAGAGATTG-TCTATCTTCAATCTGCCCTCTAATTAGG
1 GCTTCAATCTGCT-CCATGATCAGGGTAAGAGATTGCT-TGTCTTCAATCTGCCCTCTGATTAAG
*
691450 GTAAGAGATT-GAGT
64 GTAAAAGATTGGA-T
* * * *
691464 GCTTCAACCTGCTCCATGATCAGAGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGG
1 GCTTCAATCTGCTCCATGATCAGGGTAAGAGATTGCT-TGTCTTCAATCTGCCCTCTGATTAAGG
*
691529 TAAAAGATTGTAT
65 TAAAAGATTGGAT
* * * * * * * *
691542 GCTTTAATCTGCCCCATAATCAGGGTAAGAGATTGCCTATCTTCAATATACCCTCTGATTAGGGT
1 GCTTCAATCTGCTCCATGATCAGGGTAAGAGATTGCTTGTCTTCAATCTGCCCTCTGATTAAGGT
*
691607 AAGAGATT-GAGT
66 AAAAGATTGGA-T
* * * *
691619 GCTTCGATCTACCCCATGATTAGGGTAAGAGA
1 GCTTCAATCTGCTCCATGATCAGGGTAAGAGA
691651 CTTGTAAAAT
Statistics
Matches: 622, Mismatches: 86, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
76 12 0.02
77 476 0.77
78 129 0.21
79 5 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (77 bp):
GCTTCAATCTGCTCCATGATCAGGGTAAGAGATTGCTTGTCTTCAATCTGCCCTCTGATTAAGGT
AAAAGATTGGAT
Found at i:691127 original size:154 final size:154
Alignment explanation
Indices: 690847--691638 Score: 1110
Period size: 154 Copynumber: 5.1 Consensus size: 154
690837 CAGGAAGATG
* * *
690847 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGCTTGTCTTCAATCTG-CTCTCTGATTAAGG
1 GCTTCAATCTGCTCCATGATCGGAGTAAGAGATTGGTTGTCTTCAATCTGCCT-TCTGATTAAGG
* * * *
690911 TAAAAGATTGGATACTTCAATCTG-CTCCATGATC-GGAGTAAAAGATTGCTTGTCTTTAATCTG
65 TAAAAGATTGGATGCTTCAATCTGCCT-CATGATCAGG-GTAAGAGATTGCCTGTCTTCAATCTG
*
690974 CCCTCTGATTAGGGTAAAAGATTG-GAT
128 CCCTCTGATTAGGGTAAGAGATTGAG-T
* *
691001 GCTTCAATCTGTTCCATGATCGGAGTAAGAGATTGGTTGTCTTCAATTTGCCTTCTGATTAAGGT
1 GCTTCAATCTGCTCCATGATCGGAGTAAGAGATTGGTTGTCTTCAATCTGCCTTCTGATTAAGGT
* *
691066 AAAAGATTGGATGCTTCAATCTACCTCATGATCAGGGTAAGAGATTGTCTGTCTTCAATCTGCCC
66 AAAAGATTGGATGCTTCAATCTGCCTCATGATCAGGGTAAGAGATTGCCTGTCTTCAATCTGCCC
*
691131 TTTGATTAGGGTAAGAGATTGAGT
131 TCTGATTAGGGTAAGAGATTGAGT
* * *
691155 GCTTCAACCTGCTCCATGATCGGAGTAAGAGATTGGTGTGTCTTTAATCTGCCCTCTGATTAAGG
1 GCTTCAATCTGCTCCATGATCGGAGTAAGAGATTGGT-TGTCTTCAATCTGCCTTCTGATTAAGG
* * *
691220 TAAAAGATTGGATGCTTCAATCTGCCTCATGATCAGGGTAATAAATTGCCTGTCTTCAACCTGCC
65 TAAAAGATTGGATGCTTCAATCTGCCTCATGATCAGGGTAAGAGATTGCCTGTCTTCAATCTGCC
*
691285 CTCTGATTAGGGTAAAAGATTG-GAT
130 CTCTGATTAGGGTAAGAGATTGAG-T
* *
691310 GCTTCAATCTGCTCCATGATCAGAGTAAGAGATTGGTTGTCTTCAATCTGCCTTTTGATTAAGGT
1 GCTTCAATCTGCTCCATGATCGGAGTAAGAGATTGGTTGTCTTCAATCTGCCTTCTGATTAAGGT
* * * * *
691375 AAAAGATTGAATGCTTCATTCTGTCC-CATGATCGGGGTAAGAGATTGTCTATCTTCAATCTGCC
66 AAAAGATTGGATGCTTCAATCTG-CCTCATGATCAGGGTAAGAGATTGCCTGTCTTCAATCTGCC
*
691439 CTCTAATTAGGGTAAGAGATTGAGT
130 CTCTGATTAGGGTAAGAGATTGAGT
* *
691464 GCTTCAACCTGCTCCATGATCAGAGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGG
1 GCTTCAATCTGCTCCATGATCGGAGTAAGAGATTGGT-TGTCTTCAATCTGCCTTCTGATTAAGG
* * * * * * *
691529 TAAAAGATTGTATGCTTTAATCTGCCCCATAATCAGGGTAAGAGATTGCCTATCTTCAATATACC
65 TAAAAGATTGGATGCTTCAATCTGCCTCATGATCAGGGTAAGAGATTGCCTGTCTTCAATCTGCC
691594 CTCTGATTAGGGTAAGAGATTGAGT
130 CTCTGATTAGGGTAAGAGATTGAGT
* * *
691619 GCTTCGATCTACCCCATGAT
1 GCTTCAATCTGCTCCATGAT
691639 TAGGGTAAGA
Statistics
Matches: 573, Mismatches: 55, Indels: 19
0.89 0.09 0.03
Matches are distributed among these distances:
154 303 0.53
155 270 0.47
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (154 bp):
GCTTCAATCTGCTCCATGATCGGAGTAAGAGATTGGTTGTCTTCAATCTGCCTTCTGATTAAGGT
AAAAGATTGGATGCTTCAATCTGCCTCATGATCAGGGTAAGAGATTGCCTGTCTTCAATCTGCCC
TCTGATTAGGGTAAGAGATTGAGT
Found at i:691450 original size:309 final size:308
Alignment explanation
Indices: 690847--691650 Score: 1177
Period size: 309 Copynumber: 2.6 Consensus size: 308
690837 CAGGAAGATG
* * * * *
690847 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGCT-TGTCTTCAATCTGCTCTCTGATTAAGG
1 GCTTCAACCTGCTCCATGATCGGAGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAAGG
* * *
690911 TAAAAGATTGGATACTTCAATCTG-CTCCATGATC-GGAGTAAAAGATTGCTTGTCTTTAATCTG
66 TAAAAGATTGGATGCTTCAATCTGCCT-CATGATCAGG-GTAAAA-ATTGCCTGTCTTCAATCTG
* *
690974 CCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGTTCCATGATCGGAGTAAGAGATTGGTT
128 CCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCTCCATGATCAGAGTAAGAGATTGGTT
* *
691039 GTCTTCAATTTGCCTTCTGATTAAGGTAAAAGATTGGATGCTTCAATCTACCTCATGATCAGGGT
193 GTCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGAATGCTTCAATCTACCTCATGATCAGGGT
* * *
691104 AAGAGATTGTCTGTCTTCAATCTGCCCTTTGATTAGGGTAAGAGATTGAGT
258 AAGAGATTGTCTATCTTCAATCTGCCCTCTAATTAGGGTAAGAGATTGAGT
*
691155 GCTTCAACCTGCTCCATGATCGGAGTAAGAGATTGGTGTGTCTTTAATCTGCCCTCTGATTAAGG
1 GCTTCAACCTGCTCCATGATCGGAGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAAGG
*
691220 TAAAAGATTGGATGCTTCAATCTGCCTCATGATCAGGGTAATAAATTGCCTGTCTTCAACCTGCC
66 TAAAAGATTGGATGCTTCAATCTGCCTCATGATCAGGGTAA-AAATTGCCTGTCTTCAATCTGCC
691285 CTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCTCCATGATCAGAGTAAGAGATTGGTTGT
130 CTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCTCCATGATCAGAGTAAGAGATTGGTTGT
* * * *
691350 CTTCAATCTGCCTTTTGATTAAGGTAAAAGATTGAATGCTTCATTCTGTCC-CATGATCGGGGTA
195 CTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGAATGCTTCAATCT-ACCTCATGATCAGGGTA
691414 AGAGATTGTCTATCTTCAATCTGCCCTCTAATTAGGGTAAGAGATTGAGT
259 AGAGATTGTCTATCTTCAATCTGCCCTCTAATTAGGGTAAGAGATTGAGT
* *
691464 GCTTCAACCTGCTCCATGATCAGAGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGG
1 GCTTCAACCTGCTCCATGATCGGAGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAAGG
* * * * * * * *
691529 TAAAAGATTGTATGCTTTAATCTGCCCCATAATCAGGGTAAGAGATTGCCTATCTTCAATATACC
66 TAAAAGATTGGATGCTTCAATCTGCCTCATGATCAGGGTAA-AAATTGCCTGTCTTCAATCTGCC
* * * * * *
691594 CTCTGATTAGGGTAAGAGATT-GAGTGCTTCGATCTACCCCATGATTAGGGTAAGAGA
130 CTCTGATTAGGGTAAAAGATTGGA-TGCTTCAATCTGCTCCATGATCAGAGTAAGAGA
691651 CTTGTAAAAT
Statistics
Matches: 450, Mismatches: 40, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
308 35 0.08
309 407 0.90
310 8 0.02
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (308 bp):
GCTTCAACCTGCTCCATGATCGGAGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAAGG
TAAAAGATTGGATGCTTCAATCTGCCTCATGATCAGGGTAAAAATTGCCTGTCTTCAATCTGCCC
TCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCTCCATGATCAGAGTAAGAGATTGGTTGTC
TTCAATCTGCCTTCTGATTAAGGTAAAAGATTGAATGCTTCAATCTACCTCATGATCAGGGTAAG
AGATTGTCTATCTTCAATCTGCCCTCTAATTAGGGTAAGAGATTGAGT
Found at i:691637 original size:232 final size:231
Alignment explanation
Indices: 690847--691655 Score: 1034
Period size: 232 Copynumber: 3.5 Consensus size: 231
690837 CAGGAAGATG
* * *
690847 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGCTTGTCTTCAATCTGCTCTCTGATTAAGGT
1 GCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGCCTGTCTTCAATCTGCCCTCTGATTAAGGT
* * *
690912 AAAAGATTG-GATACTTCAATCTGCTCCATGATCGGAGTAAAAGATTG-CTTGTCTTTAATCTGC
66 AAAAGATTGAG-TGCTTCAATCTGCCCCATGATCGGAGTAAGAGATTGTC-TGTCTTTAATCTGC
* *
690975 CCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGTTCCATGATCGGAGTAAGAGATTGGTTG
129 CCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCTCCATGATCAGAGTAAGAGATTGGTTG
*
691040 TCTTCAATTTGCCTTCTGATTAAGGTAAAAGATTGGAT
194 TCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGAT
* * * * *
691078 GCTTCAATCTACCTCATGATCAGGGTAAGAGATTGTCTGTCTTCAATCTGCCCTTTGATTAGGGT
1 GCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGCCTGTCTTCAATCTGCCCTCTGATTAAGGT
* * * *
691143 AAGAGATTGAGTGCTTCAACCTGCTCCATGATCGGAGTAAGAGATTGGTGTGTCTTTAATCTGCC
66 AAAAGATTGAGTGCTTCAATCTGCCCCATGATCGGAGTAAGAGATT-GTCTGTCTTTAATCTGCC
* * * * **
691208 CTCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGC-CTCATGATCAGGGTAATAAATTGCCTG
130 CTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCTC-CATGATCAGAGTAAGAGATTGGTTG
* * *
691272 TCTTCAACCTGCCCTCTGATTAGGGTAAAAGATTGGAT
194 TCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGAT
* * ** * *
691310 GCTTCAATCTGCTCCATGATCAGAGTAAGAGATTGGTTGTCTTCAATCTGCCTTTTGATTAAGGT
1 GCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGCCTGTCTTCAATCTGCCCTCTGATTAAGGT
* * * * * *
691375 AAAAGATTGAATGCTTCATTCTGTCCCATGATCGGGGTAAGAGATTGTCTATCTTCAATCTGCCC
66 AAAAGATTGAGTGCTTCAATCTGCCCCATGATCGGAGTAAGAGATTGTCTGTCTTTAATCTGCCC
* * *
691440 TCTAATTAGGGTAAGAGATT-GAGTGCTTCAACCTGCTCCATGATCAGAGTAAGAGATTGGTGTG
131 TCTGATTAGGGTAAAAGATTGGA-TGCTTCAATCTGCTCCATGATCAGAGTAAGAGATTGGT-TG
*
691504 TCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGTAT
194 TCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGAT
* * * * * *
691542 GCTTTAATCTGCCCCATAATCAGGGTAAGAGATTGCCTATCTTCAATATACCCTCTGATTAGGGT
1 GCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGCCTGTCTTCAATCTGCCCTCTGATTAAGGT
* * * *
691607 AAGAGATTGAGTGCTTCGATCTACCCCATGATTAGG-GTAAGAGACTTGT
66 AAAAGATTGAGTGCTTCAATCTGCCCCATGA-TCGGAGTAAGAGA-TTGT
691656 AAAATATGCT
Statistics
Matches: 494, Mismatches: 75, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
230 2 0.00
231 161 0.33
232 324 0.66
233 7 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (231 bp):
GCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGCCTGTCTTCAATCTGCCCTCTGATTAAGGT
AAAAGATTGAGTGCTTCAATCTGCCCCATGATCGGAGTAAGAGATTGTCTGTCTTTAATCTGCCC
TCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCTCCATGATCAGAGTAAGAGATTGGTTGTC
TTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGAT
Found at i:703458 original size:30 final size:29
Alignment explanation
Indices: 703365--703700 Score: 175
Period size: 30 Copynumber: 11.2 Consensus size: 29
703355 TTTTAGAGGC
* *
703365 TAAAATGCAATTTTTCAAAAAATTTGAGTGT
1 TAAAATG-AATTTTT-AAAAAGTTTGAGGGT
* * *
703396 CAAAATGTAA-TTTAAAAAAGGTT-AGGGAGT
1 TAAAATG-AATTTTTAAAAAGTTTGA-GG-GT
* *
703426 TAAAATGAATTTTTTAGAAAGTTTAAGGGT
1 TAAAATGAA-TTTTTAAAAAGTTTGAGGGT
* * *
703456 TAAAATGAAATTTTCAAAAAGTTTAAAGGT
1 TAAAATG-AATTTTTAAAAAGTTTGAGGGT
* **
703486 CAAAATGAAATTTCCAAAAAGTTTGA-GGT
1 TAAAATG-AATTTTTAAAAAGTTTGAGGGT
* * *
703515 TGAAAAATGAA-ATTTAGAAATTTTGAGGGT
1 T--AAAATGAATTTTTAAAAAGTTTGAGGGT
* * *
703545 CAAAAATGAAATTCTAGAAAA-TTTGAGGGT
1 -TAAAATGAATTTTTA-AAAAGTTTGAGGGT
* *
703575 TAAAAATGAAATTTTAAAAAGTTTGAGGAT
1 T-AAAATGAATTTTTAAAAAGTTTGAGGGT
* * * *
703605 CGAAAATGAAATTCTAGAAAA-TTTGGGGGT
1 -TAAAATGAATTTTTA-AAAAGTTTGAGGGT
* * * *
703635 TAAAAATGAATTATGAAAAAGCTCGAGGG-
1 T-AAAATGAATTTTTAAAAAGTTTGAGGGT
*
703664 TAAAATTTGAATTTTTAGGAAAGTTTG-GGGT
1 TAAAA--TGAATTTTTA-AAAAGTTTGAGGGT
703695 TAAAAT
1 TAAAAT
703701 ATAGTATTTA
Statistics
Matches: 237, Mismatches: 46, Indels: 46
0.72 0.14 0.14
Matches are distributed among these distances:
28 5 0.02
29 41 0.17
30 144 0.61
31 46 0.19
32 1 0.00
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.32
Consensus pattern (29 bp):
TAAAATGAATTTTTAAAAAGTTTGAGGGT
Found at i:703570 original size:59 final size:58
Alignment explanation
Indices: 703383--703669 Score: 228
Period size: 60 Copynumber: 4.8 Consensus size: 58
703373 AATTTTTCAA
* * * * * * *
703383 AAAATTTGA-GTGTCAAAATGTAATTTAAAAAAGGTT-AGGGAGTTAAAATGAATTTTTTAG
1 AAAATTTGAGGT-TAAAAATGAAATTTTAAAAAGTTTGA-GG-GTCAAAATGAA-ATTCTAG
* * * * *
703443 AAAGTTTAAGGGTT-AAAATGAAATTTTCAAAAAGTTTAAAGGTCAAAATGAAATTTCCA-
1 AAAATTTGA-GGTTAAAAATGAAATTTT-AAAAAGTTTGAGGGTCAAAATGAAA-TTCTAG
* *
703502 AAAAGTTTGAGGTTGAAAAATGAAA-TTTAGAAATTTTGAGGGTCAAAAATGAAATTCTAG
1 AAAA-TTTGAGGTT-AAAAATGAAATTTTAAAAAGTTTGAGGGTC-AAAATGAAATTCTAG
*
703562 AAAATTTGAGGGTTAAAAATGAAATTTTAAAAAGTTTGAGGATCGAAAATGAAATTCTAG
1 AAAATTTGA-GGTTAAAAATGAAATTTTAAAAAGTTTGAGGGTC-AAAATGAAATTCTAG
* * * *
703622 AAAATTTGGGGGTTAAAAATG-AATTATGAAAAAGCTCGAGGGT-AAAAT
1 AAAATTT-GAGGTTAAAAATGAAATT-TTAAAAAGTTTGAGGGTCAAAAT
703670 TTGAATTTTT
Statistics
Matches: 187, Mismatches: 26, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
58 5 0.03
59 42 0.22
60 117 0.63
61 20 0.11
62 3 0.02
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (58 bp):
AAAATTTGAGGTTAAAAATGAAATTTTAAAAAGTTTGAGGGTCAAAATGAAATTCTAG
Found at i:703678 original size:89 final size:89
Alignment explanation
Indices: 703487--703668 Score: 219
Period size: 90 Copynumber: 2.0 Consensus size: 89
703477 TTTAAAGGTC
* * *
703487 AAAATGAAATTTCCAAAAAGTTTGAGGTTGAAAAATGAAATTTAGAAATTTTGAGGGTCAAAAAT
1 AAAATGAAATTT-TAAAAAGTTTGAGGTCGAAAAATGAAATTTAGAAAATTTGAGGGTCAAAAAT
* * *
703552 GAAATTCTAGAAAATTTGAGGGTTA
65 GAAATTATAGAAAACTCGAGGGTTA
* *
703577 AAAATGAAATTTTAAAAAGTTTGAGGATCG-AAAATGAAATTCTAGAAAATTTGGGGGTTAAAAA
1 AAAATGAAATTTTAAAAAGTTTGAGG-TCGAAAAATGAAATT-TAGAAAATTTGAGGGTCAAAAA
703641 TG-AATTAT-GAAAAAGCTCGAGGG-TA
64 TGAAATTATAG-AAAA-CTCGAGGGTTA
703666 AAA
1 AAA
703669 TTTGAATTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
88 1 0.01
89 38 0.47
90 41 0.51
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.28
Consensus pattern (89 bp):
AAAATGAAATTTTAAAAAGTTTGAGGTCGAAAAATGAAATTTAGAAAATTTGAGGGTCAAAAATG
AAATTATAGAAAACTCGAGGGTTA
Found at i:705551 original size:13 final size:13
Alignment explanation
Indices: 705525--705577 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
705515 AGTTTAGCAT
* *
705525 TGTTTTTGAGAAG
1 TGTTTTTAAAAAG
705538 TGTTTTTAAAAAG
1 TGTTTTTAAAAAG
* *
705551 TGCTTTGAAAAAG
1 TGTTTTTAAAAAG
*
705564 TGATTTTAAAAAG
1 TGTTTTTAAAAAG
705577 T
1 T
705578 ACTTTTGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.42
Consensus pattern (13 bp):
TGTTTTTAAAAAG
Found at i:705570 original size:26 final size:27
Alignment explanation
Indices: 705535--705588 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
705525 TGTTTTTGAG
* *
705535 AAGTGTTTTTAAAAAGTGC-TTTGAAA
1 AAGTGATTTTAAAAAGTACTTTTGAAA
705561 AAGTGATTTTAAAAAGTACTTTTGAAA
1 AAGTGATTTTAAAAAGTACTTTTGAAA
705588 A
1 A
705589 GCTTGAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.37
Consensus pattern (27 bp):
AAGTGATTTTAAAAAGTACTTTTGAAA
Found at i:705583 original size:13 final size:13
Alignment explanation
Indices: 705541--705589 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
705531 TGAGAAGTGT
*
705541 TTTTAAAAAGTGC
1 TTTTAAAAAGTAC
*
705554 TTTGAAAAAGTGA-
1 TTTTAAAAAGT-AC
705567 TTTTAAAAAGTAC
1 TTTTAAAAAGTAC
*
705580 TTTTGAAAAG
1 TTTTAAAAAG
705590 CTTGAGTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 1 0.03
13 29 0.97
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (13 bp):
TTTTAAAAAGTAC
Found at i:705589 original size:26 final size:26
Alignment explanation
Indices: 705528--705589 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
705518 TTAGCATTGT
* * *
705528 TTTTGAGAAGTGTTTTTAAAAAGTGC
1 TTTTGAAAAGTGATTTTAAAAAGTAC
705554 -TTTGAAAAAGTGATTTTAAAAAGTAC
1 TTTTG-AAAAGTGATTTTAAAAAGTAC
705580 TTTTGAAAAG
1 TTTTGAAAAG
705590 CTTGAGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 4 0.13
26 23 0.74
27 4 0.13
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (26 bp):
TTTTGAAAAGTGATTTTAAAAAGTAC
Found at i:707497 original size:2 final size:2
Alignment explanation
Indices: 707490--707520 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
707480 GATGGTTTCA
707490 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
707521 TTCTAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:712613 original size:17 final size:17
Alignment explanation
Indices: 712591--712633 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
712581 CCATTTAGGT
712591 CGTGTGGGCCACACAAG
1 CGTGTGGGCCACACAAG
712608 CGTGTGGGCCACACAAG
1 CGTGTGGGCCACACAAG
712625 CGTGTGGGC
1 CGTGTGGGC
712634 TCATTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.19, C:0.28, G:0.40, T:0.14
Consensus pattern (17 bp):
CGTGTGGGCCACACAAG
Found at i:714561 original size:15 final size:17
Alignment explanation
Indices: 714531--714567 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
714521 ATTGTGTACT
*
714531 TTTTTTTCTCATTAGG-
1 TTTTTATCTCATTAGGA
714547 TTTTTATCTCA-TAGGA
1 TTTTTATCTCATTAGGA
714563 TTTTT
1 TTTTT
714568 TTAAATAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.62
Consensus pattern (17 bp):
TTTTTATCTCATTAGGA
Found at i:714953 original size:38 final size:38
Alignment explanation
Indices: 714902--714974 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
714892 TTCATATTTT
714902 CCAAAAACACATATGCAGATATTTAAATACTCACCGCC
1 CCAAAAACACATATGCAGATATTTAAATACTCACCGCC
714940 CCAAAAACACATATGCAGATATTTAAATACTCACC
1 CCAAAAACACATATGCAGATATTTAAATACTCACC
714975 ACCCTCATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.44, C:0.27, G:0.07, T:0.22
Consensus pattern (38 bp):
CCAAAAACACATATGCAGATATTTAAATACTCACCGCC
Found at i:716385 original size:81 final size:80
Alignment explanation
Indices: 716287--716465 Score: 243
Period size: 81 Copynumber: 2.2 Consensus size: 80
716277 TCAAATTTTT
* *
716287 TTTTTAAGGGGTCGAAGTTAAATTGTAATTTTTATGATAGTAAAAATGTAATTTTTAAACAATTA
1 TTTTTAGGGGGT-GAAGTTAAATTGTAATTTTTATGATAGTAAAAATGCAATTTTTAAACAATTA
*
716352 AATCAAA-ATTTTATCA
65 AAT-AAATATCTTATCA
* * * * *
716368 TTTTTAGGAGGGTGAAGTTAAATTTTAATTTTTATGATGGTAAAAATGCATTTTTTAAAGAATTT
1 TTTTTAGG-GGGTGAAGTTAAATTGTAATTTTTATGATAGTAAAAATGCAATTTTTAAACAATTA
716433 AATAAATATCTTATCA
65 AATAAATATCTTATCA
*
716449 TTTTTAGGGGGTAAAGT
1 TTTTTAGGGGGTGAAGT
716466 ATAATTTTAC
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
80 11 0.13
81 72 0.83
82 4 0.05
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (80 bp):
TTTTTAGGGGGTGAAGTTAAATTGTAATTTTTATGATAGTAAAAATGCAATTTTTAAACAATTAA
ATAAATATCTTATCA
Found at i:716940 original size:6 final size:6
Alignment explanation
Indices: 716929--716967 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
716919 TCTCTTTACA
716929 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATA
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATA
716968 AGGAAAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (6 bp):
ATATAG
Found at i:718263 original size:22 final size:22
Alignment explanation
Indices: 718235--718278 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
718225 AAAGCTAAGA
*
718235 TAGGAGAATATTTAAGTAATTT
1 TAGGAGAAGATTTAAGTAATTT
718257 TAGGAGAAGATTTAAGTAATTT
1 TAGGAGAAGATTTAAGTAATTT
718279 CATCTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (22 bp):
TAGGAGAAGATTTAAGTAATTT
Found at i:720120 original size:14 final size:14
Alignment explanation
Indices: 720101--720131 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
720091 TGCTACCATT
720101 TTACTATTATATTG
1 TTACTATTATATTG
*
720115 TTACTATTTTATTG
1 TTACTATTATATTG
720129 TTA
1 TTA
720132 TTGTTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (14 bp):
TTACTATTATATTG
Found at i:742434 original size:65 final size:65
Alignment explanation
Indices: 742353--742483 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
742343 AAAATAGATA
*
742353 TGTGAATGGGTTGGATAAGTACCCAAGAGAATTCGGCTATGGTTGTTGTGTAAGAGAATTGTTAT
1 TGTGAATGGGTTGGATAAGTACCCAAGAGAATTCGACTATGGTTGTTGTGTAAGAGAATTGTTAT
*
742418 TGTGAATGGGTTGGATAAGTACCCAAGAGAATTTGACTATGGTTGTTGTGTAAGAGAATTGTTAT
1 TGTGAATGGGTTGGATAAGTACCCAAGAGAATTCGACTATGGTTGTTGTGTAAGAGAATTGTTAT
742483 T
1 T
742484 TTGTATGTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (65 bp):
TGTGAATGGGTTGGATAAGTACCCAAGAGAATTCGACTATGGTTGTTGTGTAAGAGAATTGTTAT
Found at i:745232 original size:15 final size:15
Alignment explanation
Indices: 745189--745226 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
745179 TGTGAAGGAT
*
745189 ATTAATCTAAAGT--
1 ATTAATCTAAACTAA
745202 ATTAATCTAAACTAA
1 ATTAATCTAAACTAA
745217 ATTAATCTAA
1 ATTAATCTAA
745227 GTTAAAGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
15 10 0.45
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.37
Consensus pattern (15 bp):
ATTAATCTAAACTAA
Found at i:745921 original size:12 final size:12
Alignment explanation
Indices: 745906--745936 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
745896 AATTAAATAA
745906 ATAATAGCATTC
1 ATAATAGCATTC
745918 ATAATAGCATTC
1 ATAATAGCATTC
745930 ATCAATA
1 AT-AATA
745937 TAACAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (12 bp):
ATAATAGCATTC
Found at i:750513 original size:28 final size:29
Alignment explanation
Indices: 750466--750523 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 29
750456 CTGTTTTAAA
*
750466 AATATTTACAGAAAAGACAA-TTAATTTT
1 AATATTTACAGAAAAGACAACTAAATTTT
750494 AATATTTACA-AAATTA-ACAACTAAATTTT
1 AATATTTACAGAAA--AGACAACTAAATTTT
750523 A
1 A
750524 CAAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 3 0.12
28 14 0.54
29 9 0.35
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (29 bp):
AATATTTACAGAAAAGACAACTAAATTTT
Found at i:761410 original size:8 final size:7
Alignment explanation
Indices: 761384--761413 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
761374 TAAATATCAT
761384 AAAATAA
1 AAAATAA
761391 AAAATAA
1 AAAATAA
761398 AAAATAA
1 AAAATAA
761405 ATAAATAA
1 A-AAATAA
761413 A
1 A
761414 CAATTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAATAA
Found at i:761471 original size:11 final size:10
Alignment explanation
Indices: 761452--761533 Score: 56
Period size: 11 Copynumber: 7.6 Consensus size: 10
761442 TAGGCATGAT
*
761452 AATAGATAACA
1 AATAAATAA-A
761463 AATAAATAAA
1 AATAAATAAA
*
761473 ATTAAATTAAA
1 AATAAA-TAAA
*
761484 TATAAAGTAAA
1 AATAAA-TAAA
* *
761495 AATGAATCACA
1 AATAAAT-AAA
761506 AATAAATAAA
1 AATAAATAAA
*
761516 TAATAATTAAA
1 -AATAAATAAA
761527 TAATAAA
1 -AATAAA
761534 AAATAAATTC
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
10 9 0.16
11 47 0.84
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (10 bp):
AATAAATAAA
Found at i:763130 original size:50 final size:49
Alignment explanation
Indices: 763075--763519 Score: 216
Period size: 50 Copynumber: 9.0 Consensus size: 49
763065 ACCTACTGCA
* *
763075 ACTTTAGGGGTACAAGATTCGCCTTTGTGGCTTCAATCTGCCTCTCTAT
1 ACTTTAGGGGTACAAGATTCGCCTTTGCGGCTTCAATCTGCCCCTCTAT
* * * ** *
763124 AGCTTTAGGGGTATAAGATTCGCCTCTACAACTTCAATCGGCCCCTCTACT
1 A-CTTTAGGGGTACAAGATTCGCCTTTGCGGCTTCAATCTGCCCCTCTA-T
* * ** ** * *
763175 ACTTTAGGGGCATAAGATTCATCTTTGCGGCTTCAATCTTTCTCTCTACA
1 ACTTTAGGGGTACAAGATTCGCCTTTGCGGCTTCAATCTGCCCCTCTA-T
* * * *
763225 ATTTTAGGAGTACAAGATTTGCCTTTGCGGCTTCAATTTGCCCCTCT-T
1 ACTTTAGGGGTACAAGATTCGCCTTTGCGGCTTCAATCTGCCCCTCTAT
* * * * * * * * *
763273 CAGCCTTAGGTGT--AAGATTCACCTTTACGGCATCAATTTGTCCCTTTACC
1 -A-CTTTAGGGGTACAAGATTCGCCTTTGCGGCTTCAATCTGCCCCTCTA-T
* * * * * * *
763323 ATTTTAGGAGTATAAGATTTGCCTTCGCGGCTTCAATCTACTCCTCTGCA-
1 ACTTTAGGGGTACAAGATTCGCCTTTGCGGCTTCAATCTGCCCCTCT--AT
* ** * * ** * *
763373 ACTTTAGGAGTATGAGATTCACCTTCGCAACTTCAATCTGCTCCTCTAC
1 ACTTTAGGGGTACAAGATTCGCCTTTGCGGCTTCAATCTGCCCCTCTAT
* * * * * * * * * * *
763422 AGCTTTAAGGTTATAAAATTTGCTTTTACGACTTCGATCTACCCCTCTAC
1 A-CTTTAGGGGTACAAGATTCGCCTTTGCGGCTTCAATCTGCCCCTCTAT
* * * * *
763472 AGCATTAGAGG-ATAAGATTCGCCTTCGTGGCTTCAATCTGCCCCTCTA
1 A-CTTTAGGGGTACAAGATTCGCCTTTGCGGCTTCAATCTGCCCCTCTA
763520 CAGCTATAAA
Statistics
Matches: 295, Mismatches: 89, Indels: 24
0.72 0.22 0.06
Matches are distributed among these distances:
48 36 0.12
49 32 0.11
50 224 0.76
51 2 0.01
52 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (49 bp):
ACTTTAGGGGTACAAGATTCGCCTTTGCGGCTTCAATCTGCCCCTCTAT
Found at i:763259 original size:100 final size:98
Alignment explanation
Indices: 763075--763510 Score: 286
Period size: 100 Copynumber: 4.4 Consensus size: 98
763065 ACCTACTGCA
* * * ** * ** *
763075 ACTTTAGGGGTACAAGATTCGCCTTTGTGGCTTCAATCTGCCTCTCTATAGCTTTAGGGGTATAA
1 ACTTTAGGGG-ATAAGATTCACCTTTGCGGCTTCAATCTTTCTCTCTACAATTTTAGGAGTATAA
* * * **
763140 GATTCGCCTCTACAACTTCAATCGGCCCCTCTAC
65 GATTTGCCTTTGCGGCTTCAATCGGCCCCTCTAC
* *
763174 TACTTTAGGGGCATAAGATTCATCTTTGCGGCTTCAATCTTTCTCTCTACAATTTTAGGAGTACA
1 -ACTTTAGGGG-ATAAGATTCACCTTTGCGGCTTCAATCTTTCTCTCTACAATTTTAGGAGTATA
** *
763239 AGATTTGCCTTTGCGGCTTCAATTTGCCCCTCTTC
64 AGATTTGCCTTTGCGGCTTCAATCGGCCCCTCTAC
* * * * * * *
763274 AGCCTTAGGTG-TAAGATTCACCTTTACGGCATCAAT-TTGTCCCTTTACCATTTTAGGAGTATA
1 A-CTTTAGGGGATAAGATTCACCTTTGCGGCTTCAATCTT-TCTCTCTACAATTTTAGGAGTATA
* ** * *
763337 AGATTTGCCTTCGCGGCTTCAATCTACTCCTCTGC
64 AGATTTGCCTTTGCGGCTTCAATCGGCCCCTCTAC
* * * ** * * * *
763372 AACTTTAGGAGTATGAGATTCACCTTCGCAACTTCAATC-TGCTCCTCTACAGCTTTAAGG-TTA
1 -ACTTTAGG-GGATAAGATTCACCTTTGCGGCTTCAATCTTTCT-CTCTACA-ATTTTAGGAGTA
* * * * * **
763435 TAAAATTTGCTTTTACGACTTCGATCTACCCCTCTAC
62 TAAGATTTGCCTTTGCGGCTTCAATCGGCCCCTCTAC
* * * * *
763472 AGCATTAGAGGATAAGATTCGCCTTCGTGGCTTCAATCT
1 A-CTTTAGGGGATAAGATTCACCTTTGCGGCTTCAATCT
763511 GCCCCTCTAC
Statistics
Matches: 260, Mismatches: 66, Indels: 20
0.75 0.19 0.06
Matches are distributed among these distances:
97 2 0.01
98 78 0.30
99 27 0.10
100 147 0.57
101 6 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (98 bp):
ACTTTAGGGGATAAGATTCACCTTTGCGGCTTCAATCTTTCTCTCTACAATTTTAGGAGTATAAG
ATTTGCCTTTGCGGCTTCAATCGGCCCCTCTAC
Found at i:763369 original size:98 final size:98
Alignment explanation
Indices: 763187--763397 Score: 253
Period size: 98 Copynumber: 2.1 Consensus size: 98
763177 TTTAGGGGCA
* * * * *
763187 TAAGATTCATCTTTGCGGCTTCAATCTTTCTCTCTACAATTTTAGGAGTACAAGATTTGCCTTTG
1 TAAGATTCACCTTTACGGCATCAATCTTTCCCTCTACAATTTTAGGAGTACAAGATTTGCCTTCG
* * * * *
763252 CGGCTTCAATTTGCCCCTCTTCAGCCTTAGGTG
66 CGGCTTCAATCTACCCCTCTGCAACCTTAGGAG
* * *
763285 TAAGATTCACCTTTACGGCATCAAT-TTGTCCCTTTACCATTTTAGGAGTATAAGATTTGCCTTC
1 TAAGATTCACCTTTACGGCATCAATCTT-TCCCTCTACAATTTTAGGAGTACAAGATTTGCCTTC
* *
763349 GCGGCTTCAATCTACTCCTCTGCAACTTTAGGAG
65 GCGGCTTCAATCTACCCCTCTGCAACCTTAGGAG
763383 TATGAGATTCACCTT
1 TA--AGATTCACCTT
763398 CGCAACTTCA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
97 2 0.02
98 82 0.86
100 11 0.12
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (98 bp):
TAAGATTCACCTTTACGGCATCAATCTTTCCCTCTACAATTTTAGGAGTACAAGATTTGCCTTCG
CGGCTTCAATCTACCCCTCTGCAACCTTAGGAG
Found at i:778145 original size:19 final size:19
Alignment explanation
Indices: 778123--778164 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
778113 AATGAATCAC
*
778123 AAATAAATAAATACT-AATT
1 AAAT-AATAAATAATAAATT
778142 AAATAATAAATAATAAATT
1 AAATAATAAATAATAAATT
778161 AAAT
1 AAAT
778165 GCTAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAATAAATAATAAATT
Found at i:794299 original size:3 final size:3
Alignment explanation
Indices: 794291--794321 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
794281 GAAGATTCCA
794291 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
794322 GGAAGAGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:798476 original size:2 final size:2
Alignment explanation
Indices: 798469--798493 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
798459 TGGTGCTCTC
798469 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
798494 ATTAGCCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:800841 original size:22 final size:24
Alignment explanation
Indices: 800798--800841 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
800788 TAATAAAGTA
*
800798 TTTTGATATAATAAATTTAAATGT
1 TTTTGATATAATAAATTAAAATGT
*
800822 TTTTGA-AT-ATAAGTTAAAAT
1 TTTTGATATAATAAATTAAAAT
800842 TGACAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 2 0.11
24 6 0.33
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (24 bp):
TTTTGATATAATAAATTAAAATGT
Found at i:805286 original size:18 final size:19
Alignment explanation
Indices: 805263--805298 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
805253 ACAAAAAAAT
805263 AAAATAAAT-AAACCTAAG
1 AAAATAAATGAAACCTAAG
*
805281 AAAATACATGAAACCTAA
1 AAAATAAATGAAACCTAA
805299 ATCTAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.14, G:0.06, T:0.17
Consensus pattern (19 bp):
AAAATAAATGAAACCTAAG
Found at i:823371 original size:81 final size:81
Alignment explanation
Indices: 823230--823383 Score: 245
Period size: 81 Copynumber: 1.9 Consensus size: 81
823220 TATACTTGTC
* * *
823230 TGCTTAGTAGCAGCTTTAACAATCTGGTCATGGAGAATTGCACCGACATCGACGTGGCGACCCTT
1 TGCTTAGTAGCAGCTTCAACAATCTGGTCATAGAGAATTGCACCGACATCGACGTAGCGACCCTT
823295 AAGGATAGTGCAAGAT
66 AAGGATAGTGCAAGAT
** * *
823311 TGCTTAGTAGCAGCTTCAGTAATCTGGTCATAGAGAATTGCACTGACATCGATGTAGCGACCCTT
1 TGCTTAGTAGCAGCTTCAACAATCTGGTCATAGAGAATTGCACCGACATCGACGTAGCGACCCTT
823376 AAGGATAG
66 AAGGATAG
823384 AGTGCAGGAT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (81 bp):
TGCTTAGTAGCAGCTTCAACAATCTGGTCATAGAGAATTGCACCGACATCGACGTAGCGACCCTT
AAGGATAGTGCAAGAT
Found at i:828854 original size:15 final size:14
Alignment explanation
Indices: 828830--828861 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
828820 CTGCTGATTG
828830 TTGTTATAACTCCC
1 TTGTTATAACTCCC
828844 TTGTCTATAACTCCC
1 TTGT-TATAACTCCC
828859 TTG
1 TTG
828862 ATGTGAGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (14 bp):
TTGTTATAACTCCC
Found at i:832620 original size:28 final size:28
Alignment explanation
Indices: 832580--832635 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
832570 TAAAAACGAT
832580 AGCAAAAGAGTATTCTATGTTTCACAAA
1 AGCAAAAGAGTATTCTATGTTTCACAAA
832608 AGCAAAAGAGTATTCTATGTTTCACAAA
1 AGCAAAAGAGTATTCTATGTTTCACAAA
832636 CCCTAGAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (28 bp):
AGCAAAAGAGTATTCTATGTTTCACAAA
Found at i:833563 original size:25 final size:26
Alignment explanation
Indices: 833525--833582 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
833515 GGGCCCCAAT
* *
833525 TTTTTTATTTTATT-ACTATTATATG
1 TTTTTTATTCTATTAAATATTATATG
* *
833550 TTTTTTATTCTATTAAATTTTATATT
1 TTTTTTATTCTATTAAATATTATATG
833576 TTTTTTA
1 TTTTTTA
833583 AAAGAGGCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTTTATTCTATTAAATATTATATG
Found at i:833577 original size:24 final size:25
Alignment explanation
Indices: 833525--833579 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
833515 GGGCCCCAAT
* * *
833525 TTTTTTATTTTATTACTATTATATG
1 TTTTTTATTCTATTACAATTATATA
*
833550 TTTTTTATTCTATTA-AATTTTATA
1 TTTTTTATTCTATTACAATTATATA
833574 TTTTTT
1 TTTTTT
833580 TTAAAAGAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTTTATTCTATTACAATTATATA
Found at i:841295 original size:28 final size:28
Alignment explanation
Indices: 841259--841396 Score: 165
Period size: 28 Copynumber: 5.0 Consensus size: 28
841249 AGAGCGATAC
* *
841259 TCTACTTATAGCTAGGGTAGAGCTTTGA
1 TCTATTTATAGCTCGGGTAGAGCTTTGA
* *
841287 -CTTGTTTATAGCTCGGGTAAAGCTTTGA
1 TC-TATTTATAGCTCGGGTAGAGCTTTGA
841315 TCTA-TTATAGCTCGGGTAGA-CATTTGA
1 TCTATTTATAGCTCGGGTAGAGC-TTTGA
841342 TCTATTTATAGCTCGGGTAGAGCTTTGA
1 TCTATTTATAGCTCGGGTAGAGCTTTGA
* * * *
841370 CCTATTTATAGTTCGAGTAAAGCTTTG
1 TCTATTTATAGCTCGGGTAGAGCTTTG
841397 GTGTGCTTAC
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.01
27 25 0.26
28 67 0.71
29 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (28 bp):
TCTATTTATAGCTCGGGTAGAGCTTTGA
Found at i:841324 original size:55 final size:56
Alignment explanation
Indices: 841259--841380 Score: 160
Period size: 55 Copynumber: 2.2 Consensus size: 56
841249 AGAGCGATAC
*
841259 TCTACTTATAGCTAGGGTAGAGC-TTTGA-CTTGTTTATAGCTCGGGTAAAGCTTTGA
1 TCTACTTATAGCTAGGGTAGA-CATTTGATC-TATTTATAGCTCGGGTAAAGCTTTGA
* *
841315 TCTA-TTATAGCTCGGGTAGACATTTGATCTATTTATAGCTCGGGTAGAGCTTTGA
1 TCTACTTATAGCTAGGGTAGACATTTGATCTATTTATAGCTCGGGTAAAGCTTTGA
* *
841370 CCTATTTATAG
1 TCTACTTATAG
841381 TTCGAGTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
54 1 0.02
55 47 0.80
56 11 0.19
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.39
Consensus pattern (56 bp):
TCTACTTATAGCTAGGGTAGACATTTGATCTATTTATAGCTCGGGTAAAGCTTTGA
Found at i:860335 original size:27 final size:26
Alignment explanation
Indices: 860254--860340 Score: 75
Period size: 28 Copynumber: 3.2 Consensus size: 26
860244 GATACTCTGC
* * *
860254 TTATAGCTCGGGTATAGCTTTGACCTGT
1 TTATAGCTC-GGTAGAGCTTTGATCT-A
* *
860282 TTATAGCTCGAGTAGATCATTGATCTA
1 TTATAGCTCG-GTAGAGCTTTGATCTA
*
860309 TTATAGCTCAGGTAGAGCTTTGGTCTA
1 TTATAGCTC-GGTAGAGCTTTGATCTA
860336 CTTAT
1 -TTAT
860341 GACTTGGTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
27 23 0.48
28 25 0.52
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (26 bp):
TTATAGCTCGGTAGAGCTTTGATCTA
Found at i:861433 original size:24 final size:24
Alignment explanation
Indices: 861406--861460 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
861396 TTACATAATC
*
861406 TTTCAGTTAAACTCTGCTTATTTG
1 TTTCAGTTAAACTCTACTTATTTG
* *
861430 TTTCAATTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTACTTATTTG
861454 TTTCAGT
1 TTTCAGT
861461 CGAACTCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.53
Consensus pattern (24 bp):
TTTCAGTTAAACTCTACTTATTTG
Found at i:861466 original size:24 final size:24
Alignment explanation
Indices: 861414--861468 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
861404 TCTTTCAGTT
** *
861414 AAACTCTGCTTATTTGTTTCAATT
1 AAACTCTATTTATTTGTTTCAATC
*
861438 AAACTCTATTTATTTGTTTCAGTC
1 AAACTCTATTTATTTGTTTCAATC
*
861462 GAACTCT
1 AAACTCT
861469 TATTAGTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.47
Consensus pattern (24 bp):
AAACTCTATTTATTTGTTTCAATC
Found at i:867958 original size:2 final size:2
Alignment explanation
Indices: 867953--868002 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
867943 CTTATTGGTA
867953 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
867995 AT AT AT AT
1 AT AT AT AT
868003 GCTTACATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:870858 original size:6 final size:6
Alignment explanation
Indices: 870847--870878 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
870837 TTTACAATAC
870847 AGATAT AGATAT AGATAT AGATAT AGATAT AG
1 AGATAT AGATAT AGATAT AGATAT AGATAT AG
870879 GTAAGGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (6 bp):
AGATAT
Found at i:871359 original size:59 final size:59
Alignment explanation
Indices: 871296--871411 Score: 198
Period size: 59 Copynumber: 2.0 Consensus size: 59
871286 TTAATAGGAT
*
871296 TATTATTAAATATAATTTAATAAAATATAATAAATAATTTAATCATATT-TTAATATAAA
1 TATTATTAAATATAATTTAATAAAA-ATAATAAATAATTTAATAATATTCTTAATATAAA
*
871355 TATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTCTTAATATA
1 TATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAATATTCTTAATATA
871412 TTTTTTTATA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
58 21 0.39
59 33 0.61
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (59 bp):
TATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAATATTCTTAATATAAA
Found at i:871376 original size:10 final size:10
Alignment explanation
Indices: 871304--871411 Score: 53
Period size: 10 Copynumber: 10.6 Consensus size: 10
871294 ATTATTATTA
871304 AATATAATTT
1 AATATAATTT
* *
871314 AATAAAATAT
1 AATATAATTT
871324 AATAAATAATTT
1 AAT--ATAATTT
*
871336 AATCATATTTT
1 AAT-ATAATTT
871347 AATAT-A---
1 AATATAATTT
* *
871353 AATATTATTA
1 AATATAATTT
871363 AATATAATTT
1 AATATAATTT
* * *
871373 AATAAAAATA
1 AATATAATTT
871383 ATATATAATTT
1 A-ATATAATTT
*
871394 AATAATATTCTT
1 AAT-ATAAT-TT
871406 AATATA
1 AATATA
871412 TTTTTTTATA
Statistics
Matches: 73, Mismatches: 16, Indels: 17
0.69 0.15 0.16
Matches are distributed among these distances:
6 5 0.07
7 1 0.01
10 31 0.42
11 23 0.32
12 13 0.18
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (10 bp):
AATATAATTT
Found at i:871396 original size:26 final size:26
Alignment explanation
Indices: 871322--871386 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
871312 TTAATAAAAT
*
871322 ATAATAAATAAT-TT-AATCATATTTTA
1 ATAA-AAATAATATTAAAT-ATAATTTA
* *
871348 ATATAAATATTATTAAATATAATTTA
1 ATAAAAATAATATTAAATATAATTTA
871374 ATAAAAATAATAT
1 ATAAAAATAATAT
871387 ATAATTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 6 0.19
26 23 0.72
27 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
ATAAAAATAATATTAAATATAATTTA
Found at i:871451 original size:28 final size:27
Alignment explanation
Indices: 871412--871466 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 27
871402 TCTTAATATA
871412 TTTTTTTATATTAAATTATATTATAAAT
1 TTTTTTTATATTAAATTATATTA-AAAT
*
871440 TTTTTTTGTATTAAATTATATTAAAAT
1 TTTTTTTATATTAAATTATATTAAAAT
871467 ATTTAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTTTTATATTAAATTATATTAAAAT
Found at i:874068 original size:24 final size:23
Alignment explanation
Indices: 874009--874074 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
873999 AATATATTAA
* * *
874009 AAAGAAATGAAAGGTTAAAAGTT
1 AAAGAGATGAAAGGTGAAAAGTC
874032 AAAGAGATGAAAGGTGAAAAGTC
1 AAAGAGATGAAAGGTGAAAAGTC
*
874055 AAGGAAGATGAAAGGTGAAA
1 AAAG-AGATGAAAGGTGAAA
874075 CGTTGAACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
23 23 0.61
24 15 0.39
ACGTcount: A:0.55, C:0.02, G:0.29, T:0.15
Consensus pattern (23 bp):
AAAGAGATGAAAGGTGAAAAGTC
Found at i:875246 original size:18 final size:18
Alignment explanation
Indices: 875223--875265 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
875213 ATTGAAAGTG
875223 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
875241 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
875259 TAATTAA
1 TAATTAA
875266 AAACATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:875416 original size:22 final size:22
Alignment explanation
Indices: 875391--875456 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
875381 TAAAAAAAAC
875391 GATAATATAAAAAATTAAAATA
1 GATAATATAAAAAATTAAAATA
*
875413 GATAATATTAAAAATTAAAAT-
1 GATAATATAAAAAATTAAAATA
*
875434 -ATAATATGAAACAAATAAAAATA
1 GATAATAT-AAA-AAATTAAAATA
875457 ACTATTTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
20 7 0.18
21 2 0.05
22 29 0.76
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (22 bp):
GATAATATAAAAAATTAAAATA
Found at i:878246 original size:62 final size:62
Alignment explanation
Indices: 878165--878290 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 62
878155 CAAATGTTGT
* *
878165 TAAATGACTCTCGAGCACGTCAAACCACCGATGTATAGGAACTTTAAACTAATTTGTATTTA
1 TAAATCACTCTCGAGCACGTCAAACCACCGATGCATAGGAACTTTAAACTAATTTGTATTTA
* * *
878227 TAAATCACTTTCGAGCACGTCAAACCACCGATGCATAGGGACTTTAAATTAATTTGTATTTA
1 TAAATCACTCTCGAGCACGTCAAACCACCGATGCATAGGAACTTTAAACTAATTTGTATTTA
878289 TA
1 TA
878291 GCGATGGTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (62 bp):
TAAATCACTCTCGAGCACGTCAAACCACCGATGCATAGGAACTTTAAACTAATTTGTATTTA
Found at i:878380 original size:36 final size:37
Alignment explanation
Indices: 878334--878407 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
878324 GAAACTGGAG
* * *
878334 GGAAATGTGGGAA-GGACCCACGAGCCAAAGCATAAT
1 GGAAACGTGGGAATGGACCCACGAACCAAAACATAAT
*
878370 GGAAACGTGGGAATGGCCCCACGAACCAAAACATAAT
1 GGAAACGTGGGAATGGACCCACGAACCAAAACATAAT
878407 G
1 G
878408 CACGTCCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 12 0.36
37 21 0.64
ACGTcount: A:0.39, C:0.22, G:0.28, T:0.11
Consensus pattern (37 bp):
GGAAACGTGGGAATGGACCCACGAACCAAAACATAAT
Found at i:878672 original size:20 final size:20
Alignment explanation
Indices: 878647--878794 Score: 88
Period size: 20 Copynumber: 7.8 Consensus size: 20
878637 TTGTTTTGAT
*
878647 TTTTTTTACTGTTTTGGTTG
1 TTTTTTTATTGTTTTGGTTG
*
878667 TTTTTTGTTGTTGTTTTGGTAT-
1 -TTTTT-TTATTGTTTTGGT-TG
878689 TTTTTTTATTGTTTTGG-TG
1 TTTTTTTATTGTTTTGGTTG
*
878708 TTGTTTTTATTG--TT--AT-
1 TT-TTTTTATTGTTTTGGTTG
* *
878724 TTTTGTTATTGTTTTTGTTG
1 TTTTTTTATTGTTTTGGTTG
878744 --TTTTT-TTGTTTT--TT-
1 TTTTTTTATTGTTTTGGTTG
*
878758 TTTTTACTATTGTTTTGGTTG
1 TTTTT-TTATTGTTTTGGTTG
*
878779 TTGTTTTTGTTGTTTT
1 TT-TTTTTATTGTTTT
878795 AACTTTTTTT
Statistics
Matches: 100, Mismatches: 9, Indels: 36
0.69 0.06 0.25
Matches are distributed among these distances:
15 10 0.10
16 5 0.05
17 11 0.11
18 14 0.14
19 3 0.03
20 22 0.22
21 20 0.20
22 14 0.14
23 1 0.01
ACGTcount: A:0.05, C:0.01, G:0.18, T:0.75
Consensus pattern (20 bp):
TTTTTTTATTGTTTTGGTTG
Found at i:878712 original size:44 final size:41
Alignment explanation
Indices: 878632--878756 Score: 130
Period size: 44 Copynumber: 3.0 Consensus size: 41
878622 AAAAAAATTA
*
878632 TATTGTTGTTTT-G-ATTTTTTTTACTGTTTTGGTTGTTTTT
1 TATTGTTGTTTTGGTATTTTTTTTATTGTTTTGGTTG-TTTT
*
878672 TGTTGTTGTTTTGGTATTTTTTTTATTGTTTTGGTGTTGTTTT
1 TATTGTTGTTTTGGTATTTTTTTTATTGTTTT-G-GTTGTTTT
* * * * *
878715 TATTGTTATTTTTGTTATTGTTTTTGTTGTTTT-TTTGTTTT
1 TATTGTT-GTTTTGGTATTTTTTTTATTGTTTTGGTTGTTTT
878756 T
1 T
878757 TTTTTTACTA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
40 11 0.15
41 9 0.12
42 16 0.22
43 11 0.15
44 25 0.35
ACGTcount: A:0.06, C:0.01, G:0.18, T:0.74
Consensus pattern (41 bp):
TATTGTTGTTTTGGTATTTTTTTTATTGTTTTGGTTGTTTT
Found at i:878720 original size:9 final size:9
Alignment explanation
Indices: 878686--878815 Score: 60
Period size: 9 Copynumber: 14.2 Consensus size: 9
878676 GTTGTTTTGG
*
878686 TATTTTTTT
1 TATTGTTTT
878695 TATTGTTTT
1 TATTGTTTT
*
878704 GGTGTTGTTTT
1 --TATTGTTTT
878715 TATTG---T
1 TATTGTTTT
878721 TATT-TTTGT
1 TATTGTTT-T
878730 TATTGTTTT
1 TATTGTTTT
*
878739 TGTTGTTTT
1 TATTGTTTT
878748 T-TTGTTTT
1 TATTGTTTT
878756 T-TT-TTTT
1 TATTGTTTT
878763 ACTATTGTTTTGGT
1 --TATTG-TTT--T
*
878777 TGTTGTTTT
1 TATTGTTTT
*
878786 TGTTGTTTT
1 TATTGTTTT
*
878795 AACTT-TTTT
1 TA-TTGTTTT
878804 TATGTGTTTT
1 TAT-TGTTTT
878814 TA
1 TA
878816 CTATTGTTTC
Statistics
Matches: 96, Mismatches: 8, Indels: 33
0.70 0.06 0.24
Matches are distributed among these distances:
6 5 0.05
7 4 0.04
8 11 0.11
9 44 0.46
10 13 0.14
11 11 0.11
12 7 0.07
14 1 0.01
ACGTcount: A:0.08, C:0.02, G:0.15, T:0.75
Consensus pattern (9 bp):
TATTGTTTT
Found at i:878733 original size:35 final size:33
Alignment explanation
Indices: 878664--878794 Score: 140
Period size: 35 Copynumber: 3.8 Consensus size: 33
878654 ACTGTTTTGG
* * *
878664 TTGTTTTTTGTTGTTGTTTTGGTATTTTTTTTA
1 TTGTTTTGTGTTGTTTTTTTGTTATTTTTTTTA
*
878697 TTGTTTTGGTGTTGTTTTTATTGTTATTTTTGTTA
1 TTGTTTT-GTGTTGTTTTT-TTGTTATTTTTTTTA
*
878732 TTGTTTT-TGTTGTTTTTTTGTTTTTTTTTTTACTA
1 TTGTTTTGTGTTGTTTTTTTG-TTATTTTTTT--TA
*
878767 TTGTTTTG-GTTGTTGTTTTTGTTGTTTT
1 TTGTTTTGTGTTGTT-TTTTTGTTATTTT
878795 AACTTTTTTT
Statistics
Matches: 84, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
32 3 0.04
33 25 0.30
34 9 0.11
35 41 0.49
36 6 0.07
ACGTcount: A:0.05, C:0.01, G:0.18, T:0.76
Consensus pattern (33 bp):
TTGTTTTGTGTTGTTTTTTTGTTATTTTTTTTA
Found at i:878734 original size:15 final size:15
Alignment explanation
Indices: 878634--878745 Score: 54
Period size: 15 Copynumber: 7.5 Consensus size: 15
878624 AAAAATTATA
*
878634 TTGTTGTT-TTGATT
1 TTGTTGTTATTGTTT
*
878648 TT-TT-TTACTGTTT
1 TTGTTGTTATTGTTT
* *
878661 TGGTTGTTTTTTGTTGT
1 TTGTTG-TTATTGTT-T
* * *
878678 TGTTTTGGTATTTTTT
1 T-TGTTGTTATTGTTT
* * *
878694 TTATTGTT-TTGGTG
1 TTGTTGTTATTGTTT
*
878708 TTGTTTTTATTGTTAT
1 TTGTTGTTATTGTT-T
878724 TT-TTGTTATTGTTT
1 TTGTTGTTATTGTTT
878738 TTGTTGTT
1 TTGTTGTT
878746 TTTTTGTTTT
Statistics
Matches: 69, Mismatches: 20, Indels: 17
0.65 0.19 0.16
Matches are distributed among these distances:
12 2 0.03
13 7 0.10
14 16 0.23
15 24 0.35
16 10 0.14
17 7 0.10
18 3 0.04
ACGTcount: A:0.06, C:0.01, G:0.20, T:0.73
Consensus pattern (15 bp):
TTGTTGTTATTGTTT
Found at i:878760 original size:11 final size:11
Alignment explanation
Indices: 878723--878761 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
878713 TTTATTGTTA
*
878723 TTTTTGTTATTG
1 TTTTTGTT-TTT
*
878735 TTTTTGTTGTT
1 TTTTTGTTTTT
878746 TTTTTGTTTTT
1 TTTTTGTTTTT
878757 TTTTT
1 TTTTT
878762 TACTATTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 16 0.67
12 8 0.33
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.85
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:878790 original size:12 final size:12
Alignment explanation
Indices: 878663--878792 Score: 94
Period size: 12 Copynumber: 11.2 Consensus size: 12
878653 TACTGTTTTG
878663 GTTGTTTTTTGTT
1 GTTG-TTTTTGTT
878676 GTTG-TTTTG--
1 GTTGTTTTTGTT
878685 GTAT-TTTTT-TT
1 GT-TGTTTTTGTT
* *
878696 ATTG-TTTTGGT
1 GTTGTTTTTGTT
*
878707 GTTGTTTTTATT
1 GTTGTTTTTGTT
*
878719 GTTATTTTTGTT
1 GTTGTTTTTGTT
*
878731 ATTGTTTTTGTT
1 GTTGTTTTTGTT
878743 GTT-TTTTTGTT
1 GTTGTTTTTGTT
* * **
878754 TTTTTTTTTACT
1 GTTGTTTTTGTT
* *
878766 ATTGTTTTGGTT
1 GTTGTTTTTGTT
878778 GTTGTTTTTGTT
1 GTTGTTTTTGTT
878790 GTT
1 GTT
878793 TTAACTTTTT
Statistics
Matches: 89, Mismatches: 20, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
9 2 0.02
10 10 0.11
11 20 0.22
12 53 0.60
13 4 0.04
ACGTcount: A:0.05, C:0.01, G:0.19, T:0.75
Consensus pattern (12 bp):
GTTGTTTTTGTT
Found at i:878958 original size:10 final size:10
Alignment explanation
Indices: 878945--878969 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
878935 AATTTGTTTA
878945 TTTTTTAATG
1 TTTTTTAATG
878955 TTTTTTAATG
1 TTTTTTAATG
878965 TTTTT
1 TTTTT
878970 GGGTGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTTAATG
Done.