Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 61 of 168
Found at i:17526881 original size:13 final size:13
Alignment explanation
Indices: 17526863--17526888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17526853 ACCTCGCAGG
17526863 TAATTTAACCAAA
1 TAATTTAACCAAA
17526876 TAATTTAACCAAA
1 TAATTTAACCAAA
17526889 AAGCAATTTA
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATTTAACCAAA
Found at i:17529055 original size:43 final size:43
Alignment explanation
Indices: 17528994--17529078 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
17528984 CAATGATGTA
* * *
17528994 CAAGATTTTCTTGATTAAGTAAATGTATTATATATTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTAC
* *
17529037 CAAGATTTACTTGATTAAGAAAATGCATTTTATGTTTTATTA
1 CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTA
17529079 TCTTGCATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTAC
Found at i:17529388 original size:43 final size:43
Alignment explanation
Indices: 17529341--17529603 Score: 306
Period size: 43 Copynumber: 6.3 Consensus size: 43
17529331 GATATGTTTT
**
17529341 TAGCGGCGTTTGTGTAAAAAGCGTTGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
17529384 TAGCGGCGTTTGTAG-AGAAAGTGCCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGT-GTAAAAAGCGCCGCTAAAGGTCTTGATCTA
** * *
17529427 TAGCGGCGTTTGTGTGGAAAGCGCCGCTAAAGATATTGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
17529470 TAGCGGCGTTTGTGTGAAAAGCACCGCTAAAGGTATTG----A
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
17529509 T--CGGCGTTTGTGGAAAAATCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
17529550 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
17529593 TAGCGGCGTTT
1 TAGCGGCGTTT
17529604 ATATAAATAA
Statistics
Matches: 190, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
37 29 0.15
39 2 0.01
41 2 0.01
42 1 0.01
43 155 0.82
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:17530206 original size:34 final size:34
Alignment explanation
Indices: 17530154--17530232 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
17530144 TTTTGTATAA
*
17530154 ATAAGTTAGAACACCATATGAAGTCTGTACAATGAT
1 ATAA-TTA-AACACCATATGAAGTATGTACAATGAT
17530190 ATAATTAAACACCATATGAAGTATGTACAATGAT
1 ATAATTAAACACCATATGAAGTATGTACAATGAT
17530224 ATAATTAAA
1 ATAATTAAA
17530233 TTTTTGTGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 35 0.83
35 3 0.07
36 4 0.10
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (34 bp):
ATAATTAAACACCATATGAAGTATGTACAATGAT
Found at i:17533115 original size:12 final size:12
Alignment explanation
Indices: 17533100--17533137 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
17533090 TGCAGTGAAA
17533100 TAGACCATTGGT
1 TAGACCATTGGT
17533112 TAGACCATTGGT
1 TAGACCATTGGT
17533124 TAGACCATTGGT
1 TAGACCATTGGT
17533136 TA
1 TA
17533138 ATTAGACCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (12 bp):
TAGACCATTGGT
Found at i:17533144 original size:16 final size:16
Alignment explanation
Indices: 17533123--17533154 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17533113 AGACCATTGG
17533123 TTAGACCATTGGTTAA
1 TTAGACCATTGGTTAA
17533139 TTAGACCATTGGTTAA
1 TTAGACCATTGGTTAA
17533155 GTTGGTAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
TTAGACCATTGGTTAA
Found at i:17534164 original size:50 final size:50
Alignment explanation
Indices: 17534089--17534330 Score: 247
Period size: 50 Copynumber: 4.9 Consensus size: 50
17534079 CATTTGGGTA
* *
17534089 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAT
17534139 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAT
* ** * * *
17534189 GAGAGGTCCCCCGTAACACCATGTCTGGGACATGGCATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAT
* ** * * * * * *
17534239 GAGAACTCCCATGTAAGACCATATCTAGGATATGACATTGGTA--G-TAC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAT
* ** * *
17534286 AGGAAACATCCCATGTAAGACCGTGTCTGGGACATGGCTTTGGCA
1 A--AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17534331 TGTTATTATC
Statistics
Matches: 158, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
47 2 0.01
49 32 0.20
50 124 0.78
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAT
Found at i:17542801 original size:44 final size:45
Alignment explanation
Indices: 17542744--17542833 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 45
17542734 AATAATAACA
17542744 GATACACGATGGAATCAGCACATAGCAACCACC-TTATAATCAAT
1 GATACACGATGGAATCAGCACATAGCAACCACCTTTATAATCAAT
* * *
17542788 GATACTCGGTGGAATCAGCACATAGCAACCACCTTTATAGTCAAT
1 GATACACGATGGAATCAGCACATAGCAACCACCTTTATAATCAAT
17542833 G
1 G
17542834 GTACCCAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 31 0.74
45 11 0.26
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (45 bp):
GATACACGATGGAATCAGCACATAGCAACCACCTTTATAATCAAT
Found at i:17542906 original size:51 final size:51
Alignment explanation
Indices: 17542848--17543032 Score: 203
Period size: 51 Copynumber: 3.6 Consensus size: 51
17542838 CCAGTTCACA
* * *
17542848 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCCATTAT-ATCCGGTACACG
* * *** * * *
17542899 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCCATTATATCCGGTACACG
* * *
17542950 TAGTAGCTTGCACATAGTACTACACATGCGACCCATTAT-TCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCCATTATATCCGGTACACG
* *
17543000 TAGTAGCCTACACATAGTACTACACACATGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
17543033 ATCACTTTCA
Statistics
Matches: 108, Mismatches: 25, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
50 36 0.33
51 69 0.64
52 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCCATTATATCCGGTACACG
Found at i:17543054 original size:101 final size:99
Alignment explanation
Indices: 17542845--17543030 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 99
17542835 TACCCAGTTC
* * *
17542845 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCATTAT-ATCCGATACACGTAGTAGCCTAC
* *
17542910 ACATAGTACTACACACGTGATCGAAGCTATCTGGT
65 ACATAGTACTACACACATGATCCAAGCTATCTGGT
* *
17542945 ACGCATAGTAGCTTGCACATAGTACTACACATGCGACCCATTAT-TCCGGTACACGTAGTAGCCT
1 A--CATAGTAGCCTGCACATAGTACTACACATGCGA-CCATTATATCCGATACACGTAGTAGCCT
17543009 ACACATAGTACTACACACATGA
63 ACACATAGTACTACACACATGA
17543031 CCATCACTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
100 1 0.01
101 39 0.51
102 31 0.40
103 6 0.08
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATTATATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACATGATCCAAGCTATCTGGT
Found at i:17547918 original size:50 final size:48
Alignment explanation
Indices: 17547879--17548016 Score: 141
Period size: 50 Copynumber: 2.8 Consensus size: 48
17547869 TATTGAGCTT
*
17547879 ATGAGAGGTCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGCCTGGGACATGGCATT-G-ACCGAG
* * * *
17547929 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGCCTGGGACATGGCAT-TG-ACCGAG
** * * * *
17547979 ATGAGAACTCCCATGTAAGACTATGTCTAGGACATGGC
1 ATGAGAGGTCCCACGTAAGACCATGCCTGGGACATGGC
17548017 TTTGGCATGT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.20
Consensus pattern (48 bp):
ATGAGAGGTCCCACGTAAGACCATGCCTGGGACATGGCATTGACCGAG
Found at i:17548275 original size:12 final size:12
Alignment explanation
Indices: 17548258--17548290 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
17548248 GCAAGAGAGT
17548258 AAGTAAAGAAGA
1 AAGTAAAGAAGA
17548270 AAGTAAAGAAGA
1 AAGTAAAGAAGA
17548282 AAGTAAAGA
1 AAGTAAAGA
17548291 TCATGATACT
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:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (12 bp):
AAGTAAAGAAGA
Found at i:17555091 original size:54 final size:54
Alignment explanation
Indices: 17555027--17555133 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
17555017 ATAAGAAACA
17555027 TGAAATTTGATAAAGAACACGAATCTAAATCATTGCTCTAAGCTACCTTACCGG
1 TGAAATTTGATAAAGAACACGAATCTAAATCATTGCTCTAAGCTACCTTACCGG
17555081 TGAAATTTGATAAAGAACACGAATCTAAATCATTGCTCTAAGCTACCTTACCG
1 TGAAATTTGATAAAGAACACGAATCTAAATCATTGCTCTAAGCTACCTTACCG
17555134 ATGTTCCACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (54 bp):
TGAAATTTGATAAAGAACACGAATCTAAATCATTGCTCTAAGCTACCTTACCGG
Found at i:17565569 original size:29 final size:29
Alignment explanation
Indices: 17565544--17565664 Score: 147
Period size: 29 Copynumber: 4.2 Consensus size: 29
17565534 ACCATCCCAA
17565544 TTCATATTCGATAGTCAAAGCTATCCCTT
1 TTCATATTCGATAGTCAAAGCTATCCCTT
* ** * *
17565573 TTCATAGTT-GATGGTCGTCA-CCATCCTTT
1 TTCATA-TTCGATAGTC-AAAGCTATCCCTT
* *
17565602 TTCATAATCGATAGCCAAAGCTATCCCTT
1 TTCATATTCGATAGTCAAAGCTATCCCTT
17565631 TTCATATTCGATAGTCAAAGCTATCCCTT
1 TTCATATTCGATAGTCAAAGCTATCCCTT
17565660 TTCAT
1 TTCAT
17565665 TATCTGAGGA
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
28 2 0.03
29 69 0.93
30 3 0.04
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.38
Consensus pattern (29 bp):
TTCATATTCGATAGTCAAAGCTATCCCTT
Found at i:17568588 original size:51 final size:48
Alignment explanation
Indices: 17568512--17568611 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 48
17568502 ACCTTGATAT
*
17568512 ACATTATGTTTAGAACTAATGACCAATTTTGGTTGTTGTTTATGTAATTTA
1 ACATTATGCTTAGAACTAATGACCAATTTT-G--GTTGTTTATGTAATTTA
*
17568563 ACATTATGCTTGGAACTAATGACCAATTTTGGTTGTTTATGTAATTTA
1 ACATTATGCTTAGAACTAATGACCAATTTTGGTTGTTTATGTAATTTA
17568611 A
1 A
17568612 TTTAACTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 18 0.38
50 1 0.02
51 28 0.60
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (48 bp):
ACATTATGCTTAGAACTAATGACCAATTTTGGTTGTTTATGTAATTTA
Found at i:17570137 original size:35 final size:35
Alignment explanation
Indices: 17570098--17570167 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
17570088 CAATTGTCTG
17570098 ACTTGAAAATTAATTTCTAAAAATATCATATTAAT
1 ACTTGAAAATTAATTTCTAAAAATATCATATTAAT
17570133 ACTTGAAAATTAATTTCTAAAAATATCATATTAAT
1 ACTTGAAAATTAATTTCTAAAAATATCATATTAAT
17570168 TTTAATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (35 bp):
ACTTGAAAATTAATTTCTAAAAATATCATATTAAT
Found at i:17571621 original size:39 final size:39
Alignment explanation
Indices: 17571562--17571638 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
17571552 ATTCTAAATG
* *
17571562 AAAATGAAATAAATGAAATAGAAATAGATAAATAATATA
1 AAAAGGAAATAAATAAAATAGAAATAGATAAATAATATA
* *
17571601 AAAAGGAAATAAATAAAATAGAAATATATCAATAATAT
1 AAAAGGAAATAAATAAAATAGAAATAGATAAATAATAT
17571639 TAATATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.66, C:0.01, G:0.09, T:0.23
Consensus pattern (39 bp):
AAAAGGAAATAAATAAAATAGAAATAGATAAATAATATA
Found at i:17571624 original size:15 final size:15
Alignment explanation
Indices: 17571556--17571626 Score: 50
Period size: 15 Copynumber: 5.1 Consensus size: 15
17571546 ATCAAAATTC
17571556 TAAATGAAAAT-GAAA
1 TAAAT-AAAATAGAAA
*
17571571 TAAATGAAATAGAAA
1 TAAATAAAATAGAAA
*
17571586 TAGAT-AAAT---AA
1 TAAATAAAATAGAAA
17571597 T--ATAAAA-AGGAAA
1 TAAATAAAATA-GAAA
17571610 TAAATAAAATAGAAA
1 TAAATAAAATAGAAA
17571625 TA
1 TA
17571627 TATCAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
9 2 0.04
10 3 0.07
11 3 0.07
13 3 0.07
14 8 0.18
15 25 0.56
16 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (15 bp):
TAAATAAAATAGAAA
Found at i:17571646 original size:11 final size:11
Alignment explanation
Indices: 17571632--17571701 Score: 62
Period size: 11 Copynumber: 6.7 Consensus size: 11
17571622 AAATATATCA
17571632 ATAATATTAAT
1 ATAATATTAAT
17571643 ATAATATTAAT
1 ATAATATTAAT
17571654 ATAATAATCTAAT
1 ATAAT-AT-TAAT
*
17571667 ATATTA-TAA-
1 ATAATATTAAT
*
17571676 ATAA-AAT-AT
1 ATAATATTAAT
17571685 ATAA-ATTAAT
1 ATAATATTAAT
17571695 -TAATATT
1 ATAATATT
17571702 CTAACATCTA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
8 2 0.04
9 13 0.26
10 8 0.16
11 16 0.32
12 3 0.06
13 8 0.16
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (11 bp):
ATAATATTAAT
Found at i:17571678 original size:24 final size:23
Alignment explanation
Indices: 17571632--17571683 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
17571622 AAATATATCA
*
17571632 ATAAT-ATTAATATAATATTAAT
1 ATAATAATTAATATAATATAAAT
*
17571654 ATAATAATCTAATATATTATAAAT
1 ATAATAAT-TAATATAATATAAAT
*
17571678 AAAATA
1 ATAATA
17571684 TATAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.20
23 2 0.08
24 18 0.72
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAATAATTAATATAATATAAAT
Found at i:17572721 original size:23 final size:23
Alignment explanation
Indices: 17572695--17572740 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
17572685 ATTTTGTGAG
17572695 GCATTTGTTTCCAAAATTAATTT
1 GCATTTGTTTCCAAAATTAATTT
17572718 GCATTTGTTTCCAAAATTAATTT
1 GCATTTGTTTCCAAAATTAATTT
17572741 ATCTCCTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (23 bp):
GCATTTGTTTCCAAAATTAATTT
Found at i:17573683 original size:41 final size:41
Alignment explanation
Indices: 17573638--17573719 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
17573628 TATTGAAAAA
* *
17573638 TTTTCAATTTAATATTACAATATCTAAAGCTATTTTGCCAT
1 TTTTCAATTTAATACTACAATATCTAAAGCTATTTTACCAT
* *
17573679 TTTTCAATTTAATACTACAATATTTAAGGCTATTTTACCAT
1 TTTTCAATTTAATACTACAATATCTAAAGCTATTTTACCAT
17573720 AATTTTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (41 bp):
TTTTCAATTTAATACTACAATATCTAAAGCTATTTTACCAT
Found at i:17574484 original size:100 final size:100
Alignment explanation
Indices: 17574362--17574562 Score: 368
Period size: 100 Copynumber: 2.0 Consensus size: 100
17574352 CAAAAATTAC
*
17574362 AGTTTAGCGCCTCTGAATAAGGAAATCTGAGTTCTACTCAAAACCC-ATTATTGCCATAAGAACC
1 AGTTTAGCACCTCTGAATAAGGAAATCTGAGTTCTACTCAAAACCCGA-TATTGCCATAAGAACC
17574426 ACTATAACCGATACACAATGAACAACATATCTGAAT
65 ACTATAACCGATACACAATGAACAACATATCTGAAT
*
17574462 AGTTTAGCACCTCTGAATAAGGAAATCTGAGTTCTACTCAAAACCCGATATTGCCATAATAACCA
1 AGTTTAGCACCTCTGAATAAGGAAATCTGAGTTCTACTCAAAACCCGATATTGCCATAAGAACCA
17574527 CTATAACCGATACACAATGAACAACATATCTGAAT
66 CTATAACCGATACACAATGAACAACATATCTGAAT
17574562 A
1 A
17574563 CTTTCATCTT
Statistics
Matches: 98, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
100 97 0.99
101 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (100 bp):
AGTTTAGCACCTCTGAATAAGGAAATCTGAGTTCTACTCAAAACCCGATATTGCCATAAGAACCA
CTATAACCGATACACAATGAACAACATATCTGAAT
Found at i:17579822 original size:35 final size:35
Alignment explanation
Indices: 17579776--17579876 Score: 157
Period size: 35 Copynumber: 2.9 Consensus size: 35
17579766 CTGTTTGGCT
17579776 TGTTTCGGTTGGACTAGCTCTTATGAGCATTGACC
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATTGACC
* * *
17579811 TGTTTCTGTTGGACTAGCTCTTATGAGCATTGGCG
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATTGACC
* *
17579846 TGTTTCGGTTAGACTAGCTCTTGTGAGCATT
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATT
17579877 TGATGTGTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.40
Consensus pattern (35 bp):
TGTTTCGGTTGGACTAGCTCTTATGAGCATTGACC
Found at i:17583544 original size:33 final size:34
Alignment explanation
Indices: 17583496--17583564 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 34
17583486 AGTAGTCATG
* *
17583496 CAGTATCAGTCTGGGCCTGAGCCCTATACAGTAA
1 CAGTATCAGTCTGGGCCTGAGCCCAAAACAGTAA
* *
17583530 CAGTA-CAGTGTGGGCCTTAGCCCAAAACAGTAA
1 CAGTATCAGTCTGGGCCTGAGCCCAAAACAGTAA
17583563 CA
1 CA
17583565 ATGTGGCCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.20
Consensus pattern (34 bp):
CAGTATCAGTCTGGGCCTGAGCCCAAAACAGTAA
Found at i:17583608 original size:28 final size:28
Alignment explanation
Indices: 17583536--17583659 Score: 178
Period size: 28 Copynumber: 4.5 Consensus size: 28
17583526 GTAACAGTAC
* *
17583536 AGTGTGGGCCTTAGCCCAAAACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
* * *
17583564 AATGT-GGCCTTAACCCAATACAATAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
*
17583591 AGTGTGGGCCTTAGCCCAATGCAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
*
17583619 AGTGTGGGCCTTAGCCCACTACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
17583647 AGTGTGGGCCTTA
1 AGTGTGGGCCTTA
17583660 TATACCAATG
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 22 0.26
28 62 0.74
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:17584654 original size:40 final size:40
Alignment explanation
Indices: 17584483--17584681 Score: 249
Period size: 40 Copynumber: 5.0 Consensus size: 40
17584473 AATTATTGAA
* ** *
17584483 TGTTTGCACATTCGTGCCCCTATTCGTACTTCAATACACC
1 TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
*
17584523 TGTTTACACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
1 TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
* * *
17584563 TGTTTGCACATTTGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
* * * *
17584603 TATTTGTACATACATGCCCCTGTTCGTACTTCGGTACCCC
1 TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
* * *
17584643 TGTTTGCACATACGT--ACCTGTTTGTACTTCGGTACCCC
1 TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
17584681 T
1 T
17584682 AAAATCTAAT
Statistics
Matches: 138, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 22 0.16
40 116 0.84
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (40 bp):
TGTTTGCACATTCGTGCCCCTGTTCGTACTTCGGTACCCC
Found at i:17584659 original size:20 final size:20
Alignment explanation
Indices: 17584483--17584681 Score: 122
Period size: 20 Copynumber: 10.1 Consensus size: 20
17584473 AATTATTGAA
* *
17584483 TGTTTGCACATTCGTGCCCC
1 TGTTTGTACATTCGTACCCC
* * * *
17584503 TATTCGTAC-TTCAATACACC
1 TGTTTGTACATTC-GTACCCC
** *
17584523 TGTTTACACATTCGTGCCCC
1 TGTTTGTACATTCGTACCCC
*
17584543 TGTTCGTAC-TTCGGTACCCC
1 TGTTTGTACATTC-GTACCCC
* * *
17584563 TGTTTGCACATTTGTGCCCC
1 TGTTTGTACATTCGTACCCC
* *
17584583 TGTTTGTACTTTGGTACCCC
1 TGTTTGTACATTCGTACCCC
* * * *
17584603 TATTTGTACATACATGCCCC
1 TGTTTGTACATTCGTACCCC
*
17584623 TGTTCGTAC-TTCGGTACCCC
1 TGTTTGTACATTC-GTACCCC
* *
17584643 TGTTTGCACATACGTA--CC
1 TGTTTGTACATTCGTACCCC
17584661 TGTTTGTAC-TTCGGTACCCC
1 TGTTTGTACATTC-GTACCCC
17584681 T
1 T
17584682 AAAATCTAAT
Statistics
Matches: 129, Mismatches: 41, Indels: 18
0.69 0.22 0.10
Matches are distributed among these distances:
17 2 0.02
18 13 0.10
19 8 0.06
20 99 0.77
21 7 0.05
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (20 bp):
TGTTTGTACATTCGTACCCC
Found at i:17584677 original size:18 final size:18
Alignment explanation
Indices: 17584621--17584678 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
17584611 CATACATGCC
*
17584621 CCTGTTCGTACTTCGGTA
1 CCTGTTTGTACTTCGGTA
* *
17584639 CCCCTGTTTGCACATAC-GTA
1 --CCTGTTTGTAC-TTCGGTA
17584659 CCTGTTTGTACTTCGGTA
1 CCTGTTTGTACTTCGGTA
17584677 CC
1 CC
17584679 CCTAAAATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.48
20 12 0.39
21 2 0.06
ACGTcount: A:0.14, C:0.31, G:0.19, T:0.36
Consensus pattern (18 bp):
CCTGTTTGTACTTCGGTA
Found at i:17592562 original size:11 final size:11
Alignment explanation
Indices: 17592525--17592562 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
17592515 TCCTTCATTC
17592525 ATCATCCCTCA
1 ATCATCCCTCA
*
17592536 AGCATCCCTCA
1 ATCATCCCTCA
17592547 ATCATCCCTCA
1 ATCATCCCTCA
*
17592558 TTCAT
1 ATCAT
17592563 TCTCATCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.42, G:0.03, T:0.29
Consensus pattern (11 bp):
ATCATCCCTCA
Found at i:17604805 original size:27 final size:27
Alignment explanation
Indices: 17604760--17604812 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
17604750 GTAACAGAAC
* *
17604760 AGAACAATGTGGGATTTAGCCCAATAT
1 AGAACAAGGTGGGACTTAGCCCAATAT
* *
17604787 AGAACAAGGTGGGCCTTAGCCGAATA
1 AGAACAAGGTGGGACTTAGCCCAATA
17604813 CCATATCAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (27 bp):
AGAACAAGGTGGGACTTAGCCCAATAT
Found at i:17606142 original size:38 final size:42
Alignment explanation
Indices: 17606061--17606157 Score: 121
Period size: 43 Copynumber: 2.4 Consensus size: 42
17606051 ACAACCCAAG
* * *
17606061 TTTAAATTCTTTTTTCAATAAGCCAAGAGTATCTTCTCATCTT
1 TTTAAATTCTTTTTTCAACAACCCAAGAGTATCATCT-ATCTT
17606104 TTTAAATTCTTTTTTCAACAACCCAAGA-T-T-ATCT-TCTT
1 TTTAAATTCTTTTTTCAACAACCCAAGAGTATCATCTATCTT
*
17606142 TTTAAATTATTTTTTC
1 TTTAAATTCTTTTTTC
17606158 TAGGATAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
38 19 0.38
40 3 0.06
41 1 0.02
42 1 0.02
43 26 0.52
ACGTcount: A:0.28, C:0.18, G:0.04, T:0.51
Consensus pattern (42 bp):
TTTAAATTCTTTTTTCAACAACCCAAGAGTATCATCTATCTT
Found at i:17611632 original size:21 final size:21
Alignment explanation
Indices: 17611607--17611660 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
17611597 CTTGTTGAGA
*
17611607 AGGAAGTTGCTACTGCAGAAG
1 AGGAAGTTGCTACTGAAGAAG
* *
17611628 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGCTACTGAAGAAG
*
17611649 AAGAAGTTGCTA
1 AGGAAGTTGCTA
17611661 AAAATGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.22
Consensus pattern (21 bp):
AGGAAGTTGCTACTGAAGAAG
Found at i:17611969 original size:17 final size:15
Alignment explanation
Indices: 17611947--17611980 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
17611937 ATAAAAAATG
17611947 AAAGAAGGAAGAGAAGA
1 AAAGAAGG-AG-GAAGA
17611964 AAAGAAGGAGGAAGA
1 AAAGAAGGAGGAAGA
17611979 AA
1 AA
17611981 CATCATGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 2 0.12
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
AAAGAAGGAGGAAGA
Found at i:17615535 original size:10 final size:10
Alignment explanation
Indices: 17615520--17615557 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
17615510 GAACATGATG
17615520 AATTTTAATT
1 AATTTTAATT
17615530 AATTTTATAGTT
1 AATTTTA-A-TT
17615542 AATTTTAATT
1 AATTTTAATT
17615552 AATTTT
1 AATTTT
17615558 GACTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 2 0.08
12 9 0.35
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (10 bp):
AATTTTAATT
Found at i:17627011 original size:13 final size:13
Alignment explanation
Indices: 17626993--17627045 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
17626983 AGTTTAACAA
*
17626993 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
17627006 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
17627019 TGCTTTGGAGAAG
1 TGCTTTTGAAAAG
17627032 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
17627045 T
1 T
17627046 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:17627029 original size:26 final size:26
Alignment explanation
Indices: 17626993--17627045 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
17626983 AGTTTAACAA
*
17626993 TGCTTTTGAGAAGTGCTTTTGAAAAG
1 TGCTTTGGAGAAGTGCTTTTGAAAAG
17627019 TGCTTTGGAGAAGTGCTTTTGAAAAG
1 TGCTTTGGAGAAGTGCTTTTGAAAAG
17627045 T
1 T
17627046 TTTGTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (26 bp):
TGCTTTGGAGAAGTGCTTTTGAAAAG
Found at i:17630042 original size:14 final size:15
Alignment explanation
Indices: 17630023--17630063 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
17630013 AAGTTTTATT
17630023 TTTATTTTTATTTA-
1 TTTATTTTTATTTAG
*
17630037 TTTATTTTTACTTAG
1 TTTATTTTTATTTAG
17630052 TTTAATTTTTAT
1 TTT-ATTTTTAT
17630064 GTAAATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 3 0.13
16 7 0.30
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTTTTATTTAG
Found at i:17634296 original size:29 final size:29
Alignment explanation
Indices: 17634222--17634460 Score: 307
Period size: 29 Copynumber: 8.2 Consensus size: 29
17634212 GTGTGCTAAA
* * * *
17634222 CGATGGTCAAAACCATACCTTTTCTTTAAT
1 CGATGGTCGAAACCATCCCTTTTC-ATATT
*
17634252 CAATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
17634281 CGATGGTCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
**
17634310 CGATGGTCGTTACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* *
17634339 CGATGGTTGAAACCATCCCTTTTAATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
17634368 CGATGGTCAAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * *
17634397 CGATGGTCAAAATCATTCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * **
17634426 TGATGGTTGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
17634455 CGATGG
1 CGATGG
17634461 ACGTCGATAC
Statistics
Matches: 182, Mismatches: 27, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
29 161 0.88
30 21 0.12
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:17649131 original size:16 final size:17
Alignment explanation
Indices: 17649099--17649131 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17649089 ATTCAATTTA
17649099 TTACAAAATTCATACTT
1 TTACAAAATTCATACTT
17649116 TTACAAAATT-ATACTT
1 TTACAAAATTCATACTT
17649132 GTTCCCCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
TTACAAAATTCATACTT
Found at i:17659817 original size:25 final size:24
Alignment explanation
Indices: 17659783--17659832 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
17659773 TTAAGACGTC
*
17659783 ATCATTTCTTTTCTATTCTTAATTT
1 ATCATTTCTTTTCTACT-TTAATTT
*
17659808 ATCATTTCTTTTTTACTTTAATTT
1 ATCATTTCTTTTCTACTTTAATTT
17659832 A
1 A
17659833 GTTATTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (24 bp):
ATCATTTCTTTTCTACTTTAATTT
Found at i:17677085 original size:137 final size:138
Alignment explanation
Indices: 17676838--17677105 Score: 319
Period size: 137 Copynumber: 1.9 Consensus size: 138
17676828 AATGGGCCTA
* * * * *
17676838 CTCACATAAGCTGTCGGTCAAAATGTAAGCTACACGATACTACTCACATAAGCTGTTGAGTATCC
1 CTCACACAAGCTGTCGGTCAAAACGTAAGCTACACGATACTACTCACACAAGCTGTCGAGTATAC
* * * *
17676903 ACAACTAATGCCGAACCTCATCCATCAGTAGGAAATTCTAGACCAGCACCCAAAACATGGTAACC
66 ACAACTAATGCCGAAACTCAGCCATCAGTAGGAAATTCAAGACCAGCACCCAAAACACGGTAACC
17676968 TGGGTCTT
131 TGGGTCTT
* * * * *
17676976 CTCACACAAGCTGTCGGTCGAAACGT-AGCTACACGGTGCTGCTCACACAAGCTGTCGAGTATAT
1 CTCACACAAGCTGTCGGTCAAAACGTAAGCTACACGATACTACTCACACAAGCTGTCGAGTATAC
* * **
17677040 GCAAC-ACATGTCGAAACTCAGCCATC-GCTAGGATGTT-AAGGACCAGCACCCAAAACACGGTA
66 ACAACTA-ATGCCGAAACTCAGCCATCAG-TAGGAAATTCAA-GACCAGCACCCAAAACACGGTA
17677102 ACCT
128 ACCT
17677106 TAATGACATG
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
136 3 0.03
137 83 0.76
138 23 0.21
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (138 bp):
CTCACACAAGCTGTCGGTCAAAACGTAAGCTACACGATACTACTCACACAAGCTGTCGAGTATAC
ACAACTAATGCCGAAACTCAGCCATCAGTAGGAAATTCAAGACCAGCACCCAAAACACGGTAACC
TGGGTCTT
Found at i:17679615 original size:75 final size:75
Alignment explanation
Indices: 17679531--17679681 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
17679521 TTATTCTCAT
17679531 ACTTGCCATTGCATTTCCAAGTATTCATTAGCTTCATGTATTGTATACATCGCTATTCCTATTAC
1 ACTTGCCATTGCATTTCCAAGTATTCATTAGCTTCATGTATTGTATACATCGCTATTCCTATTAC
17679596 TTGCCACTGC
66 TTGCCACTGC
17679606 ACTTGCCATTGCATTTCCAAGTATTCATTAGCTTCATGTATTGTATACATCGCTATTCCTATTAC
1 ACTTGCCATTGCATTTCCAAGTATTCATTAGCTTCATGTATTGTATACATCGCTATTCCTATTAC
17679671 TTGCCACTGC
66 TTGCCACTGC
17679681 A
1 A
17679682 TACTTATCAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (75 bp):
ACTTGCCATTGCATTTCCAAGTATTCATTAGCTTCATGTATTGTATACATCGCTATTCCTATTAC
TTGCCACTGC
Found at i:17689860 original size:14 final size:15
Alignment explanation
Indices: 17689827--17689865 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
17689817 CAACACCTTT
*
17689827 TTTTTTTAGTTCACGA
1 TTTTTTTAATTCAC-A
17689843 TTTTTTTAATTCAC-
1 TTTTTTTAATTCACA
17689857 TTTTTTTAA
1 TTTTTTTAA
17689866 AATTTCGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.21, C:0.10, G:0.05, T:0.64
Consensus pattern (15 bp):
TTTTTTTAATTCACA
Found at i:17690231 original size:23 final size:23
Alignment explanation
Indices: 17690205--17690325 Score: 138
Period size: 23 Copynumber: 5.3 Consensus size: 23
17690195 ATAAGTGCCA
**
17690205 CACTGATATGTAGCTAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
17690228 CACTGATATGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
* * *
17690251 CACTGAAATGCAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
17690274 TACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
17690297 CACTGA-ATTGTAGCCGAAGCCAC
1 CACTGATA-TGTAGCCGAAGCTAC
17690320 CACTGA
1 CACTGA
17690326 CTTGTAGACT
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
22 2 0.02
23 80 0.96
24 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:17690273 original size:46 final size:46
Alignment explanation
Indices: 17690205--17690325 Score: 170
Period size: 46 Copynumber: 2.6 Consensus size: 46
17690195 ATAAGTGCCA
* *
17690205 CACTGATATGTAGCTAAAGCTACCACTGATATGTAGCCATAGCTAC
1 CACTGAAATGTAGCTGAAGCTACCACTGATATGTAGCCATAGCTAC
* * *
17690251 CACTGAAATGCAGCTGAAGCTACTACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCTGAAGCTACCACTGATATGTAGCCATAGCTAC
* * *
17690297 CACTGAATTGTAGCCGAAGCCACCACTGA
1 CACTGAAATGTAGCTGAAGCTACCACTGA
17690326 CTTGTAGACT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (46 bp):
CACTGAAATGTAGCTGAAGCTACCACTGATATGTAGCCATAGCTAC
Found at i:17691258 original size:23 final size:23
Alignment explanation
Indices: 17691193--17691266 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
17691183 GTTTAATTAG
** *
17691193 GAAATGGTTTTGGTTTTTGGTAA
1 GAAATGGAATTGGATTTTGGTAA
*
17691216 GAAATGGAATTGGATGTTGGTAA
1 GAAATGGAATTGGATTTTGGTAA
* *
17691239 GAAATGGTA-TGAGATTTTGGTAT
1 GAAATGGAATTG-GATTTTGGTAA
17691262 GAAAT
1 GAAAT
17691267 AAACCAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 2 0.05
23 41 0.95
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (23 bp):
GAAATGGAATTGGATTTTGGTAA
Found at i:17695572 original size:24 final size:23
Alignment explanation
Indices: 17695528--17695578 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
17695518 TTTTTTCAAA
*
17695528 TTTTCTTTCTTTTTCTCATTTTTC
1 TTTTCTTTCTTTTACTCA-TTTTC
*
17695552 TTTTCTTTGTTTTCACT-ATTTTC
1 TTTTCTTTCTTTT-ACTCATTTTC
17695575 TTTT
1 TTTT
17695579 TCTCTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.38
24 13 0.54
25 2 0.08
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTCTTTCTTTTACTCATTTTC
Found at i:17695573 original size:23 final size:21
Alignment explanation
Indices: 17695516--17695578 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 21
17695506 CTTTTCACTC
*
17695516 TCTTTTT-TCAAATTTTC-TT
1 TCTTTTTCTCATATTTTCTTT
17695535 TCTTTTTCTCAT-TTTTCTTT
1 TCTTTTTCTCATATTTTCTTT
*
17695555 TCTTTGTTTTCACTATTTTCTTT
1 TCTTT-TTCTCA-TATTTTCTTT
17695578 T
1 T
17695579 TCTCTCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
19 12 0.32
20 10 0.27
21 5 0.14
22 1 0.03
23 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (21 bp):
TCTTTTTCTCATATTTTCTTT
Found at i:17697138 original size:16 final size:15
Alignment explanation
Indices: 17697094--17697135 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
17697084 ATCACAACAC
17697094 CTTTTTTTTAATTCA
1 CTTTTTTTTAATTCA
*
17697109 CGATTTTTTTAATTCA
1 C-TTTTTTTTAATTCA
17697125 CTTTTTTTTAA
1 CTTTTTTTTAA
17697136 ATTTCGTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.21, C:0.12, G:0.02, T:0.64
Consensus pattern (15 bp):
CTTTTTTTTAATTCA
Found at i:17697506 original size:23 final size:22
Alignment explanation
Indices: 17697480--17697601 Score: 147
Period size: 23 Copynumber: 5.3 Consensus size: 22
17697470 ATAAGTGCGA
*
17697480 CACTGATATGTAGCTGAAACTAC
1 CACTGATATGTAGC-GAAGCTAC
*
17697503 CACTGATATGTAGCCATAGCTAC
1 CACTGATATGTAGCGA-AGCTAC
*
17697526 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGC-GAAGCTAC
*
17697549 CACTGATATGTAGCCATAGCTAC
1 CACTGATATGTAGCGA-AGCTAC
17697572 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAG-CGAAGCTAC
17697595 CACTGAT
1 CACTGAT
17697602 CAATAACACT
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
22 3 0.03
23 80 0.93
24 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (22 bp):
CACTGATATGTAGCGAAGCTAC
Found at i:17697549 original size:46 final size:46
Alignment explanation
Indices: 17697480--17697601 Score: 208
Period size: 46 Copynumber: 2.7 Consensus size: 46
17697470 ATAAGTGCGA
* *
17697480 CACTGATATGTAGCTGAAACTACCACTGATATGTAGCCATAGCTAC
1 CACTGAAATGTAGCTGAAGCTACCACTGATATGTAGCCATAGCTAC
17697526 CACTGAAATGTAGCTGAAGCTACCACTGATATGTAGCCATAGCTAC
1 CACTGAAATGTAGCTGAAGCTACCACTGATATGTAGCCATAGCTAC
* *
17697572 CACTGAATTGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCTGAAGCTACCACTGAT
17697602 CAATAACACT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (46 bp):
CACTGAAATGTAGCTGAAGCTACCACTGATATGTAGCCATAGCTAC
Found at i:17698502 original size:23 final size:23
Alignment explanation
Indices: 17698437--17698510 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
17698427 GTTTAATTAG
** *
17698437 GAAATGGTTTTGGTTTTTGGTAA
1 GAAATGGAATTGGATTTTGGTAA
*
17698460 GAAATGGAATTGGATGTTGGTAA
1 GAAATGGAATTGGATTTTGGTAA
* *
17698483 GAAATGGTA-TGAGATTTTGGTAC
1 GAAATGGAATTG-GATTTTGGTAA
17698506 GAAAT
1 GAAAT
17698511 AAGCCAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 2 0.05
23 41 0.95
ACGTcount: A:0.31, C:0.01, G:0.31, T:0.36
Consensus pattern (23 bp):
GAAATGGAATTGGATTTTGGTAA
Found at i:17702217 original size:14 final size:13
Alignment explanation
Indices: 17702191--17702229 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
17702181 AACTTGAGCC
*
17702191 TTTATTTATTTTT
1 TTTATTTATTTTA
17702204 TTTCATTTCATTTTA
1 TTT-ATTT-ATTTTA
17702219 TTTATTTATTT
1 TTTATTTATTT
17702230 ACAAGCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 8 0.35
15 8 0.35
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:17703604 original size:49 final size:49
Alignment explanation
Indices: 17703543--17703663 Score: 147
Period size: 49 Copynumber: 2.5 Consensus size: 49
17703533 GGGCCATTTA
17703543 TAGGGCATGTTAGTTGCTAACCAGATGGGCGAATAAG-G-TGGGCCACTGG
1 TAGGGCATGTTAGTTGCTAACCAGATGGGC--ATAAGTGTTGGGCCACTGG
* * * * *
17703592 TAGGGCATGTTAGTTGCTAACTAGATTGGCATGAGTGTTGGGTCTCTGG
1 TAGGGCATGTTAGTTGCTAACCAGATGGGCATAAGTGTTGGGCCACTGG
* *
17703641 TGGGGCACGTTAGTTGCTAACCA
1 TAGGGCATGTTAGTTGCTAACCA
17703664 ACCTGGCATT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 4 0.06
48 1 0.02
49 57 0.92
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.28
Consensus pattern (49 bp):
TAGGGCATGTTAGTTGCTAACCAGATGGGCATAAGTGTTGGGCCACTGG
Found at i:17708606 original size:50 final size:50
Alignment explanation
Indices: 17708551--17708720 Score: 187
Period size: 50 Copynumber: 3.3 Consensus size: 50
17708541 TCCTAAATAC
* * *
17708551 GGTCTTACATGAGAGTTCTCATATCGGTGCCAATGCCATGACCCAGACAT
1 GGTCTTACATGGGACTTCTCATATCGGTGCCAATGCCATGTCCCAGACAT
* * * * *
17708601 GGTCTTATAGGGGACTTCTCATCTCGGTACCAACGCCATGTCCCAGACAT
1 GGTCTTACATGGGACTTCTCATATCGGTGCCAATGCCATGTCCCAGACAT
* *
17708651 GGTCTTACATGGGACCTCTCATAACCTCAATAGTGCCAATGCCATGTCCCAGACAT
1 GGTCTTACATGGGACTTCTCAT-A--TC---GGTGCCAATGCCATGTCCCAGACAT
*
17708707 GGTATTACATGGGA
1 GGTCTTACATGGGA
17708721 TCTCATTCCC
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
50 61 0.62
53 2 0.02
56 35 0.36
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (50 bp):
GGTCTTACATGGGACTTCTCATATCGGTGCCAATGCCATGTCCCAGACAT
Found at i:17721810 original size:56 final size:51
Alignment explanation
Indices: 17721694--17721828 Score: 157
Period size: 50 Copynumber: 2.6 Consensus size: 51
17721684 AGTGCCCATG
** *
17721694 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGATAGCAATGT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATAGCAATGT
*
17721745 -CATGTCCCAGACATGGTCTTGCATGGGACCTCTCATAACCTCAATAATGCCAAT-T
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CTCAAT-A-G-CAATGT
*
17721800 CCATGTCCCAGACATGATCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
17721829 TCTCATTCCC
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
50 33 0.46
53 5 0.07
54 1 0.01
55 2 0.03
56 30 0.42
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (51 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATAGCAATGT
Found at i:17724749 original size:22 final size:22
Alignment explanation
Indices: 17724724--17724778 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
17724714 TCCTTCATTC
*
17724724 ATCATCCCTCAAGCACCCCTTA
1 ATCATCCCTCAAGCACCCCTCA
*
17724746 ATCATCCCTCAAGCATCCCTCA
1 ATCATCCCTCAAGCACCCCTCA
*
17724768 ATCATTCCTCA
1 ATCATCCCTCA
17724779 TACATACTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.27, C:0.44, G:0.04, T:0.25
Consensus pattern (22 bp):
ATCATCCCTCAAGCACCCCTCA
Found at i:17724754 original size:11 final size:11
Alignment explanation
Indices: 17724724--17724778 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
17724714 TCCTTCATTC
17724724 ATCATCCCTCA
1 ATCATCCCTCA
* * *
17724735 AGCACCCCTTA
1 ATCATCCCTCA
17724746 ATCATCCCTCA
1 ATCATCCCTCA
*
17724757 AGCATCCCTCA
1 ATCATCCCTCA
*
17724768 ATCATTCCTCA
1 ATCATCCCTCA
17724779 TACATACTCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.27, C:0.44, G:0.04, T:0.25
Consensus pattern (11 bp):
ATCATCCCTCA
Found at i:17740357 original size:104 final size:103
Alignment explanation
Indices: 17740094--17740359 Score: 401
Period size: 103 Copynumber: 2.6 Consensus size: 103
17740084 TGGCCGTTAT
*
17740094 TGGTGGATCCCGCACTTAGCACCA-CCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCACGCACTTAGCACCACCCA-TGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
**
17740158 GAATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATA
* *
17740197 TGGTGGAT-ATCGCACTTAGCACTACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCCATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
17740261 GAATCAGCACATAGCAACCCTCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATA
* * **
17740301 TGGTGGATCACGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCCATGAATCGGGGAATCAGCACTTAGCAACCCCT
17740360 TTTATATACA
Statistics
Matches: 147, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
103 81 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATCACGCACTTAGCACCACCCATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTACATTTCAAAGATA
Found at i:17744821 original size:21 final size:21
Alignment explanation
Indices: 17744792--17744831 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17744782 AGTTAGTTCC
*
17744792 AATCTAACTAAACAGAATTGA
1 AATCCAACTAAACAGAATTGA
*
17744813 AATCCAACTAATCAGAATT
1 AATCCAACTAAACAGAATT
17744832 CAACCAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.25
Consensus pattern (21 bp):
AATCCAACTAAACAGAATTGA
Found at i:17746505 original size:16 final size:16
Alignment explanation
Indices: 17746484--17746514 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17746474 CAAAATAAGT
17746484 TTTATATATCCATTAC
1 TTTATATATCCATTAC
*
17746500 TTTATATATGCATTA
1 TTTATATATCCATTA
17746515 TTATATTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTATATATCCATTAC
Found at i:17756346 original size:47 final size:47
Alignment explanation
Indices: 17756294--17756405 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
17756284 CACAGTAATG
* * *
17756294 CAGATAAACTGCCAATAATCAAAATTGTGGACAAGCT-ACTAAAATCA
1 CAGATAAACTGCCAATAATAAAAATCGTGGACAAG-TAACCAAAATCA
* **
17756341 TAGATATTCTGCCAATAATAAAAATCGTGGACAAGTAACCAAAATCA
1 CAGATAAACTGCCAATAATAAAAATCGTGGACAAGTAACCAAAATCA
* *
17756388 CATATAAATTGCCAATAA
1 CAGATAAACTGCCAATAA
17756406 CTTCCACCTT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
46 1 0.02
47 52 0.98
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (47 bp):
CAGATAAACTGCCAATAATAAAAATCGTGGACAAGTAACCAAAATCA
Found at i:17757077 original size:13 final size:13
Alignment explanation
Indices: 17757059--17757083 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17757049 TGATTGCAGA
17757059 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
17757072 TTTTTCTTCTTT
1 TTTTTCTTCTTT
17757084 GGATTTTTTT
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:17757315 original size:17 final size:17
Alignment explanation
Indices: 17757283--17757314 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17757273 AGATTTTAAG
17757283 TTTTTTTTAAGGTTTTA
1 TTTTTTTTAAGGTTTTA
17757300 TTTTTTTTAA-GTTTT
1 TTTTTTTTAAGGTTTT
17757315 TTTAAAGCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.75
Consensus pattern (17 bp):
TTTTTTTTAAGGTTTTA
Found at i:17757973 original size:24 final size:24
Alignment explanation
Indices: 17757938--17758006 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
17757928 ATATTTTTTG
17757938 AAGTTATTGTGTATTATTATTCTAA
1 AAGTTATTGTGTATTATTATT-TAA
*
17757963 AA-TTATTGTGTATTATTACTTAA
1 AAGTTATTGTGTATTATTATTTAA
17757986 AAGTTA-TGCTGTATTATTATT
1 AAGTTATTG-TGTATTATTATT
17758007 ATTTTTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.17
24 31 0.77
25 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (24 bp):
AAGTTATTGTGTATTATTATTTAA
Found at i:17761647 original size:44 final size:44
Alignment explanation
Indices: 17761593--17762032 Score: 610
Period size: 44 Copynumber: 10.0 Consensus size: 44
17761583 CAGCGAAACC
17761593 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
* *
17761637 ACAATTCCTATTTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
*
17761681 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
*
17761725 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
* * *
17761769 ACAAGTCCTATCTCCCTGAATAGCAATGGAATAGGTTAAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
*
17761813 ACAATTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
** * * * *
17761857 GTAAGTCCTATCTCCCTGAATAGAAGTGGAATAGGTGGAAGGTT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
** *
17761901 GTAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
** * * ** * * *
17761945 GTAAGGCATATCTATCTAAACAACAGTGGAATAGGTGGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
* * * *
17761989 ATAAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATT
1 ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
17762033 GTAGATCATG
Statistics
Matches: 358, Mismatches: 38, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 358 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
ACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATT
Found at i:17762250 original size:88 final size:88
Alignment explanation
Indices: 17762134--17763086 Score: 1483
Period size: 88 Copynumber: 10.8 Consensus size: 88
17762124 AGTCCTATCT
* ** * *
17762134 CCTGAGCAGCAGTGGAGTAGGTTAAAAATAATAGATCTTGTCTTCCTATATTGGCAGTGAAGTAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
*
17762199 ATCGAAGACCCCAGCCTTATCTC
66 ATCGAAGACCCCAGCCTTGTCTC
* *
17762222 CCTGAGCAGCAGTAGAGTAGGTTGAAAATAGCAGATCTTGTCTTTCTGTATTGGCAGCGAAGTAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
17762287 ATCGAAGACCCCAGCCTTGTCTC
66 ATCGAAGACCCCAGCCTTGTCTC
*
17762310 CCTGAGCAACAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
* *
17762375 ATCGAAGACCCTAGCCTTGCCTC
66 ATCGAAGACCCCAGCCTTGTCTC
** ** * *
17762398 CCTGAATAGCAGTAAAGTAGCTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
* * ** *
17762463 ATCAAAAACCAAAGCCTTGTCCC
66 ATCGAAGACCCCAGCCTTGTCTC
*
17762486 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGTAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
17762551 ATCGAAGACCCCAGCCTTGTCTC
66 ATCGAAGACCCCAGCCTTGTCTC
*
17762574 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
* * *
17762639 ATCAAAGATCCCAGCTTTGTCTC
66 ATCGAAGACCCCAGCCTTGTCTC
** * * * *
17762662 CCTGAGCAATAGCGGAGTATGTTGAAAATAGTAGATCTTATCTTCCTGTATTGGCAGCGAAGTAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
*
17762727 ATCGAAGACCCTAGCCTTGTCTC
66 ATCGAAGACCCCAGCCTTGTCTC
* * *
17762750 CCTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTTCTGTATTAGCAGCGAAGTAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
* *
17762815 ATCGAAGACCCCAACATTGTCTC
66 ATCGAAGACCCCAGCCTTGTCTC
* * *
17762838 CCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTATATTAGCAGCGAAGTAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
17762903 ATCGAAGACCCCAGCCTTGTCTC
66 ATCGAAGACCCCAGCCTTGTCTC
* * *
17762926 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGTAGATCTTGTTTTCCTGTATTGGAAGCGAAGTAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
**
17762991 ATCGAAGATACCAGCCTTGTCTC
66 ATCGAAGACCCCAGCCTTGTCTC
17763014 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
17763079 ATCGAAGA
66 ATCGAAGA
17763087 AACTAATCCT
Statistics
Matches: 782, Mismatches: 83, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 782 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (88 bp):
CCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG
ATCGAAGACCCCAGCCTTGTCTC
Found at i:17762306 original size:44 final size:44
Alignment explanation
Indices: 17762170--17763084 Score: 272
Period size: 44 Copynumber: 20.8 Consensus size: 44
17762160 AATAATAGAT
* * * *
17762170 CTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAGACCCCAGC
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAGC
* * ** * * * *** *
17762214 CTTATCTCCCTG-AGCAGCAG-TAGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTTCCTGTATTAGCAGCGA-AGTAGATCGAAAACCCCAG-C
* * *
17762258 CTTGTCTTTCTGTATTGGCAGCGAAGTAGATCGAAGACCCCAGC
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAGC
* ** * * * * * *** *
17762302 CTTGTCTCCCTG-AGCAACAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAG-C
* * *
17762346 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCCTAGC
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAGC
* * * ** * * *** *
17762390 CTTGCCTCCCTG-AATAGCAGTAAAGTAGCTTGAAAATAACAGAT
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAG-C
* * **
17762434 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAAACCAAAGC
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAGC
** ** * * * * *** *
17762478 CTTGTCCCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAG-C
*
17762522 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGACCCCAGC
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAGC
* ** * * * * ** * **
17762566 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAAAT
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAA-CCCCAGC
* *
17762610 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATCCCAGC
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAA-ACCCCAGC
* * ** ** * * **** *
17762654 TTTGTCTCCCTG-AGCAATAGCGGAGTATG-TTGAAAATAGTAGAT
1 CTTGTCTTCCTGTATTAGCAGCGAAGTA-GATCGAAAACCCCAG-C
* * * *
17762698 CTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCCTAGC
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAGC
* * * * * * *** *
17762742 CTTGTCTCCCTG-AGTAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAG-C
* * *
17762786 CTTGTCTTTCTGTATTAGCAGCGAAGTAGATCGAAGACCCCAAC
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAGC
* * ** * * * * * *** *
17762830 ATTGTCTCCCTG-AGCAGTAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAG-C
* *
17762874 CTTGTCTTCCTATATTAGCAGCGAAGTAGATCGAAGACCCCAGC
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAGC
* ** * * * * **** *
17762918 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGTAGAT
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAG-C
* * * * **
17762962 CTTGTTTTCCTGTATTGGAAGCGAAGTAGATCGAAGATACCAGC
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAGC
* ** * * * * *** *
17763006 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAG-C
*
17763050 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAA
1 CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAA
17763085 GAAACTAATC
Statistics
Matches: 571, Mismatches: 274, Indels: 51
0.64 0.31 0.06
Matches are distributed among these distances:
42 1 0.00
43 180 0.32
44 211 0.37
45 178 0.31
46 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (44 bp):
CTTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAAACCCCAGC
Found at i:17763159 original size:44 final size:43
Alignment explanation
Indices: 17763096--17763386 Score: 211
Period size: 44 Copynumber: 6.8 Consensus size: 43
17763086 AAACTAATCC
17763096 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-CAGATCT
* * * ** *
17763140 TATCTCTCTGAATTTGCAGTAGAGCGGATT-GCATCCAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCAGATCT
* * * ** * *
17763181 TATCTCCCTAAAGTTGTAGTGG-GCAGACAGAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AACCCAGATCT
*
17763224 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-CAGATCT
* * * * ** * *
17763268 TATCTCTCTGAAGTTGTAGTAGAGCAGATT-GCATCCA-ATAT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCAGATCT
* * * * *
17763309 TATCTCCCTAAAGTTGTAGTGGAGCAGA-TAGAAGAGACCAG-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTA-AA-A-CCCAGATCT
*
17763353 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
17763387 TGATGGATCT
Statistics
Matches: 189, Mismatches: 45, Indels: 27
0.72 0.17 0.10
Matches are distributed among these distances:
40 5 0.03
41 48 0.25
42 8 0.04
43 37 0.20
44 90 0.48
45 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCAGATCT
Found at i:17763257 original size:128 final size:129
Alignment explanation
Indices: 17763082--17763441 Score: 535
Period size: 128 Copynumber: 2.8 Consensus size: 129
17763072 GAAGTAGATC
*
17763082 GAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
* *
17763147 CTGAATTTGCAGTAGAGCGGATTGCATCCAGTCTTATCTCCCTAAAGTTGTAGTGG-GCAGACA
66 CTGAAGTTGCAGTAGAGCAGATTGCATCCAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACA
*
17763210 GAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
* * * *
17763275 CTGAAGTTGTAGTAGAGCAGATTGCATCCAATATTATCTCCCTAAAGTTGTAGTGGAGCAGATA
66 CTGAAGTTGCAGTAGAGCAGATTGCATCCAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACA
* * * ** ** * *
17763339 GAAGAGACCAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAATGATGGATCTCATCCCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
* *
17763404 CTGAAGTTGCAGTAGAGCAGATCGCAT-CAGACTTATCT
66 CTGAAGTTGCAGTAGAGCAGATTGCATCCAGTCTTATCT
17763442 TTAAAGTTGC
Statistics
Matches: 208, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
128 122 0.59
129 86 0.41
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (129 bp):
GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
CTGAAGTTGCAGTAGAGCAGATTGCATCCAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACA
Found at i:17764257 original size:13 final size:13
Alignment explanation
Indices: 17764239--17764263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17764229 TGATTGCACA
17764239 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
17764252 TTTTTCTTCTTT
1 TTTTTCTTCTTT
17764264 GGATTCTTTT
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:17765160 original size:24 final size:24
Alignment explanation
Indices: 17765124--17765192 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
17765114 CATATTTTTG
*
17765124 AAGTTATTGTGTATTATTATTCTAA
1 AAGTTATTATGTATTATTATT-TAA
*
17765149 AA-TTATTATGTATTATTACTTAA
1 AAGTTATTATGTATTATTATTTAA
**
17765172 AAGTTATGCTGTATTATTATT
1 AAGTTATTATGTATTATTATT
17765193 ATTTTATTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
23 5 0.13
24 31 0.82
25 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
AAGTTATTATGTATTATTATTTAA
Found at i:17772279 original size:374 final size:371
Alignment explanation
Indices: 17771594--17772712 Score: 1633
Period size: 374 Copynumber: 3.0 Consensus size: 371
17771584 GATAGCTCCA
* * * *
17771594 CCACTACTCAACCACTGTAATTGATATTTATTAACATTAAAAGATAATCT--A-AAATAAATAAA
1 CCACTACTCAACCACTATACTTGATATCTATTAACATAAAAAGATAATCTAAATAAATAAATAAA
* * * *
17771656 TAATAAATAAAATTTGGACAACCACTCTCTT-GGTTCATTAACCTAATTTCTACTAACCCAATTT
66 TAATAAATAAAATTTGGGCGACCACTCT-TTCGGTTCATTAACCCAATTTCTACTAATCCAATTT
* * **
17771720 TTGGGATGTAACAACTCTCCCCTCATTGAAAAGAGTTTTGTCCTCAAAATTCCTATTGTCAAGCC
130 TTGGGATGTGACAACTCTCCCCTCATTGAAAAGAATTTTGTCCTTGAAATTCCTATTGTCAAGCC
* *
17771785 AATTCACTTATCCATAAAATTCATAACTCTTCTTTCTAAACCATCCACCACGCTCTCGCTGCGCA
195 AATTCACTTATCCAT-AAATTCATAACTCTTCTTTCTAAACCATCCACCACGCTTTCGTTGC-CA
* **
17771850 ACTCTGATTTCAGCGTAGTTCCAATACTTCACCTTAAATCTCTAATGGATTTCTTATCTACTTAC
258 ACTCTGATTCCAATGTAGTTCCAATACTTCACCTTAAATCTCTAATGGATTTCTTATCTACTTAC
*
17771915 ACGTATTGTCTCAAGGGACTATCTATAGAAATATCACTAACAATTTTCT
323 ACGTATTGTCTCAAGGGACTATCTATAGAAATATCACTAACAATTTCCT
*
17771964 CCACTACTCAACCACTATACTTGATATCTATTAACATCAAAAGATAATCTAGAATAAATAAATAA
1 CCACTACTCAACCACTATACTTGATATCTATTAACATAAAAAGATAATCTA-AATAAATAAATAA
* * **
17772029 ATAATAAATAAAATTTGGGTGACCACTCTTTCGGTTTATTAACCCAATTTCTACTAATCTGATTT
65 ATAATAAATAAAATTTGGGCGACCACTCTTTCGGTTCATTAACCCAATTTCTACTAATCCAATTT
** *
17772094 TTGGGATGTGACAACTCTCCCCTCATTGAGAAA-AATTTCATCCTTGAAATTCCTATTGCCAAGC
130 TTGGGATGTGACAACTCTCCCCTCATTGA-AAAGAATTTTGTCCTTGAAATTCCTATTGTCAAGC
* * *
17772158 CAATTCACTTATCCATACATTTCATAACTCTTATTTCTAAACCATCCACCATGCTTTCGTTGCAC
194 CAATTCACTTATCCATA-AATTCATAACTCTTCTTTCTAAACCATCCACCACGCTTTCGTTGC-C
* * * *
17772223 AACTTTGATTCCAATGTAGTTCCAATACTTCACCTTAAATCTCAAATGGATTTCTTATCTATTTG
257 AACTCTGATTCCAATGTAGTTCCAATACTTCACCTTAAATCTCTAATGGATTTCTTATCTACTTA
* * *
17772288 CACGTATTATCTCAAGGGACTATCTATTGAAATATCACTAACGATTTCCT
322 CACGTATTGTCTCAAGGGACTATCTATAGAAATATCACTAACAATTTCCT
* *
17772338 CCACTACTCAACCACTATACTTGATATCGATTAAAATAAAAAGATAATCTAAAATAAATAAATAA
1 CCACTACTCAACCACTATACTTGATATCTATTAACATAAAAAGATAATCT-AAATAAATAAATAA
*
17772403 ATAA-ATAATAAAATTTGGGCGACCACTCTCTCGGTTCATTAACCCAATTTCTACTAATCCAATT
65 ATAATA-AATAAAATTTGGGCGACCACTCTTTCGGTTCATTAACCCAATTTCTACTAATCCAATT
17772467 TTTGGGATGTGACAACTCTCCCCTCATTGAAAAGAATTTTGTCCTTGAAATTCCTATTGTCAAGC
129 TTTGGGATGTGACAACTCTCCCCTCATTGAAAAGAATTTTGTCCTTGAAATTCCTATTGTCAAGC
* * * *
17772532 CAATTCACTTACCCATAACGTTCATAGCTCTTCTTTCTAAACCATCCACCACACTTTCGCTATG-
194 CAATTCACTTATCCATAA-ATTCATAACTCTTCTTTCTAAACCATCCACCACGCTTTCG-T-TGC
* * *
17772596 CAACTCTAATTCCAATGTAATTCCAATACTTCACCTTAAATCTCTAATGGATTTCTTATCTCCTT
256 CAACTCTGATTCCAATGTAGTTCCAATACTTCACCTTAAATCTCTAATGGATTTCTTATCTACTT
* *
17772661 ACA-GATATCGTCTCAAGGGACTATCTATAGAAATATCACTAATAATTTCCT
321 ACACG-TATTGTCTCAAGGGACTATCTATAGAAATATCACTAACAATTTCCT
17772712 C
1 C
17772713 ATTCACAAAT
Statistics
Matches: 670, Mismatches: 65, Indels: 24
0.88 0.09 0.03
Matches are distributed among these distances:
370 46 0.07
373 10 0.01
374 607 0.91
375 5 0.01
376 2 0.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (371 bp):
CCACTACTCAACCACTATACTTGATATCTATTAACATAAAAAGATAATCTAAATAAATAAATAAA
TAATAAATAAAATTTGGGCGACCACTCTTTCGGTTCATTAACCCAATTTCTACTAATCCAATTTT
TGGGATGTGACAACTCTCCCCTCATTGAAAAGAATTTTGTCCTTGAAATTCCTATTGTCAAGCCA
ATTCACTTATCCATAAATTCATAACTCTTCTTTCTAAACCATCCACCACGCTTTCGTTGCCAACT
CTGATTCCAATGTAGTTCCAATACTTCACCTTAAATCTCTAATGGATTTCTTATCTACTTACACG
TATTGTCTCAAGGGACTATCTATAGAAATATCACTAACAATTTCCT
Found at i:17775179 original size:15 final size:16
Alignment explanation
Indices: 17775148--17775182 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
17775138 TTGTTTGTCA
17775148 AAAAGGAGAGAAAATG
1 AAAAGGAGAGAAAATG
*
17775164 AAAATGAGAG-AAATG
1 AAAAGGAGAGAAAATG
17775179 AAAA
1 AAAA
17775183 AAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (16 bp):
AAAAGGAGAGAAAATG
Found at i:17775183 original size:16 final size:17
Alignment explanation
Indices: 17775147--17775183 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
17775137 GTTGTTTGTC
17775147 AAAAAGGAGAGAAAATG
1 AAAAAGGAGAGAAAATG
*
17775164 -AAAATGAGAG-AAATG
1 AAAAAGGAGAGAAAATG
17775179 AAAAA
1 AAAAA
17775184 AAAAGAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (17 bp):
AAAAAGGAGAGAAAATG
Found at i:17775680 original size:17 final size:16
Alignment explanation
Indices: 17775636--17775681 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
17775626 TATTTGAGTG
*
17775636 ATTAAATGGATTAATGA
1 ATTAAATGG-TAAATGA
17775653 A-TAAA-GGTAAATGAA
1 ATTAAATGGTAAATG-A
17775668 ATTAAATGGTAAAT
1 ATTAAATGGTAAAT
17775682 AAACCATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 8 0.32
17 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.30
Consensus pattern (16 bp):
ATTAAATGGTAAATGA
Found at i:17776769 original size:6 final size:6
Alignment explanation
Indices: 17776758--17776782 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17776748 GCAACGATAT
17776758 AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA A
17776783 TGGTTTTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:17777528 original size:20 final size:20
Alignment explanation
Indices: 17777503--17777550 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
17777493 AAGTTTAAGC
17777503 TAAGTAAACAG-AATGGAAAG
1 TAAGTAAA-AGAAATGGAAAG
* *
17777523 TAAGTAAATGAAATGGTAAG
1 TAAGTAAAAGAAATGGAAAG
17777543 TAAGTAAA
1 TAAGTAAA
17777551 TGAAGTGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.54, C:0.02, G:0.23, T:0.21
Consensus pattern (20 bp):
TAAGTAAAAGAAATGGAAAG
Found at i:17777551 original size:20 final size:20
Alignment explanation
Indices: 17777514--17777559 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
17777504 AAGTAAACAG
*
17777514 AATGGAAAGTAAGTAAATGA
1 AATGGTAAGTAAGTAAATGA
17777534 AATGGTAAGTAAGTAAATGA
1 AATGGTAAGTAAGTAAATGA
*
17777554 AGTGGT
1 AATGGT
17777560 TCATAGTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (20 bp):
AATGGTAAGTAAGTAAATGA
Found at i:17784050 original size:94 final size:94
Alignment explanation
Indices: 17783885--17784060 Score: 257
Period size: 94 Copynumber: 1.9 Consensus size: 94
17783875 TCTTCTCTTA
* *
17783885 TTGGATATTTAATTGGACATTGGAAACCTTATGATCTTTTGAACTACACCAATAACATTACACAA
1 TTGGATATTTAATTGGACATTGAAAACATTATGATCTTTTGAAC-ACACCAATAACATTACACAA
* *
17783950 ACGGTGATAGCTCAATCTTATTTTGTCTGT
65 ACGGTGAAAGATCAATCTTATTTTGTCTGT
* *
17783980 TTGGATATTTAATTGGACATTGAAAATATTCATGATCTTTTGAA-ACACCAATAACATTTCACAA
1 TTGGATATTTAATTGGACATTGAAAACATT-ATGATCTTTTGAACACACCAATAACATTACACAA
17784044 TA-GGTGAAAGATCAATC
65 -ACGGTGAAAGATCAATC
17784061 GTACTCCTGT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
94 32 0.44
95 28 0.38
96 13 0.18
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (94 bp):
TTGGATATTTAATTGGACATTGAAAACATTATGATCTTTTGAACACACCAATAACATTACACAAA
CGGTGAAAGATCAATCTTATTTTGTCTGT
Found at i:17784643 original size:18 final size:17
Alignment explanation
Indices: 17784601--17784643 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
17784591 CCATAGAATA
*
17784601 TTTTTTTTCTTTTTTCT
1 TTTTTTTTCTATTTTCT
*
17784618 TTTCTTTTCGTATTTTCT
1 TTTTTTTTC-TATTTTCT
17784636 TTTTTTTT
1 TTTTTTTT
17784644 GTACTTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (17 bp):
TTTTTTTTCTATTTTCT
Found at i:17788708 original size:44 final size:44
Alignment explanation
Indices: 17788646--17788748 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
17788636 ACCTGGTGTG
* ** * *
17788646 ATCTACTCTACTACAACTTTAGAGAGATAAGATCTACT-ATTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGAT-TACTGACTTCA
* * *
17788690 ATCTACTCCACTGTAACTTCAGGGAGATAGGATTACTGGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATTACTGACTTCA
*
17788734 ATGTACTCCACTGTA
1 ATCTACTCCACTGTA
17788749 TCCTCAGGGA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 4 0.08
44 45 0.92
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (44 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATTACTGACTTCA
Found at i:17789007 original size:218 final size:217
Alignment explanation
Indices: 17788602--17789166 Score: 860
Period size: 218 Copynumber: 2.6 Consensus size: 217
17788592 TTCACTATTC
* * * * * * *
17788602 TCAGTCTGCCCCACTGTAACTTCAGGGGGATAAGACCTGGTGTGATCTACTCTACTACAACTTTA
1 TCAGTCTGCTCCACTGCAACCTCAGGGGGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
* ** * *
17788667 GAGAGATAAGATCTACTATTTCAATCTACTCCACTGTAACTTCAGGGAGATAGGATTACTGGCTT
66 GAGAGATAAGACCTTTTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTT
*
17788732 CAATGTACTCCACTGTATCCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTAATTCT
131 CAATGTACTCCACTGTATCCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTAATGCT
*
17788797 TAGGGAGATAATATCTGTTTCT
196 TAGGGAGATAAGATCTGTTTCT
* * * *
17788819 TCGGTCTGCTCCATTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCA
1 TCAGTCTGCTCCACTGCAACCTCAGGGGGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
*
17788884 GAGAGATAATACCTTTTTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTACTGGCT
66 GAGAGATAAGACC-TTTTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTACTGGCT
* *
17788949 TCAATGTACTCCACTGTATCCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
130 TCAATGTACTCCACTGTATCCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTAATGC
17789014 TTAGGGAGATAAGATCTGTTTCT
195 TTAGGGAGATAAGATCTGTTTCT
** * *
17789037 TCAGTCTGCTCTGCTGCAACCTCAGGGGGATAAGACTTGATACGATCTACTCTACTGCAACTTCA
1 TCAGTCTGCTCCACTGCAACCTCAGGGGGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
* * * *
17789102 GAGAGATAAGACCTTTTATTTTAATCCACTCCGCTGCGACTTCAGGGAGATAGGATTAGTGGCTT
66 GAGAGATAAGACCTTTTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTT
17789167 AAATCTGCTT
Statistics
Matches: 313, Mismatches: 34, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
217 113 0.36
218 200 0.64
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (217 bp):
TCAGTCTGCTCCACTGCAACCTCAGGGGGATAAGACCTGATGCGATCTACTCTACTGCAACTTCA
GAGAGATAAGACCTTTTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTT
CAATGTACTCCACTGTATCCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTAATGCT
TAGGGAGATAAGATCTGTTTCT
Found at i:17790734 original size:20 final size:19
Alignment explanation
Indices: 17790705--17790742 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
17790695 AGCTAATAAC
17790705 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
17790724 GAGCTCGAATGAGCTGAAT
1 GAGCTC-AATGAGCTGAAT
17790743 CAAAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:17808436 original size:20 final size:20
Alignment explanation
Indices: 17808411--17808450 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17808401 TACTTTCTTC
17808411 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
17808431 TTTACTTACTTGCTTACTTG
1 TTTACTTACTTGCTTACTTG
17808451 AATAACTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.15, C:0.23, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:17808788 original size:50 final size:50
Alignment explanation
Indices: 17808734--17808846 Score: 145
Period size: 50 Copynumber: 2.3 Consensus size: 50
17808724 GGTCTTACAT
* * *
17808734 GGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAAACATGATCTTACGG
1 GGGAGCTCTCATATCGGTGCCAACGCCATGTCCCAAACATGATCTTACGG
* * * **
17808784 GGGAGCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAT
1 GGGAGCTCTCATATCGGTGCCAACGCCATGTCCCAAACATGATCTTACGG
*
17808834 GGGACCTCTCATA
1 GGGAGCTCTCATA
17808847 ACCTCAATAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (50 bp):
GGGAGCTCTCATATCGGTGCCAACGCCATGTCCCAAACATGATCTTACGG
Found at i:17813917 original size:23 final size:23
Alignment explanation
Indices: 17813889--17813932 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
17813879 CTTTCTTACT
*
17813889 GTAGTAATTTTCGGGGTATTATA
1 GTAGTAATTTTCGGGATATTATA
17813912 GTAGTAATTTTCGGGATATTA
1 GTAGTAATTTTCGGGATATTA
17813933 CAGTTTGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.25, T:0.43
Consensus pattern (23 bp):
GTAGTAATTTTCGGGATATTATA
Found at i:17818823 original size:14 final size:15
Alignment explanation
Indices: 17818790--17818828 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
17818780 CACCCAAAAC
17818790 ACACCTCAACTTTATA
1 ACACCTCAAC-TTATA
*
17818806 ACACCTCAA-TTCTA
1 ACACCTCAACTTATA
17818820 ACACCTCAA
1 ACACCTCAA
17818829 GACCACCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
16 9 0.41
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (15 bp):
ACACCTCAACTTATA
Found at i:17821211 original size:21 final size:19
Alignment explanation
Indices: 17821168--17821212 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
17821158 GAGCTCAAAT
* *
17821168 GAGCTGAAATGAGTTCATG
1 GAGCTGAAATGAGCTAATG
17821187 GAGCTAGAAATGAGCTAATTG
1 GAGCT-GAAATGAGCTAA-TG
17821208 GAGCT
1 GAGCT
17821213 CAATGAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 10 0.45
21 7 0.32
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.24
Consensus pattern (19 bp):
GAGCTGAAATGAGCTAATG
Found at i:17826256 original size:25 final size:25
Alignment explanation
Indices: 17826208--17826257 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
17826198 GAACTGGTCA
* *
17826208 TAGAGAGAATTGAGGAGGGGATATT
1 TAGAGAGAATTGAGGAGAGAATATT
*
17826233 TAGAGAGATTTGAGGAGAGAATATT
1 TAGAGAGAATTGAGGAGAGAATATT
17826258 GGGATTTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (25 bp):
TAGAGAGAATTGAGGAGAGAATATT
Found at i:17827140 original size:27 final size:27
Alignment explanation
Indices: 17826922--17827333 Score: 386
Period size: 27 Copynumber: 15.3 Consensus size: 27
17826912 TCGATATCTG
* *
17826922 GACCGAAATA-CCCTCAAAGGGTAAAAT
1 GACCGTAATACCCCT-ATAGGGTAAAAT
* * * *
17826949 GACTGAAATACCCTCGAT-GAGTAAAAT
1 GACCGTAATACCC-CTATAGGGTAAAAT
* * *
17826976 GACTGAAATACCCTCGAT-GGGTAAAAT
1 GACCGTAATACCC-CTATAGGGTAAAAT
* * *
17827003 GACCGAAATTCCCCCATAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
** * * *
17827030 GATTGAAATACCCCTGTAGGGTAGAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* * * *
17827057 -ACCGAAATACCCCCATAGGATAACAT
1 GACCGTAATACCCCTATAGGGTAAAAT
*
17827083 GACCGTAATACCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
*
17827110 GACCGTAATACCCTTATAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* *
17827137 GACCGT-ATGCCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
17827163 GACTC-TAATACCCCTATAGGGTAAAAT
1 GAC-CGTAATACCCCTATAGGGTAAAAT
* * *
17827190 GACCATAATGCCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* * *
17827217 GATCGTAATGCCCCTGTAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* * * *
17827244 GGCCGTAATGCCCTTGTAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* *
17827271 GACTGTAATGCCCCTATAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
* * *
17827298 GACCGTAATGCCCTTGTAGGGTAAAAT
1 GACCGTAATACCCCTATAGGGTAAAAT
17827325 GACCGTAAT
1 GACCGTAAT
17827334 GCCCTGGTGG
Statistics
Matches: 331, Mismatches: 47, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
26 44 0.13
27 283 0.85
28 3 0.01
29 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (27 bp):
GACCGTAATACCCCTATAGGGTAAAAT
Found at i:17827266 original size:81 final size:81
Alignment explanation
Indices: 17826994--17827333 Score: 407
Period size: 80 Copynumber: 4.2 Consensus size: 81
17826984 TACCCTCGAT
* * ** ** * * * *
17826994 GGGTAAAATGACCGAAATTCCCCCATAGGGTAAAATGATTGAAATACCCCTGTAGGGTAGAAT-A
1 GGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGA
* * **
17827058 CCGAAATACCCCCATA
66 CCGTAATGCCCCTGTA
* * * *
17827074 GGATAACATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCTTATAGGGTAAAATGA
1 GGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGA
17827139 CCGT-ATGCCCCTGTA
66 CCGTAATGCCCCTGTA
* * *
17827154 GGGTAAAATGACTC-TAATACCCCTATAGGGTAAAATGACCATAATGCCCCTGTAGGGTAAAATG
1 GGGTAAAATGAC-CGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATG
*
17827218 ATCGTAATGCCCCTGTA
65 ACCGTAATGCCCCTGTA
* * * *
17827235 GGGTAAAATGGCCGTAATGCCCTTGTAGGGTAAAATGACTGTAATGCCCCTATAGGGTAAAATGA
1 GGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGA
*
17827300 CCGTAATGCCCTTGTA
66 CCGTAATGCCCCTGTA
17827316 GGGTAAAATGACCGTAAT
1 GGGTAAAATGACCGTAAT
17827334 GCCCTGGTGG
Statistics
Matches: 222, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
80 119 0.54
81 103 0.46
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (81 bp):
GGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGA
CCGTAATGCCCCTGTA
Found at i:17827334 original size:27 final size:27
Alignment explanation
Indices: 17826994--17827352 Score: 406
Period size: 27 Copynumber: 13.4 Consensus size: 27
17826984 TACCCTCGAT
* * **
17826994 GGGTAAAATGACCGAAATTCCCCCATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
** * *
17827021 GGGTAAAATGATTGAAATACCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * * **
17827048 GGGTAGAAT-ACCGAAATACCCCCATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
17827074 GGATAACATGACCGTAATACCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
17827101 GGGTAAAATGACCGTAATACCCTTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
17827128 GGGTAAAATGACCGT-ATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
17827154 GGGTAAAATGACTC-TAATACCCCTATA
1 GGGTAAAATGAC-CGTAATGCCCCTGTA
*
17827181 GGGTAAAATGACCATAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
17827208 GGGTAAAATGATCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
17827235 GGGTAAAATGGCCGTAATGCCCTTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
17827262 GGGTAAAATGACTGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
17827289 GGGTAAAATGACCGTAATGCCCTTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
17827316 GGGTAAAATGACCGTAATG-CCCTGGT-
1 GGGTAAAATGACCGTAATGCCCCT-GTA
17827342 GGGT-AAATGAC
1 GGGTAAAATGAC
17827353 TATTTTTGCC
Statistics
Matches: 287, Mismatches: 40, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
25 7 0.02
26 48 0.17
27 232 0.81
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTGTA
Found at i:17827400 original size:23 final size:23
Alignment explanation
Indices: 17827373--17827457 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
17827363 CCTCGAGGTC
*
17827373 AAATGATTG-TTTTGTCTGTGGTT
1 AAATGACTGATTTT-TCTGTGGTT
17827396 AAATGACTGATTTTTCTGTGGTT
1 AAATGACTGATTTTTCTGTGGTT
** * * *
17827419 GGTATAACTGATTTGTCTGTGATTT
1 -AAATGACTGATTTTTCTGTG-GTT
*
17827444 GAATGACTGATTTT
1 AAATGACTGATTTT
17827458 GAGCATGACA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 17 0.34
24 31 0.62
25 2 0.04
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.48
Consensus pattern (23 bp):
AAATGACTGATTTTTCTGTGGTT
Found at i:17827580 original size:27 final size:27
Alignment explanation
Indices: 17827524--17827583 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
17827514 GGAAGTACTG
*
17827524 TACTGGTGGCTCTGCCACAATCACTGT
1 TACTGGTGGCTCTGCCACAATCACTAT
*
17827551 TACTGGTGGCT-TGGCCA-AATATACTAT
1 TACTGGTGGCTCT-GCCACAAT-CACTAT
17827578 TACTGG
1 TACTGG
17827584 CAGCTTTGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (27 bp):
TACTGGTGGCTCTGCCACAATCACTAT
Found at i:17827629 original size:26 final size:26
Alignment explanation
Indices: 17827571--17827636 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
17827561 TTGGCCAAAT
* * *
17827571 ATACTATTACTGGCAGCTTTGGTGCG
1 ATACTATTGCTGGCAGCTTTGCTACG
*
17827597 ATACTATTGCTGGCAGCTTTGCTATG
1 ATACTATTGCTGGCAGCTTTGCTACG
* *
17827623 ATGCTATTGATGGC
1 ATACTATTGCTGGC
17827637 TTTGTGTCGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (26 bp):
ATACTATTGCTGGCAGCTTTGCTACG
Found at i:17827673 original size:32 final size:32
Alignment explanation
Indices: 17827630--17827905 Score: 231
Period size: 32 Copynumber: 8.6 Consensus size: 32
17827620 ATGATGCTAT
*
17827630 TGATGGCTTTGTGTCGATCATAGTACCGTTAC
1 TGATGGCTTTGTGCCGATCATAGTACCGTTAC
*
17827662 TAATGGCTTTGTGCCGATCATAGTACCGTTAC
1 TGATGGCTTTGTGCCGATCATAGTACCGTTAC
* * *
17827694 TGATGGCTTTGTGTCGATCATAGTACCATCAC
1 TGATGGCTTTGTGCCGATCATAGTACCGTTAC
* * ***
17827726 TGATGGCTTTGTGCCAATCATATTAGAATTAC
1 TGATGGCTTTGTGCCGATCATAGTACCGTTAC
* * * *
17827758 CGATGG-TTGTGTGTCGATCAT-TTCACTGTTAC
1 TGATGGCTT-TGTGCCGATCATAGT-ACCGTTAC
* * ***
17827790 TGATGGCTATGTACCGATCATA-TCACTAATAC
1 TGATGGCTTTGTGCCGATCATAGT-ACCGTTAC
*
17827822 TGATAGCTTTGTGCCGATCAT-GTTACCGTTAC
1 TGATGGCTTTGTGCCGATCATAG-TACCGTTAC
* ***
17827854 TGATGGCTGTGTGCCGAAT-ATA-TCATTTTTAC
1 TGATGGCTTTGTGCCG-ATCATAGT-ACCGTTAC
*
17827886 TGATGGCTTTGTGCCAATCA
1 TGATGGCTTTGTGCCGATCA
17827906 CATTACTGTA
Statistics
Matches: 197, Mismatches: 37, Indels: 20
0.78 0.15 0.08
Matches are distributed among these distances:
31 7 0.04
32 186 0.94
33 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATAGTACCGTTAC
Found at i:17827900 original size:64 final size:64
Alignment explanation
Indices: 17827630--17827898 Score: 278
Period size: 64 Copynumber: 4.2 Consensus size: 64
17827620 ATGATGCTAT
* **
17827630 TGATGGCTTTGTGTCGATCATAGTACCGTTACTAATGGCTTTGTGCCGATCATAGT-ACCGTTAC
1 TGATGGCTTTGTGTCGATCATAGTACCGTTACTGATGGCTTTGTGCCGATCATA-TCACTATTAC
* * * * **
17827694 TGATGGCTTTGTGTCGATCATAGTACCATCACTGATGGCTTTGTGCCAATCATATTAGAATTAC
1 TGATGGCTTTGTGTCGATCATAGTACCGTTACTGATGGCTTTGTGCCGATCATATCACTATTAC
* * * * * *
17827758 CGATGG-TTGTGTGTCGATCAT-TTCACTGTTACTGATGGCTATGTACCGATCATATCACTAATA
1 TGATGGCTT-TGTGTCGATCATAGT-ACCGTTACTGATGGCTTTGTGCCGATCATATCACTATTA
17827821 C
64 C
* * * * *
17827822 TGATAGCTTTGTGCCGATCAT-GTTACCGTTACTGATGGCTGTGTGCCGAAT-ATATCATTTTTA
1 TGATGGCTTTGTGTCGATCATAG-TACCGTTACTGATGGCTTTGTGCCG-ATCATATCACTATTA
17827885 C
64 C
17827886 TGATGGCTTTGTG
1 TGATGGCTTTGTG
17827899 CCAATCACAT
Statistics
Matches: 169, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
63 4 0.02
64 160 0.95
65 5 0.03
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (64 bp):
TGATGGCTTTGTGTCGATCATAGTACCGTTACTGATGGCTTTGTGCCGATCATATCACTATTAC
Found at i:17828172 original size:27 final size:27
Alignment explanation
Indices: 17828131--17828186 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
17828121 CATACTTGCA
*
17828131 CCATACTGATACTGTATCGGGCTTAGG
1 CCATACTGATACTGTATCGGGCTAAGG
* * *
17828158 CCATACTGTTTCTGTATTGGGCTAAGG
1 CCATACTGATACTGTATCGGGCTAAGG
17828185 CC
1 CC
17828187 CACACTGTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (27 bp):
CCATACTGATACTGTATCGGGCTAAGG
Found at i:17830115 original size:20 final size:21
Alignment explanation
Indices: 17830090--17830131 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
17830080 AAATAAAAGA
* *
17830090 TGGAAACGAGCT-CATTGAGC
1 TGGAAACAAGCTAAATTGAGC
17830110 TGGAAACAAGCTAAATTGAGC
1 TGGAAACAAGCTAAATTGAGC
17830131 T
1 T
17830132 CAACAAGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (21 bp):
TGGAAACAAGCTAAATTGAGC
Found at i:17834539 original size:22 final size:22
Alignment explanation
Indices: 17834477--17834548 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
17834467 ATTGTTCAAA
* **
17834477 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
17834499 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
17834521 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
17834543 CATGAG
1 CATGAG
17834549 GGATACAGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:17836469 original size:41 final size:41
Alignment explanation
Indices: 17836402--17836548 Score: 161
Period size: 41 Copynumber: 3.6 Consensus size: 41
17836392 TGCCAGCATA
* * * *
17836402 AAGCCTTCTAGGCACAAAGTCAGATATGATATACCGGCACG
1 AAGCCTGCTAGGCACAAAGCCTGATATGATATACCGGCAAG
* * * *
17836443 AAGCCTGCTAGGCATAAAGCCTGATATGGTACACCGGCATG
1 AAGCCTGCTAGGCACAAAGCCTGATATGATATACCGGCAAG
* * * *
17836484 AAGCCTGCTAGGCATAAAGCCTGCTATAAT-TCACCGGCAAA
1 AAGCCTGCTAGGCACAAAGCCTGATATGATAT-ACCGGCAAG
*
17836525 AAGCCTGCTAGGCACAGAGCCTGA
1 AAGCCTGCTAGGCACAAAGCCTGA
17836549 ATATCACTGT
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (41 bp):
AAGCCTGCTAGGCACAAAGCCTGATATGATATACCGGCAAG
Found at i:17836503 original size:16 final size:16
Alignment explanation
Indices: 17836478--17836509 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17836468 ATGGTACACC
*
17836478 GGCATGAAGCCTGCTA
1 GGCATAAAGCCTGCTA
17836494 GGCATAAAGCCTGCTA
1 GGCATAAAGCCTGCTA
17836510 TAATTCACCG
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:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (16 bp):
GGCATAAAGCCTGCTA
Found at i:17845194 original size:22 final size:22
Alignment explanation
Indices: 17845169--17845211 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17845159 ATAAGGGGAA
17845169 TTGCTAACTATTGCCCTAAATT
1 TTGCTAACTATTGCCCTAAATT
**
17845191 TTGCTAACTATTTTCCTAAAT
1 TTGCTAACTATTGCCCTAAAT
17845212 GTTTTAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (22 bp):
TTGCTAACTATTGCCCTAAATT
Found at i:17846387 original size:27 final size:27
Alignment explanation
Indices: 17846357--17846851 Score: 553
Period size: 27 Copynumber: 18.3 Consensus size: 27
17846347 GGCCATAACA
* *
17846357 GTCATTTTACTCATCAAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
***
17846384 GTCATTTTACCCAGAAAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * * *
17846411 ATCATTTTACCCATTGAGGGCATTTCT
1 GTCATTTTACCCATCGAGGGTATTTCG
* * *
17846438 GTCATTTTAGCCA-CTGAGTGTATTTCA
1 GTCATTTTACCCATC-GAGGGTATTTCG
*
17846465 ATCATTTTACCCATCGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
** * *
17846492 GTCATTTTACCCATTAAGGGCATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCG
*
17846519 GTCATTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCG
* *
17846546 GTCATTTTACCCATCAAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCG
**
17846573 GTCATTTTACCCATCGAGGGTATTTTT
1 GTCATTTTACCCATCGAGGGTATTTCG
* * **
17846600 GCCATTTTACTCATCGAGCATATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * *
17846627 ATCATTTTACCCATCAAGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTCG
*
17846654 GTCATTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCG
* * *
17846681 GTTATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTCG
*
17846708 GTCATTTTAGCCATCGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* *
17846735 GTCATTTTACCCATCGATGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCG
* * *
17846762 GTCATTTTACCTATCGAGGGCATTTTG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * * *
17846789 GTCATTTTACCTATCAAGAGCATGTT-G
1 GTCATTTTACCCATCGAGGGTAT-TTCG
* *
17846816 ATCATTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCG
17846843 GTCATTTTA
1 GTCATTTTA
17846852 GAATTCGGCC
Statistics
Matches: 391, Mismatches: 73, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
26 2 0.01
27 386 0.99
28 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCATCGAGGGTATTTCG
Found at i:17850884 original size:37 final size:37
Alignment explanation
Indices: 17850833--17850944 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
17850823 ATTATCCGAA
* * * *
17850833 TTGAATCACAACATAATTAAAAAAAATACATAAATCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
17850870 TTGAATCACTACATAATTAAAAACATTAGATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
17850907 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
17850944 T
1 T
17850945 GAAATTAACA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.31
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:17850938 original size:17 final size:17
Alignment explanation
Indices: 17850879--17850939 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
17850869 TTTGAATCAC
17850879 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
* ** * *
17850896 TAGATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
17850916 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
17850933 TACATAA
1 TACATAA
17850940 GTCTTGAAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 19 0.61
20 12 0.39
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:17854556 original size:3 final size:3
Alignment explanation
Indices: 17854548--17854592 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
17854538 GTTTCTCCAA
17854548 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
17854593 GTCGTCGTCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:17855228 original size:7 final size:7
Alignment explanation
Indices: 17855216--17855246 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
17855206 AGGGCTAGGG
17855216 GTGTTAA
1 GTGTTAA
17855223 GTGTTAA
1 GTGTTAA
17855230 GTGTTAA
1 GTGTTAA
*
17855237 TTGTTAA
1 GTGTTAA
17855244 GTG
1 GTG
17855247 ACAGTGTGAA
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:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (7 bp):
GTGTTAA
Found at i:17859941 original size:38 final size:38
Alignment explanation
Indices: 17859889--17859961 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
17859879 ACCTTTTAAC
* * *
17859889 TTTTGCTTAGAAGTGCAGTCGAGGTCATCCATTATAAA
1 TTTTGCTCAAAAGTGCAATCGAGGTCATCCATTATAAA
17859927 TTTTGCTCAAAAGTGCAATCGAGGTCATCCATTAT
1 TTTTGCTCAAAAGTGCAATCGAGGTCATCCATTAT
17859962 TCTCTCCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (38 bp):
TTTTGCTCAAAAGTGCAATCGAGGTCATCCATTATAAA
Found at i:17860521 original size:26 final size:26
Alignment explanation
Indices: 17860481--17860536 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
17860471 AGTTTCCTAT
17860481 AGTAACGCAGCAAAGCTGCCAGTAAC
1 AGTAACGCAGCAAAGCTGCCAGTAAC
* *
17860507 AGTAATGCAGTAAAGCTGCCAGTAAC
1 AGTAACGCAGCAAAGCTGCCAGTAAC
17860533 AGTA
1 AGTA
17860537 TATGTGGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (26 bp):
AGTAACGCAGCAAAGCTGCCAGTAAC
Found at i:17860672 original size:25 final size:26
Alignment explanation
Indices: 17860644--17860698 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
17860634 TCAGTAACGA
* * *
17860644 TCATATATATCATAAAGCAA-ATCAG
1 TCATACATAACATAAAGCAATAACAG
*
17860669 TCATACATAACATAATGCAATAACAG
1 TCATACATAACATAAAGCAATAACAG
17860695 TCAT
1 TCAT
17860699 TTTACTCGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.27
Consensus pattern (26 bp):
TCATACATAACATAAAGCAATAACAG
Found at i:17860737 original size:27 final size:26
Alignment explanation
Indices: 17860694--17861135 Score: 389
Period size: 27 Copynumber: 16.3 Consensus size: 26
17860684 TGCAATAACA
* * *
17860694 GTCATTTTACTCGTCGAGGGTGTTCTG
1 GTCATTTTACCCATCGAGGGTATT-TG
17860721 GTCATTTTACCCATCGAGGGTATTTAG
1 GTCATTTTACCCATCGAGGGTATTT-G
* *
17860748 GTTATTTTACCCATCAAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTT-G
* *
17860775 GTCATTTTACCCATTGAGGGCATTTTG
1 GTCATTTTACCCATCGAGGGTA-TTTG
* *
17860802 TTCATTTTACCTATCGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTT-G
* * *
17860829 ATCATTTTACCCATCGAGGGAATTTTA
1 GTCATTTTACCCATCGAGGGTA-TTTG
17860856 GTCATTTTACCCATCGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTT-G
* * * * *
17860883 ATCATTTTACCCATTGAAGGCATTTCA
1 GTCATTTTACCCATCGAGGGTATTT-G
*
17860910 GTCATTTTACCCATCGAGGGCATTTCG
1 GTCATTTTACCCATCGAGGGTATTT-G
* * *
17860937 ATCATTTTACCCATCGGGGGCATTTTG
1 GTCATTTTACCCATCGAGGGTA-TTTG
* *
17860964 GTCATTTTACCCATTGAGGGCATTTTCG
1 GTCATTTTACCCATCGAGGGTA-TTT-G
* * *
17860992 ATAATTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTT-G
* *
17861019 GTCATTTTACCCATCAAGGGCATTTTG
1 GTCATTTTACCCATCGAGGGTA-TTTG
** **
17861046 GTCATTTTACCCATCGAGGACAATTCA
1 GTCATTTTACCCATCGAGG-GTATTTG
* * * *
17861073 GTCATTTTACCCATCAATGGCATTTTA
1 GTCATTTTACCCATCGAGGGTA-TTTG
* *
17861100 GTCATTTTAACCATCGAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTT-G
17861127 GTCATTTTA
1 GTCATTTTA
17861136 GGCCCAATTC
Statistics
Matches: 345, Mismatches: 59, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
26 11 0.03
27 302 0.88
28 32 0.09
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCCATCGAGGGTATTTG
Found at i:17860768 original size:54 final size:52
Alignment explanation
Indices: 17860693--17861135 Score: 445
Period size: 54 Copynumber: 8.2 Consensus size: 52
17860683 ATGCAATAAC
* * * * *
17860693 AGTCATTTTACTCGTCGAGGGTGTTCTGGTCATTTTACCCATCGAGGGTATTT
1 AGTCATTTTACCCATCGAGGGTATT-TGATCATTTTACCCATCGAGGGCATTT
* * * *
17860746 AGGTTATTTTACCCATCAAGGGTATTTCGGTCATTTTACCCATTGAGGGCATTT
1 A-GTCATTTTACCCATCGAGGGTATTT-GATCATTTTACCCATCGAGGGCATTT
* * *
17860800 TGTTCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCATCGAGGGAATTTT
1 AG-TCATTTTACCCATCGAGGGTATTT-GATCATTTTACCCATCGAGGGCA-TTT
* *
17860855 AGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCATTGAAGGCATTT
1 AGTCATTTTACCCATCGAGGGTATTT-GATCATTTTACCCATCGAGGGCATTT
* *
17860908 CAGTCATTTTACCCATCGAGGGCATTTCGATCATTTTACCCATCGGGGGCATTTT
1 -AGTCATTTTACCCATCGAGGGTATTT-GATCATTTTACCCATCGAGGGCA-TTT
* * * * *
17860963 GGTCATTTTACCCATTGAGGGCATTTTCGATAATTTTACCCATCGAGGGTATTT
1 AGTCATTTTACCCATCGAGGGTA-TTT-GATCATTTTACCCATCGAGGGCATTT
* * * * *
17861017 CAGTCATTTTACCCATCAAGGGCATTTTGGTCATTTTACCCATCGAGGACAATTC
1 -AGTCATTTTACCCATCGAGGGTA-TTTGATCATTTTACCCATCGAGGGC-ATTT
* * * * * *
17861072 AGTCATTTTACCCATCAATGGCATTTTAGTCATTTTAACCATCGAGGGTATTT
1 AGTCATTTTACCCATCGAGGGTATTTGA-TCATTTTACCCATCGAGGGCATTT
17861125 CAGTCATTTTA
1 -AGTCATTTTA
17861136 GGCCCAATTC
Statistics
Matches: 336, Mismatches: 43, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
53 12 0.04
54 266 0.79
55 58 0.17
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (52 bp):
AGTCATTTTACCCATCGAGGGTATTTGATCATTTTACCCATCGAGGGCATTT
Found at i:17860836 original size:81 final size:81
Alignment explanation
Indices: 17860692--17861135 Score: 498
Period size: 81 Copynumber: 5.5 Consensus size: 81
17860682 AATGCAATAA
* * ** * * * * *
17860692 CAGTCATTTTACTCGTCGAGGGTGTTCTGGTCATTTTACCCATCGAGGGTATTTAGGTTATTTTA
1 CAGTCATTTTACCCATCGAGGGCATTTTGGTCATTTTACCCATCGAGGGCATTTCGATCATTTTA
* *
17860757 CCCATCAAGGGTATTT
66 CCCATCGAGGGCATTT
* * * * *
17860773 CGGTCATTTTACCCATTGAGGGCATTTTGTTCATTTTACCTATCGAGGGTATTTCGATCATTTTA
1 CAGTCATTTTACCCATCGAGGGCATTTTGGTCATTTTACCCATCGAGGGCATTTCGATCATTTTA
*
17860838 CCCATCGAGGGAATTT
66 CCCATCGAGGGCATTT
* * * * * *
17860854 TAGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCATTGAAGGCATTTC-AGTCATTTT
1 CAGTCATTTTACCCATCGAGGGCATTTTGGTCATTTTACCCATCGAGGGCATTTCGA-TCATTTT
17860918 ACCCATCGAGGGCATTT
65 ACCCATCGAGGGCATTT
* * *
17860935 C-GATCATTTTACCCATCGGGGGCATTTTGGTCATTTTACCCATTGAGGGCATTTTCGATAATTT
1 CAG-TCATTTTACCCATCGAGGGCATTTTGGTCATTTTACCCATCGAGGGCA-TTTCGATCATTT
*
17860999 TACCCATCGAGGGTATTT
64 TACCCATCGAGGGCATTT
* * *
17861017 CAGTCATTTTACCCATCAAGGGCATTTTGGTCATTTTACCCATCGAGGACAATTC-AGTCATTTT
1 CAGTCATTTTACCCATCGAGGGCATTTTGGTCATTTTACCCATCGAGGGCATTTCGA-TCATTTT
* *
17861081 ACCCATCAATGGCATTT
65 ACCCATCGAGGGCATTT
* * * **
17861098 TAGTCATTTTAACCATCGAGGGTATTTCAGTCATTTTA
1 CAGTCATTTTACCCATCGAGGGCATTTTGGTCATTTTA
17861136 GGCCCAATTC
Statistics
Matches: 309, Mismatches: 48, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
80 3 0.01
81 233 0.75
82 71 0.23
83 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (81 bp):
CAGTCATTTTACCCATCGAGGGCATTTTGGTCATTTTACCCATCGAGGGCATTTCGATCATTTTA
CCCATCGAGGGCATTT
Found at i:17867588 original size:27 final size:26
Alignment explanation
Indices: 17867543--17867595 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
17867533 AATGTGAAAG
*
17867543 GGGGTTGCTATGTGCTGATTCCCCCGA
1 GGGGTTGCTAAGTGCTGA-TCCCCCGA
*
17867570 GGGGTTGCTAAGTGTTGATCCCCCGA
1 GGGGTTGCTAAGTGCTGATCCCCCGA
17867596 TTTCATTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.13, C:0.25, G:0.34, T:0.28
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATCCCCCGA
Found at i:17867669 original size:104 final size:105
Alignment explanation
Indices: 17867465--17867774 Score: 493
Period size: 104 Copynumber: 3.0 Consensus size: 105
17867455 TGTATATAAA
** * *
17867465 AGGGGTTGCTGTGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAGGTGCG-TGATCCACCATACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCGTACC
17867528 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
17867569 AGGGGTTGCTAAGTGTTGATCCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTACCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTACCT
17867634 TTGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCCG
66 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
**
17867673 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTACCT
* *
17867738 TTGAAATG-AAAAGGGGGTTGCTAAGTGCTGATTCCCC
66 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCC
17867775 GATTCAGTGG
Statistics
Matches: 191, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
103 3 0.02
104 141 0.74
105 46 0.24
106 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTACCT
TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:17867688 original size:27 final size:27
Alignment explanation
Indices: 17867646--17867697 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
17867636 GAAATGTGAA
*
17867646 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
17867673 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
17867698 GATTTCATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:17888103 original size:23 final size:23
Alignment explanation
Indices: 17888071--17888182 Score: 116
Period size: 23 Copynumber: 4.9 Consensus size: 23
17888061 CTTTTTGAAC
* *
17888071 CATTAACATTTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* *
17888094 TATTACCATTTCGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
* * * *
17888117 CCTTACAAATTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* * *
17888140 TATTACCATTTTGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
*
17888163 CATTACCATTTCGTAACAAA
1 CATTACCATTTCGTACCAAA
17888183 CCCAAAACCG
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (23 bp):
CATTACCATTTCGTACCAAATCA
Done.