Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 47 of 167
Found at i:14585737 original size:13 final size:13
Alignment explanation
Indices: 14585719--14585744 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14585709 TGTTGGGAAT
14585719 TAATGTGTATGCA
1 TAATGTGTATGCA
14585732 TAATGTGTATGCA
1 TAATGTGTATGCA
14585745 ACGAACAAGT
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:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TAATGTGTATGCA
Found at i:14592665 original size:19 final size:19
Alignment explanation
Indices: 14592641--14592699 Score: 109
Period size: 19 Copynumber: 3.1 Consensus size: 19
14592631 CTTAAAGAGC
14592641 TCGTATGAAAGCAATTTAA
1 TCGTATGAAAGCAATTTAA
14592660 TCGTATGAAAGCAATTTAA
1 TCGTATGAAAGCAATTTAA
*
14592679 TCATATGAAAGCAATTTAA
1 TCGTATGAAAGCAATTTAA
14592698 TC
1 TC
14592700 ATGTTTTTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (19 bp):
TCGTATGAAAGCAATTTAA
Found at i:14600761 original size:27 final size:27
Alignment explanation
Indices: 14600731--14600784 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
14600721 ATATATAATT
*
14600731 ATTA-TAAAATAATTAAATTGTACTTAA
1 ATTATTAAAATAATAAAATT-TACTTAA
* *
14600758 ATTATTAACATGATAAAATTTACTTAA
1 ATTATTAAAATAATAAAATTTACTTAA
14600785 TTCTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (27 bp):
ATTATTAAAATAATAAAATTTACTTAA
Found at i:14606690 original size:17 final size:18
Alignment explanation
Indices: 14606657--14606704 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
14606647 TTTCATTTTC
*
14606657 AATTAATTTAA-TTTTAA
1 AATTATTTTAATTTTTAA
*
14606674 AGTT-TTTTAATTTTTAA
1 AATTATTTTAATTTTTAA
14606691 AATTATTTT-ATTTT
1 AATTATTTTAATTTT
14606705 GTTTATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 5 0.19
17 17 0.65
18 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AATTATTTTAATTTTTAA
Found at i:14610103 original size:24 final size:24
Alignment explanation
Indices: 14610076--14610126 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
14610066 AAAGAAAGAA
*
14610076 ATAAAAAAGAAGACGAGGGTGGAG
1 ATAAAAAAGAAGACGAGGGTCGAG
* *
14610100 ATAAAGATGAAGACGAGGGTCGAG
1 ATAAAAAAGAAGACGAGGGTCGAG
14610124 ATA
1 ATA
14610127 GAGATGAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.06, G:0.35, T:0.12
Consensus pattern (24 bp):
ATAAAAAAGAAGACGAGGGTCGAG
Found at i:14610131 original size:24 final size:24
Alignment explanation
Indices: 14610084--14610158 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
14610074 AAATAAAAAA
*
14610084 GAAGACGAGGGTGGAGATAAAGAT
1 GAAGACGAGGGTCGAGATAAAGAT
*
14610108 GAAGACGAGGGTCGAGATAGAGAT
1 GAAGACGAGGGTCGAGATAAAGAT
* * * *
14610132 GAAGACAAGGATTGAGATGAAGAT
1 GAAGACGAGGGTCGAGATAAAGAT
14610156 GAA
1 GAA
14610159 TACAAGGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.43, C:0.05, G:0.39, T:0.13
Consensus pattern (24 bp):
GAAGACGAGGGTCGAGATAAAGAT
Found at i:14610163 original size:24 final size:23
Alignment explanation
Indices: 14610097--14610165 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
14610087 GACGAGGGTG
* *
14610097 GAGATAAAGATGAAGACGAGGGTC
1 GAGAT-AAGATGAAGACAAGGATC
*
14610121 GAGATAGAGATGAAGACAAGGATT
1 GAGATA-AGATGAAGACAAGGATC
*
14610145 GAGATGAAGATGAATACAAGG
1 GAGAT-AAGATGAAGACAAGG
14610166 TTTATGAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 37 0.95
25 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.35, T:0.14
Consensus pattern (23 bp):
GAGATAAGATGAAGACAAGGATC
Found at i:14611490 original size:21 final size:21
Alignment explanation
Indices: 14611449--14611543 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
14611439 AGAATACTAC
* * *
14611449 TTAT-TTTGAATCGATTGTCT
1 TTATGTTTAAATCAATTATCT
*
14611469 TTATGTTTAAATAAATTATCT
1 TTATGTTTAAATCAATTATCT
* *
14611490 TTATGTTTAAATCGATTGTCT
1 TTATGTTTAAATCAATTATCT
* *
14611511 TTCTGTTTAAATCAA-T-TCA
1 TTATGTTTAAATCAATTATCT
14611530 TTATTGTTTAAATC
1 TTA-TGTTTAAATC
14611544 TATTCTTTGT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
19 4 0.06
20 15 0.24
21 43 0.69
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (21 bp):
TTATGTTTAAATCAATTATCT
Found at i:14611518 original size:42 final size:40
Alignment explanation
Indices: 14611449--14611543 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 40
14611439 AGAATACTAC
* *
14611449 TTAT-TTTGAATCGATTGTCTTTATGTTTAAATAAATTATCT
1 TTATGTTTAAATCGATTGTCTTTATGTTTAAATAAA-T-TCA
* *
14611490 TTATGTTTAAATCGATTGTCTTTCTGTTTAAATCAATTCA
1 TTATGTTTAAATCGATTGTCTTTATGTTTAAATAAATTCA
14611530 TTATTGTTTAAATC
1 TTA-TGTTTAAATC
14611544 TATTCTTTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 5 0.10
41 15 0.31
42 28 0.58
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (40 bp):
TTATGTTTAAATCGATTGTCTTTATGTTTAAATAAATTCA
Found at i:14611559 original size:20 final size:20
Alignment explanation
Indices: 14611516--14611560 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
14611506 TGTCTTTCTG
*
14611516 TTTAAATCAATTCATTATTG
1 TTTAAATCAATTCATTATTA
* * *
14611536 TTTAAATCTATTCTTTGTTA
1 TTTAAATCAATTCATTATTA
14611556 TTTAA
1 TTTAA
14611561 CCTAATTCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTAAATCAATTCATTATTA
Found at i:14620719 original size:151 final size:151
Alignment explanation
Indices: 14620445--14620747 Score: 597
Period size: 151 Copynumber: 2.0 Consensus size: 151
14620435 CGAGTTATGA
14620445 TTTGTTAGCCAACAACATACCATGTAATTTGGGTGAAGGGCATGTGCCATGTCAGCCGAAACAAG
1 TTTGTTAGCCAACAACATACCATGTAATTTGGGTGAAGGGCATGTGCCATGTCAGCCGAAACAAG
14620510 GAAACTTCTCTGGATAGCTTTTGCTAGCATCTGAAAAGAACCAATGTCAATCTATATGCTCAGAT
66 GAAACTTCTCTGGATAGCTTTTGCTAGCATCTGAAAAGAACCAATGTCAATCTATATGCTCAGAT
14620575 ATGTGCTAACTGCTCTCAAAT
131 ATGTGCTAACTGCTCTCAAAT
*
14620596 TTTGTTAGCCAACAACATACCATGTAATTTGGGTGAAGGGCATGTGCCATGTCAGCTGAAACAAG
1 TTTGTTAGCCAACAACATACCATGTAATTTGGGTGAAGGGCATGTGCCATGTCAGCCGAAACAAG
14620661 GAAACTTCTCTGGATAGCTTTTGCTAGCATCTGAAAAGAACCAATGTCAATCTATATGCTCAGAT
66 GAAACTTCTCTGGATAGCTTTTGCTAGCATCTGAAAAGAACCAATGTCAATCTATATGCTCAGAT
14620726 ATGTGCTAACTGCTCTCAAAT
131 ATGTGCTAACTGCTCTCAAAT
14620747 T
1 T
14620748 GGAAAATCTG
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (151 bp):
TTTGTTAGCCAACAACATACCATGTAATTTGGGTGAAGGGCATGTGCCATGTCAGCCGAAACAAG
GAAACTTCTCTGGATAGCTTTTGCTAGCATCTGAAAAGAACCAATGTCAATCTATATGCTCAGAT
ATGTGCTAACTGCTCTCAAAT
Found at i:14623734 original size:17 final size:18
Alignment explanation
Indices: 14623709--14623742 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14623699 AAAATTATTA
*
14623709 ATTATTATAA-AAAAATT
1 ATTAGTATAATAAAAATT
14623726 ATTAGTATAATAAAAAT
1 ATTAGTATAATAAAAAT
14623743 GATTCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTAGTATAATAAAAATT
Found at i:14626535 original size:30 final size:30
Alignment explanation
Indices: 14626499--14626558 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
14626489 AGTCTGAGGA
*
14626499 AGCTATGAGAAAGCAGTGCCCTAACGTATT
1 AGCTATGAGAAAGCAGTGCCCTAACCTATT
14626529 AGCTATGAGAAAGCAGTGCCCTAACCTATT
1 AGCTATGAGAAAGCAGTGCCCTAACCTATT
14626559 CACTAGTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (30 bp):
AGCTATGAGAAAGCAGTGCCCTAACCTATT
Found at i:14627517 original size:21 final size:23
Alignment explanation
Indices: 14627477--14627518 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14627467 AAAATATCCC
*
14627477 TAATATATATTTTGGATTGAATT
1 TAATAAATATTTTGGATTGAATT
14627500 TAATAAATA-TTT-GATTGAA
1 TAATAAATATTTTGGATTGAA
14627519 CGAGTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (23 bp):
TAATAAATATTTTGGATTGAATT
Found at i:14627771 original size:40 final size:40
Alignment explanation
Indices: 14627727--14627872 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
14627717 TTGACAACAA
* *
14627727 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
1 TCGGCTATATATGACACTTAGTGTGCGATTCGAGATAGCT
* * * *
14627767 TCGGCTATATATGGCACTTAGTGTGCAAAATCAAGATAGCT
1 TCGGCTATATATGACACTTAGTGTGC-GATTCGAGATAGCT
*
14627808 TCGGCTATATATGACACTTAGTGTGCGATTTGAGATAGCT
1 TCGGCTATATATGACACTTAGTGTGCGATTCGAGATAGCT
* **
14627848 TTGGCTATATACAACACTTAGTGTG
1 TCGGCTATATATGACACTTAGTGTG
14627873 TGAGATATTG
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 58 0.62
41 35 0.38
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (40 bp):
TCGGCTATATATGACACTTAGTGTGCGATTCGAGATAGCT
Found at i:14627818 original size:41 final size:40
Alignment explanation
Indices: 14627727--14627833 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 40
14627717 TTGACAACAA
* * *
14627727 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCAAATCAACATAGCT
*
14627767 TCGGCTATATATGGCACTTAGTGTGCAAAATCAAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGC-AAATCAACATAGCT
*
14627808 TCGGCTATATATGACACTTAGTGTGC
1 TCGGCTATATATGGCACTTAGTGTGC
14627834 GATTTGAGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
40 26 0.43
41 35 0.57
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCAAATCAACATAGCT
Found at i:14629408 original size:145 final size:144
Alignment explanation
Indices: 14629087--14629471 Score: 470
Period size: 145 Copynumber: 2.6 Consensus size: 144
14629077 AATGCTCACA
* *
14629087 TTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTTAAAAAAACAAATTTTTATTTTTTAAAA
1 TTTGTTTTAAAA-TTTAAACTTTCCTTTAAAATAAC-TAAAAAAACAAATTTTTAATTTTTAAAA
* * *
14629152 TCTAAACTCTCTCCTTTTTTAAAAAAATACTATTTTTCTTAAAAGATTGAAGCGTTTATTTTGAA
64 TCTAAACTTTCTCC---TTT-AAAAAA-A-TATTTTTCTTAAAAGATTAAAGCGTTTACTTTGAA
* * *
14629217 ATAGTTGGAAAAAAATCGAAAT
123 ATAGTTGAAAAAAAATCAAAAC
* * * * * *
14629239 TTTATTTTCAAATTTTAAAATTTCCTTTAAAATAACTAAAAAAATATATTTTTAATTTTCAAAAT
1 TTTGTTTT-AAAATTTAAACTTTCCTTTAAAATAACTAAAAAAACAAATTTTTAATTTTTAAAAT
* *
14629304 CTAAACTTTCTCCTTTAAAAAAATATTTTTCTT-AAAGATTAAAGCTTTTACTTTGAAGTAGTTG
65 CTAAACTTTCTCCTTTAAAAAAATATTTTTCTTAAAAGATTAAAGCGTTTACTTTGAAATAGTTG
14629368 AAAAAAAAATCAAAAC
130 -AAAAAAAATCAAAAC
*
14629384 TTTGTTTTAAGAATTTAAACTTTCCTTTAAAATAATTAAAAAAACAAATTTTT-ATTTGTTAAAA
1 TTTGTTTTAA-AATTTAAACTTTCCTTTAAAATAACTAAAAAAACAAATTTTTAATTT-TTAAAA
* *
14629448 TCAAAAATTTCT-CTTTAAAAAAAT
64 TCTAAACTTTCTCCTTTAAAAAAAT
14629472 CACAACTTTT
Statistics
Matches: 204, Mismatches: 25, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
144 45 0.22
145 81 0.40
146 1 0.00
147 6 0.03
148 3 0.01
151 37 0.18
152 28 0.14
153 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (144 bp):
TTTGTTTTAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAACAAATTTTTAATTTTTAAAATC
TAAACTTTCTCCTTTAAAAAAATATTTTTCTTAAAAGATTAAAGCGTTTACTTTGAAATAGTTGA
AAAAAAATCAAAAC
Found at i:14629648 original size:2 final size:2
Alignment explanation
Indices: 14629641--14629667 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14629631 CTATGGGTAA
14629641 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14629668 GAAGAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14638892 original size:17 final size:17
Alignment explanation
Indices: 14638862--14638930 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 17
14638852 ATTTATAGTA
*
14638862 TTTATATTTCATTATAT
1 TTTATATTTTATTATAT
* *
14638879 TTTATTTTTTATTACAT
1 TTTATATTTTATTATAT
* *
14638896 ATTACATTTTATTATAT
1 TTTATATTTTATTATAT
*
14638913 ATTTTTATTTTATT-TAT
1 -TTTATATTTTATTATAT
14638930 T
1 T
14638931 ATATGGTTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
16 1 0.02
17 30 0.73
18 10 0.24
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATATTTTATTATAT
Found at i:14638931 original size:22 final size:22
Alignment explanation
Indices: 14638903--14638958 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
14638893 CATATTACAT
*
14638903 TTTATTATATATTTTTATTTTA
1 TTTATTATATATTTTTATATTA
**
14638925 TTTATTATAT-GGTTTATATTA
1 TTTATTATATATTTTTATATTA
14638946 -TTA-TATATATTTT
1 TTTATTATATATTTT
14638959 GCTTATAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 5 0.18
20 5 0.18
21 8 0.29
22 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (22 bp):
TTTATTATATATTTTTATATTA
Found at i:14638946 original size:21 final size:21
Alignment explanation
Indices: 14638904--14638955 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
14638894 ATATTACATT
*
14638904 TTATTATATAT-T--TTTATT
1 TTATTATATATATGGTTTATA
14638922 TTATT-TATTATATGGTTTATA
1 TTATTATA-TATATGGTTTATA
14638943 TTATTATATATAT
1 TTATTATATATAT
14638956 TTTGCTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.07
18 8 0.29
19 1 0.04
21 15 0.54
22 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (21 bp):
TTATTATATATATGGTTTATA
Found at i:14648747 original size:13 final size:14
Alignment explanation
Indices: 14648731--14648766 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
14648721 CAATCTCATA
14648731 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
14648744 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
14648757 TCTC-ATTTCA
1 TCTCAATTTCA
14648767 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:14648958 original size:21 final size:20
Alignment explanation
Indices: 14648934--14649014 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 20
14648924 GACACATAAA
14648934 GTGCCTAAAAATACACACGAG
1 GTGCCT-AAAATACACACGAG
* **
14648955 GTGCCTGATACGACACACGAG
1 GTGCCT-AAAATACACACGAG
* *
14648976 GTGCCTGATATGACACACGAG
1 GTGCCTAAAAT-ACACACGAG
*
14648997 GTGCCTGAAATACGACAC
1 GTGCCTAAAATAC-ACAC
14649015 ATAAAGTGCC
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
20 2 0.04
21 46 0.96
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (20 bp):
GTGCCTAAAATACACACGAG
Found at i:14648971 original size:42 final size:43
Alignment explanation
Indices: 14648920--14649025 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 43
14648910 CCTGATCAGT
14648920 ATACGACACATAAAGTGCCTAAAAAT-ACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCT-AAAATGACACACGAGGTGCCTGA
** * * *
14648962 ATACGACACACGAGGTGCCTGATATGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAATGACACACGAGGTGCCTG-A
14649006 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
14649026 CATCAATAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.06
42 33 0.62
44 17 0.32
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAATGACACACGAGGTGCCTGA
Found at i:14648972 original size:23 final size:21
Alignment explanation
Indices: 14648946--14649015 Score: 113
Period size: 21 Copynumber: 3.2 Consensus size: 21
14648936 GCCTAAAAAT
14648946 ACACACGAGGTGCCTGATACG
1 ACACACGAGGTGCCTGATACG
*
14648967 ACACACGAGGTGCCTGATATG
1 ACACACGAGGTGCCTGATACG
14648988 ACACACGAGGTGCCTGAAATACG
1 ACACACGAGGTGCCTG--ATACG
14649011 ACACA
1 ACACA
14649016 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 36 0.80
23 9 0.20
ACGTcount: A:0.33, C:0.27, G:0.26, T:0.14
Consensus pattern (21 bp):
ACACACGAGGTGCCTGATACG
Found at i:14649409 original size:15 final size:14
Alignment explanation
Indices: 14649384--14649424 Score: 64
Period size: 15 Copynumber: 2.8 Consensus size: 14
14649374 ATATATATTT
14649384 TATAATTCAATCAA
1 TATAATTCAATCAA
14649398 TATAATTTCAATCAA
1 TATAA-TTCAATCAA
14649413 TATAAATTCAAT
1 TAT-AATTCAAT
14649425 AAAACAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.20
15 18 0.72
16 2 0.08
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (14 bp):
TATAATTCAATCAA
Found at i:14649587 original size:2 final size:2
Alignment explanation
Indices: 14649580--14649609 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14649570 ATATCTCATT
14649580 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14649610 TATATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14650420 original size:9 final size:9
Alignment explanation
Indices: 14650406--14650438 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
14650396 GTTTCTTTCC
14650406 TCTTTTTAT
1 TCTTTTTAT
14650415 TCTTTTTAT
1 TCTTTTTAT
14650424 TCTTTTGT-T
1 TCTTTT-TAT
14650433 TCTTTT
1 TCTTTT
14650439 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 22 0.96
10 1 0.04
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (9 bp):
TCTTTTTAT
Found at i:14654022 original size:44 final size:44
Alignment explanation
Indices: 14653972--14654260 Score: 287
Period size: 44 Copynumber: 6.5 Consensus size: 44
14653962 TTTACATCGA
* * *
14653972 AGCAGATCGAAGATACCAGATTTGGCGTCTCTGTATTGGCAGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
*** * * * **
14654016 AGCAGATCGAAGATGTAGTTGATTTGGCTTTCACGTGT-TTACGTTGA-
1 AGCAGATCGAAGA--TAACAGATTTGGC-ATCTC-TGTATT-GGCAGAG
* * *
14654063 AGCAAATCGAAGATAACAGATTTGGTATCTCTGTATTGGCGGAG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
* * * *
14654107 AGCAGATCCAAGACAGCAGATTTGGCATCCCTGTATTGGCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
* *
14654151 AGTAGATCGAAGACAACAGATTTGGCATCTCTGTATTGGCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
* * * *
14654195 AGCAGATCGAAGACAGCAGATTTGGCATCTCTATATTGGTAGAG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
14654239 AGCAGA-CTGAAGATAACAGATT
1 AGCAGATC-GAAGATAACAGATT
14654261 GGTGTTCTTG
Statistics
Matches: 201, Mismatches: 36, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
43 7 0.03
44 153 0.76
45 9 0.04
46 10 0.05
47 17 0.08
48 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (44 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
Found at i:14654503 original size:8 final size:8
Alignment explanation
Indices: 14654477--14654515 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
14654467 CCCATACATT
*
14654477 AATAAATA
1 AATAAAAA
* *
14654485 AATGAATA
1 AATAAAAA
14654493 AATAAAAA
1 AATAAAAA
14654501 AATAAAAA
1 AATAAAAA
14654509 AATAAAA
1 AATAAAA
14654516 GTTTATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (8 bp):
AATAAAAA
Found at i:14655860 original size:7 final size:7
Alignment explanation
Indices: 14655843--14655942 Score: 53
Period size: 7 Copynumber: 13.6 Consensus size: 7
14655833 ACATCCATTA
14655843 TATTATAT
1 TATT-TAT
14655851 TATTTAT
1 TATTTAT
14655858 TATTTAT
1 TATTTAT
*
14655865 TATTTTT
1 TATTTAT
14655872 TATTT-T
1 TATTTAT
*
14655878 TAAATTA-
1 T-ATTTAT
*
14655885 CATGTTAT
1 TAT-TTAT
14655893 TATATT-T
1 TAT-TTAT
14655900 TATTATAT
1 TATT-TAT
*
14655908 ATATAATAT
1 -TAT-TTAT
14655917 TATTATAT
1 TATT-TAT
*
14655925 TTTTTAT
1 TATTTAT
*
14655932 TATGTAT
1 TATTTAT
14655939 TATT
1 TATT
14655943 ACAAAATTAT
Statistics
Matches: 71, Mismatches: 12, Indels: 19
0.70 0.12 0.19
Matches are distributed among these distances:
6 4 0.06
7 43 0.61
8 18 0.25
9 6 0.08
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (7 bp):
TATTTAT
Found at i:14656028 original size:24 final size:24
Alignment explanation
Indices: 14656001--14656067 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 24
14655991 TTTATATTTC
14656001 ATTATATTTTATTTTTTATTACAT
1 ATTATATTTTATTTTTTATTACAT
* * ** *
14656025 ATTACATATTACATTTTATTATAT
1 ATTATATTTTATTTTTTATTACAT
* *
14656049 ATT-T-TTATATTATTTATTA
1 ATTATATTTTATTTTTTATTA
14656068 TATGGTTTAT
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
22 10 0.31
24 22 0.69
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTATATTTTATTTTTTATTACAT
Found at i:14656076 original size:12 final size:11
Alignment explanation
Indices: 14656039--14656099 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
14656029 CATATTACAT
14656039 TTTATTATATA
1 TTTATTATATA
14656050 TTT-TTATATTA
1 TTTATTATA-TA
*
14656061 TTTATTATATGG
1 TTTATTATAT-A
14656073 TTTA-TAT-TA
1 TTTATTATATA
14656082 -TTA-TATATA
1 TTTATTATATA
*
14656091 TTTCTTATA
1 TTTATTATA
14656100 AGTTATATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
8 6 0.15
9 2 0.05
10 8 0.20
11 16 0.39
12 9 0.22
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (11 bp):
TTTATTATATA
Found at i:14656098 original size:21 final size:19
Alignment explanation
Indices: 14656043--14656099 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
14656033 TTACATTTTA
14656043 TTATATATTTTTATATTAT
1 TTATATATTTTTATATTAT
*
14656062 TTATTATATGGTTTATATTAT
1 TTA-TATAT-TTTTATATTAT
14656083 TATATATATTTCTTATA
1 T-TATATATTT-TTATA
14656100 AGTTATATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 3 0.09
20 6 0.19
21 21 0.66
22 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
TTATATATTTTTATATTAT
Found at i:14664103 original size:17 final size:17
Alignment explanation
Indices: 14664027--14664117 Score: 50
Period size: 17 Copynumber: 5.5 Consensus size: 17
14664017 TACTATAATT
14664027 ATATATGAAT-ATATAAA
1 ATATAT-AATAATATAAA
*
14664044 AT-TAATAATTAT-TAAA
1 ATAT-ATAATAATATAAA
* *
14664060 ATCTATAA-AAT-TTAA
1 ATATATAATAATATAAA
* *
14664075 ATTTAATGATAATATAAA
1 ATAT-ATAATAATATAAA
* *
14664093 ATATATAATAACATAAT
1 ATATATAATAATATAAA
14664110 ATAT-TAAT
1 ATATATAAT
14664118 TTAATAATAC
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
15 8 0.14
16 21 0.36
17 24 0.41
18 6 0.10
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATATAATAATATAAA
Found at i:14664424 original size:7 final size:7
Alignment explanation
Indices: 14664409--14664439 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
14664399 AATGAGCAAC
14664409 ATTTGAA
1 ATTTGAA
*
14664416 ATTTAAA
1 ATTTGAA
14664423 ATTTGAA
1 ATTTGAA
14664430 ATTTGAA
1 ATTTGAA
14664437 ATT
1 ATT
14664440 ATAAGTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (7 bp):
ATTTGAA
Found at i:14667952 original size:20 final size:20
Alignment explanation
Indices: 14667914--14667952 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14667904 TGGAGTAGGA
**
14667914 ATATCGATACCTTGGAAAAC
1 ATATCGATACCTTAAAAAAC
14667934 ATATCGATACCTTAAAAAA
1 ATATCGATACCTTAAAAAA
14667953 ATTATCAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (20 bp):
ATATCGATACCTTAAAAAAC
Found at i:14678381 original size:47 final size:47
Alignment explanation
Indices: 14678323--14678452 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 47
14678313 GTACGAATAA
* * **
14678323 TACCTTGATTTGGCTACGGGCCATGGTTTAGGTA-T-TTGGAAAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGAAA-G-GT
* *
14678370 TACCTTGATTTGGCTATAGGCCATGGTATAGGTACTCCGGGATAGGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGAAAGGT
* *
14678417 TACCTTGATTTGTCTATGGGCCATGGTATAAGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
14678453 TATTGATTGT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
47 66 0.92
48 2 0.03
49 4 0.06
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGAAAGGT
Found at i:14683570 original size:25 final size:25
Alignment explanation
Indices: 14683542--14683589 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
14683532 CATCAACGAG
*
14683542 TTAGTCACATAAGTGCATGTAATAT
1 TTAGTCACACAAGTGCATGTAATAT
14683567 TTAGTCACACAAGTGCATGTAAT
1 TTAGTCACACAAGTGCATGTAAT
14683590 CATCCATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (25 bp):
TTAGTCACACAAGTGCATGTAATAT
Found at i:14683897 original size:24 final size:24
Alignment explanation
Indices: 14683870--14683962 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 24
14683860 AGATATGATC
*
14683870 AGTAAGCTCTTCCTGAGCTG-AAAT
1 AGTAAGCTCTTAC-GAGCTGAAAAT
* *
14683894 AGTAAGCTCTGACGAGTTGAAAAT
1 AGTAAGCTCTTACGAGCTGAAAAT
* * *
14683918 AGTAAGCTCTTGCGAACTGATATAT
1 AGTAAGCTCTTACGAGCTGA-AAAT
* *
14683943 CGGTAAGCTCATACGAGCTG
1 -AGTAAGCTCTTACGAGCTG
14683963 TGGTGAGTCT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
23 5 0.09
24 31 0.57
25 3 0.06
26 15 0.28
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (24 bp):
AGTAAGCTCTTACGAGCTGAAAAT
Found at i:14692932 original size:4 final size:4
Alignment explanation
Indices: 14692923--14692947 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14692913 TTACTACTAA
14692923 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
14692948 TTTTTTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:14694123 original size:25 final size:27
Alignment explanation
Indices: 14694064--14694124 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 27
14694054 TTTAATAAAA
* *
14694064 ATTTTAA-AATGTAAAAATGAAATAGT
1 ATTTTAAGAAAGTAAAAATGAAAAAGT
**
14694090 ATTAAAAGAAAGT-AAAAT-AAAAAGT
1 ATTTTAAGAAAGTAAAAATGAAAAAGT
14694115 ATTTTAAGAA
1 ATTTTAAGAA
14694125 GATAAATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 14 0.50
26 10 0.36
27 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (27 bp):
ATTTTAAGAAAGTAAAAATGAAAAAGT
Found at i:14705893 original size:32 final size:32
Alignment explanation
Indices: 14705857--14705921 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
14705847 AATCACAAAC
*
14705857 TCTTTCTCCAATTCAGGTTAAGCCAGAACTGG
1 TCTTTCCCCAATTCAGGTTAAGCCAGAACTGG
14705889 TCTTTCCCCAATTCAGGTTAAGCCAGAACTGG
1 TCTTTCCCCAATTCAGGTTAAGCCAGAACTGG
14705921 T
1 T
14705922 GCTTCAGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (32 bp):
TCTTTCCCCAATTCAGGTTAAGCCAGAACTGG
Found at i:14708612 original size:26 final size:26
Alignment explanation
Indices: 14708583--14708641 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
14708573 GTGTACATTT
* *
14708583 TCTCAATTCAAGCATTCATCATTCAA
1 TCTCAATTCAAGCATTAAGCATTCAA
14708609 TCTCAATTCAAGCATTAAGCATTCAA
1 TCTCAATTCAAGCATTAAGCATTCAA
*
14708635 TGTCAAT
1 TCTCAAT
14708642 CAATTTGTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TCTCAATTCAAGCATTAAGCATTCAA
Found at i:14710238 original size:24 final size:23
Alignment explanation
Indices: 14710163--14710253 Score: 137
Period size: 23 Copynumber: 3.9 Consensus size: 23
14710153 AGTTGATGGG
*
14710163 CAGTAAGCTCTAATGAGCTGAAA
1 CAGTAAGCTCTGATGAGCTGAAA
*
14710186 CAGTAAGCTTTGATGAGCTGAAA
1 CAGTAAGCTCTGATGAGCTGAAA
14710209 CAGTAAGCTCTGATGAGCTGAAAA
1 CAGTAAGCTCTGATGAGCTG-AAA
* *
14710233 CAGTAAGCTCTTACGAGCTGA
1 CAGTAAGCTCTGATGAGCTGA
14710254 TATATTGGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 41 0.66
24 21 0.34
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (23 bp):
CAGTAAGCTCTGATGAGCTGAAA
Found at i:14712422 original size:50 final size:50
Alignment explanation
Indices: 14712353--14712451 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
14712343 TGTCTTTCGA
14712353 TCAAGCTCAAGATGAGTCTGAGGGAGCCAAGAGCCATGCTCCAGCTTTCC
1 TCAAGCTCAAGATGAGTCTGAGGGAGCCAAGAGCCATGCTCCAGCTTTCC
14712403 TCAAGCTCAAGATGAGTCTGAGGGAGCCAAGAGCCATGCTCCAGCTTTC
1 TCAAGCTCAAGATGAGTCTGAGGGAGCCAAGAGCCATGCTCCAGCTTTC
14712452 ATACAGCGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (50 bp):
TCAAGCTCAAGATGAGTCTGAGGGAGCCAAGAGCCATGCTCCAGCTTTCC
Found at i:14718412 original size:13 final size:13
Alignment explanation
Indices: 14718394--14718418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14718384 GATGTTTTTT
14718394 CGGAAGAGCTTCC
1 CGGAAGAGCTTCC
14718407 CGGAAGAGCTTC
1 CGGAAGAGCTTC
14718419 TTGGATTACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.16
Consensus pattern (13 bp):
CGGAAGAGCTTCC
Found at i:14724662 original size:11 final size:12
Alignment explanation
Indices: 14724648--14724682 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
14724638 AGAAAAAAAA
14724648 AAGAGAG-AGGG
1 AAGAGAGAAGGG
14724659 AAGAGAGAAGGG
1 AAGAGAGAAGGG
14724671 -AGAGAGAAGGG
1 AAGAGAGAAGGG
14724682 A
1 A
14724683 GGGGAATCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:14726051 original size:132 final size:132
Alignment explanation
Indices: 14725833--14726567 Score: 1199
Period size: 132 Copynumber: 5.6 Consensus size: 132
14725823 GATCTGTAAT
*
14725833 CTTCGATCTACTTCACGCCAAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACC
1 CTTCGATCTACTTCACGCC-AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACC
*
14725898 AGTATGGGAAGACAAGATCTGCATCGTCAATCCACTTCCTACCAATATAGGAAGACCA-GATCTG
65 AATATGGGAAGACAAGATCTGCATCGTCAATCCACTTCCTACCAATATAGGAAGA-CAGGATCTG
14725962 CTAC
129 CTAC
* * *
14725966 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
* * *
14726031 ATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
66 ATATGGGAAGACAAGATCTGCATCGTCAATCCACTTCCTACCAATATAGGAAGACAGGATCTGCT
14726096 AC
131 AC
14726098 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
* *
14726163 ATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
66 ATATGGGAAGACAAGATCTGCATCGTCAATCCACTTCCTACCAATATAGGAAGACAGGATCTGCT
14726228 AC
131 AC
*
14726230 CTTCGATCTATTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
14726295 ATATGGGAAGACAAGATCTGCATCGTCAATCCACTTCCTACCAATATAGGAAGACCA-GATCTGC
66 ATATGGGAAGACAAGATCTGCATCGTCAATCCACTTCCTACCAATATAGGAAGA-CAGGATCTGC
14726359 TAC
130 TAC
*
14726362 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
*
14726427 ATATGGGAAGACAAGATCTGCATCGTCAATCCACTTCCTACCAATATAGGAAGACAGGACCTGCT
66 ATATGGGAAGACAAGATCTGCATCGTCAATCCACTTCCTACCAATATAGGAAGACAGGATCTGCT
*
14726492 AT
131 AC
* *** * * * * *
14726494 CTTCGATCTACTTCACGTCAATATGGGAAGACAAGATTTG-TATCTTTGATCCACTTC-CTACCA
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
*
14726557 ATATAGGAAGA
66 ATATGGGAAGA
14726568 TAGGACCTAT
Statistics
Matches: 569, Mismatches: 30, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
130 15 0.03
131 17 0.03
132 518 0.91
133 19 0.03
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (132 bp):
CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
ATATGGGAAGACAAGATCTGCATCGTCAATCCACTTCCTACCAATATAGGAAGACAGGATCTGCT
AC
Found at i:14727388 original size:1 final size:1
Alignment explanation
Indices: 14727384--14727420 Score: 65
Period size: 1 Copynumber: 37.0 Consensus size: 1
14727374 CCTCTCCCCC
*
14727384 TTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14727421 AGGCAAAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:14727963 original size:14 final size:15
Alignment explanation
Indices: 14727931--14727964 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
14727921 GTCTCAGTCA
14727931 TTTTCCCTACAATCT
1 TTTTCCCTACAATCT
14727946 TTTTCCCTACAATCT
1 TTTTCCCTACAATCT
14727961 TTTT
1 TTTT
14727965 GATGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTCCCTACAATCT
Found at i:14747232 original size:13 final size:13
Alignment explanation
Indices: 14747214--14747238 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14747204 TGTTGGTTCA
14747214 CACGGCCGTGTCG
1 CACGGCCGTGTCG
14747227 CACGGCCGTGTC
1 CACGGCCGTGTC
14747239 CTACTTCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:14760784 original size:26 final size:26
Alignment explanation
Indices: 14760755--14760813 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
14760745 GTCTACATTT
* *
14760755 TCTCAATTCAAGCATTCATCATTCAA
1 TCTCAATTCAAGCATTAAGCATTCAA
14760781 TCTCAATTCAAGCATTAAGCATTCAA
1 TCTCAATTCAAGCATTAAGCATTCAA
*
14760807 TGTCAAT
1 TCTCAAT
14760814 CAATTTGTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TCTCAATTCAAGCATTAAGCATTCAA
Found at i:14768211 original size:20 final size:21
Alignment explanation
Indices: 14768162--14768211 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
14768152 CCCATCCCCT
*
14768162 TGCAATATGTCATGCATCGTA
1 TGCAATATATCATGCATCGTA
*
14768183 T-C-ATAATATCATTCAT-GTA
1 TGCAAT-ATATCATGCATCGTA
14768202 TGCAATATAT
1 TGCAATATAT
14768212 ATGAAATGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
19 6 0.25
20 15 0.62
21 3 0.12
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (21 bp):
TGCAATATATCATGCATCGTA
Found at i:14781375 original size:15 final size:15
Alignment explanation
Indices: 14781351--14781387 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
14781341 GATCCATTAC
*
14781351 TATACGAAAACATAG
1 TATACAAAAACATAG
14781366 TATACAAAAACATAG
1 TATACAAAAACATAG
*
14781381 TTTACAA
1 TATACAA
14781388 TGTCAGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (15 bp):
TATACAAAAACATAG
Found at i:14783171 original size:23 final size:22
Alignment explanation
Indices: 14783141--14783206 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
14783131 GCTGATGGGC
14783141 AGTAAGCTTTAATGAGCT-AAACT
1 AGTAAGCTTT-ATGAGCTGAAA-T
* *
14783164 AGTAAGCTTTGACGACCTGAAAT
1 AGTAAGCTTT-ATGAGCTGAAAT
14783187 AGTAAGCTCTTATGAGCTGA
1 AGTAAGCT-TTATGAGCTGA
14783207 TATATCGGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 31 0.86
24 5 0.14
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (22 bp):
AGTAAGCTTTATGAGCTGAAAT
Found at i:14786331 original size:27 final size:27
Alignment explanation
Indices: 14786273--14786380 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
14786263 TGGCTGCCAA
* ** *
14786273 AACAGATAA-TGTGACAGAGTAACTAG
1 AACAGATAATTGTGGCAGAGCCACCAG
*
14786299 ATACAGATAATCGTGGCAGAGCCACCAG
1 A-ACAGATAATTGTGGCAGAGCCACCAG
14786327 AACAGA-AATATGTGGCAGAGCCACCAG
1 AACAGATAAT-TGTGGCAGAGCCACCAG
* *
14786354 ATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
14786381 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
26 4 0.06
27 50 0.71
28 16 0.23
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (27 bp):
AACAGATAATTGTGGCAGAGCCACCAG
Found at i:14787824 original size:24 final size:24
Alignment explanation
Indices: 14787797--14787867 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
14787787 CTAGATTTCC
** *
14787797 TCCCTTATCTGCTCCTAAGTCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
14787821 TCCCTTATCAACTCCAAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
14787845 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
14787868 CTCCTGACAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.25, C:0.38, G:0.03, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:14794158 original size:27 final size:26
Alignment explanation
Indices: 14794123--14794235 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 26
14794113 AGCATGGCTG
*
14794123 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
14794149 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
*
14794177 CCAGAACAGAAATATGTGGA-AGAGCCA
1 CCAGAACAGATA-ATGT-GACAGAGCCA
* * *
14794204 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
14794231 CCAGA
1 CCAGA
14794236 CGCTTCCTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.10
27 48 0.66
28 18 0.25
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:14794214 original size:54 final size:54
Alignment explanation
Indices: 14794123--14794235 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
14794113 AGCATGGCTG
* *
14794123 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* *
14794177 CCAGAACAGAAATATGTGGA-AGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGT-GACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
14794231 CCAGA
1 CCAGA
14794236 CGCTTCCTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 35 0.66
55 16 0.30
56 2 0.04
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:14795678 original size:24 final size:24
Alignment explanation
Indices: 14795651--14795721 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
14795641 CTAGATTTCC
**
14795651 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
14795675 TCCCTTATCAACTCCTAAGTCCTA
1 TCCCTTATCAACTCCTAAATCCTA
14795699 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
14795722 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.24, C:0.38, G:0.03, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:14796189 original size:14 final size:15
Alignment explanation
Indices: 14796162--14796194 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
14796152 TATGACCCAT
14796162 TCATTCCTTCATTAA
1 TCATTCCTTCATTAA
*
14796177 TCATTCC-TCATTAC
1 TCATTCCTTCATTAA
14796191 TCAT
1 TCAT
14796195 CATTCCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (15 bp):
TCATTCCTTCATTAA
Found at i:14798268 original size:13 final size:13
Alignment explanation
Indices: 14798252--14798283 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
14798242 CGCACACGGT
14798252 CGTGTCACACAGG
1 CGTGTCACACAGG
*
14798265 CGTGTCACACGGG
1 CGTGTCACACAGG
14798278 CGTGTC
1 CGTGTC
14798284 CCTTTCGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.31, G:0.34, T:0.19
Consensus pattern (13 bp):
CGTGTCACACAGG
Found at i:14805166 original size:22 final size:21
Alignment explanation
Indices: 14805141--14805181 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
14805131 TTTTAACGTG
14805141 TTAAATTTTAATTACTTTTATA
1 TTAAATTTTAATTA-TTTTATA
*
14805163 TTAAATTTTGATTATTTTA
1 TTAAATTTTAATTATTTTA
14805182 ATCATTTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTAAATTTTAATTATTTTATA
Found at i:14813678 original size:21 final size:20
Alignment explanation
Indices: 14813649--14813687 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
14813639 CTCTTGAAAC
*
14813649 GGGCACATGCCCGTGTGGAA
1 GGGCACATGCCCATGTGGAA
14813669 GGGCAACATGCCCATGTGG
1 GGGC-ACATGCCCATGTGG
14813688 TCATCATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (20 bp):
GGGCACATGCCCATGTGGAA
Found at i:14815472 original size:30 final size:30
Alignment explanation
Indices: 14815436--14815492 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
14815426 TATAATTGGG
*
14815436 CAAAATGACCATTTTGCCCCTAGGCTTTCA
1 CAAAATGACCATTTTACCCCTAGGCTTTCA
*
14815466 CAAAATGACCATTTTACTCCTAGGCTT
1 CAAAATGACCATTTTACCCCTAGGCTT
14815493 GAAATTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (30 bp):
CAAAATGACCATTTTACCCCTAGGCTTTCA
Found at i:14817878 original size:46 final size:49
Alignment explanation
Indices: 14817578--14817901 Score: 217
Period size: 47 Copynumber: 6.8 Consensus size: 49
14817568 ATAAGGTATG
* * *
14817578 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAT-T-A
1 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TACATCTCA
* * * * ** *
14817626 A-G-TCAATGCCATGTCCAAGACATGGTCTTACA-TTGAT-TATCGAAATCG
1 ATGCT-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTA-C-ATCTCA
* * * * * *
14817674 AGGCCGACGCCATGTCCCAGACATGGTCCTACACTAGCTCTCACATATCC
1 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATCTCA
* * * * * *
14817724 ATGGTGATGCCATGTCCCAGCCATGGTCTTACACTAACACTTC-TAT-A
1 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCA
* * * * * * *
14817771 CATGCCGATGCCATATCCTAGACAT-GTCTTATACTGGCT-TACATCGCG
1 -ATGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCA
*
14817819 AGGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-C-TCTCA
1 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCA
*
14817864 ATGCTAATGCCATGTCCCAGACATGGTCTTACACTAGC
1 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTAGC
14817902 ATACAAATAA
Statistics
Matches: 210, Mismatches: 50, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
44 1 0.00
45 11 0.05
46 45 0.21
47 60 0.29
48 24 0.11
49 26 0.12
50 40 0.19
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
ATGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCA
Found at i:14820778 original size:46 final size:46
Alignment explanation
Indices: 14820728--14820856 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
14820718 TGGTTGAGCA
*
14820728 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
14820774 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
14820820 CCCGAGCTCGTTGAATTAAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14820857 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:14823811 original size:15 final size:15
Alignment explanation
Indices: 14823791--14823846 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
14823781 GTATCTTGGG
14823791 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
14823806 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
14823821 GTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
14823836 TTTCTTTATTC
1 TTTCTTTATTC
14823847 AGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:14833338 original size:19 final size:19
Alignment explanation
Indices: 14833314--14833357 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
14833304 NNNNNNNNNN
14833314 TATCATATCTAAGATTGCA
1 TATCATATCTAAGATTGCA
14833333 TATCATATCTAAGATTGCA
1 TATCATATCTAAGATTGCA
14833352 TATCAT
1 TATCAT
14833358 TGAAGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
TATCATATCTAAGATTGCA
Found at i:14833365 original size:17 final size:19
Alignment explanation
Indices: 14833314--14833365 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
14833304 NNNNNNNNNN
*
14833314 TATCATATCTAAGATTGCA
1 TATCATATCGAAGATTGCA
*
14833333 TATCATATCTAAGATTGCA
1 TATCATATCGAAGATTGCA
14833352 TATCAT-T-GAAGATT
1 TATCATATCGAAGATT
14833366 ATATTTCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 6 0.19
18 1 0.03
19 25 0.78
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (19 bp):
TATCATATCGAAGATTGCA
Found at i:14833934 original size:87 final size:86
Alignment explanation
Indices: 14833788--14834093 Score: 234
Period size: 87 Copynumber: 3.5 Consensus size: 86
14833778 ACAATACAGA
* *
14833788 GATGCCAAATCATCTTAGATCTGCTTCAGCGT-AAACA-CGTGAAAGCCAAATCTGCTATGTCTT
1 GATGCCAAATCATCTTGGATCTGCTTCA--GTAAAACATC-TGAAAGTCAAATCTGCTATGTCTT
*
14833851 TGATTTGCTCCTTGGGAACACAAG
63 TGATTTGCTCCTTGCGAACACAAG
* * * * *
14833875 GATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTG
1 GATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTGAAAGTCAAATCTGCTATGTCTTTG
* **
14833940 --TT-CTCCGT-CGAA-A-TGG
65 ATTTGCTCCTTGCGAACACAAG
* * ** *
14833956 AGATGCTAAATCTGTTATCTTGGATCTACTTTGGTGTAAGAACTTCTGAAAGTCAAATCTGCTAT
1 -GATGCCAAATC----ATCTTGGATCTGC-TT-CAGTAA-AACATCTGAAAGTCAAATCTGCTAT
* * **
14834021 GTCTTCGATTTGTTCCTTGTAAACACAAG
58 GTCTTTGATTTGCTCCTTGCGAACACAAG
* *
14834050 AATGCCAAATCATCTTGGATCTGCTTTAGTATAAACATCT-AAAG
1 GATGCCAAATCATCTTGGATCTGCTTCAGTA-AAACATCTGAAAG
14834094 GTTAGACCTG
Statistics
Matches: 167, Mismatches: 34, Indels: 37
0.70 0.14 0.16
Matches are distributed among these distances:
81 1 0.01
82 11 0.07
83 3 0.02
84 5 0.03
85 4 0.02
86 19 0.11
87 60 0.36
88 31 0.19
89 14 0.08
90 2 0.01
91 4 0.02
92 2 0.01
93 10 0.06
94 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (86 bp):
GATGCCAAATCATCTTGGATCTGCTTCAGTAAAACATCTGAAAGTCAAATCTGCTATGTCTTTGA
TTTGCTCCTTGCGAACACAAG
Found at i:14834125 original size:175 final size:175
Alignment explanation
Indices: 14833827--14834234 Score: 604
Period size: 175 Copynumber: 2.3 Consensus size: 175
14833817 CGTAAACACG
* * * **
14833827 TGAAAGCCAAATCTGCTATGTCTTTGATTTGCTCCTTGGGAACACAAGGATGCCAAATCATCTTG
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTG
* * * **
14833892 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGTTCTCCGTCGAAATGGA
66 GATCTGCTTCAGTAAAATCATCTAAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGA
* *
14833957 GATGCTAAATCTGTTATCTTGGATCTACTTTGGTGTAAGAACTTC
131 GATGCCAAATCTGTTATCTTGGATCTACTTTGGTGTAAGAACATC
*
14834002 TGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTG
*
14834067 GATCTGCTTTAGTATAAA-CATCTAAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGG
66 GATCTGCTTCAGTA-AAATCATCTAAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGG
* * *
14834131 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATC
130 AGATGCCAAATCTGTTATCTTGGATCTACTTTGGTGTAAGAACATC
* * * *
14834177 TGAAAATCAGATCTGCTATGTCTTCGATTTGTTCCCTGTAAAC-CAGGGATGCCAAATC
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATC
14834235 TGCTATCTTC
Statistics
Matches: 210, Mismatches: 22, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
174 13 0.06
175 194 0.92
176 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (175 bp):
TGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTG
GATCTGCTTCAGTAAAATCATCTAAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGA
GATGCCAAATCTGTTATCTTGGATCTACTTTGGTGTAAGAACATC
Found at i:14834197 original size:88 final size:87
Alignment explanation
Indices: 14833910--14834197 Score: 241
Period size: 88 Copynumber: 3.3 Consensus size: 87
14833900 TCAGTAAAAT
* * * * *
14833910 CATCTGAAGGTTAGATCTGCTATGTATCTGTTCTCCGTCGAAATGGAGATGCTAAATCTGTTATC
1 CATCTGAAAGTCAGATCTGCTATGTACCTATTCTCCGTCGAAATGGAGATGCCAAATCTGTTATC
*
14833975 TTGGATCTACTTTGGTGTAAGAA
66 TTGGATCTGCTTTGGTGT-AGAA
* * * * * ***
14833998 CTTCTGAAAGTCAAATCTGCTATGT-CTTCGATTTGTTCC-TTGTAAACACAAGAATGCCAAATC
1 CATCTGAAAGTCAGATCTGCTATGTAC--CTA-TT-CTCCGTCG-AAA-TGGAG-ATGCCAAATC
* *
14834061 ----ATCTTGGATCTGCTTTAGTATA-AA
59 TGTTATCTTGGATCTGCTTTGGTGTAGAA
* * * *
14834085 CATCT-AAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAGATGCCAGATCTGTTAT
1 CATCTGAAA-GTCAGATCTGCTATGTACCTATTCTCCGTCGAAATGGAGATGCCAAATCTGTTAT
14834149 CTTGGATCTGCTTTGGTGTGAGAA
65 CTTGGATCTGCTTTGGTGT-AGAA
*
14834173 CATCTGAAAATCAGATCTGCTATGT
1 CATCTGAAAGTCAGATCTGCTATGT
14834198 CTTCGATTTG
Statistics
Matches: 150, Mismatches: 33, Indels: 34
0.69 0.15 0.16
Matches are distributed among these distances:
82 9 0.06
83 2 0.01
84 6 0.04
85 3 0.02
86 24 0.16
87 20 0.13
88 43 0.29
89 22 0.15
90 4 0.03
91 6 0.04
92 2 0.01
93 9 0.06
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (87 bp):
CATCTGAAAGTCAGATCTGCTATGTACCTATTCTCCGTCGAAATGGAGATGCCAAATCTGTTATC
TTGGATCTGCTTTGGTGTAGAA
Found at i:14834367 original size:132 final size:132
Alignment explanation
Indices: 14834185--14834500 Score: 503
Period size: 132 Copynumber: 2.4 Consensus size: 132
14834175 TCTGAAAATC
* * *
14834185 AGATCTGCTATGTCTTCGATTTGTTCCCTGTAAAC-CAGGGATGCCAAATCTGCTATCTTCAACT
1 AGATCTGCTA--TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * * *
14834249 TGTTCCCTATAAACACAGGGATGCCATGTTAAAATCTTTGATCTGTTTTGCTGTAAGCACAGGA-
64 TGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAG
14834313 ATGTCT
129 AT-T-T
14834319 -GATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTG
1 AGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTG
14834383 TTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGAT
66 TTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGAT
14834448 TT
131 TT
14834450 AGATCTGCTATCTTCGATCTGTTTCCCTATAAACACAGGGATGCCAAATCT
1 AGATCTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAAATCT
14834501 TGTTTCTTTG
Statistics
Matches: 171, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
131 22 0.13
132 109 0.64
133 40 0.23
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (132 bp):
AGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTG
TTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGAT
TT
Found at i:14834374 original size:44 final size:44
Alignment explanation
Indices: 14834197--14834500 Score: 244
Period size: 44 Copynumber: 6.9 Consensus size: 44
14834187 ATCTGCTATG
* * *
14834197 TCTTCGATTTGTTCCCTGTAAAC-CAGGGATGCCAAATCTGCTA
1 TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTA
* ** **
14834240 TCTTC-AACTTGTTCCCTATAAACACAGGGATGCCATGT-TAAAA
1 TCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAAATCTACTA
* ** * * * * ** *
14834283 TCTTTGATCTGTTTTGCTGTAAGCACAGGAATGTCTGATCTGCTA
1 TCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAAATCTACTA
14834328 TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTA
1 TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTA
* **
14834372 TCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--ATGCTAAAA
1 TCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAAAT-CTACTA
* * * ** * *
14834415 TCTTCGATCTGCTTCGCTGTAAGCACAGGAGAT-TTAGATCTGCTA
1 TCTTCGATCTG-TTCCCTATAAACACAGG-GATGCCAAATCTACTA
14834460 TCTTCGATCTGTTTCCCTATAAACACAGGGATGCCAAATCT
1 TCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAAATCT
14834501 TGTTTCTTTG
Statistics
Matches: 197, Mismatches: 51, Indels: 24
0.72 0.19 0.09
Matches are distributed among these distances:
42 3 0.02
43 39 0.20
44 105 0.53
45 48 0.24
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (44 bp):
TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTA
Found at i:14834442 original size:88 final size:88
Alignment explanation
Indices: 14834327--14834495 Score: 218
Period size: 89 Copynumber: 1.9 Consensus size: 88
14834317 CTGATCTGCT
14834327 ATCTTCGATCTGTTCCCTATAAACACAGG-GATGCCAAATCTACTATCTTCAA-CT-TGTTCCCT
1 ATCTTCGATCTGTTCCCTATAAACACAGGAGAT-CCAAATCTACTATCTTCAATCTGT-TTCCCT
14834389 ATAAACACAGGGATGCCATGCTAAA
64 ATAAACACAGGGATGCCATGCTAAA
* * * ** * * *
14834414 ATCTTCGATCTGCTTCGCTGTAAGCACAGGAGATTTAGATCTGCTATCTTCGATCTGTTTCCCTA
1 ATCTTCGATCTG-TTCCCTATAAACACAGGAGATCCAAATCTACTATCTTCAATCTGTTTCCCTA
14834479 TAAACACAGGGATGCCA
65 TAAACACAGGGATGCCA
14834496 AATCTTGTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
87 12 0.17
88 28 0.40
89 29 0.41
90 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (88 bp):
ATCTTCGATCTGTTCCCTATAAACACAGGAGATCCAAATCTACTATCTTCAATCTGTTTCCCTAT
AAACACAGGGATGCCATGCTAAA
Found at i:14835409 original size:19 final size:18
Alignment explanation
Indices: 14835385--14835442 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 18
14835375 TTGGCCTCTC
14835385 CATTTTTGTTTTCTTTTTT
1 CATTTTT-TTTTCTTTTTT
14835404 CATTTTTTTTCTCTTTTTT
1 CATTTTTTTT-TCTTTTTT
*
14835423 CTTTTCTTTTTTCCTTTTTT
1 CATTT-TTTTTT-CTTTTTT
14835443 TTTTGAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 3 0.09
19 20 0.57
20 12 0.34
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (18 bp):
CATTTTTTTTTCTTTTTT
Found at i:14835413 original size:12 final size:11
Alignment explanation
Indices: 14835387--14835434 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
14835377 GGCCTCTCCA
*
14835387 TTTTTGTTTTCT
1 TTTTTCTTTT-T
14835399 TTTTTCATTTTT
1 TTTTTC-TTTTT
*
14835411 TTTCTCTTTTT
1 TTTTTCTTTTT
14835422 TCTTTTCTTTTT
1 T-TTTTCTTTTT
14835434 T
1 T
14835435 CCTTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 6 0.19
12 21 0.68
13 4 0.13
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:14835435 original size:12 final size:12
Alignment explanation
Indices: 14835400--14835446 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
14835390 TTGTTTTCTT
14835400 TTTTCATTTTTT-
1 TTTTC-TTTTTTC
*
14835412 TTCTCTTTTTTC
1 TTTTCTTTTTTC
14835424 TTTTCTTTTTTCC
1 TTTTCTTTTTT-C
14835437 TTTT-TTTTTT
1 TTTTCTTTTTT
14835447 GAAATAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 6 0.19
12 20 0.65
13 5 0.16
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:14838059 original size:39 final size:40
Alignment explanation
Indices: 14838016--14838104 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
14838006 GCAGGTCTCT
* *
14838016 AGCCCGGATAGCATTCTAGCACGA-AG-CTATGAGTCTTTA
1 AGCCCGGATAACATTCCAGCA-GATAGCCTATGAGTCTTTA
* * *
14838055 AGCCCGGATAACATTCCAGCATATAGCCTGTGGGTCTTTA
1 AGCCCGGATAACATTCCAGCAGATAGCCTATGAGTCTTTA
14838095 AGCCCGGATA
1 AGCCCGGATA
14838105 CAATTCCTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.02
39 21 0.49
40 21 0.49
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (40 bp):
AGCCCGGATAACATTCCAGCAGATAGCCTATGAGTCTTTA
Found at i:14845714 original size:40 final size:40
Alignment explanation
Indices: 14845643--14845788 Score: 188
Period size: 40 Copynumber: 3.7 Consensus size: 40
14845633 TACCAGCTCG
* * *
14845643 TAGCCTGCGGGTCTCT-AGCCCGGATAGCATTCTAGCACA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCATA
* * * *
14845682 AAGCCTGCAGGTCTTTAAGCCCAGATAACATTCCAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCATA
*
14845722 TAGCCTGCGTGTCTTTAAGCCCGGATAACATT-TCAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCT-AGCATA
*
14845762 TAGCCTACGGGTCTTTAAGCCCGGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
14845789 CAATTCCTCA
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 13 0.14
40 78 0.86
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCATA
Found at i:14851690 original size:22 final size:21
Alignment explanation
Indices: 14851660--14851706 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
14851650 TACAAATTAA
14851660 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
14851682 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
14851703 ATCT
1 ATCT
14851707 ACGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:14851714 original size:19 final size:19
Alignment explanation
Indices: 14851677--14851774 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
14851667 AGATTACAAG
14851677 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
14851698 ATCATATCTACGATTGCAT
1 ATCATATCTAAGATTGCAT
14851717 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
14851734 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
14851753 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
14851772 ATC
1 ATC
14851775 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 47 0.64
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:14851741 original size:36 final size:37
Alignment explanation
Indices: 14851677--14851774 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
14851667 AGATTACAAG
*
14851677 ATCATATCTTCAAGATTGCATATCATATCTACGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
14851717 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
14851753 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
14851775 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:14854672 original size:26 final size:26
Alignment explanation
Indices: 14854638--14854750 Score: 127
Period size: 26 Copynumber: 4.3 Consensus size: 26
14854628 ACTGGGGCAC
**
14854638 AGCCCTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
*
14854664 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
* *** * *
14854690 AGCCTTTTTTGGTATACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
*
14854716 AGCCCTTTTCAATAAACTAAGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
*
14854742 AGCCTTTTT
1 AGCCCTTTT
14854751 TCACTTCCTC
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTAGGGCATA
Found at i:14854724 original size:52 final size:52
Alignment explanation
Indices: 14854619--14854751 Score: 182
Period size: 52 Copynumber: 2.6 Consensus size: 52
14854609 GGCCTATCCT
* * *
14854619 CTTTT-AAT-AACTGGGGCA-CAGCCCTTTTCGGTAAACTAGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCCTTTTTTGGTAAACTAGGGCATAAGCC
* *
14854668 CTTTTCAATAAACTGGGGCATAAGCCTTTTTTGGTATACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCCTTTTTTGGTAAACTAGGGCATAAGCC
**
14854720 CTTTTCAATAAACTAAGGCATAAGCCTTTTTT
1 CTTTTCAATAAACTGGGGCATAAGCCTTTTTT
14854752 CACTTCCTCC
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
49 5 0.07
50 3 0.04
51 10 0.14
52 56 0.76
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (52 bp):
CTTTTCAATAAACTGGGGCATAAGCCTTTTTTGGTAAACTAGGGCATAAGCC
Found at i:14854824 original size:20 final size:20
Alignment explanation
Indices: 14854799--14854874 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
14854789 TTTATGAATT
*
14854799 TATCATGTGCATTTCATACA
1 TATCATGTGCATATCATACA
*
14854819 TATCATGTGCATGTCATACA
1 TATCATGTGCATATCATACA
14854839 TATCATGTGCATATCATATCA
1 TATCATGTGCATATCATA-CA
14854860 T-TCATGT--ATATCATA
1 TATCATGTGCATATCATA
14854875 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.15
20 42 0.79
21 3 0.06
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:14854851 original size:11 final size:11
Alignment explanation
Indices: 14854799--14854855 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
14854789 TTTATGAATT
14854799 TATCATGTGCA
1 TATCATGTGCA
* *
14854810 TTTCA--TACA
1 TATCATGTGCA
14854819 TATCATGTGCA
1 TATCATGTGCA
* *
14854830 TGTCA--TACA
1 TATCATGTGCA
14854839 TATCATGTGCA
1 TATCATGTGCA
14854850 TATCAT
1 TATCAT
14854856 ATCATTCATG
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
9 14 0.41
11 20 0.59
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:14859346 original size:7 final size:7
Alignment explanation
Indices: 14859334--14859381 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
14859324 TCAAGTAGTT
*
14859334 CATTGAA
1 CATTTAA
*
14859341 CATTGAA
1 CATTTAA
14859348 CATTTAA
1 CATTTAA
14859355 CATTTAA
1 CATTTAA
14859362 CATTTAA
1 CATTTAA
14859369 CATTTAA
1 CATTTAA
14859376 CATTTA
1 CATTTA
14859382 CTACAACCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (7 bp):
CATTTAA
Found at i:14860745 original size:57 final size:57
Alignment explanation
Indices: 14860657--14860770 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
14860647 TCTTTAACAG
* *
14860657 TTTCAAAAACGGAGATACGGGTTAGCTAGACCTAATTGTAGCGATCTCAAAAATATA
1 TTTCAAAAACAGAGATACGGGTTAGCTAGACCTAATTGTAACGATCTCAAAAATATA
14860714 TTTCAAAAACAGAGATACGGGTTAGCTAGACCTAATTGTAACGATCTCAAAAATATA
1 TTTCAAAAACAGAGATACGGGTTAGCTAGACCTAATTGTAACGATCTCAAAAATATA
14860771 AAAATTACAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (57 bp):
TTTCAAAAACAGAGATACGGGTTAGCTAGACCTAATTGTAACGATCTCAAAAATATA
Found at i:14863768 original size:19 final size:15
Alignment explanation
Indices: 14863727--14863756 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14863717 AAAAAACAAG
14863727 TGACACATTCAATCA
1 TGACACATTCAATCA
14863742 TGACACATTCAATCA
1 TGACACATTCAATCA
14863757 ATACGAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (15 bp):
TGACACATTCAATCA
Found at i:14864516 original size:17 final size:17
Alignment explanation
Indices: 14864496--14864529 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14864486 TAAAATTTGT
14864496 TATTTTATAAATTTTTA
1 TATTTTATAAATTTTTA
* *
14864513 TATTTTTTTAATTTTTA
1 TATTTTATAAATTTTTA
14864530 ATATACATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTATAAATTTTTA
Found at i:14865844 original size:18 final size:17
Alignment explanation
Indices: 14865807--14865856 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
14865797 AAACGTTATT
*
14865807 AAAATTATAAAAATATTAA
1 AAAATTATTAAAA-ATT-A
14865826 ATAAATT-TTAAAAATTA
1 A-AAATTATTAAAAATTA
14865843 AAAATTATTAAAAA
1 AAAATTATTAAAAA
14865857 CCATTTAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 5 0.18
17 9 0.32
18 3 0.11
19 6 0.21
20 5 0.18
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATTAAAAATTA
Found at i:14867559 original size:18 final size:18
Alignment explanation
Indices: 14867533--14867571 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14867523 AGTGACAATA
*
14867533 AAGAAGCAGATGAGGAAG
1 AAGAAGCAGAGGAGGAAG
* *
14867551 AAGATGCAGAGGATGAAG
1 AAGAAGCAGAGGAGGAAG
14867569 AAG
1 AAG
14867572 GGGCAAGGGA
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:0.49, C:0.05, G:0.38, T:0.08
Consensus pattern (18 bp):
AAGAAGCAGAGGAGGAAG
Found at i:14871414 original size:18 final size:18
Alignment explanation
Indices: 14871393--14871438 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
14871383 AGGTGACAAT
*
14871393 GAAGGTGTAGGTGAGGAA
1 GAAGGTGTAGATGAGGAA
*
14871411 GAAGGTGCAGATGAGGAA
1 GAAGGTGTAGATGAGGAA
*
14871429 GAAGGCGTAG
1 GAAGGTGTAG
14871439 TGGAGGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.48, T:0.13
Consensus pattern (18 bp):
GAAGGTGTAGATGAGGAA
Found at i:14874599 original size:15 final size:15
Alignment explanation
Indices: 14874579--14874631 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
14874569 TATCATGATC
14874579 AATTATTTTAATAAG
1 AATTATTTTAATAAG
*
14874594 AATTATTTTAAATATGAT
1 AATTATTTT-AATA--AG
*
14874612 AATAATTTTAATAAG
1 AATTATTTTAATAAG
14874627 AATTA
1 AATTA
14874632 AGTCAAACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 14 0.45
16 4 0.13
17 4 0.13
18 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
AATTATTTTAATAAG
Found at i:14875609 original size:11 final size:11
Alignment explanation
Indices: 14875593--14875621 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
14875583 CAAATAATCC
14875593 ATATTTTCTAA
1 ATATTTTCTAA
14875604 ATATTTTCTAA
1 ATATTTTCTAA
14875615 ATATTTT
1 ATATTTT
14875622 AATTAATTTT
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:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTTTCTAA
Found at i:14875999 original size:17 final size:16
Alignment explanation
Indices: 14875966--14876010 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
14875956 ACTGTTATTG
14875966 ATATATTTTAATAAAAA
1 ATAT-TTTTAATAAAAA
*
14875983 ATATTTTTAACTTAAAA
1 ATATTTTTAA-TAAAAA
*
14876000 ATAGTTTTAAT
1 ATATTTTTAAT
14876011 GTTTTGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATTTTTAATAAAAA
Found at i:14881101 original size:9 final size:10
Alignment explanation
Indices: 14881080--14881120 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
14881070 ACCCAAAATA
14881080 AAAAAT-AA-
1 AAAAATGAAG
14881088 AAAAATGAAG
1 AAAAATGAAG
14881098 AAAAATGAAG
1 AAAAATGAAG
14881108 AAAAA-GAA-
1 AAAAATGAAG
14881116 AAAAA
1 AAAAA
14881121 CCTAATCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 11 0.35
9 5 0.16
10 15 0.48
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (10 bp):
AAAAATGAAG
Found at i:14882309 original size:19 final size:19
Alignment explanation
Indices: 14882285--14882322 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14882275 TTGAGATTGC
*
14882285 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCCGAAAT
14882304 CAACCTATTTGCCCGAAAT
1 CAACCTATTTGCCCGAAAT
14882323 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (19 bp):
CAACCTATTTGCCCGAAAT
Found at i:14884450 original size:24 final size:24
Alignment explanation
Indices: 14884423--14884476 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
14884413 TTTCTTTCCT
*
14884423 TTGCATT-CATCCCATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
14884447 TTGCATTGCATCATGTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
14884471 TTGCAT
1 TTGCAT
14884477 CATTTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:14884465 original size:19 final size:19
Alignment explanation
Indices: 14884443--14884486 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
14884433 CCCATGCATT
14884443 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
*
14884462 TGCATTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
14884481 TGCATT
1 TGCATT
14884487 AGATCTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:14888305 original size:61 final size:64
Alignment explanation
Indices: 14888234--14888358 Score: 177
Period size: 61 Copynumber: 2.0 Consensus size: 64
14888224 CATATAATAA
* *
14888234 CACATCTAGTTAGGAGCATTTGATTCATTTC-A-TA-A-CATTCTAATTATTTGACATAAAGCAT
1 CACATCTAGTTAGGAACATTTGATTCATTTCAATTATAGCATCCTAATTATTTGACAT-AAGCAT
* *
14888295 CACATTTAGTTAGGAACATTTGATTCATTTCAATTATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAACATTTGATTCATTTCAATTATAGCATCCTAATTATTTGACATAAGCAT
14888359 GGATACATGA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
61 29 0.52
62 1 0.02
63 2 0.04
64 7 0.12
65 17 0.30
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAACATTTGATTCATTTCAATTATAGCATCCTAATTATTTGACATAAGCAT
Found at i:14888603 original size:88 final size:88
Alignment explanation
Indices: 14888454--14888655 Score: 332
Period size: 88 Copynumber: 2.3 Consensus size: 88
14888444 AGCTGAAGAT
** * *
14888454 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGTAGATCGAAGACATAGCTAATTTGTCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAAGGAGTAGATCGAAAACATAGCTAATTTGGCT
*
14888519 TTCACGTGTTTACGTTAAAGCAG
66 TTCACGTGTTTACGTTAAAGCAA
*
14888542 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAAGGAGTAGATCGAAAACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAAGGAGTAGATCGAAAACATAGCTAATTTGGCT
*
14888607 TTCACGTGTTTACGTTGAAGCAA
66 TTCACGTGTTTACGTTAAAGCAA
*
14888630 ATCCAAGATGATTTGGCATATCTGTA
1 ATCCAAGATGATTTGGCATCTCTGTA
14888656 GCAGCGGAGA
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 106 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCAAGGAGTAGATCGAAAACATAGCTAATTTGGCT
TTCACGTGTTTACGTTAAAGCAA
Found at i:14888698 original size:44 final size:44
Alignment explanation
Indices: 14888639--14888959 Score: 497
Period size: 44 Copynumber: 7.4 Consensus size: 44
14888629 AATCCAAGAT
* * *
14888639 GATTTGGCATATCTGTAGCAGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
14888683 GATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAATATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
14888727 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
14888771 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
14888811 GATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
14888855 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
14888899 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
14888943 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
14888960 TTAGACGGGG
Statistics
Matches: 254, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
40 38 0.15
44 216 0.85
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:14888828 original size:172 final size:172
Alignment explanation
Indices: 14888625--14888959 Score: 553
Period size: 172 Copynumber: 1.9 Consensus size: 172
14888615 TTTACGTTGA
14888625 AGCAAATCCAAGATGATTTGGCATATCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGG
1 AGCAAATCCAAGATGATTTGGCATATCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGG
* * *
14888690 CGTCTCTGTAGCGGCGAAGAGCAGATCGAATATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAG
66 CGTCTCTGTAGCGGCGAAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAG
*
14888755 CAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAG
131 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* * * **
14888797 AGCAGATCGAAGATGATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGG
1 AGCAAATCCAAGATGATTTGGCATATCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGG
* * *
14888862 CGTCTCTGTAGCGGTGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
66 CGTCTCTGTAGCGGCGAAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAG
*
14888927 CAGATCGAAGATAACGGATTTGGCGTCTCTGTA
131 CAGATCGAAGATAACAGATTTGGCGTCTCTGTA
14888960 TTAGACGGGG
Statistics
Matches: 150, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
172 150 1.00
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.22
Consensus pattern (172 bp):
AGCAAATCCAAGATGATTTGGCATATCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGG
CGTCTCTGTAGCGGCGAAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAG
CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
Found at i:14890490 original size:19 final size:19
Alignment explanation
Indices: 14890466--14890503 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14890456 TTGAGATTGC
*
14890466 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
14890485 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
14890504 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:14890597 original size:6 final size:7
Alignment explanation
Indices: 14890579--14890604 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14890569 CACTCCCTTT
14890579 TAAAAAA
1 TAAAAAA
14890586 TAAAAAA
1 TAAAAAA
14890593 TAAAAAA
1 TAAAAAA
14890600 TAAAA
1 TAAAA
14890605 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:14892675 original size:19 final size:19
Alignment explanation
Indices: 14892627--14892675 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
14892617 TCATCCCATG
*
14892627 CATTTGCATTGCATTGCAT
1 CATTTGCATTACATTGCAT
*
14892646 CATGTGCATTACATTGCAT
1 CATTTGCATTACATTGCAT
*
14892665 CATTTGTATTA
1 CATTTGCATTA
14892676 GATTTTCCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.43
Consensus pattern (19 bp):
CATTTGCATTACATTGCAT
Found at i:14896797 original size:88 final size:88
Alignment explanation
Indices: 14896647--14896848 Score: 325
Period size: 88 Copynumber: 2.3 Consensus size: 88
14896637 AGCTGAAGAT
* * * *
14896647 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGTAGATCGAAGACATAGCTATTTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGACATAGCTATTTTGGAT
*
14896712 TTCACGTGTTTACGTTAAAGCAG
66 TTCACGTGTTTACGTTAAAGCAA
*
14896735 ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGATATAGCTGA-TTTGGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGACATAGCT-ATTTTGGA
*
14896799 TTTCACGTGTTTACGTTAAAGTAA
65 TTTCACGTGTTTACGTTAAAGCAA
14896823 ATCCAAGATGATTTGGCATCTCTGTA
1 ATCCAAGATGATTTGGCATCTCTGTA
14896849 GCGGTGAAGA
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 105 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGACATAGCTATTTTGGAT
TTCACGTGTTTACGTTAAAGCAA
Found at i:14896889 original size:44 final size:44
Alignment explanation
Indices: 14896832--14897505 Score: 935
Period size: 44 Copynumber: 15.4 Consensus size: 44
14896822 AATCCAAGAT
* * *
14896832 GATTTGGCATCTCTGTAGCGGTGAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
14896876 GATTTGGCGTCTCTGTAGCGGCGGGGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
14896920 AATTTTGCGTCTCTGTAGCAGC-GAGGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGA-GAGCAGATCGAAGATAACA
**
14896964 GATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
14897008 GATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
14897052 GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * **
14897096 GATTTGGCGTCTTTGTAGCGGCGGAAAGCAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
14897140 GATTTGGCGTCTCTTTAGCAGAGGAGAGCAGATTGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
14897184 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
14897228 GATTTGGCGTCTCTGTAGCGGCAGAGAACAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
14897272 GATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
14897312 GATTTGGCATCTCTGTAGAGGCGGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGC-GGAGAGCAGATCGAAGATAACA
* * * *
14897357 GATTTGGCGTCTCTGTAGCGGCAGAGAACATATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
14897401 GATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
14897445 GATTTGGCGTCTCTGTAGCGGCAGAGAGTAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
14897489 GATTTGGCATCTCTGTA
1 GATTTGGCGTCTCTGTA
14897506 TTAGACGGGA
Statistics
Matches: 555, Mismatches: 68, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
40 19 0.03
41 18 0.03
43 1 0.00
44 495 0.89
45 22 0.04
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:14897823 original size:9 final size:10
Alignment explanation
Indices: 14897802--14897842 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
14897792 ACCCAAAATA
14897802 AAAAAT-AA-
1 AAAAATGAAG
14897810 AAAAATGAAG
1 AAAAATGAAG
14897820 AAAAATGAAG
1 AAAAATGAAG
14897830 AAAAA-GAA-
1 AAAAATGAAG
14897838 AAAAA
1 AAAAA
14897843 CCTAACCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 11 0.35
9 5 0.16
10 15 0.48
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (10 bp):
AAAAATGAAG
Found at i:14898660 original size:17 final size:17
Alignment explanation
Indices: 14898638--14898675 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
14898628 AACTTTATAT
14898638 TTTTTATGTATTATTTA
1 TTTTTATGTATTATTTA
* *
14898655 TTTTTATTTTTTATTTA
1 TTTTTATGTATTATTTA
14898672 TTTT
1 TTTT
14898676 ACAATCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTATGTATTATTTA
Found at i:14899029 original size:19 final size:19
Alignment explanation
Indices: 14899005--14899042 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14898995 TTGAGATTGC
*
14899005 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
14899024 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
14899043 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:14899981 original size:54 final size:54
Alignment explanation
Indices: 14899899--14900005 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
14899889 ACCAATTTTG
14899899 GGCGTAAAGAGGGTGCTAATCCTTCCTCATACGTAACCAACTCCCGAGCCTATA
1 GGCGTAAAGAGGGTGCTAATCCTTCCTCATACGTAACCAACTCCCGAGCCTATA
* *
14899953 GGCGTAACGAGGGTGCTAATCCTTCCTCATACGTAACCGACTCCCGAGCCTAT
1 GGCGTAAAGAGGGTGCTAATCCTTCCTCATACGTAACCAACTCCCGAGCCTAT
14900006 TTTCTCATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.22
Consensus pattern (54 bp):
GGCGTAAAGAGGGTGCTAATCCTTCCTCATACGTAACCAACTCCCGAGCCTATA
Found at i:14907976 original size:43 final size:43
Alignment explanation
Indices: 14907908--14908041 Score: 196
Period size: 43 Copynumber: 3.1 Consensus size: 43
14907898 AGTTTAAAAC
* * *
14907908 TTTTAGCGGCGCTTTTCACGAAAACGACGCTAAAGATCATGAA
1 TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
* * *
14907951 TTTTAGCGGCGTTTTTCCCTCAAACGCCGCTAAAGATCATGAC
1 TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
* *
14907994 CTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAAATCATGAA
1 TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
14908037 TTTTA
1 TTTTA
14908042 AAAATTTATT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
Found at i:14908086 original size:22 final size:23
Alignment explanation
Indices: 14908061--14908103 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
14908051 TTTATTTTAA
*
14908061 TTAAATAATAT-TTATTTTTATG
1 TTAAATAATATATTATGTTTATG
*
14908083 TTAAATATTATATTATGTTTA
1 TTAAATAATATATTATGTTTA
14908104 ATTTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAAATAATATATTATGTTTATG
Found at i:14911331 original size:10 final size:10
Alignment explanation
Indices: 14911318--14911351 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
14911308 AATTTTAATT
14911318 TTTTTTTATA
1 TTTTTTTATA
14911328 TTTTTTTATA
1 TTTTTTTATA
14911338 TTTTTTTAT-
1 TTTTTTTATA
14911347 TTTTT
1 TTTTT
14911352 CTTTCAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:14911448 original size:7 final size:7
Alignment explanation
Indices: 14911436--14911463 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14911426 ATATGGATTA
14911436 AAATATT
1 AAATATT
14911443 AAATATT
1 AAATATT
14911450 AAATATT
1 AAATATT
14911457 AAATATT
1 AAATATT
14911464 TAAGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Done.