Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 64 of 221
Found at i:18573814 original size:85 final size:84
Alignment explanation
Indices: 18573664--18573861 Score: 317
Period size: 85 Copynumber: 2.4 Consensus size: 84
18573654 ATTTTATGTG
*
18573664 AAAGG-GGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTAAAAGGGGTTGCTATGTGTTGA
1 AAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTAAAAGGGGTTGCTATGTGCTGA
*
18573728 TTCCCCGTATCACTGAATAT
66 TTCCCCGTATCACTAAAT-T
* * *
18573748 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 AAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTAAAAGGGGTTGCTATGTGCTGA
18573813 TTCCCCGTATCACTAAATT
66 TTCCCCGTATCACTAAATT
* *
18573832 TAAGGTGGTTGCTAAGTGTTGAATCCACCG
1 AAAGGTGGTTGCTAAGTGTTGATTCCACCG
18573862 AGTAATGGAT
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 33 0.31
85 72 0.69
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (84 bp):
AAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTAAAAGGGGTTGCTATGTGCTGA
TTCCCCGTATCACTAAATT
Found at i:18591179 original size:21 final size:21
Alignment explanation
Indices: 18591152--18591211 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
18591142 TCGGGTGGAC
*
18591152 CAGCTCTTTAGAGCTTTTGTT
1 CAGCTCTTTAGAGCTTCTGTT
* * *
18591173 TAGCTCTTTTGTGCTTCTGTT
1 CAGCTCTTTAGAGCTTCTGTT
18591194 CAGCTC-TTATGAGCTTCT
1 CAGCTCTTTA-GAGCTTCT
18591212 ATTGGCGTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.48
Consensus pattern (21 bp):
CAGCTCTTTAGAGCTTCTGTT
Found at i:18594650 original size:41 final size:41
Alignment explanation
Indices: 18594599--18594701 Score: 179
Period size: 41 Copynumber: 2.5 Consensus size: 41
18594589 AAAACAGATT
*
18594599 CACCGGCATTTAGCCTACTAGGCTTAAAGCCTGATTCAGTA
1 CACCGGCATTTAGCCTGCTAGGCTTAAAGCCTGATTCAGTA
* *
18594640 CACCGACATTTAGCCTGCTAGGCTTAAAGCCTGATTTAGTA
1 CACCGGCATTTAGCCTGCTAGGCTTAAAGCCTGATTCAGTA
18594681 CACCGGCATTTAGCCTGCTAG
1 CACCGGCATTTAGCCTGCTAG
18594702 ACATTTAGTC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (41 bp):
CACCGGCATTTAGCCTGCTAGGCTTAAAGCCTGATTCAGTA
Found at i:18594794 original size:41 final size:41
Alignment explanation
Indices: 18594597--18594806 Score: 156
Period size: 41 Copynumber: 5.1 Consensus size: 41
18594587 AAAAAACAGA
* * * * * *
18594597 TTCACCGGCATTTAGCCTACTAGGCTTAAAGCCTG-ATTCAG
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT-AC
* * * * * * * *
18594638 TACACCGACATTTAGCCTGCTAGGCTTAAAGCCTGATTTAG
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
* * ** *
18594679 TACACCGGCATTTAGCCTGCTAGACATTTAGTCCGAAATGTA-
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTG-AAT-TAC
* *
18594721 -TCACCGGCATTAAGCATGCTAGACGTAAAGTCTGAATTAC
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
* *
18594761 TTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGTATTAC
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
18594802 ATTCA
1 -TTCA
18594807 ACCACCTTAT
Statistics
Matches: 140, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
39 2 0.01
40 3 0.02
41 125 0.89
42 8 0.06
43 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
Found at i:18596512 original size:13 final size:13
Alignment explanation
Indices: 18596494--18596519 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18596484 CAATCAAATG
18596494 CACACAAAATAAT
1 CACACAAAATAAT
18596507 CACACAAAATAAT
1 CACACAAAATAAT
18596520 ATTAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (13 bp):
CACACAAAATAAT
Found at i:18601252 original size:23 final size:22
Alignment explanation
Indices: 18601201--18601252 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
18601191 CCTCGTCTTT
18601201 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTGTTTCTTTTTCTAAC
*
18601223 -TCATTTTCTTTTCTTTCTTC-AAC
1 TTC-TTTT-GTTTCTTT-TTCTAAC
18601246 TTCTTTT
1 TTCTTTT
18601253 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 4 0.16
23 14 0.56
24 5 0.20
ACGTcount: A:0.10, C:0.21, G:0.02, T:0.67
Consensus pattern (22 bp):
TTCTTTTGTTTCTTTTTCTAAC
Found at i:18601267 original size:18 final size:18
Alignment explanation
Indices: 18601246--18601284 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18601236 TTTCTTCAAC
* *
18601246 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
18601264 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
18601282 TTC
1 TTC
18601285 ACTCTCAATC
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:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:18604301 original size:37 final size:37
Alignment explanation
Indices: 18604251--18604329 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
18604241 TTATTACGAA
* *
18604251 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
18604288 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
18604325 GTCTT
1 GTCTT
18604330 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:18604525 original size:47 final size:47
Alignment explanation
Indices: 18604447--18604888 Score: 722
Period size: 47 Copynumber: 9.4 Consensus size: 47
18604437 CCCTTCGGGA
* * * * * * * *
18604447 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18604494 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18604541 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18604588 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18604635 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18604682 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18604729 CTTACCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
18604776 TTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18604823 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18604870 CTTATCACATATATACACT
1 CTTATCACATATATACACT
18604889 GTCTTGGCTG
Statistics
Matches: 368, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 368 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18615685 original size:13 final size:13
Alignment explanation
Indices: 18615669--18615698 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18615659 TTTTTATCTT
*
18615669 TTAATTTTCTTAG
1 TTAATTTACTTAG
18615682 TTAATTTACTTAG
1 TTAATTTACTTAG
18615695 TTAA
1 TTAA
18615699 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:18623692 original size:41 final size:39
Alignment explanation
Indices: 18623635--18623871 Score: 190
Period size: 41 Copynumber: 5.8 Consensus size: 39
18623625 ATCACTCGTT
18623635 GGAATCAGCACTTAGCAACCACCTTATATTCAATGATACGG
1 GGAATCAGCACTTAGCAACC-CCTT-TATTCAATGATACGG
* *
18623676 GGAATCAGCACATAGCAACCCCTTTCACTATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCCTTT-A-T-TCAATGATACGG
* * * *
18623718 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCAG
1 -GGAATCAGCACTTAGCAACC-CCTTT--ATTCAATGATACGG
* * *
18623761 GGAATCAACATTTAGCAACCCCTTT-TTCATCAGTGATTCGG
1 GGAATCAGCACTTAGCAACCCCTTTATTCA--A-TGATACGG
* * * * * *
18623802 GGAATCTGCACTTAGCAACCTCTTTTTTATCAGTAATTCGG
1 GGAATCAGCACTTAGCAACC-CCTTTAT-TCAATGATACGG
*
18623843 GGAATCTGCACTTAGCAACCCCTTT-TTCA
1 GGAATCAGCACTTAGCAACCCCTTTATTCA
18623872 TCAAATGAAT
Statistics
Matches: 163, Mismatches: 21, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
38 6 0.04
39 2 0.01
40 10 0.06
41 75 0.46
42 33 0.20
43 28 0.17
44 8 0.05
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (39 bp):
GGAATCAGCACTTAGCAACCCCTTTATTCAATGATACGG
Found at i:18623859 original size:82 final size:83
Alignment explanation
Indices: 18623634--18623874 Score: 272
Period size: 82 Copynumber: 2.9 Consensus size: 83
18623624 AATCACTCGT
* * * * *
18623634 TGGAATCAGCACTTAGCAACCACC-TTATATTCAATGATACGGGGAATCAGCACATAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
**
18623698 TTTCACTATCAAGGATACGG
66 TTTTTC-ATC-AGGATACGG
* * *
18623718 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCAGGGAATCAACATTTAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
*
18623783 TTTTTCATCAGTGATTCGG
66 TTTTTCATCAG-GATACGG
* * *** * *
18623802 -GGAATCTGCACTTAGCAACC-TCTTTTTTATCAGTAATTCGGGGAATCTGCACTTAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
18623865 TTTTTCATCA
66 TTTTTCATCA
18623875 AATGAATCCC
Statistics
Matches: 134, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
82 44 0.33
83 21 0.16
84 33 0.25
85 36 0.27
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (83 bp):
TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
TTTTTCATCAGGATACGG
Found at i:18624955 original size:41 final size:39
Alignment explanation
Indices: 18624898--18625134 Score: 190
Period size: 41 Copynumber: 5.8 Consensus size: 39
18624888 ATCACTCGTT
18624898 GGAATCAGCACTTAGCAACCACCTTATATTCAATGATACGG
1 GGAATCAGCACTTAGCAACC-CCTT-TATTCAATGATACGG
* *
18624939 GGAATCAGCACATAGCAACCCCTTTCACTATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCCTTT-A-T-TCAATGATACGG
* * * *
18624981 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCAG
1 -GGAATCAGCACTTAGCAACC-CCTTT--ATTCAATGATACGG
* * *
18625024 GGAATCAACATTTAGCAACCCCTTT-TTCATCAGTGATTCGG
1 GGAATCAGCACTTAGCAACCCCTTTATTCA--A-TGATACGG
* * * * * *
18625065 GGAATCTGCACTTAGCAACCTCTTTTTTATCAGTAATTCGG
1 GGAATCAGCACTTAGCAACC-CCTTTAT-TCAATGATACGG
*
18625106 GGAATCTGCACTTAGCAACCCCTTT-TTCA
1 GGAATCAGCACTTAGCAACCCCTTTATTCA
18625135 TCAAATGAAT
Statistics
Matches: 163, Mismatches: 21, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
38 6 0.04
39 2 0.01
40 10 0.06
41 75 0.46
42 33 0.20
43 28 0.17
44 8 0.05
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (39 bp):
GGAATCAGCACTTAGCAACCCCTTTATTCAATGATACGG
Found at i:18625122 original size:82 final size:83
Alignment explanation
Indices: 18624897--18625137 Score: 272
Period size: 82 Copynumber: 2.9 Consensus size: 83
18624887 AATCACTCGT
* * * * *
18624897 TGGAATCAGCACTTAGCAACCACC-TTATATTCAATGATACGGGGAATCAGCACATAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
**
18624961 TTTCACTATCAAGGATACGG
66 TTTTTC-ATC-AGGATACGG
* * *
18624981 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCAGGGAATCAACATTTAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
*
18625046 TTTTTCATCAGTGATTCGG
66 TTTTTCATCAG-GATACGG
* * *** * *
18625065 -GGAATCTGCACTTAGCAACC-TCTTTTTTATCAGTAATTCGGGGAATCTGCACTTAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
18625128 TTTTTCATCA
66 TTTTTCATCA
18625138 AATGAATCCC
Statistics
Matches: 134, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
82 44 0.33
83 21 0.16
84 33 0.25
85 36 0.27
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (83 bp):
TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCC
TTTTTCATCAGGATACGG
Found at i:18631501 original size:49 final size:49
Alignment explanation
Indices: 18631323--18631502 Score: 165
Period size: 50 Copynumber: 3.7 Consensus size: 49
18631313 GAGAGGTCCT
* * *
18631323 ATGTAAGACCATGTCT--GACATGGCATTGGCACTA-AGATGAGAGATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCAGTATA-A-GAAACATCCC
** * *
18631371 CCGTAAAACCATGTCTGGGACATGGCA-TGTGCACCG-ATATGAGAAC-TCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTG-GCA--GTATAAGA-AACATCCC
* * *
18631421 ATGTAAGACCATATCTGGGATATGACATTGGCAGTATAAGAAACATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCAGTATAAGAAACATCCC
*
18631470 ATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
18631503 TGTTATTATC
Statistics
Matches: 104, Mismatches: 18, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
48 17 0.16
49 40 0.38
50 42 0.40
51 4 0.04
52 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (49 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCAGTATAAGAAACATCCC
Found at i:18644627 original size:31 final size:32
Alignment explanation
Indices: 18644591--18644655 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
18644581 CTTAGATAAT
18644591 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
18644622 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
18644654 TT
1 TT
18644656 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:18650638 original size:36 final size:36
Alignment explanation
Indices: 18650591--18650667 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
18650581 TTAATTTCAT
18650591 TGTTGTTGTTATGAACATGTCTATGAATATTTGTGA
1 TGTTGTTGTTATGAACATGTCTATGAATATTTGTGA
18650627 TGTTGTTGTTATGAACATGTCTATGAATATTTGTGA
1 TGTTGTTGTTATGAACATGTCTATGAATATTTGTGA
18650663 TGTTG
1 TGTTG
18650668 AAATGTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.48
Consensus pattern (36 bp):
TGTTGTTGTTATGAACATGTCTATGAATATTTGTGA
Found at i:18654129 original size:50 final size:49
Alignment explanation
Indices: 18654001--18654246 Score: 194
Period size: 50 Copynumber: 4.9 Consensus size: 49
18653991 GATAATAACA
* * * *
18654001 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATG-TTTCTTGTAC-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATAT-CG
* * * *
18654050 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATC-G
* * * *
18654100 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGGGCCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAG-CTCTCATATC-G
* * *
18654150 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TC---G
** *
18654205 ATGCCAATTTCATGT-CCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCT
18654247 TTACCCAAAT
Statistics
Matches: 157, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
48 2 0.01
49 42 0.27
50 71 0.45
51 3 0.02
53 2 0.01
55 26 0.17
56 11 0.07
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCG
Found at i:18655427 original size:35 final size:35
Alignment explanation
Indices: 18655377--18655445 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
18655367 AAACCATTGC
* *
18655377 TCCGATTAGGGCCAAAATCGGGATGTTACAAGTGT
1 TCCGACTAGGCCCAAAATCGGGATGTTACAAGTGT
18655412 TCCGACTAGGCCCAAAATCGGGATGTTACAAGTG
1 TCCGACTAGGCCCAAAATCGGGATGTTACAAGTG
18655446 CGTAGTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (35 bp):
TCCGACTAGGCCCAAAATCGGGATGTTACAAGTGT
Found at i:18659569 original size:17 final size:17
Alignment explanation
Indices: 18659547--18659582 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18659537 TCTTTACATG
*
18659547 ATAAATAGCACAATAAC
1 ATAAATAGCAAAATAAC
*
18659564 ATAAATATCAAAATAAC
1 ATAAATAGCAAAATAAC
18659581 AT
1 AT
18659583 TAAAACGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.22
Consensus pattern (17 bp):
ATAAATAGCAAAATAAC
Found at i:18660219 original size:28 final size:28
Alignment explanation
Indices: 18660179--18660235 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
18660169 CCATGCAAGC
*
18660179 AAAAATGGCTTGACCGAAACCTAGCTAT
1 AAAAATGGCTTGACCAAAACCTAGCTAT
*
18660207 AAAAATGGCTTGACCAAAACCTAGTTAT
1 AAAAATGGCTTGACCAAAACCTAGCTAT
18660235 A
1 A
18660236 CTCCTTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (28 bp):
AAAAATGGCTTGACCAAAACCTAGCTAT
Found at i:18661418 original size:13 final size:14
Alignment explanation
Indices: 18661400--18661440 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
18661390 TTAGGGTTTG
18661400 TAAAATAATA-AAA
1 TAAAATAATATAAA
*
18661413 TAAAATAACATAAA
1 TAAAATAATATAAA
*
18661427 -AAAATAATTTAAA
1 TAAAATAATATAAA
18661440 T
1 T
18661441 TGCAAAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 20 0.87
14 3 0.13
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAAATAATATAAA
Found at i:18662711 original size:11 final size:11
Alignment explanation
Indices: 18662695--18662723 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
18662685 TAACCTTGAG
18662695 CAAGTATGGTA
1 CAAGTATGGTA
18662706 CAAGTATGGTA
1 CAAGTATGGTA
18662717 CAAGTAT
1 CAAGTAT
18662724 TGATTTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (11 bp):
CAAGTATGGTA
Found at i:18668781 original size:13 final size:13
Alignment explanation
Indices: 18668763--18668791 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18668753 ATCTTGATTA
18668763 AAATCGTATTTTG
1 AAATCGTATTTTG
18668776 AAATCGTATTTTG
1 AAATCGTATTTTG
18668789 AAA
1 AAA
18668792 CGAGGATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (13 bp):
AAATCGTATTTTG
Found at i:18671943 original size:35 final size:35
Alignment explanation
Indices: 18671868--18672029 Score: 155
Period size: 35 Copynumber: 4.6 Consensus size: 35
18671858 GCACATCGAC
* * * * *
18671868 AATCCAACCAAAATACACCAGATGCTCACAAGAGCC
1 AATCCATCCGAAACACACCA-ATGCTCATAAGAGCT
* *
18671904 AATCCATCCAAAACACACCAATGCTCATAAGAACT
1 AATCCATCCGAAACACACCAATGCTCATAAGAGCT
* * *
18671939 AATCCCTTCGAAACACATCAATGCTCATAAGAGCT
1 AATCCATCCGAAACACACCAATGCTCATAAGAGCT
* * * * *
18671974 AATCCCTCTGAAATACAACAATGCTCATGAGAGCT
1 AATCCATCCGAAACACACCAATGCTCATAAGAGCT
*
18672009 AGTCCAAT-CGAAACACACCAA
1 AATCC-ATCCGAAACACACCAA
18672030 AACAAAAAGT
Statistics
Matches: 105, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
35 86 0.82
36 19 0.18
ACGTcount: A:0.42, C:0.30, G:0.10, T:0.17
Consensus pattern (35 bp):
AATCCATCCGAAACACACCAATGCTCATAAGAGCT
Found at i:18678628 original size:26 final size:26
Alignment explanation
Indices: 18678592--18678642 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
18678582 CTAAAATGAA
*
18678592 CCTTAAACAACAAGTTTGTTC-TAGAG
1 CCTTAAACAAC-ACTTTGTTCATAGAG
18678618 CCTTAAACAACACTTTGTTCATAGA
1 CCTTAAACAACACTTTGTTCATAGA
18678643 TTGGCCTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (26 bp):
CCTTAAACAACACTTTGTTCATAGAG
Found at i:18687622 original size:51 final size:49
Alignment explanation
Indices: 18687495--18687668 Score: 177
Period size: 51 Copynumber: 3.4 Consensus size: 49
18687485 GAAAGTGATA
* * ** * *
18687495 GTCACGTGTGTAGTACTATATGCAGGCTACTATGTGTACCAAAAAGATAG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-TTG
* * *
18687545 GTCGCATGTGTAGTATTATGTGCAGGCTACTATGCGTACCGGATAGCTTCG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-TT-G
* * * * *
18687596 ATCACGTGTGTAGTACTATGTACAGGCTACTACGTGTATCGGATAGTGATG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT--TG
18687647 GTCACATGTGTAGTACTATGTG
1 GTCACATGTGTAGTACTATGTG
18687669 AACCCGTATC
Statistics
Matches: 100, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
50 40 0.40
51 59 0.59
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTTG
Found at i:18687720 original size:41 final size:41
Alignment explanation
Indices: 18687671--18687921 Score: 236
Period size: 41 Copynumber: 6.0 Consensus size: 41
18687661 ACTATGTGAA
18687671 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
1 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
* *
18687712 CCCATATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
* * * * *
18687753 TACCGTATCCTTGATTGTGAA-AGGGGTTGCTATGTGCTGATTC
1 -CCCGTATCATTGATTAT-AAGA-TGGTTGCTAAGTGCTGATTC
** * * * *
18687796 CCTATATCATTAATTATAAGGTGGGTGTTAAGTGCTGATTC
1 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
* * * * * *
18687837 CACCGTATCATTTATTGTGAA-AGGTGTTGCTATGTGTTCATTC
1 C-CCGTATCATTGATTAT-AAGATG-GTTGCTAAGTGCTGATTC
* * *
18687880 CCCGTATCATTGATTATAAGGTGGTTGCTACGTGTTGATTC
1 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
18687921 C
1 C
18687922 ACCGGGATCC
Statistics
Matches: 165, Mismatches: 37, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
41 77 0.47
42 52 0.32
43 36 0.22
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.38
Consensus pattern (41 bp):
CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
Found at i:18687812 original size:84 final size:84
Alignment explanation
Indices: 18687672--18687925 Score: 341
Period size: 84 Copynumber: 3.0 Consensus size: 84
18687662 CTATGTGAAC
* * *
18687672 CCGTATCATTGATTAT--AAGATGGTTGCTAAGTGCTGATTCCCCATATCATTGATTATAAGGTG
1 CCGTATCATTGATTGTGAAAG-GGGTTGCTATGTGCTGATTCCCCATATCATTGATTATAAGGTG
*
18687735 GTTGCTAAGTGCTGATTCTA
65 GTTGCTAAGTGCTGATTCCA
* * *
18687755 CCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCTATATCATTAATTATAAGGTGG
1 CCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTATAAGGTGG
* *
18687820 GTGTTAAGTGCTGATTCCA
66 TTGCTAAGTGCTGATTCCA
* * * * *
18687839 CCGTATCATTTATTGTGAAAGGTGTTGCTATGTGTTCATTCCCCGTATCATTGATTATAAGGTGG
1 CCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTATAAGGTGG
* *
18687904 TTGCTACGTGTTGATTCCA
66 TTGCTAAGTGCTGATTCCA
18687923 CCG
1 CCG
18687926 GGATCCTTTG
Statistics
Matches: 148, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
83 14 0.09
84 131 0.89
85 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (84 bp):
CCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTATAAGGTGG
TTGCTAAGTGCTGATTCCA
Found at i:18690010 original size:40 final size:40
Alignment explanation
Indices: 18689979--18690188 Score: 271
Period size: 40 Copynumber: 5.3 Consensus size: 40
18689969 GGACTAAGAT
* * *
18689979 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATATTAAA-TCCGGGTTAAGTC
* *
18690019 CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
*
18690059 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
* *
18690099 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
* * * * * *
18690139 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
18690178 CCGAAGGCATT
1 CCGAAGGCATT
18690189 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.22
40 120 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
Found at i:18690142 original size:120 final size:120
Alignment explanation
Indices: 18689926--18690188 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
18689916 TTGAATGCTG
* *
18689926 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* * *
18689990 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATATTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
18690046 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
18690109 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
18690165 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
18690189 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 37 0.31
120 74 0.62
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:18690208 original size:79 final size:80
Alignment explanation
Indices: 18689927--18690223 Score: 221
Period size: 80 Copynumber: 3.7 Consensus size: 80
18689917 TGAATGCTGT
* ** * * * **
18689927 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
18689990 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * ** *
18690007 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
18690071 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
18690087 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
18690151 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
18690166 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
18690224 TACGTGATTT
Statistics
Matches: 184, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 111 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:18696662 original size:101 final size:102
Alignment explanation
Indices: 18696547--18696731 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
18696537 AAATTGATGG
* *
18696547 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAA--GATAGGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGAT-GGTCACATGTGTAGT
*
18696610 ATTATGTGAAGGCTACTATGCGTATCGGATAGCTTTGA
65 ACTATGTGAAGGCTACTATGCGTATCGGATAGCTTTGA
* * * * *
18696648 TCACGTGTGTAGTACTATTTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTGTAGTA
*
18696713 CTATGTGTAGGCTACTATG
66 CTATGTGAAGGCTACTATG
18696732 TGAACCCGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 38 0.52
102 32 0.44
103 3 0.04
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTGTAGTA
CTATGTGAAGGCTACTATGCGTATCGGATAGCTTTGA
Found at i:18696674 original size:51 final size:50
Alignment explanation
Indices: 18696544--18696733 Score: 227
Period size: 51 Copynumber: 3.8 Consensus size: 50
18696534 GTGAAATTGA
* * * *
18696544 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAAGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTT
* * * * *
18696594 AGGTCGCATGTGTAGTATTATGTGAAGGCTACTATGCGTATCGGATAGCTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAG-TT
* * * * *
18696645 TGATCACGTGTGTAGTACTATTTGCAGGCTACTACGTGTATCGGATAGTGA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGT-T
*
18696696 TGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTG
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
18696734 AACCCGTATC
Statistics
Matches: 114, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 41 0.36
51 73 0.64
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTT
Found at i:18696877 original size:70 final size:75
Alignment explanation
Indices: 18696768--18697002 Score: 273
Period size: 70 Copynumber: 3.1 Consensus size: 75
18696758 GGTTGCTAAG
* * *
18696768 TGCTGATTCCACCGTATCCTTTATTGTGAAAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGA
1 TGCTGATTCCA-C-TATCCGTAATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGA
18696833 TTATAAGGTGGT
64 TTATAAGGTGGT
*
18696845 TG-TGATT-C-C-A-CCGTAATTGTGAAAGGGGTTGCTGTGTGCTGATTCCCCGTATCATTGATT
1 TGCTGATTCCACTATCCGTAATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATT
18696905 ATAAGGTGGTTGCT
66 ATAAGGT-G--G-T
* * *
18696919 AAGTGCTGATTCCACTATATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATAAT
1 ---TGCTGATTCCAC--TATCCGTAATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCAT
18696984 TGATTATAAGGTGGT
61 TGATTATAAGGTGGT
18696999 TGCT
1 TGCT
18697003 AAGTGCTAAT
Statistics
Matches: 136, Mismatches: 8, Indels: 28
0.79 0.05 0.16
Matches are distributed among these distances:
70 53 0.39
71 2 0.01
73 2 0.01
74 1 0.01
75 1 0.01
76 5 0.04
77 8 0.06
78 5 0.04
79 1 0.01
80 2 0.01
81 1 0.01
83 2 0.01
84 53 0.39
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.37
Consensus pattern (75 bp):
TGCTGATTCCACTATCCGTAATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATT
ATAAGGTGGT
Found at i:18696918 original size:41 final size:40
Alignment explanation
Indices: 18696867--18697015 Score: 172
Period size: 41 Copynumber: 3.6 Consensus size: 40
18696857 GTAATTGTGA
*
18696867 AAGGGGTTGCTGTGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
* ** * *
18696907 AAGGTGGTTGCTAAGTGCTGATTCCACTATATCCTTGATTGT
1 AAGG-GGTTGCTATGTGCTGATTCC-CCGTATCATTGATTAT
*
18696949 GAAAGGGGTTGCTATGTGCTGATTCCCCGTATAATTGATTAT
1 --AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
* *
18696991 AAGGTGGTTGCTAAGTGCTAATTCC
1 AAGG-GGTTGCTATGTGCTGATTCC
18697016 ACCGGGATCC
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
40 8 0.09
41 36 0.40
42 23 0.26
43 19 0.21
44 4 0.04
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.36
Consensus pattern (40 bp):
AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
Found at i:18697001 original size:84 final size:84
Alignment explanation
Indices: 18696860--18697017 Score: 289
Period size: 84 Copynumber: 1.9 Consensus size: 84
18696850 TTCCACCGTA
* *
18696860 ATTGTGAAAGGGGTTGCTGTGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGC
1 ATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATAATTGATTATAAGGTGGTTGCTAAGTGC
*
18696925 TGATTCCACTATATCCTTG
66 TAATTCCACTATATCCTTG
18696944 ATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATAATTGATTATAAGGTGGTTGCTAAGTGC
1 ATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATAATTGATTATAAGGTGGTTGCTAAGTGC
18697009 TAATTCCAC
66 TAATTCCAC
18697018 CGGGATCCTT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 71 1.00
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (84 bp):
ATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATAATTGATTATAAGGTGGTTGCTAAGTGC
TAATTCCACTATATCCTTG
Found at i:18698071 original size:51 final size:51
Alignment explanation
Indices: 18698002--18698228 Score: 151
Period size: 51 Copynumber: 4.5 Consensus size: 51
18697992 TGTGGCACGG
* * *
18698002 ACTATGTGTAGGCCACTATGTGAAAGTGAGAGCGAT-GGTCACGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAAG-GAGAGCGATAGGTCACATGTGTAGT
* ** ** *
18698053 ACTATGTGCAGGCTACTATGTG-TACCAGAAAGATAGGTCGCATGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAAGGAGAGCGATAGGTCACATGTGTAGT
* * * * * * * *
18698103 ATTATGTGCAGGCTACTATGCGTACCA-GATAGC-TTCGATCACGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTG-A-AAGGAGAGCGATAGGTCACATGTGTAGT
* ** * **
18698154 ACTATGTGCAAGCTACTACATGT-ATCGGATAGTTAT-GGTCACATGTGTAGT
1 ACTATGTGCAGGCTACT--ATGTGAAAGGAGAGCGATAGGTCACATGTGTAGT
*
18698205 ACTATGTGTAGGCTACTATGTGAA
1 ACTATGTGCAGGCTACTATGTGAA
18698229 CCCGTATCAT
Statistics
Matches: 134, Mismatches: 33, Indels: 19
0.72 0.18 0.10
Matches are distributed among these distances:
49 10 0.07
50 35 0.26
51 82 0.61
52 3 0.02
53 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (51 bp):
ACTATGTGCAGGCTACTATGTGAAAGGAGAGCGATAGGTCACATGTGTAGT
Found at i:18698111 original size:50 final size:50
Alignment explanation
Indices: 18698038--18698226 Score: 225
Period size: 51 Copynumber: 3.7 Consensus size: 50
18698028 TGAGAGCGAT
* * *
18698038 GGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAAGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTTA
* * * *
18698088 GGTCGCATGTGTAGTATTATGTGCAGGCTACTATGCGTACCAGATAGCTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAG-TTA
* * * ** * *
18698139 GATCACGTGTGTAGTACTATGTGCAAGCTACTACATGTATCGGATAGTTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTTA
*
18698189 TGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTG
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
18698227 AACCCGTATC
Statistics
Matches: 113, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 44 0.39
51 69 0.61
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTTA
Found at i:18698390 original size:76 final size:77
Alignment explanation
Indices: 18698261--18698500 Score: 340
Period size: 76 Copynumber: 3.1 Consensus size: 77
18698251 GGTTGGTAAG
*
18698261 TGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCCATGTGCTGATTCCCCGTATCATTGA
1 TGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGA
18698326 TTATAAGGTGGT
66 TTATAAGGTGGT
* * *
18698338 TG-TGATTCCATCGTATCCTTGATTATGAAAGGGGTTGCTATGTGCTGATTCCCCGTATGATTGA
1 TGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGA
18698402 TTATAAGGTGGTTACT
66 TTATAAGGTGG----T
* * *
18698418 AAGTGCTGATTCCACCATATCCTTGATTGCGAAAGGGGTTGCTAT-TGCTGATTCCCCATATCAT
1 ---TGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCAT
18698482 TGATTATAAGGTGGT
63 TGATTATAAGGTGGT
18698497 TGCT
1 TGCT
18698501 AAGTGCTGAT
Statistics
Matches: 145, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
76 73 0.50
77 2 0.01
79 1 0.01
80 1 0.01
83 33 0.23
84 35 0.24
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (77 bp):
TGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGA
TTATAAGGTGGT
Found at i:18698503 original size:83 final size:84
Alignment explanation
Indices: 18698340--18698516 Score: 284
Period size: 83 Copynumber: 2.1 Consensus size: 84
18698330 AAGGTGGTTG
* * * * *
18698340 TGATTCCATCGTATCCTTGATTATGAAAGGGGTTGCTATGTGCTGATTCCCCGTATGATTGATTA
1 TGATTCCACCATATCCTTGATTACGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTA
18698405 TAAGGTGGTTACTAAGTGC
66 TAAGGTGGTTACTAAGTGC
*
18698424 TGATTCCACCATATCCTTGATTGCGAAAGGGGTTGCTAT-TGCTGATTCCCCATATCATTGATTA
1 TGATTCCACCATATCCTTGATTACGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTA
*
18698488 TAAGGTGGTTGCTAAGTGC
66 TAAGGTGGTTACTAAGTGC
18698507 TGATTCCACC
1 TGATTCCACC
18698517 GGGATCCTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
83 51 0.59
84 35 0.41
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (84 bp):
TGATTCCACCATATCCTTGATTACGAAAGGGGTTGCTATGTGCTGATTCCCCATATCATTGATTA
TAAGGTGGTTACTAAGTGC
Found at i:18698508 original size:41 final size:40
Alignment explanation
Indices: 18698351--18698513 Score: 177
Period size: 41 Copynumber: 3.9 Consensus size: 40
18698341 GATTCCATCG
* * *
18698351 TATCCTTGATTATGAAAGGGGTTGCTATGTGCTGATTCCCCG
1 TATCATTGATTAT--AAGGGGTTGCTAAGTGCTGATTCCCCA
* *
18698393 TATGATTGATTATAAGGTGGTTACTAAGTGCTGATTCCACCA
1 TATCATTGATTATAAGG-GGTTGCTAAGTGCTGATTCC-CCA
* *
18698435 TATCCTTGATTGCGA-AAGGGGTTGCT-ATTGCTGATTCCCCA
1 TATCATTGATT---ATAAGGGGTTGCTAAGTGCTGATTCCCCA
18698476 TATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCC
1 TATCATTGATTATAAGG-GGTTGCTAAGTGCTGATTCC
18698514 ACCGGGATCC
Statistics
Matches: 102, Mismatches: 11, Indels: 17
0.78 0.08 0.13
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 11 0.11
41 42 0.41
42 33 0.32
43 6 0.06
44 4 0.04
45 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (40 bp):
TATCATTGATTATAAGGGGTTGCTAAGTGCTGATTCCCCA
Found at i:18704523 original size:10 final size:11
Alignment explanation
Indices: 18704504--18704537 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
18704494 CCAAGCAGCA
18704504 CATTTAAAGCT
1 CATTTAAAGCT
18704515 CATTT-AAGCT
1 CATTTAAAGCT
18704525 CATTTAAAGCT
1 CATTTAAAGCT
18704536 CA
1 CA
18704538 ATTGCTAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (11 bp):
CATTTAAAGCT
Found at i:18710210 original size:50 final size:50
Alignment explanation
Indices: 18710135--18710233 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
18710125 GAAAGAACGG
*
18710135 TTCCCAGCCCAACGAAGATCCAAACTATTGCCGAGAGGTGATGGTCCTTC
1 TTCCCAACCCAACGAAGATCCAAACTATTGCCGAGAGGTGATGGTCCTTC
18710185 TTCCCAACCCAACGAAGATCCAAACTATTGCCGAGAGGTGATGGTCCTT
1 TTCCCAACCCAACGAAGATCCAAACTATTGCCGAGAGGTGATGGTCCTT
18710234 TTCAAGTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (50 bp):
TTCCCAACCCAACGAAGATCCAAACTATTGCCGAGAGGTGATGGTCCTTC
Found at i:18710611 original size:15 final size:15
Alignment explanation
Indices: 18710591--18710620 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18710581 TAGTTAAATT
18710591 AATTAATTAACTTAA
1 AATTAATTAACTTAA
*
18710606 AATTAATTAATTTAA
1 AATTAATTAACTTAA
18710621 TAAAATCTGG
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:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTAATTAACTTAA
Found at i:18711118 original size:32 final size:33
Alignment explanation
Indices: 18711081--18711146 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
18711071 TCACATGCTA
* *
18711081 AGGCTA-TTCGGTTCTGGTTGTTCACA-CACAAG
1 AGGCTATTTCGATTCTAGTT-TTCACACCACAAG
*
18711113 AGGCTATTTCTATTCTAGTTTTCACACCACAAG
1 AGGCTATTTCGATTCTAGTTTTCACACCACAAG
18711146 A
1 A
18711147 CCATTGAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (33 bp):
AGGCTATTTCGATTCTAGTTTTCACACCACAAG
Found at i:18714030 original size:79 final size:78
Alignment explanation
Indices: 18713928--18714150 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
18713918 GCTCCTCGTT
* * *
18713928 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTTGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
18713993 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
18714008 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TAGCACAAATGCCTTCGGGACTTAGCCCGG
*
18714071 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * *
18714086 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTAGCACAAATGCCTTCGGGACTTAGCCCG
18714149 GA
63 GA
18714151 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 47 0.38
79 56 0.45
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTAGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:18714045 original size:39 final size:40
Alignment explanation
Indices: 18713928--18714150 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
18713918 GCTCCTCGTT
* * *
18713928 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
18713968 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18714008 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18714047 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
18714086 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
18714127 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18714151 CATCATTCAA
Statistics
Matches: 165, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:18720338 original size:18 final size:18
Alignment explanation
Indices: 18720312--18720354 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
18720302 TCATTCCCAT
*
18720312 TTCACTCATCCTTCA-TC
1 TTCATTCATCCTTCATTC
*
18720329 ATTCATTCATTCTTCATTC
1 -TTCATTCATCCTTCATTC
18720348 TTCATTC
1 TTCATTC
18720355 TTCACTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.49
Consensus pattern (18 bp):
TTCATTCATCCTTCATTC
Found at i:18720355 original size:7 final size:7
Alignment explanation
Indices: 18720327--18720358 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
18720317 TCATCCTTCA
18720327 TCATTCAT
1 TCATTC-T
18720335 TCATTCT
1 TCATTCT
18720342 TCATTCT
1 TCATTCT
18720349 TCATTCT
1 TCATTCT
18720356 TCA
1 TCA
18720359 CTTGTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.19, C:0.28, G:0.00, T:0.53
Consensus pattern (7 bp):
TCATTCT
Found at i:18720736 original size:73 final size:73
Alignment explanation
Indices: 18720653--18720805 Score: 270
Period size: 73 Copynumber: 2.1 Consensus size: 73
18720643 TTTGACAAAG
* *
18720653 ATCATCTGATTCATGTTTATGATGTCTATACCTTAATCGTTCATGCTTTCAATTTAACTCATGCA
1 ATCATTTGATTCATGTTTATGATGTCTATACCTTAATCGTTCATGCTTTCAATTAAACTCATGCA
18720718 TGTATTTC
66 TGTATTTC
*
18720726 ATCATTTGATTCATGTTTATGATGTCTATACCTTCATCGTTCATGCTTTCAATTAAACTCATGCA
1 ATCATTTGATTCATGTTTATGATGTCTATACCTTAATCGTTCATGCTTTCAATTAAACTCATGCA
18720791 TGTATTTC
66 TGTATTTC
18720799 ATTCATT
1 A-TCATT
18720806 AAAATGTGAT
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
73 71 0.93
74 5 0.07
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (73 bp):
ATCATTTGATTCATGTTTATGATGTCTATACCTTAATCGTTCATGCTTTCAATTAAACTCATGCA
TGTATTTC
Found at i:18725271 original size:26 final size:27
Alignment explanation
Indices: 18725228--18725289 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
18725218 AAAATTTACT
18725228 AAAATATTATAACTTTTTTTATTTACCAA
1 AAAATA-TATAAC-TTTTTTATTTACCAA
18725257 AAAATATATAA-TTTTTTATTTACCAA
1 AAAATATATAACTTTTTTATTTACCAA
*
18725283 AATATAT
1 AAAATAT
18725290 CAAAAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 21 0.66
28 5 0.16
29 6 0.19
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (27 bp):
AAAATATATAACTTTTTTATTTACCAA
Found at i:18725396 original size:27 final size:27
Alignment explanation
Indices: 18725366--18725432 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
18725356 CACCAATGGG
18725366 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* * *
18725393 ATTGGCTGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
18725420 ATTGGCGGCACCA
1 ATTGGCGGCACCA
18725433 CTTAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:18725484 original size:4 final size:4
Alignment explanation
Indices: 18725475--18725612 Score: 101
Period size: 4 Copynumber: 34.0 Consensus size: 4
18725465 GAAGGAGAGG
* *
18725475 GAAA GAAA GAAA GAAA GAAA GAAA TGAGAG GAAA GAAA G-AA -AAA GAAG
1 GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA
* *
18725523 GAAA GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA GAAA G-AA G-AA G-AA
1 GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA GAAA
*
18725570 GAAAA GGAAAA GAGAA GAAA -AAA GAAA GAAA GAAG GAAA GAAA
1 G-AAA -G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
18725613 AGGAAATGAG
Statistics
Matches: 111, Mismatches: 10, Indels: 26
0.76 0.07 0.18
Matches are distributed among these distances:
3 18 0.16
4 65 0.59
5 21 0.19
6 7 0.06
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:18725554 original size:44 final size:43
Alignment explanation
Indices: 18725506--18725678 Score: 191
Period size: 44 Copynumber: 4.1 Consensus size: 43
18725496 AAATGAGAGG
*
18725506 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAG-AAA
18725550 AAAGAAAGAAAGAAGAA-G-AAGAAAAGGAAAAGAG-A-AGAAA
1 AAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAA
*
18725590 AAAGAAAG--AAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAA
* * * *
18725631 AAAG-AAGAAGAAGAAGAGGGAAG-AAAGGAAAAAAAGAAGAAAAA
1 AAAGAAAGAAAAAG-A-AGGAAAGAAAAGG-AAAAGAGAAGAGAAA
18725675 AAAG
1 AAAG
18725679 GTAAATTTAT
Statistics
Matches: 112, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
37 5 0.04
38 2 0.02
39 15 0.13
40 15 0.13
41 11 0.10
42 4 0.04
43 21 0.19
44 34 0.30
45 5 0.04
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.01
Consensus pattern (43 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAA
Found at i:18725608 original size:82 final size:83
Alignment explanation
Indices: 18725506--18725675 Score: 240
Period size: 82 Copynumber: 2.0 Consensus size: 83
18725496 AAATGAGAGG
18725506 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAG-AAAAA-AAGAAAGAAAGAAGA-AG
1 AAAGAAAG--AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAG-AAG-AAGAAGAGAG
*
18725568 AAGAAAAGG-AAAAGAGAAGAAA
62 AAG-AAAGGAAAAAAAGAAGAAA
* *
18725590 AAAGAAAGAAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAAAAAGAAGAAGAAGAAGAGGGAAGA
1 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAGAAGAAGAAGAGAGAAGA
18725655 AAGGAAAAAAAGAAGAAA
66 AAGGAAAAAAAGAAGAAA
18725673 AAA
1 AAA
18725676 AAGGTAAATT
Statistics
Matches: 79, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
82 41 0.52
83 27 0.34
84 11 0.14
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.01
Consensus pattern (83 bp):
AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAGAAGAAGAAGAGAGAAGA
AAGGAAAAAAAGAAGAAA
Found at i:18725618 original size:18 final size:16
Alignment explanation
Indices: 18725476--18725678 Score: 120
Period size: 16 Copynumber: 12.2 Consensus size: 16
18725466 AAGGAGAGGG
18725476 AAAGAAAGAAAGAAAG-
1 AAAGAAAG-AAGAAAGA
18725492 AAAGAAATGAGAGGAAAGA
1 AAAGAAA-GA-A-GAAAGA
*
18725511 AAGAAAAAGAAGGAAAGA
1 AA-AGAAAGAA-GAAAGA
*
18725529 AAAGGAAAGGAGAAGAGA
1 AAA-GAAAGAAGAA-AGA
18725547 AAA-AAAGAAAGAAAGA
1 AAAGAAAG-AAGAAAGA
*
18725563 AGAAG-AAGAA-AAGGA
1 A-AAGAAAGAAGAAAGA
*
18725578 AAAGAGAAGAAAAAAG-
1 AAAGA-AAGAAGAAAGA
18725594 AAAGAAAGAAGGAAAGA
1 AAAGAAAGAA-GAAAGA
18725611 AAAGGAAATG-AG-AAGA
1 AAA-GAAA-GAAGAAAGA
18725627 GAAA-AAAGAAG-AAGA
1 -AAAGAAAGAAGAAAGA
**
18725642 AGAAGAGGGAAGAAAGGA
1 A-AAGAAAGAAGAAA-GA
*
18725660 AAA-AAAGAAGAAAAA
1 AAAGAAAGAAGAAAGA
18725675 AAAG
1 AAAG
18725679 GTAAATTTAT
Statistics
Matches: 151, Mismatches: 12, Indels: 48
0.72 0.06 0.23
Matches are distributed among these distances:
14 5 0.03
15 25 0.17
16 49 0.32
17 29 0.19
18 34 0.23
19 5 0.03
20 4 0.03
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (16 bp):
AAAGAAAGAAGAAAGA
Found at i:18726883 original size:159 final size:156
Alignment explanation
Indices: 18726462--18726925 Score: 388
Period size: 159 Copynumber: 2.9 Consensus size: 156
18726452 TATTCCCCCT
* * *
18726462 TAACACACTAAATTAATAAATTTCAAACACGATGCACTGAAATAATGTAAAATTATAAAAGACTA
1 TAACACACT-AA-TAATAAATTTCAAACA-AATGCACTGAAATAATGTAAAATTATAAAATA-GA
* *
18726527 AGTTTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAA
62 A-ATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCAGAAGTAA
*** *
18726592 GAGTGTATTACTAACTTTTATAAAATTCAGA
126 GAGTGTATTACTAACTCAAATAAAATTCAAA
* * * * * * *
18726623 T-ATA-ATTAATACAAAATATTTCAAAGAAATGTACTGAAATAATATAAAATAATAAAATACGAG
1 TAACACACTAATA-ATAA-ATTTCAAACAAATGCACTGAAATAATGTAAAATTATAAAATA-GA-
* * * *
18726686 AATAATAT-ATTTTTATTTAAAGTAATAAAAAT-C-GAGAAAATAATAC-AAGCAAAGGGTAGAG
62 AAT--TATGATATTT-TTTAAAGTAAT-AAAATGCGGAGAAAAAAATACGAA-CAAAGGGCAGAA
* ** * *
18726747 GTAAGGGT-TATTTTTTACAC-CAAAT-TAATTTAAA
122 GTAAGAGTGTA-TTACTA-ACTCAAATAAAATTCAAA
* *
18726781 TAACACACTAGAGTAATAAATTTCAAACATTATGCACAGAAATAATGTAAAATTATAAAATTAGA
1 TAACACACTA-A-TAATAAATTTCAAACA-AATGCACTGAAATAATGTAAAATTATAAAA-TAGA
* * *
18726846 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAATAAATGGCCGAAGTAAG
62 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCAGAAGTAAG
* * *
18726911 ATTTTTTTACTAACT
127 AGTGTATTACTAACT
18726926 TTTTTTTTCA
Statistics
Matches: 235, Mismatches: 46, Indels: 46
0.72 0.14 0.14
Matches are distributed among these distances:
157 7 0.03
158 63 0.27
159 87 0.37
160 37 0.16
161 37 0.16
162 4 0.02
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.30
Consensus pattern (156 bp):
TAACACACTAATAATAAATTTCAAACAAATGCACTGAAATAATGTAAAATTATAAAATAGAAATT
ATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCAGAAGTAAGAGTG
TATTACTAACTCAAATAAAATTCAAA
Found at i:18732213 original size:3 final size:3
Alignment explanation
Indices: 18732205--18732250 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
18732195 AATACTAACG
18732205 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
18732251 TAATAATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:18732350 original size:19 final size:21
Alignment explanation
Indices: 18732326--18732364 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
18732316 ATTAAAACAA
*
18732326 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
18732345 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
18732365 ATCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:18732571 original size:27 final size:27
Alignment explanation
Indices: 18732515--18732572 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
18732505 CCAAACAATA
***
18732515 TGGCACCATTGGTGCCGCCAATGGTTT
1 TGGCACCATTGGTGCCGCCAATGCCAT
*
18732542 TGGCA-CATTTGGTGCCGCTAATGCCAT
1 TGGCACCA-TTGGTGCCGCCAATGCCAT
18732569 TGGC
1 TGGC
18732573 GTGACCAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGCCAT
Found at i:18732679 original size:26 final size:27
Alignment explanation
Indices: 18732633--18732701 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
18732623 TGTTTTTTTG
*
18732633 ATATATTTTGG-ATAATAAAAAATTTAT
1 ATATATTTTGGTA-AATAAAAAAGTTAT
*
18732660 ATATTTTTTGGTAAATAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAGTTAT
18732687 A-ATATTTTGGTAAAT
1 ATATATTTTGGTAAAT
18732702 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.34
27 24 0.63
28 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAGTTAT
Found at i:18736447 original size:21 final size:21
Alignment explanation
Indices: 18736421--18736479 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
18736411 TTCGGGTGGA
18736421 TAAGCTCTTACGAGCTTCTGT
1 TAAGCTCTTACGAGCTTCTGT
* *
18736442 TAAGCTCTTACAAGCTTTTGT
1 TAAGCTCTTACGAGCTTCTGT
18736463 TCAA-CT-TT-CGAGCTTCT
1 T-AAGCTCTTACGAGCTTCT
18736480 ATTGGTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.21
20 2 0.06
21 22 0.67
22 2 0.06
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (21 bp):
TAAGCTCTTACGAGCTTCTGT
Found at i:18737767 original size:20 final size:19
Alignment explanation
Indices: 18737696--18737767 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 19
18737686 ATTTTACTCC
18737696 CTTTTACTT-TCCCCTCAAA
1 CTTTTACTTCTCCCCT-AAA
*
18737715 -TTTTAC-TC-CCCCAAAA
1 CTTTTACTTCTCCCCTAAA
18737731 CCTTTTA-TTCTCCCCCTAAA
1 -CTTTTACTTCT-CCCCTAAA
18737751 CTTTTACTTCTCACCCT
1 CTTTTACTTCTC-CCCT
18737768 TTACCCCCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
16 3 0.07
17 5 0.12
18 13 0.30
19 7 0.16
20 15 0.35
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.40
Consensus pattern (19 bp):
CTTTTACTTCTCCCCTAAA
Found at i:18738041 original size:18 final size:19
Alignment explanation
Indices: 18737999--18738041 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
18737989 TGTCAATTTC
*
18737999 ACATTTTATCTTTAAAATA
1 ACATTTTATCTTAAAAATA
*
18738018 AC-TTTTAT-TTAAAAATT
1 ACATTTTATCTTAAAAATA
18738035 ACATTTT
1 ACATTTT
18738042 TACATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 10 0.48
19 2 0.10
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (19 bp):
ACATTTTATCTTAAAAATA
Found at i:18741112 original size:60 final size:60
Alignment explanation
Indices: 18740994--18741120 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
18740984 CCTAAATATA
* *
18740994 AAAAATTCAATAAACTTAGCCCTCAATGTTTACAAAATTTGTAATTTTAGTTAGAATTCT
1 AAAAATTCAATAAACTTAGCCCTCAATGTTTACAAAATTTATAATTTTAATTAGAATTCT
* * * * * **
18741054 AAAAGTTCTATAAATTTAGCTCTCAATGTTTGCAAAATTTATCAA-TTTAATTCTAATTCT
1 AAAAATTCAATAAACTTAGCCCTCAATGTTTACAAAATTTAT-AATTTTAATTAGAATTCT
18741114 AAAAATT
1 AAAAATT
18741121 AAAAAAAGTG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 54 0.96
61 2 0.04
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (60 bp):
AAAAATTCAATAAACTTAGCCCTCAATGTTTACAAAATTTATAATTTTAATTAGAATTCT
Found at i:18741774 original size:60 final size:59
Alignment explanation
Indices: 18741682--18741801 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 59
18741672 TTTTTTTGAA
* * * ** *
18741682 ATTTTTATAATTAGAACTAAAATGATACATTTTGTAAATGTTGATAGCTAAATTTATTG
1 ATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGAGCTAAATTTATTG
* *
18741741 ATTTTTAAGAATTTGAAGTAAAATGACAAATTTTGTAAACATTGAGAGCTAAATTTATTG
1 ATTTTT-AGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGAGCTAAATTTATTG
18741801 A
1 A
18741802 ACTTTTTATA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 6 0.12
60 46 0.88
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (59 bp):
ATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGAGCTAAATTTATTG
Found at i:18744761 original size:19 final size:19
Alignment explanation
Indices: 18744733--18744777 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
18744723 ATTGGGCCGA
*
18744733 AATGGG-TCGTGTGGGTTC
1 AATGGGCTCGTGTGGGCTC
18744751 AATGGGCTCGTGTGGGCTC
1 AATGGGCTCGTGTGGGCTC
18744770 AATGGGCT
1 AATGGGCT
18744778 GGTGGGCCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.13, C:0.16, G:0.42, T:0.29
Consensus pattern (19 bp):
AATGGGCTCGTGTGGGCTC
Found at i:18745043 original size:27 final size:27
Alignment explanation
Indices: 18744993--18745322 Score: 383
Period size: 27 Copynumber: 12.3 Consensus size: 27
18744983 AGAGGTCGAT
* * *
18744993 AAATGACCAAAATACCCCCGCAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
*
18745020 AAATGACCGAATTACTCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
*
18745047 AAATGACCAAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* *
18745074 AAATGATCGAATTACCCCTACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
*
18745101 AAATGACCGAATTACCCTCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
*
18745128 AAATGACCTAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * *
18745155 AAATGACCGAATTA-CCCTATAAGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* ** *
18745181 ACATGATTGAATTACCCTCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* ** *
18745208 AACTGACTAAATTACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * *
18745235 AAATGATCGAATTTCCCCCACAAGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* *
18745262 AAATGACCAAATTACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * * * *
18745289 AAATAACCAAAATACCCTCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
18745316 AAATGAC
1 AAATGAC
18745323 TATTATACCC
Statistics
Matches: 255, Mismatches: 47, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 20 0.08
27 235 0.92
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCACAGGGTA
Found at i:18746857 original size:11 final size:12
Alignment explanation
Indices: 18746843--18746875 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
18746833 GAACCCAAGA
18746843 TGAATTAATTT-
1 TGAATTAATTTG
*
18746854 TGAATTCATTTG
1 TGAATTAATTTG
18746866 TGAATTAATT
1 TGAATTAATT
18746876 CACTTGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:18747717 original size:20 final size:20
Alignment explanation
Indices: 18747675--18747711 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
18747665 GATATTTGGG
*
18747675 AAAATTAATTTTAATCAAGT
1 AAAATTAATATTAATCAAGT
18747695 AAAATTAA-ATTAATCAA
1 AAAATTAATATTAATCAA
18747712 ATTAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAATTAATATTAATCAAGT
Found at i:18752718 original size:27 final size:27
Alignment explanation
Indices: 18752688--18752771 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
18752678 GGGCATTCCC
* ** * *
18752688 TTCATAGATCTCCATGAAGGCTTCTTT
1 TTCATAGATCGCCACAAAGACTTCCTT
18752715 TTCATAGATCGCCACAAAGACTTCCTT
1 TTCATAGATCGCCACAAAGACTTCCTT
* * *
18752742 TTCATATATAGCCACAAAGACTTCTTT
1 TTCATAGATCGCCACAAAGACTTCCTT
18752769 TTC
1 TTC
18752772 TGGCGTGTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (27 bp):
TTCATAGATCGCCACAAAGACTTCCTT
Found at i:18761284 original size:16 final size:17
Alignment explanation
Indices: 18761263--18761303 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
18761253 ATTATGTGTT
18761263 TTAATTTATAA-TATAA
1 TTAATTTATAATTATAA
*
18761279 TTAATTT-TAATTTTAA
1 TTAATTTATAATTATAA
18761295 TCTAATTTA
1 T-TAATTTA
18761304 ATTTAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 12 0.57
17 6 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATTTATAATTATAA
Found at i:18761300 original size:21 final size:23
Alignment explanation
Indices: 18761261--18761313 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 23
18761251 AAATTATGTG
18761261 TTTTAATTTATAATATAA-TTAA
1 TTTTAATTTATAATATAATTTAA
*
18761283 TTTTAATTT-TAATCTAATTTAA
1 TTTTAATTTATAATATAATTTAA
18761305 -TTTAATTTA
1 TTTTAATTTA
18761314 ATTTGGGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTAATTTATAATATAATTTAA
Found at i:18761305 original size:5 final size:5
Alignment explanation
Indices: 18761279--18761317 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
18761269 TATAATATAA
*
18761279 TTAATT TTAATT TTAAT CTAAT TTAAT TTAAT TTAAT TT
1 TTAA-T TTAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TT
18761318 GGGTTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 21 0.68
6 10 0.32
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:18768972 original size:25 final size:25
Alignment explanation
Indices: 18768944--18768993 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18768934 CAAATTTTCT
*
18768944 TTTAA-ATTTCAATTTTATTTAATTA
1 TTTAATATTTCAA-TTTATTGAATTA
*
18768969 TTTAATTTTTCAATTTATTGAATTA
1 TTTAATATTTCAATTTATTGAATTA
18768994 ATATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAATATTTCAATTTATTGAATTA
Found at i:18773053 original size:35 final size:35
Alignment explanation
Indices: 18772970--18773094 Score: 124
Period size: 35 Copynumber: 3.5 Consensus size: 35
18772960 ACATCGTCAA
* * * * * *
18772970 TCCAACCAAAATACACCAGATTCTCATCAGATCCAA
1 TCCAACCAAAACACACCA-ATGCTCATAAGAGCTAG
** * *
18773006 TCCAACTGAAACACACCAGTGCTCATGAGAGCTAG
1 TCCAACCAAAACACACCAATGCTCATAAGAGCTAG
**
18773041 TCCCTCCAAAACACACCAATGCTCATAAGAGCTAG
1 TCCAACCAAAACACACCAATGCTCATAAGAGCTAG
*
18773076 TCCAACCGAAACACACCAA
1 TCCAACCAAAACACACCAA
18773095 ACAAAGACTA
Statistics
Matches: 71, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
35 56 0.79
36 15 0.21
ACGTcount: A:0.39, C:0.34, G:0.11, T:0.16
Consensus pattern (35 bp):
TCCAACCAAAACACACCAATGCTCATAAGAGCTAG
Found at i:18774352 original size:26 final size:26
Alignment explanation
Indices: 18774315--18774391 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
18774305 ACACCAATAT
18774315 CGCAGCAAAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* *
18774341 CGCAG-AAGAGCTTCCAGTATCAGTAA
1 CGCAGCAA-AGCTGCCAGTAACAGTAA
* * * *
18774367 AGCATCAAAGCTACCAATAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
18774392 TTTGTGGCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 2 0.05
26 38 0.90
27 2 0.05
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:18774618 original size:26 final size:26
Alignment explanation
Indices: 18774581--18774644 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
18774571 ACACCAATAT
18774581 CGCAGCAAAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* *
18774607 CGCAG-AAGAGCTTCCAGTATCAGTAA
1 CGCAGCAA-AGCTGCCAGTAACAGTAA
* *
18774633 AGCATCAAAGCT
1 CGCAGCAAAGCT
18774645 ACCAATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.06
26 28 0.88
27 2 0.06
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:18774716 original size:27 final size:27
Alignment explanation
Indices: 18774677--18775551 Score: 809
Period size: 27 Copynumber: 32.5 Consensus size: 27
18774667 AAGCCACCAG
* * *
18774677 TAATTTTATCCATTAGGGGTACTTCGA
1 TAATTTTACCCATCAGGGGTATTTCGA
**
18774704 TAATTTTACCCATTGGGGGTATTTCGA
1 TAATTTTACCCATCAGGGGTATTTCGA
* *
18774731 TAATTTTACCTATCAAGGGTATTTCGA
1 TAATTTTACCCATCAGGGGTATTTCGA
** *
18774758 TAATTTTA-CCATTTGAGGGTATTT-TA
1 TAATTTTACCCATCAG-GGGTATTTCGA
* *
18774784 GTAATTTTACCCATCAAGGGTATTTTTG-
1 -TAATTTTACCCATCAGGGGTA-TTTCGA
* *
18774812 TAATTTTACCTATC-GAGGGTATTTTGA
1 TAATTTTACCCATCAG-GGGTATTTCGA
* *
18774839 TAATTTTACCCATC-GAGGGTATTTTGG
1 TAATTTTACCCATCAG-GGGTATTTCGA
* *
18774866 TAATGTTACCCATC-GAGGGTATTTTG-
1 TAATTTTACCCATCAG-GGGTATTTCGA
* * *
18774892 TAATTTGACCCATCGGGGGTATTT-TA
1 TAATTTTACCCATCAGGGGTATTTCGA
* * *
18774918 GTAAATTTACCCATCAAGGGTATTTTGA
1 -TAATTTTACCCATCAGGGGTATTTCGA
*
18774946 TAATTTTACCCATCAAGGGTATTTC-A
1 TAATTTTACCCATCAGGGGTATTTCGA
* * *
18774972 GTAATTTTACCCATCAGAGGTATTTTGG
1 -TAATTTTACCCATCAGGGGTATTTCGA
* * * *
18775000 CAATTTTACCCAT-TGAGGGTCTTTCAA
1 TAATTTTACCCATCAG-GGGTATTTCGA
* * *
18775027 TAATTTTACCGATCAAGGGTATTTCTA
1 TAATTTTACCCATCAGGGGTATTTCGA
*
18775054 TAATTTTACCCATCAGGGGCATTTCGA
1 TAATTTTACCCATCAGGGGTATTTCGA
* *
18775081 TAATTTTACCCATCAGGGGTATTTGGG
1 TAATTTTACCCATCAGGGGTATTTCGA
*
18775108 TAA-TTTACCCATC-GAGGGTATTTCGG
1 TAATTTTACCCATCAG-GGGTATTTCGA
18775134 TAATTTTACCCATCAGGGGTATTTCGA
1 TAATTTTACCCATCAGGGGTATTTCGA
*
18775161 TAATTTTACCCATC-GAGGGTATTT-TA
1 TAATTTTACCCATCAG-GGGTATTTCGA
*
18775187 GTAATTTTACCCATTAGGGGTATTTCGA
1 -TAATTTTACCCATCAGGGGTATTTCGA
* *
18775215 TAATTTTACCCATTAGGGGTATTTCGG
1 TAATTTTACCCATCAGGGGTATTTCGA
*
18775242 TAATTTTACCTATCAGGGGTATTTCGA
1 TAATTTTACCCATCAGGGGTATTTCGA
** *
18775269 TAATTTTACCC-TTTGAGGGTATTT-TA
1 TAATTTTACCCATCAG-GGGTATTTCGA
* *
18775295 GTAATTTTACCCATCAAGGGTATTTTG-
1 -TAATTTTACCCATCAGGGGTATTTCGA
* ** *
18775322 TAATTTGACCCATTGGGGGTATTT-TA
1 TAATTTTACCCATCAGGGGTATTTCGA
* **
18775348 GTATTTTTACCCATCAAAGGTATTTCGA
1 -TAATTTTACCCATCAGGGGTATTTCGA
* *
18775376 AAATTTTACCCATCAAGGGTATTTC-A
1 TAATTTTACCCATCAGGGGTATTTCGA
* * * * *
18775402 GTAATTTAACCGATCAGAGGTATTTTGG
1 -TAATTTTACCCATCAGGGGTATTTCGA
* * * *
18775430 TAATTTTACCCAT-GGAGGGTCTTTTGG
1 TAATTTTACCCATCAG-GGGTATTTCGA
* *
18775457 TAATTTTACCGATCAGGGGTATTTCTA
1 TAATTTTACCCATCAGGGGTATTTCGA
18775484 TAATTTTACCCATCAGGGGTATTTCGA
1 TAATTTTACCCATCAGGGGTATTTCGA
* * *
18775511 TAATTTTACCCATCGGGGGTATTTTGG
1 TAATTTTACCCATCAGGGGTATTTCGA
18775538 TAATTTTACCCATC
1 TAATTTTACCCATC
18775552 GAGGTGTAAC
Statistics
Matches: 705, Mismatches: 110, Indels: 66
0.80 0.12 0.07
Matches are distributed among these distances:
25 1 0.00
26 81 0.11
27 609 0.86
28 14 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (27 bp):
TAATTTTACCCATCAGGGGTATTTCGA
Found at i:18775048 original size:215 final size:215
Alignment explanation
Indices: 18774704--18775552 Score: 1068
Period size: 215 Copynumber: 3.9 Consensus size: 215
18774694 GGTACTTCGA
*** *
18774704 TAATTTTACCCATTGGGGGTATTTCGATAATTTTACCTATCAAGGGTATTTC-GATAATTTTA-C
1 TAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATCAAGGGTATTTCAG-TAATTTTACC
** * ** ** * *
18774767 CATTTGAGGGTATTTTAGTAATTTTACCCATCAAGGGTATTTTTGTAATTTTACCTATCGAGGGT
65 CATCAGA-GGTATTTTGGTAATTTTACCCATTGAGGGTATTTCGGTAATTTTACCGATCAAGGGT
* * *
18774832 ATTT-TGATAATTTTACCCATC-GAGGGTATTTTGGTAATGTTACCCATCGAGGGTATTTTGTAA
129 ATTTCT-ATAATTTTACCCATCAG-GGGTATTTCGATAATTTTACCCATCGAGGGTATTTTGTAA
18774895 TTTGACCCATCGGGGGTATTTTAG
192 TTTGACCCATCGGGGGTATTTTAG
* *
18774919 TAAATTTACCCATCAAGGGTATTTTGATAATTTTACCCATCAAGGGTATTTCAGTAATTTTACCC
1 TAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATCAAGGGTATTTCAGTAATTTTACCC
* * **
18774984 ATCAGAGGTATTTTGGCAATTTTACCCATTGAGGGTCTTTCAATAATTTTACCGATCAAGGGTAT
66 ATCAGAGGTATTTTGGTAATTTTACCCATTGAGGGTATTTCGGTAATTTTACCGATCAAGGGTAT
* *
18775049 TTCTATAATTTTACCCATCAGGGGCATTTCGATAATTTTACCCATC-AGGGGTATTTGGGTAATT
131 TTCTATAATTTTACCCATCAGGGGTATTTCGATAATTTTACCCATCGA-GGGTATTT-TGTAATT
* **
18775113 T-ACCCATCGAGGGTATTTCGG
194 TGACCCATCGGGGGTATTTTAG
* * *
18775134 TAATTTTACCCATCAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCC
1 TAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATCAAGGGTATTTCAGTAATTTTACCC
* * * * * *
18775199 ATTAGGGGTATTTCGATAATTTTACCCATT-AGGGGTATTTCGGTAATTTTACCTATCAGGGGTA
66 ATCAGAGGTATTTTGGTAATTTTACCCATTGA-GGGTATTTCGGTAATTTTACCGATCAAGGGTA
* ** * *
18775263 TTTCGATAATTTTACCC-TTTGAGGGTATTT-TAGTAATTTTACCCATCAAGGGTATTTTGTAAT
130 TTTCTATAATTTTACCCATCAG-GGGTATTTCGA-TAATTTTACCCATCGAGGGTATTTTGTAAT
*
18775326 TTGACCCATTGGGGGTATTTTAG
193 TTGACCCATCGGGGGTATTTTAG
* * * * *
18775349 TATTTTTACCCATCAAAGGTATTTCGAAAATTTTACCCATCAAGGGTATTTCAGTAATTTAACCG
1 TAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATCAAGGGTATTTCAGTAATTTTACCC
* * * *
18775414 ATCAGAGGTATTTTGGTAATTTTACCCATGGAGGGTCTTTTGGTAATTTTACCGATCAGGGGTAT
66 ATCAGAGGTATTTTGGTAATTTTACCCATTGAGGGTATTTCGGTAATTTTACCGATCAAGGGTAT
*
18775479 TTCTATAATTTTACCCATCAGGGGTATTTCGATAATTTTACCCATCGGGGGTATTTTGGTAATTT
131 TTCTATAATTTTACCCATCAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTT-GTAATTT
*
18775544 TACCCATCG
195 GACCCATCG
18775553 AGGTGTAACA
Statistics
Matches: 544, Mismatches: 75, Indels: 29
0.84 0.12 0.04
Matches are distributed among these distances:
214 12 0.02
215 497 0.91
216 35 0.06
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (215 bp):
TAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATCAAGGGTATTTCAGTAATTTTACCC
ATCAGAGGTATTTTGGTAATTTTACCCATTGAGGGTATTTCGGTAATTTTACCGATCAAGGGTAT
TTCTATAATTTTACCCATCAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTGTAATTTG
ACCCATCGGGGGTATTTTAG
Found at i:18777344 original size:28 final size:28
Alignment explanation
Indices: 18777304--18777541 Score: 415
Period size: 28 Copynumber: 8.5 Consensus size: 28
18777294 TAAATTGTAC
*
18777304 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
18777332 AGCACTAAGTGTGCAAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
18777360 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
18777388 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
18777416 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
18777444 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
18777472 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
18777500 AGCACTAAGTGTGTGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
18777527 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18777542 GACTTAATAT
Statistics
Matches: 203, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
27 23 0.11
28 180 0.89
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:18785660 original size:28 final size:28
Alignment explanation
Indices: 18785621--18785827 Score: 355
Period size: 28 Copynumber: 7.5 Consensus size: 28
18785611 TAAATTGTAC
*
18785621 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
18785649 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
18785677 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
18785705 AGCACTAAGTGT-CGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
18785732 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
18785760 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
18785788 AACACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
18785815 AGCACTGAGTGTG
1 AGCACTAAGTGTG
18785828 GGACTTAATA
Statistics
Matches: 173, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
27 48 0.28
28 125 0.72
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:18785740 original size:83 final size:84
Alignment explanation
Indices: 18785621--18785827 Score: 355
Period size: 83 Copynumber: 2.5 Consensus size: 84
18785611 TAAATTGTAC
*
18785621 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAG
*
18785686 TGTGCGAGTTTGATTATGT
66 TGTGCGAGTTTGATTATAT
18785705 AGCACTAAGTGT-CGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAG
18785769 TGTGCGAGTTTGATTATAT
66 TGTGCGAGTTTGATTATAT
* * *
18785788 AACACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTG
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
18785828 GGACTTAATA
Statistics
Matches: 117, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
83 101 0.86
84 16 0.14
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (84 bp):
AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAG
TGTGCGAGTTTGATTATAT
Found at i:18785746 original size:55 final size:56
Alignment explanation
Indices: 18785621--18785827 Score: 355
Period size: 55 Copynumber: 3.7 Consensus size: 56
18785611 TAAATTGTAC
*
18785621 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
18785677 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGT-CGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
*
18785732 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
* * *
18785788 AACACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTG
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
18785828 GGACTTAATA
Statistics
Matches: 145, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
55 76 0.52
56 69 0.48
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:18794664 original size:37 final size:39
Alignment explanation
Indices: 18794598--18794674 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 39
18794588 GTAAGTTAAG
18794598 TTTAAGTTTATTTACAAACTTACTAGCTTT-AACAAGCT
1 TTTAAGTTTATTTACAAACTTACTAGCTTTAAACAAGCT
* *
18794636 TTTAAGTTTA-TTACGAGCTTACTAGCTTTAAACAAGCT
1 TTTAAGTTTATTTACAAACTTACTAGCTTTAAACAAGCT
18794674 T
1 T
18794675 ACCTCATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 17 0.47
38 19 0.53
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (39 bp):
TTTAAGTTTATTTACAAACTTACTAGCTTTAAACAAGCT
Found at i:18794673 original size:19 final size:19
Alignment explanation
Indices: 18794611--18794676 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
18794601 AAGTTTATTT
*
18794611 ACAAACTTACTAGCTTT-A
1 ACAAGCTTACTAGCTTTAA
* *
18794629 ACAAGCTT-TTAAG-TTTATT
1 ACAAGCTTACT-AGCTTTA-A
*
18794648 ACGAGCTTACTAGCTTTAA
1 ACAAGCTTACTAGCTTTAA
18794667 ACAAGCTTAC
1 ACAAGCTTAC
18794677 CTCATTTTGG
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
17 4 0.11
18 9 0.25
19 18 0.50
20 5 0.14
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (19 bp):
ACAAGCTTACTAGCTTTAA
Found at i:18795503 original size:17 final size:18
Alignment explanation
Indices: 18795459--18795502 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
18795449 CTTGTTTCAA
*
18795459 TTTTTTTTCACATTTTCT
1 TTTTTTTTCACATTATCT
*
18795477 TTTTTATTTCAGATTATCT
1 TTTTT-TTTCACATTATCT
18795496 TTTTTTT
1 TTTTTTT
18795503 CCAAATTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.14, C:0.11, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTTTTCACATTATCT
Found at i:18797171 original size:22 final size:21
Alignment explanation
Indices: 18797120--18797172 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
18797110 AATTCTTTTT
18797120 TTAAATCTTAAAATTAAATAAA
1 TTAAAT-TTAAAATTAAATAAA
* *
18797142 TTATATTTAAAATATAAAGT-AC
1 TTAAATTTAAAAT-TAAA-TAAA
18797164 TTAAATTTA
1 TTAAATTTA
18797173 TAAAGGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 7 0.27
22 18 0.69
23 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (21 bp):
TTAAATTTAAAATTAAATAAA
Found at i:18805705 original size:10 final size:10
Alignment explanation
Indices: 18805690--18805731 Score: 84
Period size: 10 Copynumber: 4.2 Consensus size: 10
18805680 TTTATTTTTA
18805690 ATATTAATTT
1 ATATTAATTT
18805700 ATATTAATTT
1 ATATTAATTT
18805710 ATATTAATTT
1 ATATTAATTT
18805720 ATATTAATTT
1 ATATTAATTT
18805730 AT
1 AT
18805732 TATTTATTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATATTAATTT
Found at i:18805751 original size:30 final size:29
Alignment explanation
Indices: 18805680--18805751 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 29
18805670 CAACCTAATT
18805680 TTTATTTTTAATATTAATTTATATTAATTTA
1 TTTA-TTTT-ATATTAATTTATATTAATTTA
* *
18805711 TATTAATTTATATTAATTTATTATTTA-TTA
1 T-TTATTTTATATTAATTTA-TATTAATTTA
18805741 CTTTATTTTAT
1 -TTTATTTTAT
18805752 TTTCATGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
30 22 0.63
31 10 0.29
32 3 0.09
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTATTTTATATTAATTTATATTAATTTA
Found at i:18818109 original size:13 final size:14
Alignment explanation
Indices: 18818091--18818120 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
18818081 ATGCATGACC
18818091 AAAAAAAAAAGA-A
1 AAAAAAAAAAGAGA
18818104 AAAAAAAAAAGAGA
1 AAAAAAAAAAGAGA
18818118 AAA
1 AAA
18818121 GCTCTCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAGA
Found at i:18818111 original size:15 final size:15
Alignment explanation
Indices: 18818091--18818120 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18818081 ATGCATGACC
18818091 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
*
18818106 AAAAAAAAGAGAAAA
1 AAAAAAAAAAGAAAA
18818121 GCTCTCATGT
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:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:18819557 original size:49 final size:47
Alignment explanation
Indices: 18819478--18820268 Score: 1167
Period size: 47 Copynumber: 16.6 Consensus size: 47
18819468 TATTTGAATA
18819478 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
18819525 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
18819574 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
18819623 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
18819670 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
18819719 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
18819766 AATGTGAAAGTGTATATATATGTGGTAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
18819815 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
18819864 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
18819913 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
18819960 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
18820007 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
18820054 AATGTGAACA-TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
18820101 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
18820148 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
18820195 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
18820242 GATGCGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
18820269 TCCCGAAGGG
Statistics
Matches: 703, Mismatches: 33, Indels: 16
0.93 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 422 0.60
48 1 0.00
49 279 0.40
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:18825036 original size:20 final size:21
Alignment explanation
Indices: 18825013--18825062 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 21
18825003 ATGACATTAG
*
18825013 ACAATTAAATAAAT-TAATGC
1 ACAAATAAATAAATCTAATGC
18825033 ACAAATAAATAAATCTAATATGC
1 ACAAATAAATAAATCT-A-ATGC
18825056 ACAAATA
1 ACAAATA
18825063 CTAAAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 13 0.50
21 1 0.04
22 1 0.04
23 11 0.42
ACGTcount: A:0.58, C:0.12, G:0.04, T:0.26
Consensus pattern (21 bp):
ACAAATAAATAAATCTAATGC
Found at i:18827051 original size:22 final size:21
Alignment explanation
Indices: 18827017--18827061 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
18827007 TTTTATTTGC
*
18827017 AAAATCAAAATTTTCTTTTAAA
1 AAAATCAAAATTTT-TCTTAAA
**
18827039 AAAATCATTATTTTTCTTAAA
1 AAAATCAAAATTTTTCTTAAA
18827060 AA
1 AA
18827062 TCAAAACATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATCAAAATTTTTCTTAAA
Found at i:18827442 original size:150 final size:149
Alignment explanation
Indices: 18827238--18827674 Score: 648
Period size: 149 Copynumber: 2.9 Consensus size: 149
18827228 AATCAAAACA
* * *
18827238 TTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGA
1 TTATTTTGAAATAGTTAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAA
18827303 CTTAAAAAAATATATTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTTTAAAAAAAACACTATT
66 C-TAAAAAAATATATTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTTTAAAAAAAACACTATT
18827368 TTTCTTAAAGATTAAAGCTT
130 TTTCTTAAAGATTAAAGCTT
* * * * *
18827388 TTATTTTGAAGTACTTAAAAAAATCAAAACTTTATTTCAAAAATTTAAATTTTCCTTTAAAATAA
1 TTATTTTGAAATAGTTAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAA
* *
18827453 CTAAAAAAATA-ATTTTTATTTTTTAAAATCTAAACTTTCT-CTTTTTCT-TAAAAAACACTATT
66 CTAAAAAAATATATTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTT-TAAAAAAAACACTATT
18827515 TTTCTTAAAGATTAAAGCTT
130 TTTCTTAAAGATTAAAGCTT
*
18827535 TTACTTTGAAATAGTTGAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAAT
1 TTATTTTGAAATAGTT--AAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAAT
*
18827600 AACTAAAAAACCATATATTTATT-TTTTTCAAAATCTAAACTTTCTACTTTTTTTAAAAAAAAAC
64 AACTAAAAAA--ATATATTT-TTATTTTTCAAAATCTAAACTTTCT-CCTTTTTT-AAAAAAAA-
18827664 CACTATTTTTC
123 CACTATTTTTC
18827675 CCAAAATCAA
Statistics
Matches: 256, Mismatches: 19, Indels: 18
0.87 0.06 0.06
Matches are distributed among these distances:
147 52 0.20
148 29 0.11
149 64 0.25
150 58 0.23
151 3 0.01
152 25 0.10
153 3 0.01
154 5 0.02
155 6 0.02
156 11 0.04
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (149 bp):
TTATTTTGAAATAGTTAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAA
CTAAAAAAATATATTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTTTAAAAAAAACACTATTT
TTCTTAAAGATTAAAGCTT
Found at i:18829181 original size:23 final size:23
Alignment explanation
Indices: 18829155--18829287 Score: 117
Period size: 23 Copynumber: 5.8 Consensus size: 23
18829145 AATATTTGGC
*
18829155 ATGAATAGTGAAGATT-TGCTACA
1 ATGAACAGTGAAGATTCT-CTACA
* * *
18829178 ATGAATAGTAAAAATTCTCTGAC-
1 ATGAACAGTGAAGATTCTCT-ACA
* * *
18829201 ATGAACAGTGAAGATTCTTTGCG
1 ATGAACAGTGAAGATTCTCTACA
*
18829224 ATGAACAGTGAAGATTCTCTGCA
1 ATGAACAGTGAAGATTCTCTACA
* * *
18829247 ATAAACAATGAAGATTCTCTACG
1 ATGAACAGTGAAGATTCTCTACA
* *
18829270 ATGAATAGTGAAGTTTCT
1 ATGAACAGTGAAGATTCT
18829288 TTGAAAAAAA
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
22 1 0.01
23 86 0.96
24 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (23 bp):
ATGAACAGTGAAGATTCTCTACA
Found at i:18829280 original size:46 final size:46
Alignment explanation
Indices: 18829163--18829287 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
18829153 GCATGAATAG
* * * * *
18829163 TGAAGATT-TGCTACAATGAATAGTAAAAATTCTCTGACATGAACAG
1 TGAAGATTCT-CTACGATGAATAGTGAAGATTCTCTGACATAAACAA
* * *
18829209 TGAAGATTCTTTGCGATGAACAGTGAAGATTCTCTG-CAATAAACAA
1 TGAAGATTCTCTACGATGAATAGTGAAGATTCTCTGAC-ATAAACAA
*
18829255 TGAAGATTCTCTACGATGAATAGTGAAGTTTCT
1 TGAAGATTCTCTACGATGAATAGTGAAGATTCT
18829288 TTGAAAAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 1 0.02
46 63 0.97
47 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (46 bp):
TGAAGATTCTCTACGATGAATAGTGAAGATTCTCTGACATAAACAA
Found at i:18829562 original size:16 final size:16
Alignment explanation
Indices: 18829541--18829571 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18829531 TTTTAGCTTT
18829541 AAAAAATTTAATTTTA
1 AAAAAATTTAATTTTA
18829557 AAAAAATTTAATTTT
1 AAAAAATTTAATTTT
18829572 CAAATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAAAATTTAATTTTA
Found at i:18848374 original size:26 final size:26
Alignment explanation
Indices: 18848332--18848385 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
18848322 CAAGTTTCAA
* *
18848332 AATATCATAACAGATATTATTTTTAG
1 AATATCATAACAGATATCAGTTTTAG
* *
18848358 AATATCATAGCATATATCAGTTTTAG
1 AATATCATAACAGATATCAGTTTTAG
18848384 AA
1 AA
18848386 CACTTACAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (26 bp):
AATATCATAACAGATATCAGTTTTAG
Found at i:18859645 original size:16 final size:16
Alignment explanation
Indices: 18859624--18859655 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18859614 TCAAATCTAT
*
18859624 TTGAAGTGATTTAAAA
1 TTGAAGTGATGTAAAA
18859640 TTGAAGTGATGTAAAA
1 TTGAAGTGATGTAAAA
18859656 GGCATGCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (16 bp):
TTGAAGTGATGTAAAA
Found at i:18868207 original size:16 final size:16
Alignment explanation
Indices: 18868186--18868217 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18868176 TCAAATCAAT
*
18868186 TTGAAGTGATTTAAAA
1 TTGAAGTGATGTAAAA
18868202 TTGAAGTGATGTAAAA
1 TTGAAGTGATGTAAAA
18868218 GGCATGCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (16 bp):
TTGAAGTGATGTAAAA
Found at i:18875835 original size:21 final size:20
Alignment explanation
Indices: 18875806--18875844 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18875796 CTAGTCCCCT
*
18875806 TTTATTGTCAGGTAAACTACA
1 TTTAATGTCA-GTAAACTACA
*
18875827 TTTAATGTCATTAAACTA
1 TTTAATGTCAGTAAACTA
18875845 TTAGTAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTAATGTCAGTAAACTACA
Found at i:18875930 original size:31 final size:31
Alignment explanation
Indices: 18875892--18875960 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
18875882 TCACAAAATG
*
18875892 GTCACTAAACTATTGAAAAGTT-TTCATTCAA
1 GTCACTAAACTATTCAAAAGTTATT-ATTCAA
*
18875923 GTCACTAAACTATTCAAAAGTTATTATTTAA
1 GTCACTAAACTATTCAAAAGTTATTATTCAA
18875954 GTCACTA
1 GTCACTA
18875961 GGGTTTTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (31 bp):
GTCACTAAACTATTCAAAAGTTATTATTCAA
Found at i:18882240 original size:24 final size:24
Alignment explanation
Indices: 18882192--18882238 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
18882182 ACTGGTCATA
*
18882192 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
18882216 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
18882239 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:18883019 original size:54 final size:53
Alignment explanation
Indices: 18882929--18883061 Score: 160
Period size: 54 Copynumber: 2.5 Consensus size: 53
18882919 AGACCCCAAA
* * *
18882929 ATAGGTAAAATAACTAAAATACCCTCATAGGATAAAATGACCAAAATACCCCC
1 ATAGGTAAAATGACTGAAATACCCCCATAGGATAAAATGACCAAAATACCCCC
* * *
18882982 ATAGGATAAAATGACTGAAATGCCCCCATAAGG-TAAAATGATCGAAATACCCCC
1 ATAGG-TAAAATGACTGAAATACCCCCAT-AGGATAAAATGACCAAAATACCCCC
**
18883036 ATAGGGTAAAATGACTGTTATACCCC
1 ATA-GGTAAAATGACTGAAATACCCC
18883062 TAGGAGATGA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 5 0.07
54 58 0.85
55 5 0.07
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.20
Consensus pattern (53 bp):
ATAGGTAAAATGACTGAAATACCCCCATAGGATAAAATGACCAAAATACCCCC
Found at i:18883058 original size:27 final size:27
Alignment explanation
Indices: 18882932--18883061 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 27
18882922 CCCCAAAATA
* * *
18882932 GGTAAAATAACTAAAATACCCTCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* **
18882959 GATAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* * *
18882986 GATAAAATGACTGAAATGCCCCCATAA
1 GGTAAAATGACTGAAATACCCCCATAG
18883013 GGTAAAATGA-TCGAAATACCCCCATAG
1 GGTAAAATGACT-GAAATACCCCCATAG
**
18883040 GGTAAAATGACTGTTATACCCC
1 GGTAAAATGACTGAAATACCCC
18883062 TAGGAGATGA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 86 0.98
28 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCCCATAG
Found at i:18883075 original size:54 final size:54
Alignment explanation
Indices: 18882929--18883077 Score: 147
Period size: 54 Copynumber: 2.8 Consensus size: 54
18882919 AGACCCCAAA
* * * * *
18882929 ATAGG-TAAAATAACTAAAATACCCTCATAGGATAAAATGACCAAAATACCCCC
1 ATAGGATAAAATGACTGAAATACCCCCAGAAGATAAAATGACCAAAATACCCCC
* * * * *
18882982 ATAGGATAAAATGACTGAAATGCCCCCATAAGGTAAAATGATCGAAATACCCCC
1 ATAGGATAAAATGACTGAAATACCCCCAGAAGATAAAATGACCAAAATACCCCC
* ** * * *
18883036 ATAGGGTAAAATGACTGTTATACCCCTAGGAGATGAAATGAC
1 ATAGGATAAAATGACTGAAATACCCCCAGAAGATAAAATGAC
18883078 TGTTATGGCA
Statistics
Matches: 77, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (54 bp):
ATAGGATAAAATGACTGAAATACCCCCAGAAGATAAAATGACCAAAATACCCCC
Found at i:18888144 original size:18 final size:18
Alignment explanation
Indices: 18888121--18888155 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18888111 TTCGAAACTT
*
18888121 TAGTGGAGAAGACTAAGG
1 TAGTGGAAAAGACTAAGG
*
18888139 TAGTGGAAAAGATTAAG
1 TAGTGGAAAAGACTAAG
18888156 CTCGTGGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.34, T:0.20
Consensus pattern (18 bp):
TAGTGGAAAAGACTAAGG
Found at i:18895716 original size:17 final size:17
Alignment explanation
Indices: 18895694--18895729 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18895684 ACGCACAACA
* *
18895694 AATGATTTTACGGAAAT
1 AATGATTTCACGCAAAT
18895711 AATGATTTCACGCAAAT
1 AATGATTTCACGCAAAT
18895728 AA
1 AA
18895730 ACATTTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (17 bp):
AATGATTTCACGCAAAT
Found at i:18902161 original size:60 final size:62
Alignment explanation
Indices: 18902047--18902165 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 62
18902037 TCAATTTGTA
* * *
18902047 TTAGATATTATAATTATTTAAGTTTACTTTTTTACCTAATTAATATTTAAATACTATTTATAC
1 TTAGATATTATAATTATTGAACTTTAC-TTTTTACCAAATTAATATTTAAATACTATTTATAC
* *
18902110 TTAGATATTGTAATTATTGAACTTTA-TTTTTA-CAAATTAATATTTAGATACTATTT
1 TTAGATATTATAATTATTGAACTTTACTTTTTACCAAATTAATATTTAAATACTATTT
18902166 GTATTAGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
60 22 0.43
61 6 0.12
63 23 0.45
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (62 bp):
TTAGATATTATAATTATTGAACTTTACTTTTTACCAAATTAATATTTAAATACTATTTATAC
Found at i:18906595 original size:18 final size:18
Alignment explanation
Indices: 18906572--18906606 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
18906562 ACCAGCAGAT
18906572 GGCATACTAACTTGTTGG
1 GGCATACTAACTTGTTGG
18906590 GGCATACTAACTTGTTG
1 GGCATACTAACTTGTTG
18906607 TGGAGAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (18 bp):
GGCATACTAACTTGTTGG
Found at i:18907573 original size:12 final size:12
Alignment explanation
Indices: 18907556--18907588 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
18907546 CTTTTGATCA
18907556 TCATTGTTTTTG
1 TCATTGTTTTTG
18907568 TCATTGTTTTTG
1 TCATTGTTTTTG
18907580 TCATTGTTT
1 TCATTGTTT
18907589 CCCTTCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.15, T:0.67
Consensus pattern (12 bp):
TCATTGTTTTTG
Found at i:18908472 original size:37 final size:35
Alignment explanation
Indices: 18908416--18908577 Score: 104
Period size: 37 Copynumber: 4.5 Consensus size: 35
18908406 ATATTGTTAA
18908416 TGAATGCATGATTAAGCATGTCATTAAGATTTTCAAACC
1 TGAA-GCATGA-TAAGCATGTCATTAA-ATTTT-AAACC
* ** *
18908455 TGAAGCATGATAAGCATGCCACCGAAATTGTTAAATC
1 TGAAGCATGATAAGCATGTCA-TTAAATT-TTAAACC
* * *
18908492 -GAAAGCATGATGAGCAT-TCA-T-ACTGTT-AA--
1 TG-AAGCATGATAAGCATGTCATTAAATTTTAAACC
*
18908521 TGAATGCATGATTAAACATGTCATTAAGATTTTCAAACC
1 TGAA-GCATGA-TAAGCATGTCATTAA-ATTTT-AAACC
18908560 TGAAGCATGATAAGCATG
1 TGAAGCATGATAAGCATG
18908578 CCACCGAAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
29 2 0.02
30 7 0.07
31 7 0.07
32 5 0.05
33 3 0.03
34 1 0.01
35 3 0.03
36 3 0.03
37 40 0.42
38 16 0.17
39 8 0.08
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (35 bp):
TGAAGCATGATAAGCATGTCATTAAATTTTAAACC
Found at i:18908592 original size:105 final size:105
Alignment explanation
Indices: 18908410--18908613 Score: 399
Period size: 105 Copynumber: 1.9 Consensus size: 105
18908400 GACATGATAT
*
18908410 TGTTAATGAATGCATGATTAAGCATGTCATTAAGATTTTCAAACCTGAAGCATGATAAGCATGCC
1 TGTTAATGAATGCATGATTAAACATGTCATTAAGATTTTCAAACCTGAAGCATGATAAGCATGCC
18908475 ACCGAAATTGTTAAATCGAAAGCATGATGAGCATTCATAC
66 ACCGAAATTGTTAAATCGAAAGCATGATGAGCATTCATAC
18908515 TGTTAATGAATGCATGATTAAACATGTCATTAAGATTTTCAAACCTGAAGCATGATAAGCATGCC
1 TGTTAATGAATGCATGATTAAACATGTCATTAAGATTTTCAAACCTGAAGCATGATAAGCATGCC
18908580 ACCGAAATTGTTAAATCGAAAGCATGATGAGCAT
66 ACCGAAATTGTTAAATCGAAAGCATGATGAGCAT
18908614 GCCATTGATA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 98 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (105 bp):
TGTTAATGAATGCATGATTAAACATGTCATTAAGATTTTCAAACCTGAAGCATGATAAGCATGCC
ACCGAAATTGTTAAATCGAAAGCATGATGAGCATTCATAC
Found at i:18908605 original size:37 final size:37
Alignment explanation
Indices: 18908457--18908617 Score: 117
Period size: 37 Copynumber: 4.5 Consensus size: 37
18908447 TTCAAACCTG
18908457 AAGCATGATAAGCATGCCACCGAAATTGTTAAATCGA
1 AAGCATGATAAGCATGCCACCGAAATTGTTAAATCGA
* * * *
18908494 AAGCATGATGAGCAT----TC-ATACTGTT-AAT-GA
1 AAGCATGATAAGCATGCCACCGAAATTGTTAAATCGA
* * * ** *
18908524 ATGCATGATTAAACATGTCA-TTAAGATT-TTCAAACCTG-
1 AAGCATGA-TAAGCATGCCACCGAA-ATTGTT-AAATC-GA
18908562 AAGCATGATAAGCATGCCACCGAAATTGTTAAATCGA
1 AAGCATGATAAGCATGCCACCGAAATTGTTAAATCGA
*
18908599 AAGCATGATGAGCATGCCA
1 AAGCATGATAAGCATGCCA
18908618 TTGATATTTT
Statistics
Matches: 92, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
30 9 0.10
31 8 0.09
32 6 0.07
33 1 0.01
35 3 0.03
36 3 0.03
37 50 0.54
38 11 0.12
39 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (37 bp):
AAGCATGATAAGCATGCCACCGAAATTGTTAAATCGA
Found at i:18910678 original size:13 final size:13
Alignment explanation
Indices: 18910660--18910685 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18910650 TAAACAGTTA
18910660 GTATAATTTTTTT
1 GTATAATTTTTTT
18910673 GTATAATTTTTTT
1 GTATAATTTTTTT
18910686 CCAATTGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (13 bp):
GTATAATTTTTTT
Found at i:18915860 original size:22 final size:21
Alignment explanation
Indices: 18915821--18915864 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
18915811 AATTTAATGT
18915821 CATCTTTTAGTAAAAAAAACC
1 CATCTTTTAGTAAAAAAAACC
18915842 CATCTTTTAGTAAAAAAAACC
1 CATCTTTTAGTAAAAAAAACC
18915863 CA
1 CA
18915865 CAGATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (21 bp):
CATCTTTTAGTAAAAAAAACC
Found at i:18917550 original size:14 final size:13
Alignment explanation
Indices: 18917531--18917576 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
18917521 ACTTAAATTT
18917531 TAATAATAATAAAA
1 TAATAA-AATAAAA
18917545 TAATAAAAATAAAA
1 TAAT-AAAATAAAA
*
18917559 TAAATAAAGTAAAA
1 T-AATAAAATAAAA
18917573 TAAT
1 TAAT
18917577 TTAAAATACT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 3 0.10
14 21 0.72
15 5 0.17
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
TAATAAAATAAAA
Done.