Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 66 of 204
Found at i:19544224 original size:21 final size:21
Alignment explanation
Indices: 19544194--19544250 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
19544184 ATTGTTGTTG
* *
19544194 AGAAGGAAGTTGCTGTTGCAGA
1 AGAA-GAAGTTGCTGCTGAAGA
*
19544216 A-AAGAAAGTTGTTGCTGAAGA
1 AGAAG-AAGTTGCTGCTGAAGA
19544237 AGAAGAAGTTGCTG
1 AGAAGAAGTTGCTG
19544251 AAAATGAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 1 0.03
21 24 0.83
22 4 0.14
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.23
Consensus pattern (21 bp):
AGAAGAAGTTGCTGCTGAAGA
Found at i:19544726 original size:17 final size:17
Alignment explanation
Indices: 19544704--19544737 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19544694 GATAAATATA
* *
19544704 TATTGTGATTGCATTTT
1 TATTGTCATTACATTTT
19544721 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
19544738 CATGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:19549577 original size:30 final size:30
Alignment explanation
Indices: 19549533--19549592 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
19549523 ACTTAACAAG
19549533 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
19549563 CAAATTTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
19549593 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.30
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:19549886 original size:13 final size:13
Alignment explanation
Indices: 19549868--19549896 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19549858 TTTCGGGCGA
19549868 ACCTTCGGGTTGG
1 ACCTTCGGGTTGG
19549881 ACCTTCGGGTTGG
1 ACCTTCGGGTTGG
19549894 ACC
1 ACC
19549897 GGGTGGCCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.28, G:0.34, T:0.28
Consensus pattern (13 bp):
ACCTTCGGGTTGG
Found at i:19560603 original size:33 final size:34
Alignment explanation
Indices: 19560527--19560603 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
19560517 TTTTAATTTC
*
19560527 TTTGGGTTTTTTATTTGATTTAAATGTTTTCAAG
1 TTTGGATTTTTTATTTGATTTAAATGTTTTCAAG
* ** *
19560561 TCTATATTTTTTATTTGATTTAAATGTTTT-GAG
1 TTTGGATTTTTTATTTGATTTAAATGTTTTCAAG
19560594 TTTGGATTTT
1 TTTGGATTTT
19560604 GAATTTAGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 9 0.26
34 26 0.74
ACGTcount: A:0.21, C:0.03, G:0.16, T:0.61
Consensus pattern (34 bp):
TTTGGATTTTTTATTTGATTTAAATGTTTTCAAG
Found at i:19562699 original size:43 final size:42
Alignment explanation
Indices: 19562637--19562761 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 42
19562627 GATTTCCGAG
*
19562637 ATGTGTTATCGTGTAAGACCACGTCTAGGACGTTGGCATCGACT
1 ATGTGTTAT-GTGTAAGACCACGTCTGGGACGTTGGCATCGA-T
19562681 -TGTGTTTATGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGAT
1 ATGTG-TTATGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
* ** *
19562723 ACGTGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 ATGTG-TTATGTGTAAGACCACGTCTGGGACGTTGGCAT
19562762 TGTAAGAATT
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
42 3 0.04
43 61 0.88
44 5 0.07
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (42 bp):
ATGTGTTATGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:19563609 original size:23 final size:23
Alignment explanation
Indices: 19563582--19563728 Score: 152
Period size: 23 Copynumber: 6.3 Consensus size: 23
19563572 ATGAGTTGAA
19563582 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACATATATGCTGT
* * * *
19563605 CCAATTTTGATGA-TTAAATGCTGC
1 CCAA-TTTG-TTACATATATGCTGT
19563629 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACATATATGCTGT
*
19563652 CCAATTTGTTACATATATGCTAT
1 CCAATTTGTTACATATATGCTGT
* * * * *
19563675 CCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTACATATATGCTGT
* *
19563699 CCAGTTTGTTGCATATATGCTGT
1 CCAATTTGTTACATATATGCTGT
19563722 CCAATTT
1 CCAATTT
19563729 TGGTGTAAAA
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
22 2 0.02
23 63 0.64
24 32 0.32
25 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (23 bp):
CCAATTTGTTACATATATGCTGT
Found at i:19563664 original size:70 final size:70
Alignment explanation
Indices: 19563582--19563728 Score: 258
Period size: 70 Copynumber: 2.1 Consensus size: 70
19563572 ATGAGTTGAA
*
19563582 CCAATTTGTTACATATATGCTGTCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
1 CCAATTTGTTACATATATGCTATCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
19563647 GCTGT
66 GCTGT
* * *
19563652 CCAATTTGTTACATATATGCTATCCAATTTTGATGCTTAAATGCTGCCCAGTTTGTTGCATATAT
1 CCAATTTGTTACATATATGCTATCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
19563717 GCTGT
66 GCTGT
19563722 CCAATTT
1 CCAATTT
19563729 TGGTGTAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (70 bp):
CCAATTTGTTACATATATGCTATCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
GCTGT
Found at i:19563741 original size:47 final size:47
Alignment explanation
Indices: 19563645--19563738 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
19563635 TGTTACATAT
* *
19563645 ATGCTGTCCAATTTGTTACATATATGCTATCCAATTTTGATGCTTAA
1 ATGCTGCCCAATTTGTTACATATATGCTATCCAATTTTGATGCTAAA
* * * *
19563692 ATGCTGCCCAGTTTGTTGCATATATGCTGTCCAATTTTGGTG-TAAA
1 ATGCTGCCCAATTTGTTACATATATGCTATCCAATTTTGATGCTAAA
19563738 A
1 A
19563739 ATGTTGCTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
46 4 0.10
47 37 0.90
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (47 bp):
ATGCTGCCCAATTTGTTACATATATGCTATCCAATTTTGATGCTAAA
Found at i:19563797 original size:23 final size:23
Alignment explanation
Indices: 19563594--19563798 Score: 72
Period size: 23 Copynumber: 8.8 Consensus size: 23
19563584 AATTTGTTAC
* *
19563594 ATATATGCTGTCCAATTTTGATG-
1 ATATATGCTGCCCAA-ATTGATGT
* * * **
19563617 ATTAAATGCTGCCCAATTTGTTAC
1 A-TATATGCTGCCCAAATTGATGT
* * * **
19563641 ATATATGCTGTCCAATTTGTTAC
1 ATATATGCTGCCCAAATTGATGT
** *
19563664 ATATATGCTATCCAATTTTGATGCT
1 ATATATGCTGCCCAA-ATTGATG-T
* ** * *
19563689 -TAAATGCTGCCCAGTTTGTTGC
1 ATATATGCTGCCCAAATTGATGT
* * *
19563711 ATATATGCTGTCCAATTTTGGTGT
1 ATATATGCTGCCCAA-ATTGATGT
* * * * * *
19563735 AAAAATGTTGCTCAAACTGTTGT
1 ATATATGCTGCCCAAATTGATGT
19563758 ATATATGCTGCCCAAATTGATGT
1 ATATATGCTGCCCAAATTGATGT
* *
19563781 ATTTATGCTGTCCAAATT
1 ATATATGCTGCCCAAATT
19563799 TTAGCATGAA
Statistics
Matches: 139, Mismatches: 37, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
23 95 0.68
24 44 0.32
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (23 bp):
ATATATGCTGCCCAAATTGATGT
Found at i:19563854 original size:23 final size:23
Alignment explanation
Indices: 19563732--19563856 Score: 60
Period size: 23 Copynumber: 5.3 Consensus size: 23
19563722 CCAATTTTGG
* * * *
19563732 TGTAAAAATGTTGCTCAAACTGT
1 TGTATAAATGCTGCTCAAATTGA
* *
19563755 TGTATATATGCTGCCCAAATTGA
1 TGTATAAATGCTGCTCAAATTGA
**
19563778 TGTATTTATGCTG-TCCAAATTTTAGCA
1 TGTATAAATGCTGCT-CAAA--TT-G-A
* *
19563805 TG-A-AAATGCTG-TCTAATTTGG
1 TGTATAAATGCTGCTC-AAATTGA
* *
19563826 TATATAAATGCTGTTCAAATTGA
1 TGTATAAATGCTGCTCAAATTGA
19563849 TGTATAAA
1 TGTATAAA
19563857 AGCCATCCAA
Statistics
Matches: 77, Mismatches: 16, Indels: 18
0.69 0.14 0.16
Matches are distributed among these distances:
21 1 0.01
22 2 0.03
23 55 0.71
24 3 0.04
25 11 0.14
26 2 0.03
27 3 0.04
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (23 bp):
TGTATAAATGCTGCTCAAATTGA
Found at i:19566018 original size:4 final size:4
Alignment explanation
Indices: 19566009--19566040 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
19565999 TTTTCAAAAT
19566009 ATTA ATTA ATTA ATTA ATTA ATTA AGTTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA A-TTA ATT
19566041 TCCCCAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:19568770 original size:45 final size:45
Alignment explanation
Indices: 19568706--19568799 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
19568696 AACAGATACT
* *
19568706 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
19568751 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
19568796 CGGT
1 CGGT
19568800 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:19568870 original size:51 final size:51
Alignment explanation
Indices: 19568801--19568941 Score: 185
Period size: 51 Copynumber: 2.8 Consensus size: 51
19568791 ATGTTCGGTT
* * *
19568801 CACATAGTAGCATTCACATAGTACTACACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATA
* * * * *
19568852 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATAACCATCCGATA
*
19568903 CGCATAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
19568942 CACTTTCACT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
50 2 0.03
51 72 0.95
52 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATA
Found at i:19571559 original size:24 final size:24
Alignment explanation
Indices: 19571532--19571607 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 24
19571522 GGCAGGTTAA
19571532 CTATAATTGCCTTTGTGGCATATT
1 CTATAATTGCCTTTGTGGCATATT
* * * *
19571556 CTATAAATGCCTCTATGGCGTATT
1 CTATAATTGCCTTTGTGGCATATT
* * *
19571580 TTGTAATTGCCTTTGTGGAATATT
1 CTATAATTGCCTTTGTGGCATATT
19571604 CTAT
1 CTAT
19571608 GATGTCTTTA
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (24 bp):
CTATAATTGCCTTTGTGGCATATT
Found at i:19573310 original size:25 final size:25
Alignment explanation
Indices: 19573281--19573333 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
19573271 GATTTGGAAG
19573281 TTAGTAAGTGTAACAATGCGATGCC
1 TTAGTAAGTGTAACAATGCGATGCC
*
19573306 TTAGTAAGTGTAATAATGCGATGCC
1 TTAGTAAGTGTAACAATGCGATGCC
19573331 TTA
1 TTA
19573334 AATATGCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (25 bp):
TTAGTAAGTGTAACAATGCGATGCC
Found at i:19576785 original size:143 final size:132
Alignment explanation
Indices: 19576620--19576895 Score: 347
Period size: 143 Copynumber: 2.0 Consensus size: 132
19576610 CATCATGTGC
** * ***
19576620 AAGATCATGTGAAACAATTTACACGAGCCTTGAGGGGTGATATGGATATGAAACAAATCGAATCG
1 AAGATCATGCAAAACAATTTACACGAGCCTCGAGGGCCAATATGGATAT---A-AAA-CGAATCG
*
19576685 ACTGATTC-GAAAATGAAATGAGATAATGGAATGAATATATATATACACACATATATGATTGTTG
61 ACTGATTCAG-AAATGAAATGAGATAATGAAATG-A-ATATATAT----ACATATATGATTGTTG
*
19576749 CAAACTAACTATCG
119 CAAACTAACAATCG
* *
19576763 AAGATCATGCAAAACGATTTACAGGAGCCTCGAGGGCCAATATGGATATAAAACGAATCGACTGA
1 AAGATCATGCAAAACAATTTACACGAGCCTCGAGGGCCAATATGGATATAAAACGAATCGACTGA
19576828 TTCAGAAATGAAATGAGATAATGAAATGAATATATATACATATATGATTGTTGCAAACTAACAAT
66 TTCAGAAATGAAATGAGATAATGAAATGAATATATATACATATATGATTGTTGCAAACTAACAAT
19576893 CG
131 CG
19576895 A
1 A
19576896 GGTAAGCATA
Statistics
Matches: 122, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
132 30 0.25
136 8 0.07
137 1 0.01
138 37 0.30
139 4 0.03
140 1 0.01
143 41 0.34
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (132 bp):
AAGATCATGCAAAACAATTTACACGAGCCTCGAGGGCCAATATGGATATAAAACGAATCGACTGA
TTCAGAAATGAAATGAGATAATGAAATGAATATATATACATATATGATTGTTGCAAACTAACAAT
CG
Found at i:19581133 original size:18 final size:18
Alignment explanation
Indices: 19581103--19581137 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19581093 ATGTTGTACA
19581103 TGTTATGACATTGTGATT
1 TGTTATGACATTGTGATT
19581121 TGTTGATGA-ATTGTGAT
1 TGTT-ATGACATTGTGAT
19581138 GATCAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.49
Consensus pattern (18 bp):
TGTTATGACATTGTGATT
Found at i:19587345 original size:69 final size:68
Alignment explanation
Indices: 19587233--19587361 Score: 186
Period size: 69 Copynumber: 1.9 Consensus size: 68
19587223 ACCATGGTTG
* * *
19587233 GACCATAGCAAGACTATGGCAGTTTTCAGACACAAGACTATGGTTGGACCATGGTAATGTTTACG
1 GACCATAGCAAGACTATGACAGTTTTCAGACACAAGACCATGGTTGGACCATGGCAATGTTTACG
19587298 TAA
66 TAA
* * **
19587301 GACCATAGCAAGGCTATGACATTTGTTCAGACGTAAGACCATGGTTGGACCATGGCAATGT
1 GACCATAGCAAGACTATGACAGTT-TTCAGACACAAGACCATGGTTGGACCATGGCAATGT
19587362 ATATATATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
68 21 0.40
69 32 0.60
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (68 bp):
GACCATAGCAAGACTATGACAGTTTTCAGACACAAGACCATGGTTGGACCATGGCAATGTTTACG
TAA
Found at i:19593047 original size:24 final size:25
Alignment explanation
Indices: 19592982--19593048 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
19592972 TTCCTGTACA
* *
19592982 TGTATGCTCATACGAGCTTTGAATC
1 TGTATGCTCATACGAGCTATGAAAC
* * *
19593007 GGTATGCTCTTATGAGCTAT-AAAC
1 TGTATGCTCATACGAGCTATGAAAC
*
19593031 TGTAAGCTCATACGAGCT
1 TGTATGCTCATACGAGCT
19593049 GAATATTGTT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
24 17 0.52
25 16 0.48
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TGTATGCTCATACGAGCTATGAAAC
Found at i:19593063 original size:25 final size:24
Alignment explanation
Indices: 19593044--19593125 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 24
19593034 AAGCTCATAC
19593044 GAGCTGAATATTGTTAAGCTCTCTT
1 GAGCTGAATATTGTTAAGCTCTC-T
* *
19593069 GAGCTGAATATTAG-AAAGCTCATGT
1 GAGCTGAATATT-GTTAAGCTC-TCT
* * *
19593094 GAGCTAAATATCGGTAAGCTCTCT
1 GAGCTGAATATTGTTAAGCTCTCT
19593118 CGAGCTGA
1 -GAGCTGA
19593126 GAATCGGTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
24 3 0.07
25 41 0.89
26 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (24 bp):
GAGCTGAATATTGTTAAGCTCTCT
Found at i:19599214 original size:47 final size:47
Alignment explanation
Indices: 19599162--19599614 Score: 710
Period size: 47 Copynumber: 9.6 Consensus size: 47
19599152 GATAATTGTG
* *
19599162 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
19599209 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19599256 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19599305 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19599354 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19599401 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19599448 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19599495 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
19599542 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
19599589 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
19599615 TCCCGAAGGG
Statistics
Matches: 379, Mismatches: 23, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 282 0.74
48 2 0.01
49 93 0.25
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:19601726 original size:52 final size:52
Alignment explanation
Indices: 19601664--19601768 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
19601654 GCCAAAGACC
*
19601664 ATCCATGGTTAAAGCTGCCCATGAAGAAGACAAATACCAACAAAATTTGGAT
1 ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTGGAT
*
19601716 ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTTGAT
1 ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTGGAT
19601768 A
1 A
19601769 GACTTAACCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (52 bp):
ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTGGAT
Found at i:19602878 original size:30 final size:31
Alignment explanation
Indices: 19602842--19602900 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
19602832 TTCGAGCTTG
19602842 GGGACAAAAATGTAATTATG-CAAAAGTTTA
1 GGGACAAAAATGTAATTATGACAAAAGTTTA
* *
19602872 GGGACAAAATTGTAATTTTGACAAAAGTT
1 GGGACAAAAATGTAATTATGACAAAAGTT
19602901 GAGTCAAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (31 bp):
GGGACAAAAATGTAATTATGACAAAAGTTTA
Found at i:19603431 original size:51 final size:50
Alignment explanation
Indices: 19603373--19603708 Score: 336
Period size: 51 Copynumber: 6.6 Consensus size: 50
19603363 GATGAACATG
* * *
19603373 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-TTGGTCACA
* * * * * *
19603424 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATTTGGTCACA
* * * * * *
19603475 TGTGTAGTACTGTGTGAAGGCTACTAAGTGAATCAATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-TTGGTCACA
* * * *
19603526 TGTGTAGTACTAAGTGAAGACTACTATGTGTACCGA-AAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TTTGGTCACA
* * * * * *
19603577 TGTGTAGTACCATGTGAAGGCTACTATGTGAACCG-TAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAT-AAATTTGGTCACA
* * *
19603627 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAGGTTGATCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TTTGGTCACA
19603677 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
19603709 TCAAATGATA
Statistics
Matches: 238, Mismatches: 40, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.01
50 85 0.36
51 145 0.61
52 5 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATTTGGTCACA
Found at i:19603555 original size:102 final size:101
Alignment explanation
Indices: 19603372--19603712 Score: 427
Period size: 102 Copynumber: 3.4 Consensus size: 101
19603362 CGATGAACAT
* * *
19603372 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCAATAAATAATGGTCACATGTGTAGTACTAA
*
19603437 GTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCAC
66 GTGAAGGCTACTATGTGTACCGA-AAGCTTTGGTCAC
* * *
19603474 GTGTGTAGTACTGTGTGAAGGCTACTAAGTGAATCAATAAATGATGGTCACATGTGTAGTACTAA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCAATAAATAATGGTCACATGTGTAGTACTAA
*
19603539 GTGAAGACTACTATGTGTACCGAAAAGCTTTGGTCAC
66 GTGAAGGCTACTATGTGTACCG-AAAGCTTTGGTCAC
* * ** * * *
19603576 GTGTGTAGTACCATGTGAAGGCTACTATGTGAA-CCGTAAA-ACTTGATCACGTGTGTAGTACTA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCAATAAATA-ATGGTCACATGTGTAGTACTA
* * * * *
19603639 TGTGAAGGCTACTACGTGAACCGTAAAG-GTTGATCAC
65 AGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGTCAC
* *
19603676 ATGTGTAGTACTATGTGAAGGCTACTACGTGTATCAA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCAA
19603713 ATGATAAAAG
Statistics
Matches: 208, Mismatches: 28, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
100 36 0.17
101 47 0.23
102 124 0.60
103 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGAATCAATAAATAATGGTCACATGTGTAGTACTAA
GTGAAGGCTACTATGTGTACCGAAAGCTTTGGTCAC
Found at i:19611380 original size:23 final size:24
Alignment explanation
Indices: 19611352--19611397 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19611342 AAAGATAAAG
* *
19611352 ATAAAATAA-AGAATAAAAGGTTA
1 ATAAAATAAGAAAACAAAAGGTTA
19611375 ATAAAATAAGAAAACAAAAGGTT
1 ATAAAATAAGAAAACAAAAGGTT
19611398 TTCTTCTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.20
Consensus pattern (24 bp):
ATAAAATAAGAAAACAAAAGGTTA
Found at i:19613105 original size:20 final size:20
Alignment explanation
Indices: 19613071--19613124 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
19613061 TAAGTTTATG
* *
19613071 CTAATTAAATTGAATGGAAA
1 CTAAGTAAATGGAATGGAAA
* *
19613091 GTAAGTAAATGGAATGGTAA
1 CTAAGTAAATGGAATGGAAA
19613111 CTAAGTAAATGGAA
1 CTAAGTAAATGGAA
19613125 CGGTTCTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.48, C:0.04, G:0.22, T:0.26
Consensus pattern (20 bp):
CTAAGTAAATGGAATGGAAA
Found at i:19623090 original size:16 final size:16
Alignment explanation
Indices: 19623069--19623101 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19623059 AATACTTGTT
19623069 TTTATTGATCTCTGAA
1 TTTATTGATCTCTGAA
19623085 TTTATTGATCTCTGAA
1 TTTATTGATCTCTGAA
19623101 T
1 T
19623102 CCTCTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTATTGATCTCTGAA
Found at i:19624113 original size:89 final size:89
Alignment explanation
Indices: 19623957--19624218 Score: 359
Period size: 89 Copynumber: 2.9 Consensus size: 89
19623947 AAGGCTGGTG
* * *
19623957 TCTTCGATCTGCTTTGCTACCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
1 TCTTTGATCTGCTTTGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTTAACCTACTCCACTGC
*
19624022 TTCTCAGAGAGATAAGGCT-AGCTA
66 TTCTCAGGGAGATAAGGCTGA-CTA
* * * * *
19624046 TCTTTGATCTGCTTCGCTGCCAATACAGGAAGACAAGATTTGCTATCTTTAACCTATTCCACTGC
1 TCTTTGATCTGCTTTGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTTAACCTACTCCACTGC
19624111 TTCTCAGGGAGATAAGGCTGACTA
66 TTCTCAGGGAGATAAGGCTGACTA
* * *
19624135 TCTTTGATCTACTTTGCTGCCAGTACAAGAAGACAAGATCTACTAT-TTTCAATCTACTCCACTG
1 TCTTTGATCTGCTTTGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTT-AACCTACTCCACTG
*
19624199 -TTGTTCAGGGAGATAAGGCT
65 CTT-CTCAGGGAGATAAGGCT
19624219 TTGTAGTTTC
Statistics
Matches: 152, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
88 5 0.03
89 146 0.96
90 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (89 bp):
TCTTTGATCTGCTTTGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTTAACCTACTCCACTGC
TTCTCAGGGAGATAAGGCTGACTA
Found at i:19636903 original size:48 final size:48
Alignment explanation
Indices: 19636843--19636987 Score: 173
Period size: 48 Copynumber: 3.0 Consensus size: 48
19636833 GATTTCTCGA
* * * * * *
19636843 TGGCCTATACATAGTCCGTACCACCTTTGTGTAATAACAGACTCTCAG
1 TGGCCTACACATAGTCCGTGCCACCCTTGTATAATAACAGAATATCAG
* **
19636891 TGGCCTACACATAGTCCGTGCCACCCTTGTATATTAACAGAATATTGG
1 TGGCCTACACATAGTCCGTGCCACCCTTGTATAATAACAGAATATCAG
* * **
19636939 TGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATCAG
1 TGGCCTACACATAGTCCGTGCCACCCTTGTATAATAACAGAATATCAG
19636987 T
1 T
19636988 ACGCATAGTA
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
TGGCCTACACATAGTCCGTGCCACCCTTGTATAATAACAGAATATCAG
Found at i:19640618 original size:27 final size:26
Alignment explanation
Indices: 19640580--19640661 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
19640570 GATCCCATGT
** *
19640580 TTTATGTCCTGGCAGACTTTCCTGTG
1 TTTATGTCCTGGCAGACTACCCTATG
*
19640606 TTTATTGTACTGGCAGACTACCCTATG
1 TTTA-TGTCCTGGCAGACTACCCTATG
* *
19640633 TTTACTGTCCTGACAGACT-CTCTATG
1 TTTA-TGTCCTGGCAGACTACCCTATG
19640659 TTT
1 TTT
19640662 CCATGACCGA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 13 0.28
27 34 0.72
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.41
Consensus pattern (26 bp):
TTTATGTCCTGGCAGACTACCCTATG
Found at i:19641987 original size:14 final size:13
Alignment explanation
Indices: 19641964--19641998 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
19641954 TAAATTTTTA
19641964 GCTTTTCAGAAGT
1 GCTTTTCAGAAGT
19641977 GCTTATTCAGAAGT
1 GCTT-TTCAGAAGT
19641991 GCTTTTCA
1 GCTTTTCA
19641999 AAAGCACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (13 bp):
GCTTTTCAGAAGT
Found at i:19642518 original size:13 final size:13
Alignment explanation
Indices: 19642502--19642567 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
19642492 TTTAAACCAA
*
19642502 ACTTTTCAAAATC
1 ACTTTTCAAAAGC
*
19642515 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* **
19642528 ACTTTTCCACGGC
1 ACTTTTCAAAAGC
19642541 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
19642554 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
19642567 A
1 A
19642568 TTGCCAAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:19642911 original size:41 final size:42
Alignment explanation
Indices: 19642854--19642940 Score: 167
Period size: 41 Copynumber: 2.1 Consensus size: 42
19642844 TAGCTAAACG
19642854 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTA-
1 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTAT
19642895 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTAT
1 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTAT
19642937 ATAT
1 ATAT
19642941 GTACATGAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 41 0.91
42 4 0.09
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (42 bp):
ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTAT
Found at i:19642949 original size:41 final size:41
Alignment explanation
Indices: 19642854--19642953 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 41
19642844 TAGCTAAACG
* *
19642854 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTA
1 ATATGTGACATGAAATGTGATTGAAATTGGTATACTATGTA
* *
19642895 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTA
1 ATATGTGACATGAAATGTGATTGAAATTGGTATACTATGTA
19642936 TATATGT-ACATG-AATGTG
1 -ATATGTGACATGAAATGTG
19642954 GAAAATTACA
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
40 6 0.11
41 45 0.80
42 5 0.09
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (41 bp):
ATATGTGACATGAAATGTGATTGAAATTGGTATACTATGTA
Found at i:19644081 original size:75 final size:75
Alignment explanation
Indices: 19643996--19644220 Score: 360
Period size: 75 Copynumber: 3.0 Consensus size: 75
19643986 TAAAAACCAA
* * *
19643996 GATTATTCCCTTATTAACAGAGAAGGCAAATGGAAAGTTAGAAAAAGAAATTATATTCTTTCCAA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
*
19644061 AAGATTATTG
66 AAGAATATTG
* * *
19644071 TATTATTCCCTTATTAATAAAGAATACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
19644136 AAGAATATTG
66 AAGAATATTG
* *
19644146 GATTATTCCCTAATTAATAGAAAAGACAAATGGAAAGTTAGAAAAAAGGAATTATATTCTTTCCA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAG-AAAAAGGAATTATATTCTTTCCA
19644211 AAAGAATATT
65 AAAGAATATT
19644221 AATTTTCATG
Statistics
Matches: 137, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 104 0.76
76 33 0.24
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (75 bp):
GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
AAGAATATTG
Found at i:19644554 original size:139 final size:138
Alignment explanation
Indices: 19644195--19644616 Score: 652
Period size: 139 Copynumber: 3.1 Consensus size: 138
19644185 AGAAAAAAGG
* *
19644195 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTC--TTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
19644258 TATAACTGTATATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
19644323 CATATATT
131 CATATATT
19644331 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
** **
19644396 TGCAACTGTTTATATTAATAAGA-TCAATAAAATATATACAATTAATATTTTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAA-ATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
19644460 TCATATATT
130 TCATATATT
* * *
19644469 AGTTATATTCCTTCTAAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
1 AATTATATTCTTTC-CAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
* * * * * *
19644534 ATATAACTATTTATATTAATAAATTTGGTTAAACATATACAATAAATATTTTGTATGAATAAAAT
65 ATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
*
19644599 GCATATATT
130 TCATATATT
19644608 AATTATATT
1 AATTATATT
19644617 TATGTTCTCT
Statistics
Matches: 259, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
136 37 0.14
138 103 0.40
139 119 0.46
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.44
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:19646172 original size:24 final size:24
Alignment explanation
Indices: 19646145--19646193 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
19646135 ATTAATTACT
19646145 TAAAACTTATAATGCAAGAATAAC
1 TAAAACTTATAATGCAAGAATAAC
19646169 TAAAACTTATAATGCAAGAATAAC
1 TAAAACTTATAATGCAAGAATAAC
19646193 T
1 T
19646194 TAGTCATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (24 bp):
TAAAACTTATAATGCAAGAATAAC
Found at i:19646932 original size:14 final size:14
Alignment explanation
Indices: 19646913--19646939 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19646903 CATTTCTTGG
19646913 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
19646927 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
19646940 ACTGAACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:19649823 original size:30 final size:30
Alignment explanation
Indices: 19649766--19649827 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
19649756 GTTTTTTGAA
* ** * *
19649766 AATATTTACCAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGAAACCAAATTTTT
19649796 AATATTTACAAAAAGAGAAACCAAATTTTT
1 AATATTTACAAAAAGAGAAACCAAATTTTT
19649826 AA
1 AA
19649828 AAATAATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGAAACCAAATTTTT
Found at i:19661945 original size:102 final size:101
Alignment explanation
Indices: 19661763--19662102 Score: 470
Period size: 102 Copynumber: 3.4 Consensus size: 101
19661753 GATGAACACA
* * *
19661763 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAG
* *
19661828 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCATG
66 TGAAGGCTACTATGTGTACCGA-AAGCTTTGGTCACG
*
19661865 TTTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAG
*
19661930 TGAAGGCTATTATGTGTACCGAAAAGCTTTGGTCACG
66 TGAAGGCTACTATGTGTACCG-AAAGCTTTGGTCACG
* * * * * *
19661967 TGTATAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACCTGTGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTACTAA
* * *
19662030 GTGAAGGCTACTATGTGAACCGTAAAAC-TTGATCACG
65 GTGAAGGCTACTATGTGTACCG-AAAGCTTTGGTCACG
*
19662067 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
19662103 ATGATAAAAG
Statistics
Matches: 213, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
100 41 0.19
101 46 0.22
102 125 0.59
103 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (101 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAG
TGAAGGCTACTATGTGTACCGAAAGCTTTGGTCACG
Found at i:19662030 original size:50 final size:50
Alignment explanation
Indices: 19661763--19662096 Score: 343
Period size: 51 Copynumber: 6.6 Consensus size: 50
19661753 GATGAACACA
* * ** * *
19661763 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATA-ATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGGTCACG
* * * * * *
19661814 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGTCATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGTCACG
* * * *
19661865 TTTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGGTCACG
* * * *
19661916 TGTGTAGTACTAAGTGAAGGCTATTATGTGTACCG-AAAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGTCACG
* * *
19661967 TGTATAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACC
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCACG
* *
19662017 TGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCACG
19662067 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
19662097 TATCGAATGA
Statistics
Matches: 234, Mismatches: 39, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.00
49 4 0.02
50 85 0.36
51 137 0.59
52 6 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGTCACG
Found at i:19668046 original size:8 final size:8
Alignment explanation
Indices: 19668033--19668058 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
19668023 ACATGACCTT
19668033 CAACACTC
1 CAACACTC
19668041 CAACACTC
1 CAACACTC
19668049 CAACACTC
1 CAACACTC
19668057 CA
1 CA
19668059 CTTAACCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.50, G:0.00, T:0.12
Consensus pattern (8 bp):
CAACACTC
Found at i:19668945 original size:18 final size:18
Alignment explanation
Indices: 19668912--19668960 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
19668902 GGGCTTGACC
* *
19668912 TTGCCATTGTCCTTAGGCT
1 TTGCCTTTG-CCTTAGCCT
19668931 TTGCCTTTGCCTTAGCCT
1 TTGCCTTTGCCTTAGCCT
*
19668949 TAGCCTTT-CCTT
1 TTGCCTTTGCCTT
19668961 TGCCCTTGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 4 0.15
18 15 0.56
19 8 0.30
ACGTcount: A:0.08, C:0.31, G:0.16, T:0.45
Consensus pattern (18 bp):
TTGCCTTTGCCTTAGCCT
Found at i:19672313 original size:56 final size:51
Alignment explanation
Indices: 19672233--19672422 Score: 172
Period size: 50 Copynumber: 3.7 Consensus size: 51
19672223 GATGAGATCT
* *
19672233 CATGTAAGACCATGT-TTGGAACATGGCATTGGCATCATTGAGGTTATGAGGGGTCC
1 CATGTAAGACCATGTCTAGG-ACATGGCATTGGCA-C--TGA-G-TATGAGAGGTCC
** *
19672289 CATGTAAGACCATGTCTAGGACATGGTGTTGGCACCGAG-ATGAGAGGTCC
1 CATGTAAGACCATGTCTAGGACATGGCATTGGCACTGAGTATGAGAGGTCC
** * * **
19672339 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCT-A-TATGAGAACTCC
1 CATGTAAGACCATGTCTAGGACATGGCATTGGCA-CTGAGTATGAGAGGTCC
* *
19672389 CATGTAAGACCATATCTAGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTAGGACATGGCATTGGCA
19672423 GTACAAGAAA
Statistics
Matches: 111, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
50 76 0.68
51 1 0.01
52 1 0.01
53 2 0.02
55 1 0.01
56 27 0.24
57 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (51 bp):
CATGTAAGACCATGTCTAGGACATGGCATTGGCACTGAGTATGAGAGGTCC
Found at i:19672470 original size:49 final size:50
Alignment explanation
Indices: 19672286--19672471 Score: 169
Period size: 50 Copynumber: 3.7 Consensus size: 50
19672276 TTATGAGGGG
* ** * * * **
19672286 TCCCATGTAAGACCATGTCTAGGACATGGTGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACAAGAGAAC
** * * *
19672336 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACAAGAGAAC
* * * *
19672386 TCCCATGTAAGACCATATCTAGGATATGGCATTGGCA-GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACAAGAGAAC
* * *
19672434 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19672472 TGTTATATTT
Statistics
Matches: 110, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 3 0.03
49 36 0.33
50 71 0.65
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACAAGAGAAC
Found at i:19676956 original size:5 final size:5
Alignment explanation
Indices: 19676946--19676973 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
19676936 GTAATTAGTC
19676946 AATTA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AATTA AATTA AATTA AAT
19676974 CAAAATGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:19677085 original size:17 final size:17
Alignment explanation
Indices: 19677063--19677097 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
19677053 TTTGGAAAGT
19677063 TCAATTCTAAATTGGTA
1 TCAATTCTAAATTGGTA
19677080 TCAATTCTAAATTGGTA
1 TCAATTCTAAATTGGTA
19677097 T
1 T
19677098 GTGATTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (17 bp):
TCAATTCTAAATTGGTA
Found at i:19687723 original size:6 final size:6
Alignment explanation
Indices: 19687712--19687778 Score: 125
Period size: 6 Copynumber: 11.2 Consensus size: 6
19687702 GTCAAAACTA
*
19687712 TTCCTT TTCCTT TTTCTT TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT
1 TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT
19687760 TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT T
19687779 ACATCGATGC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCCTT
Found at i:19689314 original size:41 final size:41
Alignment explanation
Indices: 19689269--19689399 Score: 101
Period size: 41 Copynumber: 3.1 Consensus size: 41
19689259 AAAACATGTC
19689269 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
* ** * * *
19689310 ATAAAGA-GTAT-GGGT-G-GACAAGATGTTATGG-CTAAAAACA
1 ATAAACATGT-TGGGGTAGTG-CATTATG-TAAGGATTAATAA-A
19689350 TGTCATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ----ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
19689395 ATAAA
1 ATAAA
19689400 GAGCATGGGC
Statistics
Matches: 65, Mismatches: 12, Indels: 26
0.63 0.12 0.25
Matches are distributed among these distances:
38 1 0.02
39 11 0.17
40 11 0.17
41 12 0.18
44 7 0.11
45 11 0.17
46 11 0.17
47 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.29
Consensus pattern (41 bp):
ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
Found at i:19689377 original size:85 final size:85
Alignment explanation
Indices: 19689230--19689408 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
19689220 GGCCGGCCAT
19689230 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
19689295 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
19689315 GAGTATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
19689380 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
19689400 GAGCATGGG
1 GAGCATGGG
19689409 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:19690709 original size:79 final size:81
Alignment explanation
Indices: 19690573--19690755 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
19690563 TCGAATGATG
* *
19690573 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
19690637 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
19690652 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
19690714 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
19690732 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19690756 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:19690771 original size:40 final size:40
Alignment explanation
Indices: 19690574--19690757 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
19690564 CGAATGATGT
* * * *
19690574 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
19690614 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
19690654 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19690692 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19690733 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
19690758 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:19690779 original size:79 final size:79
Alignment explanation
Indices: 19690626--19690790 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
19690616 GGACTAAGAT
* **
19690626 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
19690691 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
19690705 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
19690768 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
19690784 CCGAAGG
1 CCGAAGG
19690791 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:19697311 original size:85 final size:85
Alignment explanation
Indices: 19697168--19697346 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
19697158 GGCCGGCCAT
19697168 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
19697233 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
19697253 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
19697318 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
19697338 GAGCATGGG
1 GAGCATGGG
19697347 CAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:19698625 original size:39 final size:40
Alignment explanation
Indices: 19698520--19698701 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
19698510 AATGATGTCT
* * *
19698520 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCC
*
19698560 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
19698600 GGGCTAAG-CCCGAAGGTATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
19698639 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
19698679 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
19698702 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:19698723 original size:79 final size:79
Alignment explanation
Indices: 19698570--19698734 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
19698560 GGACTAAGAT
* * **
19698570 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGTATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
19698635 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
19698649 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
19698712 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
19698728 CCGAAGG
1 CCGAAGG
19698735 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.66
80 23 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:19704038 original size:144 final size:144
Alignment explanation
Indices: 19703763--19704040 Score: 317
Period size: 144 Copynumber: 1.9 Consensus size: 144
19703753 TTTAGGGTGG
* * * * * *
19703763 CAAGCTTAACTCAATTTACTCAAATAAGTGAAGGTTGTGAGTATAACTCATTTAACTTTTAAACA
1 CAAGCTTAACTCAACTTACTCAAATAAATAAAGGTTGTAAGTATAACTCATCTAACCTTTAAACA
* * * * * * *
19703828 TTGGCTGGGAGAGTAAGACCGCGAGCTATGTTGAAGTTTATCAGCTGGAAGAGTAGGTCCGCGAG
66 TAGGCTGAGAGAGTAAGACCACAAGCTATGTTGAAGTATATCAGCTGGAAGAGTAGATCCACGAG
19703893 CTGTTCTAGAGTAC
131 CTGTTCTAGAGTAC
* *
19703907 CAAGCTTAACTCAGCTTACTCAAATAAATAAAGGTTTTAAGTATAACTCATCTAACCTTTAAACA
1 CAAGCTTAACTCAACTTACTCAAATAAATAAAGGTTGTAAGTATAACTCATCTAACCTTTAAACA
* * ** * * * *
19703972 TCAGTCT-AGAGCGTAAGTTCACAAGCTGTGTTGAAG-ATATTCAGCTGGGAGCGTAGATCCATG
66 T-AGGCTGAGAGAGTAAGACCACAAGCTATGTTGAAGTATA-TCAGCTGGAAGAGTAGATCCACG
19704035 AGCTGT
129 AGCTGT
19704041 CAGCTGGGAG
Statistics
Matches: 109, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
143 2 0.02
144 104 0.95
145 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (144 bp):
CAAGCTTAACTCAACTTACTCAAATAAATAAAGGTTGTAAGTATAACTCATCTAACCTTTAAACA
TAGGCTGAGAGAGTAAGACCACAAGCTATGTTGAAGTATATCAGCTGGAAGAGTAGATCCACGAG
CTGTTCTAGAGTAC
Found at i:19704066 original size:28 final size:28
Alignment explanation
Indices: 19704012--19704066 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
19704002 TTGAAGATAT
* **
19704012 TCAGCTGGGAGCGTAGATCCATGAGCTG
1 TCAGCTGGGAGCATAGATCCACAAGCTG
* *
19704040 TCAGCTGGGAGCATAGGTCCGCAAGCT
1 TCAGCTGGGAGCATAGATCCACAAGCT
19704067 ATTCCAAAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.35, T:0.20
Consensus pattern (28 bp):
TCAGCTGGGAGCATAGATCCACAAGCTG
Found at i:19704351 original size:103 final size:103
Alignment explanation
Indices: 19704063--19704377 Score: 477
Period size: 104 Copynumber: 3.0 Consensus size: 103
19704053 TAGGTCCGCA
* * *
19704063 AGCTATTCCAAAGTAGCGAGCTTAACTCAGCTTACTCAAATAAATGAAGGTTGTGAGTATAACTC
1 AGCTGTTCCAGAGTAGC-AACTTAACTCAGCTTACTCAAATAAATGAAGGTTGTGAGTATAACTC
** *
19704128 ATCTAACCTTTAAACATCAACTGGGAATGTAGGTCTGTG
65 ATCTAACCTTTAAACATCAACTGGGAACATAGTTCTGTG
19704167 AGCTGTTCCAGAGTAGCAAGCTTAACTCAGCTTACTCAAATAAATGAAGGTTGTGAGTATAACTC
1 AGCTGTTCCAGAGTAGCAA-CTTAACTCAGCTTACTCAAATAAATGAAGGTTGTGAGTATAACTC
* *
19704232 ATCTAACCTTTCAACATCAACTGGGAACATAATTCTGTG
65 ATCTAACCTTTAAACATCAACTGGGAACATAGTTCTGTG
* * ** *
19704271 AGCTGTTCTAGAGTAGCAACTTAACTCAACTTACTCAAATAAATGAACATTTTGAGTATAACTCA
1 AGCTGTTCCAGAGTAGCAACTTAACTCAGCTTACTCAAATAAATGAAGGTTGTGAGTATAACTCA
* *
19704336 TCTAACCTTTAAACATCAGCTGGGAACATAGTTTTGTG
66 TCTAACCTTTAAACATCAACTGGGAACATAGTTCTGTG
19704374 AGCT
1 AGCT
19704378 ATGTTGACAA
Statistics
Matches: 193, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
103 81 0.42
104 112 0.58
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (103 bp):
AGCTGTTCCAGAGTAGCAACTTAACTCAGCTTACTCAAATAAATGAAGGTTGTGAGTATAACTCA
TCTAACCTTTAAACATCAACTGGGAACATAGTTCTGTG
Found at i:19705991 original size:20 final size:20
Alignment explanation
Indices: 19705966--19706004 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19705956 ACGATTGAAC
*
19705966 GACACTTCTTTAGAACTAAT
1 GACACTTCTTCAGAACTAAT
19705986 GACACTTCTTCAGAACTAA
1 GACACTTCTTCAGAACTAA
19706005 CTCTTTCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (20 bp):
GACACTTCTTCAGAACTAAT
Found at i:19707585 original size:16 final size:15
Alignment explanation
Indices: 19707560--19707591 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
19707550 ACCAAGCATG
19707560 TCCATAGCTAGTCAT
1 TCCATAGCTAGTCAT
19707575 TCCATTAGCTAGTCAT
1 TCCA-TAGCTAGTCAT
19707591 T
1 T
19707592 ATCAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (15 bp):
TCCATAGCTAGTCAT
Found at i:19713696 original size:30 final size:30
Alignment explanation
Indices: 19713661--19713719 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
19713651 TATTTTATTG
*
19713661 TTAATTTTTTTATGATTTTAAAGACATTTA
1 TTAATTTTGTTATGATTTTAAAGACATTTA
* * *
19713691 TTAATTTTGTTATTATTTTAGAGGCATTT
1 TTAATTTTGTTATGATTTTAAAGACATTT
19713720 GCTTATTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATGATTTTAAAGACATTTA
Found at i:19724091 original size:19 final size:21
Alignment explanation
Indices: 19724055--19724124 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 21
19724045 ATTTTTTTTA
19724055 ATATTTACATTATAATATAAT
1 ATATTTACATTATAATATAAT
*
19724076 ATATTTA-ATT-TTATATAAT
1 ATATTTACATTATAATATAAT
19724095 ATAATTTACA-TA-AA-ATAAT
1 AT-ATTTACATTATAATATAAT
19724114 ATAATTTACAT
1 AT-ATTTACAT
19724125 AAAATATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
19 25 0.58
20 10 0.23
21 8 0.19
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTTACATTATAATATAAT
Found at i:19724125 original size:19 final size:19
Alignment explanation
Indices: 19724090--19724130 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
19724080 TTAATTTTAT
19724090 ATAATATAATTTACATAAA
1 ATAATATAATTTACATAAA
19724109 ATAATATAATTTACATAAA
1 ATAATATAATTTACATAAA
19724128 ATA
1 ATA
19724131 TTAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATATAATTTACATAAA
Found at i:19725333 original size:18 final size:18
Alignment explanation
Indices: 19725312--19725346 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19725302 TTTTTTAAAG
19725312 AAAAAAT-TTAAAATTTTT
1 AAAAAATGTT-AAATTTTT
19725330 AAAAAATGTTAAATTTT
1 AAAAAATGTTAAATTTT
19725347 ACTTTCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAAAAATGTTAAATTTTT
Found at i:19725887 original size:11 final size:12
Alignment explanation
Indices: 19725854--19725881 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19725844 CGGCCCACCC
19725854 ATATTAATTTTT
1 ATATTAATTTTT
19725866 ATATTAATTTTT
1 ATATTAATTTTT
19725878 ATAT
1 ATAT
19725882 AGTTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:19726047 original size:30 final size:30
Alignment explanation
Indices: 19726011--19726075 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
19726001 CAACTTAACA
* *
19726011 AACAAATGCCTCTAAAATAATAATAAAATT
1 AACAAATGCCTCTAAAACAATAACAAAATT
*
19726041 AACAAATGCCTTTAAAACAATAACAAAATT
1 AACAAATGCCTCTAAAACAATAACAAAATT
19726071 AACAA
1 AACAA
19726076 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.23
Consensus pattern (30 bp):
AACAAATGCCTCTAAAACAATAACAAAATT
Found at i:19726130 original size:22 final size:22
Alignment explanation
Indices: 19726105--19726147 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
19726095 TATCCAAACA
19726105 ATAAAAACAAAATAGTAGCAAC
1 ATAAAAACAAAATAGTAGCAAC
* **
19726127 ATAATAGTAAAATAGTAGCAA
1 ATAAAAACAAAATAGTAGCAA
19726148 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAAAAACAAAATAGTAGCAAC
Found at i:19726151 original size:11 final size:11
Alignment explanation
Indices: 19726112--19726152 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
19726102 ACAATAAAAA
19726112 CAAAATAGTAG
1 CAAAATAGTAG
* *
19726123 CAACATAATAG
1 CAAAATAGTAG
*
19726134 TAAAATAGTAG
1 CAAAATAGTAG
19726145 CAAAATAG
1 CAAAATAG
19726153 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:19727963 original size:3 final size:3
Alignment explanation
Indices: 19727766--19727946 Score: 86
Period size: 3 Copynumber: 61.7 Consensus size: 3
19727756 TTTATTGTTG
* * *
19727766 TTA TTA TTA TTA TTA TTA TCA TTA CTA GTA TTA TTA TTA GTT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * ** * ** * *
19727811 TTG CTA TT- TTA TTA CTA TTA ACA TCA TTA TTA GAA TTA TTA TTA ATG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
19727858 TTA TTA CTA TTTA TT- TTA TT- TTA TT- TT- TTC TTA TTA TTA ATA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * ** * *
19727900 CTA TTA ATA TTG TTA TTG CCA TTA TTA TTA TAA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19727947 TTCATTACCA
Statistics
Matches: 128, Mismatches: 43, Indels: 14
0.69 0.23 0.08
Matches are distributed among these distances:
2 12 0.09
3 112 0.88
4 4 0.03
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:19733244 original size:19 final size:19
Alignment explanation
Indices: 19733220--19733266 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
19733210 AACATCTCCT
*
19733220 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
19733239 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
19733258 TATGCATTA
1 TTTGCATTA
19733267 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:19737469 original size:24 final size:24
Alignment explanation
Indices: 19737437--19737484 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19737427 GCTACAATAG
19737437 AGCATGTTGAAGTAACAAACCTTA
1 AGCATGTTGAAGTAACAAACCTTA
19737461 AGCATGTTGAAGTAACAAACCTTA
1 AGCATGTTGAAGTAACAAACCTTA
19737485 TTCCCCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (24 bp):
AGCATGTTGAAGTAACAAACCTTA
Found at i:19737925 original size:45 final size:44
Alignment explanation
Indices: 19737723--19738986 Score: 579
Period size: 45 Copynumber: 27.6 Consensus size: 44
19737713 CATATCAAAC
* * * * ** *
19737723 CTTATCTCCCTGAAGTCGCAATGGAGCAGGTTAAAAATAAATCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGCAT-ACT-AAT
* * ** *
19737769 CTTATCTCCTTGAAGTTGCAGTAGAGCAGATTTTAGACGGGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA--TT-GA--GCATACTAAT
*
19737818 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-CACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGCATACTAAT
* * *
19737862 CTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGATCATACTAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGCATACTAA-T
* * * *
19737907 CTTATCTCCTTGAAGTTGCAGTAGAGCAGACTGAAG-ATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGCATA-CTAAT
* * * *
19737952 CTTATTTCACTGAAGTTGCAGTGGAACAGATTGAAGCTATAGATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGC-AT--ACT--A-AT
* * *
19738003 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATA-TCAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGCATACT-AAT
** * * ** * *
19738043 CATTATCTCTTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAAC
1 C-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGCAT-ACT-AAT
* * ** *
19738090 CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGATGGGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---GA--GCATACTAAT
*
19738139 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGC-TACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGCATACTAAT
* * *
19738183 CTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGA--ATAAATCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGCAT-ACT-AA-T
* * * *
19738228 CTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAG-ATAACGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGCAT-ACTAAT
* * *
19738273 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGC-AT--A--CT-AAT
* * *
19738324 CTTATCTCCCTGAAGTTGCAGTGGAGAAAATTGAAGC-CACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGCATACTAAT
* * * * * *
19738368 CTTATCCCCCTGAAGTTGCACTGGGGTAAATTGA--ATAAATCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGCAT-ACT-AA-T
* * *
19738413 CTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAG-ATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGCATA-CTAAT
* * *
19738458 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGC-AT--A--CTA-AT
* * * * * *
19738509 CTTATTTCTCTGAAGTTGCAATAGAGCAGA-T---CATATCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGCATA-CTAAT
* * ** *
19738550 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGCAT-ACT-AAT
* * *
19738596 CTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAG-ATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGCATA-CTAAT
* * * * * * *
19738641 CTTATTTCCTTGATGTTACAGTGGAACAAATTGAAGCTATAAATTACGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGC-AT--ACTA---AT
** * * *
19738692 CTTATCTCTTTGAAGTTGCAGTAGAGCAGA-T---CATATTAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGCATACT-AAT
* * * * * ** *
19738733 CTTATCTTCTTGAAGTTGTAGTGGAACATG-TTAAAAATAAATCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAGCAT-ACT-AAT
* * * *
19738779 CTTATCTCCTTAAAGTTGTAGTGGAGCAGATTGAAGACAGGCTACGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AG-CA---TACTAAT
* *
19738828 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATA--AAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAG-CATACTAAT
* * * * * *
19738872 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGA-AATAACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGCAT-ACTAAT
* *
19738916 CTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGC-TACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGCATACTAAT
* *
19738960 CCTATCTCCCTGAAGTTGTAGTGGAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGC
19738987 GAATTAAAAC
Statistics
Matches: 944, Mismatches: 185, Indels: 180
0.72 0.14 0.14
Matches are distributed among these distances:
40 2 0.00
41 80 0.08
42 9 0.01
43 14 0.01
44 205 0.22
45 236 0.25
46 135 0.14
47 26 0.03
48 6 0.01
49 103 0.11
50 8 0.01
51 120 0.13
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGCATACTAAT
Found at i:19738293 original size:321 final size:321
Alignment explanation
Indices: 19737711--19738345 Score: 1040
Period size: 321 Copynumber: 2.0 Consensus size: 321
19737701 AGCGGATCTT
* *
19737711 ATCATATCAAACCTTATCTCCCTGAAGTCGCAATGGAGCAGGTTAAAAATAAATCAATCTTATCT
1 ATCATATCAAACATTATCTCCCTGAAGTCGCAATGGAGCAGGTTAAAAATAAATCAACCTTATCT
* * **
19737776 CCTTGAAGTTGCAGTAGAGCAGATTTTAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
66 CCCTAAAGTTGCAGTAGAGCAGATTAAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
*
19737841 GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGATCATACTAAG
131 GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGATAATACTAAG
*
19737906 TCTTATCTCCTTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGTTGC
196 TCTTATCTCCTTGAAGTTGCAGTAGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTGC
* * *
19737971 AGTGGAACAGATTGAAGCTATAGATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
261 AGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAG
** * *
19738032 ATCATATCAAACATTATCTCTTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTATCT
1 ATCATATCAAACATTATCTCCCTGAAGTCGCAATGGAGCAGGTTAAAAATAAATCAACCTTATCT
* *
19738097 CCCTAAAGTTGCAGTAGAGCAGATTAAAGATGGGTTACAAATCTTATCTCCCTGAAGTTGTAGTG
66 CCCTAAAGTTGCAGTAGAGCAGATTAAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
*
19738162 GAGCAGATTGAAGCTACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAATAA-A-TCA
131 GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTG-ATAATACT-A
* * *
19738225 AGTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTT
194 AGTCTTATCTCCTTGAAGTTGCAGTAGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTT
*
19738290 GCAGTGGAACAGATTGAAGCTATAAATTATAAATCTTATCTCCCTGAAGTTGCAGT
259 GCAGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTGCAGT
19738346 GGAGAAAATT
Statistics
Matches: 290, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
320 1 0.00
321 286 0.99
322 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (321 bp):
ATCATATCAAACATTATCTCCCTGAAGTCGCAATGGAGCAGGTTAAAAATAAATCAACCTTATCT
CCCTAAAGTTGCAGTAGAGCAGATTAAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGATAATACTAAG
TCTTATCTCCTTGAAGTTGCAGTAGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTGC
AGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAG
Found at i:19738349 original size:185 final size:182
Alignment explanation
Indices: 19738003--19738986 Score: 885
Period size: 183 Copynumber: 5.4 Consensus size: 182
19737993 GATTACAGAT
* * * * * *
19738003 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CAT--ATCAAACATTATCTCTTTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATCAATC-TTATCTCCTTGAAGTTGTA
** * * * * * * * *
19738064 GTGGAGCAGGTTAAAAATAAATC-AACCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAG--
65 GTGGAGCAGACTGAAGAT-AA-CGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
*** * * * * *
19738126 ATGGGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACTAAT
128 ATAAATTATAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAA--TACTAAC
* *
19738183 CTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATCAAGTCTTATCTCCTTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATCAA-TCTTATCTCCTTGAAGTTGTA
19738248 GTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT
65 GTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT
* * * * * *
19738313 AAATTATAAATCTTATCTCCCTGAAGTTGCAGTGGAGAAAATTGAAGCCACTAAT
130 AAATTATAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAA--TACTAAC
* * * * * * * *
19738368 CTTATCCCCCTGAAGTTGCACTGGGGTAAATTGAATAAATCAAGTCTTATCTCCCTGAAATTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATCAA-TCTTATCTCCTTGAAGTTGTA
*
19738433 GTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT
65 GTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT
* * * * *
19738498 AAATTATAGATCTTATTTCTCTGAAGTTGCAATAGAGCAGA-T-CATATCAAAC
130 AAATTATAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAATA-CTAAC
* * *
19738550 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAATCTTATCTCCTTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--GAATAAATCAATCTTATCTCCTTGAAGTTGT
* * * * *
19738615 AGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCTTGATGTTACAGTGGAACAAATTGAAGCTA
64 AGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
*** * * *
19738680 TAAATTACGGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGA-T-CATATTAAAC
129 TAAATTATAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAATACT-AAC
* * * * * *
19738733 CTTATCTTCTTGAAGTTGTAGTGGAACATG-TTAAAAATAAATCAATCTTATCTCCTTAAAGTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATT--GAATAAATCAATCTTATCTCCTTGAAGTTG
* * * * *
19738797 TAGTGGAGCAGATTGAAGACAGGCTACGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
63 TAGTGGAGCAGACTGAAGATA----ACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGA
* * * *
19738862 AGC-------CATAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAACAAAC
124 AGCTATAAATTATAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG-AAT-ACTAAC
* * * * *
19738916 CTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCT-ACT-AATCCTATCTCCCTGAAGTTGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA--TAAATCAATCTTATCTCCTTGAAGTTGT
19738979 AGTGGAGC
64 AGTGGAGC
19738987 GAATTAAAAC
Statistics
Matches: 681, Mismatches: 99, Indels: 47
0.82 0.12 0.06
Matches are distributed among these distances:
180 56 0.08
181 32 0.05
182 35 0.05
183 267 0.39
184 49 0.07
185 207 0.30
187 35 0.05
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (182 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATCAATCTTATCTCCTTGAAGTTGTAG
TGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATA
AATTATAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAATACTAAC
Found at i:19738782 original size:506 final size:498
Alignment explanation
Indices: 19737711--19738984 Score: 1524
Period size: 506 Copynumber: 2.5 Consensus size: 498
19737701 AGCGGATCTT
* * * *
19737711 ATCATATCAAACCTTATCTCCCTGAAGTCGCAATGGAGCAGGTTAAAAATAAATCAATCTTATCT
1 ATCATATCAAACCTTATCTCCTTGAAGTTGTAGTGGAGCA-GTTAAAAATAAATCAATCTTATCT
* ** *
19737776 CCTTGAAGTTGCAGTAGAGCAGATTTTAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
65 CCTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
*
19737841 GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTG-AT-CATACTA
130 GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAAT-C-A
* * *
19737904 AGTCTTATCTCCTTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGTT
193 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTT
* *
19737969 GCAGTGGAACAGATTGAAGCTATAGATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
258 GCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGAT
**
19738034 CATATCAAACATTATCTCTTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTATCTCC
323 CATATCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTATCTCC
* * **
19738099 CTAAAGTTGCAGTAGAGCAGATTAAAGATGGGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGA
388 CTAAAGTTGCAGTAGAGCAGACTAAAGATGAG-T-CAAATCTTATCTCCCTGAAGTTACAGTGGA
* * * *
19738164 GCAGATTGAAGCTACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAG
451 ACAAATTGAAGCTACTAATCTTATCCCCCTGAAGTTGCAGTAGAGCAG
* ** * * *
19738212 ATTGAATAAATCAAGTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGAT-AA-CGAATCT
1 A-T-CAT--ATCAAACCTTATCTCCTTGAAGTTGTAGTGGAGCAG-TTAAAAATAAATC-AATCT
* * * * ** *
19738275 TATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTATAAATCTTATCTCCCTGAAGT
60 TATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG--ACAGGTTACAAATCTTATCTCCCTGAAGT
* * * * *
19738340 TGCAGTGGAGAAAATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCACTGGGGTAAATTGAATA
123 TGCAGTGGAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAATA
*
19738405 AATCAAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTG
188 AATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTG
* *
19738470 AAGTTGCAGTGGAACAGATTGAAGCTATAAATTATAGATCTTATTTCTCTGAAGTTGCAATAGAG
253 AAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAG
* *
19738535 CAGATCATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAATCTTA
318 CAGATCATATCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTA
* * * * * * * *
19738600 TCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGAT-AG-CGAATCTTATTTCCTTGATGTTACAGT
383 TCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGATGAGTCAAATCTTATCTCCCTGAAGTTACAGT
* * **
19738663 GGAACAAATTGAAGCTATAAATTACGGATCTTATCTCTTTGAAGTTGCAGTAGAGCAG
448 GGAACAAATTGAAGC--T--ACTA---ATCTTATCCCCCTGAAGTTGCAGTAGAGCAG
* * *
19738721 ATCATATTAAACCTTATCTTCTTGAAGTTGTAGTGGAACATGTTAAAAATAAATCAATCTTATCT
1 ATCATATCAAACCTTATCTCCTTGAAGTTGTAGTGGAGCA-GTTAAAAATAAATCAATCTTATCT
* * * *
19738786 CCTTAAAGTTGTAGTGGAGCAGATTGAAGACAGGCTACGAATCTTATCTCCCTGAAGTTGCAGTG
65 CCTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
* * * * * * *
19738851 GAGCAGATTAAAGCCA-TAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAA-CA
130 GAGCAGATTGAAGCCACT-AATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAATA-AATCA
** * * * * * * *
19738913 AACCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTA-CTAATCCTATCTCCCTGAAGTT
193 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTT
*
19738977 GTAGTGGA
258 GCAGTGGA
19738985 GCGAATTAAA
Statistics
Matches: 649, Mismatches: 102, Indels: 43
0.82 0.13 0.05
Matches are distributed among these distances:
501 1 0.00
502 61 0.09
503 42 0.06
504 111 0.17
505 70 0.11
506 328 0.51
507 6 0.01
508 3 0.00
509 27 0.04
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (498 bp):
ATCATATCAAACCTTATCTCCTTGAAGTTGTAGTGGAGCAGTTAAAAATAAATCAATCTTATCTC
CTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGTTACAAATCTTATCTCCCTGAAGTTGCAGTGG
AGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATCAAGT
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
GTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
ATCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTATCTCCCTA
AAGTTGCAGTAGAGCAGACTAAAGATGAGTCAAATCTTATCTCCCTGAAGTTACAGTGGAACAAA
TTGAAGCTACTAATCTTATCCCCCTGAAGTTGCAGTAGAGCAG
Found at i:19738891 original size:44 final size:44
Alignment explanation
Indices: 19738828--19738994 Score: 178
Period size: 44 Copynumber: 3.8 Consensus size: 44
19738818 GGCTACGAAT
*
19738828 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAAC
* * * * *
19738872 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAA-TAACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCAATAAAC
* * * * *
19738916 CTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACTAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-AATAAAC
*
19738961 C-TATCTCCCTGAAGTTGTAGTGGAGC-GAATTAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAA
19738995 ACGATGAATC
Statistics
Matches: 101, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
43 3 0.03
44 90 0.89
45 8 0.08
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAAC
Found at i:19738993 original size:132 final size:135
Alignment explanation
Indices: 19738779--19739027 Score: 330
Period size: 132 Copynumber: 1.9 Consensus size: 135
19738769 ATAAATCAAT
* *
19738779 CTTATCTCCTTAAAGTTGTAGTGGAGCAGATTGAAGACAGGCTACGAATCTTATCTCCCTGAAGT
1 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATT--AGACAGGCTACGAATCCTATCTCCCTGAAGT
*
19738844 TGCAGTGGAGCAGATTAAAGCCAT-AAACCT-TATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA
64 TGCAGTGGAGCAGATTAAAACCATGAAACCTATA-C-CTCTGAAGTTGCAGTAGAGCAGGTTGAA
19738907 ATAACAAAC
127 ATAACAAAC
* * *
19738916 CTTATCTCCCTGAAGTTGTAGTGGAGTAGATT-GA-A-GCTACTAATCCTATCTCCCTGAAGTTG
1 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAGACAGGCTACGAATCCTATCTCCCTGAAGTTG
* * *
19738978 TAGTGGAGC-GAATTAAAACGATGAATCCTATACCTCTGAAGTTGCAGTAG
66 CAGTGGAGCAG-ATTAAAACCATGAAACCTATACCTCTGAAGTTGCAGTAG
19739028 TTGCAGTGAG
Statistics
Matches: 100, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
131 1 0.01
132 59 0.59
133 7 0.07
134 4 0.04
137 29 0.29
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (135 bp):
CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAGACAGGCTACGAATCCTATCTCCCTGAAGTTG
CAGTGGAGCAGATTAAAACCATGAAACCTATACCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAA
CAAAC
Found at i:19739005 original size:44 final size:44
Alignment explanation
Indices: 19738825--19739021 Score: 134
Period size: 44 Copynumber: 4.5 Consensus size: 44
19738815 ACAGGCTACG
* * * * *
19738825 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-T
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGGAGATTAAAACGACT
* * * * * * * **
19738868 AAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAAC-
1 AATCC-TATCTCCCTGAAGTTGTAGTGGAGGAGATTAAAACGACT
* * * * *
19738912 AAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACT
1 AATCC-TATCTCCCTGAAGTTGTAGTGGAGGAGATTAAAACGACT
19738957 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGA-ATTAAAACGA-T
1 AATCCTATCTCCCTGAAGTTGTAGTGGAG-GAGATTAAAACGACT
*
19739000 GAATCCTATAC-CTCTGAAGTTG
1 -AATCCTAT-CTCCCTGAAGTTG
19739022 CAGTAGTTGC
Statistics
Matches: 125, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
43 4 0.03
44 115 0.92
45 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGTAGTGGAGGAGATTAAAACGACT
Found at i:19740492 original size:50 final size:49
Alignment explanation
Indices: 19740438--19740550 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 49
19740428 TTTTGTCCTA
* * * *
19740438 TTATTATTATTATTATCATTACTAGTATTATTATTAGTTTTATTGCTATT
1 TTATTATTATTATTATCATTACTAGAATTATTATTAATGTTATTACTA-T
* ** *
19740488 TTATTACTATTAACATCATTATTAGAATTATTATTAATGTTATTACTAT
1 TTATTATTATTATTATCATTACTAGAATTATTATTAATGTTATTACTAT
19740537 TTATT-TTATT-TTAT
1 TTATTATTATTATTAT
19740551 TTTTTCTTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
47 2 0.04
48 4 0.08
49 6 0.12
50 40 0.77
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (49 bp):
TTATTATTATTATTATCATTACTAGAATTATTATTAATGTTATTACTAT
Found at i:19740622 original size:18 final size:18
Alignment explanation
Indices: 19740557--19740637 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
19740547 TTATTTTTTC
*
19740557 TTATTATTAA-TACTATTA
1 TTATTA-TAATTACAATTA
* * * *
19740575 ATATTATTATTGCCATTA
1 TTATTATAATTACAATTA
*
19740593 TTATTATAATTATAATTA
1 TTATTATAATTACAATTA
* * *
19740611 TTATTTTCATTACCATTA
1 TTATTATAATTACAATTA
19740629 TTATATATA
1 TTAT-TATA
19740638 TTTAGTTATT
Statistics
Matches: 46, Mismatches: 15, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
17 2 0.04
18 42 0.91
19 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.54
Consensus pattern (18 bp):
TTATTATAATTACAATTA
Found at i:19740632 original size:3 final size:3
Alignment explanation
Indices: 19740436--19740615 Score: 93
Period size: 3 Copynumber: 61.3 Consensus size: 3
19740426 AATTTTGTCC
* * *
19740436 TAT TAT TAT TAT TAT TAT CAT TAC TAG TAT TAT TAT TAGT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
** * * * * * * * *
19740481 TGC TAT T-T TAT TAC TAT TAA CAT CAT TAT TAG AAT TAT TAT TAA TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
19740528 TAT TAC TATT TAT T-T TAT T-T TAT T-T T-T TCT TAT TAT TAA TAC
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * *
19740570 TAT TAA TAT TAT TAT TGC CAT TAT TAT TAT AAT TAT AAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19740616 TTCATTACCA
Statistics
Matches: 129, Mismatches: 41, Indels: 14
0.70 0.22 0.08
Matches are distributed among these distances:
2 12 0.09
3 113 0.88
4 4 0.03
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:19740671 original size:14 final size:15
Alignment explanation
Indices: 19740652--19740686 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
19740642 GTTATTTTTC
*
19740652 TTATTTTTTTGTT-T
1 TTATTTTTTTCTTGT
19740666 TTATTTTTTTCTTGT
1 TTATTTTTTTCTTGT
19740681 TTATTT
1 TTATTT
19740687 ACTTATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.83
Consensus pattern (15 bp):
TTATTTTTTTCTTGT
Found at i:19742768 original size:44 final size:44
Alignment explanation
Indices: 19742718--19742808 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
19742708 GGTGAAATAA
* * * *
19742718 AATAGAAGTTGTGGTAATTATGCATTTAAAACA-AATTGTAATTT
1 AATAGAAGTTCTGATAATTACGCATTTAAAA-ATAATTATAATTT
*
19742762 AATAGAAGTTCTGATAATTACGTATTTAAAAATAATTATAATTT
1 AATAGAAGTTCTGATAATTACGCATTTAAAAATAATTATAATTT
19742806 AAT
1 AAT
19742809 TTACATTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (44 bp):
AATAGAAGTTCTGATAATTACGCATTTAAAAATAATTATAATTT
Found at i:19746120 original size:12 final size:12
Alignment explanation
Indices: 19746102--19746133 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
19746092 GTTATTTGTT
19746102 ATTTATTAATTA
1 ATTTATTAATTA
*
19746114 GTTTATTAATTA
1 ATTTATTAATTA
19746126 ATTTATTA
1 ATTTATTA
19746134 TTATTATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (12 bp):
ATTTATTAATTA
Found at i:19746170 original size:18 final size:18
Alignment explanation
Indices: 19746126--19746171 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
19746116 TTATTAATTA
*
19746126 ATTTATTATTATTATCAT
1 ATTTATTATTATAATCAT
19746144 AGTTT-TTATTACTAAT-AT
1 A-TTTATTATTA-TAATCAT
19746162 ATTTATTATT
1 ATTTATTATT
19746172 GATATGGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 3 0.12
18 15 0.62
19 6 0.25
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTTATTATTATAATCAT
Found at i:19746240 original size:23 final size:23
Alignment explanation
Indices: 19746214--19746258 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
19746204 CTACCTATTT
19746214 TTTATGTATAT-ACATTATTTTAC
1 TTTAT-TATATAACATTATTTTAC
* *
19746237 TTTATTATGTAATATTATTTTA
1 TTTATTATATAACATTATTTTA
19746259 AGTTTTCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTATTATATAACATTATTTTAC
Found at i:19757572 original size:13 final size:13
Alignment explanation
Indices: 19757554--19757626 Score: 62
Period size: 13 Copynumber: 5.6 Consensus size: 13
19757544 GGGCTGATCG
19757554 AGAAAGAAGAAAA
1 AGAAAGAAGAAAA
19757567 AGAAAGAAGAAAA
1 AGAAAGAAGAAAA
*
19757580 GAGAAAGAAAGAAGA
1 -AGAAAG-AAGAAAA
* * *
19757595 A-AATG-GGAAGA
1 AGAAAGAAGAAAA
19757606 AGAAAGAAGAAGAA
1 AGAAAGAAGAA-AA
19757620 A-AAAGAA
1 AGAAAGAA
19757627 AATAATTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
11 6 0.12
12 3 0.06
13 25 0.51
14 9 0.18
15 6 0.12
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.01
Consensus pattern (13 bp):
AGAAAGAAGAAAA
Found at i:19757576 original size:7 final size:7
Alignment explanation
Indices: 19757554--19757626 Score: 59
Period size: 7 Copynumber: 11.1 Consensus size: 7
19757544 GGGCTGATCG
19757554 AGAAAGA
1 AGAAAGA
19757561 AGAAA-A
1 AGAAAGA
19757567 AGAAAGA
1 AGAAAGA
19757574 AG-AA-A
1 AGAAAGA
*
19757579 AGAGA-A
1 AGAAAGA
19757585 AGAAAGA
1 AGAAAGA
19757592 AGAAA-A
1 AGAAAGA
* *
19757598 TGGGAAGA
1 -AGAAAGA
19757606 AGAAAGA
1 AGAAAGA
19757613 AG-AAGA
1 AGAAAGA
*
19757619 AAAAAGA
1 AGAAAGA
19757626 A
1 A
19757627 AATAATTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
5 3 0.06
6 20 0.38
7 29 0.55
8 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.01
Consensus pattern (7 bp):
AGAAAGA
Found at i:19757586 original size:18 final size:18
Alignment explanation
Indices: 19757560--19757616 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
19757550 ATCGAGAAAG
*
19757560 AAGAAAAAGAAAGAAGAA
1 AAGAGAAAGAAAGAAGAA
19757578 AAGAGAAAGAAAGAAGAA
1 AAGAGAAAGAAAGAAGAA
*
19757596 AATGGGAAGAAGAAAGAAGAA
1 AA-GAG-A-AAGAAAGAAGAA
19757617 GAAAAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 19 0.56
19 2 0.06
20 1 0.03
21 12 0.35
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (18 bp):
AAGAGAAAGAAAGAAGAA
Found at i:19757592 original size:31 final size:31
Alignment explanation
Indices: 19757554--19757630 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
19757544 GGGCTGATCG
19757554 AGAAAGAAGAAAA-AGAAAGAAGAAA-AGAGAA
1 AGAAAGAAGAAAATAGAAAGAAGAAAGA-AG-A
* *
19757585 AGAAAGAAGAAAATGGGAAGAAGAAAGAAGA
1 AGAAAGAAGAAAATAGAAAGAAGAAAGAAGA
*
19757616 AGAAAAAAGAAAATA
1 AGAAAGAAGAAAATA
19757631 ATTTTTGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 27 0.68
32 12 0.30
33 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (31 bp):
AGAAAGAAGAAAATAGAAAGAAGAAAGAAGA
Found at i:19758295 original size:22 final size:22
Alignment explanation
Indices: 19758251--19758296 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
19758241 GTAAATATTC
***
19758251 AAAAATTCTCGTGTTTTTTTAA
1 AAAAATTCTCGTGTTTAAATAA
19758273 AAAAATTCTCGTGTTTAAATAA
1 AAAAATTCTCGTGTTTAAATAA
19758295 AA
1 AA
19758297 TCACGATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (22 bp):
AAAAATTCTCGTGTTTAAATAA
Found at i:19758481 original size:16 final size:16
Alignment explanation
Indices: 19758416--19758485 Score: 56
Period size: 16 Copynumber: 4.5 Consensus size: 16
19758406 ATCTGTATTT
*
19758416 TTTCAAAAATTTCATG
1 TTTCAAAATTTTCATG
*
19758432 TTT-AAAATTTTTAT-
1 TTTCAAAATTTTCATG
****
19758446 TTTC-GTGCTTTCATG
1 TTTCAAAATTTTCATG
19758461 TTTTCAAAATTTTCATG
1 -TTTCAAAATTTTCATG
19758478 TTTCAAAA
1 TTTCAAAA
19758486 ATCCTTTTCA
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
14 8 0.21
15 9 0.23
16 15 0.38
17 7 0.18
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.51
Consensus pattern (16 bp):
TTTCAAAATTTTCATG
Found at i:19758487 original size:17 final size:17
Alignment explanation
Indices: 19758454--19758485 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19758444 ATTTTCGTGC
19758454 TTTCATGTTTTCAAAAT
1 TTTCATGTTTTCAAAAT
19758471 TTTCATG-TTTCAAAA
1 TTTCATGTTTTCAAAA
19758486 ATCCTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTCATGTTTTCAAAAT
Found at i:19758530 original size:19 final size:18
Alignment explanation
Indices: 19758508--19758793 Score: 162
Period size: 18 Copynumber: 15.6 Consensus size: 18
19758498 AAATTCCGGC
19758508 GTTTCAAAAAATTTTTCGT
1 GTTTCAAAAAA-TTTTCGT
*
19758527 GTTTTC-AAGAA-TTTCGAT
1 G-TTTCAAAAAATTTTCG-T
* *
19758545 GATTCAAAAAATTTCCGT
1 GTTTCAAAAAATTTTCGT
*
19758563 GTTTTC-AAGAATTTTCACGT
1 G-TTTCAAAAAATTTT--CGT
* * *
19758583 TTTTTATAAAATTTTCGT
1 GTTTCAAAAAATTTTCGT
* **
19758601 GTTTTTAAAAAATTCCCGT
1 G-TTTCAAAAAATTTTCGT
*
19758620 GTTTTTAAAGATAAATTTTCGT
1 G--TTTCAA-A-AAATTTTCGT
19758642 GTTTTC-AAAAA-TTTCGGT
1 G-TTTCAAAAAATTTTC-GT
*
19758660 GATTCAAAAAATTTTCGT
1 GTTTCAAAAAATTTTCGT
*
19758678 GTTTTCAAAAAATTCTCGT
1 G-TTTCAAAAAATTTTCGT
*
19758697 GTTTCAAAAAA-TTTCTT
1 GTTTCAAAAAATTTTCGT
* *
19758714 GTTTTC--AAAATCTTGGT
1 G-TTTCAAAAAATTTTCGT
* *
19758731 GTTTGC-AACAATTCTCGT
1 GTTT-CAAAAAATTTTCGT
* *
19758749 GTTTC-TAAAATTCTCGT
1 GTTTCAAAAAATTTTCGT
19758766 GTTTC-AAAAATTTTCGT
1 GTTTCAAAAAATTTTCGT
*
19758783 GTTTTAAAAAA
1 GTTTCAAAAAA
19758794 AATTGCTTCA
Statistics
Matches: 210, Mismatches: 36, Indels: 43
0.73 0.12 0.15
Matches are distributed among these distances:
16 7 0.03
17 55 0.26
18 62 0.30
19 51 0.24
20 21 0.10
21 5 0.02
22 9 0.04
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (18 bp):
GTTTCAAAAAATTTTCGT
Found at i:19758564 original size:36 final size:35
Alignment explanation
Indices: 19758490--19758793 Score: 231
Period size: 37 Copynumber: 8.3 Consensus size: 35
19758480 TCAAAAATCC
* *
19758490 TTTTCAAAAAATTCCGGCGTTTCAAAAAATTTTTCGTG
1 TTTTC-AAAAATTTC-GTGTTTCAAAAAA-TTTTCGTG
* * *
19758528 TTTTCAAGAATTTCGATGATTCAAAAAATTTCCGTG
1 TTTTCAAAAATTTCG-TGTTTCAAAAAATTTTCGTG
* * * *
19758564 TTTTCAAGAATTTTCACGTTTTTTATAAAATTTTCGTG
1 TTTTCAA-AAATTT--CGTGTTTCAAAAAATTTTCGTG
* * *
19758602 TTTTTAAAAAATTCCCGTGTTTTTAAAGATAAATTTTCGTG
1 -TTTTCAAAAATT-TCGTG--TTTCAA-A-AAATTTTCGTG
*
19758643 TTTTCAAAAATTTCGGTGATTCAAAAAATTTTCGTG
1 TTTTCAAAAATTTC-GTGTTTCAAAAAATTTTCGTG
*
19758679 TTTTCAAAAAATTCTCGTGTTTCAAAAAA-TTTCTTG
1 TTTTC-AAAAATT-TCGTGTTTCAAAAAATTTTCGTG
* * *
19758715 TTTTC-AAAATCTTGGTGTTTGC-AACAATTCTCGTG
1 TTTTCAAAAAT-TTCGTGTTT-CAAAAAATTTTCGTG
*
19758750 -TTTCTAAAATTCTCGTGTTTC-AAAAATTTTCGTG
1 TTTTCAAAAATT-TCGTGTTTCAAAAAATTTTCGTG
*
19758784 TTTTAAAAAA
1 TTTTCAAAAA
19758794 AATTGCTTCA
Statistics
Matches: 214, Mismatches: 33, Indels: 41
0.74 0.11 0.14
Matches are distributed among these distances:
34 33 0.15
35 26 0.12
36 42 0.20
37 44 0.21
38 30 0.14
39 13 0.06
40 15 0.07
41 11 0.05
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (35 bp):
TTTTCAAAAATTTCGTGTTTCAAAAAATTTTCGTG
Found at i:19758792 original size:17 final size:17
Alignment explanation
Indices: 19758514--19758792 Score: 141
Period size: 17 Copynumber: 15.3 Consensus size: 17
19758504 CGGCGTTTCA
19758514 AAAAATTTTTCGTGTTTT
1 AAAAA-TTTTCGTGTTTT
* **
19758532 CAAGAA-TTTCGATGATTCA
1 -AAAAATTTTCG-TG-TTTT
*
19758551 AAAAATTTCCGTGTTTT
1 AAAAATTTTCGTGTTTT
* *
19758568 CAAGAATTTTCACGTTTTTT
1 -AAAAATTTT--CGTGTTTT
19758588 ATAAAATTTTCGTGTTTTT
1 A-AAAATTTTCGTG-TTTT
**
19758607 AAAAAATTCCCGTGTTTTT
1 -AAAAATTTTCGTG-TTTT
19758626 AAAGATAAATTTTCGTGTTTT
1 --A-A-AAATTTTCGTGTTTT
**
19758647 CAAAAA-TTTCGGTGATTCA
1 -AAAAATTTTC-GTG-TTTT
19758666 AAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTT
* *
19758683 CAAAAAATTCTCGTGTTTC
1 --AAAAATTTTCGTGTTTT
* *
19758702 AAAAAATTTCTTGTTTT
1 AAAAATTTTCGTGTTTT
* * * *
19758719 CAAAATCTTGGTGTTTGC
1 AAAAATTTTCGTGTTT-T
* *
19758737 AACAATTCTCGTGTTTCT
1 AAAAATTTTCGTGTTT-T
* *
19758755 -AAAATTCTCGTGTTTC
1 AAAAATTTTCGTGTTTT
19758771 AAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTT
19758788 AAAAA
1 AAAAA
19758793 AAATTGCTTC
Statistics
Matches: 197, Mismatches: 44, Indels: 40
0.70 0.16 0.14
Matches are distributed among these distances:
17 70 0.36
18 43 0.22
19 52 0.26
20 18 0.09
21 5 0.03
22 9 0.05
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTT
Found at i:19760521 original size:4 final size:4
Alignment explanation
Indices: 19760506--19760540 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
19760496 GCATGACTAA
*
19760506 CATT CA-T CATT CATT CATT TATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT
19760541 GCATGTGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (4 bp):
CATT
Found at i:19765536 original size:78 final size:76
Alignment explanation
Indices: 19765385--19766258 Score: 1047
Period size: 78 Copynumber: 11.3 Consensus size: 76
19765375 TTTCACAAAT
* *
19765385 TATTTTTCAATCTCTGTTTTTGCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAT
1 TATTTTTCAATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
19765450 CACATGCCGAGG
65 CACACGCCGAGG
* * *
19765462 TATTTCTTTTAAATTTCTG-TTTTCAAAAATCAACTCATATTGTGAGAGGTGAGCTGAGCCTCGG
1 TA--T-TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* *
19765526 GTCACATGCCGATG
63 GTCACACGCCGAGG
* * * *
19765540 TATTTCTTTTAAGTTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTTGG
1 TA-TT-TTTCAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
*
19765605 GTCACACGCTGAGG
63 GTCACACGCCGAGG
* * * * * *
19765619 TATTTTTCAATTTCTTTCTTTTTCAAAAATCCACTCATTTTGCTAGAAGTGAGTTGAGCCTCGAG
1 TATTTTTCAATTTC--TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
19765684 TCACATGCCGAGG
64 TCACACGCCGAGG
* * *
19765697 TATTTCTTTTAAGTTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGG
1 TA-TT-TTTCAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* *
19765762 GTCACATGCTGAGG
63 GTCACACGCCGAGG
* *
19765776 TACTTTTCAATTTATGTCCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGT--TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* * *
19765841 CCGCACGCTGAGG
64 TCACACGCCGAGG
* *
19765854 TA-TTTTAAATTTC-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
** *
19765917 GGACGCTGAGG
66 ACACGCCGAGG
* * *
19765928 TA-TTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATC
1 TATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* * *
19765992 GCACGTCAAGG
66 ACACGCCGAGG
* *
19766003 TATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGTCTCGGGTC
1 TATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* *
19766068 ACACGCTGAGA
66 ACACGCCGAGG
* *
19766079 TATTTTTCAATTTTTGTTTTTTCAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTG-TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* *
19766144 TCGCATGCCGAGG
64 TCACACGCCGAGG
* *
19766157 TATTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGAG
1 TA-T-TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* *
19766222 TCGCACGCCGAGC
64 TCACACGCCGAGG
* * *
19766235 TA-TTCTCGATTTCTGCTTTTCAAA
1 TATTTTTCAATTTCTGTTTTTCAAA
19766259 TAAAAAGAAA
Statistics
Matches: 704, Mismatches: 74, Indels: 40
0.86 0.09 0.05
Matches are distributed among these distances:
74 70 0.10
75 77 0.11
76 90 0.13
77 34 0.05
78 275 0.39
79 126 0.18
80 28 0.04
81 4 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (76 bp):
TATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
ACACGCCGAGG
Found at i:19765693 original size:157 final size:153
Alignment explanation
Indices: 19765387--19766238 Score: 1061
Period size: 157 Copynumber: 5.5 Consensus size: 153
19765377 TCACAAATTA
* * *
19765387 TTTTTCAATCTCTGTTTTTGCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCA
1 TTTTTTAATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* * * *
19765452 CATGCCGAGGTATTTCTTTTAAATTTC-TGTTTTCAAAAATCAACTCATATTG-TGAGAGGTGAG
65 CACGCTGAGGTA--T-TTTTCAATTTCTTTTTTTCAAAAATCAACTCATATTGCT-AGAGGTGAG
* * *
19765515 CTGAGCCTCGGGTCACATGCCGATGTAT
126 TTGAGCCTCGGGTCGCATGCCGAGGTAT
* * *
19765543 TTCTTTTAAGTTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTTGGGTC
1 TT-TTTTAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* * *
19765608 ACACGCTGAGGTATTTTTCAATTTCTTTCTTTTTCAAAAATCCACTCATTTTGCTAGAAGTGAGT
64 ACACGCTGAGGTATTTTTCAATTTC-TT-TTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGT
* *
19765673 TGAGCCTCGAGTCACATGCCGAGGTAT
127 TGAGCCTCGGGTCGCATGCCGAGGTAT
* *
19765700 TTCTTTTAAGTTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGTC
1 TT-TTTTAA-TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* * * * *
19765765 ACATGCTGAGGTACTTTTCAATTTATGTCCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
64 ACACGCTGAGGTATTTTTCAATTTCT-T-TTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGT
* * *
19765830 TGAGCCTCGGGCCGCACGCTGAGGTA-
127 TGAGCCTCGGGTCGCATGCCGAGGTAT
* * **
19765856 -TTTTAAATTTC-ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGG
1 TTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* * *
19765919 ACGCTGAGGTA-TTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 ACGCTGAGGTATTTTTCAATTTCTTTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAG
* * * *
19765983 CCTCGGATCGCACGTCAAGGTA-
131 CCTCGGGTCGCATGCCGAGGTAT
* * *
19766005 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGTCTCGGGTCAC
1 TTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* *
19766070 ACGCTGAGATATTTTTCAATTTTTGTTTTTTCAAAAAATCAACTCATATTGCTAGAGGTGAGTTG
66 ACGCTGAGGTATTTTTCAATTTCT-TTTTTTC-AAAAATCAACTCATATTGCTAGAGGTGAGTTG
19766135 AGCCTCGGGTCGCATGCCGAGGTAT
129 AGCCTCGGGTCGCATGCCGAGGTAT
* * * *
19766160 TATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGAGTCG
1 T-TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* *
19766225 CACGCCGAGCTATT
65 CACGCTGAGGTATT
19766239 CTCGATTTCT
Statistics
Matches: 614, Mismatches: 68, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
149 56 0.09
150 10 0.02
151 67 0.11
152 67 0.11
153 10 0.02
154 66 0.11
155 3 0.00
156 74 0.12
157 250 0.41
158 11 0.02
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (153 bp):
TTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
ACGCTGAGGTATTTTTCAATTTCTTTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAG
CCTCGGGTCGCATGCCGAGGTAT
Found at i:19766502 original size:29 final size:29
Alignment explanation
Indices: 19766421--19766506 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
19766411 TTCATTTTGA
* **
19766421 CCCTTAAACTTTTCTAAAATTACATTTTGAC
1 CCCTT-AACTTTTCT-AAATTATATTTCAAC
*
19766452 CCC-TAACATTTTTCAAAATTATATTTCAAC
1 CCCTTAAC--TTTTCTAAATTATATTTCAAC
19766482 CCCTTAACTTTTCTAAATTATATTT
1 CCCTTAACTTTTCTAAATTATATTT
19766507 TGACCCATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
29 19 0.40
30 16 0.34
31 12 0.26
ACGTcount: A:0.33, C:0.22, G:0.01, T:0.44
Consensus pattern (29 bp):
CCCTTAACTTTTCTAAATTATATTTCAAC
Found at i:19766509 original size:59 final size:61
Alignment explanation
Indices: 19766421--19766536 Score: 166
Period size: 59 Copynumber: 1.9 Consensus size: 61
19766411 TTCATTTTGA
* * *
19766421 CCCTTAAACTTTTCTAAAATTACATTTTGACCCCTA-ACATTTTTCAAAATTATATTTCAAC
1 CCCTTAAACTTTTCTAAAATTACATTTTGACCCATACAC-TTTCTCAAAATTACATTTCAAC
*
19766482 CCCTT-AACTTTTCT-AAATTATATTTTGACCCATACACTTTCTCAAAATTACATTT
1 CCCTTAAACTTTTCTAAAATTACATTTTGACCCATACACTTTCTCAAAATTACATTT
19766537 TTACCCCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 34 0.68
60 11 0.22
61 5 0.10
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (61 bp):
CCCTTAAACTTTTCTAAAATTACATTTTGACCCATACACTTTCTCAAAATTACATTTCAAC
Found at i:19766512 original size:29 final size:29
Alignment explanation
Indices: 19766413--19766543 Score: 124
Period size: 30 Copynumber: 4.4 Consensus size: 29
19766403 TAAAAATTTT
19766413 CATTTTGA-CCCTTAAACTTTTCTAAAATTA
1 CATTTTGACCCCTT-AACTTTTC-AAAATTA
19766443 CATTTTGACCCC-TAACATTTTTCAAAATTA
1 CATTTTGACCCCTTAAC--TTTTCAAAATTA
* ** *
19766473 TATTTCAACCCCTTAACTTTTCTAAATTA
1 CATTTTGACCCCTTAACTTTTCAAAATTA
* *
19766502 TATTTTGA-CCCATACACTTTCTCAAAATTA
1 CATTTTGACCCCTTA-ACTTT-TCAAAATTA
*
19766532 CATTTTTACCCC
1 CATTTTGACCCC
19766544 AAAATTTTTG
Statistics
Matches: 84, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
28 5 0.06
29 25 0.30
30 39 0.46
31 15 0.18
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.42
Consensus pattern (29 bp):
CATTTTGACCCCTTAACTTTTCAAAATTA
Found at i:19766543 original size:59 final size:61
Alignment explanation
Indices: 19766413--19766543 Score: 162
Period size: 59 Copynumber: 2.2 Consensus size: 61
19766403 TAAAAATTTT
* * *
19766413 CATTTTGA-CCCTTAAACTTTTCTAAAATTACATTTTGACCCCTAACATTTTTCAAAATTA
1 CATTTTAACCCCTTAAACTTTTCTAAAATTACATTTTGACCCATAACATTTCTCAAAATTA
* * *
19766473 TATTTCAACCCCTT-AACTTTTCT-AAATTATATTTTGACCCAT-ACACTTTCTCAAAATTA
1 CATTTTAACCCCTTAAACTTTTCTAAAATTACATTTTGACCCATAACA-TTTCTCAAAATTA
*
19766532 CATTTTTACCCC
1 CATTTTAACCCC
19766544 AAAATTTTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
58 3 0.05
59 38 0.63
60 14 0.23
61 5 0.08
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.42
Consensus pattern (61 bp):
CATTTTAACCCCTTAAACTTTTCTAAAATTACATTTTGACCCATAACATTTCTCAAAATTA
Found at i:19766894 original size:19 final size:20
Alignment explanation
Indices: 19766872--19766914 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
19766862 AGCAAAGACA
19766872 CAAA-AAAAATTAAAAAA-AG
1 CAAACAAAAA-TAAAAAATAG
19766891 CAAACAAAAATAAAAAATAG
1 CAAACAAAAATAAAAAATAG
19766911 CAAA
1 CAAA
19766915 GAAAGAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.77, C:0.09, G:0.05, T:0.09
Consensus pattern (20 bp):
CAAACAAAAATAAAAAATAG
Found at i:19767031 original size:13 final size:13
Alignment explanation
Indices: 19767013--19767111 Score: 81
Period size: 13 Copynumber: 7.0 Consensus size: 13
19767003 GGGCTGAGCG
19767013 AGAAAGAAGAAAA
1 AGAAAGAAGAAAA
*
19767026 AGAAAGGAGAAAAGAGAA
1 AG-AA--AG--AAGAAAA
19767044 AGAAAGAAGAAAA
1 AGAAAGAAGAAAA
19767057 AGAAAGAAGAAAA
1 AGAAAGAAGAAAA
* *
19767070 GGGGAAGAAGAAAGA
1 -AGAAAGAAGAAA-A
*
19767085 AGAAAAAAAGAAAA
1 AG-AAAGAAGAAAA
*
19767099 AGAAAAAAGAAAA
1 AGAAAGAAGAAAA
19767112 TAATTTTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
13 32 0.45
14 16 0.23
15 11 0.15
16 2 0.03
17 2 0.03
18 8 0.11
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAAAA
Found at i:19767051 original size:31 final size:34
Alignment explanation
Indices: 19767013--19767104 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 34
19767003 GGGCTGAGCG
*
19767013 AGAAAGAAGAAAAAGAAAGGAGAAAA-GAG-A-A
1 AGAAAGAAGAAAAAGAAAGAAGAAAAGGAGAAGA
*
19767044 AGAAAGAAGAAAAAGAAAGAAGAAAAGGGGAAGA
1 AGAAAGAAGAAAAAGAAAGAAGAAAAGGAGAAGA
19767078 AGAAAGAAGAAAAAAAGAAA-AAGAAAA
1 AGAAAGAAG--AAAAAGAAAGAAGAAAA
19767105 AAGAAAATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
31 25 0.46
32 2 0.04
33 1 0.02
34 10 0.19
35 7 0.13
36 9 0.17
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (34 bp):
AGAAAGAAGAAAAAGAAAGAAGAAAAGGAGAAGA
Found at i:19767053 original size:7 final size:6
Alignment explanation
Indices: 19767013--19767111 Score: 69
Period size: 6 Copynumber: 16.0 Consensus size: 6
19767003 GGGCTGAGCG
* *
19767013 AGAAAGA AGAAAA AG-AAA GGAGAAA AGAGAA AGAAAGA AGAAAA AGAAAGA
1 AGAAA-A AGAAAA AGAAAA AGA-AAA AGAAAA AGAAA-A AGAAAA AGAAA-A
*** *
19767064 AG-AAA AGGGGA AGAAGAA AGAAGA A-AAAA AGAAAA AGAAAAA AGAAAA
1 AGAAAA AGAAAA AGAA-AA AGAAAA AGAAAA AGAAAA AG-AAAA AGAAAA
19767112 TAATTTTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
5 11 0.15
6 32 0.44
7 30 0.41
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:19767070 original size:21 final size:21
Alignment explanation
Indices: 19767014--19767111 Score: 92
Period size: 21 Copynumber: 4.6 Consensus size: 21
19767004 GGCTGAGCGA
19767014 GAAAGAAGAAAAAGAAAGGAGAAAA
1 GAAAGAAG-AAAAG-AA-GA-AAAA
*
19767039 GAGA-AAG-AAAGAAGAAAAA
1 GAAAGAAGAAAAGAAGAAAAA
** *
19767058 GAAAGAAGAAAAGGGGAAGAA
1 GAAAGAAGAAAAGAAGAAAAA
*
19767079 GAAAGAAGAAAAAAAGAAAAA
1 GAAAGAAGAAAAGAAGAAAAA
*
19767100 GAAAAAAGAAAA
1 GAAAGAAGAAAA
19767112 TAATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.11
20 5 0.08
21 39 0.64
22 4 0.07
24 3 0.05
25 3 0.05
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
GAAAGAAGAAAAGAAGAAAAA
Found at i:19767413 original size:11 final size:11
Alignment explanation
Indices: 19767397--19767437 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
19767387 GAGGCAGGCC
19767397 AGAAAAAAAAA
1 AGAAAAAAAAA
*
19767408 AGAAAAAAAGA
1 AGAAAAAAAAA
*
19767419 AG-AAAGAAAA
1 AGAAAAAAAAA
19767429 AGAAAAAAA
1 AGAAAAAAA
19767438 GGTTCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:19767415 original size:10 final size:10
Alignment explanation
Indices: 19767400--19767437 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
19767390 GCAGGCCAGA
19767400 AAAAAAAAAG
1 AAAAAAAAAG
19767410 AAAAAAAGAAG
1 AAAAAAA-AAG
*
19767421 AAAGAAAAAG
1 AAAAAAAAAG
19767431 AAAAAAA
1 AAAAAAA
19767438 GGTTCAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:19767430 original size:21 final size:19
Alignment explanation
Indices: 19767397--19767438 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 19
19767387 GAGGCAGGCC
19767397 AGAAAAAAAAAAGAAAAAA
1 AGAAAAAAAAAAGAAAAAA
19767416 AGAAGAAAGAAAAAGAAAAAA
1 AGAA-AAA-AAAAAGAAAAAA
19767437 AG
1 AG
19767439 GTTCAATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.19
20 3 0.14
21 14 0.67
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AGAAAAAAAAAAGAAAAAA
Found at i:19768056 original size:18 final size:18
Alignment explanation
Indices: 19768005--19768326 Score: 186
Period size: 18 Copynumber: 17.7 Consensus size: 18
19767995 TTTTTTTTTT
* *
19768005 GTGTTTTCAAGAATTTCA
1 GTGTTTTCAAAAATTTCC
*
19768023 GTG-ATTCAAAAGATTTCC
1 GTGTTTTCAAAA-ATTTCC
*
19768041 GTGTTTTCAAGAATTTTCAC
1 GTGTTTTCAA-AAATTTC-C
* * *
19768061 AAT-TTTTTATAAAATTTTC
1 -GTGTTTTCA-AAAATTTCC
* *
19768080 GTGTTTTTAAAAAATTCGC
1 GTGTTTTCAAAAATTTC-C
* * *
19768099 ATGTTTTTAAAGATAAATTTTC
1 GTG-TTTT-CA-A-AAATTTCC
*
19768121 GTGTTTTCAAAAATTTTC
1 GTGTTTTCAAAAATTTCC
*
19768139 TTG-TTTCAAAAATCCTT-C
1 GTGTTTTCAAAAAT--TTCC
*
19768157 -TGTTTTCAAAAATTTCG
1 GTGTTTTCAAAAATTTCC
19768174 GTG-TTTCAAAAATCTT-C
1 GTGTTTTCAAAAAT-TTCC
*
19768191 GTGTTTTCAAAAATTTCA
1 GTGTTTTCAAAAATTTCC
* *
19768209 GTG-ATTCAAAAAATTTTC
1 GTGTTTTC-AAAAATTTCC
19768227 GTGTTTTCAAAAATTTCTC
1 GTGTTTTCAAAAATTTC-C
*
19768246 GTG-TTTCAAAAATTTTC
1 GTGTTTTCAAAAATTTCC
* *
19768263 TTTTTTTC-AAAATGTT-C
1 GTGTTTTCAAAAAT-TTCC
*
19768280 GTGTTTTCAACAA-TTCTC
1 GTGTTTTCAAAAATTTC-C
*
19768298 GTG-TTTCAAAAATTTCT
1 GTGTTTTCAAAAATTTCC
19768315 GTGTTTT-AAAAA
1 GTGTTTTCAAAAA
19768327 AAATTTCTTC
Statistics
Matches: 239, Mismatches: 35, Indels: 61
0.71 0.10 0.18
Matches are distributed among these distances:
16 4 0.02
17 66 0.28
18 106 0.44
19 29 0.12
20 18 0.08
21 7 0.03
22 4 0.02
23 5 0.02
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
GTGTTTTCAAAAATTTCC
Found at i:19768147 original size:17 final size:17
Alignment explanation
Indices: 19768113--19768326 Score: 195
Period size: 18 Copynumber: 12.2 Consensus size: 17
19768103 TTTTAAAGAT
19768113 AAATTTTCGTGTTTTCAA
1 AAATTTTCGTG-TTTCAA
*
19768131 AAATTTTCTTGTTTCAA
1 AAATTTTCGTGTTTCAA
*
19768148 AAATCCTTC-TGTTTTCAA
1 AAAT-TTTCGTG-TTTCAA
19768166 AAA-TTTCGGTGTTTCAA
1 AAATTTTC-GTGTTTCAA
*
19768183 AAATCTTCGTGTTTTCAA
1 AAATTTTCGTG-TTTCAA
*
19768201 AAA-TTTCAGTGATTCAAA
1 AAATTTTC-GTGTTTC-AA
19768219 AAATTTTCGTGTTTTCAA
1 AAATTTTCGTG-TTTCAA
19768237 AAATTTCTCGTGTTTCAA
1 AAATTT-TCGTGTTTCAA
* *
19768255 AAATTTTCTTTTTTTC-A
1 AAATTTTC-GTGTTTCAA
*
19768272 AAATGTTCGTGTTTTCAA
1 AAATTTTCGTG-TTTCAA
* *
19768290 CAATTCTCGTGTTTCAA
1 AAATTTTCGTGTTTCAA
*
19768307 AAA-TTTCTGTGTTTTAA
1 AAATTTTC-GTGTTTCAA
19768324 AAA
1 AAA
19768327 AAATTTCTTC
Statistics
Matches: 163, Mismatches: 18, Indels: 31
0.77 0.08 0.15
Matches are distributed among these distances:
16 7 0.04
17 63 0.39
18 81 0.50
19 12 0.07
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (17 bp):
AAATTTTCGTGTTTCAA
Found at i:19768168 original size:35 final size:34
Alignment explanation
Indices: 19768113--19768326 Score: 220
Period size: 35 Copynumber: 6.1 Consensus size: 34
19768103 TTTTAAAGAT
* *
19768113 AAATTTTCGTGTTTTCAAAAATTTTCTTGTTTCAA
1 AAATCTTCGTGTTTTCAAAAA-TTTCGTGTTTCAA
19768148 AAATCCTTC-TGTTTTCAAAAATTTCGGTGTTTCAA
1 AAAT-CTTCGTGTTTTCAAAAATTTC-GTGTTTCAA
*
19768183 AAATCTTCGTGTTTTCAAAAATTTCAGTGATTCAAA
1 AAATCTTCGTGTTTTCAAAAATTTC-GTGTTTC-AA
*
19768219 AAATTTTCGTGTTTTCAAAAATTTCTCGTGTTTCAA
1 AAATCTTCGTGTTTTCAAAAA-TT-TCGTGTTTCAA
* * *
19768255 AAATTTTCTTTTTTTC-AAAATGTTCGTGTTTTCAA
1 AAATCTTCGTGTTTTCAAAAAT-TTCGTG-TTTCAA
* *
19768290 CAAT-TCTCGTG-TTTCAAAAATTTCTGTGTTTTAA
1 AAATCT-TCGTGTTTTCAAAAATTTC-GTGTTTCAA
19768324 AAA
1 AAA
19768327 AAATTTCTTC
Statistics
Matches: 155, Mismatches: 13, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
34 29 0.19
35 75 0.48
36 41 0.26
37 8 0.05
38 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (34 bp):
AAATCTTCGTGTTTTCAAAAATTTCGTGTTTCAA
Found at i:19770362 original size:44 final size:43
Alignment explanation
Indices: 19770299--19770759 Score: 285
Period size: 44 Copynumber: 10.6 Consensus size: 43
19770289 GAAGATGGCA
* *
19770299 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAACCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-TAAT
* * * * * *
19770343 AATCCTATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAAT
* * * *
19770386 AAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGAA-AAC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATAAT
* * * **
19770431 AAGTCTTATC-CCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAATAAT
* **
19770475 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATAAT
* * * * *
19770520 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAAT
* **
19770563 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAA-AGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATAAT
** * * ** ***
19770608 AAGTCTTATC-CTTTGAAGTTGTAGTGGGGCA-AACAGAAGATGGCG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA-AT-AAT
* * * * *
19770653 AATCTTGTCTCCCTGAAGTTGCAGTGGAG-AAAGT--GA-CA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAAT
* * *
19770691 AATCTTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAT-AAT
* *
19770735 GATCTTATCTCTCTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
19770760 AGGGCAAATC
Statistics
Matches: 322, Mismatches: 73, Indels: 44
0.73 0.17 0.10
Matches are distributed among these distances:
38 27 0.08
39 2 0.01
41 2 0.01
42 2 0.01
43 10 0.03
44 206 0.64
45 71 0.22
46 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAAT
Found at i:19770585 original size:177 final size:177
Alignment explanation
Indices: 19770288--19770759 Score: 652
Period size: 177 Copynumber: 2.7 Consensus size: 177
19770278 GATGGATTGA
* *
19770288 AGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAACCAATAATCCTATCT
1 AGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCT
* * * *
19770353 CCCTGAAGTTGTAGTGAAGCAGATTAAAGTTACAAGTCTTATCTCTCTAAAGTTGCAGTGGAGCA
66 CCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCA
*
19770418 GACTGAAGAAAACAAGTCTTATCCCCTGAAGTTGCAGTGGGGCAGAC
131 GACTGAAGAAAACAAGTCTTATCCCCTGAAGTTGCAGTGGGGCAAAC
* * *
19770465 TGAAGATGGTAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCTATCT
1 AGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCT
*
19770530 CCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
66 CCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCA
* ** *
19770595 GACTGAAGAAAGCAAGTCTTATCCTTTGAAGTTGTAGTGGGGCAAAC
131 GACTGAAGAAAACAAGTCTTATCCCCTGAAGTTGCAGTGGGGCAAAC
* * ** * *
19770642 AGAAGATGGCGAATCTTGTCTCCCTGAAGTTGCAGTGGAG-A-A--AGTGAC-A-AATCTTATCT
1 AGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCT
* * * **
19770701 CCCTGAAGTTGCAGTAGAGCGGATTAAAATGA-TTGATCTTATCTCTCTGAAGTTGCAGT
66 CCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAG-TCTTATCTCTCTGAAGTTGCAGT
19770760 AGGGCAAATC
Statistics
Matches: 264, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
170 1 0.00
171 60 0.23
172 1 0.00
173 3 0.01
175 1 0.00
176 1 0.00
177 197 0.75
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (177 bp):
AGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCT
CCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCA
GACTGAAGAAAACAAGTCTTATCCCCTGAAGTTGCAGTGGGGCAAAC
Found at i:19770615 original size:133 final size:134
Alignment explanation
Indices: 19770301--19770634 Score: 385
Period size: 133 Copynumber: 2.5 Consensus size: 134
19770291 AGATGGCAAA
* * * *
19770301 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-T-TA-AAACCAATAATCCTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGC-A-AATCTTATCTCCCTGAAGTT
* ** * * * *
19770363 GTAGTGAAGCAGATTAAAGTTACAAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGAA
64 GTAGTGGAGCAGATTAAAGCCACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAA
19770428 AACAAG
129 AACAAG
* ** *
19770434 TCTTATC-CCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGTAAATCTTATCTCCCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
* * * **
19770498 AGTGGAGCAGATTAAAGCCA-ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAG-TT
66 AGTGGAGCAGATTAAAGCCACA-AATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAA
19770561 ACAAG
130 ACAAG
* **
19770566 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATC-CTTTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
19770630 AGTGG
66 AGTGG
19770635 GGCAAACAGA
Statistics
Matches: 169, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
132 49 0.29
133 117 0.69
134 2 0.01
135 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (134 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAATCTTATCTCCCTGAAGTTGT
AGTGGAGCAGATTAAAGCCACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAAA
CAAG
Done.