Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 38
Found at i:4846889 original size:40 final size:41
Alignment explanation
Indices: 4846584--4846889 Score: 155
Period size: 41 Copynumber: 7.4 Consensus size: 41
4846574 CAAGTGTATA
* * * * *
4846584 GCGGCGTTTTAATAAAAACGCCACTAAAGTACGAGTCT-TT
1 GCGGCGTTTTTATAAAAATGCCACTAAACTACTACTCTATT
* * *
4846624 AGCGGCGTTTTTATAAAAACGCCACTAAAGTA-TGAGTCT-TT
1 -GCGGCGTTTTTATAAAAATGCCACTAAACTACT-ACTCTATT
* * * *
4846665 AGCGGCGTTTGTATAAAAACGCCACTAAATTA-TGAGTCT-TT
1 -GCGGCGTTTTTATAAAAATGCCACTAAACTACT-ACTCTATT
* * * * * * * *
4846706 AGCGGTGTTTGTAAACACAAACGCCACTATAGTACATA-TGTATA
1 -GCGGCGTTTTTATA-A-AAATGCCACTAAACTAC-TACTCTATT
* * * * * * *
4846750 ACGGCGTTTGTATAAAAACGCCACTAAAGTACAATTCTATA
1 GCGGCGTTTTTATAAAAATGCCACTAAACTACTACTCTATT
* * *
4846791 GCGGCGTTTGTATAAAAATGCCACTAAAGTACTACTCTTTT
1 GCGGCGTTTTTATAAAAATGCCACTAAACTACTACTCTATT
* *
4846832 GCGGCGTTTGTT-GAAAAATGCCACT-ATCTA-TGAAC-CTATT
1 GCGGCGTTT-TTATAAAAATGCCACTAAACTACT--ACTCTATT
4846872 GCGGCGTTTTTATAAAAA
1 GCGGCGTTTTTATAAAAA
4846890 CGCTGCTAAA
Statistics
Matches: 226, Mismatches: 28, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.01
40 22 0.10
41 168 0.74
42 3 0.01
43 27 0.12
44 2 0.01
45 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (41 bp):
GCGGCGTTTTTATAAAAATGCCACTAAACTACTACTCTATT
Found at i:4852227 original size:3 final size:3
Alignment explanation
Indices: 4852213--4852272 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
4852203 CAAAATGTAT
*
4852213 TAA TAA -AA TAA TAA TAA TAC TAA TATA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
4852258 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
4852273 AATTTAAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4853378 original size:42 final size:42
Alignment explanation
Indices: 4853298--4853379 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
4853288 ATTGTGATTT
* * * **
4853298 CTTAAATTTAAATATTAATATGGTATGTCTTGTTGTTCATCG
1 CTTAAATTCAAATATTAATATAGTAAGTCTTGCGGTTCATCG
*
4853340 CTTAAATTCAAATATTAATTTAGTAAGTCTTGCGGTTCAT
1 CTTAAATTCAAATATTAATATAGTAAGTCTTGCGGTTCAT
4853380 TAAATACGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (42 bp):
CTTAAATTCAAATATTAATATAGTAAGTCTTGCGGTTCATCG
Found at i:4857223 original size:185 final size:185
Alignment explanation
Indices: 4856872--4857264 Score: 605
Period size: 185 Copynumber: 2.1 Consensus size: 185
4856862 TTTTTTAATT
* * *
4856872 TATATAA-AAATTAAATATTTTATAATTAAAAAACAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTATAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAAT
* * * *
4856936 TATAAAATATAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAAGTTAT
66 TATAAAATAAAAAATTTATATAAATATTTTAATTAATTAATATTGATTTAGGCTTAAAAAGTTAT
* *
4857001 TGAATCTTAAATTATTAATTGTGTTTTAAATGGTTTGGGGTGAGCCCATATGTTA
131 TGAATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
* * *
4857056 TATATTATATATTTAATATTTTTTAATTCAGAAAAATAGTTTACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATT-A-AAAAACAGTTTACAATTAATTTAAATAATATATA
*
4857121 ATTATAAAATAAAAAATTTATATAAA-ATTTTAATTAATTAATATTGATTTAGGCTT-AAAATTT
64 ATTATAAAATAAAAAATTTATATAAATATTTTAATTAATTAATATTGATTTAGGCTTAAAAAGTT
4857184 ATTCG-ATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
129 ATT-GAATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
*
4857241 TATATAATATATTTAAAATTTTAT
1 TATATAATATATTTAATATTTTAT
4857265 TTCGGTTAAT
Statistics
Matches: 189, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
184 6 0.03
185 97 0.51
186 30 0.16
187 56 0.30
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTATAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAAATTTATATAAATATTTTAATTAATTAATATTGATTTAGGCTTAAAAAGTTAT
TGAATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
Found at i:4858403 original size:18 final size:18
Alignment explanation
Indices: 4858380--4858416 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4858370 TTGACTTTTT
4858380 TGTCAAAGTCAACGGACA
1 TGTCAAAGTCAACGGACA
4858398 TGTCAAAGTCAACGGACA
1 TGTCAAAGTCAACGGACA
4858416 T
1 T
4858417 ATCGGTTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (18 bp):
TGTCAAAGTCAACGGACA
Found at i:4860928 original size:3 final size:3
Alignment explanation
Indices: 4860920--4860968 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
4860910 ATATTTATAC
* * *
4860920 TAT TAT TAT TAT TAT TGT TAT TGT TAT TGT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4860968 T
1 T
4860969 TGTGCGTTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4864642 original size:20 final size:19
Alignment explanation
Indices: 4864619--4864665 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
4864609 CGATATACCA
4864619 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
4864639 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
4864659 GGTAAAA
1 GGTAAAA
4864666 CGTTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:4864767 original size:181 final size:182
Alignment explanation
Indices: 4864407--4864879 Score: 714
Period size: 181 Copynumber: 2.6 Consensus size: 182
4864397 GATCCAAATT
* * * **
4864407 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAATTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
4864472 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * * *
4864537 GTGAATTTAAAAGAGAAGCATTTTTAAATCATATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCATATAAAGTGTCAATACTTTAA
*
4864589 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
4864654 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTTGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** * *
4864718 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCAATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCATATAAAGTGTCAATACTTTAA
* * *
4864770 AAAAATATAACGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
4864835 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
4864880 CGTAAGTAAG
Statistics
Matches: 264, Mismatches: 27, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
181 166 0.63
182 98 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCATATAAAGTGTCAATACTTTAA
Found at i:4864823 original size:20 final size:19
Alignment explanation
Indices: 4864800--4864846 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
4864790 CGATATAACA
4864800 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
4864820 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
4864840 GGTAAAA
1 GGTAAAA
4864847 CGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:4864851 original size:17 final size:19
Alignment explanation
Indices: 4864811--4864851 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
4864801 GTAAAAATAT
*
4864811 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
4864831 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
4864848 GATA
1 GATA
4864852 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:4867065 original size:21 final size:21
Alignment explanation
Indices: 4867039--4867103 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
4867029 AAGACAATCA
*
4867039 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
4867060 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
4867081 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
4867102 AG
1 AG
4867104 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:4867179 original size:33 final size:33
Alignment explanation
Indices: 4867137--4867202 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
4867127 AAATAGATGG
*
4867137 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
4867170 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
4867203 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:4868945 original size:19 final size:19
Alignment explanation
Indices: 4868921--4868969 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
4868911 AATGTAGGGT
4868921 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
4868940 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
4868959 TAATTTTGTAT
1 TAATTTTGTAT
4868970 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:4869551 original size:200 final size:200
Alignment explanation
Indices: 4869203--4869966 Score: 1305
Period size: 200 Copynumber: 3.8 Consensus size: 200
4869193 ATTTTACAAT
*
4869203 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
4869268 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACTGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
4869333 AGGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
4869398 AATGA
196 AATGA
* *
4869403 ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
4869468 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
4869533 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
4869598 AATGA
196 AATGA
4869603 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * *
4869668 TGAAACCCATAAGTATAATGTAATAGGTGATTTTTCAATCTAACCGATACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * * *
4869733 GTGAGAGAATATGTCTAAATAATGTGTCGACACTTTTATAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
4869798 AATGA
196 AATGA
* *
4869803 ATGGCAAACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
4869868 CGAAACCTAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
4869933 ATGGGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTATCGACACT
4869967 GTTTAATGTT
Statistics
Matches: 532, Mismatches: 31, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
200 529 0.99
201 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:4870598 original size:2 final size:2
Alignment explanation
Indices: 4870591--4870616 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4870581 ATGGGGAAGG
4870591 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
4870617 CTGGAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4871481 original size:6 final size:6
Alignment explanation
Indices: 4871426--4871477 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
4871416 CAAGCGGTCA
* * * *
4871426 ATGAAG ATGAAG ATGACG ATGAAG ATGACG ATGAAG ATGATG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
4871474 ATGA
1 ATGA
4871478 TGATCCAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.42, C:0.04, G:0.33, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:4871481 original size:12 final size:12
Alignment explanation
Indices: 4871426--4871477 Score: 77
Period size: 12 Copynumber: 4.3 Consensus size: 12
4871416 CAAGCGGTCA
*
4871426 ATGAAGATGAAG
1 ATGACGATGAAG
4871438 ATGACGATGAAG
1 ATGACGATGAAG
4871450 ATGACGATGAAG
1 ATGACGATGAAG
* *
4871462 ATGATGATGATG
1 ATGACGATGAAG
4871474 ATGA
1 ATGA
4871478 TGATCCAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.42, C:0.04, G:0.33, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:4873054 original size:183 final size:183
Alignment explanation
Indices: 4872691--4873279 Score: 1000
Period size: 183 Copynumber: 3.2 Consensus size: 183
4872681 CAAAGTTTTT
*
4872691 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
** * * * *
4872756 CAAAAAGTGTCGAT-TGAAAAAACATCGAAACCCATAATTATAATGTAATAGACAATTTTGTAAT
66 CAAAAAGTGTCGATAT--TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
* *
4872820 ATAATCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
4872875 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * *
4872940 CAAAAGGTGTCGATATTTACACATCGGAACCTAGAATTATAATGTAATAGATAATTTTATAATAT
66 CAAAAAGTGTCGATATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
4873005 AACCGGTATAAATATACCGGTTTTATGAGTGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
4873058 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
4873123 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGATATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
4873188 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
4873241 ACACTTTTTAATTTTGTATCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
4873280 TATAATGTAC
Statistics
Matches: 382, Mismatches: 22, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
183 305 0.80
184 76 0.20
185 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGATATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:4873366 original size:120 final size:120
Alignment explanation
Indices: 4873153--4873399 Score: 422
Period size: 120 Copynumber: 2.1 Consensus size: 120
4873143 ACATCGGAAC
*
4873153 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAAGAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
4873218 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTATCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTATCGGTACTTTATGT
* * *
4873273 CCAGAATTATAATGTACGAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAAGAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* * *
4873338 GAATAGGTCTACAACCTATGTCGACACTTTTTTATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTATCGGTACTTTATGT
4873393 CCAGAAT
1 CCAGAAT
4873400 GGAAGAAAAA
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAAGAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTATCGGTACTTTATGT
Found at i:4873519 original size:303 final size:303
Alignment explanation
Indices: 4872972--4873560 Score: 1079
Period size: 303 Copynumber: 1.9 Consensus size: 303
4872962 ATCGGAACCT
* *
4872972 AGAATTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGTGA
1 AGAATTATAATGTAAGAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
4873037 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
4873102 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
131 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
* *
4873167 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
196 TAATAGATAATTTTGTAATATAACCAGCATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
*
4873232 CCTATATCGACACTTTTTAATTTTGTATCGGTACTTTATGTCC
261 CCTATATCGACACTTTTTAATATTGTATCGGTACTTTATGTCC
* * * *
4873275 AGAATTATAATGTACGAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGA
1 AGAATTATAATGTAAGAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
* *
4873340 ATAGGTCTACAACCTATGTCGACACTTTTTTATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
4873405 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
131 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
4873470 TAATAGATAATTTTGTAATATAACCAGCATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
196 TAATAGATAATTTTGTAATATAACCAGCATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
4873535 CCTATATCGACACTTTTTAATATTGT
261 CCTATATCGACACTTTTTAATATTGT
4873561 GTCGCTAATT
Statistics
Matches: 275, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
303 275 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (303 bp):
AGAATTATAATGTAAGAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
TAATAGATAATTTTGTAATATAACCAGCATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
CCTATATCGACACTTTTTAATATTGTATCGGTACTTTATGTCC
Found at i:4877014 original size:87 final size:87
Alignment explanation
Indices: 4876910--4877159 Score: 455
Period size: 87 Copynumber: 2.9 Consensus size: 87
4876900 AAATAGGTCA
* *
4876910 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
4876975 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
4876997 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
4877062 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
*
4877084 ATATAAGCGCTATCTATTACATTATATAAGCATTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
**
4877149 CTGGTTAAATA
66 CCCGTTAAATA
4877160 ATATAACATA
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 158 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACCTATTTTATT
Found at i:4877044 original size:23 final size:23
Alignment explanation
Indices: 4876994--4877038 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4876984 TACCTATTTT
* *
4876994 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
4877017 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
4877039 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:4877536 original size:32 final size:31
Alignment explanation
Indices: 4877486--4877548 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
4877476 ATGGGTTTTA
* *
4877486 TGAATGGTGCGTCCTAGGGAACGCACCTCCCT
1 TGAATGGCGCATCCTAGGGAACGCACC-CCCT
* *
4877518 TGAATGGCGCATCGTAGGGAACTCACCCCCT
1 TGAATGGCGCATCCTAGGGAACGCACCCCCT
4877549 ATGTCTGACG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.21, C:0.32, G:0.27, T:0.21
Consensus pattern (31 bp):
TGAATGGCGCATCCTAGGGAACGCACCCCCT
Found at i:4880727 original size:18 final size:18
Alignment explanation
Indices: 4880706--4880749 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4880696 ATTCTCATAT
*
4880706 TTATCCTCATCCTCCTCC
1 TTATCCTCATCCTCATCC
* * *
4880724 TTATCATCTTTCTCATCC
1 TTATCCTCATCCTCATCC
4880742 TTATCCTC
1 TTATCCTC
4880750 CTCGTCCTCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.14, C:0.41, G:0.00, T:0.45
Consensus pattern (18 bp):
TTATCCTCATCCTCATCC
Found at i:4880767 original size:36 final size:38
Alignment explanation
Indices: 4880678--4880767 Score: 94
Period size: 36 Copynumber: 2.4 Consensus size: 38
4880668 TTATATGTTA
*
4880678 CTCCTCATCGTCATCATCATTCTCATATTTATCCTCATC
1 CTCCTCATCGTCATCAT-ATTCTCATACTTATCCTCATC
* ** * *
4880717 CTCCTCCTTATCATC-T-TTCTCATCCTTATCCTCCTC
1 CTCCTCATCGTCATCATATTCTCATACTTATCCTCATC
*
4880753 GTCCTCATCGTCATC
1 CTCCTCATCGTCATC
4880768 GTCACTCTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
36 28 0.68
38 1 0.02
39 12 0.29
ACGTcount: A:0.16, C:0.40, G:0.03, T:0.41
Consensus pattern (38 bp):
CTCCTCATCGTCATCATATTCTCATACTTATCCTCATC
Found at i:4882618 original size:19 final size:19
Alignment explanation
Indices: 4882573--4882645 Score: 51
Period size: 19 Copynumber: 3.6 Consensus size: 19
4882563 AAATTATTTA
4882573 AATAAATTTAAATAAATAAATTCT
1 AATAAATTTAAAT-AAT--A-T-T
4882597 AAT-AATTTAAATAATATAT
1 AATAAATTTAAATAATAT-T
* *
4882616 AATGAATTT-CATAATATT
1 AATAAATTTAAATAATATT
*
4882634 CATAAATTTAAA
1 AATAAATTTAAA
4882646 AAGCAAATAG
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 8 0.19
19 13 0.31
20 6 0.14
22 3 0.07
23 9 0.21
24 3 0.07
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (19 bp):
AATAAATTTAAATAATATT
Found at i:4882802 original size:19 final size:20
Alignment explanation
Indices: 4882778--4882848 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 20
4882768 AGTTTACAAT
*
4882778 TAAATAATTAAATAAAA-AA
1 TAAATAATAAAATAAAATAA
*
4882797 TAAATACTAAAATAAAATAA
1 TAAATAATAAAATAAAATAA
* *
4882817 T-AATAA-AATAATAAATTACT
1 TAAATAATAA-AATAAAATA-A
4882837 TAAATAATAAAA
1 TAAATAATAAAA
4882849 ATTTTAATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.05
19 27 0.64
20 4 0.10
21 7 0.17
22 2 0.05
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAATAATAAAATAAAATAA
Found at i:4882809 original size:8 final size:8
Alignment explanation
Indices: 4882788--4882848 Score: 56
Period size: 8 Copynumber: 7.9 Consensus size: 8
4882778 TAAATAATTA
4882788 AATAAAA-
1 AATAAAAT
4882795 AAT-AAAT
1 AATAAAAT
*
4882802 ACTAAAAT
1 AATAAAAT
4882810 AA-AATAAT
1 AATAA-AAT
4882818 AATAAAAT
1 AATAAAAT
*
4882826 AATAAATT
1 AATAAAAT
* *
4882834 ACTTAAAT
1 AATAAAAT
4882842 AATAAAA
1 AATAAAA
4882849 ATTTTAATGA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
6 3 0.07
7 7 0.17
8 30 0.71
9 2 0.05
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAAAAT
Found at i:4882821 original size:11 final size:11
Alignment explanation
Indices: 4882780--4882830 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
4882770 TTTACAATTA
*
4882780 AATAATTAAAT
1 AATAATAAAAT
*
4882791 AAAAAATAAATACT
1 -AATAATAAA-A-T
4882805 AA-AATAAAAT
1 AATAATAAAAT
4882815 AATAATAAAAT
1 AATAATAAAAT
4882826 AATAA
1 AATAA
4882831 ATTACTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 3 0.09
11 14 0.41
12 13 0.38
13 3 0.09
14 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:4882823 original size:16 final size:17
Alignment explanation
Indices: 4882778--4882827 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
4882768 AGTTTACAAT
*
4882778 TAAATAATTAAATAAAAAA
1 TAAATAA-TAAA-ATAAAA
*
4882797 TAAATACTAAAATAAAA
1 TAAATAATAAAATAAAA
4882814 T-AATAATAAAATAA
1 TAAATAATAAAATAA
4882828 TAAATTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 12 0.43
17 6 0.21
18 4 0.14
19 6 0.21
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATAATAAAATAAAA
Found at i:4883950 original size:2 final size:2
Alignment explanation
Indices: 4883938--4883993 Score: 103
Period size: 2 Copynumber: 27.5 Consensus size: 2
4883928 TGGTTTTAAA
4883938 AT AT AT CAT 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
4883981 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
4883994 ATGACAAGTG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 51 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4884371 original size:20 final size:24
Alignment explanation
Indices: 4884326--4884375 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 24
4884316 TTCTTAACTC
4884326 AATTTATTTTTATTAAAATATATA
1 AATTTATTTTTATTAAAATATATA
4884350 AATTTA-TTTTA-TAAAA-AT-TA
1 AATTTATTTTTATTAAAATATATA
4884370 AATTTA
1 AATTTA
4884376 GTTCAAACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.31
21 2 0.08
22 5 0.19
23 5 0.19
24 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
AATTTATTTTTATTAAAATATATA
Found at i:4884697 original size:30 final size:30
Alignment explanation
Indices: 4884663--4884719 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4884653 TGATAAATTA
4884663 TAATTTT-GTACTTAAATTATCATTTTTGTT
1 TAATTTTAGTACTTAAATT-TCATTTTTGTT
* *
4884693 TAATTTTAGTATTTAAATTTTATTTTT
1 TAATTTTAGTACTTAAATTTCATTTTT
4884720 CTAAATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (30 bp):
TAATTTTAGTACTTAAATTTCATTTTTGTT
Found at i:4885372 original size:25 final size:23
Alignment explanation
Indices: 4885335--4885387 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 23
4885325 GATAATATAA
**
4885335 AAATAATATTATTTCAAATAAAT
1 AAATAATATTATTAAAAATAAAT
4885358 AAATAATATGATATTAAAAATAAAT
1 AAATAATAT--TATTAAAAATAAAT
4885383 AAATA
1 AAATA
4885388 TTTCAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 9 0.35
25 17 0.65
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATAATATTATTAAAAATAAAT
Found at i:4887898 original size:5 final size:5
Alignment explanation
Indices: 4887888--4888080 Score: 386
Period size: 5 Copynumber: 38.6 Consensus size: 5
4887878 TGATTGGGTG
4887888 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
4887938 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
4887988 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
4888038 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA
4888081 TTTTCAATTA
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 188 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:4894931 original size:194 final size:195
Alignment explanation
Indices: 4894596--4894954 Score: 558
Period size: 194 Copynumber: 1.8 Consensus size: 195
4894586 TGGAAATTTG
*
4894596 TATCAATACTTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAGAATTGCAA
1 TATCAATACTTTTATAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAGAATTGCAA
* * *
4894661 TAATAGCGCCCATAAAAGTATTGATACTTTAGAAGCATGTATTGATACATAACAATATAACATGT
66 TAATAGCGCCCATAAAAGTATTGATACTTTAGAAACATGTATCGATACATAACAATATAACAGGT
* *
4894726 TAAAATATGACAAAATCAGTTTCAATATGAAAAAACCAGTAAAGAGCTATCGGATATGTTGCAAA
131 TAAAATATGACAAAACCAGCTTCAATATGAAAAAACCAGTAAAGAGCTATCGGATATGTTGCAAA
* * * * * *
4894791 TATCGATACTTTTATAAGTATATGTATCATATTATCGATACTTTATGAATTTAAAATAATTGCAA
1 TATCAATACTTTTATAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAGAATTGCAA
* * *
4894856 TAATAGCTCCTAT-AAAGTATTGATACTTTAGAAACATGTATCGATACATGACAATATAACAGGT
66 TAATAGCGCCCATAAAAGTATTGATACTTTAGAAACATGTATCGATACATAACAATATAACAGGT
* *
4894920 TAAAATATGACAAAACCGGCTTCAATATGACAAAA
131 TAAAATATGACAAAACCAGCTTCAATATGAAAAAA
4894955 TCAGCTTCAA
Statistics
Matches: 147, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
194 78 0.53
195 69 0.47
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (195 bp):
TATCAATACTTTTATAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAGAATTGCAA
TAATAGCGCCCATAAAAGTATTGATACTTTAGAAACATGTATCGATACATAACAATATAACAGGT
TAAAATATGACAAAACCAGCTTCAATATGAAAAAACCAGTAAAGAGCTATCGGATATGTTGCAAA
Found at i:4894948 original size:20 final size:20
Alignment explanation
Indices: 4894923--4894996 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
4894913 AACAGGTTAA
*
4894923 AATATGACAAAACCGGCTTC
1 AATATGACAAAACCAGCTTC
*
4894943 AATATGACAAAATCAGCTTC
1 AATATGACAAAACCAGCTTC
*
4894963 AATATGACAAAATCAGCTTC
1 AATATGACAAAACCAGCTTC
4894983 AATATGACAAAACC
1 AATATGACAAAACC
4894997 GATAAAGCGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.46, C:0.22, G:0.11, T:0.22
Consensus pattern (20 bp):
AATATGACAAAACCAGCTTC
Found at i:4895675 original size:19 final size:19
Alignment explanation
Indices: 4895653--4895724 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
4895643 CGATTAGAGT
*
4895653 TAGAAAATGATATTATAGG
1 TAGAAAATAATATTATAGG
* **
4895672 TAGAAAATAAATATCGATACT
1 TAGAAAAT-AATAT-TATAGG
* *
4895693 TA-TATATAATATTATAGG
1 TAGAAAATAATATTATAGG
*
4895711 TAGAAAATGATATT
1 TAGAAAATAATATT
4895725 GTATGTTGTA
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
18 5 0.13
19 21 0.55
20 7 0.18
21 5 0.13
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.35
Consensus pattern (19 bp):
TAGAAAATAATATTATAGG
Found at i:4899017 original size:200 final size:200
Alignment explanation
Indices: 4898672--4899048 Score: 483
Period size: 200 Copynumber: 1.9 Consensus size: 200
4898662 CTTTAAATTT
* *** *
4898672 TAGGTAAATTTACAATGTAAGAGGTAAAAATATATTGGTTTAATGACAAAATGCATAAACATAAA
1 TAGGTAAATTTACAATGTAAGAGGTAAAAAGATACCAGTTTAATGACAAAATACATAAACATAAA
* * * * * *
4898737 GTTTCGATCCTTTTTGTATACGTATCGAAACTTTTTGTCTAGTATGGTTCCCAAACGAGATGCAC
66 GTATCGATACTTTTTGTATACGTATCGAAACATTTTGTCCAATATGGTTCACAAACGAGATGCAC
*
4898802 ACAGAAAGAATCGATACACGTATAAAAAGTATCAATTCTTAAAACTTCAAAACCGATTAATTTAA
131 ACAGAAAGAATCGATACACATATAAAAAGTATCAATTCTTAAAACTTCAAAACCGATTAATTTAA
4898867 AGTAA
196 AGTAA
* * * *
4898872 TAGGTAAATTTACTATGTTAGCA-GTAAAAAGATACCAGTTTAATGACAAGATACATTAACATAA
1 TAGGTAAATTTACAATGTAAG-AGGTAAAAAGATACCAGTTTAATGACAAAATACATAAACATAA
*
4898936 AGTATCGATACTTTTTGTATGA-GTATCGATAA-ATTTTGTCCAATAT-GTATCACAAACTAGAT
65 AGTATCGATACTTTTTGTAT-ACGTATCGA-AACATTTTGTCCAATATGGT-TCACAAACGAGAT
* * ** **
4898998 GCACGCAGAAAGTATCGATACACATATGCAAAGTATTGATTCTTAAAACTT
127 GCACACAGAAAGAATCGATACACATATAAAAAGTATCAATTCTTAAAACTT
4899049 TTAAACAAAT
Statistics
Matches: 150, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
199 2 0.01
200 144 0.96
201 4 0.03
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (200 bp):
TAGGTAAATTTACAATGTAAGAGGTAAAAAGATACCAGTTTAATGACAAAATACATAAACATAAA
GTATCGATACTTTTTGTATACGTATCGAAACATTTTGTCCAATATGGTTCACAAACGAGATGCAC
ACAGAAAGAATCGATACACATATAAAAAGTATCAATTCTTAAAACTTCAAAACCGATTAATTTAA
AGTAA
Found at i:4899191 original size:177 final size:178
Alignment explanation
Indices: 4898877--4899225 Score: 485
Period size: 177 Copynumber: 2.0 Consensus size: 178
4898867 AGTAATAGGT
* * *
4898877 AAATTTACTATGTTAGCAGTAAAAAGATACCAGTTTAATGACAAGATACATTAACATAAAGTATC
1 AAATTTACAATGTTAGCAGTAAAAAGATACCAGTTTAATGACAAAATACATAAACATAAAGTATC
* *
4898942 GATACTTTTTGTATGAGTATCGATAAATTTTGTCCAATATGTATCACAAACTAGATGCACGCAGA
66 GATACGTTTTGTATGAGTATCGATAAATTTTGTCCAATATGTATCACAAACTAGATGCACACAGA
*
4899007 AAGTATCGATACACATATGCA-AAGTATTGATTCTTAAAACTTTTAAAC
131 AAGTATCGATACACATATG-AGAAGTATCGATTCTTAAAACTTTTAAAC
* * *
4899055 AAATTTACAATGTTAGCTA-TAAAAATATACCGGTTTAATGACAAAATACGTAAACATAAAGTAT
1 AAATTTACAATGTTAGC-AGTAAAAAGATACCAGTTTAATGACAAAATACATAAACATAAAGTAT
* * *
4899119 CGATGA-GTTTT-TATGTGTATCGAT-ACTTTTAGTCCAATATGCT-TCACAAATTAGATGCACA
65 CGAT-ACGTTTTGTATGAGTATCGATAAATTTT-GTCCAATATG-TATCACAAACTAGATGCACA
* *
4899180 CATAAAGTATCGATACACGTATGAGAAGTATCGATTCTTAAAACTT
127 CAGAAAGTATCGATACACATATGAGAAGTATCGATTCTTAAAACTT
4899226 CGAAAATTGA
Statistics
Matches: 152, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
176 6 0.04
177 79 0.52
178 65 0.43
179 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (178 bp):
AAATTTACAATGTTAGCAGTAAAAAGATACCAGTTTAATGACAAAATACATAAACATAAAGTATC
GATACGTTTTGTATGAGTATCGATAAATTTTGTCCAATATGTATCACAAACTAGATGCACACAGA
AAGTATCGATACACATATGAGAAGTATCGATTCTTAAAACTTTTAAAC
Found at i:4899372 original size:378 final size:378
Alignment explanation
Indices: 4898677--4899390 Score: 932
Period size: 378 Copynumber: 1.9 Consensus size: 378
4898667 AATTTTAGGT
* ** * *
4898677 AAATTTACAATGTAAGAGGTAAAAATATATTGGTTTAATGACAAAATGCATAAACATAAAGTTTC
1 AAATTTACAATGTAAGAGATAAAAATATACCGGTTTAATGACAAAATACATAAACATAAAGTATC
** * * * * *
4898742 GATCCTTTTTGTATACGTATCGAAACTTTTTGTCTAGTATGGTTCCCAAACGAGATGCACACAGA
66 GATCAGTTTTGTATACGTATCGAAACTTTTAGTCCAATATGCTTCACAAACGAGATGCACACAGA
*
4898807 AAGAATCGATACACGTATAAAAAGTATCAATTCTTAAAACTTCAAAACCGATTAATTTAAAGTAA
131 AAGAATCGATACACGTATAAAAAGTATCAATTCTTAAAACTTCAAAACCGATTAATATAAAGTAA
* * * *
4898872 TAGGTAAATTTACTATGTTAGCAGTAAAAAGATACCAGTTTAATGACAAGATACATTAACATAAA
196 TAGGTAAATTTACAATGTAAGCAGTAAAAAGATACCAGTTTAATGACAAAATACATAAACATAAA
4898937 GTATCGATACTTTTTGTATGAGTATCGATAAATTTTGTCCAATATGTATCACAAACTAGATGCAC
261 GTATCGATACTTTTTGTATGAGTATCGATAAATTTTGTCCAATATGTATCACAAACTAGATGCAC
4899002 GCAGAAAGTATCGATACACATATGCAAAGTATTGATTCTTAAAACTTTTAAAC
326 GCAGAAAGTATCGATACACATATGCAAAGTATTGATTCTTAAAACTTTTAAAC
* ** *
4899055 AAATTTACAATGTTAGCTATAAAAATATACCGGTTTAATGACAAAATACGTAAACATAAAGTATC
1 AAATTTACAATGTAAGAGATAAAAATATACCGGTTTAATGACAAAATACATAAACATAAAGTATC
* ** * ** *
4899120 GATGAGTTTT-TATGTGTATCGATACTTTTAGTCCAATATGCTTCACAAATTAGATGCACACATA
66 GATCAGTTTTGTATACGTATCGAAACTTTTAGTCCAATATGCTTCACAAACGAGATGCACACAGA
* * * * ** * *
4899184 AAGTATCGATACACGTATGAGAAGTATCGATTCTTAAAACTTCGAAAATTGATTACTATCAAGTA
131 AAGAATCGATACACGTATAAAAAGTATCAATTCTTAAAACTTC-AAAACCGATTAATATAAAGTA
* * * * * **
4899249 GTAGGTAAATTTACAATGTAAGCGGTAAACATATATC-GATTTAATGACAAAATATGTAAACATA
195 ATAGGTAAATTTACAATGTAAGCAGTAAAAAGATACCAG-TTTAATGACAAAATACATAAACATA
* ** * *
4899313 AAGTATCGATACTTGTTT-TATGTGTATCGATACTTTTTGTCTAGTATGCT-TCACAAACTAGAT
259 AAGTATCGATACTT-TTTGTATGAGTATCGATAAATTTTGTCCAATATG-TATCACAAACTAGAT
4899376 GCACGCAGAAAGTAT
322 GCACGCAGAAAGTAT
4899391 TGATGCACGT
Statistics
Matches: 284, Mismatches: 48, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
377 83 0.29
378 197 0.69
379 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (378 bp):
AAATTTACAATGTAAGAGATAAAAATATACCGGTTTAATGACAAAATACATAAACATAAAGTATC
GATCAGTTTTGTATACGTATCGAAACTTTTAGTCCAATATGCTTCACAAACGAGATGCACACAGA
AAGAATCGATACACGTATAAAAAGTATCAATTCTTAAAACTTCAAAACCGATTAATATAAAGTAA
TAGGTAAATTTACAATGTAAGCAGTAAAAAGATACCAGTTTAATGACAAAATACATAAACATAAA
GTATCGATACTTTTTGTATGAGTATCGATAAATTTTGTCCAATATGTATCACAAACTAGATGCAC
GCAGAAAGTATCGATACACATATGCAAAGTATTGATTCTTAAAACTTTTAAAC
Found at i:4901432 original size:36 final size:36
Alignment explanation
Indices: 4901392--4901556 Score: 262
Period size: 36 Copynumber: 4.6 Consensus size: 36
4901382 ATGTTCTTGA
4901392 TTCACTACAT-TTTTGTGAAGGCTTGATTTGCATTGC
1 TTCACTAC-TCTTTTGTGAAGGCTTGATTTGCATTGC
4901428 TTCACTACTCTTTTGTGAAGGCTTGATTTGCATTGC
1 TTCACTACTCTTTTGTGAAGGCTTGATTTGCATTGC
* *
4901464 TTCACTACTATTTTGTGAAGGCTTGATTTGCATTTC
1 TTCACTACTCTTTTGTGAAGGCTTGATTTGCATTGC
* *
4901500 TTTACTACTCCTTTGTGAAGGC-TGAATTTGCATTGC
1 TTCACTACTCTTTTGTGAAGGCTTG-ATTTGCATTGC
4901536 TTCACTACTCTTTTGTGAAGG
1 TTCACTACTCTTTTGTGAAGG
4901557 TTGGATTGAC
Statistics
Matches: 119, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
35 3 0.03
36 116 0.97
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (36 bp):
TTCACTACTCTTTTGTGAAGGCTTGATTTGCATTGC
Found at i:4904021 original size:36 final size:36
Alignment explanation
Indices: 4903969--4904042 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
4903959 ATGCTCACTA
4903969 CCTTAAATGCGGCTGCCAAAGTTGCCAAGGCATCTG
1 CCTTAAATGCGGCTGCCAAAGTTGCCAAGGCATCTG
*
4904005 CCTTAAATGCGTCTGCCAAAGTTGCCAAGGCATCTG
1 CCTTAAATGCGGCTGCCAAAGTTGCCAAGGCATCTG
4904041 CC
1 CC
4904043 ATTTGATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (36 bp):
CCTTAAATGCGGCTGCCAAAGTTGCCAAGGCATCTG
Found at i:4905997 original size:29 final size:29
Alignment explanation
Indices: 4905955--4906012 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
4905945 TTTCTTAAGT
*
4905955 GGTAGATTTTGCTTATCCTCATTCTCCAC
1 GGTAGAATTTGCTTATCCTCATTCTCCAC
4905984 GGTAGAATTTGCTTATCCTCATTCTCCAC
1 GGTAGAATTTGCTTATCCTCATTCTCCAC
4906013 CATCTTTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.40
Consensus pattern (29 bp):
GGTAGAATTTGCTTATCCTCATTCTCCAC
Found at i:4912055 original size:6 final size:7
Alignment explanation
Indices: 4912022--4912054 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
4912012 CCATGGTATG
4912022 AAAATGC
1 AAAATGC
4912029 AAAATGC
1 AAAATGC
4912036 AAAATGC
1 AAAATGC
4912043 AAAATG-
1 AAAATGC
4912049 AAAATG
1 AAAATG
4912055 AGGCATAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.61, C:0.09, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAATGC
Found at i:4915529 original size:2 final size:2
Alignment explanation
Indices: 4915522--4915555 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4915512 ACGAGGAAGG
4915522 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
4915556 CTCCAGATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4917436 original size:15 final size:15
Alignment explanation
Indices: 4917416--4917445 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4917406 AAACTATTTG
4917416 AACATTGTTATGTAT
1 AACATTGTTATGTAT
*
4917431 AACATTGTTTTGTAT
1 AACATTGTTATGTAT
4917446 GTATGTTTGG
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:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (15 bp):
AACATTGTTATGTAT
Found at i:4917668 original size:19 final size:19
Alignment explanation
Indices: 4917644--4917689 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
4917634 TCATCTTGTC
4917644 TTCCATGTGACTGCTTTAT
1 TTCCATGTGACTGCTTTAT
*
4917663 TTCCATGTGATTGCTTTAT
1 TTCCATGTGACTGCTTTAT
4917682 TTCCATGT
1 TTCCATGT
4917690 AATAACCCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.15, C:0.20, G:0.15, T:0.50
Consensus pattern (19 bp):
TTCCATGTGACTGCTTTAT
Found at i:4917807 original size:6 final size:6
Alignment explanation
Indices: 4917796--4917873 Score: 70
Period size: 6 Copynumber: 13.0 Consensus size: 6
4917786 TGCAGTTTTT
* * * * *
4917796 AATTTC AATTTC AGA-CTG AATTTC ATTTTC ATTTTC AATTTC AATTTT
1 AATTTC AATTTC A-ATTTC AATTTC AATTTC AATTTC AATTTC AATTTC
*
4917844 AATTT- AAGTTTG AATTTC AATTTC AATTTC
1 AATTTC AA-TTTC AATTTC AATTTC AATTTC
4917874 GTCTCTACTA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
5 3 0.05
6 54 0.90
7 3 0.05
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (6 bp):
AATTTC
Found at i:4919756 original size:20 final size:21
Alignment explanation
Indices: 4919694--4919749 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
4919684 AACATAAAGA
4919694 ATCGATAC-TTTTGTATGTGT
1 ATCGATACTTTTTGTATGTGT
4919714 ATCGATACTTTTTGTATGTGT
1 ATCGATACTTTTTGTATGTGT
4919735 ATCGATACTTTTTGT
1 ATCGATACTTTTTGT
4919750 TCAGTATGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.52
Consensus pattern (21 bp):
ATCGATACTTTTTGTATGTGT
Found at i:4919987 original size:466 final size:468
Alignment explanation
Indices: 4919317--4920399 Score: 1362
Period size: 466 Copynumber: 2.4 Consensus size: 468
4919307 CGCCTATAAA
*
4919317 GTATCGATACCTAAGAAACATGTATCGAGACATGACAATATAACAGGTTGAAAATTGACAAAACC
1 GTATCGATACCTAAGAAACATGTATCGAGACATGACAATATAACAGGTTAAAAATTGACAAAACC
* * *
4919382 GGTTTCAATATGTCAATACCGGTAAAGAGATACCAGTTTACACAAAAACGAAACATCTTGAAAGT
66 GGTTTCAATATGTAAAAACCGGTAAAGAGATACCAGTTTACACAAAAACGAAACATCTCGAAAGT
* * * *
4919447 ATCAAAATCTTACACAAAAGTATCGATACTTCGATAAGGGTAATAGTATCGATTAAATATAAATA
131 ATCAAAACCTTACACAAAAGTATCAATAATTCGATAAGAGTAATAGTATCGATTAAATATAAATA
** *
4919512 ACATAACAGGTTCAAAATTGACAAAACC-GATTTCCATAATTGCTCCTATAAAGTATCGATACAA
196 ACATAACAGGTTCAAAATTGACAAAACCAG-TTTCCATAATTGAGCCTATAAAGTATCAATACAA
*
4919576 GTATTAAAAGTATTAATTCTTAAAACTTCGAAACAAATTACTTTAAAGTAATAGGTAAATTTACA
260 GTATTAAAAGTATCAATTCTTAAAACTTCGAAACAAATTACTTTAAAGTAATAGGTAAATTTACA
** * **
4919641 ATGTAAATGGTAAAAATATACCGGTTTAATGACAAAATATGTTAACATAAAGAATCGATACTT-T
325 ATGTAAATGGTAAAAATATACCAATTTAATGACAAAACACATTAACATAAAGAATCGATACTTCT
*
4919705 TGTATGTGTATCGATACTTTTTGTATGTGTATCGATACTTTTTGTTCAGTATGCTTCCCAAATTA
390 TGTATATGTATCGATACTTTTTGTATGTGTATCGATACTTTTTGTTCAGTATGCTTCCCAAATTA
4919770 CATGCATGTAGAAC
455 CATGCATGTAGAAC
* * * * * *
4919784 GTATCGATACCTATGACACGTGTATTGATACATGACAATATAACAGGTTAAAAATTGACAAAACT
1 GTATCGATACCTAAGAAACATGTATCGAGACATGACAATATAACAGGTTAAAAATTGACAAAACC
* *
4919849 GGTTTCAATATG-AAAAACCGGTAAAGA-ACTACCGGTTTATACAAAAAC-AAA-ATGCCTCGAA
66 GGTTTCAATATGTAAAAACCGGTAAAGAGA-TACCAGTTTACACAAAAACGAAACAT--CTCGAA
* * * * * * *
4919910 AGTATCGATACCTTACATAAAAGTATCAATAATTTGGTAAGAGTACTGGTATCGATTAAATATAA
128 AGTATCAAAACCTTACACAAAAGTATCAATAATTCGATAAGAGTAATAGTATCGATTAAATATAA
4919975 ATAACATAACAGGTTCAAAATTGACAAAACCAGTTTCCATAATTGAGCCTATAAAGTATCAATAC
193 ATAACATAACAGGTTCAAAATTGACAAAACCAGTTTCCATAATTGAGCCTATAAAGTATCAATAC
** *
4920040 ACTTATTAAAAGTATCGATTCTTAAAACTTCGAAACAAATTACTTTAAAGTAATAGGTAAATTTA
258 AAGTATTAAAAGTATCAATTCTTAAAACTTCGAAACAAATTACTTTAAAGTAATAGGTAAATTTA
* *
4920105 CAATGTAAGTGGTAAAAATATACCAATTTAATGACAAAACACATTAACATAAAGTATCGATACTT
323 CAATGTAAATGGTAAAAATATACCAATTTAATGACAAAACACATTAACATAAAGAATCGATACTT
*
4920170 CTTGTATATGTATCGATAC---TT-TA----T-T---T-C--------CAGTATGCTTCCCAAAC
388 CTTGTATATGTATCGATACTTTTTGTATGTGTATCGATACTTTTTGTTCAGTATGCTTCCCAAAT
* * *
4920214 TAGATGCA-ATAGAAA
453 TACATGCATGTAGAAC
* * * * ** * *
4920229 GTATCGATACCTAATACACATGTATCGATACATGACAATATACCATATTGAAAATTGATAAAA-C
1 GTATCGATACCTAAGAAACATGTATCGAGACATGACAATATAACAGGTTAAAAATTGACAAAACC
* * * * * *
4920293 GGTTTCAATATG-ATAAAACAGGTAAAAAGATGCCAATTTACACAAAAACAAAACGTCTCGAAAG
66 GGTTTCAATATGTA-AAAACCGGTAAAGAGATACCAGTTTACACAAAAACGAAACATCTCGAAAG
* * * * *
4920357 TATCAATACCTTACACAAAAGTATCGACACTTCGGTAAGAGTA
130 TATCAAAACCTTACACAAAAGTATCAATAATTCGATAAGAGTA
4920400 TTCAATATAA
Statistics
Matches: 542, Mismatches: 65, Indels: 40
0.84 0.10 0.06
Matches are distributed among these distances:
444 13 0.02
445 131 0.24
446 27 0.05
447 1 0.00
454 1 0.00
455 1 0.00
458 1 0.00
459 1 0.00
463 2 0.00
464 4 0.01
465 4 0.01
466 268 0.49
467 88 0.16
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (468 bp):
GTATCGATACCTAAGAAACATGTATCGAGACATGACAATATAACAGGTTAAAAATTGACAAAACC
GGTTTCAATATGTAAAAACCGGTAAAGAGATACCAGTTTACACAAAAACGAAACATCTCGAAAGT
ATCAAAACCTTACACAAAAGTATCAATAATTCGATAAGAGTAATAGTATCGATTAAATATAAATA
ACATAACAGGTTCAAAATTGACAAAACCAGTTTCCATAATTGAGCCTATAAAGTATCAATACAAG
TATTAAAAGTATCAATTCTTAAAACTTCGAAACAAATTACTTTAAAGTAATAGGTAAATTTACAA
TGTAAATGGTAAAAATATACCAATTTAATGACAAAACACATTAACATAAAGAATCGATACTTCTT
GTATATGTATCGATACTTTTTGTATGTGTATCGATACTTTTTGTTCAGTATGCTTCCCAAATTAC
ATGCATGTAGAAC
Found at i:4921920 original size:12 final size:12
Alignment explanation
Indices: 4921903--4921953 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
4921893 TTCAAAGAGG
4921903 TTTTATATTTAA
1 TTTTATATTTAA
4921915 TTTTATA-TTATA
1 TTTTATATTTA-A
*
4921927 TTTGAT-TTTAA
1 TTTTATATTTAA
4921938 TTTTA-ATATTAA
1 TTTTATAT-TTAA
4921950 TTTT
1 TTTT
4921954 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:4921991 original size:26 final size:27
Alignment explanation
Indices: 4921936--4922013 Score: 94
Period size: 26 Copynumber: 3.0 Consensus size: 27
4921926 ATTTGATTTT
*
4921936 AATTTTAATATTAATTTTTTAA-A-TA
1 AATTATAATATTAATTTTTTAATATTA
4921961 AATTA-AATATTAATTTTTTAATATTA
1 AATTATAATATTAATTTTTTAATATTA
*
4921987 TATTATAGATATTAA--TTTTAATATTA
1 AATTATA-ATATTAATTTTTTAATATTA
4922013 A
1 A
4922014 TTTTTTAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
24 16 0.35
25 5 0.11
26 17 0.37
27 1 0.02
28 7 0.15
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
AATTATAATATTAATTTTTTAATATTA
Found at i:4922013 original size:64 final size:64
Alignment explanation
Indices: 4921907--4922071 Score: 266
Period size: 64 Copynumber: 2.6 Consensus size: 64
4921897 AAGAGGTTTT
* *
4921907 ATATTTAA-TTTT-ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTTAAATAAATTAA
1 ATATTAAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAA
*
4921967 ATATTAATTTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAA
1 ATATTAAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAA
4922031 ATATTAAATTTTTAATATTATATTATAGATATTTAATTTTA
1 ATATTAAATTTTTAATATTATATTATAGATA-TTAATTTTA
4922072 TATCATATAA
Statistics
Matches: 96, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
60 6 0.06
61 4 0.04
62 10 0.10
63 1 0.01
64 66 0.69
65 9 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (64 bp):
ATATTAAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAA
Found at i:4922016 original size:40 final size:38
Alignment explanation
Indices: 4921966--4922050 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 38
4921956 AAATAAATTA
*
4921966 AATATTAATTTTTTAATATTATATTATAGATATT-AA-TTTT
1 AATATTAATTTTTTAA-A-TAAATTA-A-ATATTAAATTTTT
4922006 AATATTAATTTTTTAAATAAATTAAATATTAAATTTTT
1 AATATTAATTTTTTAAATAAATTAAATATTAAATTTTT
4922044 AATATTA
1 AATATTA
4922051 TATTATAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
36 5 0.12
37 3 0.07
38 17 0.40
39 1 0.02
40 16 0.38
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (38 bp):
AATATTAATTTTTTAAATAAATTAAATATTAAATTTTT
Found at i:4922629 original size:31 final size:31
Alignment explanation
Indices: 4922594--4922653 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4922584 TAGTTGTATG
* * *
4922594 AATTATTTAAATTTCAGTGTTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
4922625 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
4922654 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:4923446 original size:108 final size:107
Alignment explanation
Indices: 4923307--4923662 Score: 279
Period size: 108 Copynumber: 3.2 Consensus size: 107
4923297 TAACCGGTTA
* * *
4923307 TGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGTGTTACCTAA
1 TGTTATCGTCGGATTTCCAAAGC-CCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
*
4923372 TATGTTGATAATACTAATAACAAATAAAGTAATTAACTTATTT
65 TATGTTGATAATACTAATAACAAATTAAGTAATTAACTTATTT
*** * *
4923415 TGTTATCGTCGGATTTCCAAAGCCCGATCAGCTTTAAA-AAAGAGCTACATATTATGTTACATAA
1 TGTTATCGTCGGATTTCCAAAGCCC-ATCAGC-TTAAACTTTG-G-T--A-A-CAT-TT---TAG
* * * * * **** * ** *
4923479 GCGCTATCTAATATGTT-ATTATGATTGATAATGTTTTCAGTAATTAA-TCGGTTA
54 GCGTTACCTAATATGTTGATAAT-ACTAATAACAAATTAAGTAATTAACT-TATTT
* * *
4923533 TGTTATCGTCGGA-TTCCTAAGGTTCTATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTA
1 TGTTATCGTCGGATTTCC-AAAG-CCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTA
*
4923597 ATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTT
64 ATATGTTGATAATACTAATAACAAATTAAGTAATTAACTTATTT
* *
4923641 TGTTTTCGTCAGATTTCCAAAG
1 TGTTATCGTCGGATTTCCAAAG
4923663 TTCTATCAGC
Statistics
Matches: 181, Mismatches: 47, Indels: 40
0.68 0.18 0.15
Matches are distributed among these distances:
107 2 0.01
108 78 0.43
109 14 0.08
110 1 0.01
111 2 0.01
112 3 0.02
113 2 0.01
114 3 0.02
115 2 0.01
116 1 0.01
117 15 0.08
118 57 0.31
119 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (107 bp):
TGTTATCGTCGGATTTCCAAAGCCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAAT
ATGTTGATAATACTAATAACAAATTAAGTAATTAACTTATTT
Found at i:4923476 original size:226 final size:226
Alignment explanation
Indices: 4923065--4923768 Score: 966
Period size: 226 Copynumber: 3.1 Consensus size: 226
4923055 TAACAAATCA
** * * * * * *
4923065 AGTAATTAACCAATTATGTTATCATTGGA-TTCATAAGGCTACATCGGCTTAAATTTTGTTAACA
1 AGTAATTAACCGGTTATGTTATCGTCGGATTTC-TAAGGCTCCATCAGCTTAAACTTTGGTAACA
* *
4923129 TTTTAGGCGTTACCTAATATGGTGATAATACTGATAACAAATTAAGTAATTAACATATTTTGTTA
65 TTTTAGGCGTTACCTAATATGTTGATAATACTAATAACAAATTAAGTAATTAACATATTTTGTTA
* * * * * * * *
4923194 TCGTTGGATTTCTAAAGCCCTG-TCAACTTTAATAATA-CGCAACCTATTACGTTACATAAGTGC
130 TCGTCGGATTTCCAAAGCCC-GATCAGCTTTAA-AAAAGAGCTACATATTACGTTACATAAGAGC
* *
4923257 TACCTAATATGTTATTATGTTTGATAATGATTCC
193 TACCTAATATGTTATTATGATTGATAATGTTTCC
*
4923291 AATAATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
1 AGTAATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
* * *
4923356 TTTAGGTGTTACCTAATATGTTGATAATACTAATAACAAATAAAGTAATTAACTTATTTTGTTAT
66 TTTAGGCGTTACCTAATATGTTGATAATACTAATAACAAATTAAGTAATTAACATATTTTGTTAT
* * *
4923421 CGTCGGATTTCCAAAGCCCGATCAGCTTTAAAAAAGAGCTACATATTATGTTACATAAGCGCTAT
131 CGTCGGATTTCCAAAGCCCGATCAGCTTTAAAAAAGAGCTACATATTACGTTACATAAGAGCTAC
*
4923486 CTAATATGTTATTATGATTGATAATGTTTTC
196 CTAATATGTTATTATGATTGATAATGTTTCC
* * * *
4923517 AGTAATTAATCGGTTATGTTATCGTCGGATTCCTAAGGTTCTATCAGCTTAAACTTTGGTAACAT
1 AGTAATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
* *
4923582 TTTAGGCGTTACCTAATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTTT
66 TTTAGGCGTTACCTAATATGTTGATAATACTAATAACAAATTAAGTAATTAACATATTTTGTTAT
* ** * * *
4923647 CGTCAGATTTCCAAAGTTCTATCAGCTTTAAAAAGGCA-CTACTTATTACGTTACATAAGAGCTA
131 CGTCGGATTTCCAAAGCCCGATCAGCTTTAAAAAAG-AGCTACATATTACGTTACATAAGAGCTA
* *
4923711 CCTAATATGTTATTATGCTTGATAATGTTTCT
195 CCTAATATGTTATTATGATTGATAATGTTTCC
4923743 AGTAATTAACCGGTTATGTTATCGTC
1 AGTAATTAACCGGTTATGTTATCGTC
4923769 AATTTTTTTT
Statistics
Matches: 425, Mismatches: 49, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
225 4 0.01
226 417 0.98
227 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (226 bp):
AGTAATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
TTTAGGCGTTACCTAATATGTTGATAATACTAATAACAAATTAAGTAATTAACATATTTTGTTAT
CGTCGGATTTCCAAAGCCCGATCAGCTTTAAAAAAGAGCTACATATTACGTTACATAAGAGCTAC
CTAATATGTTATTATGATTGATAATGTTTCC
Found at i:4925139 original size:20 final size:20
Alignment explanation
Indices: 4925114--4925152 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4925104 AATTTTCTTT
4925114 TTATATTTTAAGAATTATCC
1 TTATATTTTAAGAATTATCC
*
4925134 TTATATTTTGAGAATTATC
1 TTATATTTTAAGAATTATC
4925153 TTTAGGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (20 bp):
TTATATTTTAAGAATTATCC
Found at i:4929407 original size:11 final size:11
Alignment explanation
Indices: 4929346--4929408 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
4929336 AAAATTACAT
4929346 TATTAAAAATA
1 TATTAAAAATA
*
4929357 TAATAAAAATA
1 TATTAAAAATA
* **
4929368 CATTACTGAATA
1 TATTA-AAAATA
4929380 -ATTATAAAAT-
1 TATTA-AAAATA
4929390 T-TTAAAAATA
1 TATTAAAAATA
4929400 TATTAAAAA
1 TATTAAAAA
4929409 AATTTATAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
9 5 0.12
10 4 0.10
11 27 0.68
12 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:4929409 original size:21 final size:20
Alignment explanation
Indices: 4929376--4929414 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4929366 TACATTACTG
* *
4929376 AATAATTATAAAATTTTAAA
1 AATAATTAAAAAAATTTAAA
4929396 AATATATTAAAAAAATTTA
1 AATA-ATTAAAAAAATTTA
4929415 TAATACAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAATTAAAAAAATTTAAA
Found at i:4929844 original size:17 final size:17
Alignment explanation
Indices: 4929822--4929855 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4929812 TTATGTTCAG
4929822 TCTACACTTGCTTCGCC
1 TCTACACTTGCTTCGCC
4929839 TCTACACTTGCTTCGCC
1 TCTACACTTGCTTCGCC
4929856 GAGTTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.41, G:0.12, T:0.35
Consensus pattern (17 bp):
TCTACACTTGCTTCGCC
Found at i:4931083 original size:35 final size:29
Alignment explanation
Indices: 4931013--4931092 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
4931003 TTTGAGCTTG
*
4931013 AATCGAGTTTGAGCTTAAAATCAAACTTC
1 AATCGAGTTCGAGCTTAAAATCAAACTTC
4931042 AATCGAGTTCGAGCTTAAAATCAAACTTC
1 AATCGAGTTCGAGCTTAAAATCAAACTTC
*
4931071 AATCGAGTTCGAGTTTAAAATC
1 AATCGAGTTCGAGCTTAAAATC
4931093 GAGCTTGAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (29 bp):
AATCGAGTTCGAGCTTAAAATCAAACTTC
Found at i:4931564 original size:2 final size:2
Alignment explanation
Indices: 4931557--4931595 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4931547 TCGTACAAGT
4931557 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4931596 TTAAAGAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4936446 original size:20 final size:21
Alignment explanation
Indices: 4936421--4936460 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4936411 AATAACGAAA
4936421 TTCG-AAAGTT-AGATGATAAG
1 TTCGAAAAGTTGA-ATGATAAG
4936441 TTCGAAAAGTTGAATGATAA
1 TTCGAAAAGTTGAATGATAA
4936461 TGCGGTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (21 bp):
TTCGAAAAGTTGAATGATAAG
Found at i:4941050 original size:30 final size:28
Alignment explanation
Indices: 4941015--4941114 Score: 92
Period size: 30 Copynumber: 3.4 Consensus size: 28
4941005 GAAAATTTTG
4941015 AATACTTTAGGTACCTATTTTGACTAAAA
1 AATACTTTAGGTACCTATTTTGAC-AAAA
* *
4941044 ATATACTTTAAGTACCTATTTTAACCAAAA
1 A-ATACTTTAGGTACCTATTTTGA-CAAAA
* * *
4941074 AGATAATTTTAGATACTTATTTTGAACAAAA
1 A-AT-ACTTTAGGTACCTATTTTG-ACAAAA
*
4941105 ACTACTTTAG
1 AATACTTTAG
4941115 ATACTTAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
29 7 0.12
30 28 0.49
31 21 0.37
32 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (28 bp):
AATACTTTAGGTACCTATTTTGACAAAA
Found at i:4942613 original size:28 final size:28
Alignment explanation
Indices: 4942547--4942637 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
4942537 TCGATTCTAG
* * * *
4942547 TCAACTCGTCTGAGATAAACCCGTCTGAC
1 TCAACCCGTCTGAG-TCAACTCATCTGAC
*
4942576 TCAACTCGTCTGAGTCAACTCATCTGAC
1 TCAACCCGTCTGAGTCAACTCATCTGAC
* * *
4942604 TCAACCCGTCTAAGTCAACTCATCCGAG
1 TCAACCCGTCTGAGTCAACTCATCTGAC
4942632 TCAACC
1 TCAACC
4942638 AATTGACTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 41 0.75
29 14 0.25
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.24
Consensus pattern (28 bp):
TCAACCCGTCTGAGTCAACTCATCTGAC
Found at i:4942622 original size:42 final size:43
Alignment explanation
Indices: 4942545--4942636 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 43
4942535 ACTCGATTCT
* * * *
4942545 AGTCAACTCGTCTGAGATAAACCCGTCTGACTCAACTCGTCTG
1 AGTCAACTCATCTGAGATAAACCCGTCTAACTCAACTCATCCG
* * *
4942588 AGTCAACTCATCTGA-CTCAACCCGTCTAAGTCAACTCATCCG
1 AGTCAACTCATCTGAGATAAACCCGTCTAACTCAACTCATCCG
4942630 AGTCAAC
1 AGTCAAC
4942637 CAATTGACTT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 28 0.67
43 14 0.33
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (43 bp):
AGTCAACTCATCTGAGATAAACCCGTCTAACTCAACTCATCCG
Found at i:4942633 original size:14 final size:14
Alignment explanation
Indices: 4942545--4942636 Score: 76
Period size: 14 Copynumber: 6.5 Consensus size: 14
4942535 ACTCGATTCT
*
4942545 AGTCAACTCGTCTG
1 AGTCAACTCATCTG
* * *
4942559 AGATAAACCCGTCTG
1 AG-TCAACTCATCTG
* *
4942574 ACTCAACTCGTCTG
1 AGTCAACTCATCTG
4942588 AGTCAACTCATCTG
1 AGTCAACTCATCTG
* * * *
4942602 ACTCAACCCGTCTA
1 AGTCAACTCATCTG
*
4942616 AGTCAACTCATCCG
1 AGTCAACTCATCTG
4942630 AGTCAAC
1 AGTCAAC
4942637 CAATTGACTT
Statistics
Matches: 61, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
14 50 0.82
15 11 0.18
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (14 bp):
AGTCAACTCATCTG
Found at i:4945184 original size:31 final size:31
Alignment explanation
Indices: 4945149--4945237 Score: 115
Period size: 31 Copynumber: 2.8 Consensus size: 31
4945139 TAGGCTCCGA
4945149 GGCCCCGAGATCTTTCTTGGGTAGGCCATGT
1 GGCCCCGAGATCTTTCTTGGGTAGGCCATGT
* * * *
4945180 GGCCCCGAGATCTTTCATAGTTAGGCCCTGT
1 GGCCCCGAGATCTTTCTTGGGTAGGCCATGT
* *
4945211 GGCCCCGAGTAACCTTCTTGGGTAGGC
1 GGCCCCGAG-ATCTTTCTTGGGTAGGC
4945238 TCTTAGGCCC
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
31 36 0.75
32 12 0.25
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.27
Consensus pattern (31 bp):
GGCCCCGAGATCTTTCTTGGGTAGGCCATGT
Found at i:4945400 original size:2 final size:2
Alignment explanation
Indices: 4945393--4945464 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
4945383 GTGTTTTAAA
4945393 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
4945435 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
4945465 CTTTTCATTG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4947354 original size:25 final size:25
Alignment explanation
Indices: 4947300--4947348 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
4947290 ATAAGAAATT
* *
4947300 ATTTCGTTCCAATTTGGTGCCTACC
1 ATTTCGTTCCAATTTGGTGCATAAC
*
4947325 ATTTCGTTCCATTTTGGTGCATAA
1 ATTTCGTTCCAATTTGGTGCATAA
4947349 TGTTTCTTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (25 bp):
ATTTCGTTCCAATTTGGTGCATAAC
Found at i:4949834 original size:2 final size:2
Alignment explanation
Indices: 4949827--4949878 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
4949817 TTTTACTTAT
* * *
4949827 TA TA TA TA TA CA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4949869 TA TA TA TA TA
1 TA TA TA TA TA
4949879 AGATATGAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:4951091 original size:42 final size:42
Alignment explanation
Indices: 4951029--4951112 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
4951019 TATGCACCCT
*
4951029 TAACCCAATCCGACCTGACTCGAAAATTTTATATCCTCCAAC
1 TAACCCAATCCGACCCGACTCGAAAATTTTATATCCTCCAAC
4951071 TAACCCAATCCGACCCGACTCGAAAATTTTATATCCTCCAAC
1 TAACCCAATCCGACCCGACTCGAAAATTTTATATCCTCCAAC
4951113 CCGACCCGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.35, G:0.07, T:0.25
Consensus pattern (42 bp):
TAACCCAATCCGACCCGACTCGAAAATTTTATATCCTCCAAC
Found at i:4953005 original size:130 final size:132
Alignment explanation
Indices: 4952819--4953183 Score: 452
Period size: 130 Copynumber: 2.8 Consensus size: 132
4952809 ATTTTAAGAG
*
4952819 AGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGATCTCTCATGCCTTAAAGCAGTC
1 AGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGATCTCTTATGCCTTAAAGCAGTC
* * *
4952884 ATTTATTACTCTAATCGAAGTGAAGAGATATCACTATT-TCATCTT-AAATTCAATATTAATTTG
66 ATTTATTACTCGAATCGAAATGAAGAGATATCACTATTCT-ATCTTAAAAATCAATATTAATTTG
4952947 AG-
130 AGA
* * * ** * * *
4952949 TGAAAACGATAATATCTAATGATTTCCAATTTAGAACAAATGAACTCTTATGCCTTAAAGCATTC
1 AGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGATCTCTTATGCCTTAAAGCAGTC
* * *
4953014 ATTTATTACTCGAATCGAAATGAAGAGTTATCACTATTCTGTCTTAAAAATCAATATTATTTTGA
66 ATTTATTACTCGAATCGAAATGAAGAGATATCACTATTCTATCTTAAAAATCAATATTAATTTGA
4953079 GA
131 GA
* * * * *
4953081 AAAAAACGGTAATATATAATTATTTTCAATCGAGAATAAATGATCT-TTCATGCCTTAAAGAAGC
1 AGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGATCTCTT-ATGCCTTAAAGCAGT
* * * *
4953145 CATTTATTACTCCAA-CTAAAACGAAGAGATGTCACTATT
65 CATTTATTACTCGAATC-GAAATGAAGAGATATCACTATT
4953184 TTCAATATCG
Statistics
Matches: 197, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
130 95 0.48
131 22 0.11
132 80 0.41
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (132 bp):
AGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGATCTCTTATGCCTTAAAGCAGTC
ATTTATTACTCGAATCGAAATGAAGAGATATCACTATTCTATCTTAAAAATCAATATTAATTTGA
GA
Found at i:4955329 original size:3 final size:3
Alignment explanation
Indices: 4955316--4955351 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
4955306 GTAACCTGTA
*
4955316 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4955352 TCGGGATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4956047 original size:32 final size:31
Alignment explanation
Indices: 4956011--4956081 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
4956001 TTGGGCCCTC
4956011 TTGTAACTGGGCCCGACTGTGGGCTTGTT-GGT
1 TTGTAACTGGGCCC-ACTGTGGG-TTGTTGGGT
** *
4956043 TTGTATTTGGGCCCACTTTGGGTTGTTGGGT
1 TTGTAACTGGGCCCACTGTGGGTTGTTGGGT
4956074 TATGTAAC
1 T-TGTAAC
4956082 ATGTAAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
30 5 0.16
31 11 0.34
32 16 0.50
ACGTcount: A:0.11, C:0.15, G:0.34, T:0.39
Consensus pattern (31 bp):
TTGTAACTGGGCCCACTGTGGGTTGTTGGGT
Found at i:4956095 original size:3 final size:3
Alignment explanation
Indices: 4956087--4956122 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4956077 GTAACATGTA
4956087 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4956123 GTCGGGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4956400 original size:760 final size:763
Alignment explanation
Indices: 4954916--4956440 Score: 2172
Period size: 771 Copynumber: 2.0 Consensus size: 763
4954906 AACTGGTCTC
* * * *
4954916 CTTTTATGTTAGATCTGTTGCATGTTCTGCTTCACCTTTGCATGTTTGGGGAAGTTTTGCAGAGG
1 CTTTTATGTTAGATATGTTGCATGTTCTACTTCACATTTGCATGTTTGGAGAAGTTTTGCAGAGG
* * * *
4954981 CAATCACAAGTTTTATAGGTAAGGGAAATCATTTCCCTTTTTATGTTTTGTTATTTGTCATCATT
66 CAATCACAAGTTTAACAGGTAAGGGAAATCATTTCCCTTTTTATGTTATGTTATTTATCATCATT
* * *
4955046 TCTCTACTTCTTGCATGTTGGGTGACTCTTGGTAGAGAATTGATGATGTTGGAGGTCACGAGTTT
131 TCTCTACTTCTTGCATGTTGGGTGACACTTGGCAGAGAACTGATGATGTTGGAGGTCACGAGTTT
* * * * * *
4955111 GGATGGAGTAATGGCGGCATAGCGAGCTCTTGGTGTGAGAATGGCGACGACGGCTGGTGATGGTT
196 GGATGGAGTAACGGCGACAGAGCGAGCTCTTGGTGTGAGAATGACGACGACGGCTCGTGATGGCT
4955176 GTATTACATTAGGGTTTTAAAAACCTTAATCAGGTAGGGTTTGCATTGGACCAATTGGACCCTCT
261 GTATTACATTAGGGTTTTAAAAACCTTAATCAGGTAGGGTTTGCATTGGACCAATTGGACCCTCT
** *
4955241 TATAACTGGCCCTGGTTGTAGCCTTGTTGGTTTGTATTTGGGCCCACTTTGGGTTTTTGGGTTAT
326 TATAACTGGCCCTGACTGTAGCCTTGTTGGTTTGTATTTGGGCCCACTTTGGGTTGTTGGGTTAT
* *
4955306 GTAACCTGTAAATAAAATAATAATAATAATAATAATAATATTAATATCGGGATAAAAACGAGTGT
391 GTAACATGTAAATAAAATAATAATAATAATAATAATAATAATAATATCGGGATAAAAACGAGTGT
* * *
4955371 CGACAGCTACCCCAGTTGCCTATTCTTGTGTTAACAAGCATATTGAAAAGATAAAAAGATAACAC
456 CAACAGCTACCCCAGTTGCCTATTCTTATGTTAACAAGCA-ATT----A-AT---AAGACAACAC
4955436 ATTTTGTCCGGTTCCATCTTGATGTTGTCTCAAGTGAGACTGACAGATGACCCAAAGGGTTTAAT
512 ATTTTGTCCGGTTCCATCTTGATGTTGTCTCAAGTGAGACTGACAGATGACCCAAAGGGTTTAAT
* *
4955501 CATCATGCTCGAAAGATTTATTGATGGCCTGAAGGACTTACTGAGTAAGAAACTTTGGAAATTGC
577 CATCATGCTCGAAAAACTTATTGATGGCCTGAAGGACTTACTGAGTAAGAAACTTTGGAAATTGC
* * * **
4955566 TTTCTTACTTTTCAAAATATTGCATGAACACATCTTGCCTGGAGGTCTTATAGATGGCCTGAAGG
642 TTTCTTACTTATAAAAATATTGCATAAACACATCTTGCCTAAAGGTCTTATAGATGGCCTGAAGG
* **
4955631 ACTTATCATCTTTCTCAAAAGGCTTATAGATGGCCCAAAGGATTTAATCATGTTCTT
707 ACTTATCATCTTGCTCAAAAGGCTTATAGATAACCCAAAGGATTTAATCATGTTCTT
*
4955688 CTTTTATGTTAGATATGTTGCATGTTCTACTTCACATTTGCTTGTTTGGAGAAGTTTTGC-GAGG
1 CTTTTATGTTAGATATGTTGCATGTTCTACTTCACATTTGCATGTTTGGAGAAGTTTTGCAGAGG
* ** * * *
4955752 CCATCACGGGTTTAACAGGTAAGGGAAATGATTTCCCTTTTTGTGTTATGTTATTTATCCTCATT
66 CAATCACAAGTTTAACAGGTAAGGGAAATCATTTCCCTTTTTATGTTATGTTATTTATCATCATT
*
4955817 TCTCTACTTCTTGCGTGTTGGGTGACACTTGGCAGAGAACTGATGATGTTGGAGGTCACGAGTTT
131 TCTCTACTTCTTGCATGTTGGGTGACACTTGGCAGAGAACTGATGATGTTGGAGGTCACGAGTTT
* * * * * * *
4955882 GGCTGGAGTGACGGCGACACGA-C-AGGTTCTTGGTGTGAGAGTGACGGCGGCGGCTCGTGGTGG
196 GGATGGAGTAACGGCGACA-GAGCGA-GCTCTTGGTGTGAGAATGACGACGACGGCTCGTGATGG
* * ** * * *
4955945 CTGTGTTATATTAGGGTTTTAAAAAACCTT-ATTGGGTAGGGTTTTCATTGGGCCAATTGGGCCC
259 CTGTATTACATTAGGGTTTT-AAAAACCTTAATCAGGTAGGGTTTGCATTGGACCAATTGGACCC
* * *
4956009 TCTTGTAACTGGGCCC-GACTGTGGGCTTGTTGGTTTGTATTTGGGCCCACTTTGGGTTGTTGGG
323 TCTTATAACT-GGCCCTGACTGTAGCCTTGTTGGTTTGTATTTGGGCCCACTTTGGGTTGTTGGG
*
4956073 TTATGTAACATGTAAATAATAATAATAATAATAATAATAATAATAATAATGTCGGGATAAAAACG
387 TTATGTAACATGTAAATAA-AATAATAATAATAATAATAATAATAATAATATCGGGATAAAAACG
* * * *
4956138 ATTGTCAACAGCT-TCCCATGTTTGTCTATTCTTATGTTAATAAGC-A-T-AT-AGACAACACAT
451 AGTGTCAACAGCTACCCCA-G-TTGCCTATTCTTATGTTAACAAGCAATTAATAAGACAACACAT
* * *
4956198 TTTGTCCGGTTCCATCTTGGTGTTTTCTCAAGTGAGACTGACAGATGACCCGAAGGGTTTAATCA
514 TTTGTCCGGTTCCATCTTGATGTTGTCTCAAGTGAGACTGACAGATGACCCAAAGGGTTTAATCA
*
4956263 TCATGCTCGAAAAACTTATTGATGG-CTCGAATGACTTACTGAGTAAGAAACTTTGGAAATTGCT
579 TCATGCTCGAAAAACTTATTGATGGCCT-GAAGGACTTACTGAGTAAGAAACTTTGGAAATTGCT
4956327 TTCTTACTTATAAAAATATTGCATAAACACATCTTGCCTAAAGGTCTTATAGATGGCCTGAAGGA
643 TTCTTACTTATAAAAATATTGCATAAACACATCTTGCCTAAAGGTCTTATAGATGGCCTGAAGGA
* * *
4956392 CTTATCATCTTGCTCGAAAGGCTTATAGATAACTCGAAGGATTTAATCA
708 CTTATCATCTTGCTCAAAAGGCTTATAGATAACCCAAAGGATTTAATCA
4956441 CCATGCTTAA
Statistics
Matches: 673, Mismatches: 72, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
759 2 0.00
760 233 0.35
764 2 0.00
770 2 0.00
771 288 0.43
772 125 0.19
773 21 0.03
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (763 bp):
CTTTTATGTTAGATATGTTGCATGTTCTACTTCACATTTGCATGTTTGGAGAAGTTTTGCAGAGG
CAATCACAAGTTTAACAGGTAAGGGAAATCATTTCCCTTTTTATGTTATGTTATTTATCATCATT
TCTCTACTTCTTGCATGTTGGGTGACACTTGGCAGAGAACTGATGATGTTGGAGGTCACGAGTTT
GGATGGAGTAACGGCGACAGAGCGAGCTCTTGGTGTGAGAATGACGACGACGGCTCGTGATGGCT
GTATTACATTAGGGTTTTAAAAACCTTAATCAGGTAGGGTTTGCATTGGACCAATTGGACCCTCT
TATAACTGGCCCTGACTGTAGCCTTGTTGGTTTGTATTTGGGCCCACTTTGGGTTGTTGGGTTAT
GTAACATGTAAATAAAATAATAATAATAATAATAATAATAATAATATCGGGATAAAAACGAGTGT
CAACAGCTACCCCAGTTGCCTATTCTTATGTTAACAAGCAATTAATAAGACAACACATTTTGTCC
GGTTCCATCTTGATGTTGTCTCAAGTGAGACTGACAGATGACCCAAAGGGTTTAATCATCATGCT
CGAAAAACTTATTGATGGCCTGAAGGACTTACTGAGTAAGAAACTTTGGAAATTGCTTTCTTACT
TATAAAAATATTGCATAAACACATCTTGCCTAAAGGTCTTATAGATGGCCTGAAGGACTTATCAT
CTTGCTCAAAAGGCTTATAGATAACCCAAAGGATTTAATCATGTTCTT
Found at i:4956773 original size:232 final size:233
Alignment explanation
Indices: 4956367--4957647 Score: 1542
Period size: 232 Copynumber: 5.5 Consensus size: 233
4956357 ATCTTGCCTA
* * * * * * * *
4956367 AAGGTCTTATAGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATAACTCGAAGG
1 AAGGTCTTGTGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
* ** * *
4956432 ATTTAA-TCACCATGCTTAAAAGACTCACTGATGGCCCGAAGGACTTACCAAATTTGGAAATAGT
66 ATTTAAGTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
4956496 TTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAATTT
131 TTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAATTT
*
4956561 TTCTCATTTTTCGAAAACATGTGAAAACATCATGCCCG
196 TTCTCATTTTTTGAAAACATGTGAAAACATCATGCCCG
* * * **
4956599 AAGGTCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAAATCACTTGAAGG
1 AAGGTCTTGTGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
* * * * *
4956664 ATTTAAGT-ATCATGCTCGAAAGACTTATTGATAGCCTGAATGACTTACCAATTTTGGAAATATT
66 ATTTAAGTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* * *
4956728 TTACTAGGTACGAAACTTTTCTTACTTTAT-AAAAATTTCAATTTTCATATTTAAATGAGAAAAT
131 TTACTAGGTAAGAAACTTTTCTTACTTT-TCAAAAATTTCAATTTTCAGATTTAAATGAGAAATT
* * * *
4956792 TTTCTCATTTTTTTGAAAACCATGTGAGAACATCCTTCTCG
195 TTTCTCA-TTTTTTGAAAA-CATGTGAAAACATCATGCCCG
** * *
4956833 AAGGTCTTGTGGATAACCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGG
1 AAGGTCTTGTGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
* * * *
4956898 ATTTAAG-CATCATTCTCGAAAGACTTACTAATGGCCCGAAAGACTTACCAATTTGGGAAATAGT
66 ATTTAAGTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* * * *
4956962 TTACTAGGTAAAAAAACTTTTTGTTACTTTTCAGAAATTTCAAATTTCAGATTTAAATGAGAAAC
131 TTACTAGGT-AAGAAAC-TTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAA-
* * * * *
4957027 TTTGCTCATTCTTTTTTTGAAAAATATGTGAGAACATCATGCCCA
193 TTT-TTC--TCATTTTTTG-AAAACATGTGAAAACATCATGCCCG
* * * *
4957072 AAGGTCTTGTGGATGGCCTGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGGCCGGAACG
1 AAGGTCTTGTGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
*
4957137 ATTTAAGT-ATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTT-GAAAGTAG
66 ATTTAAGTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAA-TAG
* * * *
4957200 TTTACTAGGTAAGAAACTTTTCTTATTTTTCAAATATTTCAATTTTCAGATTTAAATAAG-ATTT
130 TTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAATT
*
4957264 TTTCTTATTTTTTGAAAAACATGTGAAAACATCATGCCCG
195 TTTCTCATTTTTTG-AAAACATGTGAAAACATCATGCCCG
* * * * * * * *
4957304 AAGGTGTTGTGGATGGCCTGAATGACTTATCATTTTGCTCGAAAGGCTTATAGATAACCTGAAGG
1 AAGGTCTTGTGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
* **
4957369 ATTTAA-TCATCATGCTCGAAAGACTTACGGATGGCCCGAAGGACTTAATAATTTTGGAAATAGT
66 ATTTAAGTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* * * ** *
4957433 TTACTAGGTAA-AAACTTTCCTTTCTTTTAAAAAAAATCAATTTTTAGATTTAAATGAGAAATTT
131 TTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAATTT
** * *
4957497 TTCTCATTTTTCCAAAAACATGT-AAAATATCCTGCCCG
196 TTCTCATTTTT-TGAAAACATGTGAAAACATCATGCCCG
* * * * * * *
4957535 AAGGTTTTGTGGATGGCTCAAAAGACTTATCATTTTGCTCGAAAGGCTTATAGATGACCCGAATG
1 AAGGTCTTGTGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
* * * *
4957600 ATTT-AGTCATCATGCTTGAAAGACTGACT-ATTGGCCCAAATGACTTAC
66 ATTTAAGTCATCATGCTCGAAAGACTTACTGA-TGGCCCGAAGGACTTAC
4957648 TAAGCAAGAA
Statistics
Matches: 902, Mismatches: 126, Indels: 43
0.84 0.12 0.04
Matches are distributed among these distances:
230 2 0.00
231 147 0.16
232 349 0.39
233 16 0.02
234 139 0.15
235 9 0.01
236 41 0.05
237 39 0.04
238 12 0.01
239 142 0.16
240 6 0.01
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (233 bp):
AAGGTCTTGTGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGG
ATTTAAGTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
TTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAATTT
TTCTCATTTTTTGAAAACATGTGAAAACATCATGCCCG
Found at i:4956936 original size:42 final size:41
Alignment explanation
Indices: 4956848--4956944 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 41
4956838 CTTGTGGATA
*
4956848 ACCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATG
1 ACCCGAAGGACTTAGCATCTTGCTCAAAAGACTTACAGATG
* *
4956889 ACCCGAAGGATTTAAGCATCATT-CTCGAAAGACTTACTA-ATG
1 ACCCGAAGGACTT-AGCATC-TTGCTCAAAAGACTTAC-AGATG
* *
4956931 GCCCGAAAGACTTA
1 ACCCGAAGGACTTA
4956945 CCAATTTGGG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 13 0.28
42 31 0.66
43 3 0.06
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (41 bp):
ACCCGAAGGACTTAGCATCTTGCTCAAAAGACTTACAGATG
Found at i:4959317 original size:2 final size:2
Alignment explanation
Indices: 4959310--4959348 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
4959300 TCAGCTTTAT
4959310 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4959349 ATCACCTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4965967 original size:6 final size:6
Alignment explanation
Indices: 4965958--4966024 Score: 68
Period size: 6 Copynumber: 11.7 Consensus size: 6
4965948 TGTAAATAAA
* * * *
4965958 AATATT AATAAT ATTAAT ATTATT AATATT AATATT AATATT -A-A-T
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
*
4966003 AATATT AATATT AATAAT AATA
1 AATATT AATATT AATATT AATA
4966025 ATGTATGGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 2 0.04
6 48 0.91
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATATT
Found at i:4965976 original size:15 final size:15
Alignment explanation
Indices: 4965952--4966026 Score: 87
Period size: 15 Copynumber: 5.0 Consensus size: 15
4965942 GTAACCTGTA
*
4965952 AATAAAAATATTAAT
1 AATAATAATATTAAT
* *
4965967 AATATTAATATTATT
1 AATAATAATATTAAT
*
4965982 AATATTAATATTAAT
1 AATAATAATATTAAT
*
4965997 ATTAATAATATTAAT
1 AATAATAATATTAAT
* *
4966012 ATTAATAATAATAAT
1 AATAATAATATTAAT
4966027 GTATGGATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 53 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAATAATATTAAT
Found at i:4965990 original size:21 final size:21
Alignment explanation
Indices: 4965966--4966026 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
4965956 AAAATATTAA
*
4965966 TAATATTAATATTATTAATAT
1 TAATATTAATATTAATAATAT
4965987 TAATATTAATATTAATAATAT
1 TAATATTAATATTAATAATAT
*
4966008 TAATATTAATAATAATAAT
1 TAATATTAATATTAATAAT
4966027 GTATGGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATATTAATATTAATAATAT
Found at i:4966025 original size:6 final size:6
Alignment explanation
Indices: 4965952--4966026 Score: 60
Period size: 6 Copynumber: 12.5 Consensus size: 6
4965942 GTAACCTGTA
* * * * * * * *
4965952 AATAAA AATATT AATAAT ATTAAT ATTATT AATATT AATATT AATATT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* *
4966000 AATAAT ATTAAT ATTAAT AATAAT AAT
1 AATAAT AATAAT AATAAT AATAAT AAT
4966027 GTATGGATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AATAAT
Found at i:4966026 original size:9 final size:9
Alignment explanation
Indices: 4965958--4966024 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
4965948 TGTAAATAAA
4965958 AATATTAAT
1 AATATTAAT
4965967 AATATTAAT
1 AATATTAAT
*
4965976 ATTATTAAT
1 AATATTAAT
* * *
4965985 ATTAATATT
1 AATATTAAT
4965994 AATATTAAT
1 AATATTAAT
4966003 AATATTAAT
1 AATATTAAT
* *
4966012 ATTAATAAT
1 AATATTAAT
4966021 AATA
1 AATA
4966025 ATGTATGGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
AATATTAAT
Found at i:4968530 original size:13 final size:13
Alignment explanation
Indices: 4968512--4968538 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4968502 CTGGGAGTCT
4968512 TATTCTGTAAATA
1 TATTCTGTAAATA
4968525 TATTCTGTAAATA
1 TATTCTGTAAATA
4968538 T
1 T
4968539 TTATTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TATTCTGTAAATA
Found at i:4970889 original size:28 final size:27
Alignment explanation
Indices: 4970823--4970890 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
4970813 AATTATATAT
* *
4970823 CTTAAACCCTAAACCACATCCCTTAAC
1 CTTAAACCCTAAACCACAACCATTAAC
* * *
4970850 CTCTATATCCTAAACCATTAACCATTAAC
1 CT-TAAACCCTAAACCA-CAACCATTAAC
4970879 CTTAAACCCTAA
1 CTTAAACCCTAA
4970891 CTTAAAACCC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
27 2 0.06
28 20 0.62
29 10 0.31
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (27 bp):
CTTAAACCCTAAACCACAACCATTAAC
Found at i:4977269 original size:14 final size:14
Alignment explanation
Indices: 4977231--4977269 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
4977221 TTTGCATTTT
4977231 CATTTTGCATTCTCA
1 CATTTT-CATTCTCA
*
4977246 CATTTACATTCTCA
1 CATTTTCATTCTCA
*
4977260 CCTTTTCATT
1 CATTTTCATT
4977270 TTTTATGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.21, C:0.28, G:0.03, T:0.49
Consensus pattern (14 bp):
CATTTTCATTCTCA
Found at i:4979586 original size:20 final size:19
Alignment explanation
Indices: 4979548--4979590 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
4979538 TTCTCTTATT
4979548 TTTATTTAAATTGTTTTTA
1 TTTATTTAAATTGTTTTTA
4979567 TTTATTTAATCATT-TTTTTA
1 TTTATTTAA--ATTGTTTTTA
4979587 TTTA
1 TTTA
4979591 AATATCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 10 0.45
21 3 0.14
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTATTTAAATTGTTTTTA
Found at i:4979600 original size:16 final size:16
Alignment explanation
Indices: 4979546--4979602 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 16
4979536 TATTCTCTTA
*
4979546 TTTTTATTTAAAT-TG
1 TTTTTATTTAAATATC
*
4979561 TTTTTATTTATTTAATCATT
1 TTTTTATTTA---AAT-ATC
4979581 TTTTTATTTAAATATC
1 TTTTTATTTAAATATC
4979597 TTTTTA
1 TTTTTA
4979603 CCAAACCCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 10 0.29
16 8 0.23
17 3 0.09
18 3 0.09
20 11 0.31
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTTTATTTAAATATC
Found at i:4979601 original size:19 final size:19
Alignment explanation
Indices: 4979541--4979601 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
4979531 ATCTTTATTC
*
4979541 TCTTATTTTTATTTAAAT-
1 TCTTTTTTTTATTTAAATA
*
4979559 TGTTTTTATTTATTT--A-A
1 TCTTTTT-TTTATTTAAATA
*
4979576 TCATTTTTTTATTTAAATA
1 TCTTTTTTTTATTTAAATA
4979595 TCTTTTT
1 TCTTTTT
4979602 ACCAAACCCC
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
16 7 0.21
17 6 0.18
18 6 0.18
19 14 0.42
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (19 bp):
TCTTTTTTTTATTTAAATA
Found at i:4982721 original size:32 final size:31
Alignment explanation
Indices: 4982679--4982758 Score: 83
Period size: 32 Copynumber: 2.6 Consensus size: 31
4982669 TCTCATTAAA
*
4982679 CGACATACGTTAGCAAAACCCCTAAGG-GAGC
1 CGACACACGTTAGCAAAACCCCTAAGGAGA-C
* * **
4982710 ACGACGCACGTTAGC-ACACTTCTAAGGAGAC
1 -CGACACACGTTAGCAAAACCCCTAAGGAGAC
4982741 CGACACACGTTAGCAAAA
1 CGACACACGTTAGCAAAA
4982759 TCCATGGAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
30 13 0.33
31 12 0.31
32 14 0.36
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (31 bp):
CGACACACGTTAGCAAAACCCCTAAGGAGAC
Found at i:4984633 original size:28 final size:28
Alignment explanation
Indices: 4984556--4984627 Score: 126
Period size: 28 Copynumber: 2.5 Consensus size: 28
4984546 AGCTTTCTCT
*
4984556 TTTTACTTTTCAAGTTCTTTTCATTTTTC
1 TTTTA-TTTTCAAGTTCTTTTTATTTTTC
4984585 TTTTATTTTCAAGTTCTTTTTATTTTTC
1 TTTTATTTTCAAGTTCTTTTTATTTTTC
4984613 TTTTATTTTCAAGTT
1 TTTTATTTTCAAGTT
4984628 TGTTTTTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 37 0.88
29 5 0.12
ACGTcount: A:0.15, C:0.12, G:0.04, T:0.68
Consensus pattern (28 bp):
TTTTATTTTCAAGTTCTTTTTATTTTTC
Found at i:4989470 original size:3 final size:3
Alignment explanation
Indices: 4989462--4989533 Score: 92
Period size: 3 Copynumber: 24.0 Consensus size: 3
4989452 CCATTTTTAT
* * *
4989462 TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4989510 -TA ATA TATA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA
4989534 AAAAATAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
2 2 0.03
3 55 0.92
4 3 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:4990009 original size:20 final size:20
Alignment explanation
Indices: 4989967--4990009 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4989957 GAACAAAAAA
*
4989967 AAACCCCAACAAAGCAGAGC
1 AAACCCCAACAAAGCAGACC
*
4989987 AAACCCACAACACAGCA-ACC
1 AAACCC-CAACAAAGCAGACC
4990007 AAA
1 AAA
4990010 AACAAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.53, C:0.37, G:0.09, T:0.00
Consensus pattern (20 bp):
AAACCCCAACAAAGCAGACC
Found at i:4991026 original size:23 final size:22
Alignment explanation
Indices: 4990980--4991024 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4990970 TATTATAAAA
4990980 AAATTATAATTTAATTTTATTT
1 AAATTATAATTTAATTTTATTT
*
4991002 AAATTATTATATTAATATTTATT
1 AAATTATAAT-TTAAT-TTTATT
4991025 AATATCGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTATAATTTAATTTTATTT
Found at i:4991106 original size:23 final size:26
Alignment explanation
Indices: 4991074--4991136 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
4991064 CCTTTTCTGA
*
4991074 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
4991097 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
* *
4991123 TTTTTATAATTATA
1 TATTTATAAATATA
4991137 ATTTTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.32
24 1 0.03
25 5 0.15
26 17 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:5002188 original size:8 final size:8
Alignment explanation
Indices: 5002163--5002239 Score: 68
Period size: 8 Copynumber: 9.0 Consensus size: 8
5002153 ATTATGCTTG
5002163 AAGAAAAA
1 AAGAAAAA
5002171 AAGAACGAAAA
1 AAG-A--AAAA
5002182 AAGGAAAAA
1 AA-GAAAAA
*
5002191 GAACAAAAA
1 -AAGAAAAA
5002200 AA-AGAAAA
1 AAGA-AAAA
5002208 AAGAAAAA
1 AAGAAAAA
5002216 AA-AAAGAA
1 AAGAAA-AA
5002224 AAGAAAAA
1 AAGAAAAA
5002232 AAGAAAAA
1 AAGAAAAA
5002240 GGGGTCAAGA
Statistics
Matches: 59, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
7 4 0.07
8 31 0.53
9 14 0.24
10 2 0.03
11 7 0.12
12 1 0.02
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:5002191 original size:18 final size:18
Alignment explanation
Indices: 5002168--5002233 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
5002158 GCTTGAAGAA
* *
5002168 AAAAAGAACGAAAAAAGG
1 AAAAAGAACAAAAAAAAG
5002186 AAAAAGAACAAAAAAAAG
1 AAAAAGAACAAAAAAAAG
5002204 AAAAAAGAA-AAAAAAAAG
1 -AAAAAGAACAAAAAAAAG
5002222 -AAAAGAA-AAAAA
1 AAAAAGAACAAAAA
5002234 GAAAAAGGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.27
18 25 0.56
19 8 0.18
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAAGAACAAAAAAAAG
Found at i:5003843 original size:114 final size:114
Alignment explanation
Indices: 5003608--5003843 Score: 366
Period size: 114 Copynumber: 2.1 Consensus size: 114
5003598 TAATTGGAGC
*
5003608 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTTGGAAGTGTTCTTTGAGT
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATATTTGGAAGTGTTCTTTGAGT
** * * * * *
5003673 TATCTGATTTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
66 TATCTGACCTAGTTTGGTAGGAACCACAAAAACCAATCATTGGAATTAA
*
5003722 AATATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATATTCTGGAAGTGTTCTTTGAG
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATATT-TGGAAGTGTTCTTTGAG
*
5003787 TTATCTGACCTAGTTTGGTAGGAACCAC-AGAACCAATCATTGGAATTAA
65 TTATCTGACCTAGTTTGGTAGGAACCACAAAAACCAATCATTGGAATTAA
5003836 AAGATGAA
1 AAGATGAA
5003844 CTGCATGATT
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 70 0.64
115 40 0.36
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (114 bp):
AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATATTTGGAAGTGTTCTTTGAGT
TATCTGACCTAGTTTGGTAGGAACCACAAAAACCAATCATTGGAATTAA
Found at i:5004733 original size:113 final size:112
Alignment explanation
Indices: 5004532--5005068 Score: 668
Period size: 113 Copynumber: 4.8 Consensus size: 112
5004522 GCAAAGATTC
* * *
5004532 AAATCCATCATTTGATGGATCAGCATTACCAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AAATTCATCATTCGATGGATCAGCATTACCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
5004596 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
* * *
5004643 AAATTCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATTCATCATTCGATGGATCAGCATTACCAG-TAGAGTTCATAATGAGAAGAACTCATCTGAAG
5004708 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
* * * *
5004756 AAATTCATCATTCAATGGATCAACATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATTCATCATTCGATGGATCAGCATTACCAG-TAGAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
5004821 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
* * * * * * **
5004869 AAATTCATCATTTGATGGATTAACATTGCTAGGTAGAGTTCATAATGAGAAGAACTCGTCAT-CT
1 AAATTCATCATTCGATGGATCAGCATTACCA-GTAGAGTTCATAATGAGAAGAACTCATC-TGAA
* * * *
5004933 GAA-GAAGAAGAACTTTATAATGAGAAGAATTTGTTCAACTTTTTTGCTC
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTTGCTT
* * *
5004982 AAATCCATCACTT-GAT-GATCAGCTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCT---
1 AAATTCATCA-TTCGATGGATCAGCATTACCAGTAG-AGTTCATAATGAGAAGAACTCATCTGAA
5005041 -AA--AA-AAGAAGTTCATAATGAGAAGAACT
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAACT
5005069 CATCTGAAGA
Statistics
Matches: 384, Mismatches: 35, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
105 21 0.05
106 2 0.01
107 2 0.01
110 3 0.01
111 53 0.14
112 43 0.11
113 256 0.67
114 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (112 bp):
AAATTCATCATTCGATGGATCAGCATTACCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
Found at i:5005092 original size:36 final size:36
Alignment explanation
Indices: 5005013--5005173 Score: 292
Period size: 36 Copynumber: 4.6 Consensus size: 36
5005003 GCTTTTCCAG
5005013 AGAAGTTCATAATGAGAAGAACTCATCT-AA-AA-A
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
5005046 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
5005082 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
5005118 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
*
5005154 AGAAGTTCACAATGAGAAGA
1 AGAAGTTCATAATGAGAAGA
5005174 GCTTGTTCAA
Statistics
Matches: 124, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
33 28 0.23
34 2 0.02
35 2 0.02
36 92 0.74
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.19
Consensus pattern (36 bp):
AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
Found at i:5005099 original size:20 final size:20
Alignment explanation
Indices: 5005076--5005138 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
5005066 ACTCATCTGA
5005076 AGAAGAAGAAGTTCATAAT-
1 AGAAGAAGAAGTTCATAATG
* *
5005095 -G-AGAAGAA-CTCAT-CTG
1 AGAAGAAGAAGTTCATAATG
5005111 AAGAAGAAGAAGTTCATAATG
1 -AGAAGAAGAAGTTCATAATG
5005132 AGAAGAA
1 AGAAGAA
5005139 CTCATCTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
15 1 0.03
16 4 0.12
17 7 0.21
18 2 0.06
19 7 0.21
20 11 0.32
21 2 0.06
ACGTcount: A:0.51, C:0.08, G:0.24, T:0.17
Consensus pattern (20 bp):
AGAAGAAGAAGTTCATAATG
Found at i:5005549 original size:3 final size:3
Alignment explanation
Indices: 5005541--5005600 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
5005531 CCATTTTTAT
* *
5005541 TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA -TA ATA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
5005586 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
5005601 AAAAAATAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:5005608 original size:27 final size:27
Alignment explanation
Indices: 5005557--5005608 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
5005547 TTATTATTAT
** *
5005557 TATTATTATAATTATTATTATAATATA
1 TATTATTATAATTATTAAAAAAATATA
*
5005584 TATTATTATTATTATTAAAAAAATA
1 TATTATTATAATTATTAAAAAAATA
5005609 ATAGTTACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTATTATAATTATTAAAAAAATATA
Found at i:5007172 original size:23 final size:22
Alignment explanation
Indices: 5007126--5007170 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5007116 TATTATAAAA
5007126 AAATTATAATTTAATTTTATTT
1 AAATTATAATTTAATTTTATTT
*
5007148 AAATTATTATATTAATATTTATT
1 AAATTATAAT-TTAAT-TTTATT
5007171 AATATCGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTATAATTTAATTTTATTT
Found at i:5007252 original size:23 final size:26
Alignment explanation
Indices: 5007220--5007282 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
5007210 CCTTTTCTGA
*
5007220 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
5007243 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
* *
5007269 TTTTTATAATTATA
1 TATTTATAAATATA
5007283 ATTTTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.32
24 1 0.03
25 5 0.15
26 17 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:5010513 original size:16 final size:17
Alignment explanation
Indices: 5010492--5010524 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5010482 ACACACTAAA
5010492 TCGGTT-TCGATTTTTT
1 TCGGTTATCGATTTTTT
5010508 TCGGTTATCGATTTTTT
1 TCGGTTATCGATTTTTT
5010525 AGATCGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.09, C:0.12, G:0.18, T:0.61
Consensus pattern (17 bp):
TCGGTTATCGATTTTTT
Found at i:5010952 original size:29 final size:29
Alignment explanation
Indices: 5010920--5011013 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
5010910 AAGTCTATTT
5010920 ACTATTAAAAGTTATAAAATAGTCCTTTG
1 ACTATTAAAAGTTATAAAATAGTCCTTTG
***
5010949 ACTA-TAAAATGTTATTTGATAAGTCCTTTG
1 ACTATTAAAA-GTTATAAAAT-AGTCCTTTG
* * * *
5010979 ACTATTAAAAGTTACAAAATGGTCATTCG
1 ACTATTAAAAGTTATAAAATAGTCCTTTG
5011008 ACTATT
1 ACTATT
5011014 CATTATATTC
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
28 5 0.10
29 23 0.44
30 19 0.37
31 5 0.10
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (29 bp):
ACTATTAAAAGTTATAAAATAGTCCTTTG
Found at i:5011449 original size:2 final size:2
Alignment explanation
Indices: 5011442--5011468 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5011432 ATGTATAAAT
5011442 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 T
5011469 TAACTTTTTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5012950 original size:16 final size:16
Alignment explanation
Indices: 5012929--5012960 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
5012919 TTTACACATA
5012929 GTGAAACTCGAACACG
1 GTGAAACTCGAACACG
5012945 GTGAAACTCGAACACG
1 GTGAAACTCGAACACG
5012961 ATTACACGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.25, T:0.12
Consensus pattern (16 bp):
GTGAAACTCGAACACG
Found at i:5018100 original size:24 final size:25
Alignment explanation
Indices: 5018054--5018101 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
5018044 ATATTACTTT
5018054 TGAAAAGTGATTTAAAAAATTATTG
1 TGAAAAGTGATTTAAAAAATTATTG
* *
5018079 TGAAAAGT-TTTTTAAAAATTATT
1 TGAAAAGTGATTTAAAAAATTATT
5018102 TTTAAAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (25 bp):
TGAAAAGTGATTTAAAAAATTATTG
Found at i:5019537 original size:32 final size:35
Alignment explanation
Indices: 5019491--5019573 Score: 145
Period size: 32 Copynumber: 2.5 Consensus size: 35
5019481 CCCGAACCCG
5019491 AAATATTATATATATAATTAATAT-AAAAAATATA
1 AAATATTATATATATAATTAATATAAAAAAATATA
5019525 AAA-A-TATATATATAATTAATATAAAAAAATATA
1 AAATATTATATATATAATTAATATAAAAAAATATA
5019558 AAATATTATATATATA
1 AAATATTATATATATA
5019574 TATATATAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
32 18 0.39
33 14 0.30
34 4 0.09
35 10 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (35 bp):
AAATATTATATATATAATTAATATAAAAAAATATA
Found at i:5019547 original size:43 final size:44
Alignment explanation
Indices: 5019495--5019583 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 44
5019485 AACCCGAAAT
**
5019495 ATTATATATATAATTAATATAAAA-AATATAAAAATATATATATA
1 ATTATATATA-AAAAAATATAAAATAATATAAAAATATATATATA
* * *
5019539 ATTA-ATATAAAAAAATATAAAATATTATATATATATATATATA
1 ATTATATATAAAAAAATATAAAATAATATAAAAATATATATATA
5019582 AT
1 AT
5019584 CGGGGCGGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 11 0.28
43 24 0.62
44 4 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (44 bp):
ATTATATATAAAAAAATATAAAATAATATAAAAATATATATATA
Found at i:5019936 original size:31 final size:31
Alignment explanation
Indices: 5019901--5019961 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
5019891 TGACAAATTG
*
5019901 GTTACTAACGTTATCAATTTATAACAAAATA
1 GTTACTAACATTATCAATTTATAACAAAATA
* * *
5019932 GTTACTAATATTATCGATTTGTAACAAAAT
1 GTTACTAACATTATCAATTTATAACAAAAT
5019962 GATCATTCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (31 bp):
GTTACTAACATTATCAATTTATAACAAAATA
Found at i:5027547 original size:42 final size:42
Alignment explanation
Indices: 5027488--5027607 Score: 231
Period size: 42 Copynumber: 2.9 Consensus size: 42
5027478 TTTCCCCGAA
*
5027488 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
5027530 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
5027572 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
5027608 TGTAATTTAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:5027843 original size:22 final size:23
Alignment explanation
Indices: 5027796--5027856 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
5027786 TAATTATTAA
* *
5027796 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
5027817 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
5027840 -ATATTTTTAATATTATA
1 AATATTTATAATAATATA
5027857 TAAAATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:5027919 original size:54 final size:52
Alignment explanation
Indices: 5027822--5027924 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 52
5027812 TTATTAATAT
*
5027822 TTATAATAATATAATATTATATTTTTAATATTATATAAAATAATCAATTATA
1 TTATAATAATATAATATTATATTTTTAATATTATATAAAATAATAAATTATA
*
5027874 TTATAATAATATAAGATATTATATTTTT-ATTTTA-ATAATATATAATAAATT
1 TTATAATAATAT-A-ATATTATATTTTTAATATTATATAA-A-ATAATAAATT
5027925 TTTTATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
52 16 0.36
53 7 0.16
54 22 0.49
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (52 bp):
TTATAATAATATAATATTATATTTTTAATATTATATAAAATAATAAATTATA
Done.