Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_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: 2850692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 12
Found at i:2630882 original size:13 final size:13
Alignment explanation
Indices: 2630864--2630908 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
2630854 GTGTCATAAA
2630864 TATGACGCACATT
1 TATGACGCACATT
**
2630877 TATGACGTTCATT
1 TATGACGCACATT
* *
2630890 TATGACGCGCATG
1 TATGACGCACATT
2630903 TATGAC
1 TATGAC
2630909 TTACATTGCG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (13 bp):
TATGACGCACATT
Found at i:2630994 original size:85 final size:85
Alignment explanation
Indices: 2630887--2631180 Score: 432
Period size: 84 Copynumber: 3.5 Consensus size: 85
2630877 TATGACGTTC
* * *
2630887 ATTTATGACGCGCATGTATGACTTACATTGCGCGTCATTGAAGCCTCCATCATAAATTAATATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAATATGA
2630952 CACACATTTGTGTGTCATAA
66 CACACATTTGTGTGTCATAA
* * * *
2630972 ATTTATGACATGCATTTATGACTTACATTGCGCGTCATTAAAGCCCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAATATGA
*
2631037 CACACATTT-TGCGTCATAA
66 CACACATTTGTGTGTCATAA
* * *
2631056 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAATCCCCCGTCAT-AATCT-GTTTG
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAAT-TAATATG
*
2631119 ACATACATTTGTGTGTCATAA
65 ACACACATTTGTGTGTCATAA
* *
2631140 ATTTATGACACGCATATATGACTTACATTGCGTGTCATTGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGA
2631181 CGCACACGTC
Statistics
Matches: 188, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
83 14 0.07
84 107 0.57
85 67 0.36
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (85 bp):
ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAATATGA
CACACATTTGTGTGTCATAA
Found at i:2631216 original size:84 final size:83
Alignment explanation
Indices: 2630887--2631217 Score: 362
Period size: 84 Copynumber: 4.0 Consensus size: 83
2630877 TATGACGTTC
* * * * *
2630887 ATTTATGACGCGCATGTATGACTTACATTGCGCGTCATTGAAGCCTCCATCATAAATTAATATGA
1 ATTTATGACACGCATATATGACTTACATTGCGCGTCATTGAAGCCCCCGTCAT--ATTAAAATGA
*
2630952 CACACATTTGTGTGTCATAA
64 CAAACATTTGTGTGTCATAA
* * * *
2630972 ATTTATGACATGCATTTATGACTTACATTGCGCGTCATTAAAGCCCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATATATGACTTACATTGCGCGTCATTGAAGCCCCCGTCAT--ATTAAAATGA
* *
2631037 CACACATTT-TGCGTCATAA
64 CAAACATTTGTGTGTCATAA
* * ***
2631056 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAATCCCCCGTCATAATCT-GTTTGA
1 ATTTATGACACGCATATATGACTTACATTGCGCGTCATTGAAGCCCCCGTCAT-AT-TAAAATGA
*
2631120 CATACATTTGTGTGTCATAA
64 CAAACATTTGTGTGTCATAA
* * * * *
2631140 ATTTATGACACGCATATATGACTTACATTGCGTGTCATTGACGCACACGTCAT-TTAAAAAGACA
1 ATTTATGACACGCATATATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATATTAAAATGACA
* *
2631204 AACGTTCGTGTGTC
66 AACATTTGTGTGTC
2631218 GTGATTGTAT
Statistics
Matches: 213, Mismatches: 30, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
81 1 0.00
82 16 0.08
83 14 0.07
84 115 0.54
85 67 0.31
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (83 bp):
ATTTATGACACGCATATATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATATTAAAATGACA
AACATTTGTGTGTCATAA
Found at i:2631244 original size:2 final size:2
Alignment explanation
Indices: 2631237--2631313 Score: 108
Period size: 2 Copynumber: 40.5 Consensus size: 2
2631227 TTTCGGAAAT
* *
2631237 TA TA TA TA -A AA TA AA TA TA TA TA TA TA T- 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
2631277 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2631314 TGTAGATTGA
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
1 4 0.06
2 64 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2633952 original size:24 final size:24
Alignment explanation
Indices: 2633920--2633969 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
2633910 ATTCCACGAC
2633920 TATCAACCCAATCACACATGAAAA
1 TATCAACCCAATCACACATGAAAA
2633944 TATCAACCCAATCACACATGAAAA
1 TATCAACCCAATCACACATGAAAA
2633968 TA
1 TA
2633970 GGACAGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.28, G:0.04, T:0.18
Consensus pattern (24 bp):
TATCAACCCAATCACACATGAAAA
Found at i:2635398 original size:15 final size:15
Alignment explanation
Indices: 2635378--2635432 Score: 92
Period size: 15 Copynumber: 3.7 Consensus size: 15
2635368 ATGCTTTCTT
2635378 TTTTCTTCTTTGACG
1 TTTTCTTCTTTGACG
2635393 TTTTCTTCTTTGACG
1 TTTTCTTCTTTGACG
*
2635408 TTTTCTTCTTAGACG
1 TTTTCTTCTTTGACG
*
2635423 TTGTCTTCTT
1 TTTTCTTCTT
2635433 ACCCCATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.07, C:0.20, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTTCTTCTTTGACG
Found at i:2638834 original size:36 final size:31
Alignment explanation
Indices: 2638767--2638840 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 31
2638757 GGAAAACAGA
* *
2638767 GAAAAATGGGGGAAGCACGGCGTGAACTGAT
1 GAAAAATGGGGGAAGCACGGCGGGAAATGAT
2638798 GAAAAATGGGGGAAGATCAAGCGCGCGGGAAATGAT
1 GAAAAATGGGGGAAG--C-A-CG-GCGGGAAATGAT
2638834 GAAAAAT
1 GAAAAAT
2638841 AAGGGGGGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 15 0.42
33 1 0.03
34 1 0.03
35 2 0.06
36 17 0.47
ACGTcount: A:0.41, C:0.11, G:0.36, T:0.12
Consensus pattern (31 bp):
GAAAAATGGGGGAAGCACGGCGGGAAATGAT
Found at i:2642638 original size:18 final size:18
Alignment explanation
Indices: 2642615--2642653 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2642605 AATACATTAC
* * *
2642615 AACTGAATTTATTTTAGA
1 AACTGAACTTAATTGAGA
2642633 AACTGAACTTAATTGAGA
1 AACTGAACTTAATTGAGA
2642651 AAC
1 AAC
2642654 CATATGGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (18 bp):
AACTGAACTTAATTGAGA
Found at i:2644633 original size:31 final size:31
Alignment explanation
Indices: 2644591--2644700 Score: 114
Period size: 31 Copynumber: 3.4 Consensus size: 31
2644581 TTAGGTCCAT
2644591 AAGGAATTACCAGTCGGTGTTGAACCTATAC
1 AAGGAATTACCAGTCGGTGTTGAACCTATAC
* * * * *
2644622 AAGAAATTACCAG-CAGCGACTGAACCTGCCAGAC
1 AAGGAATTACCAGTCGGTG-TTGAACCT---ATAC
2644656 ATAAGGAATTACCAGTCGGTGTTGAACCTATAC
1 --AAGGAATTACCAGTCGGTGTTGAACCTATAC
2644689 AAGGAATTACCA
1 AAGGAATTACCA
2644701 ATAGAGACTG
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
30 3 0.05
31 31 0.50
33 3 0.05
34 3 0.05
36 19 0.31
37 3 0.05
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
AAGGAATTACCAGTCGGTGTTGAACCTATAC
Found at i:2648952 original size:20 final size:20
Alignment explanation
Indices: 2648914--2648952 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2648904 GAGTTTTTCT
* * *
2648914 CAAATTTTTACTTTGTTCAC
1 CAAAATTTTAATTTATTCAC
2648934 CAAAATTTTAATTTATTCA
1 CAAAATTTTAATTTATTCA
2648953 TTTTGGTCAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.49
Consensus pattern (20 bp):
CAAAATTTTAATTTATTCAC
Found at i:2651637 original size:35 final size:35
Alignment explanation
Indices: 2651598--2651670 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
2651588 CTATGTTTTA
2651598 AATGTATCGAAAAGTACATGTTGACTGATTCATTG
1 AATGTATCGAAAAGTACATGTTGACTGATTCATTG
2651633 AATGTATCGAAAAGTACATGTTGACTGATTCATTG
1 AATGTATCGAAAAGTACATGTTGACTGATTCATTG
2651668 AAT
1 AAT
2651671 AATCTGATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (35 bp):
AATGTATCGAAAAGTACATGTTGACTGATTCATTG
Found at i:2669124 original size:36 final size:37
Alignment explanation
Indices: 2669064--2669166 Score: 136
Period size: 36 Copynumber: 2.8 Consensus size: 37
2669054 TATTTTTTAC
* *
2669064 TGGGTCGGGTCAGAGTCGGGTGGAGGATATATATTTTT
1 TGGGTCGGGT-AGGGTCGGGTGGAGGATATAAATTTTT
*
2669102 T-GGTCGGGTAGGGTCGGATGGAGGATATAAATTTTT
1 TGGGTCGGGTAGGGTCGGGTGGAGGATATAAATTTTT
* *
2669138 TGGGTCGGGTTAGGTTCGGGTGGAAGATA
1 TGGGTCGGG-TAGGGTCGGGTGGAGGATA
2669167 CCTATTTTCG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
36 25 0.44
37 15 0.26
38 17 0.30
ACGTcount: A:0.19, C:0.07, G:0.42, T:0.32
Consensus pattern (37 bp):
TGGGTCGGGTAGGGTCGGGTGGAGGATATAAATTTTT
Found at i:2680533 original size:21 final size:21
Alignment explanation
Indices: 2680482--2680527 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
2680472 GAAAAAATTG
*
2680482 ATTTCCATTTTGAGCTTTTTT
1 ATTTCCATTTTGAGCTATTTT
2680503 ATTTCCATTTTGAGCTATTTT
1 ATTTCCATTTTGAGCTATTTT
2680524 ATTT
1 ATTT
2680528 GGATTTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.09, T:0.61
Consensus pattern (21 bp):
ATTTCCATTTTGAGCTATTTT
Found at i:2682000 original size:21 final size:21
Alignment explanation
Indices: 2681975--2682070 Score: 131
Period size: 21 Copynumber: 4.5 Consensus size: 21
2681965 GTAAGAGTAG
2681975 TTTGTGTACTTGGAGTAATAC
1 TTTGTGTACTTGGAGTAATAC
*
2681996 TTTGTGTACTATGGCAAG-AGTAC
1 TTTGTGTACT-TGG--AGTAATAC
2682019 TTTGTGTACTTGGAGTAATAC
1 TTTGTGTACTTGGAGTAATAC
* *
2682040 TTTGTGTACTTGTAGTAGTAC
1 TTTGTGTACTTGGAGTAATAC
2682061 TTTGTGTACT
1 TTTGTGTACT
2682071 ATGGCACTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.03
21 43 0.64
22 6 0.09
23 14 0.21
24 2 0.03
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.44
Consensus pattern (21 bp):
TTTGTGTACTTGGAGTAATAC
Found at i:2682030 original size:44 final size:41
Alignment explanation
Indices: 2681967--2682070 Score: 154
Period size: 44 Copynumber: 2.4 Consensus size: 41
2681957 GCATTTTCGT
*
2681967 AAGAGTAGTTTGTGTACTTGGAGTAATACTTTGTGTACTATGG
1 AAGAGTACTTTGTGTACTTGGAGTAATACTTTGTGTACT-T-G
2682010 CAAGAGTACTTTGTGTACTTGGAGTAATACTTTGTGTACTTG
1 -AAGAGTACTTTGTGTACTTGGAGTAATACTTTGTGTACTTG
*
2682052 TAGTAGTACTTTGTGTACT
1 AAG-AGTACTTTGTGTACT
2682071 ATGGCACTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
41 2 0.04
42 16 0.28
43 1 0.02
44 38 0.67
ACGTcount: A:0.24, C:0.10, G:0.25, T:0.41
Consensus pattern (41 bp):
AAGAGTACTTTGTGTACTTGGAGTAATACTTTGTGTACTTG
Found at i:2686435 original size:61 final size:61
Alignment explanation
Indices: 2686328--2686442 Score: 194
Period size: 61 Copynumber: 1.9 Consensus size: 61
2686318 GTAGTGCTAA
* *
2686328 ACCTGCACTAAGCTTACGCCATAGTGCTAATCCGGATATGACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTCGTGCCCACC
* *
2686389 ACCTACACTAAGCTTACGCTATAGTGCTAATCCGGACATGATACATAAGGTCGT
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTCGT
2686443 ATCCACCTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (61 bp):
ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTCGTGCCCACC
Found at i:2688005 original size:30 final size:30
Alignment explanation
Indices: 2687965--2688052 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
2687955 CATTTGTAAT
* *
2687965 TTTTCCAAATTTACATTTTGGTCCCTAAAC
1 TTTTCCAAATTTATAATTTGGTCCCTAAAC
* *
2687995 TTTTCAAAATTTATACTTTGGTCACC-AAAC
1 TTTTCCAAATTTATAATTTGGTC-CCTAAAC
* *
2688025 TTTACCAAATTTATAATTTGGTCACTAA
1 TTTTCCAAATTTATAATTTGGTCCCTAA
2688053 TTAAATCCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
29 1 0.02
30 46 0.94
31 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTCCAAATTTATAATTTGGTCCCTAAAC
Found at i:2693641 original size:23 final size:23
Alignment explanation
Indices: 2693611--2693662 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
2693601 TCATATAAAC
2693611 GCACCGAAGTGCCACGTAGAATT
1 GCACCGAAGTGCCACGTAGAATT
*
2693634 GCACCGAAGTGCCGCGTAGAATT
1 GCACCGAAGTGCCACGTAGAATT
2693657 GCACCG
1 GCACCG
2693663 TAGCGCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.15
Consensus pattern (23 bp):
GCACCGAAGTGCCACGTAGAATT
Found at i:2706755 original size:15 final size:15
Alignment explanation
Indices: 2706735--2706769 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
2706725 AAAGTAGAAA
2706735 GTTCAAGCCAAATCG
1 GTTCAAGCCAAATCG
2706750 GTTCAAGCCAAATCG
1 GTTCAAGCCAAATCG
2706765 GTTCA
1 GTTCA
2706770 TCTTTGACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (15 bp):
GTTCAAGCCAAATCG
Found at i:2707838 original size:22 final size:24
Alignment explanation
Indices: 2707794--2707850 Score: 82
Period size: 22 Copynumber: 2.4 Consensus size: 24
2707784 AATTGATCAT
2707794 AATGGTGAAGGACCATTATGAATTA
1 AATGGTGAAGGACCA-TATGAATTA
2707819 AATGGTGAAGGA-C-TATGAATTA
1 AATGGTGAAGGACCATATGAATTA
*
2707841 AATGGCGAAG
1 AATGGTGAAG
2707851 TTGATGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 18 0.58
24 1 0.03
25 12 0.39
ACGTcount: A:0.40, C:0.07, G:0.28, T:0.25
Consensus pattern (24 bp):
AATGGTGAAGGACCATATGAATTA
Found at i:2711041 original size:21 final size:22
Alignment explanation
Indices: 2711017--2711059 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2711007 TTGGTCCCAA
2711017 TCAAAATT-C-TAACTTAAAATT
1 TCAAAATTCCATAA-TTAAAATT
*
2711038 TCAACATTCCATAATTAAAATT
1 TCAAAATTCCATAATTAAAATT
2711060 CAACATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 9 0.47
23 3 0.16
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (22 bp):
TCAAAATTCCATAATTAAAATT
Found at i:2714916 original size:20 final size:21
Alignment explanation
Indices: 2714886--2714925 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2714876 TACCCGTTGG
2714886 GCCTGATGGTATCGATACTAA
1 GCCTGATGGTATCGATACTAA
2714907 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGATACTA
2714926 CTATGTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAA
Found at i:2714973 original size:18 final size:18
Alignment explanation
Indices: 2714938--2714971 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2714928 ATGTAAAGTA
2714938 GTATCCGTACCCATTTTG
1 GTATCCGTACCCATTTTG
*
2714956 GTATCGGTA-CCATTTT
1 GTATCCGTACCCATTTT
2714972 TGCATTATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (18 bp):
GTATCCGTACCCATTTTG
Found at i:2715967 original size:13 final size:13
Alignment explanation
Indices: 2715937--2715967 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
2715927 TGACTTAAAT
2715937 TCATTATGAAAAA
1 TCATTATGAAAAA
2715950 T-ATTATGAAAAA
1 TCATTATGAAAAA
2715962 TCATTA
1 TCATTA
2715968 AACTTTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (13 bp):
TCATTATGAAAAA
Found at i:2719212 original size:19 final size:20
Alignment explanation
Indices: 2719188--2719233 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
2719178 CAAAATGCCC
*
2719188 CAATTTCAA-ATTCTAACAT
1 CAATTTCAACACTCTAACAT
2719207 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
2719227 TAATTTC
1 CAATTTC
2719234 TAGCATAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:2722059 original size:21 final size:21
Alignment explanation
Indices: 2722022--2722066 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2722012 TCTAAATCTA
*
2722022 TTTTCAAAATTACATTTTGAT
1 TTTTCAAAATCACATTTTGAT
*
2722043 TTTTCAAAATC-CAATTTTGCT
1 TTTTCAAAATCAC-ATTTTGAT
2722064 TTT
1 TTT
2722067 AAAAGAGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCAAAATCACATTTTGAT
Found at i:2725729 original size:2 final size:2
Alignment explanation
Indices: 2725722--2725752 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2725712 CTTTTAGTGT
2725722 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 T
2725753 GATTTGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2726338 original size:72 final size:74
Alignment explanation
Indices: 2726254--2726401 Score: 257
Period size: 72 Copynumber: 2.0 Consensus size: 74
2726244 AAATTTAAAA
2726254 ATTCAAGATATATTTAATTTATAATATTATTATTTC-AATTTAT-ATTTTATGAAAATCTATTAA
1 ATTCAAGATATATTTAATTTATAATATTATTATTTCAAATTTATAATTTTATGAAAATCTATTAA
2726317 -TTTTATAT
66 TTTTTATAT
*
2726325 ATTCAAAGATATATTTAATTTATAATATTGTTATTTCAAATTTATAATTTTATGAAAATCTATTA
1 ATTC-AAGATATATTTAATTTATAATATTATTATTTCAAATTTATAATTTTATGAAAATCTATTA
2726390 ATTTTTATAT
65 ATTTTTATAT
2726400 AT
1 AT
2726402 AAATTTTATT
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
71 4 0.06
72 31 0.43
73 7 0.10
74 20 0.28
75 10 0.14
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (74 bp):
ATTCAAGATATATTTAATTTATAATATTATTATTTCAAATTTATAATTTTATGAAAATCTATTAA
TTTTTATAT
Found at i:2726678 original size:28 final size:27
Alignment explanation
Indices: 2726641--2726700 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
2726631 AAATAAAATA
* * *
2726641 AATAATATAT-TTATTATATATATTTAT
1 AATAATATATATT-TTAAAAATATTGAT
2726668 AATAATAATATATTTTAAAAATATTGAT
1 AATAAT-ATATATTTTAAAAATATTGAT
2726696 AATAA
1 AATAA
2726701 ACATATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.21
28 20 0.71
29 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
AATAATATATATTTTAAAAATATTGAT
Found at i:2728069 original size:3 final size:3
Alignment explanation
Indices: 2728061--2728100 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
2728051 ATTTATTTAT
* *
2728061 TAA TAA TAA TAA TAC TAA TAA TAA TAA TAA TAA TAG TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2728101 TAAATGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2728593 original size:122 final size:123
Alignment explanation
Indices: 2728369--2728736 Score: 438
Period size: 122 Copynumber: 3.1 Consensus size: 123
2728359 TTCTCATTCT
* **
2728369 GAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCTTGCAAAAGGTTGAACAAGCTCTT
1 GAAAA-GTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCAAGCAAAAGGTTGAACAAGCTCTT
* *
2728434 CTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTG
65 CTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
* *
2728493 GAAAAGTTGATGTTGATCTATCTCCTTCTGCGATAGAGTCGAGC-AAAGGTTGAACAAGCTCTTC
1 GAAAAGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCAAGCAAAAGGTTGAACAAGCTCTTC
* *
2728557 TCATTATGAACTTCTTCTTCCTCTTTAGATGAGTTCTTCTCATTATGAACACT-TCTG
66 TCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
* * ** * * * * * *
2728614 G--CA----ATGTTGATCCA--T-C--AAGTGATATATTAAAGCGAAAGGTTGAATAAGTTCTTC
1 GAAAAGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCAAGCAAAAGGTTGAACAAGCTCTTC
* *
2728668 TCATTATGAACTTCTTCTTCCTCTTCAGACGAGTTCTTCTCATTATGAACTCTCTTTG
66 TCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
*
2728726 GAAATGTTGAT
1 GAAAAGTTGAT
2728737 CCATCGAGTG
Statistics
Matches: 211, Mismatches: 25, Indels: 22
0.82 0.10 0.09
Matches are distributed among these distances:
110 10 0.05
111 68 0.32
112 5 0.02
113 1 0.00
115 10 0.05
118 2 0.01
119 1 0.00
121 5 0.02
122 69 0.33
123 35 0.17
124 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (123 bp):
GAAAAGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCAAGCAAAAGGTTGAACAAGCTCTTC
TCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
Found at i:2728817 original size:111 final size:113
Alignment explanation
Indices: 2728415--2728860 Score: 483
Period size: 111 Copynumber: 3.9 Consensus size: 113
2728405 GAGTCTTGCA
* * *
2728415 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
1 AAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTA
* * * *** ** ** *
2728480 TGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTGCGA-TAGAGTCGAG
66 TGAACTCTCTCTGG--CA----ATGTTGATCCATCGAGTGATGATATTAAAG-C--G
* * *
2728536 CAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTTAGATGAGTTCTTCTCATT
1 -AAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATT
* *
2728601 ATGAACACT-TCTGGCAATGTTGATCCATCAAGTGAT-ATATTAAAGCG
65 ATGAACTCTCTCTGGCAATGTTGATCCATCGAGTGATGATATTAAAGCG
*
2728648 AAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGACGAGTTCTTCTCATTA
1 AAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTA
* * * *
2728713 TGAACTCTCTTTGGAAATGTTGATCCATCGAGTGATGA-ATT-TA-TG
66 TGAACTCTCTCTGGCAATGTTGATCCATCGAGTGATGATATTAAAGCG
* * *
2728758 AAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTGCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATT
*
2728823 ATGAACTCTAC-CTGGCAATGTTGATCCATTGAGTGATG
65 ATGAACTCT-CTCTGGCAATGTTGATCCATCGAGTGATG
2728861 GATTCAAATC
Statistics
Matches: 288, Mismatches: 31, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
110 39 0.14
111 124 0.43
112 29 0.10
113 1 0.00
114 2 0.01
115 18 0.06
119 1 0.00
121 5 0.02
122 69 0.24
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (113 bp):
AAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTA
TGAACTCTCTCTGGCAATGTTGATCCATCGAGTGATGATATTAAAGCG
Found at i:2730394 original size:19 final size:19
Alignment explanation
Indices: 2730370--2730434 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
2730360 CCTGACCCTC
2730370 TTTTTCTATATTTTTTATT
1 TTTTTCTATATTTTTTATT
* * *
2730389 TTTTTCAACATTTTTTCTTT
1 TTTTTCTATATTTTTT-ATT
* *
2730409 TTTTTCT-TTTTTTTTCTT
1 TTTTTCTATATTTTTTATT
2730427 TTTATTCT
1 TTT-TTCT
2730435 TCAAGCATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 5 0.14
19 24 0.65
20 8 0.22
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTCTATATTTTTTATT
Found at i:2730412 original size:10 final size:10
Alignment explanation
Indices: 2730399--2730429 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
2730389 TTTTTCAACA
2730399 TTTTTTC-TT
1 TTTTTTCTTT
2730408 TTTTTTCTTT
1 TTTTTTCTTT
2730418 TTTTTTCTTT
1 TTTTTTCTTT
2730428 TT
1 TT
2730430 ATTCTTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:2730428 original size:9 final size:9
Alignment explanation
Indices: 2730399--2730435 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
2730389 TTTTTCAACA
2730399 TTTTTTCTT
1 TTTTTTCTT
2730408 TTTTTTCTTT
1 TTTTTTC-TT
2730418 TTTTTTCTT
1 TTTTTTCTT
*
2730427 TTTATTCTT
1 TTTTTTCTT
2730436 CAAGCATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:2730435 original size:19 final size:19
Alignment explanation
Indices: 2730399--2730435 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2730389 TTTTTCAACA
*
2730399 TTTTTTCTTTTTTTTCTTT
1 TTTTTTCTTTTTATTCTTT
2730418 TTTTTTCTTTTTATTCTT
1 TTTTTTCTTTTTATTCTT
2730436 CAAGCATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTCTTTTTATTCTTT
Found at i:2733988 original size:9 final size:9
Alignment explanation
Indices: 2733965--2733995 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2733955 GAAAAATAAT
2733965 GAATGTAAA
1 GAATGTAAA
2733974 -AATGTAAA
1 GAATGTAAA
2733982 GAATGTAAA
1 GAATGTAAA
2733991 GAATG
1 GAATG
2733996 ATTGCCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (9 bp):
GAATGTAAA
Found at i:2735937 original size:49 final size:49
Alignment explanation
Indices: 2735880--2735978 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
2735870 CAATGAATTA
2735880 ACAATTTCTCATCTTTCACATGTCCTGCCATTCTACGACAAAACATAGT
1 ACAATTTCTCATCTTTCACATGTCCTGCCATTCTACGACAAAACATAGT
2735929 ACAATTTCTCATCTTTCACATGTCCTGCCATTCTACGACAAAACATAGT
1 ACAATTTCTCATCTTTCACATGTCCTGCCATTCTACGACAAAACATAGT
2735978 A
1 A
2735979 TTATGGGATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (49 bp):
ACAATTTCTCATCTTTCACATGTCCTGCCATTCTACGACAAAACATAGT
Found at i:2736778 original size:15 final size:15
Alignment explanation
Indices: 2736755--2736786 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2736745 TGCAATGAAT
2736755 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
2736770 AATGCATGTATGCAA
1 AATGAATGTATGCAA
2736785 AA
1 AA
2736787 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:2740142 original size:28 final size:26
Alignment explanation
Indices: 2740087--2740144 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
2740077 AAACATTAAT
*
2740087 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATG
* *
2740113 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAAT-A-TACATATAAAAATTATG
2740141 AAAA
1 AAAA
2740145 GAAAGAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 8 0.30
27 1 0.04
28 18 0.67
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATG
Found at i:2742221 original size:3 final size:3
Alignment explanation
Indices: 2742213--2742249 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
2742203 ATTATTTATT
*
2742213 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2742250 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2743384 original size:15 final size:16
Alignment explanation
Indices: 2743364--2743393 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2743354 AATTTACATG
2743364 AAACTTTT-TTCTCAA
1 AAACTTTTATTCTCAA
2743379 AAACTTTTATTCTCA
1 AAACTTTTATTCTCA
2743394 GCAACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (16 bp):
AAACTTTTATTCTCAA
Found at i:2746321 original size:4 final size:4
Alignment explanation
Indices: 2746314--2746357 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
2746304 TCCAAGAACA
* *
2746314 AAAT AAAT AAAT AAAT AAAT AAAAG AAAA AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAA
2746358 AGAAAAGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
4 33 0.92
5 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:2746337 original size:21 final size:21
Alignment explanation
Indices: 2746313--2746363 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
2746303 ATCCAAGAAC
* *
2746313 AAAATAAATAAATAAATAAAT
1 AAAAGAAAAAAATAAATAAAT
2746334 AAAAGAAAAAAATAAATAAAT
1 AAAAGAAAAAAATAAATAAAT
2746355 AAAAGAAAA
1 AAAAGAAAA
2746364 GTAACAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAAGAAAAAAATAAATAAAT
Found at i:2746339 original size:29 final size:29
Alignment explanation
Indices: 2746296--2746357 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
2746286 TAAAAAATAT
** *
2746296 TAAATAAATCCAAGAACAAAATAAATAAA
1 TAAATAAATAAAAGAAAAAAATAAATAAA
2746325 TAAATAAATAAAAGAAAAAAATAAATAAA
1 TAAATAAATAAAAGAAAAAAATAAATAAA
2746354 TAAA
1 TAAA
2746358 AGAAAAGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (29 bp):
TAAATAAATAAAAGAAAAAAATAAATAAA
Found at i:2746346 original size:25 final size:27
Alignment explanation
Indices: 2746287--2746357 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
2746277 AACATTAGAT
*
2746287 AAAAAAT-ATTAAATAAATCCAAGAACA
1 AAAAAATAAATAAATAAAT-CAAGAACA
*
2746314 AAATAAATAAATAAATAAAT-AA-AAGA
1 AAA-AAATAAATAAATAAATCAAGAACA
2746340 AAAAAATAAATAAATAAA
1 AAAAAATAAATAAATAAA
2746358 AGAAAAGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
25 15 0.38
26 6 0.15
27 5 0.12
28 4 0.10
29 10 0.25
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.18
Consensus pattern (27 bp):
AAAAAATAAATAAATAAATCAAGAACA
Found at i:2746457 original size:18 final size:17
Alignment explanation
Indices: 2746427--2746460 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
2746417 GTACTAATAA
2746427 TAATAAAATAAATAAAT
1 TAATAAAATAAATAAAT
2746444 TAATAAAGATAAATAAA
1 TAATAAA-ATAAATAAA
2746461 ATTTAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
TAATAAAATAAATAAAT
Found at i:2746524 original size:3 final size:3
Alignment explanation
Indices: 2746516--2746544 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2746506 GAACGAAATA
2746516 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2746545 AAGGTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2748182 original size:85 final size:83
Alignment explanation
Indices: 2748044--2748320 Score: 213
Period size: 84 Copynumber: 3.3 Consensus size: 83
2748034 ATGTGTCATC
* * * * * *
2748044 GAGCTGAATGGAATCGAACTCGACA-AT-TTTGTTGACAGATAGCCCTTCTTGCCTTGAGCTATG
1 GAGCTGAATGTAATCAAACTCGA-AGGTCTTTGATGACAGATAACCCTTCTTGCCTTGAGCTATA
* *
2748107 CTGTAAATTTGATTTTCCTCT-
65 CTGTAAA--TGATGTACCT-TG
* * * *
2748128 GAGTTGAATGTAATCAAACTCGAAGGTCTTTGATGACAGATAATCGTTCTTGCCTTGAGTTATAC
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGATGACAGATAACCCTTCTTGCCTTGAGCTATAC
2748193 TGTAAATGATGTACCTTG
66 TGTAAATGATGTACCTTG
* * * * * * *
2748211 GAGCTGAGTGTAATCGAACTCGAATGTCTTTGGTTGGA-AGATAACCCTT-TTCGACTTAAGATA
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTT-GAT-GACAGATAACCCTTCTT-GCCTTGAGCTA
* ** * * *
2748274 TGCTACAAAGGATATGCCTTG
63 TACTGTAAATGATGTACCTTG
* *
2748295 GATCTGAATGTAGTCAAACTCGAAGG
1 GAGCTGAATGTAATCAAACTCGAAGG
2748321 AGCTAAGCGA
Statistics
Matches: 154, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
82 1 0.01
83 38 0.25
84 76 0.49
85 39 0.25
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (83 bp):
GAGCTGAATGTAATCAAACTCGAAGGTCTTTGATGACAGATAACCCTTCTTGCCTTGAGCTATAC
TGTAAATGATGTACCTTG
Found at i:2749726 original size:95 final size:94
Alignment explanation
Indices: 2749548--2749743 Score: 277
Period size: 95 Copynumber: 2.1 Consensus size: 94
2749538 GGATAGCTTA
* * * * * * *
2749548 ATATGTAAACACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATTG
1 ATATATAATCACCTTTATCAGGCTAGATGAATATTATCCATAAAGCCGGGGCATTTAACCAATTG
* *
2749613 CCTTAGAGGGACATCTCAAGCTTTATTGT
66 CCTTACAGGGACAACTCAAGCTTTATTGT
2749642 ATAGTATAATCACCTTTATCAGGCTAGATGAATATTATCCATAAAGCCGGGGCATTTAACCAATT
1 ATA-TATAATCACCTTTATCAGGCTAGATGAATATTATCCATAAAGCCGGGGCATTTAACCAATT
*
2749707 G-CTCTACAGGTACAACTCAAGCTTTATTGT
65 GCCT-TACAGGGACAACTCAAGCTTTATTGT
2749737 ATATATA
1 ATATATA
2749744 TAATATTATA
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
94 9 0.10
95 81 0.90
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (94 bp):
ATATATAATCACCTTTATCAGGCTAGATGAATATTATCCATAAAGCCGGGGCATTTAACCAATTG
CCTTACAGGGACAACTCAAGCTTTATTGT
Found at i:2753520 original size:14 final size:14
Alignment explanation
Indices: 2753500--2753533 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2753490 TCTAAAACTG
2753500 AATAAAAAATATTA
1 AATAAAAAATATTA
*
2753514 GATAAAAAATATTA
1 AATAAAAAATATTA
2753528 AATAAA
1 AATAAA
2753534 TCCAAGAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
AATAAAAAATATTA
Found at i:2756748 original size:112 final size:112
Alignment explanation
Indices: 2756582--2756794 Score: 295
Period size: 112 Copynumber: 1.9 Consensus size: 112
2756572 GAGTATACAC
* * * *
2756582 ATATTGCACTTTTAGTGCCAAACAGACATACATGTACTGTAGAACACAACATCACTGTACCACAT
1 ATATTGCACATTTAGTGCCAAACACACATACATATACTGTAGAACACAACATCACTGTACCACAA
* *
2756647 ATCGAA-ATTACCATAATG-CCAAATTCAAACACATCACATAATCCATA
66 AT-AAAGAATACCATAATGCCCAAA-TCAAACACATCACATAATCCATA
* * * *
2756694 ATATTGCACATTTAGTGCCAGACACACATGCATATATTGTAGAACACAATATCACTGTACCACAA
1 ATATTGCACATTTAGTGCCAAACACACATACATATACTGTAGAACACAACATCACTGTACCACAA
*
2756759 ATAAAGAATACCATAATGCCCAAATCAAACTCATCA
66 ATAAAGAATACCATAATGCCCAAATCAAACACATCA
2756795 TGTATCCCAT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
111 2 0.02
112 81 0.92
113 5 0.06
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (112 bp):
ATATTGCACATTTAGTGCCAAACACACATACATATACTGTAGAACACAACATCACTGTACCACAA
ATAAAGAATACCATAATGCCCAAATCAAACACATCACATAATCCATA
Found at i:2760367 original size:29 final size:29
Alignment explanation
Indices: 2760332--2760466 Score: 146
Period size: 29 Copynumber: 4.7 Consensus size: 29
2760322 CTTTTTAAAA
* *
2760332 TATTTACCAAAATAGCACCCATTTCGAAT
1 TATTTACCAAAATAGCACCAAATTCGAAT
* * * **
2760361 TAATTACTAGAATAGCACCAAAACCGAAT
1 TATTTACCAAAATAGCACCAAATTCGAAT
** *
2760390 TATTTACCAAAATAGCACCAAAACCAAAT
1 TATTTACCAAAATAGCACCAAATTCGAAT
*
2760419 TATTTACCAGAATAGCACCAAAATT-GAAT
1 TATTTACCAAAATAGCACC-AAATTCGAAT
*
2760448 TATTTACCAGAATAGCACC
1 TATTTACCAAAATAGCACC
2760467 GGTCAACGGT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
29 87 0.97
30 3 0.03
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (29 bp):
TATTTACCAAAATAGCACCAAATTCGAAT
Found at i:2760403 original size:58 final size:58
Alignment explanation
Indices: 2760332--2760466 Score: 180
Period size: 58 Copynumber: 2.3 Consensus size: 58
2760322 CTTTTTAAAA
* *** * *
2760332 TATTTACCAAAATAGCACCCATTTCGAATTAATTACTAGAATAGCACCAAAACCGAAT
1 TATTTACCAAAATAGCACCAAAACCAAATTAATTACCAGAATAGCACCAAAACCGAAT
* **
2760390 TATTTACCAAAATAGCACCAAAACCAAATTATTTACCAGAATAGCACCAAAATTGAAT
1 TATTTACCAAAATAGCACCAAAACCAAATTAATTACCAGAATAGCACCAAAACCGAAT
*
2760448 TATTTACCAGAATAGCACC
1 TATTTACCAAAATAGCACC
2760467 GGTCAACGGT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 67 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (58 bp):
TATTTACCAAAATAGCACCAAAACCAAATTAATTACCAGAATAGCACCAAAACCGAAT
Found at i:2760513 original size:17 final size:16
Alignment explanation
Indices: 2760466--2760513 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
2760456 AGAATAGCAC
2760466 CGGTCAACGGTCGGGT
1 CGGTCAACGGTCGGGT
2760482 CGGGTCAAC-GT---GT
1 C-GGTCAACGGTCGGGT
2760495 CGGTCAACGGGTCGGGT
1 CGGTCAAC-GGTCGGGT
2760512 CG
1 CG
2760514 TGACCGGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 11
0.70 0.00 0.30
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 2 0.08
16 3 0.12
17 11 0.42
ACGTcount: A:0.12, C:0.25, G:0.44, T:0.19
Consensus pattern (16 bp):
CGGTCAACGGTCGGGT
Found at i:2767840 original size:57 final size:58
Alignment explanation
Indices: 2767793--2767902 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 58
2767783 GACCCCATTT
* * *
2767793 CGAATTAATTACTATAATAGCACCAAAA-CGAATTATTTAACAGAATAGCACCAAAAC
1 CGAATTAATTACCAGAATAGCACCAAAACCGAATTATTTACCAGAATAGCACCAAAAC
*
2767850 CGAATTATTTACCAGAATAGCACCAAAACCGAATTATTTACCAGAATAGCACC
1 CGAATTAATTACCAGAATAGCACCAAAACCGAATTATTTACCAGAATAGCACC
2767903 GGTCAACGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
57 25 0.52
58 23 0.48
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23
Consensus pattern (58 bp):
CGAATTAATTACCAGAATAGCACCAAAACCGAATTATTTACCAGAATAGCACCAAAAC
Found at i:2767865 original size:29 final size:29
Alignment explanation
Indices: 2767793--2767902 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
2767783 GACCCCATTT
* * *
2767793 CGAATTAATTACTATAATAGCACCAAAA-
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
2767821 CGAATTATTTAACAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
2767850 CGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
2767879 CGAATTATTTACCAGAATAGCACC
1 CGAATTATTTACCAGAATAGCACC
2767903 GGTCAACGGT
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 24 0.32
29 52 0.68
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACCAAAAC
Found at i:2767941 original size:5 final size:5
Alignment explanation
Indices: 2767933--2767957 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2767923 GTCAGGTCAA
2767933 CGGGT CGGGT CGGGT CGGGT CGGGT
1 CGGGT CGGGT CGGGT CGGGT CGGGT
2767958 AAACGGGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
CGGGT
Found at i:2775734 original size:53 final size:53
Alignment explanation
Indices: 2775672--2776094 Score: 596
Period size: 53 Copynumber: 8.0 Consensus size: 53
2775662 TGTACTTTAA
*
2775672 ACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAGTTACCATTTCG
1 ACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCG
*
2775725 ACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACTATTTCG
1 ACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCG
* * * *
2775778 GCACCATGTGTGCAACCATGTTATTCATAATGAGTTTATGAATTACCATTTCG
1 ACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCG
* * * *
2775831 ACACTATGTGTGAAACAAT-GTATTCATAATGACTTTGTGAATTACCATTTTG
1 ACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCG
* * * *
2775883 ACATTATGTGTGCAACCATGGTATTCATAATGAGTTTTTGAATTTCAATTTCG
1 ACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCG
* * * * * *
2775936 ACACTATGTGTGCAACTATGGTATTCATAATTATTTTTTGAATAACCGTTTCG
1 ACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCG
* * * *
2775989 GCACTAAGTGTGCAACCATGATATTCATAATGAGTTTGTGAATTACTATTTCG
1 ACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCG
* * *
2776042 GCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGCGAATTACCATTTCG
1 ACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCG
2776095 TTATCTTAGT
Statistics
Matches: 323, Mismatches: 46, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
52 45 0.14
53 278 0.86
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (53 bp):
ACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCG
Found at i:2776049 original size:211 final size:212
Alignment explanation
Indices: 2775676--2776092 Score: 629
Period size: 211 Copynumber: 2.0 Consensus size: 212
2775666 CTTTAAACAC
* *
2775676 TATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAGTTACCATTTCGACACTATGTGTGCAAC
1 TATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACAATTTCGACACTATGTGTGCAAC
* * * *
2775741 CATGGTATTCATAATGAGTTTGTGAATTACTATTTCGGCACCATGTGTGCAACCATGTTATTCAT
66 CATGGTATTCATAATGAGTTTGTGAATAACCATTTCGGCACCAAGTGTGCAACCATGATATTCAT
*
2775806 AATGAGTTTATGAATTACCATTTCGACACTATGTGTGAAACAAT-GTATTCATAATGACTTTGTG
131 AATGAGTTTATGAATTACCATTTCGACACTATGTGTGAAACAATGGTATTCATAATGACTTTGCG
2775870 AATTACCATTTTGACAT
196 AATTACCATTTTGACAT
* *
2775887 TATGTGTGCAACCATGGTATTCATAATGAGTTTTTGAATTTCAATTTCGACACTATGTGTGCAAC
1 TATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACAATTTCGACACTATGTGTGCAAC
* * * * * *
2775952 TATGGTATTCATAATTATTTTTTGAATAACCGTTTCGGCACTAAGTGTGCAACCATGATATTCAT
66 CATGGTATTCATAATGAGTTTGTGAATAACCATTTCGGCACCAAGTGTGCAACCATGATATTCAT
* * * * * * *
2776017 AATGAGTTTGTGAATTACTATTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGCG
131 AATGAGTTTATGAATTACCATTTCGACACTATGTGTGAAACAATGGTATTCATAATGACTTTGCG
2776082 AATTACCATTT
196 AATTACCATTT
2776093 CGTTATCTTA
Statistics
Matches: 183, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
211 154 0.84
212 29 0.16
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (212 bp):
TATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACAATTTCGACACTATGTGTGCAAC
CATGGTATTCATAATGAGTTTGTGAATAACCATTTCGGCACCAAGTGTGCAACCATGATATTCAT
AATGAGTTTATGAATTACCATTTCGACACTATGTGTGAAACAATGGTATTCATAATGACTTTGCG
AATTACCATTTTGACAT
Found at i:2778278 original size:2 final size:2
Alignment explanation
Indices: 2778271--2778322 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2778261 TCCTGCACCA
2778271 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
2778313 AT AT AT AT AT
1 AT AT AT AT AT
2778323 GTTTCCAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2797042 original size:53 final size:53
Alignment explanation
Indices: 2796959--2797432 Score: 662
Period size: 53 Copynumber: 8.9 Consensus size: 53
2796949 GTACTTTCAA
* *
2796959 CACTATGTGTGCAACCATGGTAATCATAATGAGTTAGTGAATTACCATTTCGG
1 CACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGG
* * * *
2797012 CATTATGTGTGCAACTATAGTATTCATAATGAGTTTGTGAATTACTATTTCGG
1 CACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGG
* * * * *
2797065 CACCATGTGTGTAACCATGGTATACATAATGAGTTTATGAATTACCATTTCGA
1 CACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGG
* **
2797118 CACTATGTGTGCAACCATGGTATTCATAAGGAGTTTGTGAATTACCATTTCAA
1 CACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGG
**
2797171 CACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTATAATTTCGG
1 CACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGG
* * * *
2797224 CACTATGTGT-AATACCATGGTATTCATAATTAGTTTGTGAATAACCATTTTGG
1 CACTATGTGTGCA-ACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGG
** * * * *
2797277 CACTAAATGTGCAACAATGGTATTCATAATTAGTTTGTGAATAACCGTTTCGG
1 CACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGG
* * *
2797330 CACTAAGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACTATTTCGA
1 CACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGG
*
2797383 CACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCATTT
1 CACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTT
2797433 TGTTACCTTA
Statistics
Matches: 371, Mismatches: 48, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
52 1 0.00
53 369 0.99
54 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (53 bp):
CACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGG
Found at i:2798344 original size:11 final size:11
Alignment explanation
Indices: 2798319--2798352 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
2798309 AAGTAATAGC
2798319 AAATATCCAACA
1 AAATATCCAA-A
*
2798331 AAATATTCAAA
1 AAATATCCAAA
2798342 AAATATCCAAA
1 AAATATCCAAA
2798353 GTAGTATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (11 bp):
AAATATCCAAA
Found at i:2801085 original size:8 final size:8
Alignment explanation
Indices: 2801072--2801096 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2801062 TTTTAGAATT
2801072 AATTTTCA
1 AATTTTCA
2801080 AATTTTCA
1 AATTTTCA
2801088 AATTTTCA
1 AATTTTCA
2801096 A
1 A
2801097 CTTGGTCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTTCA
Found at i:2803797 original size:17 final size:17
Alignment explanation
Indices: 2803759--2803804 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
2803749 TTTTTAACAT
2803759 TAAT-ATTCAAGATTCTA
1 TAATAATTCAA-ATTCTA
2803776 TAATAATTCAAATATCTA
1 TAATAATTCAAAT-TCTA
*
2803794 -AATAAATCAAA
1 TAATAATTCAAA
2803805 ATTCAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (17 bp):
TAATAATTCAAATTCTA
Found at i:2812341 original size:23 final size:25
Alignment explanation
Indices: 2812294--2812342 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2812284 AATTATGAAA
*
2812294 AAAATATTTATATACATTTATAAAT
1 AAAATATTTATATACATTTAAAAAT
*
2812319 AAAATATTTAT-T-TATTTAAAAAT
1 AAAATATTTATATACATTTAAAAAT
2812342 A
1 A
2812343 TCAGAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 11 0.50
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AAAATATTTATATACATTTAAAAAT
Found at i:2812537 original size:21 final size:19
Alignment explanation
Indices: 2812511--2812554 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
2812501 GATATTGAAA
*
2812511 AATAAATATATATTAAAATAT
1 AATAAATA-ATAATAAAA-AT
2812532 AATAAATAATAATAAAAAT
1 AATAAATAATAATAAAAAT
2812551 AATA
1 AATA
2812555 TTTAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 8 0.36
21 8 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AATAAATAATAATAAAAAT
Found at i:2812603 original size:27 final size:26
Alignment explanation
Indices: 2812508--2812605 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 26
2812498 TTCGATATTG
*
2812508 AAAAATAAATATATATTAAAATAT-AAT
1 AAAAAT-AATA-AAATTAAAATATAAAT
* * *
2812535 AAATAATAATAAAAATAATATTTAAAT
1 AAA-AATAATAAAATTAAAATATAAAT
* * *
2812562 ATAAACAAGTAAAATTAAAACATAAAT
1 AAAAATAA-TAAAATTAAAATATAAAT
2812589 AAACAATAATAAAATTA
1 AAA-AATAATAAAATTA
2812606 GAACTATATA
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
26 12 0.22
27 36 0.65
28 7 0.13
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (26 bp):
AAAAATAATAAAATTAAAATATAAAT
Found at i:2813950 original size:9 final size:9
Alignment explanation
Indices: 2813936--2813999 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
2813926 ATGTTTGTAA
2813936 TAATAATAT
1 TAATAATAT
*
2813945 TAATAATAA
1 TAATAATAT
*
2813954 AAATAATAT
1 TAATAATAT
* *
2813963 AAATAATAA
1 TAATAATAT
* * *
2813972 TATTTATAA
1 TAATAATAT
2813981 TAATAATAT
1 TAATAATAT
*
2813990 AAATAATAT
1 TAATAATAT
2813999 T
1 T
2814000 TAAATAAATA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TAATAATAT
Found at i:2813950 original size:12 final size:12
Alignment explanation
Indices: 2813933--2813999 Score: 58
Period size: 12 Copynumber: 6.1 Consensus size: 12
2813923 GGCATGTTTG
2813933 TAATAATAATAT
1 TAATAATAATAT
2813945 TAATAATAA-A-
1 TAATAATAATAT
2813955 -AATAAT-ATA-
1 TAATAATAATAT
2813964 -AATAATAATAT
1 TAATAATAATAT
* *
2813975 TTATAATAATAA
1 TAATAATAATAT
2813987 T-ATAAATAATAT
1 TAAT-AATAATAT
2813999 T
1 T
2814000 TAAATAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 1 0.02
9 13 0.28
10 3 0.06
11 3 0.06
12 27 0.57
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:2813953 original size:15 final size:15
Alignment explanation
Indices: 2813933--2813997 Score: 78
Period size: 15 Copynumber: 4.3 Consensus size: 15
2813923 GGCATGTTTG
2813933 TAATAATAATATTAA
1 TAATAATAATATTAA
* *
2813948 TAATAAAAATAAT-A
1 TAATAATAATATTAA
*
2813962 TAAATAATAATATTTA
1 T-AATAATAATATTAA
*
2813978 TAATAATAATATAAA
1 TAATAATAATATTAA
2813993 TAATA
1 TAATA
2813998 TTTAAATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
14 2 0.05
15 38 0.90
16 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATAATAATATTAA
Found at i:2814009 original size:12 final size:11
Alignment explanation
Indices: 2813967--2814006 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
2813957 TAATATAAAT
2813967 AATAATATTTA
1 AATAATATTTA
*
2813978 TAATAATAATATA
1 -AATAAT-ATTTA
2813991 AATAATATTTA
1 AATAATATTTA
2814002 AATAA
1 AATAA
2814007 ATAAAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.36
12 12 0.48
13 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATAATATTTA
Found at i:2814009 original size:27 final size:27
Alignment explanation
Indices: 2813937--2814010 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
2813927 TGTTTGTAAT
*
2813937 AATAATATTAATAATAAA-AATAATATA
1 AATAATATTTA-AATAAATAATAATATA
*
2813964 AATAATAATATT-TAT-AATAATAATATA
1 AATAAT-AT-TTAAATAAATAATAATATA
2813991 AATAATATTTAAATAAATAA
1 AATAATATTTAAATAAATAA
2814011 AAAATGAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
25 2 0.05
26 6 0.15
27 28 0.72
28 2 0.05
29 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
AATAATATTTAAATAAATAATAATATA
Found at i:2814376 original size:113 final size:113
Alignment explanation
Indices: 2814239--2814487 Score: 349
Period size: 113 Copynumber: 2.2 Consensus size: 113
2814229 TAGAGTCATC
* * *
2814239 CAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTT-ATTCTC
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCA-TCTC
* *
2814303 ATTATGAATTTTCTCTAGAAAAGTTGATCCATCAAATAATGAATTCAAG
65 ATTATGAACTTTCTCTAGAAAAGCTGATCCATCAAATAATGAATTCAAG
*
2814352 CGAAAA-GTTGAACAAGTTCTTCTCATTGTGAACTTCTTCTTCCTTCTTCAGATGAGTTCATCTC
1 C-AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCATCTC
* * * * **
2814416 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
65 ATTATGAACTTTCTCTAGAAAAGCTGATCCATCAAATAATGAATTCAAG
*
2814465 CAAAAGGTTGAACAAATTCTTCT
1 CAAAAGGTTGAACAAGTTCTTCT
2814488 TCTTCAGATG
Statistics
Matches: 120, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
112 4 0.03
113 111 0.93
114 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCATCTCA
TTATGAACTTTCTCTAGAAAAGCTGATCCATCAAATAATGAATTCAAG
Found at i:2814623 original size:113 final size:113
Alignment explanation
Indices: 2814481--2815801 Score: 1893
Period size: 113 Copynumber: 11.7 Consensus size: 113
2814471 GTTGAACAAA
* ** *
2814481 TTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT-GACAATA-TTGATCCAT
1 TTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTTTCTGGA-AA-AGCTGATCCAT
* ** * * * * * *
2814543 CAAATGATGAATTCAAACAAAAGGTCGAATAAATTCTTTTCATTATAAACTTC
61 CAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
* * * *
2814596 TTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
*
2814661 GATGCATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
66 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
*
2814709 TTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
2814774 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
66 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
* * * ** * **
2814822 TTCTTCCTTCTTCAGATTAGTTATTCTCATTATGAACTCTAACAGGCACTA-CTGATCCA-CAGA
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGG-AAAAGCTGATCCATCA-A
* * * * * * * *
2814885 GTGATGAATTTAAGAAAAAAGTTGAACAAGTTCTTCTCATCATGAACTTC
64 ATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
* ** * *
2814935 TTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAA-TTCTACCTGGCAATGCTGATCCATCAAA
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TTTCTGGAAAAGCTGATCCATCAAA
* ** ** * *
2814999 TGATGAATTCAAATAAAAGGTTGAATAAATTCTTCTCATTGTG-ATATTC
65 TGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT-TTC
* * *
2815048 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATTCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
*
2815113 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTTATTATGAATTTC
66 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
* *
2815161 TTCTTCCTTCTTCAGATGAGTTCTTCTCGTTATGAACTTTTTCTAGAAAAGCTGATCCATCAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
*
2815226 GATGGATTTGTGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
66 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
*
2815274 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTCTGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
2815339 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
66 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
*
2815387 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGATGATCCATCAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
*
2815452 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAATTC
66 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
* *
2815500 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTACGAACTTTTTCTGGAAAAGCTGATCCATAAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
* **
2815565 GATGGATTTAAATAAAAGGTTGAACAAATTCTTCTCATTATG-ATCTTC
66 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT-TTC
*
2815613 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATAAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
2815678 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
66 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
* * * *
2815726 TTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTATAGAAAAGCTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
2815791 GATGGATTTGA
66 GATGGATTTGA
2815802 ATCTTTGCTA
Statistics
Matches: 1092, Mismatches: 101, Indels: 28
0.89 0.08 0.02
Matches are distributed among these distances:
112 6 0.01
113 1059 0.97
114 12 0.01
115 5 0.00
116 10 0.01
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (113 bp):
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAAT
GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
Found at i:2814726 original size:24 final size:23
Alignment explanation
Indices: 2814691--2814735 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
2814681 TGAACAAATT
*
2814691 CTTCTCATTATGAATTTCTTCTTC
1 CTTCTCATTATG-AGTTCTTCTTC
2814715 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGAGTTCTTCT
2814736 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.24, G:0.07, T:0.53
Consensus pattern (23 bp):
CTTCTCATTATGAGTTCTTCTTC
Found at i:2816629 original size:114 final size:114
Alignment explanation
Indices: 2816504--2816729 Score: 346
Period size: 114 Copynumber: 2.0 Consensus size: 114
2816494 GATCATGCAG
* * * * *
2816504 TTCATCTTTCAATTCCAATGATTGGTTTT-GTGGTTCTTACCGAACCAGATCAGATGACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGATTTTAG-GGTTCATACCAAACCAGATCAGATAACTCAAAG
* * *
2816568 AACACTTCCAGAAGATGCTATTGGGTCTTCTTCTTTCTGCTATGAGCAAA
65 AACACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCAAA
* *
2816618 TTCATTTTTCAAATCCAATGATTGATTTTAGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
2816683 ACACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCA
66 ACACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCA
2816730 CATGGCACTT
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 100 0.99
115 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGATTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCAAA
Found at i:2817955 original size:16 final size:16
Alignment explanation
Indices: 2817915--2817949 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2817905 TAAATTTTCG
2817915 AAAATAAATTGAATCT
1 AAAATAAATTGAATCT
*
2817931 AAAATAAATTGAATTT
1 AAAATAAATTGAATCT
2817947 AAA
1 AAA
2817950 GAAAATAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAATAAATTGAATCT
Found at i:2829584 original size:23 final size:25
Alignment explanation
Indices: 2829537--2829585 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2829527 TAATTATGAA
*
2829537 AAAATATTTATATACATTTATAAAT
1 AAAATATTTATATACATTTAGAAAT
*
2829562 AAAATATTTAT-T-TATTTAGAAAT
1 AAAATATTTATATACATTTAGAAAT
2829585 A
1 A
2829586 TCAGAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 11 0.50
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAATATTTATATACATTTAGAAAT
Found at i:2829777 original size:17 final size:15
Alignment explanation
Indices: 2829745--2829804 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 15
2829735 CTTTTCTTCG
2829745 ATATTGAAAATAAATA
1 ATATT-AAAATAAATA
2829761 TATATTAAAATATAATAA
1 -ATATTAAAATA-AAT-A
*
2829779 ATAATAATAA-AAATA
1 ATATTAA-AATAAATA
*
2829794 ATATTTAAATA
1 ATATTAAAATA
2829805 TAAACAAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 2 0.06
15 7 0.19
16 9 0.25
17 15 0.42
18 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
ATATTAAAATAAATA
Found at i:2829777 original size:21 final size:19
Alignment explanation
Indices: 2829753--2829796 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
2829743 CGATATTGAA
*
2829753 AATAAATATATATTAAAATAT
1 AATAAATA-ATAATAAAA-AT
2829774 AATAAATAATAATAAAAAT
1 AATAAATAATAATAAAAAT
2829793 AATA
1 AATA
2829797 TTTAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 8 0.36
21 8 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AATAAATAATAATAAAAAT
Found at i:2829845 original size:27 final size:26
Alignment explanation
Indices: 2829764--2829847 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
2829754 ATAAATATAT
2829764 ATTAAAATAT-AATAAATAATAATAAA
1 ATTAAAATATAAATAAA-AATAATAAA
* * * * *
2829790 AATAATATTTAAATATAAACAAGTAAA
1 ATTAAAATATAAATAAAAATAA-TAAA
*
2829817 ATTAAAACATAAATAAACAATAATAAA
1 ATTAAAATATAAATAAA-AATAATAAA
2829844 ATTA
1 ATTA
2829848 GAACTATATA
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
26 11 0.25
27 29 0.66
28 4 0.09
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.29
Consensus pattern (26 bp):
ATTAAAATATAAATAAAAATAATAAA
Found at i:2831198 original size:9 final size:9
Alignment explanation
Indices: 2831184--2831247 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
2831174 CTGTTTGTAA
2831184 TAATAATAT
1 TAATAATAT
*
2831193 TAATAATAA
1 TAATAATAT
*
2831202 AAATAATAT
1 TAATAATAT
* *
2831211 AAATAATAA
1 TAATAATAT
* * *
2831220 TATTTATAA
1 TAATAATAT
2831229 TAATAATAT
1 TAATAATAT
*
2831238 AAATAATAT
1 TAATAATAT
2831247 T
1 T
2831248 TAAATAAATA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TAATAATAT
Found at i:2831198 original size:12 final size:12
Alignment explanation
Indices: 2831181--2831247 Score: 58
Period size: 12 Copynumber: 6.1 Consensus size: 12
2831171 GGCCTGTTTG
2831181 TAATAATAATAT
1 TAATAATAATAT
2831193 TAATAATAA-A-
1 TAATAATAATAT
2831203 -AATAAT-ATA-
1 TAATAATAATAT
2831212 -AATAATAATAT
1 TAATAATAATAT
* *
2831223 TTATAATAATAA
1 TAATAATAATAT
2831235 T-ATAAATAATAT
1 TAAT-AATAATAT
2831247 T
1 T
2831248 TAAATAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 1 0.02
9 13 0.28
10 3 0.06
11 3 0.06
12 27 0.57
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:2831201 original size:15 final size:15
Alignment explanation
Indices: 2831181--2831245 Score: 78
Period size: 15 Copynumber: 4.3 Consensus size: 15
2831171 GGCCTGTTTG
2831181 TAATAATAATATTAA
1 TAATAATAATATTAA
* *
2831196 TAATAAAAATAAT-A
1 TAATAATAATATTAA
*
2831210 TAAATAATAATATTTA
1 T-AATAATAATATTAA
*
2831226 TAATAATAATATAAA
1 TAATAATAATATTAA
2831241 TAATA
1 TAATA
2831246 TTTAAATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
14 2 0.05
15 38 0.90
16 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATAATAATATTAA
Found at i:2831257 original size:12 final size:11
Alignment explanation
Indices: 2831215--2831254 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
2831205 TAATATAAAT
2831215 AATAATATTTA
1 AATAATATTTA
*
2831226 TAATAATAATATA
1 -AATAAT-ATTTA
2831239 AATAATATTTA
1 AATAATATTTA
2831250 AATAA
1 AATAA
2831255 ATAAAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.36
12 12 0.48
13 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATAATATTTA
Found at i:2831257 original size:27 final size:27
Alignment explanation
Indices: 2831185--2831258 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
2831175 TGTTTGTAAT
*
2831185 AATAATATTAATAATAAA-AATAATATA
1 AATAATATTTA-AATAAATAATAATATA
*
2831212 AATAATAATATT-TAT-AATAATAATATA
1 AATAAT-AT-TTAAATAAATAATAATATA
2831239 AATAATATTTAAATAAATAA
1 AATAATATTTAAATAAATAA
2831259 AAAATGAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
25 2 0.05
26 6 0.15
27 28 0.72
28 2 0.05
29 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
AATAATATTTAAATAAATAATAATATA
Done.