Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5800122
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 26
Found at i:4732101 original size:16 final size:16
Alignment explanation
Indices: 4732080--4732115 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4732070 GAGTATTTAC
4732080 GTTAGTAGAGTAGGTT
1 GTTAGTAGAGTAGGTT
4732096 GTTAGTAGAGTAGGTT
1 GTTAGTAGAGTAGGTT
4732112 GTTA
1 GTTA
4732116 ATAAATTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
GTTAGTAGAGTAGGTT
Found at i:4740523 original size:29 final size:29
Alignment explanation
Indices: 4740480--4740562 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
4740470 CTCACCTAAC
4740480 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
4740510 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
4740539 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
4740563 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:4743950 original size:15 final size:15
Alignment explanation
Indices: 4743930--4743959 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4743920 CTTTCTCATA
4743930 GTTATTGTTGGAATT
1 GTTATTGTTGGAATT
*
4743945 GTTATTGTTGTAATT
1 GTTATTGTTGGAATT
4743960 CCAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
GTTATTGTTGGAATT
Found at i:4745292 original size:29 final size:29
Alignment explanation
Indices: 4745249--4745331 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
4745239 CTCACCTAAC
4745249 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
4745279 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
* *
4745308 TAAATGATGTAAGTAATGATATCA
1 TAAATGATGTAAGCAATGACATCA
4745332 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:4745512 original size:27 final size:26
Alignment explanation
Indices: 4745455--4745504 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
4745445 AAAAAATGAC
* *
4745455 AGATATCGTCGCTAATGTGTTATTTAT
1 AGATATCGTCGCTAATGAG-TATTTAA
4745482 AGATATCGTCGCTAATGAG-ATTT
1 AGATATCGTCGCTAATGAGTATTT
4745505 CAAAAGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
27 18 0.82
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (26 bp):
AGATATCGTCGCTAATGAGTATTTAA
Found at i:4746803 original size:46 final size:49
Alignment explanation
Indices: 4746705--4746805 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 49
4746695 TTCGTCTTAC
* *
4746705 ATTTTTAGAGTTTTTTTATTATTAATTTAGGTTACTTATAAGTCTTAGT
1 ATTTTTAGAGTTTTTTTATTATTAATTTAGGGTACTTATAAGTCTTAAT
* *
4746754 ATTTTTAGAG-TTTTTT-TTATTGATTTAGGGT-GTTATAAGTCTTAAT
1 ATTTTTAGAGTTTTTTTATTATTAATTTAGGGTACTTATAAGTCTTAAT
4746800 ATTTTT
1 ATTTTT
4746806 CTGAAAACTC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
46 19 0.40
47 13 0.27
48 6 0.12
49 10 0.21
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (49 bp):
ATTTTTAGAGTTTTTTTATTATTAATTTAGGGTACTTATAAGTCTTAAT
Found at i:4749813 original size:179 final size:179
Alignment explanation
Indices: 4749513--4749870 Score: 698
Period size: 179 Copynumber: 2.0 Consensus size: 179
4749503 ACGATCATAT
4749513 AGGCTTCCTGTATCTTGGAACCACCCTGATAGGGTAGAAAATGTCATTATACCATCCATTGTTTC
1 AGGCTTCCTGTATCTTGGAACCACCCTGATAGGGTAGAAAATGTCATTATACCATCCATTGTTTC
*
4749578 TCATTTATCGTGCTACTAAAATGAAAAGTATCCCATACCATGGCCAGATTCAACCATGCATTTGC
66 TCATTTATCGTGCTACTAAAATGAAAAGTATCCCATACCATGGCCAGATTCAACCATGCAATTGC
4749643 AAGTTGTGTCAGTGTATGATCCTCATCAATCTGCTGCATGACCATCAGA
131 AAGTTGTGTCAGTGTATGATCCTCATCAATCTGCTGCATGACCATCAGA
*
4749692 AGGCTTCTTGTATCTTGGAACCACCCTGATAGGGTAGAAAATGTCATTATACCATCCATTGTTTC
1 AGGCTTCCTGTATCTTGGAACCACCCTGATAGGGTAGAAAATGTCATTATACCATCCATTGTTTC
4749757 TCATTTATCGTGCTACTAAAATGAAAAGTATCCCATACCATGGCCAGATTCAACCATGCAATTGC
66 TCATTTATCGTGCTACTAAAATGAAAAGTATCCCATACCATGGCCAGATTCAACCATGCAATTGC
4749822 AAGTTGTGTCAGTGTATGATCCTCATCAATCTGCTGCATGACCATCAGA
131 AAGTTGTGTCAGTGTATGATCCTCATCAATCTGCTGCATGACCATCAGA
4749871 TGTCTCTCTG
Statistics
Matches: 177, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
179 177 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (179 bp):
AGGCTTCCTGTATCTTGGAACCACCCTGATAGGGTAGAAAATGTCATTATACCATCCATTGTTTC
TCATTTATCGTGCTACTAAAATGAAAAGTATCCCATACCATGGCCAGATTCAACCATGCAATTGC
AAGTTGTGTCAGTGTATGATCCTCATCAATCTGCTGCATGACCATCAGA
Found at i:4755611 original size:26 final size:28
Alignment explanation
Indices: 4755582--4755638 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
4755572 AATATTTAAA
4755582 TTTT-ATTTA-AAAAATAT-TTTAATATT
1 TTTTCATTTATAAAAATATGTTTAA-ATT
* *
4755608 TTTTCTTTTATAAATATATGTTTAAATT
1 TTTTCATTTATAAAAATATGTTTAAATT
4755636 TTT
1 TTT
4755639 ATCCGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 13 0.50
29 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTTCATTTATAAAAATATGTTTAAATT
Found at i:4758027 original size:47 final size:47
Alignment explanation
Indices: 4757970--4758062 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
4757960 TTCTTTTATT
*
4757970 CTAAAAAAACTTGTTAGTTCCCAATAGAAACCTGTAAGCTCTATATG
1 CTAAAAAAACTTGTAAGTTCCCAATAGAAACCTGTAAGCTCTATATG
* ** * *
4758017 CTAAAGAAACTTGTAAGTTTTCAATAGAAACTTGTGAGCTCTATAT
1 CTAAAAAAACTTGTAAGTTCCCAATAGAAACCTGTAAGCTCTATAT
4758063 CACCAGACTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (47 bp):
CTAAAAAAACTTGTAAGTTCCCAATAGAAACCTGTAAGCTCTATATG
Found at i:4766377 original size:182 final size:182
Alignment explanation
Indices: 4766070--4766439 Score: 731
Period size: 182 Copynumber: 2.0 Consensus size: 182
4766060 TGGAAGTCTT
*
4766070 CATTCAACTTAGCAAACCAGCTCAGCTTTTCTTTATCCTTGCACGAAGCACGATGAAGAGCTTTG
1 CATTCAACTTAGCAAACCAGCTCAGCTTTTCTTTATCCTTGCACGAAGCAAGATGAAGAGCTTTG
4766135 CACCATGACTCCTTTTCCCAAGAAGTCTCCAGATAAAGATAAATGGTTTTACTTCCATTGTAGAT
66 CACCATGACTCCTTTTCCCAAGAAGTCTCCAGATAAAGATAAATGGTTTTACTTCCATTGTAGAT
4766200 GGGTGAAGTTTTGCTTTCCACTTTTATTGGAAATCTCTTGGCCCTTTCAGAC
131 GGGTGAAGTTTTGCTTTCCACTTTTATTGGAAATCTCTTGGCCCTTTCAGAC
4766252 CATTCAACTTAGCAAACCAGCTCAGCTTTTCTTTATCCTTGCACGAAGCAAGATGAAGAGCTTTG
1 CATTCAACTTAGCAAACCAGCTCAGCTTTTCTTTATCCTTGCACGAAGCAAGATGAAGAGCTTTG
4766317 CACCATGACTCCTTTTCCCAAGAAGTCTCCAGATAAAGATAAATGGTTTTACTTCCATTGTAGAT
66 CACCATGACTCCTTTTCCCAAGAAGTCTCCAGATAAAGATAAATGGTTTTACTTCCATTGTAGAT
4766382 GGGTGAAGTTTTGCTTTCCACTTTTATTGGAAATCTCTTGGCCCTTTCAGAC
131 GGGTGAAGTTTTGCTTTCCACTTTTATTGGAAATCTCTTGGCCCTTTCAGAC
4766434 CATTCA
1 CATTCA
4766440 TACATATTGC
Statistics
Matches: 187, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 187 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.34
Consensus pattern (182 bp):
CATTCAACTTAGCAAACCAGCTCAGCTTTTCTTTATCCTTGCACGAAGCAAGATGAAGAGCTTTG
CACCATGACTCCTTTTCCCAAGAAGTCTCCAGATAAAGATAAATGGTTTTACTTCCATTGTAGAT
GGGTGAAGTTTTGCTTTCCACTTTTATTGGAAATCTCTTGGCCCTTTCAGAC
Found at i:4771336 original size:44 final size:47
Alignment explanation
Indices: 4771270--4771367 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 47
4771260 TTATTTTCGT
4771270 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGG-TTTA
1 TTTTT-GAATAAATGCATGCGAACTAGATATCATGCGGTTAGGATTTA
* *
4771317 TTTTTGAAT-AA-GCATGCGAATTAGATATCATGCGGTTAGGATTTC
1 TTTTTGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGATTTA
4771362 TTTTTG
1 TTTTTG
4771368 TGGATAACAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
44 28 0.58
45 11 0.23
46 4 0.08
47 5 0.10
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (47 bp):
TTTTTGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGATTTA
Found at i:4783693 original size:7 final size:7
Alignment explanation
Indices: 4783674--4783797 Score: 56
Period size: 7 Copynumber: 16.4 Consensus size: 7
4783664 GAAAAAAATG
4783674 AGAAAATA
1 AGAAAA-A
4783682 AGAAAAA
1 AGAAAAA
4783689 AGAAAAA
1 AGAAAAA
4783696 TGATGGAAAAA
1 --A--GAAAAA
*
4783707 A-CAAAA
1 AGAAAAA
4783713 AGAAAGAA
1 AGAAA-AA
*
4783721 A-AAATGA
1 AGAAA-AA
*
4783728 TGGAAAAA
1 AG-AAAAA
*
4783736 ACGAGAAA
1 A-GAAAAA
*
4783744 A-AAAGA
1 AGAAAAA
4783750 AGAAAAA
1 AGAAAAA
4783757 ATGAAAAA
1 A-GAAAAA
*
4783765 TGAAAAA
1 AGAAAAA
4783772 AGAGAAAA
1 AGA-AAAA
4783780 GAGAAAAA
1 -AGAAAAA
*
4783788 TGAAAAA
1 AGAAAAA
4783795 AGA
1 AGA
4783798 GAAATAAAAG
Statistics
Matches: 88, Mismatches: 15, Indels: 27
0.68 0.12 0.21
Matches are distributed among these distances:
6 9 0.10
7 35 0.40
8 29 0.33
9 9 0.10
11 6 0.07
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (7 bp):
AGAAAAA
Found at i:4783732 original size:29 final size:30
Alignment explanation
Indices: 4783684--4783755 Score: 105
Period size: 29 Copynumber: 2.4 Consensus size: 30
4783674 AGAAAATAAG
4783684 AAAAAAG-AAAAATGATGGAAAAAAC-A-A
1 AAAAAAGAAAAAATGATGGAAAAAACGAGA
4783711 AAAGAAAGAAAAAATGATGGAAAAAACGAGA
1 AAA-AAAGAAAAAATGATGGAAAAAACGAGA
4783742 AAAAAAGAAGAAAA
1 AAAAAAGAA-AAAA
4783756 AATGAAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
27 3 0.08
28 4 0.10
29 18 0.45
30 7 0.17
31 8 0.20
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.06
Consensus pattern (30 bp):
AAAAAAGAAAAAATGATGGAAAAAACGAGA
Found at i:4783770 original size:23 final size:23
Alignment explanation
Indices: 4783742--4783801 Score: 93
Period size: 23 Copynumber: 2.5 Consensus size: 23
4783732 AAAAACGAGA
*
4783742 AAAAAAGAAGAAAAAATGAAAAATG
1 AAAAAAG-AGAAAAGA-GAAAAATG
4783767 AAAAAAGAGAAAAGAGAAAAATG
1 AAAAAAGAGAAAAGAGAAAAATG
4783790 AAAAAAGAGAAA
1 AAAAAAGAGAAA
4783802 TAAAAGGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 20 0.59
24 7 0.21
25 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (23 bp):
AAAAAAGAGAAAAGAGAAAAATG
Found at i:4784998 original size:51 final size:51
Alignment explanation
Indices: 4784936--4785343 Score: 654
Period size: 51 Copynumber: 7.9 Consensus size: 51
4784926 TGAAGCAAAT
*
4784936 AAGTTCATTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
4784987 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
4785038 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
4785089 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
*
4785140 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGTATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
* *
4785191 AAGTTCGTTGAAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
* * *
4785242 TAGTTCGTTGAAGATTGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
** ** * * *
4785293 CTGTTTATTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGC
1 AAGTTCGTTGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGGGAGC
4785344 AGACCCGTTT
Statistics
Matches: 336, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
51 307 0.91
54 2 0.01
55 27 0.08
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (51 bp):
AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
Found at i:4785068 original size:102 final size:102
Alignment explanation
Indices: 4784936--4785454 Score: 655
Period size: 102 Copynumber: 5.0 Consensus size: 102
4784926 TGAAGCAAAT
*
4784936 AAGTTCATTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA
*
4785001 TTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
66 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
4785038 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA
*
4785103 TTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
66 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
*
4785140 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGTATAGGGAGCGGACAAGTTCGTTGAAGA
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA
*
4785205 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
66 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
* * * ** **
4785242 TAGTTCGTTGAAGATTGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACCTGTTTATTGAAGA
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA
* * *
4785307 TTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGAC
66 ---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
** ** * * * * * *
4785348 CCGTTTTATTAAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACACGTT-TTA
1 AAG-TTCGTTGAAGATTG----AGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGT-
*
4785412 TGAAGATTGTTCGAGTCTTATACT-TCCTGAAGGAATAGGGAGC
60 TGAAGA---TT-GAGTCCTATACTCT-CTGAAGGAATAGGGAGC
4785455 AGGCTCGTCA
Statistics
Matches: 373, Mismatches: 33, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
102 257 0.69
105 1 0.00
106 33 0.09
107 11 0.03
110 2 0.01
111 69 0.18
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (102 bp):
AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA
TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
Found at i:4785380 original size:56 final size:56
Alignment explanation
Indices: 4785205--4785456 Score: 252
Period size: 55 Copynumber: 4.6 Consensus size: 56
4785195 TCGTTGAAGA
* * * ** **
4785205 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACTAG-TTCGTTGAAGA---T
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATTGAAGATTGT
* * * * * * *
4785257 T-GAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACCTG-TTTATTGAAGATTTT
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATTGAAGATTGT
*
4785311 TCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATTAAAGATTGT
1 TCGAGTCT-TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATTGAAGATTGT
* * *
4785367 TCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACACGTTTTA-TGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATTGAAGATTGT
*
4785422 TCGAGTCTTATACT-TCCTGAAGGAATAGGGAGCAG
1 TCGAGTCTTATACTCT-CTGAAGGAATAGAGAGCAG
4785457 GCTCGTCATT
Statistics
Matches: 171, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
51 43 0.25
52 1 0.01
54 3 0.02
55 70 0.41
56 53 0.31
57 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (56 bp):
TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATTGAAGATTGT
Found at i:4785471 original size:55 final size:54
Alignment explanation
Indices: 4784952--4785474 Score: 232
Period size: 51 Copynumber: 9.9 Consensus size: 54
4784942 ATTGAAGATT
* * ** *
4784952 GAGTCCTATACTCTCTGAATGAATAGGGAGC-GGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGG-CTCGTT-TTTGAAGATTGTTC
* * ** *
4785003 GAGTCCTATACTCTCTGAATGAATAGGGAGC-GGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGG-CTCGTT-TTTGAAGATTGTTC
* * ** *
4785054 GAGTCCTATACTCTCTGAATGAATAGGGAGC-GGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGG-CTCGTT-TTTGAAGATTGTTC
* * ** *
4785105 GAGTCCTATACTCTCTGAATGAATAGGGAGC-GGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGG-CTCGTT-TTTGAAGATTGTTC
* * * ** *
4785156 GAGTCCTATACTCTCTGAATGTATAGGGAGC-GGACAAGTTCGTTGAAGA----TC
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGG-CTCGTT-TTTGAAGATTGTTC
* * *
4785207 GAGTCCTATACTCTCTGAAGGAATAGGGAGC-GGACTAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGG-CTCGTT-TTTGAAGATTGTTC
* * * *
4785258 GAGTCCTATACTCCCTGAAAGAATAGGGAGC-GGAC-CTGTTTATTGAAGATTTTTC
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGG-CTC-GTTT-TTGAAGATTGTTC
* * * *
4785313 GAGT-TCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATTAAAGATTGTTC
1 GAGTCT-TATACTCTCTGAAGGAATAGGGAGCAGGCTCG-TTT-TTGAAGATTGTTC
* * * * *
4785369 AAGTCTTATACTCTCTGAATGAATAGAGAGCAGACACGTTTTATGAAGATTGTTC
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGGCTCGTTTT-TGAAGATTGTTC
*
4785424 GAGTCTTATACT-TCCTGAAGGAATAGGGAGCAGGCTCGTCATTTGAAGATT
1 GAGTCTTATACTCT-CTGAAGGAATAGGGAGCAGGCTCGT-TTTTGAAGATT
4785475 TTTCAAGTAT
Statistics
Matches: 431, Mismatches: 25, Indels: 28
0.89 0.05 0.06
Matches are distributed among these distances:
50 1 0.00
51 290 0.67
52 1 0.00
54 4 0.01
55 82 0.19
56 52 0.12
57 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (54 bp):
GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGGCTCGTTTTTGAAGATTGTTC
Found at i:4791958 original size:20 final size:20
Alignment explanation
Indices: 4791898--4791998 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
4791888 AAATGACCAA
* *
4791898 CAAATTCGCAACGCGAATTC
1 CAAATTCGCAACACGAATTT
4791918 CAAATTCGCAACACTGAATTT
1 CAAATTCGCAACAC-GAATTT
*
4791939 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACACGAATTT
*** * * *
4791959 -TGTTGTAGCAACTCGATTTT
1 CAAAT-TCGCAACACGAATTT
4791979 CAAATTCGCAACACGAATTT
1 CAAATTCGCAACACGAATTT
4791999 TAATTTTGCA
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.68
21 19 0.30
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (20 bp):
CAAATTCGCAACACGAATTT
Found at i:4792009 original size:20 final size:19
Alignment explanation
Indices: 4791966--4792030 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
4791956 TTTTGTTGTA
* *
4791966 GCAACTCGATTTTCAAATTC
1 GCAACACGATTTT-AATTTC
*
4791986 GCAACACGAATTTTAATTTT
1 GCAACACG-ATTTTAATTTC
*
4792006 GCAACA-GGTTTTAATTTC
1 GCAACACGATTTTAATTTC
4792024 GCAACAC
1 GCAACAC
4792031 AAATGTTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 15 0.39
19 1 0.03
20 17 0.45
21 5 0.13
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (19 bp):
GCAACACGATTTTAATTTC
Found at i:4792010 original size:40 final size:41
Alignment explanation
Indices: 4791898--4792011 Score: 124
Period size: 40 Copynumber: 2.8 Consensus size: 41
4791888 AAATGACCAA
** * *
4791898 CAAATTCGCAACGCGAATTCCAAATTCGCAACACTGAATTT
1 CAAATTCGCAACGCGAATTTTAATTTAGCAACACTGAATTT
* * *
4791939 CAAATTCGCAACGCGAATTTT-GTTGTAGCAACTC-GATTTT
1 CAAATTCGCAACGCGAATTTTAATT-TAGCAACACTGAATTT
* *
4791979 CAAATTCGCAACACGAATTTTAATTTTGCAACA
1 CAAATTCGCAACGCGAATTTTAATTTAGCAACA
4792012 GGTTTTAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
40 32 0.53
41 28 0.47
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (41 bp):
CAAATTCGCAACGCGAATTTTAATTTAGCAACACTGAATTT
Found at i:4792188 original size:16 final size:16
Alignment explanation
Indices: 4792167--4792207 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
4792157 TCCCCATCTC
*
4792167 TAATTTTTTTTTTACA
1 TAATTTTTTTTCTACA
* *
4792183 TAATTTTATTTCTATA
1 TAATTTTTTTTCTACA
4792199 TAATTTTTT
1 TAATTTTTT
4792208 CAATGATTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TAATTTTTTTTCTACA
Found at i:4795520 original size:29 final size:29
Alignment explanation
Indices: 4795487--4795548 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
4795477 GAAACGCGAA
*
4795487 ATCGCAACGCGAAGTTGACTTTCACAACC
1 ATCGCAACACGAAGTTGACTTTCACAACC
* *
4795516 ATCGCAACACGAATTTGACTTTCGCAACC
1 ATCGCAACACGAAGTTGACTTTCACAACC
4795545 ATCG
1 ATCG
4795549 TGTTGCGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (29 bp):
ATCGCAACACGAAGTTGACTTTCACAACC
Found at i:4795686 original size:64 final size:64
Alignment explanation
Indices: 4795617--4795767 Score: 232
Period size: 64 Copynumber: 2.4 Consensus size: 64
4795607 AATTTAAAAC
4795617 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
*** * **
4795681 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTTATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
*
4795745 AACAAATCAAC-TCTACAAATCAA
1 AACAAATCAACTTTTACAAATCAA
4795768 CTTTTACAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
63 11 0.14
64 69 0.86
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.28
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
Found at i:4797132 original size:21 final size:21
Alignment explanation
Indices: 4797108--4797215 Score: 103
Period size: 21 Copynumber: 5.1 Consensus size: 21
4797098 GAACGGTGGG
* *
4797108 AGGGACCTTTTGAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
* *
4797129 AGGGGCCTCTTGAACGGTCG-G
1 AGGGGCCTCTTGAACGAT-GAC
* *
4797150 AGGGGCCTCTTGAAGGATGAT
1 AGGGGCCTCTTGAACGATGAC
*
4797171 AGGGGCCTCTTGAACGAT-AGT
1 AGGGGCCTCTTGAACGATGA-C
* *
4797192 AGAGGCCTCTTGAATGATGAC
1 AGGGGCCTCTTGAACGATGAC
4797213 AGG
1 AGG
4797216 TACTTCGAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
20 2 0.03
21 67 0.94
22 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAC
Found at i:4797163 original size:42 final size:42
Alignment explanation
Indices: 4797093--4797215 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
4797083 GTGAATCGGG
* * * *
4797093 CTCTCGAACGGTGGGAGGGACCTTTTGAACGATGACAGGGGC
1 CTCTTGAACGGTAGGAGGGGCCTCTTGAACGATGACAGGGGC
* * *
4797135 CTCTTGAACGGTCGGAGGGGCCTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGGTAGGAGGGGCCTCTTGAACGATGACAGGGGC
* * * *
4797177 CTCTTGAACGATAGTAGAGGCCTCTTGAATGATGACAGG
1 CTCTTGAACGGTAGGAGGGGCCTCTTGAACGATGACAGG
4797216 TACTTCGAGC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTAGGAGGGGCCTCTTGAACGATGACAGGGGC
Found at i:4799577 original size:22 final size:22
Alignment explanation
Indices: 4799543--4799596 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
4799533 TCTGAGAGAT
4799543 GGAGAT-A-GACGGATTTCGCC
1 GGAGATGAGGACGGATTTCGCC
* *
4799563 GGAGATGGGGACGGATTTCGTC
1 GGAGATGAGGACGGATTTCGCC
4799585 GGAGATGAGGAC
1 GGAGATGAGGAC
4799597 AGATGTTGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 6 0.21
22 23 0.79
ACGTcount: A:0.24, C:0.15, G:0.43, T:0.19
Consensus pattern (22 bp):
GGAGATGAGGACGGATTTCGCC
Found at i:4799733 original size:19 final size:20
Alignment explanation
Indices: 4799711--4799748 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4799701 AATATTGTGT
4799711 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
4799730 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
4799749 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:4804041 original size:23 final size:23
Alignment explanation
Indices: 4803990--4804041 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
4803980 CAAATAAAGA
* *
4803990 ACTAAAATAAACTTAAATATACC
1 ACTAAAATAAAATTAAACATACC
4804013 ACTAAAATAAAATCTAAACAT-CC
1 ACTAAAATAAAAT-TAAACATACC
*
4804036 ATTAAA
1 ACTAAA
4804042 CCAACCACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (23 bp):
ACTAAAATAAAATTAAACATACC
Found at i:4807741 original size:17 final size:17
Alignment explanation
Indices: 4807719--4807753 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4807709 AAATAGTAAA
4807719 ATATCAGATCAAACTCC
1 ATATCAGATCAAACTCC
4807736 ATATCAGATCAAACTCC
1 ATATCAGATCAAACTCC
4807753 A
1 A
4807754 CTGTCATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.06, T:0.23
Consensus pattern (17 bp):
ATATCAGATCAAACTCC
Found at i:4821306 original size:25 final size:26
Alignment explanation
Indices: 4821254--4821308 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 26
4821244 TTTAAGTATT
*
4821254 TTTTATATTCTTTTATTAATTTTTTAA
1 TTTTATATTCTTTTA-TAATTTTATAA
4821281 TTTTATA-TCTTTTGA-AATTTTATAA
1 TTTTATATTCTTTT-ATAATTTTATAA
4821306 TTT
1 TTT
4821309 CACACTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 12 0.46
26 6 0.23
27 8 0.31
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTATATTCTTTTATAATTTTATAA
Found at i:4822666 original size:15 final size:15
Alignment explanation
Indices: 4822646--4822678 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
4822636 GTAATGGAAG
4822646 AAAATAT-TTTATACA
1 AAAATATATTTAT-CA
4822661 AAAATATATTTATCA
1 AAAATATATTTATCA
4822676 AAA
1 AAA
4822679 TTTTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAATATATTTATCA
Found at i:4824183 original size:18 final size:20
Alignment explanation
Indices: 4824148--4824186 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
4824138 GTGTGAAAAT
*
4824148 TAAATATATAGTATAATAAA
1 TAAATATATAGTAAAATAAA
4824168 TAAATATA-A-TAAAATAAA
1 TAAATATATAGTAAAATAAA
4824186 T
1 T
4824187 CGAATAGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 1 0.06
20 8 0.44
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAATATATAGTAAAATAAA
Found at i:4825648 original size:41 final size:41
Alignment explanation
Indices: 4825591--4825672 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
4825581 TTGCTGGGAC
*
4825591 AGTAATTAGAGAAGTCACGTGGTACTGTTCTATGGCTTTGA
1 AGTAATTAGAGAAGTCACGTGGTACTGTTCTATGACTTTGA
4825632 AGTAATTAGAGAAGTCACGTGGTACTGTTCTATGACTTTGA
1 AGTAATTAGAGAAGTCACGTGGTACTGTTCTATGACTTTGA
4825673 GGGCTAATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (41 bp):
AGTAATTAGAGAAGTCACGTGGTACTGTTCTATGACTTTGA
Found at i:4826171 original size:13 final size:13
Alignment explanation
Indices: 4826155--4826180 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4826145 CACTGTAACC
4826155 AACAACTGCAACT
1 AACAACTGCAACT
4826168 AACAACTGCAACT
1 AACAACTGCAACT
4826181 TTTGCGAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.31, G:0.08, T:0.15
Consensus pattern (13 bp):
AACAACTGCAACT
Found at i:4829880 original size:17 final size:17
Alignment explanation
Indices: 4829855--4829898 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
4829845 TACTGCTATA
* *
4829855 TGTTTTACTATTTGTTT
1 TGTTTTACTATCTGTTC
*
4829872 TGTTCTACTATCTGTTC
1 TGTTTTACTATCTGTTC
4829889 TGTTTTACTA
1 TGTTTTACTA
4829899 GCCCACTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.11, T:0.61
Consensus pattern (17 bp):
TGTTTTACTATCTGTTC
Found at i:4830691 original size:54 final size:54
Alignment explanation
Indices: 4830615--4830722 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
4830605 TAAAACAAGT
* **
4830615 ACTAAAAACTTCATTTTTCAATCCCAAAGACATTAGTGAGGTCCCCAAACATGC
1 ACTAAAAACTCCATTTCCCAATCCCAAAGACATTAGTGAGGTCCCCAAACATGC
*
4830669 ACTAAAAACTCCATTTCCCAATCCGAAAGACATTAGTGAGGTCCCCAAACATGC
1 ACTAAAAACTCCATTTCCCAATCCCAAAGACATTAGTGAGGTCCCCAAACATGC
4830723 TTAAAGTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (54 bp):
ACTAAAAACTCCATTTCCCAATCCCAAAGACATTAGTGAGGTCCCCAAACATGC
Found at i:4835849 original size:2 final size:2
Alignment explanation
Indices: 4835842--4835870 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4835832 TAATAAAAAT
4835842 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4835871 GGATTAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4836641 original size:22 final size:23
Alignment explanation
Indices: 4836606--4836648 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
4836596 TAAATAGCAC
4836606 ATGACATTTGTTTAATATAAAAAA
1 ATGACATTTGTTTAAT-TAAAAAA
4836630 ATGA-ATTT-TTTAATTAAAA
1 ATGACATTTGTTTAATTAAAA
4836649 TAATAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 4 0.21
24 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (23 bp):
ATGACATTTGTTTAATTAAAAAA
Found at i:4839461 original size:2 final size:2
Alignment explanation
Indices: 4839454--4839481 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4839444 CTATAATTTA
4839454 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
4839482 GAAATAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4841826 original size:2 final size:2
Alignment explanation
Indices: 4841821--4841851 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4841811 ATTTTTTATG
4841821 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4841852 ATTAAGAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4865996 original size:41 final size:40
Alignment explanation
Indices: 4865949--4866052 Score: 131
Period size: 41 Copynumber: 2.5 Consensus size: 40
4865939 TCCAATTTCA
4865949 CAACGTGAATAGTAAAATCGCAA-TGTGAATAGTAAAAATCG
1 CAACGTGAATAGTAAAATCGCAACT-TGAATAGT-AAAATCG
* *
4865990 TAACGTGAATAGTAAAATCACAACTTGAATAGTAAAATCG
1 CAACGTGAATAGTAAAATCGCAACTTGAATAGTAAAATCG
*
4866030 CAACGCGAATTTAG-AAAATCGCA
1 CAACGTGAA--TAGTAAAATCGCA
4866053 GAATCGCGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 14 0.25
41 37 0.67
42 4 0.07
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.22
Consensus pattern (40 bp):
CAACGTGAATAGTAAAATCGCAACTTGAATAGTAAAATCG
Found at i:4866033 original size:20 final size:20
Alignment explanation
Indices: 4865949--4866052 Score: 129
Period size: 20 Copynumber: 5.1 Consensus size: 20
4865939 TCCAATTTCA
4865949 CAACGTGAATAGTAAAATCG
1 CAACGTGAATAGTAAAATCG
*
4865969 CAATGTGAATAGTAAAAATCG
1 CAACGTGAATAGT-AAAATCG
* *
4865990 TAACGTGAATAGTAAAATCA
1 CAACGTGAATAGTAAAATCG
*
4866010 CAACTTGAATAGTAAAATCG
1 CAACGTGAATAGTAAAATCG
*
4866030 CAACGCGAATTTAG-AAAATCG
1 CAACGTGAA--TAGTAAAATCG
4866051 CA
1 CA
4866053 GAATCGCGTT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
20 42 0.58
21 27 0.38
22 3 0.04
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.22
Consensus pattern (20 bp):
CAACGTGAATAGTAAAATCG
Found at i:4866427 original size:20 final size:20
Alignment explanation
Indices: 4866402--4866510 Score: 148
Period size: 20 Copynumber: 5.4 Consensus size: 20
4866392 CATATAGATT
4866402 CGTTGCGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
4866422 CGTTGCGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
* *
4866442 CGTTACGATTTTTACTATTTA
1 CGTTGCGA-TTTTACTATTCA
4866463 CGTTGCGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
* * *
4866483 CGTTGCAAATTTGACTA-TCG
1 CGTTGC-GATTTTACTATTCA
4866503 CGTTGCGA
1 CGTTGCGA
4866511 ATTTGACTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
19 1 0.01
20 52 0.66
21 26 0.33
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTACTATTCA
Found at i:4866500 original size:41 final size:41
Alignment explanation
Indices: 4866409--4866510 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
4866399 ATTCGTTGCG
*
4866409 ATTTTACTATTCACGTTGCGATTTTACTATTCACGTTACGA
1 ATTTTACTATTCACGTTGCGATTTTACTATTCACGTTACAA
* * *
4866450 TTTTTACTATTTACGTTGCGATTTTACTATTCACGTTGCAA
1 ATTTTACTATTCACGTTGCGATTTTACTATTCACGTTACAA
* *
4866491 ATTTGACTA-TCGCGTTGCGA
1 ATTTTACTATTCACGTTGCGA
4866511 ATTTGACTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 9 0.17
41 44 0.83
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.44
Consensus pattern (41 bp):
ATTTTACTATTCACGTTGCGATTTTACTATTCACGTTACAA
Found at i:4866528 original size:40 final size:40
Alignment explanation
Indices: 4866484--4866567 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
4866474 TACTATTCAC
* *
4866484 GTTGCAAATTTGACTATCGCGTTGCGAATTTGACTTTTGT
1 GTTGCAAATTTGACTATCGCATTGCGAATTTGACTTCTGT
* * *
4866524 GTTGCGAATTTGACTTTCGCATTGCTAATTTGACTTCTGT
1 GTTGCAAATTTGACTATCGCATTGCGAATTTGACTTCTGT
4866564 GTTG
1 GTTG
4866568 TGATTTACAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (40 bp):
GTTGCAAATTTGACTATCGCATTGCGAATTTGACTTCTGT
Found at i:4866559 original size:20 final size:20
Alignment explanation
Indices: 4866463--4866559 Score: 106
Period size: 20 Copynumber: 4.8 Consensus size: 20
4866453 TTACTATTTA
* *
4866463 CGTTGCG-ATTTTACTATTCA
1 CGTTGCGAATTTGACT-TTCG
* *
4866483 CGTTGCAAATTTGACTATCG
1 CGTTGCGAATTTGACTTTCG
*
4866503 CGTTGCGAATTTGACTTTTG
1 CGTTGCGAATTTGACTTTCG
*
4866523 TGTTGCGAATTTGACTTTCG
1 CGTTGCGAATTTGACTTTCG
* *
4866543 CATTGCTAATTTGACTT
1 CGTTGCGAATTTGACTT
4866560 CTGTGTTGTG
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 57 0.89
21 7 0.11
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (20 bp):
CGTTGCGAATTTGACTTTCG
Found at i:4866594 original size:40 final size:40
Alignment explanation
Indices: 4866507--4866595 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 40
4866497 CTATCGCGTT
* * **
4866507 GCGAATTTGACTTTTGTGTTGCGAATTTGACTTTCGCATT
1 GCGAATTTGACTTCTGTGTTGCGAATTTGACATTCGCAAA
* *
4866547 GCTAATTTGACTTCTGTGTTGTG-ATTT-ACAGATTCGCAAA
1 GCGAATTTGACTTCTGTGTTGCGAATTTGAC--ATTCGCAAA
4866587 GCGAATTTG
1 GCGAATTTG
4866596 GAAAATCGCA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
38 2 0.05
39 4 0.10
40 34 0.85
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.42
Consensus pattern (40 bp):
GCGAATTTGACTTCTGTGTTGCGAATTTGACATTCGCAAA
Found at i:4866604 original size:21 final size:21
Alignment explanation
Indices: 4866580--4866689 Score: 152
Period size: 21 Copynumber: 5.3 Consensus size: 21
4866570 ATTTACAGAT
* *
4866580 TCGCAAAGCGAATTTGGAAAA
1 TCGCAACGAGAATTTGGAAAA
4866601 TCGCAACGAGAATTTGGAAAA
1 TCGCAACGAGAATTTGGAAAA
4866622 TCGCAACGAGAATTTGGAAAA
1 TCGCAACGAGAATTTGGAAAA
*
4866643 TCACAACGCA-AATTTGGAAAA
1 TCGCAACG-AGAATTTGGAAAA
* *
4866664 TCTCAACGAGAACTTGGAAAA
1 TCGCAACGAGAATTTGGAAAA
4866685 -CGCAA
1 TCGCAA
4866690 TGCGATTTAC
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
20 5 0.06
21 75 0.93
22 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (21 bp):
TCGCAACGAGAATTTGGAAAA
Found at i:4869640 original size:383 final size:381
Alignment explanation
Indices: 4868935--4869704 Score: 1459
Period size: 383 Copynumber: 2.0 Consensus size: 381
4868925 TTTAGAATAT
4868935 ATAAATAGTCAAGTGATCATTTTATTAACTTTTAATAGTTATAAGGTTCAATAAAAAAATGTCTT
1 ATAAATAGTCAAGTGATCATTTTATTAACTTTTAATAGTTATAAGGTTCAATAAAAAAATGTCTT
4869000 ATAATAAGGAGACATTTGTATACTTTACCTTACATTTTATTACACATAAATATTATTATAATTTT
66 ATAATAAGGAGACATTTGTATACTTTACCTTACATTTTATTACACATAAATATTATTATAATTTT
*
4869065 TTCATTTCATTAATAATTTAGTATTTTTAAGTAAGCTTGATTATTTATTTCATATTGTGAAACTT
131 TTCATTTCATTAATAATTTAGTATTTTTAAGTAAGCTTGATTATTTATTTCATATTGTGAAACAT
*
4869130 ATAAAAATTCCTTATTTACTTTTCCCCCCATAATTTCCATATTTAATCGTGAATTATTGTTTTGC
196 ATAAAAATTCCTTATTTACTTTCCCCCCCATAATTTCCATATTTAATCGTGAATTATTGTTTTGC
4869195 ATTTATATTTTTATCGTATCGTATCGTATTGTATTTTTATTTATTTTGTTATAATAAATATATAC
261 ATTTATATTTTTATCGTATCGTATCGTATTGTATTTTTATTTATTTTGTTATAATAAATATATAC
4869260 TAATATATGGTGGTATTTTAAAGAAATTAGTAGTATTATTGAATAAACAATGTTAA
326 TAATATATGGTGGTATTTTAAAGAAATTAGTAGTATTATTGAATAAACAATGTTAA
* *
4869316 ATAAATAGTCGAGTGATTATTTTATTAACTTTTAATAGTTATAAGGTTCAATAAAAAAATGTCTT
1 ATAAATAGTCAAGTGATCATTTTATTAACTTTTAATAGTTATAAGGTTCAATAAAAAAATGTCTT
4869381 ATAATAAGGAGACCATTTGTATACTTTACCTTACATTTTATTACACATAAATATTATTATAATTG
66 ATAATAAGGAGA-CATTTGTATACTTTACCTTACATTTTATTACACATAAATATTATTATAATT-
4869446 TTTTCATTTCATTAATAATTTAGTATTTTTAAGTAAGCTTGATTATTTATTTCATATTGTGAAAC
129 TTTTCATTTCATTAATAATTTAGTATTTTTAAGTAAGCTTGATTATTTATTTCATATTGTGAAAC
* *
4869511 ATATAAATATTCCTTATTTACTTTCCCCCCCATAATTTCCATATTTACTCGTGAATTATTGTTTT
194 ATATAAAAATTCCTTATTTACTTTCCCCCCCATAATTTCCATATTTAATCGTGAATTATTGTTTT
4869576 GCATTTATATTTTTATCGTATCGTATCGTATTGTATTTTTATTTATTTTGTTATAATAAATATAT
259 GCATTTATATTTTTATCGTATCGTATCGTATTGTATTTTTATTTATTTTGTTATAATAAATATAT
*
4869641 ACTAATATATGGTGGTATTTTAAAGAAATTCGTAGTATTATTGAATAAACAATGTTAA
324 ACTAATATATGGTGGTATTTTAAAGAAATTAGTAGTATTATTGAATAAACAATGTTAA
4869699 ATAAAT
1 ATAAAT
4869705 TGTGGGTGAA
Statistics
Matches: 380, Mismatches: 7, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
381 75 0.20
382 51 0.13
383 254 0.67
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (381 bp):
ATAAATAGTCAAGTGATCATTTTATTAACTTTTAATAGTTATAAGGTTCAATAAAAAAATGTCTT
ATAATAAGGAGACATTTGTATACTTTACCTTACATTTTATTACACATAAATATTATTATAATTTT
TTCATTTCATTAATAATTTAGTATTTTTAAGTAAGCTTGATTATTTATTTCATATTGTGAAACAT
ATAAAAATTCCTTATTTACTTTCCCCCCCATAATTTCCATATTTAATCGTGAATTATTGTTTTGC
ATTTATATTTTTATCGTATCGTATCGTATTGTATTTTTATTTATTTTGTTATAATAAATATATAC
TAATATATGGTGGTATTTTAAAGAAATTAGTAGTATTATTGAATAAACAATGTTAA
Found at i:4875382 original size:16 final size:16
Alignment explanation
Indices: 4875348--4875382 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4875338 TAAATATTAA
*
4875348 TTTAAATAATTATATT
1 TTTAAATAATAATATT
4875364 TTTACAATAATAATATT
1 TTTA-AATAATAATATT
4875381 TT
1 TT
4875383 CTCCTCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAAATAATAATATT
Found at i:4875679 original size:20 final size:18
Alignment explanation
Indices: 4875654--4875692 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
4875644 ATTTTAACCC
4875654 TAAATTACTACTATTGATAA
1 TAAATTACTA-T-TTGATAA
*
4875674 TAAATTATTATTTGATAA
1 TAAATTACTATTTGATAA
4875692 T
1 T
4875693 GATATTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TAAATTACTATTTGATAA
Found at i:4876390 original size:20 final size:20
Alignment explanation
Indices: 4876365--4876420 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
4876355 ATCCTATTTT
4876365 CTGGTAATCTTACATTACTA
1 CTGGTAATCTTACATTACTA
*
4876385 CTGGTAATCTTACATTCCTA
1 CTGGTAATCTTACATTACTA
* *
4876405 CTAGTAATTTTACATT
1 CTGGTAATCTTACATT
4876421 CCGTGAACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (20 bp):
CTGGTAATCTTACATTACTA
Found at i:4884319 original size:23 final size:21
Alignment explanation
Indices: 4884277--4884319 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
4884267 ATTGAGTTAA
* *
4884277 ATTTTAAATTTTTTATTAATG
1 ATTTTAAATTTTTAACTAATG
4884298 ATTTTATATATTTTTAACTAAT
1 ATTTTA-A-ATTTTTAACTAAT
4884320 TTTTTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTAAATTTTTAACTAATG
Found at i:4888928 original size:2 final size:2
Alignment explanation
Indices: 4888923--4888949 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4888913 AGTCAGGGTT
4888923 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
4888950 CCCTTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4895840 original size:706 final size:706
Alignment explanation
Indices: 4894489--4895903 Score: 2722
Period size: 706 Copynumber: 2.0 Consensus size: 706
4894479 AAGAGGGAAA
4894489 TCAAGCGCCCAACTATCAAACCAAAAACTGATGCTCTCTCTATTCCCCACTCGTACTTTGAACAG
1 TCAAGCGCCCAACTATCAAACCAAAAACTGATGCTCTCTCTATTCCCCACTCGTACTTTGAACAG
* *
4894554 ACTTCGAAACTTAGGTCCAAACTGATCCTCTTTGAAATGATTTTGAACTACCAATTTCTAAATCC
66 ACTTCGAAACTTAGCTCCAAACTGATCCTCTTTGAAATGATTTTGAACTACCAATTTCCAAATCC
*
4894619 AAGAAGCATGTGCAGGAAGTTTATCCTTGAATAACAGAGATCTAGTATCCAGATTATACATACAG
131 AAGAAGCATGTGCAAGAAGTTTATCCTTGAATAACAGAGATCTAGTATCCAGATTATACATACAG
*
4894684 CAGATAACCTTCTTCCACACTGACTCTCTATCATTAGCAAACCTCCACGACCATTTACCTAGGAT
196 CAGATAACCTTCTTCCACACTGACTCTCTATCATTAGCAAACCTCCACGACCATTTACCTAGGAG
*
4894749 TGCTCTATTCATATAATTAAGATCCAAAACACCAAGACCCCCAACATTTTTGGCAGAGCACACTG
261 AGCTCTATTCATATAATTAAGATCCAAAACACCAAGACCCCCAACATTTTTGGCAGAGCACACTG
4894814 TCGACCAATTAATCCAGTGAATTTTTTTTACCTCTACCCCTCCTCCCCATAGAAATCTGGCCATG
326 TCGACCAATTAATCCAGTGAATTTTTTTTACCTCTACCCCTCCTCCCCATAGAAATCTGGCCATG
4894879 ATGGAATTAAGTTTAACAATCACCGAAGAGGGAATTTTAAACAAGGACATGAAATAGATGGGTAA
391 ATGGAATTAAGTTTAACAATCACCGAAGAGGGAATTTTAAACAAGGACATGAAATAGATGGGTAA
*
4894944 AGAGCACAAAACAACCTTCAATAAGACCACTCTCCTTGCCATTGACAGAGTCTTCGCCTTCCATC
456 AGAGCACAAAACAACCTTCAATAAGACCACTCTCCCTGCCATTGACAGAGTCTTCGCCTTCCATC
*
4895009 CGGCTAACTTTTTGTAAAACTTCTGCACAACCGGATCCCACATCAATATAGAATTTCTCTTAACA
521 CGACTAACTTTTTGTAAAACTTCTGCACAACCGGATCCCACATCAATATAGAATTTCTCTTAACA
*
4895074 CCAAGCGGCAGTCCCAAATATTTCTAACGGAAATGGCCGACTAAACATCCAATTGCATTAGCCCA
586 CCAAGCGGCAGTCCCAAATATTTCTAACGGAAATGACCGACTAAACATCCAATTGCATTAGCCCA
4895139 CTGCAATACCTCTTCCTCACTGATATTAATACCAAATAGTTTACTTTTAGTAAGAT
651 CTGCAATACCTCTTCCTCACTGATATTAATACCAAATAGTTTACTTTTAGTAAGAT
4895195 TCAAGCGCCCAACTATCAAACCAAAAACTGATGCTCTCTCTATTCCCCACTCGTACTTTGAACAG
1 TCAAGCGCCCAACTATCAAACCAAAAACTGATGCTCTCTCTATTCCCCACTCGTACTTTGAACAG
*
4895260 ACTTCGAAACTTAGCTCCAAACTGATCCTCTTTGAAATGATTTTGAACTACCGATTTCCAAATCC
66 ACTTCGAAACTTAGCTCCAAACTGATCCTCTTTGAAATGATTTTGAACTACCAATTTCCAAATCC
*
4895325 AAGAAGCATGTGCAAGAAGTTTATCCTTGAATAACAGAGATCTAGTATCCAGATTATACTTACAG
131 AAGAAGCATGTGCAAGAAGTTTATCCTTGAATAACAGAGATCTAGTATCCAGATTATACATACAG
4895390 CAGATAACCTTCTTCCACACTGACTCTCTATCATTAGCAAACCTCCACGACCATTTACCTAGGAG
196 CAGATAACCTTCTTCCACACTGACTCTCTATCATTAGCAAACCTCCACGACCATTTACCTAGGAG
4895455 AGCTCTATTCATATAATTAAGATCCAAAACACCAAGACCCCCAACATTTTTGGCAGAGCACACTG
261 AGCTCTATTCATATAATTAAGATCCAAAACACCAAGACCCCCAACATTTTTGGCAGAGCACACTG
4895520 TCGACCAATTAATCCAGTGAATTTTTTTTACCTCTACCCCTCCTCCCCATAGAAATCTGGCCATG
326 TCGACCAATTAATCCAGTGAATTTTTTTTACCTCTACCCCTCCTCCCCATAGAAATCTGGCCATG
4895585 ATGGAATTAAGTTTAACAATCACCGAAGAGGGAATTTTAAACAAGGACATGAAATAGATGGGTAA
391 ATGGAATTAAGTTTAACAATCACCGAAGAGGGAATTTTAAACAAGGACATGAAATAGATGGGTAA
4895650 AGAGCACAAAACAACCTTCAATAAGACCACTCTCCCTGCCATTGACAGAGTCTTCGCCTTCCATC
456 AGAGCACAAAACAACCTTCAATAAGACCACTCTCCCTGCCATTGACAGAGTCTTCGCCTTCCATC
4895715 CGACTAACTTTTTGTAAAACTTCTGCACAACCGGATCCCACATCAATATAGAATTTCTCTTAACA
521 CGACTAACTTTTTGTAAAACTTCTGCACAACCGGATCCCACATCAATATAGAATTTCTCTTAACA
* *
4895780 CCAAGCGGCATTCCCAAATATTTCTAAGGGAAATGACCGACTAAACATCCAATTGCATTAGCCCA
586 CCAAGCGGCAGTCCCAAATATTTCTAACGGAAATGACCGACTAAACATCCAATTGCATTAGCCCA
4895845 CTGCAATACCTCTTCCTCACTGATATTAATACCAAATAGTTTACTTTTAGTAAGAT
651 CTGCAATACCTCTTCCTCACTGATATTAATACCAAATAGTTTACTTTTAGTAAGAT
4895901 TCA
1 TCA
4895904 GTTTGAGGCC
Statistics
Matches: 697, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
706 697 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.27
Consensus pattern (706 bp):
TCAAGCGCCCAACTATCAAACCAAAAACTGATGCTCTCTCTATTCCCCACTCGTACTTTGAACAG
ACTTCGAAACTTAGCTCCAAACTGATCCTCTTTGAAATGATTTTGAACTACCAATTTCCAAATCC
AAGAAGCATGTGCAAGAAGTTTATCCTTGAATAACAGAGATCTAGTATCCAGATTATACATACAG
CAGATAACCTTCTTCCACACTGACTCTCTATCATTAGCAAACCTCCACGACCATTTACCTAGGAG
AGCTCTATTCATATAATTAAGATCCAAAACACCAAGACCCCCAACATTTTTGGCAGAGCACACTG
TCGACCAATTAATCCAGTGAATTTTTTTTACCTCTACCCCTCCTCCCCATAGAAATCTGGCCATG
ATGGAATTAAGTTTAACAATCACCGAAGAGGGAATTTTAAACAAGGACATGAAATAGATGGGTAA
AGAGCACAAAACAACCTTCAATAAGACCACTCTCCCTGCCATTGACAGAGTCTTCGCCTTCCATC
CGACTAACTTTTTGTAAAACTTCTGCACAACCGGATCCCACATCAATATAGAATTTCTCTTAACA
CCAAGCGGCAGTCCCAAATATTTCTAACGGAAATGACCGACTAAACATCCAATTGCATTAGCCCA
CTGCAATACCTCTTCCTCACTGATATTAATACCAAATAGTTTACTTTTAGTAAGAT
Found at i:4908466 original size:18 final size:18
Alignment explanation
Indices: 4908443--4908478 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4908433 GTCTACCTCC
4908443 TAGTTTTTCACTTTGAAG
1 TAGTTTTTCACTTTGAAG
4908461 TAGTTTTTCACTTTGAAG
1 TAGTTTTTCACTTTGAAG
4908479 GAGTATTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (18 bp):
TAGTTTTTCACTTTGAAG
Found at i:4908487 original size:18 final size:18
Alignment explanation
Indices: 4908448--4908487 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4908438 CCTCCTAGTT
* *
4908448 TTTCACTTTGAAGTAGTT
1 TTTCACTTTGAAGGAGTA
4908466 TTTCACTTTGAAGGAGTA
1 TTTCACTTTGAAGGAGTA
4908484 TTTC
1 TTTC
4908488 GTTGAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.47
Consensus pattern (18 bp):
TTTCACTTTGAAGGAGTA
Found at i:4914730 original size:60 final size:60
Alignment explanation
Indices: 4914662--4914788 Score: 211
Period size: 60 Copynumber: 2.1 Consensus size: 60
4914652 GTAGTTGAGT
*
4914662 GACCATTTTGTAACTTTTAATAGTCAGGGGACTCAACAAAGCAACATCCCTATAGTCGG-G
1 GACCATTTTGTAACTTTTAATAGTCAGGGGACTCAACAAAACAACA-CCCTATAGTCGGAG
* *
4914722 GACCATTTTGTAACTTTTGATAGTCGGGGGACTCAACAAAACAACACCCTATAGTCGGAG
1 GACCATTTTGTAACTTTTAATAGTCAGGGGACTCAACAAAACAACACCCTATAGTCGGAG
4914782 GACCATT
1 GACCATT
4914789 GTATACTTTA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
59 12 0.19
60 51 0.81
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTAATAGTCAGGGGACTCAACAAAACAACACCCTATAGTCGGAG
Found at i:4922763 original size:36 final size:36
Alignment explanation
Indices: 4922716--4922786 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
4922706 AACAAAGATT
* *
4922716 GAAAAGGTAGAATATATTTGACCCGAAAAGGAAAAG
1 GAAAAAGTAGAATATATTTGACCCAAAAAGGAAAAG
*
4922752 GAAAAAGTAGAATATATTTGGCCCAAAAAGGAAAA
1 GAAAAAGTAGAATATATTTGACCCAAAAAGGAAAA
4922787 AGTACAATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.52, C:0.08, G:0.23, T:0.17
Consensus pattern (36 bp):
GAAAAAGTAGAATATATTTGACCCAAAAAGGAAAAG
Found at i:4924054 original size:24 final size:24
Alignment explanation
Indices: 4924027--4924080 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4924017 TTTAATCAAA
**
4924027 ATATTTCAATATACGAATAAATGT
1 ATATTTCAATATACGAATAAAAAT
*
4924051 ATATTTCAATATATGAATAAAAAT
1 ATATTTCAATATACGAATAAAAAT
4924075 ATATTT
1 ATATTT
4924081 ATAAGATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.41
Consensus pattern (24 bp):
ATATTTCAATATACGAATAAAAAT
Found at i:4924712 original size:130 final size:130
Alignment explanation
Indices: 4924509--4924756 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
4924499 AATTTTCTTC
* *
4924509 TAATTAAGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAAGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGCCAGAT
* *
4924574 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATAATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
4924639 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGCCAGAT
1 TAATTAAGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGCCAGAT
4924704 CCTAATTAAATAATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATAATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
4924757 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (130 bp):
TAATTAAGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGCCAGAT
CCTAATTAAATAATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:4925198 original size:35 final size:35
Alignment explanation
Indices: 4925152--4925227 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
4925142 AATTGAATTG
* *
4925152 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTATTTTGGAAATTAGGGTTTAAAATGA
*
4925187 AATTGAATTATTTTGGAAATTGGGGTTTAAAATGA
1 AATTGAATTATTTTGGAAATTAGGGTTTAAAATGA
4925222 AATTGA
1 AATTGA
4925228 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (35 bp):
AATTGAATTATTTTGGAAATTAGGGTTTAAAATGA
Found at i:4925612 original size:24 final size:22
Alignment explanation
Indices: 4925574--4925617 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
4925564 TTTACTATAT
4925574 TTATTAAATTATAATAAAATCA
1 TTATTAAATTATAATAAAATCA
4925596 TTATTATAATCTATAATAAAAT
1 TTATTA-AAT-TATAATAAAAT
4925618 GTAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
TTATTAAATTATAATAAAATCA
Found at i:4925665 original size:35 final size:35
Alignment explanation
Indices: 4925617--4925685 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
4925607 TATAATAAAA
* *
4925617 TGTAAAAATTTTATCATTTTAAT-ACTTATTTTATT
1 TGTAAAAATTTTATAAATTTAATAAC-TATTTTATT
4925652 TGTAATAAA-TTTATAAATTTAATAACTATTTTAT
1 TGTAA-AAATTTTATAAATTTAATAACTATTTTAT
4925686 AATCTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 25 0.83
36 5 0.17
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (35 bp):
TGTAAAAATTTTATAAATTTAATAACTATTTTATT
Found at i:4925703 original size:29 final size:29
Alignment explanation
Indices: 4925661--4925717 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
4925651 TTGTAATAAA
* * *
4925661 TTTATAAATTTAATAACTATTTTATAATC
1 TTTAAAAAATTAATAACTATATTATAATC
*
4925690 TTTAAAAAATTAATAATTATATTATAAT
1 TTTAAAAAATTAATAACTATATTATAAT
4925718 TTTTGAAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTAAAAAATTAATAACTATATTATAATC
Found at i:4926064 original size:35 final size:35
Alignment explanation
Indices: 4926017--4926102 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
4926007 AAAACAGTCA
* * *
4926017 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
4926052 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
4926087 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
4926103 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:4926096 original size:21 final size:21
Alignment explanation
Indices: 4926071--4926113 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4926061 TTCTAAACCC
4926071 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
4926092 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
4926113 T
1 T
4926114 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:4926268 original size:16 final size:18
Alignment explanation
Indices: 4926236--4926269 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
4926226 TATTAATGTA
4926236 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
4926254 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
4926270 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:4926942 original size:130 final size:130
Alignment explanation
Indices: 4926739--4926986 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
4926729 AATTTTCTTC
* * *
4926739 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
4926804 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
4926869 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
4926934 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
4926987 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (130 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:4935137 original size:2 final size:2
Alignment explanation
Indices: 4935130--4935171 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4935120 GGATAAAACG
4935130 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
4935172 TACATCCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4940712 original size:27 final size:27
Alignment explanation
Indices: 4940664--4940732 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
4940654 TAAAACATCG
* *
4940664 TTTG-ATTTT-AGAATATATTTTCTAT
1 TTTGTATTTTCAGAAAATATTTTCAAT
4940689 TTT-TATTTTCAGAAAATAGTTTTCAAT
1 TTTGTATTTTCAGAAAATA-TTTTCAAT
*
4940716 TTTGT-TTTTCTGAAAAT
1 TTTGTATTTTCAGAAAAT
4940733 TAAAAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 8 0.22
26 7 0.19
27 21 0.57
28 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.57
Consensus pattern (27 bp):
TTTGTATTTTCAGAAAATATTTTCAAT
Found at i:4941162 original size:20 final size:21
Alignment explanation
Indices: 4941132--4941170 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
4941122 ACGTTAACTG
4941132 TCACAAAACTTACATGACAGT
1 TCACAAAACTTACATGACAGT
4941153 TCAC-AAACTTACATGACA
1 TCACAAAACTTACATGACA
4941171 ATCTACAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.23
Consensus pattern (21 bp):
TCACAAAACTTACATGACAGT
Found at i:4941296 original size:28 final size:28
Alignment explanation
Indices: 4941265--4941320 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
4941255 TCTTGGTTAT
* *
4941265 GTTTGAGGCATAATTGATTTTTTAAAAA
1 GTTTGAAGAATAATTGATTTTTTAAAAA
* *
4941293 GTTTGAAGAATTATTTATTTTTTAAAAA
1 GTTTGAAGAATAATTGATTTTTTAAAAA
4941321 TAAATAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (28 bp):
GTTTGAAGAATAATTGATTTTTTAAAAA
Found at i:4943356 original size:15 final size:16
Alignment explanation
Indices: 4943333--4943380 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
4943323 AAGTAAATTA
*
4943333 AATTCGGGTTG-TTTC
1 AATTTGGGTTGATTTC
*
4943348 AATTTGGGTTGTTTTC
1 AATTTGGGTTGATTTC
* *
4943364 GATTTGAGTTGATTTC
1 AATTTGGGTTGATTTC
4943380 A
1 A
4943381 GTTCGAGTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.17, C:0.08, G:0.25, T:0.50
Consensus pattern (16 bp):
AATTTGGGTTGATTTC
Found at i:4947419 original size:21 final size:21
Alignment explanation
Indices: 4947387--4947446 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 21
4947377 ACTTGTGATT
4947387 TATATTT-A-ATTTTTAATAA
1 TATATTTAATATTTTTAATAA
* *
4947406 TATTTTTACTATTTTTAAT-A
1 TATATTTAATATTTTTAATAA
4947426 TATATTTAAT-TTTTTAATAA
1 TATATTTAATATTTTTAATAA
4947446 T
1 T
4947447 CTAAATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 14 0.41
20 11 0.32
21 9 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TATATTTAATATTTTTAATAA
Found at i:4947489 original size:22 final size:21
Alignment explanation
Indices: 4947385--4947491 Score: 66
Period size: 21 Copynumber: 5.1 Consensus size: 21
4947375 CAACTTGTGA
4947385 TTTATATTTAATTTTTAATAATAT
1 TTTATATTT-ATTTTT--TAATAT
*
4947409 TTT-TA-CTA-TTTTTAATA-
1 TTTATATTTATTTTTTAATAT
*
4947426 -T-ATATTTAATTTTTTAATAA
1 TTTATATTT-ATTTTTTAATAT
* * *
4947446 TCTAAATTT-TATTTTTAGTAT
1 TTTATATTTAT-TTTTTAATAT
4947467 TTTATATTTATTTTTTAAATAT
1 TTTATATTTATTTTTT-AATAT
4947489 TTT
1 TTT
4947492 TAAATTTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 22
0.67 0.09 0.23
Matches are distributed among these distances:
16 3 0.05
17 1 0.02
18 6 0.09
19 9 0.14
20 5 0.08
21 21 0.33
22 14 0.22
23 2 0.03
24 3 0.05
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (21 bp):
TTTATATTTATTTTTTAATAT
Found at i:4951271 original size:28 final size:28
Alignment explanation
Indices: 4951238--4951299 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
4951228 TAAATTGCCT
*
4951238 TTTTATTTTACATATTTAAATTATTTTA-
1 TTTTATTTTACATA-TTAAAATATTTTAG
**
4951266 TTTTATTTTTTATATTAAAATATTTTAG
1 TTTTATTTTACATATTAAAATATTTTAG
4951294 TTTTAT
1 TTTTAT
4951300 CTGGTCTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 12 0.40
28 18 0.60
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTTATTTTACATATTAAAATATTTTAG
Found at i:4952745 original size:21 final size:20
Alignment explanation
Indices: 4952659--4952816 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
4952649 AAATGACCAA
**
4952659 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
4952678 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
4952698 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
4952718 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
4952739 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
4952760 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
4952780 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
4952801 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
4952817 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:4952809 original size:20 final size:20
Alignment explanation
Indices: 4952784--4952977 Score: 89
Period size: 20 Copynumber: 9.7 Consensus size: 20
4952774 GATTTTCCAG
* *
4952784 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
4952804 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
4952824 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
4952844 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
4952864 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
4952884 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
4952904 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
*
4952924 AATCGCAACGAC-AATACATAA
1 AATCGCAACG-CGAACACAT-A
* *
4952945 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
4952965 AATCGCAACGCGA
1 AATCGCAACGCGA
4952978 TTTTTAAAGC
Statistics
Matches: 151, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
19 3 0.02
20 131 0.87
21 16 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:4952831 original size:40 final size:39
Alignment explanation
Indices: 4952784--4952977 Score: 219
Period size: 40 Copynumber: 4.8 Consensus size: 39
4952774 GATTTTCCAG
* ** *
4952784 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
4952824 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* * *
4952864 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* *
4952904 TATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CGAA-CCAT-A
4952945 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
4952978 TTTTTAAAGC
Statistics
Matches: 134, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 99 0.74
41 34 0.25
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:4952867 original size:60 final size:60
Alignment explanation
Indices: 4952784--4952976 Score: 255
Period size: 60 Copynumber: 3.2 Consensus size: 60
4952774 GATTTTCCAG
* ** *
4952784 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
* * * *
4952844 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTA
* *
4952904 TATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CGAACACAT-AAATCGCAACGCGTATCCGTA
4952965 AATCGCAACGCG
1 AATCGCAACGCG
4952977 ATTTTTAAAG
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
59 1 0.01
60 79 0.69
61 34 0.30
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
Found at i:4953385 original size:14 final size:14
Alignment explanation
Indices: 4953366--4953422 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4953356 TTTCATTTCG
4953366 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4953380 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
4953399 CGTTGCTATTCTCT
1 CGTTGCGATTCTCT
4953413 CGTTGCGATT
1 CGTTGCGATT
4953423 TTCAAGTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.25, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4953395 original size:33 final size:33
Alignment explanation
Indices: 4953356--4953426 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
4953346 TTCACTTAGA
4953356 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
*
4953389 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
4953422 TTTCA
1 TTTCA
4953427 AGTTAGTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
Found at i:4953404 original size:19 final size:18
Alignment explanation
Indices: 4953354--4953404 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 18
4953344 ATTTCACTTA
4953354 GATTTCATTTCGCGTTGC
1 GATTTCATTTCGCGTTGC
*
4953372 GA-TTC---TCTCGTTGC
1 GATTTCATTTCGCGTTGC
4953386 GATTTTCATTTCGCGTTGC
1 GA-TTTCATTTCGCGTTGC
4953405 TATTCTCTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
14 10 0.38
16 3 0.12
17 3 0.12
18 2 0.08
19 8 0.31
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.45
Consensus pattern (18 bp):
GATTTCATTTCGCGTTGC
Found at i:4953532 original size:21 final size:21
Alignment explanation
Indices: 4953506--4953582 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
4953496 TGCAGAAGAG
4953506 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
* **
4953527 TCGCAACGTGA-AAATGACTA
1 TCGCAACGAGAGAAATGAAAA
* *
4953547 TCTGTAACGAGAAAAATGAAAA
1 TC-GCAACGAGAGAAATGAAAA
4953569 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
4953583 TCGCAACGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 9 0.20
21 27 0.60
22 9 0.20
ACGTcount: A:0.48, C:0.16, G:0.22, T:0.14
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:4953586 original size:14 final size:14
Alignment explanation
Indices: 4953567--4953623 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4953557 GAAAAATGAA
4953567 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
4953581 AATCGCAACGCAAAATGAA
1 AATCGCAACG----A-GAG
4953600 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4953614 AATCGCAACG
1 AATCGCAACG
4953624 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 22 0.61
15 1 0.03
18 1 0.03
19 12 0.33
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4953596 original size:33 final size:33
Alignment explanation
Indices: 4953559--4953639 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
4953549 TGTAACGAGA
4953559 AAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 AAAATGAAAATCGCAACGAGAGAATCGCAACGC
4953592 AAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 AAAATGAAAATCGCAACGAGAGAATCGCAACGC
* **
4953625 GAAACCAAAATCGCA
1 AAAATGAAAATCGCA
4953640 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.49, C:0.22, G:0.20, T:0.09
Consensus pattern (33 bp):
AAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:4953676 original size:14 final size:14
Alignment explanation
Indices: 4953657--4953713 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4953647 TTTCATTTCA
4953657 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4953671 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4953690 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4953704 CGTTGCGATT
1 CGTTGCGATT
4953714 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4953682 original size:33 final size:33
Alignment explanation
Indices: 4953640--4953763 Score: 158
Period size: 33 Copynumber: 3.5 Consensus size: 33
4953630 CAAAATCGCA
4953640 TTGCGATTTTCATTTCACGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCACGTTGCGATTCTCTCG
*
4953673 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCACGTTGCGATTCTCTCG
*
4953706 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCACGTT--G-C-G--ATTCTCTCG
4953747 TTGCGATTTTCATTTCA
1 TTGCGATTTTCATTTCA
4953764 ACCAAAAGAC
Statistics
Matches: 80, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
33 44 0.55
34 2 0.03
35 6 0.08
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 21 0.26
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCACGTTGCGATTCTCTCG
Found at i:4953724 original size:21 final size:21
Alignment explanation
Indices: 4953698--4953762 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
4953688 CGCGTTGCGA
4953698 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
4953719 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
4953739 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
4953760 TTC
1 TTC
4953763 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:4955709 original size:14 final size:14
Alignment explanation
Indices: 4955690--4955746 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4955680 CGAAACTTAA
4955690 AATCGCAACGATAG
1 AATCGCAACGATAG
*
4955704 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--AT-AG
*
4955723 AATCGCAACGACAG
1 AATCGCAACGATAG
4955737 AATCGCAACG
1 AATCGCAACG
4955747 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 2 0.06
19 9 0.26
ACGTcount: A:0.44, C:0.25, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGATAG
Found at i:4955730 original size:33 final size:33
Alignment explanation
Indices: 4955672--4955765 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 33
4955662 TAGTTTACTT
* * *
4955672 TCGCAACACGAAACTTAAAATCGCAACGATAGAA
1 TCGCAACGCGAAA-TCAAAATCGCAACGACAGAA
*
4955706 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAATCAAAATCGCAACGACAGAA
*
4955739 TCGCAACGCGAAACCAAAATCGCAACG
1 TCGCAACGCGAAATCAAAATCGCAACG
4955766 CGAAACCAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 43 0.78
34 12 0.22
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.11
Consensus pattern (33 bp):
TCGCAACGCGAAATCAAAATCGCAACGACAGAA
Found at i:4955787 original size:19 final size:19
Alignment explanation
Indices: 4955704--4955781 Score: 94
Period size: 19 Copynumber: 4.4 Consensus size: 19
4955694 GCAACGATAG
**
4955704 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
*
4955723 AATCGCAA--CG--A-CAG
1 AATCGCAACGCGAAACCAA
4955737 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
4955756 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
4955775 AATCGCA
1 AATCGCA
4955782 TTGCGATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
14 9 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 36 0.71
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:4955799 original size:19 final size:19
Alignment explanation
Indices: 4955777--4955949 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
4955767 GAAACCAAAA
*
4955777 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4955796 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
4955810 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
4955829 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
4955845 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
4955862 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
4955881 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
4955900 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
4955919 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
4955939 TCGTGTTGCGA
1 TCGCGTTGCGA
4955950 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4955818 original size:14 final size:14
Alignment explanation
Indices: 4955799--4955855 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4955789 TTTCATTTCG
4955799 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4955813 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
4955830 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
4955846 CGTTGCGATT
1 CGTTGCGATT
4955856 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4955907 original size:38 final size:38
Alignment explanation
Indices: 4955777--4955949 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
4955767 GAAACCAAAA
*
4955777 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
4955812 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
4955845 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
4955881 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
4955919 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
4955950 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:4957888 original size:14 final size:14
Alignment explanation
Indices: 4957869--4957904 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
4957859 ATTGTTTAAT
4957869 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
4957883 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
4957897 TGATTTGT
1 TGATTTGT
4957905 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4958034 original size:20 final size:19
Alignment explanation
Indices: 4958011--4958109 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
4958001 AATAATGACT
4958011 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
4958031 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4958050 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4958064 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4958083 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
4958103 ATCGCAA
1 ATCGCAA
4958110 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 29 0.41
20 26 0.37
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4958141 original size:53 final size:53
Alignment explanation
Indices: 4958011--4958128 Score: 220
Period size: 53 Copynumber: 2.2 Consensus size: 53
4958001 AATAATGACT
4958011 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
4958064 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
4958117 ATCGCAATGCGA
1 ATCGCAATGCGA
4958129 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 19 0.30
53 45 0.70
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:4958187 original size:53 final size:52
Alignment explanation
Indices: 4958124--4958341 Score: 284
Period size: 53 Copynumber: 4.1 Consensus size: 52
4958114 AGAATCGCAA
4958124 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
4958177 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
* * *
4958230 TTCGATTTTCATTTCACATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
*
4958288 TGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
4958335 TGCGATT
1 TGCGATT
4958342 GTAATTTCCG
Statistics
Matches: 150, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
47 8 0.05
49 2 0.01
50 2 0.01
51 3 0.02
52 10 0.07
53 107 0.71
54 3 0.02
55 2 0.01
56 2 0.01
58 11 0.07
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:4958205 original size:72 final size:70
Alignment explanation
Indices: 4958118--4958327 Score: 271
Period size: 72 Copynumber: 2.9 Consensus size: 70
4958108 AACGAGAGAA
* * *
4958118 TCGCAATGCGATTTTCATTT-CGCATTGCGATTTTCATTTCCGCA-TTGCGATTCTCTCGTTGCG
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATTT-CG-ATTTGC-ATT-TCACATTGCG
4958181 ATTTTCATT
62 ATTTTCATT
*
4958190 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCATTTCGATTTTCATTTCACATTGCGAT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATT-T-TCATTTCGATTTGCATTTCACATTGCGAT
4958255 TTTCATT
64 TTTCATT
* * *
4958262 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-TT-CGATTTGCATTTCACATTGCGAT
4958327 T
64 T
4958328 CTCTCGTTGC
Statistics
Matches: 126, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
70 4 0.03
71 3 0.02
72 91 0.72
73 16 0.13
74 6 0.05
75 6 0.05
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (70 bp):
TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGATTTGCATTTCACATTGCGATTT
TCATT
Found at i:4958349 original size:33 final size:33
Alignment explanation
Indices: 4958195--4958341 Score: 161
Period size: 33 Copynumber: 4.2 Consensus size: 33
4958185 TCATTTCGCA
*
4958195 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCA
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
* * *
4958229 TTTCGATTTTCATTTCACATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
4958265 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
4958301 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
4958334 TTGCGATT
1 TTGCGATT
4958342 GTAATTTCCG
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
32 1 0.01
33 31 0.33
34 28 0.30
35 3 0.03
36 5 0.05
37 3 0.03
38 14 0.15
39 9 0.10
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:4960856 original size:24 final size:24
Alignment explanation
Indices: 4960822--4960868 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4960812 CTGAAACATC
4960822 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
4960846 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
4960869 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:4961586 original size:20 final size:20
Alignment explanation
Indices: 4961561--4961746 Score: 250
Period size: 20 Copynumber: 9.3 Consensus size: 20
4961551 AAATTTCAGT
* * *
4961561 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
4961581 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
4961601 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
4961621 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
4961641 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
4961661 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
4961681 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4961701 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
4961721 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
4961741 GTTGCG
1 GTTGCG
4961747 TACTACTTCT
Statistics
Matches: 152, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
19 3 0.02
20 147 0.97
21 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:4962290 original size:20 final size:20
Alignment explanation
Indices: 4962262--4962470 Score: 222
Period size: 20 Copynumber: 10.4 Consensus size: 20
4962252 AAATTTCAGT
* * *
4962262 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
4962282 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
4962302 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
4962322 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
4962342 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
4962362 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
4962382 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
4962402 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
4962422 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
4962442 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
4962462 GTTGCGATT
1 GTTGCGATT
4962471 CTGGAAAATC
Statistics
Matches: 165, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 164 0.99
21 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:4962447 original size:701 final size:701
Alignment explanation
Indices: 4961046--4962432 Score: 2693
Period size: 701 Copynumber: 2.0 Consensus size: 701
4961036 GACCCAACAA
4961046 TACTACTTCTAGGTTCAACAACATACAATGTAACATCATCTTGTGAAACACTAATGTAAGCAATG
1 TACTACTTCTAGGTTCAACAACATACAATGTAACATCATCTTGTGAAACACTAATGTAAGCAATG
4961111 AATCGTTCAACATCTTCATTGTCGGTTAACAAATAAACTTTACCATTTCTCTGATAAGATAGCCT
66 AATCGTTCAACATCTTCATTGTCGGTTAACAAATAAACTTTACCATTTCTCTGATAAGATAGCCT
4961176 AAATCCACTTAGGGGCTCTAAATTCAATTTCTTTGAAACACGTAGCATTAGAGTTTCATAAGTTA
131 AAATCCACTTAGGGGCTCTAAATTCAATTTCTTTGAAACACGTAGCATTAGAGTTTCATAAGTTA
*
4961241 ACTTTTGTAAAGACAATTTTAGTTGAAGATTCATGGGTAAAGGCATATATTGTAAAACACCATGA
196 AATTTTGTAAAGACAATTTTAGTTGAAGATTCATGGGTAAAGGCATATATTGTAAAACACCATGA
4961306 ACATTATCCCATGACCCTCCAAAACACAAATCTATCCAAACATGATCAACATTAGATGATTTCAT
261 ACATTATCCCATGACCCTCCAAAACACAAATCTATCCAAACATGATCAACATTAGATGATTTCAT
4961371 GGTTGTAAATTAATTTACTAAACAGACGAGCTGCGAAACTAAAACCTGTTGCCGGATTGGGAAGG
326 GGTTGTAAATTAATTTACTAAACAGACGAGCTGCGAAACTAAAACCTGTTGCCGGATTGGGAAGG
*
4961436 ATGTCGTTGGATATAGGAACGGATGTCGCCGGAGAGAGTGATAGATGGAGATGGAATGAGTTGCG
391 ATGTCGTTGGATATAGGAACGGATGTCGCCGGAGAGAGTGATAGATGGAGATGAAATGAGTTGCG
4961501 ATTTAGGGATTTAGTTTATGATTTGCTGCTGTTGCGTAGTTATATACCCAAAATTTCAGTGTTGC
456 ATTTAGGGATTTAGTTTATGATTTGCTGCTGTTGCGTAGTTATATACCCAAAATTTCAGTGTTGC
4961566 GATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATTCTCGTTGCGATTT
521 GATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATTCTCGTTGCGATTT
4961631 ACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGA
586 ACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGA
* *
4961696 TACGCGTTGCGATTTACGGATACACGTTGCGGTTTACGGATACGCGTTGCG
651 TACACGTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCGTTGCG
4961747 TACTACTTCTAGGTTCAACAACATACAATGTAACATCATCTTGTGAAACACTAATGTAAGCAATG
1 TACTACTTCTAGGTTCAACAACATACAATGTAACATCATCTTGTGAAACACTAATGTAAGCAATG
4961812 AATCGTTCAACATCTTCATTGTCGGTTAACAAATAAACTTTACCATTTCTCTGATAAGATAGCCT
66 AATCGTTCAACATCTTCATTGTCGGTTAACAAATAAACTTTACCATTTCTCTGATAAGATAGCCT
4961877 AAATCCACTTAGGGGCTCTAAATTCAATTTCTTTGAAACACGTAGCATTAGAGTTTCATAAGTTA
131 AAATCCACTTAGGGGCTCTAAATTCAATTTCTTTGAAACACGTAGCATTAGAGTTTCATAAGTTA
4961942 AATTTTGTAAAGACAATTTTAGTTGAAGATTCATGGGTAAAGGCATATATTGTAAAACACCATGA
196 AATTTTGTAAAGACAATTTTAGTTGAAGATTCATGGGTAAAGGCATATATTGTAAAACACCATGA
*
4962007 ACATTCTCCCATGACCCTCCAAAACACAAATCTATCCAAACATGATCAACATTAGATGATTTCAT
261 ACATTATCCCATGACCCTCCAAAACACAAATCTATCCAAACATGATCAACATTAGATGATTTCAT
4962072 GGTTGTAAATTAATTTACTAAACAGACGAGCTGCGAAACTAAAACCTGTTGCCGGATTGGGAAGG
326 GGTTGTAAATTAATTTACTAAACAGACGAGCTGCGAAACTAAAACCTGTTGCCGGATTGGGAAGG
4962137 ATGTCGTTGGATATAGGAACGGATGTCGCCGGAGAGAGTGATAGATGGAGATGAAATGAGTTGCG
391 ATGTCGTTGGATATAGGAACGGATGTCGCCGGAGAGAGTGATAGATGGAGATGAAATGAGTTGCG
*
4962202 ATTTAGGGATTTAGTTTATGATTTGCTGCTGTTGCGTAGTTATATACCCAAAATTTCAGTGTTGT
456 ATTTAGGGATTTAGTTTATGATTTGCTGCTGTTGCGTAGTTATATACCCAAAATTTCAGTGTTGC
4962267 GATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATTCTCGTTGCGATTT
521 GATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATTCTCGTTGCGATTT
*
4962332 ACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCTATTTACGGA
586 ACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGA
* *
4962397 TACACGTTGCGGTTTACGGATACGCGTTGCGATTTA
651 TACACGTTGCGATTTACGGATACACGTTGCGATTTA
4962433 TGTGTTCGCG
Statistics
Matches: 677, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
701 677 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (701 bp):
TACTACTTCTAGGTTCAACAACATACAATGTAACATCATCTTGTGAAACACTAATGTAAGCAATG
AATCGTTCAACATCTTCATTGTCGGTTAACAAATAAACTTTACCATTTCTCTGATAAGATAGCCT
AAATCCACTTAGGGGCTCTAAATTCAATTTCTTTGAAACACGTAGCATTAGAGTTTCATAAGTTA
AATTTTGTAAAGACAATTTTAGTTGAAGATTCATGGGTAAAGGCATATATTGTAAAACACCATGA
ACATTATCCCATGACCCTCCAAAACACAAATCTATCCAAACATGATCAACATTAGATGATTTCAT
GGTTGTAAATTAATTTACTAAACAGACGAGCTGCGAAACTAAAACCTGTTGCCGGATTGGGAAGG
ATGTCGTTGGATATAGGAACGGATGTCGCCGGAGAGAGTGATAGATGGAGATGAAATGAGTTGCG
ATTTAGGGATTTAGTTTATGATTTGCTGCTGTTGCGTAGTTATATACCCAAAATTTCAGTGTTGC
GATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATTCTCGTTGCGATTT
ACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGA
TACACGTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCGTTGCG
Found at i:4968473 original size:18 final size:18
Alignment explanation
Indices: 4968450--4968486 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4968440 GCCTCCTCCT
*
4968450 CCTCTTCCACGGCCACCC
1 CCTCTTCCACCGCCACCC
4968468 CCTCTTCCACCGCCACCC
1 CCTCTTCCACCGCCACCC
4968486 C
1 C
4968487 TTCCACCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.65, G:0.08, T:0.16
Consensus pattern (18 bp):
CCTCTTCCACCGCCACCC
Found at i:4972725 original size:21 final size:21
Alignment explanation
Indices: 4972699--4972738 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4972689 AATGTTAAAA
* *
4972699 AAATTAATATTTTAGGTAGTG
1 AAATTAACATTTTAAGTAGTG
4972720 AAATTAACATTTTAAGTAG
1 AAATTAACATTTTAAGTAG
4972739 CGCTCCACCG
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:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (21 bp):
AAATTAACATTTTAAGTAGTG
Found at i:4979294 original size:33 final size:32
Alignment explanation
Indices: 4979227--4979340 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 32
4979217 TTTTTACCCT
*
4979227 AAACCCGAACCCGACCTGAATAGCACACTT-AAA
1 AAACCCG-ACCCGACC-GAATATCACACTTAAAA
4979260 AAACCCGACCCGACTCGAATATCACACTTAAAA
1 AAACCCGACCCGAC-CGAATATCACACTTAAAA
* * *
4979293 AAACCCAATCCGACCCAAATATCA-AGCTTAAAA
1 AAACCCGACCCGA-CCGAATATCACA-CTTAAAA
*
4979326 AACCCCGACCCGACC
1 AAACCCGACCCGACC
4979341 TGAACCCAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
32 22 0.31
33 47 0.67
34 1 0.01
ACGTcount: A:0.42, C:0.36, G:0.10, T:0.12
Consensus pattern (32 bp):
AAACCCGACCCGACCGAATATCACACTTAAAA
Found at i:4979370 original size:30 final size:31
Alignment explanation
Indices: 4979335--4979406 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
4979325 AAACCCCGAC
* *
4979335 CCGACCTGAACCCAAAATTTT-TAAAAAAAT
1 CCGACCCGAACCCAAAATTTTAAAAAAAAAT
* *
4979365 CCGACCCGATCTCAAAATTTTAAAAAAAAAAT
1 CCGACCCGAACCCAAAATTTT-AAAAAAAAAT
4979397 CCGACCCGAA
1 CCGACCCGAA
4979407 TACCAAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 18 0.51
32 17 0.49
ACGTcount: A:0.46, C:0.26, G:0.08, T:0.19
Consensus pattern (31 bp):
CCGACCCGAACCCAAAATTTTAAAAAAAAAT
Found at i:4989024 original size:20 final size:20
Alignment explanation
Indices: 4988984--4989023 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4988974 GCTTGATTCA
*
4988984 TGGGCTTAATGTTTGTTTTT
1 TGGGCTTAATCTTTGTTTTT
*
4989004 TGGGCTTGATCTTT-TTTTT
1 TGGGCTTAATCTTTGTTTTT
4989023 T
1 T
4989024 TAAATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.07, C:0.07, G:0.23, T:0.62
Consensus pattern (20 bp):
TGGGCTTAATCTTTGTTTTT
Found at i:4989625 original size:23 final size:22
Alignment explanation
Indices: 4989598--4989653 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
4989588 TATTTAATAC
4989598 ACATTAGTCATTTAATGAGTCAA
1 ACATTA-TCATTTAATGAGTCAA
*
4989621 ACATTTATTATTTAATGAGTCAA
1 ACA-TTATCATTTAATGAGTCAA
4989644 ATCATT-TCAT
1 A-CATTATCAT
4989654 AATTTGGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 3 0.10
23 21 0.72
24 5 0.17
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (22 bp):
ACATTATCATTTAATGAGTCAA
Found at i:4990761 original size:22 final size:23
Alignment explanation
Indices: 4990727--4990777 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
4990717 ATATATTTAT
4990727 TAAT-ATTTCTAATAATAAAATA
1 TAATAATTTCTAATAATAAAATA
* *
4990749 TAATAATTT-TAATATTATAATA
1 TAATAATTTCTAATAATAAAATA
*
4990771 AAATAAT
1 TAATAAT
4990778 CAATTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATAATTTCTAATAATAAAATA
Found at i:4991627 original size:21 final size:21
Alignment explanation
Indices: 4991603--4991666 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
4991593 GCAAATTCGC
4991603 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* ** *
4991624 GTTGAAAATCACGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
4991644 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
4991665 GT
1 GT
4991667 CTACAATGTC
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:4991720 original size:20 final size:20
Alignment explanation
Indices: 4991695--4991764 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
4991685 TTTTCAAATT
4991695 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
4991715 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
4991736 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
4991756 CGTTGCGAT
1 CGTTGCGAT
4991765 AGTCTACAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 24 0.62
21 15 0.38
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:4991743 original size:41 final size:41
Alignment explanation
Indices: 4991690--4991853 Score: 164
Period size: 41 Copynumber: 4.1 Consensus size: 41
4991680 GAGCTTTTTC
4991690 AAAT-TCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGA
1 AAATGTCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-A
4991730 AAATCG-CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTA
1 AAAT-GTCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTA
* * *
4991771 CAATGTCGTTGCGATTTTCTAAATT--CGTTGCGATAGTCTA
1 AAATGTCGTTGCGATTTTC-CATTTCGCGTTGCGATAGTCTA
** * *
4991811 CAGTTGTTGTTGCGATTTTCCAAATT--CGTTGCGATAGT-TA
1 -AAATGTCGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTA
4991851 AAA
1 AAA
4991854 AAAAGATTTT
Statistics
Matches: 107, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.01
40 22 0.21
41 80 0.75
42 4 0.04
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (41 bp):
AAATGTCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTA
Found at i:4991795 original size:101 final size:101
Alignment explanation
Indices: 4991607--4991804 Score: 353
Period size: 101 Copynumber: 2.0 Consensus size: 101
4991597 ATTCGCGTTG
4991607 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
1 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
*
4991672 ATGTCGTTGAGCTTTTTCAAATTCGTTGCGATTTTC
66 ATGTCGTTGAGATTTTTCAAATTCGTTGCGATTTTC
*
4991708 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
1 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
*
4991773 ATGTCGTTGCGA-TTTTCTAAATTCGTTGCGAT
66 ATGTCGTTGAGATTTTTC-AAATTCGTTGCGAT
4991805 AGTCTACAGT
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
100 5 0.05
101 88 0.95
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (101 bp):
CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
ATGTCGTTGAGATTTTTCAAATTCGTTGCGATTTTC
Found at i:4991800 original size:19 final size:21
Alignment explanation
Indices: 4991756--4991848 Score: 86
Period size: 19 Copynumber: 4.6 Consensus size: 21
4991746 TTCCATTTCG
4991756 CGTTGCGATAGTCTACAATGT
1 CGTTGCGATAGTCTACAATGT
**
4991777 CGTTGCGATTTTCTA-AAT-T
1 CGTTGCGATAGTCTACAATGT
*
4991796 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACA-ATGT
* ** *
4991818 TGTTGCGATTTTCCA-AAT-T
1 CGTTGCGATAGTCTACAATGT
4991837 CGTTGCGATAGT
1 CGTTGCGATAGT
4991849 TAAAAAAAAG
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
19 24 0.43
20 5 0.09
21 15 0.27
22 12 0.21
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAATGT
Found at i:4992464 original size:6 final size:6
Alignment explanation
Indices: 4992443--4992474 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4992433 TCTCGTCTCG
4992443 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
4992475 ATACGTGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.00, C:0.19, G:0.53, T:0.28
Consensus pattern (6 bp):
GGTCGT
Done.