Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 51 of 279
Found at i:17057293 original size:10 final size:12
Alignment explanation
Indices: 17057274--17057305 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
17057264 CCATTCAATT
17057274 TAATTATTTAAA
1 TAATTATTTAAA
17057286 -AA-TATTTAAA
1 TAATTATTTAAA
17057296 TAATTATTTA
1 TAATTATTTA
17057306 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 8 0.44
11 4 0.22
12 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATTATTTAAA
Found at i:17058320 original size:2 final size:2
Alignment explanation
Indices: 17058313--17058337 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17058303 TTAATATCTG
17058313 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17058338 CTCAATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17059623 original size:17 final size:18
Alignment explanation
Indices: 17059601--17059637 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17059591 CGAATTGGGC
17059601 TATGTGGG-CCACACGGG
1 TATGTGGGCCCACACGGG
*
17059618 TATGTGGGCCCACGCGGG
1 TATGTGGGCCCACACGGG
17059636 TA
1 TA
17059638 GTCTACACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.16, C:0.24, G:0.41, T:0.19
Consensus pattern (18 bp):
TATGTGGGCCCACACGGG
Found at i:17067531 original size:14 final size:15
Alignment explanation
Indices: 17067507--17067538 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
17067497 CTCGTAGCTT
17067507 CAATCTGCTCCACTG
1 CAATCTGCTCCACTG
17067522 CAAT-TGCTCCACTG
1 CAATCTGCTCCACTG
17067536 CAA
1 CAA
17067539 CTTCAGAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.25, C:0.38, G:0.12, T:0.25
Consensus pattern (15 bp):
CAATCTGCTCCACTG
Found at i:17067639 original size:44 final size:44
Alignment explanation
Indices: 17067526--17068057 Score: 413
Period size: 44 Copynumber: 11.7 Consensus size: 44
17067516 CCACTGCAAT
* * *
17067526 TGCTCCACTGCAACTTCAGAGAGATAAGATTTTCTA-TTTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGTAGCTTT-AATC
* * * *
17067571 TACTCCACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATC
* ** * * * **
17067615 TGCTCTACTGTGACTTTAGAGAGATAAGATTTGCTATCTTCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATC
* * * * *
17067660 TACTCTACTACAACTTCAGAGAGATAAGATTTGTAATTTGTAGCTTTAAGC
1 TGCTCCACTGCAACTTCAGGGAGAT-A-A---G--ATTTGTAGCTTTAATC
* * *
17067711 TGTTCCACTGCAACTTCAGGCAGATAAGATTTATAGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATC
* * * * * *
17067755 TGCTCTACTGCAATTTCAGAGAGATAAGATTTGCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATC
* * * *
17067800 TGCTCCACTGCAACTTTAGGGAGATAAGACTTGTA-ATTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTT-AATC
* * *
17067844 TGCTCCATTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATC
* *
17067888 TGCTCTACTGCAACTTCAGGGAGATAAGATTCGTAGCTTGTCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC---T-TT-AATC
* ** * * ** *
17067937 TACTCCACTATAACTTTAAGGAGATAAGATTTGTTTATTTTTAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG--TAGCTTTAATC
* * * *
17067983 TGCTCCACTGCAATTTTAGGGAGATAAGGTTTGT-GTCTTTAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAG-CTTTAATC
17068027 TGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT
17068058 CGCCATGGTA
Statistics
Matches: 381, Mismatches: 86, Indels: 41
0.75 0.17 0.08
Matches are distributed among these distances:
43 2 0.01
44 179 0.47
45 95 0.25
46 32 0.08
47 4 0.01
48 3 0.01
49 31 0.08
50 2 0.01
51 28 0.07
52 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATC
Found at i:17067677 original size:89 final size:89
Alignment explanation
Indices: 17067526--17068054 Score: 420
Period size: 89 Copynumber: 5.8 Consensus size: 89
17067516 CCACTGCAAT
* * *
17067526 TGCTCCACTGCAACTTCAGAGAGATAAGATTTTCTATTTTCAATCTACTCCACTGTAACTTCAGG
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGG
*
17067591 GAGATAAGGTTTATAGCTTTAATC
66 GAGATAAGGTTTGTAGCTTTAATC
* ** * * * * *
17067615 TGCTCTACTGTGACTTTAGAGAGATAAGATTTGCTATCTTCGATCTACTCTACTACAACTTCAGA
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGG
*
17067680 GAGATAAGATTTGTAATTTGTAGCTTTAAGC
66 GAGATAAG----G---TTTGTAGCTTTAATC
* * * * * * *
17067711 TGTTCCACTGCAACTTCAG-GCAGATAAGATTT-ATAGCTTTAATCTGCTCTACTGCAATTTCAG
1 TGCTCCACTGCAACTTCAGAG-AGATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAG
* * * * *
17067774 AGAGATAAGATTTGCTATCTTCAGTC
65 GGAGATAAGGTTTG-TAGCTTTAATC
* * * * * *
17067800 TGCTCCACTGCAACTTTAGGGAGATAAGACTTG-TAAT-TTCAACCTGCTCCATTGCAACTTCAG
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTTGCT-ATCTTCAATCTACTCCACTGCAACTTCAG
*
17067863 GGAGATAAGGTTTGTGGCTTTAATC
65 GGAGATAAGGTTTGTAGCTTTAATC
* * * **
17067888 TGCTCTACTGCAACTTCAGGGAGATAAGATTCGTAGCTTGTCTTCAATCTACTCCACTATAACTT
1 TGCTCCACTGCAACTTCAGAGAGATAAGATT--T-GC-TATCTTCAATCTACTCCACTGCAACTT
* * * ** *
17067953 TAAGGAGATAAGATTTGTTTATTTTTAACC
62 CAGGGAGATAAGGTTTG--TAGCTTTAATC
* * * * * * * *
17067983 TGCTCCACTGCAATTTTAGGGAGATAAGGTTTG-TGTCTTTAGTCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGG
17068047 GAGATAAG
66 GAGATAAG
17068055 ATTCGCCATG
Statistics
Matches: 348, Mismatches: 72, Indels: 39
0.76 0.16 0.08
Matches are distributed among these distances:
88 39 0.11
89 130 0.37
90 35 0.10
91 1 0.00
92 2 0.01
93 35 0.10
95 68 0.20
96 38 0.11
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (89 bp):
TGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGG
GAGATAAGGTTTGTAGCTTTAATC
Found at i:17067782 original size:140 final size:136
Alignment explanation
Indices: 17067528--17068057 Score: 555
Period size: 140 Copynumber: 3.9 Consensus size: 136
17067518 ACTGCAATTG
* * * * * *
17067528 CTCCACTGCAACTTCAGAGAGATAAGATTT-TCTATTTTC---AATCTACTCCACTGTAACTTCA
1 CTCCACTACAACTTTAGAGAGATAAGATTTGT-AATTTTCTTTAACCTGCTCCACTGCAACTTCA
** *
17067589 GGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGTGACTTTAGAGAGATAAGATTTGCTATCT
65 GGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCT
17067654 TCGATCTA
130 TC-ATCTA
* * * *
17067662 CTCTACTACAACTTCAGAGAGATAAGATTTGTAATTTGTAGCTTTAAGCTGTTCCACTGCAACTT
1 CTCCACTACAACTTTAGAGAGATAAGATTTGTAATTT-T--CTTTAACCTGCTCCACTGCAACTT
* * *
17067727 CAGGCAGATAAGATTTATAGCTTTAATCTGCTCTACTGCAATTTCAGAGAGATAAGATTTGCTAT
63 CAGGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT
*
17067792 CTTCAGTCTG
128 CTTCA-TCTA
* * * *
17067802 CTCCACTGCAACTTTAGGGAGATAAGACTTGTAA-TTTC---AACCTGCTCCATTGCAACTTCAG
1 CTCCACTACAACTTTAGAGAGATAAGATTTGTAATTTTCTTTAACCTGCTCCACTGCAACTTCAG
* * * *
17067863 GGAGATAAGGTTTGTGGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTCGTAGCTTG
66 GGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATT--T-GC-TA
17067928 TCTTCAATCTA
127 TCTTC-ATCTA
* * *
17067939 CTCCACTATAACTTTA-AGGAGATAAGATTTGT--TTATT-TTTAACCTGCTCCACTGCAATTTT
1 CTCCACTACAACTTTAGA-GAGATAAGATTTGTAATT-TTCTTTAACCTGCTCCACTGCAACTTC
* * * *
17068000 AGGGAGATAAGGTTTGT-GTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT
64 AGGGAGATAAGGTTTATAG-CTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATT
17068058 CGCCATGGTA
Statistics
Matches: 337, Mismatches: 39, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
133 70 0.21
134 32 0.09
135 3 0.01
136 4 0.01
137 39 0.12
138 3 0.01
139 75 0.22
140 111 0.33
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (136 bp):
CTCCACTACAACTTTAGAGAGATAAGATTTGTAATTTTCTTTAACCTGCTCCACTGCAACTTCAG
GGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTT
CATCTA
Found at i:17087734 original size:26 final size:26
Alignment explanation
Indices: 17087698--17087751 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
17087688 GTCTGCTTGA
*
17087698 AAGTCTAGGATAACAAAATCAGCAGG
1 AAGTATAGGATAACAAAATCAGCAGG
17087724 AAGTATAGGATAACAAAATCAGCAGG
1 AAGTATAGGATAACAAAATCAGCAGG
17087750 AA
1 AA
17087752 AGATAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.50, C:0.13, G:0.22, T:0.15
Consensus pattern (26 bp):
AAGTATAGGATAACAAAATCAGCAGG
Found at i:17098891 original size:31 final size:34
Alignment explanation
Indices: 17098820--17098892 Score: 89
Period size: 36 Copynumber: 2.2 Consensus size: 34
17098810 ATGATTAAAC
*
17098820 AATTTAATAATATAAATAGTACAAAATATGAAATTT
1 AATTTAATAATATAAATAGT--AAAATATGAAATTA
*
17098856 AATTTAATAATATAAATAGT-AGATAT-AAA-TA
1 AATTTAATAATATAAATAGTAAAATATGAAATTA
17098887 AATTTA
1 AATTTA
17098893 TTACTATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 7 0.20
32 3 0.09
33 5 0.14
36 20 0.57
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.37
Consensus pattern (34 bp):
AATTTAATAATATAAATAGTAAAATATGAAATTA
Found at i:17103199 original size:47 final size:47
Alignment explanation
Indices: 17103138--17103305 Score: 164
Period size: 47 Copynumber: 3.6 Consensus size: 47
17103128 TATGAGAGCC
17103138 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGACAAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-AAGACAAGTGCT
* ** *
17103186 AGTGTAAGA-CATGTCTGGGATAT-GCATCGGCTATGGGATGATAGT-C-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATAAGA-CA-AGTGCT
* * * * *
17103232 AGGGTAAGACCATGTCTGGGACATGGCATCGACATGAGACATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAAGACAAGTGCT
* * *
17103279 AGTGTAAAACCGTGTCTAGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
17103306 GTCAGCACCT
Statistics
Matches: 98, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 20 0.20
47 58 0.59
48 19 0.19
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAAGACAAGTGCT
Found at i:17104463 original size:21 final size:21
Alignment explanation
Indices: 17104433--17104472 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17104423 TTGAATTGTC
17104433 CACACAGGCATGTGCCCCTTT
1 CACACAGGCATGTGCCCCTTT
*
17104454 CACACGGGCATGTGCCCCT
1 CACACAGGCATGTGCCCCT
17104473 ATGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.40, G:0.23, T:0.20
Consensus pattern (21 bp):
CACACAGGCATGTGCCCCTTT
Found at i:17105649 original size:40 final size:40
Alignment explanation
Indices: 17105590--17105669 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
17105580 ACCGGTGGTT
* *
17105590 TCTTGGTCACGACCGGCTAAAGCTAAAGTTCCATTAAAGA
1 TCTTGGTCACGACCAGCTAAACCTAAAGTTCCATTAAAGA
17105630 TCTTGGTCACGACCAGCTAAACCTAAAGTTCCATTAAAGA
1 TCTTGGTCACGACCAGCTAAACCTAAAGTTCCATTAAAGA
17105670 GCGTTTCCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (40 bp):
TCTTGGTCACGACCAGCTAAACCTAAAGTTCCATTAAAGA
Found at i:17110892 original size:155 final size:153
Alignment explanation
Indices: 17110694--17111109 Score: 515
Period size: 156 Copynumber: 2.7 Consensus size: 153
17110684 GAATTTTTTT
* * * *
17110694 AAAAAGAGAAAATTTAAATTTT-AACAAATAAAAATTTGTTTTTTT-GTTATTTTAAAGGAAATT
1 AAAAAGAGAAAATTTAGATTTTGAA-AAATAAAAATCTATTTTTTTAGTTATTTTAAAGGAAAGT
* * *
17110757 TTAAAATTTTAAAACAAAGATTTGATTTTTTTTTCAAGTATTTCAAAGTAAAAGCTTTAATATTT
65 TTAAAATTTTAAAACAAAGATTTGATTTTTTTTTCAACTATTTCAAAATAAAAGCTTTAATATAT
*
17110822 AAGAAAAATAACATTTTTTTTTTCAAA
130 AAG-AAAATAA-ATTATTTTTTT-AAA
* *
17110849 AAAAAGAGAAATTTTAGATTTTGAAAAATAAAAATCTACTTTTTTTAGTCATTTTAAAGGAAAGT
1 AAAAAGAGAAAATTTAGATTTTGAAAAATAAAAATCTA-TTTTTTTAGTTATTTTAAAGGAAAGT
* * *
17110914 TTAAAATTTTAAAATAAA-ATTTTGAATTTTTTTTTCAACTATTTTAAAATAAAAGCTTTAATCT
65 TTAAAATTTTAAAACAAAGA-TTTG-ATTTTTTTTTCAACTATTTCAAAATAAAAGCTTTAATAT
* *
17110978 ATAAGAAAATTAGTTATTTTTTTAAA
128 ATAAGAAAATAAATTATTTTTTTAAA
17111004 AAAAAGGAGAAAATTTAGATTTTG-AAAATAAAAATCTATTTTTTTAAAGTCT-TTTTAAAGGAA
1 AAAAA-GAGAAAATTTAGATTTTGAAAAATAAAAATCTATTTTTTT--AGT-TATTTTAAAGGAA
* **
17111067 AGTTTAAATTTTTAAAACAAAG-TTT-AAATTTTTTT-AACTATTT
62 AGTTTAAAATTTTAAAACAAAGATTTGATTTTTTTTTCAACTATTT
17111110 TCTTCCACAT
Statistics
Matches: 230, Mismatches: 21, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
152 8 0.03
153 8 0.03
154 7 0.03
155 56 0.24
156 69 0.30
157 43 0.19
158 39 0.17
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.43
Consensus pattern (153 bp):
AAAAAGAGAAAATTTAGATTTTGAAAAATAAAAATCTATTTTTTTAGTTATTTTAAAGGAAAGTT
TAAAATTTTAAAACAAAGATTTGATTTTTTTTTCAACTATTTCAAAATAAAAGCTTTAATATATA
AGAAAATAAATTATTTTTTTAAA
Found at i:17111080 original size:20 final size:20
Alignment explanation
Indices: 17111055--17111099 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
17111045 TTTTAAAGTC
**
17111055 TTTTTAAAGGAAAGTTTAAA
1 TTTTTAAAACAAAGTTTAAA
17111075 TTTTTAAAACAAAGTTTAAA
1 TTTTTAAAACAAAGTTTAAA
17111095 TTTTT
1 TTTTT
17111100 TTAACTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (20 bp):
TTTTTAAAACAAAGTTTAAA
Found at i:17111099 original size:21 final size:21
Alignment explanation
Indices: 17111046--17111100 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
17111036 AATCTATTTT
**
17111046 TTTAAAGTCTTTTTAAAGGAAAG
1 TTTAAA-T-TTTTTAAAACAAAG
17111069 TTTAAA-TTTTTAAAACAAAG
1 TTTAAATTTTTTAAAACAAAG
17111089 TTTAAATTTTTT
1 TTTAAATTTTTT
17111101 TAACTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 18 0.62
21 5 0.17
23 6 0.21
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (21 bp):
TTTAAATTTTTTAAAACAAAG
Found at i:17111316 original size:10 final size:10
Alignment explanation
Indices: 17111281--17111339 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
17111271 CACTTGTATA
17111281 ATTTTTATTT
1 ATTTTTATTT
*
17111291 ATTCTTATTTT
1 ATTTTTA-TTT
*
17111302 GTTTTTATTT
1 ATTTTTATTT
*
17111312 ATTTTCATGTCT
1 ATTTTTAT-T-T
*
17111324 ATTTATATTT
1 ATTTTTATTT
17111334 ATTTTT
1 ATTTTT
17111340 TTACACATTC
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 21 0.55
11 10 0.26
12 7 0.18
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:17118439 original size:6 final size:6
Alignment explanation
Indices: 17118428--17118493 Score: 73
Period size: 6 Copynumber: 10.7 Consensus size: 6
17118418 CCAATCTTTC
*
17118428 TTTTTA TTTTTA TTTTTA CTTTTA TTTTTTA TTATTTA TTATTT- TCTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TT-TTTA TT-TTTA T-TTTTA
17118479 TTTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTT
17118494 AGTTAAATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
5 5 0.09
6 31 0.58
7 17 0.32
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:17118469 original size:17 final size:16
Alignment explanation
Indices: 17118441--17118494 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
17118431 TTATTTTTAT
*
17118441 TTTTACTTTTATTTT-
1 TTTTATTTTTATTTTC
17118456 TTATTATTTATTATTTTC
1 TT-TTATTT-TTATTTTC
*
17118474 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTC
17118490 TTTTA
1 TTTTA
17118495 GTTAAATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 2 0.06
16 17 0.50
17 13 0.38
18 2 0.06
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTATTTTC
Found at i:17118890 original size:44 final size:43
Alignment explanation
Indices: 17118827--17118912 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 43
17118817 AACCCGAAGT
17118827 TGAACCGCCGTTGCCACGTCACACACCCCGTCTCCACATCTTNC
1 TGAACCGCCGTTGCCACGTCACACACCCCGTCTCCACATCTT-C
* * *
17118871 TGAACCGCCGTTGCCACGTCGCCCACCCCGTCTCCACCTCTT
1 TGAACCGCCGTTGCCACGTCACACACCCCGTCTCCACATCTT
17118913 GCCGTTTTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.15, C:0.48, G:0.15, T:0.21
Consensus pattern (43 bp):
TGAACCGCCGTTGCCACGTCACACACCCCGTCTCCACATCTTC
Found at i:17119705 original size:118 final size:118
Alignment explanation
Indices: 17119518--17119845 Score: 611
Period size: 118 Copynumber: 2.8 Consensus size: 118
17119508 CAGCTTAGAC
*
17119518 CGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAGGTTG
1 CGTGACTGACTAAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAGGTTG
17119583 TGTGACGTGACAAGTAAAACTCCGCTAGCCAAGGTTATGAGTATGGCTCAAAT
66 TGTGACGTGACAAGTAAAACTCCGCTAGCCAAGGTTATGAGTATGGCTCAAAT
17119636 CGTGACTGACTAAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAGGTTG
1 CGTGACTGACTAAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAGGTTG
17119701 TGTGACGTGACAAGTAAAACTCCGCTAGCCAAGGTTATGAGTATGGCTCAAAT
66 TGTGACGTGACAAGTAAAACTCCGCTAGCCAAGGTTATGAGTATGGCTCAAAT
17119754 CGTGACTGACTAAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAGGTTG
1 CGTGACTGACTAAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAGGTTG
****
17119819 TGTGACGTGTTGGGTAAAACTCCGCTA
66 TGTGACGTGACAAGTAAAACTCCGCTA
17119846 ACCGGAAATA
Statistics
Matches: 205, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 205 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (118 bp):
CGTGACTGACTAAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAGGTTG
TGTGACGTGACAAGTAAAACTCCGCTAGCCAAGGTTATGAGTATGGCTCAAAT
Found at i:17120584 original size:300 final size:300
Alignment explanation
Indices: 17120042--17120641 Score: 1200
Period size: 300 Copynumber: 2.0 Consensus size: 300
17120032 ATAAAGTTGC
17120042 ACTTCGGGGACTAAAGGAGGAAATAATTAAGGTGTCTTAGTAGGTTTGGTAATTTACCTAAACGG
1 ACTTCGGGGACTAAAGGAGGAAATAATTAAGGTGTCTTAGTAGGTTTGGTAATTTACCTAAACGG
17120107 CATAACTCAAGTCGATCTTAATTTTTGTGTGAAATAATTGGAATACTTTTTTCTGTTTTACTTAA
66 CATAACTCAAGTCGATCTTAATTTTTGTGTGAAATAATTGGAATACTTTTTTCTGTTTTACTTAA
17120172 AGCAAGCTTAGAGGTCTCTTTATTTTTCATATGCATTTTTAACTAATTTTTATGAAACTTTGGAG
131 AGCAAGCTTAGAGGTCTCTTTATTTTTCATATGCATTTTTAACTAATTTTTATGAAACTTTGGAG
17120237 TGGTATTTCTTTTATGGCAGAATCTGGCTTTCACAGTCGATAAGAACCATACTTGAGGGCAAGCA
196 TGGTATTTCTTTTATGGCAGAATCTGGCTTTCACAGTCGATAAGAACCATACTTGAGGGCAAGCA
17120302 TGGGCTAAGTAGGGGGAATTTGATAATACTCTAAAATGAT
261 TGGGCTAAGTAGGGGGAATTTGATAATACTCTAAAATGAT
17120342 ACTTCGGGGACTAAAGGAGGAAATAATTAAGGTGTCTTAGTAGGTTTGGTAATTTACCTAAACGG
1 ACTTCGGGGACTAAAGGAGGAAATAATTAAGGTGTCTTAGTAGGTTTGGTAATTTACCTAAACGG
17120407 CATAACTCAAGTCGATCTTAATTTTTGTGTGAAATAATTGGAATACTTTTTTCTGTTTTACTTAA
66 CATAACTCAAGTCGATCTTAATTTTTGTGTGAAATAATTGGAATACTTTTTTCTGTTTTACTTAA
17120472 AGCAAGCTTAGAGGTCTCTTTATTTTTCATATGCATTTTTAACTAATTTTTATGAAACTTTGGAG
131 AGCAAGCTTAGAGGTCTCTTTATTTTTCATATGCATTTTTAACTAATTTTTATGAAACTTTGGAG
17120537 TGGTATTTCTTTTATGGCAGAATCTGGCTTTCACAGTCGATAAGAACCATACTTGAGGGCAAGCA
196 TGGTATTTCTTTTATGGCAGAATCTGGCTTTCACAGTCGATAAGAACCATACTTGAGGGCAAGCA
17120602 TGGGCTAAGTAGGGGGAATTTGATAATACTCTAAAATGAT
261 TGGGCTAAGTAGGGGGAATTTGATAATACTCTAAAATGAT
17120642 GTGTTTTTAT
Statistics
Matches: 300, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 300 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (300 bp):
ACTTCGGGGACTAAAGGAGGAAATAATTAAGGTGTCTTAGTAGGTTTGGTAATTTACCTAAACGG
CATAACTCAAGTCGATCTTAATTTTTGTGTGAAATAATTGGAATACTTTTTTCTGTTTTACTTAA
AGCAAGCTTAGAGGTCTCTTTATTTTTCATATGCATTTTTAACTAATTTTTATGAAACTTTGGAG
TGGTATTTCTTTTATGGCAGAATCTGGCTTTCACAGTCGATAAGAACCATACTTGAGGGCAAGCA
TGGGCTAAGTAGGGGGAATTTGATAATACTCTAAAATGAT
Found at i:17124034 original size:12 final size:13
Alignment explanation
Indices: 17124017--17124048 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
17124007 TAAACAAAAA
17124017 ACAAAAATAAAT-
1 ACAAAAATAAATC
17124029 ACAAAAATAAATC
1 ACAAAAATAAATC
17124042 ACAAAAA
1 ACAAAAA
17124049 ATGTTACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.12
Consensus pattern (13 bp):
ACAAAAATAAATC
Found at i:17140683 original size:131 final size:131
Alignment explanation
Indices: 17140449--17140705 Score: 363
Period size: 131 Copynumber: 2.0 Consensus size: 131
17140439 TAATTATTCA
* * * * *
17140449 TTTAAAAATTCTTTAAAACGAAGGCGATGTTCGATGTTTGGCAATTCGCGGAATCGTGCCCTATC
1 TTTAAAAACTCTTTAAAACGAAGGCAATATTCGATGTTTGGAAATTCGCGGAATAGTGCCCTATC
* *
17140514 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCAAATGTCCCTTTAGAATTTCACTCATGT
66 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT
17140579 C
131 C
* * *
17140580 TTTAAAAACTCTTTAAAGCGAAGGCAATATTTGATGTTTGGAAATTCAG-TGAATAGTGCCCTAT
1 TTTAAAAACTCTTTAAAACGAAGGCAATATTCGATGTTTGGAAATTC-GCGGAATAGTGCCCTAT
* * * * *
17140644 CGTGTTGGGTTTCGATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTGGAATTTCACTC
65 CGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTC
17140706 GTGTTTTCTA
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
131 109 0.99
132 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (131 bp):
TTTAAAAACTCTTTAAAACGAAGGCAATATTCGATGTTTGGAAATTCGCGGAATAGTGCCCTATC
GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT
C
Found at i:17144564 original size:9 final size:9
Alignment explanation
Indices: 17144547--17144583 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
17144537 ATTTTAGGGC
17144547 TTCAATCTT
1 TTCAATCTT
*
17144556 TTAAATCTT
1 TTCAATCTT
17144565 TTCAATCTT
1 TTCAATCTT
17144574 TTCAATCTT
1 TTCAATCTT
17144583 T
1 T
17144584 CTTGTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.00, T:0.57
Consensus pattern (9 bp):
TTCAATCTT
Found at i:17145520 original size:26 final size:25
Alignment explanation
Indices: 17145491--17145602 Score: 71
Period size: 26 Copynumber: 4.2 Consensus size: 25
17145481 ATTATTCACC
17145491 TTAAATTGTGTTAGATATTATTTATT
1 TTAAATTGT-TTAGATATTATTTATT
* * * *
17145517 TTAAATTATGTCATATATTATCTATTT
1 TTAAATTGT-TTAGATATTATTTA-TT
* * *
17145544 TTGAATTGCTTTATATTTTATTTTATT
1 TTAAATTG-TTTAGATATTA-TTTATT
* * * *
17145571 TCAAATTGTTTTGTATTTTATTTATG
1 TTAAATTGTTTAG-ATATTATTTATT
17145597 TTAAAT
1 TTAAAT
17145603 CTTTTTCATA
Statistics
Matches: 67, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
26 33 0.49
27 30 0.45
28 4 0.06
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.60
Consensus pattern (25 bp):
TTAAATTGTTTAGATATTATTTATT
Found at i:17150105 original size:14 final size:14
Alignment explanation
Indices: 17150068--17150105 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
17150058 TATTAAAAAT
17150068 TTTAAAATT-TTTA
1 TTTAAAATTATTTA
* *
17150081 TTTATACTTATTTA
1 TTTAAAATTATTTA
17150095 TTTAAAATTAT
1 TTTAAAATTAT
17150106 GTGTTTTCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTAAAATTATTTA
Found at i:17153120 original size:12 final size:12
Alignment explanation
Indices: 17153096--17153133 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17153086 TACAAGTTTT
17153096 AAAAAATC-AAA
1 AAAAAATCTAAA
*
17153107 AAGAAAATTTAAA
1 AA-AAAATCTAAA
17153120 AAAAAATCTAAA
1 AAAAAATCTAAA
17153132 AA
1 AA
17153134 GGTAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 16 0.70
13 5 0.22
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (12 bp):
AAAAAATCTAAA
Found at i:17154849 original size:19 final size:19
Alignment explanation
Indices: 17154815--17154856 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
17154805 TGACCCTTTT
*
17154815 TTTTTTCCCAAATTTTC-A
1 TTTTTTCCAAAATTTTCTA
17154833 TTTTTTCCAAAATTTTTCTA
1 TTTTTTCCAAAA-TTTTCTA
17154853 TTTT
1 TTTT
17154857 GTTTCGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 5 0.24
20 5 0.24
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTTCCAAAATTTTCTA
Found at i:17155107 original size:27 final size:27
Alignment explanation
Indices: 17155068--17155210 Score: 223
Period size: 27 Copynumber: 5.3 Consensus size: 27
17155058 TACACGTCAG
*
17155068 GAAAGGAATGCCTTTGTGGCGCAATAT
1 GAAAGGAATGCCTTTGTGGCACAATAT
* *
17155095 AAAAGGAATGCCTTTGTGGCATAATAT
1 GAAAGGAATGCCTTTGTGGCACAATAT
17155122 GAAAGGAATGCCTTTGTGGCACAATAT
1 GAAAGGAATGCCTTTGTGGCACAATAT
**
17155149 GAAAGGAACACCTTTGTGGCACAATAT
1 GAAAGGAATGCCTTTGTGGCACAATAT
* *
17155176 GAAAAGAATGCCTTTGTGGCGCAATAT
1 GAAAGGAATGCCTTTGTGGCACAATAT
17155203 GAAAGGAA
1 GAAAGGAA
17155211 CACCTGTCAA
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (27 bp):
GAAAGGAATGCCTTTGTGGCACAATAT
Found at i:17156056 original size:18 final size:17
Alignment explanation
Indices: 17156031--17156078 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
17156021 AAAAAATAAA
17156031 AAAATGATAATAACAAC
1 AAAATGATAATAACAAC
* *
17156048 AATAATGATAATGATAAC
1 AA-AATGATAATAACAAC
*
17156066 AAAATAATAATAA
1 AAAATGATAATAA
17156079 TAAAATCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (17 bp):
AAAATGATAATAACAAC
Found at i:17156073 original size:20 final size:21
Alignment explanation
Indices: 17156040--17156079 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
17156030 AAAAATGATA
*
17156040 ATAACAACAATAATGATAATG
1 ATAACAACAATAATAATAATG
17156061 ATAACAA-AATAATAATAAT
1 ATAACAACAATAATAATAAT
17156080 AAAATCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (21 bp):
ATAACAACAATAATAATAATG
Found at i:17156369 original size:46 final size:47
Alignment explanation
Indices: 17156313--17156408 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
17156303 TTAAATAGAC
17156313 TAAGGATTGAATTGAAATT-AAAGGGAGTTTTGGGCTTAAATTATAA
1 TAAGGATTGAATTGAAATTAAAAGGGAGTTTTGGGCTTAAATTATAA
17156359 TAAGGATTGAATTGAAATTAAAAGGGAGTTTTGGGCTTAAATTATAA
1 TAAGGATTGAATTGAAATTAAAAGGGAGTTTTGGGCTTAAATTATAA
17156406 TAA
1 TAA
17156409 AATAAATGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 19 0.39
47 30 0.61
ACGTcount: A:0.41, C:0.02, G:0.23, T:0.34
Consensus pattern (47 bp):
TAAGGATTGAATTGAAATTAAAAGGGAGTTTTGGGCTTAAATTATAA
Found at i:17162176 original size:39 final size:40
Alignment explanation
Indices: 17162131--17162302 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
17162121 GCTCCTCGTT
* * *
17162131 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
17162171 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
17162210 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
17162250 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
17162290 CAAATGCCTTCGG
1 CAAATGCCTTCGG
17162303 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:17162231 original size:40 final size:39
Alignment explanation
Indices: 17162133--17162355 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
17162123 TCCTCGTTCA
* * * *
17162133 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
17162172 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
17162211 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
17162251 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
17162291 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
17162332 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17162356 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:17162315 original size:80 final size:79
Alignment explanation
Indices: 17162131--17162355 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
17162121 GCTCCTCGTT
* * * * *
17162131 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
17162195 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
17162210 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
17162275 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
17162290 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
17162354 GA
63 GA
17162356 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:17162364 original size:41 final size:41
Alignment explanation
Indices: 17162287--17162364 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17162277 TTTGTATCTC
* * *
17162287 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17162328 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17162365 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17166740 original size:14 final size:13
Alignment explanation
Indices: 17166712--17166748 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
17166702 ATCCTGGAAT
17166712 ATTAA-AACAATA
1 ATTAAGAACAATA
17166724 ATTAAGAACACATA
1 ATTAAGAACA-ATA
17166738 ATTAAGAACAA
1 ATTAAGAACAA
17166749 ATCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:17168361 original size:44 final size:44
Alignment explanation
Indices: 17168256--17168816 Score: 347
Period size: 44 Copynumber: 12.6 Consensus size: 44
17168246 TCATTCCAAC
* * *
17168256 CCACTGCAACTTCAGGG-GTGTAAGAATT-GTCGCTTCAATATGCT
1 CCACTGCAACTTCAGGGAG-ATAAG-ATTAGTAGCTTCAATCTGCT
* * *
17168300 TCATTGCAACTTTAGGGAGATAAGATTAGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
* * * * * ** *
17168344 CCACTGTAACTCCAGGGAAATAAGATTCGCATATTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
* ***
17168388 CCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAGCATT-AATCCATT
1 CCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTAGC-TTCAATCTGCT
* * * *
17168439 CCACTGCAACTTCAGGGAAATAAGATTCA-CATCTTCACTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATT-AGTAGCTTCAATCTGCT
* * * * * *
17168483 CCACTACAACTTTAGGGAGACAAGGTTTGCTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAATCTGCT
*
17168528 CCACTGCAACTTCAGGGAGATAAGACTTA-TAGCTTCAA-CTTTCT
1 CCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTCAATC-TGCT
* * * * *
17168572 TCATTGCAACTTCAGGGAGATAAGGTTTA-TAGCTTTAATATGCT
1 CCACTGCAACTTCAGGGAGATAA-GATTAGTAGCTTCAATCTGCT
* * * * * * *
17168616 CTATTGCAAATTCAGGGAGATAAAATTTGTTATCTTCAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAATCTGCT
* * *
17168661 CCACTGCAACTTCA-GG-G-TAAGGTTTA-TAGCTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAA-GATTAGTAGCTTCAATCTGCT
* * *
17168702 CCACTGTAACTTTAGGGAGATAAGATTTA-TAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTCAATCTGCT
** * * * * *
17168746 TTACTACAACTTTAAGGAGATAAGATTAGT-GACTTCAACCTTCT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAG-CTTCAATCTGCT
* * *
17168790 CCACCGTAACTTTAGGGAGATAAGATT
1 CCACTGCAACTTCAGGGAGATAAGATT
17168817 TGCCATAGTG
Statistics
Matches: 396, Mismatches: 95, Indels: 52
0.73 0.17 0.10
Matches are distributed among these distances:
41 23 0.06
42 5 0.01
43 17 0.04
44 253 0.64
45 60 0.15
46 3 0.01
47 1 0.00
48 2 0.01
49 1 0.00
51 29 0.07
52 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
Found at i:17176662 original size:12 final size:12
Alignment explanation
Indices: 17176645--17176681 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
17176635 TAATTATTTT
17176645 TCACTTATTTAC
1 TCACTTATTTAC
*
17176657 TCACTTATTTAT
1 TCACTTATTTAC
*
17176669 TCACTTATATAC
1 TCACTTATTTAC
17176681 T
1 T
17176682 TCAATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (12 bp):
TCACTTATTTAC
Found at i:17180645 original size:19 final size:20
Alignment explanation
Indices: 17180623--17180667 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
17180613 TTATGAAACT
*
17180623 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
*
17180642 TAATGGAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
17180662 -AATGCA
1 TAATGCA
17180668 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:17181060 original size:21 final size:22
Alignment explanation
Indices: 17181031--17181071 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
17181021 TGTAGTGCGG
*
17181031 TTTCGAGCTCTTCTATCTTTCC
1 TTTCGAGCTCTTCAATCTTTCC
17181053 TTTC-AGCTCTTCAATCTTT
1 TTTCGAGCTCTTCAATCTTT
17181072 TTTGGGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.29, G:0.07, T:0.51
Consensus pattern (22 bp):
TTTCGAGCTCTTCAATCTTTCC
Found at i:17184338 original size:3 final size:3
Alignment explanation
Indices: 17184330--17184385 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
17184320 AAAGATAAAA
* * * * *
17184330 AAT AAT AAT TAC AAC AAT AAT AAT AAT GAT AAC AA- AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
17184375 AAT AAT AAT AA
1 AAT AAT AAT AA
17184386 AATCTAAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:17184351 original size:18 final size:17
Alignment explanation
Indices: 17184328--17184372 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
17184318 AAAAAGATAA
*
17184328 AAAATAATAATTACAAC
1 AAAATAATAATGACAAC
*
17184345 AATAATAATAATGATAAC
1 AA-AATAATAATGACAAC
17184363 AAAATAATAA
1 AAAATAATAA
17184373 ATAATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAATAATAATGACAAC
Found at i:17184356 original size:21 final size:21
Alignment explanation
Indices: 17184315--17184388 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
17184305 AATAAGCGTA
*
17184315 AATAA-AAAGATAAAAAATAAT
1 AATAACAAA-ATAATAAATAAT
*
17184336 AATTACAACAATAAT-AATAAT
1 AATAACAA-AATAATAAATAAT
*
17184357 GATAACAAAATAATAAATAAT
1 AATAACAAAATAATAAATAAT
*
17184378 AATAATAAAAT
1 AATAACAAAAT
17184389 CTAAATTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.14
21 31 0.70
22 6 0.14
23 1 0.02
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (21 bp):
AATAACAAAATAATAAATAAT
Found at i:17184379 original size:18 final size:17
Alignment explanation
Indices: 17184324--17184379 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
17184314 AAATAAAAAG
*
17184324 ATAA-AAAATAATAATT
1 ATAACAAAATAATAATA
* *
17184340 ACAACAATAATAATAATG
1 ATAACAA-AATAATAATA
17184358 ATAACAAAATAATAAATA
1 ATAACAAAATAAT-AATA
17184376 ATAA
1 ATAA
17184380 TAATAAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 3 0.09
17 8 0.24
18 22 0.67
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (17 bp):
ATAACAAAATAATAATA
Found at i:17185856 original size:35 final size:35
Alignment explanation
Indices: 17185817--17185887 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
17185807 CCAAGAGTAA
17185817 GTGATTGGTATTATGGACATTGAGATCGACATTAC
1 GTGATTGGTATTATGGACATTGAGATCGACATTAC
17185852 GTGATTGGTATTATGGACATTGAGATCGACATTAC
1 GTGATTGGTATTATGGACATTGAGATCGACATTAC
17185887 G
1 G
17185888 AGCAAGCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (35 bp):
GTGATTGGTATTATGGACATTGAGATCGACATTAC
Found at i:17187813 original size:43 final size:47
Alignment explanation
Indices: 17187766--17187889 Score: 125
Period size: 48 Copynumber: 2.7 Consensus size: 47
17187756 ATTTCGTATT
*
17187766 AGACCAAAG-CTGGG-C-T-ATTGGCATCGATCTACAATCCCAAGTA
1 AGACCAAAGACTGGGACATGATTGGCAACGATCTACAATCCCAAGTA
* *
17187809 AGACC-ATGACTGGGACATGGCATTGGCAACGATCTACAATCCCACGTA
1 AGACCAAAGACTGGGACAT-G-ATTGGCAACGATCTACAATCCCAAGTA
* *
17187857 AGACC-ATGACTGGGACATGGCATTGGCATCGAT
1 AGACCAAAGACTGGGACAT-G-ATTGGCAACGAT
17187890 ATGTGATCCC
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
42 2 0.03
43 10 0.14
44 1 0.01
45 1 0.01
48 57 0.80
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (47 bp):
AGACCAAAGACTGGGACATGATTGGCAACGATCTACAATCCCAAGTA
Found at i:17187842 original size:48 final size:48
Alignment explanation
Indices: 17187782--17187934 Score: 200
Period size: 48 Copynumber: 3.2 Consensus size: 48
17187772 AAGCTGGGCT
17187782 ATTGGCATCGATCTACAATCCCAAGTAAGACCATGACTGGGACATGGC
1 ATTGGCATCGATCTACAATCCCAAGTAAGACCATGACTGGGACATGGC
* *
17187830 ATTGGCAACGATCTACAATCCCACGTAAGACCATGACTGGGACATGGC
1 ATTGGCATCGATCTACAATCCCAAGTAAGACCATGACTGGGACATGGC
* *** * ** *
17187878 ATTGGCATCGATATGTGATCCCATGTAAGACCAT-ATCCAGGATATGGC
1 ATTGGCATCGATCTACAATCCCAAGTAAGACCATGA-CTGGGACATGGC
17187926 ATTGGCATC
1 ATTGGCATC
17187935 CTACCATGTG
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 92 0.99
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (48 bp):
ATTGGCATCGATCTACAATCCCAAGTAAGACCATGACTGGGACATGGC
Found at i:17189723 original size:15 final size:16
Alignment explanation
Indices: 17189703--17189732 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17189693 TGCATATGTA
17189703 TGAATG-AATTTGATT
1 TGAATGAAATTTGATT
17189718 TGAATGAAATTTGAT
1 TGAATGAAATTTGAT
17189733 GGCCAGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (16 bp):
TGAATGAAATTTGATT
Found at i:17192476 original size:13 final size:13
Alignment explanation
Indices: 17192454--17192486 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17192444 AAGGGTTTGT
17192454 TTAT-TAAACTAA
1 TTATCTAAACTAA
17192466 TTATCTAAACTAA
1 TTATCTAAACTAA
*
17192479 TTAACTAA
1 TTATCTAA
17192487 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:17194543 original size:40 final size:40
Alignment explanation
Indices: 17194457--17194543 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
17194447 GTTACATGTA
* * * *
17194457 TGGTGTGTTTTAGTTGGATTAGCTCTTATGAGCTTCTGTC
1 TGGTGTGTTTGAGTTGGACTAACTCTTATGAGATTCTGTC
* *
17194497 TAGTGTGTTTCGA-TTGGACTAACTCTTATGAGATTCTGTT
1 TGGTGTGTTT-GAGTTGGACTAACTCTTATGAGATTCTGTC
17194537 TGGTGTG
1 TGGTGTG
17194544 CCCGATTGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.15, C:0.11, G:0.28, T:0.46
Consensus pattern (40 bp):
TGGTGTGTTTGAGTTGGACTAACTCTTATGAGATTCTGTC
Found at i:17207359 original size:24 final size:24
Alignment explanation
Indices: 17207275--17207361 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 24
17207265 TTCGGGAATC
* * *
17207275 CTCATACGAGCACATAAACAGAAAG
1 CTCATACGAGC-CATTAACGGGAAG
* **
17207300 CTCTTGTGAGCCATATAACGGGAAG
1 CTCATACGAGCCAT-TAACGGGAAG
**
17207325 CTCCGGA-GAGCCATTAACGGGAAG
1 CT-CATACGAGCCATTAACGGGAAG
17207349 CTCATACGAGCCA
1 CTCATACGAGCCA
17207362 ATTTCGGGAA
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
23 2 0.04
24 21 0.44
25 24 0.50
26 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.16
Consensus pattern (24 bp):
CTCATACGAGCCATTAACGGGAAG
Found at i:17207407 original size:24 final size:24
Alignment explanation
Indices: 17207297--17207411 Score: 90
Period size: 24 Copynumber: 4.8 Consensus size: 24
17207287 CATAAACAGA
* *
17207297 AAGCTCTTGTGAGCCATATAACGGG
1 AAGCTCTGGAGAGCCA-ATAACGGG
* *
17207322 AAGCTCCGGAGAGCCATTAACGGG
1 AAGCTCTGGAGAGCCAATAACGGG
**
17207346 AAGCTCAT--ACGAGCCAATTTCGGG
1 AAGCTC-TGGA-GAGCCAATAACGGG
* ** * *
17207370 AAGTTCAAGTGAGCCAATATCGGG
1 AAGCTCTGGAGAGCCAATAACGGG
17207394 AAGCTCTGGAGAGCCAAT
1 AAGCTCTGGAGAGCCAAT
17207412 TAATAGGGAA
Statistics
Matches: 70, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
23 1 0.01
24 56 0.80
25 13 0.19
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (24 bp):
AAGCTCTGGAGAGCCAATAACGGG
Found at i:17207690 original size:47 final size:46
Alignment explanation
Indices: 17207620--17207713 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 46
17207610 GAGAGCCTAT
17207620 AATGAGACACTCTTTCAAGCTATGGTGTGTTCGCAACACATGCAGG
1 AATGAGACACTCTTTCAAGCTATGGTGTGTTCGCAACACATGCAGG
17207666 ANATGAGACACTCTTTCAAGCTATGGTGTGTTCGCAACACATGCAGG
1 A-ATGAGACACTCTTTCAAGCTATGGTGTGTTCGCAACACATGCAGG
17207713 A
1 A
17207714 CCACAACCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 1 0.02
47 46 0.98
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (46 bp):
AATGAGACACTCTTTCAAGCTATGGTGTGTTCGCAACACATGCAGG
Found at i:17211128 original size:46 final size:49
Alignment explanation
Indices: 17210979--17211299 Score: 253
Period size: 46 Copynumber: 6.8 Consensus size: 49
17210969 TCATTTGTGT
* * * *
17210979 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-A-TTAGGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GTA
* * * * * *
17211025 GAGTCAATGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
* * * * *
17211073 GTGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGGGACGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
* * *
17211120 -AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCAG-CTACAAGATGT-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTA
* * *
17211165 --GTCAGTGTAAGACCATGTCTGGGACATGGTATCGG-CACG-GTTATGTGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG--ATGT-A
* *
17211213 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAAGATG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-AGATGTA
*
17211262 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
17211300 ACCTTACCCA
Statistics
Matches: 218, Mismatches: 40, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
44 12 0.06
45 16 0.07
46 69 0.32
47 26 0.12
48 19 0.09
49 38 0.17
50 31 0.14
51 6 0.03
53 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
Found at i:17211224 original size:94 final size:93
Alignment explanation
Indices: 17210984--17211299 Score: 294
Period size: 94 Copynumber: 3.3 Consensus size: 93
17210974 TGTGTGAGCT
* *
17210984 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTAG-GAGAG-TCAATGTAAGACCATGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGGTTAGTGAGAGCT-AGTGTAAGACCATGTT
* *
17211046 TGGGACATGGCATCGGCATTGAGACGA-GTGC
65 TGGGACATGGCATCGGC--T-ACAAGATGTGC
* * * *
17211077 TAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGG-GACGT-A-AGCCAGTGTAAGA-CATGT
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCACGGTTA-GTGAGAGCTAGTGTAAGACCATGT
*
17211138 TTGGGACAT-GCATCAGCTACAAGATGTGTC
64 TTGGGACATGGCATCGGCTACAAGATGTG-C
*
17211168 AGTGTAAGACCATGTCTGGGACATGGTATCGG-CACGGTTATGTGAGAGCTAGTGTAAGACCATG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGGTTA-GTGAGAGCTAGTGTAAGACCATG
* *
17211232 TCTAGGACATGGCATCGGCCT-CGAAGATGATAGCC
63 TTTGGGACATGGCATCGG-CTAC-AAGATG-T-G-C
17211267 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
17211300 ACCTTACCCA
Statistics
Matches: 184, Mismatches: 20, Indels: 30
0.79 0.09 0.13
Matches are distributed among these distances:
89 4 0.02
90 13 0.07
91 18 0.10
92 16 0.09
93 15 0.08
94 55 0.30
95 14 0.08
96 7 0.04
97 8 0.04
98 1 0.01
99 33 0.18
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGGTTAGTGAGAGCTAGTGTAAGACCATGTTT
GGGACATGGCATCGGCTACAAGATGTGC
Found at i:17217623 original size:15 final size:15
Alignment explanation
Indices: 17217605--17217634 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17217595 AAATTTTAAT
*
17217605 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
17217620 TTTTTATAATTTATA
1 TTTTTATAATTTATA
17217635 AATGATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:17218429 original size:23 final size:22
Alignment explanation
Indices: 17218397--17218439 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
17218387 TGTTCTTGCC
17218397 AAAATGTCA-TCTAGATGGCAAA
1 AAAATGTCATTCTA-ATGGCAAA
17218419 AAAATAGTCATTCTAATGGCA
1 AAAAT-GTCATTCTAATGGCA
17218440 TCAAGGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (22 bp):
AAAATGTCATTCTAATGGCAAA
Found at i:17219624 original size:24 final size:25
Alignment explanation
Indices: 17219578--17219625 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
17219568 AGTTCTCTTG
*
17219578 TATTAATGTTTATTTTATCAATTCA
1 TATTAATGTTTATTATATCAATTCA
17219603 TATTAAT-TTTA-TATATCTAATTC
1 TATTAATGTTTATTATATC-AATTC
17219626 CTTCACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (25 bp):
TATTAATGTTTATTATATCAATTCA
Found at i:17231166 original size:6 final size:6
Alignment explanation
Indices: 17231157--17231192 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
17231147 GGAGTTATAT
*
17231157 GGCAAT GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
17231193 AAAAAAACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.47, C:0.17, G:0.33, T:0.03
Consensus pattern (6 bp):
GGCAAA
Found at i:17232833 original size:87 final size:87
Alignment explanation
Indices: 17232742--17233772 Score: 548
Period size: 87 Copynumber: 11.8 Consensus size: 87
17232732 AGATGAAGAT
* *
17232742 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCTCCTAAGCAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGG
17232807 GTAACAAGCCAAATTTACAAGC
66 GTAACAAGCCAAATTTACAAGC
* * * ** *
17232829 CTTAACCCCCTAAGTAGTAGGGTAACAG-GCTGAAGAT-TTACAGATCTTAACCCCCTAAGCAGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGAT-GGGCT-TTAACCCCCTAAGCAGT
* * * * *
17232892 AGGGAAAC-AGATCGAA--GACGAAGGGT
63 AGGGTAACAAG-CCAAATTTAC-AA--GC
* * * * * ** * *
17232918 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCA-GATC-TTATCTCCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATG-ATGGGCTTTAACCCCCTAAGCAGTAG
* * * * *
17232980 GGAAACAGATCGAAGA--T-GAAGAT
65 GGTAACA-AGCCAA-ATTTACAAG-C
* *
17233003 CTGAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGG
*
17233068 GTAACAAGCCGAATTTACAAGC
66 GTAACAAGCCAAATTTACAAGC
* * * * * *
17233090 CTTAAACCCCTAAGCAGTAGGGTAACTG-GCTGAA-ATTTAT-AGATCTTAACCCCCTAAGCAGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGATGGGCT-TTAACCCCCTAAGCAGT
* * * * ***
17233152 AGGGAAACAGATCGAAGA-TGATGGGC
63 AGGGTAACA-AGCCAA-ATTTACAAGC
* * * * *** * *
17233178 TTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAGCCTTAAACCCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAG
** * * *
17233241 GGTAACTGGCTGAAATTTA-TAGAT
65 GGTAACAAGC-CAAATTTACAAG-C
* ** * *
17233265 CTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAATAGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGG
*
17233330 GTAACAGGCCAAATTTACAAGC
66 GTAACAAGCCAAATTTACAAGC
* * * * ** * *
17233352 CTTAACCCCCTAAGCAGTAAGGTAACAGGTTGAAGAT-TTACAGATCTTAACCCTCTAAGCAGTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAT-GGGCT-TTAACCCCCTAAGCAGTA
* * * * ***
17233416 GGGAAAC-AGATCAAAGATGATGGGC
64 GGGTAACAAG-CCAAA-TTTACAAGC
* * * * *** * *
17233441 TTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAGCCTTAAACCCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAG
* * *
17233504 GGTAACTAGCTGAAGATTTAC-AGAT
65 GGTAACAAGC-CAA-ATTTACAAG-C
* ** *
17233529 CTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGG
* *
17233594 GTAACAAGCCGAATTTACAAAC
66 GTAACAAGCCAAATTTACAAGC
* * * **** *
17233616 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGAT-TTACAAATCTTAACCCCCTAACCAGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGATGAT-GGGCT-TTAACCCCCTAAGCAGT
* *** *
17233679 AGGGTAACAGGTTGAATTTAC-AGAT
63 AGGGTAACAAGCCAAATTTACAAG-C
* * * * * * * *
17233704 CTTAACCCCTTAAGCAGTTGGGAAATAGATCAAAGATGATGGGCCTTAAACCCCTAAGTAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGG
17233769 GTAA
66 GTAA
17233773 TAGGCTGGAA
Statistics
Matches: 702, Mismatches: 189, Indels: 106
0.70 0.19 0.11
Matches are distributed among these distances:
84 1 0.00
85 31 0.04
86 45 0.06
87 299 0.43
88 228 0.32
89 97 0.14
90 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (87 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGG
GTAACAAGCCAAATTTACAAGC
Found at i:17233026 original size:261 final size:264
Alignment explanation
Indices: 17232557--17233688 Score: 1580
Period size: 261 Copynumber: 4.3 Consensus size: 264
17232547 AGAATCAGTG
* * *
17232557 AATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* *
17232622 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-AG
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCT-TTAAACCCCTAAGCAGTAGGGTAACAAG
* * *
17232685 ACCGAATTGTA-GA-TCTT-ATCTCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-AGATCTT
130 -CCGAATT-TACAAGCCTTAAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGATTGACAGATCTT
** * *
17232745 AACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCTCCTAAGCAGTAGGGTA
192 AACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTA
17232810 ACAAGCCA
257 ACAAGCCA
* *
17232818 AATTTACAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* *
17232883 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-AG
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCT-TTAAACCCCTAAGCAGTAGGGTAACAAG
* * * *
17232946 ACCGAA-TTGC-AGATCTT-ATCTCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-AGATCTG
130 -CCGAATTTACAAG-CCTTAAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGATTGACAGATCTT
** *
17233006 AACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTA
192 AACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTA
*
17233071 ACAAGCCG
257 ACAAGCCA
* *
17233079 AATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAA-ATTTATAGATCTTAACCCC
1 AATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* * *
17233143 CTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCTTTAAACCCCTAAGCAGTAGGGTAACAAGC
* * * * *
17233208 CGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTG-GCTGAA-ATTTATAGATCTTAAC
131 CGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGAAACAGATC-GAAGATTGACAGATCTTAAC
*
17233271 CCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAATAGGGTAACA
195 CCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
*
17233336 GGCCA
260 AGCCA
* * * *
17233341 AATTTACAAGCCTTAACCCCCTAAGCAGTAAGGTAACAGGTTGAAGATTTACAGATCTTAACCCT
1 AATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* * * *
17233406 CTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCTTTAAACCCCTAAGCAGTAGGGTAACAAGC
* * *
17233471 CGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTAGCT-GAAGATTTACAGATCTTAAC
131 CGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGAAAC-AGATCGAAGATTGACAGATCTTAAC
17233535 CCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
195 CCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
*
17233600 AGCCG
260 AGCCA
* *
17233605 AATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCC
1 AATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* *
17233670 CTAACCAGTAGGGTAACAG
66 CTAAGCAGTAGGGAAACAG
17233689 GTTGAATTTA
Statistics
Matches: 804, Mismatches: 52, Indels: 27
0.91 0.06 0.03
Matches are distributed among these distances:
259 2 0.00
260 80 0.10
261 322 0.40
262 118 0.15
263 123 0.15
264 159 0.20
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (264 bp):
AATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCTTTAAACCCCTAAGCAGTAGGGTAACAAGC
CGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGATTGACAGATCTTAACC
CCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
GCCA
Found at i:17233098 original size:44 final size:43
Alignment explanation
Indices: 17232556--17233721 Score: 508
Period size: 44 Copynumber: 26.7 Consensus size: 43
17232546 TAGAATCAGT
* * * * * *
17232556 GAATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCT
1 GAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGCC
* *
17232599 GAAGATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAAC-AGATC
1 G-A-ATTTACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
* * * *
17232644 GAA--GACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAAC-AGACC
1 GAATTTAC-AA--GTCTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
* * * * *
17232688 GAATTGTA-GA-TCTTATCTCCCTAAGCAGTAGGGAAAC-AGATC
1 GAATT-TACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
** * * *
17232730 GAAGAT-GAAGATCTTAACCCCCTAAGCAGTAGGGAAAC-AGATC
1 GAATTTACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
* * ** * *
17232773 GAAGATGA-TGGGCTTTAACCTCCTAAGCAGTAGGGTAACAAGCC
1 GAA-TTTACAAGTC-TTAACCCCCTAAGCAGTAGGGTAACAAGCC
* * * * *
17232817 AAATTTACAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCT
1 GAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGCC
* *
17232860 GAAGATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAAC-AGATC
1 G-A-ATTTACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
* * * *
17232905 GAA--GACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAAC-AGACC
1 GAATTTAC-AA--GTCTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
* * * * *
17232949 GAA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAAC-AGATC
1 GAATTTACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
** * * * *
17232991 GAAGAT-GAAGATCTGAACCCCCTAAGCAGTAGGGAAAC-AGATC
1 GAATTTACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
* * ** *
17233034 GAAGATGA-TGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
1 GAA-TTTACAAGTC-TTAACCCCCTAAGCAGTAGGGTAACAAGCC
* * ** *
17233078 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTGGCT
1 GAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGCC
* * *
17233121 GAAATTTA-TAGATCTTAACCCCCTAAGCAGTAGGGAAAC-AGATC
1 G-AATTTACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
* * ** *
17233165 GAAGATGA-TGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
1 GAA-TTTACAAGTC-TTAACCCCCTAAGCAGTAGGGTAACAAGCC
* * ** *
17233209 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTGGCT
1 GAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGCC
* * ***
17233252 GAAATTTA-TAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAA
1 G-AATTTACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACA-AGCC
* * * ** * * *
17233297 AAAATGA-TGGGCTTTAACCCCCTAAGCAATAGGGTAACAGGCC
1 GAATTTACAAGTC-TTAACCCCCTAAGCAGTAGGGTAACAAGCC
* * * * **
17233340 AAATTTACAAGCCTTAACCCCCTAAGCAGTAAGGTAACAGGTT
1 GAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGCC
* * *
17233383 GAAGATTTAC-AGATCTTAACCCTCTAAGCAGTAGGGAAAC-AGATC
1 G-A-ATTTACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
* * * ** *
17233428 AAAGATGA-TGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
1 GAA-TTTACAAGTC-TTAACCCCCTAAGCAGTAGGGTAACAAGCC
* * * *
17233472 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTAGCT
1 GAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGCC
* ***
17233515 GAAGATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAA
1 G-A-ATTTACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACA-AGCC
* * * ** *
17233561 AAAATGA-TGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
1 GAATTTACAAGTC-TTAACCCCCTAAGCAGTAGGGTAACAAGCC
** * * *
17233604 GAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCT
1 GAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGCC
* * * **
17233647 GAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGTT
1 G-A-ATTTACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGCC
*
17233692 GAATTTAC-AGATCTTAACCCCTTAAGCAGT
1 GAATTTACAAG-TCTTAACCCCCTAAGCAGT
17233722 TGGGAAATAG
Statistics
Matches: 856, Mismatches: 200, Indels: 134
0.72 0.17 0.11
Matches are distributed among these distances:
41 7 0.01
42 57 0.07
43 292 0.34
44 327 0.38
45 171 0.20
46 1 0.00
47 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (43 bp):
GAATTTACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGCC
Found at i:17233233 original size:131 final size:132
Alignment explanation
Indices: 17232556--17233688 Score: 1566
Period size: 132 Copynumber: 8.6 Consensus size: 132
17232546 TAGAATCAGT
* * *
17232556 GAATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * *
17232621 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-A
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
17232684 GACC
130 G-CC
* * * * * *
17232688 GAATTGTA-GA-TCTT-ATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAA
1 GAATT-TACAAGCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAA
*
17232747 CCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCTCCTAAGCAGTAGGGTAAC
63 CCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAAC
17232812 AAGCC
128 AAGCC
* * *
17232817 AAATTTACAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * *
17232882 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-A
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
17232945 GACC
130 G-CC
* * * * * * *
17232949 GAA-TTGC-AGATCTT-ATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTGAA
1 GAATTTACAAG-CCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAA
17233008 CCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAAC
63 CCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAAC
17233073 AAGCC
128 AAGCC
* *
17233078 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAA-ATTTATAGATCTTAACCC
1 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
17233142 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
17233207 CC
131 CC
* *
17233209 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAA-ATTTATAGATCTTAACCC
1 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
** * * *
17233273 CCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAATAGGGTAACAGG
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
17233338 CC
131 CC
* * * *
17233340 AAATTTACAAGCCTTAACCCCCTAAGCAGTAAGGTAACAGGTTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
17233405 TCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
17233470 CC
131 CC
17233472 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTA-GCTGAAGATTTACAGATCTTAACC
1 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAAC-AGGCTGAAGATTTACAGATCTTAACC
** *
17233536 CCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
65 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
17233601 GCC
130 GCC
* *
17233604 GAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
17233669 CCTAACCAGTAGGGTAACAG
66 CCTAAGCAGTAGGGAAACAG
17233689 GTTGAATTTA
Statistics
Matches: 897, Mismatches: 77, Indels: 54
0.87 0.07 0.05
Matches are distributed among these distances:
128 2 0.00
129 145 0.16
130 75 0.08
131 316 0.35
132 357 0.40
133 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (132 bp):
GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
CC
Found at i:17233914 original size:68 final size:69
Alignment explanation
Indices: 17233805--17233991 Score: 279
Period size: 68 Copynumber: 2.7 Consensus size: 69
17233795 TTTTTCCCTG
* ** * *
17233805 AAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGA-GGATCTTTTCTT
1 AAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGACAAACCTCTTCTT
**
17233869 CCTC
66 CCAA
*
17233873 AAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCA-ACAAACCTCTTCTT
1 AAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGACAAACCTCTTCTT
17233937 CCAA
66 CCAA
*
17233941 AAATGGCATTGGAGAGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAG
1 AAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAG
17233992 TGGAAGAAGA
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
67 1 0.01
68 106 0.99
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (69 bp):
AAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGACAAACCTCTTCTT
CCAA
Found at i:17234151 original size:44 final size:44
Alignment explanation
Indices: 17234103--17234347 Score: 244
Period size: 44 Copynumber: 5.6 Consensus size: 44
17234093 GATTTCAGCA
*
17234103 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
*
17234147 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
* * * * * * *
17234191 TGTCATCCCGGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACAGCAGATT
* * * * ** * * ***
17234235 TGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACAGCAG-ATT
* *
17234279 TGACATACCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
17234323 TGGCATCCCTGTGCTTATAGGGAAC
1 TGGCATCCCTGTGCTTATAGGGAAC
17234348 GGATCGAAGA
Statistics
Matches: 166, Mismatches: 30, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 9 0.05
44 142 0.86
45 13 0.08
46 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
Found at i:17234162 original size:88 final size:88
Alignment explanation
Indices: 17234051--17234339 Score: 298
Period size: 88 Copynumber: 3.3 Consensus size: 88
17234041 GACCGAAGAT
* * * *
17234051 AGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTG
1 AGCAGATTTGGCATCCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGACATCCCTGTG
17234116 CTTATAGGGAACAAGTTGAAAAC
66 CTTATAGGGAACAAGTTGAAAAC
* * * * * *** * *
17234139 ATCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACAACAG-ATTTGTCATCCCG
1 AGCAGATTTGGCATCCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--TGACATCCCT
* * * *
17234201 GTGCTTATAGGGAAC-GGATCGAAGAT
63 GTGCTTATAGGGAACAAG-TTGAAAAC
* * * * * *
17234227 AGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGACATACCTGTG
1 AGCAGATTTGGCATCCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGACATCCCTGTG
17234292 CTTATAGGGAACAAGTTGAAAAC
66 CTTATAGGGAACAAGTTGAAAAC
17234315 AGCAGATTTGGCATCCCTGTGCTTA
1 AGCAGATTTGGCATCCCTGTGCTTA
17234340 TAGGGAACGG
Statistics
Matches: 153, Mismatches: 40, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
86 1 0.01
87 6 0.04
88 140 0.92
89 5 0.03
90 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (88 bp):
AGCAGATTTGGCATCCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGACATCCCTGTG
CTTATAGGGAACAAGTTGAAAAC
Found at i:17234307 original size:132 final size:132
Alignment explanation
Indices: 17234154--17234403 Score: 446
Period size: 132 Copynumber: 1.9 Consensus size: 132
17234144 ATTTGGCATC
*
17234154 CCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGTCATCCCGGTGCTTATAGGGAACGGA
1 CCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCGGTGCTTATAGGGAACGGA
* * *
17234219 TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGACA
66 TCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGACA
17234284 TA
131 TA
* *
17234286 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGA
1 CCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCGGTGCTTATAGGGAACGGA
17234351 TCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
66 TCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
17234404 AGCGGATATC
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 112 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (132 bp):
CCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCGGTGCTTATAGGGAACGGA
TCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGACA
TA
Found at i:17234371 original size:88 final size:87
Alignment explanation
Indices: 17234110--17234383 Score: 250
Period size: 88 Copynumber: 3.1 Consensus size: 87
17234100 GCATGGCATC
* *
17234110 CCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAAC-AA
1 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGA
* * * * * *
17234174 GTTGAAAACAACAGATTTGTCATC
66 -TCGAAGATAACA-ATCTGACATA
* * * * * * * * * *
17234198 CCGGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA-GT
1 CCTGTGCTTATAGGGAACAAG-TTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACG-
** *
17234261 AGATCGAAGATTTC-AGCATGACATA
64 -GATCGAAGATAACAATC-TGACATA
17234286 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGA
1 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGA
* *
17234351 TCGAAGATAGCAAATCTGACATT
66 TCGAAGATAAC-AATCTGACATA
17234374 CCTGTGCTTA
1 CCTGTGCTTA
17234384 CAGTGAAGCA
Statistics
Matches: 142, Mismatches: 35, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
87 13 0.09
88 118 0.83
89 10 0.07
90 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (87 bp):
CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGA
TCGAAGATAACAATCTGACATA
Found at i:17234378 original size:44 final size:44
Alignment explanation
Indices: 17234044--17234406 Score: 211
Period size: 44 Copynumber: 8.2 Consensus size: 44
17234034 AGGAGCAGAC
* * *
17234044 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAA-CGGAT
* ** * * *
17234089 CAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAAC-AAGT
1 CGAAGATAGCAGATC-TGACATTCCTGTGCTTATAGGGAACGGA-T
* * * * * * * *
17234132 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAAC-AAGT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAACGGA-T
* * * * * * * *
17234176 TGAAAACAACAGATTTGTCATCCCGGTGCTTATAGGGAACGGAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAACGGAT
* *
17234220 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA-GTAGAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAACG--GAT
** * *
17234265 CGAAGATTTCAG--CATGACATACCTGTGCTTATAGGGAAC-AAGT
1 CGAAGATAGCAGATC-TGACATTCCTGTGCTTATAGGGAACGGA-T
* * * * * *
17234308 TGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAACGGAT
* * * *
17234352 CGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAA-CGGAT
*
17234397 CAAAGATAGC
1 CGAAGATAGC
17234407 GGATATCGCC
Statistics
Matches: 250, Mismatches: 54, Indels: 28
0.75 0.16 0.08
Matches are distributed among these distances:
42 2 0.01
43 20 0.08
44 191 0.76
45 37 0.15
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
CGAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAACGGAT
Found at i:17234383 original size:176 final size:177
Alignment explanation
Indices: 17234037--17234440 Score: 537
Period size: 176 Copynumber: 2.3 Consensus size: 177
17234027 GTTGCAGAGG
*
17234037 AGCAGACCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGC
1 AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGC
* * *
17234102 ATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAG
66 ATGACATACCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAG
* * * * *
17234167 GGAACAAGTTGAAAACAACAGATTTGTCATCCCGGTGCTTATAGGGA
131 GGAACAAGTCGAAAACAACAAATCTGACATCCCGGTGCTTACAGGGA
* * *
17234214 A-CGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGC
1 AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGC
17234278 ATGACATACCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAG
66 ATGACATACCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAG
* * * * * * *
17234343 GGAAC-GGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGA
131 GGAACAAG-TCGAAAACAACAAATCTGACATCCCGGTGCTTACAGGGA
* * * * * *
17234390 AGCAGATCAAAGATAGCGGATATCG-CCTTCCTGAG-TTGCAGTGAAGCAGAT
1 AGCAGATCGAAGATAGCAGATCT-GACATTCCTGTGCTTACAGTGAAGCAGAT
17234441 TGAAGCCATC
Statistics
Matches: 197, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
175 1 0.01
176 169 0.86
177 26 0.13
178 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (177 bp):
AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGC
ATGACATACCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAG
GGAACAAGTCGAAAACAACAAATCTGACATCCCGGTGCTTACAGGGA
Found at i:17234705 original size:83 final size:83
Alignment explanation
Indices: 17234566--17234732 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
17234556 AGAGGGGCAG
17234566 CTGTAAGACCCAAATTTTGCCTGGGACCTAATAAAACCAAACCCGAATTAAACCTAGCCTATTAT
1 CTGTAAGACCCAAATTTTGCCTGGGACCTAATAAAACCAAACCCGAATTAAACCTAGCCTATTAT
17234631 CCAGTTACAAGCCCAAAC
66 CCAGTTACAAGCCCAAAC
*
17234649 CTGTAAGACCTAAATTTTGCCTGGGACCTAATAAAACCAAACCCGAATTAAACCTAGCCTATTAT
1 CTGTAAGACCCAAATTTTGCCTGGGACCTAATAAAACCAAACCCGAATTAAACCTAGCCTATTAT
17234714 CCAGTTACAAGCCCAAAC
66 CCAGTTACAAGCCCAAAC
17234732 C
1 C
17234733 CAATTTTGGC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (83 bp):
CTGTAAGACCCAAATTTTGCCTGGGACCTAATAAAACCAAACCCGAATTAAACCTAGCCTATTAT
CCAGTTACAAGCCCAAAC
Found at i:17234732 original size:41 final size:41
Alignment explanation
Indices: 17234602--17234737 Score: 102
Period size: 41 Copynumber: 3.3 Consensus size: 41
17234592 CCTAATAAAA
17234602 CCAAACCCGAATTAAACCTAGCCTATTATCCAGTTACAAGC
1 CCAAACCCGAATTAAACCTAGCCTATTATCCAGTTACAAGC
* * ** * *** * *
17234643 CCAAACCTGTAAGACCTAAATTTTGCCTGGGA-CCTA-ATA-AA-A
1 CCAAACCCG--A-A-TTAAACCTAGCCTATTATCC-AGTTACAAGC
17234685 CCAAACCCGAATTAAACCTAGCCTATTATCCAGTTACAAGC
1 CCAAACCCGAATTAAACCTAGCCTATTATCCAGTTACAAGC
17234726 CCAAACCC-AATT
1 CCAAACCCGAATT
17234738 TTGGCCCAAC
Statistics
Matches: 66, Mismatches: 20, Indels: 19
0.63 0.19 0.18
Matches are distributed among these distances:
38 11 0.17
39 5 0.08
40 7 0.11
41 16 0.24
42 8 0.12
43 3 0.05
44 5 0.08
45 11 0.17
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.22
Consensus pattern (41 bp):
CCAAACCCGAATTAAACCTAGCCTATTATCCAGTTACAAGC
Found at i:17234775 original size:4 final size:4
Alignment explanation
Indices: 17234768--17234802 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
17234758 CCTAAACACA
17234768 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
17234803 AACCTTGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:17234985 original size:24 final size:24
Alignment explanation
Indices: 17234956--17235053 Score: 66
Period size: 22 Copynumber: 4.2 Consensus size: 24
17234946 TGGGTTTTTG
17234956 GTTTTTTGGAGAAGGATTGTTCTTT
1 GTTTTTTGGAGAAGG-TTGTTCTTT
* * *
17234981 G--TTTTGGAGGAGGTTTTTTTTT
1 GTTTTTTGGAGAAGGTTGTTCTTT
17235003 GTTTTTTGGAG--GTGTT-TT-TTT
1 GTTTTTTGGAGAAG-GTTGTTCTTT
*
17235024 GTTTTTTTGGAAAGAAGGTTATT-TTT
1 G-TTTTTTGG--AGAAGGTTGTTCTTT
17235050 GTTT
1 GTTT
17235054 CCTGGAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
21 4 0.07
22 19 0.31
23 14 0.23
24 10 0.16
25 7 0.11
26 7 0.11
ACGTcount: A:0.13, C:0.01, G:0.28, T:0.58
Consensus pattern (24 bp):
GTTTTTTGGAGAAGGTTGTTCTTT
Found at i:17235008 original size:23 final size:23
Alignment explanation
Indices: 17234958--17235034 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
17234948 GGTTTTTGGT
* * *
17234958 TTTTTGGAGAAGGATTGTTCTTTG
1 TTTTTGGAGGAGG-TTTTTTTTTG
17234982 -TTTTGGAGGAGGTTTTTTTTTG
1 TTTTTGGAGGAGGTTTTTTTTTG
*
17235004 TTTTTTGGAGG-TGTTTTTTTGTT-
1 -TTTTTGGAGGAGGTTTTTTT-TTG
17235027 TTTTTGGA
1 TTTTTGGA
17235035 AAGAAGGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 16 0.35
23 19 0.41
24 11 0.24
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.60
Consensus pattern (23 bp):
TTTTTGGAGGAGGTTTTTTTTTG
Found at i:17235034 original size:22 final size:21
Alignment explanation
Indices: 17234989--17235030 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
17234979 TTGTTTTGGA
*
17234989 GGAGGTTTTTTTTTGTTTTTT
1 GGAGGTGTTTTTTTGTTTTTT
17235010 GGAGGTGTTTTTTTGTTTTTT
1 GGAGGTGTTTTTTTGTTTTTT
17235031 TGGAAAGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.00, G:0.26, T:0.69
Consensus pattern (21 bp):
GGAGGTGTTTTTTTGTTTTTT
Found at i:17235376 original size:3 final size:3
Alignment explanation
Indices: 17235362--17235447 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
17235352 GAGCTTTGTT
* *
17235362 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
17235406 TT- TCTCA TGTA TATA TTA TT- TT- TTA -TA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17235448 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 12 0.18
3 48 0.71
4 6 0.09
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:17235404 original size:18 final size:18
Alignment explanation
Indices: 17235362--17235451 Score: 83
Period size: 18 Copynumber: 4.7 Consensus size: 18
17235352 GAGCTTTGTT
*
17235362 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
17235382 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
17235400 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
*
17235421 TTATTTTTTATATTATTA
1 TTATTATTTATATTATTA
17235439 TTA-TATTATATAT
1 TTATTATT-TATAT
17235452 GCCCTCTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
17 3 0.05
18 26 0.44
19 9 0.15
20 10 0.17
21 11 0.19
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:17242657 original size:83 final size:83
Alignment explanation
Indices: 17242513--17242678 Score: 260
Period size: 83 Copynumber: 2.0 Consensus size: 83
17242503 CGTAAAACAT
* * * *
17242513 GATGTTACAAATATATTTTTGATGCTTGAATTATACATAGATTGTATATATAATTTATTATGGTT
1 GATGCTACAAATATATTTTTGATGCTTCAATTATACATAGATCGTATATATAATTGATTATGGTT
17242578 GAAAACGATGATAAATCA
66 GAAAACGATGATAAATCA
* *
17242596 GATGCTACAAATATGTTTTTGATGCTTCAATTTTACATAGATCGTATATATAATTGATTATGGTT
1 GATGCTACAAATATATTTTTGATGCTTCAATTATACATAGATCGTATATATAATTGATTATGGTT
* *
17242661 GAATATGATGATAAATCA
66 GAAAACGATGATAAATCA
17242679 AGTGTATTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (83 bp):
GATGCTACAAATATATTTTTGATGCTTCAATTATACATAGATCGTATATATAATTGATTATGGTT
GAAAACGATGATAAATCA
Found at i:17252086 original size:127 final size:125
Alignment explanation
Indices: 17251883--17252165 Score: 372
Period size: 127 Copynumber: 2.2 Consensus size: 125
17251873 GTTTGGGAAC
* *
17251883 TCGAGGAATCGTGCCCTACCGTGCTGGGTTTTGATTTTTCGTTTGACCAAATAATCAAATATTCC
1 TCGAGGAATCGTGCCCTA-CGTGCTGGGTTTCGATTTTCCGTTTGACCAAATAATCAAATATTCC
* *
17251948 TTTGAAATTTCATTCGTACTTTCTAAATTCTAAAACAAGGCAATGTTCAATGTTAGGAAAT
65 TTTGAAATTTCACTCGTACTTTATAAATTCTAAAACAAGGCAATGTTCAATGTTAGGAAAT
* **
17252009 TCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGA-TTTCCGGTTT-ATTCCAAATAATTGAATAT
1 TCGAGGAATCGTGCCCTA-CGTGCTGGGTTTCGATTTTCC-GTTTGA--CCAAATAATCAAATAT
** ** * *
17252072 TCCTTTGGTATTTCACTCGTGTTTTATAAATTCTAAAACAATGCAATGTTCAATGTTTGGAAAT
62 TCCTTTGAAATTTCACTCGTACTTTATAAATTCTAAAACAAGGCAATGTTCAATGTTAGGAAAT
* *
17252136 TCGAGAAATCGTGCCCTACATGCTGGGTTT
1 TCGAGGAATCGTGCCCTACGTGCTGGGTTT
17252166 TGTTTTTTTT
Statistics
Matches: 137, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
125 5 0.04
126 46 0.34
127 86 0.63
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (125 bp):
TCGAGGAATCGTGCCCTACGTGCTGGGTTTCGATTTTCCGTTTGACCAAATAATCAAATATTCCT
TTGAAATTTCACTCGTACTTTATAAATTCTAAAACAAGGCAATGTTCAATGTTAGGAAAT
Found at i:17253860 original size:25 final size:25
Alignment explanation
Indices: 17253832--17253904 Score: 128
Period size: 25 Copynumber: 2.9 Consensus size: 25
17253822 CCTCTTTTAA
17253832 TAACTGGGGCAAAGCCCTTTTTGGT
1 TAACTGGGGCAAAGCCCTTTTTGGT
*
17253857 TAACTGGGGCAAAGCCCTTTTCGGT
1 TAACTGGGGCAAAGCCCTTTTTGGT
*
17253882 AAACTGGGGCAAAGCCCTTTTTG
1 TAACTGGGGCAAAGCCCTTTTTG
17253905 CACTTCCTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCTTTTTGGT
Found at i:17253961 original size:22 final size:22
Alignment explanation
Indices: 17253936--17254018 Score: 93
Period size: 22 Copynumber: 3.9 Consensus size: 22
17253926 ACCCAACCCA
*
17253936 TGCATATAATGAGTATATCATG
1 TGCATATCATGAGTATATCATG
* *
17253958 TGCATCTCATGCGTATATCATG
1 TGCATATCATGAGTATATCATG
*
17253980 TGCATATCATGTA-CATATCATG
1 TGCATATCATG-AGTATATCATG
17254002 T-CATATCAT--GTATATCA
1 TGCATATCATGAGTATATCA
17254019 AAATCTCATG
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
19 6 0.12
21 8 0.15
22 38 0.73
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (22 bp):
TGCATATCATGAGTATATCATG
Found at i:17253967 original size:11 final size:11
Alignment explanation
Indices: 17253936--17254012 Score: 84
Period size: 11 Copynumber: 7.1 Consensus size: 11
17253926 ACCCAACCCA
*
17253936 TGCATATAATG
1 TGCATATCATG
* *
17253947 AGTATATCATG
1 TGCATATCATG
*
17253958 TGCATCTCATG
1 TGCATATCATG
* *
17253969 CGTATATCATG
1 TGCATATCATG
17253980 TGCATATCATG
1 TGCATATCATG
*
17253991 TACATATCATG
1 TGCATATCATG
17254002 T-CATATCATG
1 TGCATATCATG
17254012 T
1 T
17254013 ATATCAAAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
10 10 0.19
11 44 0.81
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (11 bp):
TGCATATCATG
Found at i:17255896 original size:20 final size:20
Alignment explanation
Indices: 17255873--17255911 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17255863 CAAAACCAAA
* *
17255873 TACCAAATTTTTAAAAATTT
1 TACCAAATTCTCAAAAATTT
17255893 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
17255912 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:17261895 original size:24 final size:25
Alignment explanation
Indices: 17261849--17261947 Score: 78
Period size: 25 Copynumber: 4.0 Consensus size: 25
17261839 GCTTTATCAT
** *
17261849 ATAACTGGAGGCCTAGCCTCTTTT-A
1 ATAACTGG-GGCAAAGCCCCTTTTGA
17261874 ATAACTGGGGCAAAGCCCCTTTTGA
1 ATAACTGGGGCAAAGCCCCTTTTGA
* *
17261899 TTAACGGGGGCAAAG-CCCTTTTCG-
1 ATAACTGGGGCAAAGCCCCTTTT-GA
* * *
17261923 GTAAACTAGGGCAAAGCCCTTTTTG
1 AT-AACTGGGGCAAAGCCCCTTTTG
17261948 CACTTCCTCC
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
24 20 0.33
25 35 0.57
26 6 0.10
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
ATAACTGGGGCAAAGCCCCTTTTGA
Found at i:17261903 original size:25 final size:25
Alignment explanation
Indices: 17261875--17261947 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
17261865 CCTCTTTTAA
17261875 TAACTGGGGCAAAGCCCCTTTTGAT
1 TAACTGGGGCAAAGCCCCTTTTGAT
* *
17261900 TAACGGGGGCAAAG-CCCTTTTCGGT
1 TAACTGGGGCAAAGCCCCTTTT-GAT
* * *
17261925 AAACTAGGGCAAAGCCCTTTTTG
1 TAACTGGGGCAAAGCCCCTTTTG
17261948 CACTTCCTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 7 0.17
25 27 0.68
26 6 0.15
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCCTTTTGAT
Found at i:17262021 original size:10 final size:10
Alignment explanation
Indices: 17261993--17262030 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
17261983 TATAATGCGT
17261993 ATATCATGTGC
1 ATATCATGT-C
*
17262004 ATACCATGTC
1 ATATCATGTC
17262014 ATATCATGTC
1 ATATCATGTC
17262024 ATATCAT
1 ATATCAT
17262031 TTATATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (10 bp):
ATATCATGTC
Found at i:17263890 original size:20 final size:20
Alignment explanation
Indices: 17263867--17263905 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17263857 TACAACCAAA
* *
17263867 TACCAAATTTTTAAAAATTT
1 TACCAAATTCTCAAAAATTT
17263887 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
17263906 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:17274986 original size:135 final size:135
Alignment explanation
Indices: 17274766--17275326 Score: 754
Period size: 135 Copynumber: 4.2 Consensus size: 135
17274756 CATAGCAAAT
* * * * *
17274766 CTTATCTCTCT-AACGTTGCAGTAGAGTAGGTTGAAA-TA-GCAAGTCTCATCTCCCTAAAGTTA
1 CTTATCTCTCTGAA-GTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTG
* * * * *
17274828 CAGTGGAGTAGA-TGGAAGATAGCAGATCTTGTCCCCCTGAAGTTGCAGTGGAGCAGATCAAAGC
65 CAGTGGAGCAGACT-GAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGT
*
17274892 CACAATC
129 AACAATC
* *
17274899 CTTATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTGC
* * * * * *
17274964 AGTGGAGCGGACTAAAGTTAGCAGATCTTATCTCCCTGGAGTTGCAGTAGAGCATATCGAAGTAA
66 AGTGGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGTAA
17275029 CAATC
131 CAATC
*
17275034 CTTATCTCTCTGAAGTTGCAGTAGAGTAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTGC
* * *
17275099 AGTAGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATCAAAGTAA
66 AGTGGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGTAA
17275164 CAATC
131 CAATC
** *
17275169 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTTTCTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTGC
* * * *
17275234 AGTGGAGCAGACTGAAGTTAGTAGATCTTATCTCCCTGAAGTTGCAATGGAGCAGAACGAAGTTA
66 AGTGGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAG-TA
**
17275299 GTAGATC
130 ACA-ATC
*
17275306 C-TATCTCCCTGAAGTTGCAGT
1 CTTATCTCTCTGAAGTTGCAGT
17275327 GGAGTAGAAC
Statistics
Matches: 377, Mismatches: 45, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
133 29 0.08
134 4 0.01
135 317 0.84
136 23 0.06
137 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (135 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTGC
AGTGGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGTAA
CAATC
Found at i:17275007 original size:45 final size:43
Alignment explanation
Indices: 17274802--17275423 Score: 410
Period size: 45 Copynumber: 13.8 Consensus size: 43
17274792 TAGGTTGAAA
* * * * * *
17274802 TAGCAAGTCTCATCTCCCTAAAGTTACAGTGGAGTAGATGGAAGA
1 TAGCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-AAAGT
* * *
17274847 TAGCAGATCTTGTCCCCCTGAAGTTGCAGTGGAGCAGATCAAAGC
1 TAGCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-AAAGT
* ** * *
17274892 CA-CAATCCTTATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAAT
1 TAGCAAT-CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATAAAGT
* * *
17274936 TACCCAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCGGACTAAAGT
1 TA-GCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAGT
* * * *
17274982 TAGCAGATCTTATCTCCCTGGAGTTGCAGTAGAGCATATCGAAG-
1 TAGCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-AAAGT
* * * * *
17275026 TAACAATCCTTATCTCTCTGAAGTTGCAGTAGAGTAGGATAAAAT
1 TAGCAAT-CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATAAAGT
* * * * *
17275071 TACCCAAGTCTCATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGT
1 TA-GCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAGT
* *
17275117 TAGCAGATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATCAAAG-
1 TAGCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-AAAGT
* * * *
17275161 TAACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAT
1 TAGCAAT-CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATAAAGT
* * ** *
17275206 TACCCAAGTCTCATCTTTCTGAAGTTGCAGTGGAGCAGACTGAAGT
1 TA-GCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAGT
* *
17275252 TAGTAGATCTTATCTCCCTGAAGTTGCAATGGAGCAGA-ACGAAGT
1 TAGCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATA--AAGT
* * *
17275297 TAGTAGATCCTATCTCCCTGAAGTTGCAGTGGAGTAGA-ACGAAG-
1 TAGCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATA--AAGT
* * * **
17275341 TAACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAA
1 TAGCAAT-CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATAAAGT
* * *
17275386 TACACGAACCGTATCTCCCTGAAGTTGCAGTGGAGCAG
1 TA-GC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
17275424 TTGCAGTAGA
Statistics
Matches: 460, Mismatches: 85, Indels: 64
0.76 0.14 0.11
Matches are distributed among these distances:
43 8 0.02
44 122 0.27
45 193 0.42
46 132 0.29
47 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
TAGCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAGT
Found at i:17275344 original size:180 final size:180
Alignment explanation
Indices: 17275083--17275423 Score: 499
Period size: 180 Copynumber: 1.9 Consensus size: 180
17275073 CCCAAGTCTC
* * *
17275083 ATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGTAGTG
1 ATCTCCCTAAAGTTGCAATAGAGCAGACTGAAGTTAGCAGATCCTATCTCCCTGAAGTTGCAGTG
* *
17275148 AAGCAGATCAAAGTAACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTAC-CCA
66 AAGCAGAACAAAGTAACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACCA
* **
17275212 AGTC-TCATCTTTCTGAAGTTGCAGTGGAGCAGACTGAAGTTAGTAGATCTT
131 A-CCGT-ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTTAGTAGATCTT
* * *
17275263 ATCTCCCTGAAGTTGCAATGGAGCAGAAC-GAAGTTAGTAGATCCTATCTCCCTGAAGTTGCAGT
1 ATCTCCCTAAAGTTGCAATAGAGCAG-ACTGAAGTTAGCAGATCCTATCTCCCTGAAGTTGCAGT
* * * *
17275327 GGAGTAGAACGAAGTAACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACG
65 GAAGCAGAACAAAGTAACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACC
17275392 AACCGTATCTCCCTGAAGTTGCAGTGGAGCAG
130 AACCGTATCTCCCTGAAGTTGCAGTGGAGCAG
17275424 TTGCAGTAGA
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
180 137 0.96
181 6 0.04
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (180 bp):
ATCTCCCTAAAGTTGCAATAGAGCAGACTGAAGTTAGCAGATCCTATCTCCCTGAAGTTGCAGTG
AAGCAGAACAAAGTAACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACCA
ACCGTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTTAGTAGATCTT
Found at i:17275403 original size:270 final size:270
Alignment explanation
Indices: 17274766--17275423 Score: 771
Period size: 270 Copynumber: 2.4 Consensus size: 270
17274756 CATAGCAAAT
* * * * *
17274766 CTTATCTCTCT-AACGTTGCAGTAGAGTAGGTTGAAA-TA-GCAAGTCTCATCTCCCTAAAGTTA
1 CTTATCTCCCTGAA-GTTGCAGTAGAGTAGGATAAAAGTACACAAGTCTCATCTCCCTAAAGTTG
* * * * * * * *
17274828 CAGTGGAGTAGA-TGGAAGATAGCAGATCTTGTCCCCCTGAAGTTGCAGTGGAGCAGATCAAAGC
65 CAGTAGAGCAGACT-AAAAATAGCAGACCGTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGC
* *
17274892 CACAATCCTTATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTG
129 AACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTG
* * * * *
17274957 AAGTTGCAGTGGAGCGGACTAAAGTTAGCAGATCTTATCTCCCTGGAGTTGCAGTAGAGCATATC
194 AAGTTGCAGTGGAGCAGACTAAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAATAGAGCAGAAC
17275022 GAAGTAACAATC
259 GAAGTAACAATC
* * *
17275034 CTTATCTCTCTGAAGTTGCAGTAGAGTAGGATAAAATTACCCAAGTCTCATCTCCCTAAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTAGAGTAGGATAAAAGTACACAAGTCTCATCTCCCTAAAGTTGC
* ** * * * * *
17275099 AGTAGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATCAAAGTAA
66 AGTAGAGCAGACTAAAAATAGCAGACCGTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCAA
**
17275164 CAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTTTCTGAA
131 CAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTGAA
* * *
17275229 GTTGCAGTGGAGCAGACTGAAGTTAGTAGATCTTATCTCCCTGAAGTTGCAATGGAGCAGAACGA
196 GTTGCAGTGGAGCAGACTAAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAATAGAGCAGAACGA
**
17275294 AGTTAGTAGATC
261 AG-TAACA-ATC
* * * * *
17275306 C-TATCTCCCTGAAGTTGCAGTGGAGTA-GA-ACGAAGTA-ACAA-TCCTTATCTCTCTGAAGTT
1 CTTATCTCCCTGAAGTTGCAGTAGAGTAGGATA-AAAGTACACAAGT-CTCATCTCCCTAAAGTT
17275366 GCAGTAGAGCAGGA-TAAAAATA-CACGAACCGTATCTCCCTGAAGTTGCAGTGGAGCAG
64 GCAGTAGAGCA-GACTAAAAATAGCA-G-ACCGTATCTCCCTGAAGTTGCAGTGGAGCAG
17275424 TTGCAGTAGA
Statistics
Matches: 338, Mismatches: 41, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
268 34 0.10
269 39 0.12
270 233 0.69
271 28 0.08
272 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (270 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGTAGGATAAAAGTACACAAGTCTCATCTCCCTAAAGTTGC
AGTAGAGCAGACTAAAAATAGCAGACCGTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCAA
CAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTCATCTCCCTGAA
GTTGCAGTGGAGCAGACTAAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAATAGAGCAGAACGA
AGTAACAATC
Found at i:17278210 original size:21 final size:19
Alignment explanation
Indices: 17278172--17278210 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
17278162 ACTCCTGGCA
*
17278172 CCATAGCCACGCCCAGCCT
1 CCATAGCCACGCACAGCCT
17278191 CCATATGCCAGCGCACAGCC
1 CCATA-GCCA-CGCACAGCC
17278211 CCCGTACACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 4 0.24
21 8 0.47
ACGTcount: A:0.23, C:0.49, G:0.18, T:0.10
Consensus pattern (19 bp):
CCATAGCCACGCACAGCCT
Found at i:17281118 original size:40 final size:39
Alignment explanation
Indices: 17281087--17281296 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
17281077 GGACTAAGAT
* *
17281087 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
17281127 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
17281167 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
17281207 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
17281247 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
17281286 CCGAAGGCATT
1 CCGAAGGCATT
17281297 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:17281250 original size:120 final size:120
Alignment explanation
Indices: 17281034--17281296 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
17281024 TTGAATGCTG
* *
17281034 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
17281098 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
17281154 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
17281217 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
17281273 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17281297 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:17281316 original size:79 final size:80
Alignment explanation
Indices: 17281087--17281331 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
17281077 GGACTAAGAT
* * * * * * * ** *
17281087 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
17281150 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
17281167 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
17281232 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
17281247 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
17281311 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
17281325 CCGAAGG
1 CCGAAGG
17281332 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:17283828 original size:127 final size:126
Alignment explanation
Indices: 17283593--17283895 Score: 331
Period size: 127 Copynumber: 2.4 Consensus size: 126
17283583 GTAATAATTG
* * * **
17283593 ATGTTTGGGAACTCGAGGAATCGTGCTCTACCGTGCTGGGTTTCGATTTTCCGTTTAACCAAATA
1 ATGTTTGGAAATTCGAGGAATCGTGCCCTACCGCACTGGGTTTCGATTTTCCGTTTAACCAAATA
* * *
17283658 ATCAAATATTCCTTTGAAATTTCATCCGTACTTTCTAAGTTCTAAAACAAGTCAATGTTCA
66 ATCAAATATTCCTTTGAAATTTCATCCGTACTTTATAAATTCTAAAACAAGACAATGTTCA
* * * **
17283719 CTGTTTGGAAATTCGAGGAATCGTGCCCTATCGCACTGGGTTTTGA-TTTCCGGTTTGTTCCAAA
1 ATGTTTGGAAATTCGAGGAATCGTGCCCTACCGCACTGGGTTTCGATTTTCC-GTTT-AACCAAA
** ** * ** *
17283783 TAATTGAATATTCCTTTGGTATTTTA-CTCGTGTTTTATAAATTCTAAAGCAAGACAATGTTCA
64 TAATCAAATATTCCTTTGAAATTTCATC-CGTACTTTATAAATTCTAAAACAAGACAATGTTCA
* * ** *
17283846 ATGTTTGGAAATTCGAGGAATCATGCCATACCGTGCTGGGTTTCAATTTT
1 ATGTTTGGAAATTCGAGGAATCGTGCCCTACCGCACTGGGTTTCGATTTT
17283896 TTTGTTGGAC
Statistics
Matches: 144, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
125 5 0.03
126 43 0.30
127 93 0.65
128 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (126 bp):
ATGTTTGGAAATTCGAGGAATCGTGCCCTACCGCACTGGGTTTCGATTTTCCGTTTAACCAAATA
ATCAAATATTCCTTTGAAATTTCATCCGTACTTTATAAATTCTAAAACAAGACAATGTTCA
Found at i:17292779 original size:19 final size:19
Alignment explanation
Indices: 17292751--17292792 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
17292741 GCGCTACTGC
17292751 AAGCTCATGAAAGCTTACT
1 AAGCTCATGAAAGCTTACT
*
17292770 AAGCTTATGAAAGCTTACT
1 AAGCTCATGAAAGCTTACT
17292789 AAGC
1 AAGC
17292793 AAGGATCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (19 bp):
AAGCTCATGAAAGCTTACT
Found at i:17297163 original size:28 final size:28
Alignment explanation
Indices: 17297123--17297201 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
17297113 GCAATCAAAT
* * *
17297123 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
17297151 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
17297179 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
17297202 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:17305252 original size:28 final size:28
Alignment explanation
Indices: 17305191--17305252 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
17305181 TATGGTACTC
* * *
17305191 AGTGTATGAAATATTGAGAATGATACTT
1 AGTGTGTGAAATATTCAGAATGACACTT
*
17305219 AGTGTGTGAGATATTCAGAATGACACTT
1 AGTGTGTGAAATATTCAGAATGACACTT
17305247 AGTGTG
1 AGTGTG
17305253 CAAAATATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (28 bp):
AGTGTGTGAAATATTCAGAATGACACTT
Found at i:17305266 original size:26 final size:28
Alignment explanation
Indices: 17305199--17305267 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
17305189 TCAGTGTATG
* * **
17305199 AAATATTGAGAATGATACTTAGTGTGTG
1 AAATATTCAGAATGACACTTAGTGTGCA
*
17305227 AGATATTCAGAATGACACTTAGTGTGCA
1 AAATATTCAGAATGACACTTAGTGTGCA
17305255 AAATA-TCA-AATGA
1 AAATATTCAGAATGA
17305268 TTCAAAGGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.14
27 3 0.09
28 27 0.77
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (28 bp):
AAATATTCAGAATGACACTTAGTGTGCA
Found at i:17305576 original size:40 final size:40
Alignment explanation
Indices: 17305477--17305581 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
17305467 GGGCTTCAAG
* * *
17305477 CCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* *** * **
17305518 TCTAGCAGGCTTCGTGCCGGTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
17305558 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
17305582 TTGATAAAAG
Statistics
Matches: 50, Mismatches: 14, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:17309656 original size:66 final size:66
Alignment explanation
Indices: 17309549--17309688 Score: 208
Period size: 66 Copynumber: 2.1 Consensus size: 66
17309539 TCACCCTAGG
*
17309549 ACATGCCCGTGTTGGAGGCCGTGTTTGACCCTGTGTAACTCTCTGACTTGCACACACGGCCATGC
1 ACATGCCCGTGTTGGAGGCCGTGTTTGACCCTGCGTAACTCTCTGACTTGCACACACGGCCATGC
17309614 C
66 C
* * * * **
17309615 ACATGCCTGTGTTGGAGGCCGTGTTTGACCGTGCGTTACTCTCTGACTTGCGCACACGGTTATGC
1 ACATGCCCGTGTTGGAGGCCGTGTTTGACCCTGCGTAACTCTCTGACTTGCACACACGGCCATGC
17309680 C
66 C
*
17309681 ACACGCCC
1 ACATGCCC
17309689 ATGTGCTAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.16, C:0.31, G:0.26, T:0.26
Consensus pattern (66 bp):
ACATGCCCGTGTTGGAGGCCGTGTTTGACCCTGCGTAACTCTCTGACTTGCACACACGGCCATGC
C
Found at i:17316834 original size:21 final size:22
Alignment explanation
Indices: 17316789--17316834 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17316779 TACAGCGTTC
*
17316789 ACACGCCCGTATGATCCAAGGG
1 ACACACCCGTATGATCCAAGGG
* *
17316811 ACACACCCGTGTGA-CCATGGG
1 ACACACCCGTATGATCCAAGGG
17316832 ACA
1 ACA
17316835 TGCCTGTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.28, C:0.33, G:0.26, T:0.13
Consensus pattern (22 bp):
ACACACCCGTATGATCCAAGGG
Found at i:17319354 original size:40 final size:40
Alignment explanation
Indices: 17319290--17319365 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
17319280 ACTATGTTCG
* **
17319290 GCACTAAGTGTGCGATTTGAAATAGCTTCA-GCTATAAATA
1 GCACTAAGTGTGCAAAATGAAATAGCTT-AGGCTATAAATA
*
17319330 GCACTAAGTGTGCAAAATGGAATAGCTTAGGCTATA
1 GCACTAAGTGTGCAAAATGAAATAGCTTAGGCTATA
17319366 TGAGGCACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 30 0.97
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACTAAGTGTGCAAAATGAAATAGCTTAGGCTATAAATA
Found at i:17325455 original size:34 final size:34
Alignment explanation
Indices: 17325411--17325485 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
17325401 ACCGTAGTGT
*
17325411 AAACCACTACTAGAGAATGAGAGCAATCGATTTAA
1 AAACC-CTACTAGAGAATGAGAACAATCGATTTAA
*
17325446 AAACCCTACTAGAGAATGAGAACAATCGATTTGA
1 AAACCCTACTAGAGAATGAGAACAATCGATTTAA
17325480 AAACCC
1 AAACCC
17325486 CCAAAGGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 33 0.87
35 5 0.13
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (34 bp):
AAACCCTACTAGAGAATGAGAACAATCGATTTAA
Found at i:17339131 original size:490 final size:490
Alignment explanation
Indices: 17338211--17339190 Score: 1960
Period size: 490 Copynumber: 2.0 Consensus size: 490
17338201 TTAGTGAGAA
17338211 ACAGATTCACGGAGTTGATTTAGTTAAAGAAACCGAAGAGAAAGTAAAAATAATTTGTGATTGCT
1 ACAGATTCACGGAGTTGATTTAGTTAAAGAAACCGAAGAGAAAGTAAAAATAATTTGTGATTGCT
17338276 TCAAAACTGCTTCAGATCGACAAAAGTCATATGCGGATTTAAAAAGAAAAGAGATTGAATTTTAG
66 TCAAAACTGCTTCAGATCGACAAAAGTCATATGCGGATTTAAAAAGAAAAGAGATTGAATTTTAG
17338341 GTGGGTGATAGAGTGTTCTTGAAGGTGTCACCATGGAAAAAGATTCTAAGATTTAGCTGAAAAGG
131 GTGGGTGATAGAGTGTTCTTGAAGGTGTCACCATGGAAAAAGATTCTAAGATTTAGCTGAAAAGG
17338406 CAAGTTGAGTCCGCGTTTTATTGGGCCGTACGAGATTATTGAGAGGATTGGACCAGTGGCATATC
196 CAAGTTGAGTCCGCGTTTTATTGGGCCGTACGAGATTATTGAGAGGATTGGACCAGTGGCATATC
17338471 GGTTGGCATTACCAGCAGAATTTGAAAGAATTCATAACATGTTTCATATATCAATGTTGCGACGT
261 GGTTGGCATTACCAGCAGAATTTGAAAGAATTCATAACATGTTTCATATATCAATGTTGCGACGT
17338536 TATCGTTTTGATCCTTCACATGTGATTTCTCCAACAGAAATTGAGATTCGATCGGACTTGACCTA
326 TATCGTTTTGATCCTTCACATGTGATTTCTCCAACAGAAATTGAGATTCGATCGGACTTGACCTA
17338601 TGATGAGGAACCGATTAAGATTTTGGCTCGAGAAGTAAAACAATTGAGAAAGAAAAGCATAGCTT
391 TGATGAGGAACCGATTAAGATTTTGGCTCGAGAAGTAAAACAATTGAGAAAGAAAAGCATAGCTT
17338666 TAGTGAAAGTGTTATGTCAAAGACATAGAGCAGAC
456 TAGTGAAAGTGTTATGTCAAAGACATAGAGCAGAC
17338701 ACAGATTCACGGAGTTGATTTAGTTAAAGAAACCGAAGAGAAAGTAAAAATAATTTGTGATTGCT
1 ACAGATTCACGGAGTTGATTTAGTTAAAGAAACCGAAGAGAAAGTAAAAATAATTTGTGATTGCT
17338766 TCAAAACTGCTTCAGATCGACAAAAGTCATATGCGGATTTAAAAAGAAAAGAGATTGAATTTTAG
66 TCAAAACTGCTTCAGATCGACAAAAGTCATATGCGGATTTAAAAAGAAAAGAGATTGAATTTTAG
17338831 GTGGGTGATAGAGTGTTCTTGAAGGTGTCACCATGGAAAAAGATTCTAAGATTTAGCTGAAAAGG
131 GTGGGTGATAGAGTGTTCTTGAAGGTGTCACCATGGAAAAAGATTCTAAGATTTAGCTGAAAAGG
17338896 CAAGTTGAGTCCGCGTTTTATTGGGCCGTACGAGATTATTGAGAGGATTGGACCAGTGGCATATC
196 CAAGTTGAGTCCGCGTTTTATTGGGCCGTACGAGATTATTGAGAGGATTGGACCAGTGGCATATC
17338961 GGTTGGCATTACCAGCAGAATTTGAAAGAATTCATAACATGTTTCATATATCAATGTTGCGACGT
261 GGTTGGCATTACCAGCAGAATTTGAAAGAATTCATAACATGTTTCATATATCAATGTTGCGACGT
17339026 TATCGTTTTGATCCTTCACATGTGATTTCTCCAACAGAAATTGAGATTCGATCGGACTTGACCTA
326 TATCGTTTTGATCCTTCACATGTGATTTCTCCAACAGAAATTGAGATTCGATCGGACTTGACCTA
17339091 TGATGAGGAACCGATTAAGATTTTGGCTCGAGAAGTAAAACAATTGAGAAAGAAAAGCATAGCTT
391 TGATGAGGAACCGATTAAGATTTTGGCTCGAGAAGTAAAACAATTGAGAAAGAAAAGCATAGCTT
17339156 TAGTGAAAGTGTTATGTCAAAGACATAGAGCAGAC
456 TAGTGAAAGTGTTATGTCAAAGACATAGAGCAGAC
17339191 GAAGCTACAT
Statistics
Matches: 490, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
490 490 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (490 bp):
ACAGATTCACGGAGTTGATTTAGTTAAAGAAACCGAAGAGAAAGTAAAAATAATTTGTGATTGCT
TCAAAACTGCTTCAGATCGACAAAAGTCATATGCGGATTTAAAAAGAAAAGAGATTGAATTTTAG
GTGGGTGATAGAGTGTTCTTGAAGGTGTCACCATGGAAAAAGATTCTAAGATTTAGCTGAAAAGG
CAAGTTGAGTCCGCGTTTTATTGGGCCGTACGAGATTATTGAGAGGATTGGACCAGTGGCATATC
GGTTGGCATTACCAGCAGAATTTGAAAGAATTCATAACATGTTTCATATATCAATGTTGCGACGT
TATCGTTTTGATCCTTCACATGTGATTTCTCCAACAGAAATTGAGATTCGATCGGACTTGACCTA
TGATGAGGAACCGATTAAGATTTTGGCTCGAGAAGTAAAACAATTGAGAAAGAAAAGCATAGCTT
TAGTGAAAGTGTTATGTCAAAGACATAGAGCAGAC
Found at i:17339764 original size:719 final size:717
Alignment explanation
Indices: 17338783--17340218 Score: 2811
Period size: 719 Copynumber: 2.0 Consensus size: 717
17338773 TGCTTCAGAT
17338783 CGACAAAAGTCATATGCGGATTTAAAAAGAAAAGAGATTGAATTTTAGGTGGGTGATAGAGTGTT
1 CGACAAAAGTCATATGCGGATTTAAAAAGAAAAGAGATTGAATTTTAGGTGGGTGATAGAGTGTT
17338848 CTTGAAGGTGTCACCATGGAAAAAGATTCTAAGATTTAGCTGAAAAGGCAAGTTGAGTCCGCGTT
66 CTTGAAGGTGTCACCATGGAAAAAGATTCTAAGATTTAGCTGAAAAGGCAAGTTGAGTCCGCGTT
17338913 TTATTGGGCCGTACGAGATTATTGAGAGGATTGGACCAGTGGCATATCGGTTGGCATTACCAGCA
131 TTATTGGGCCGTACGAGATTATTGAGAGGATTGGACCAGTGGCATATCGGTTGGCATTACCAGCA
17338978 GAATTTGAAAGAATTCATAACATGTTTCATATATCAATGTTGCGACGTTATCGTTTTGATCCTTC
196 GAATTTGAAAGAATTCATAACATGTTTCATATATCAATGTTGCGACGTTATCGTTTTGATCCTTC
17339043 ACATGTGATTTCTCCAACAGAAATTGAGATTCGATCGGACTTGACCTATGATGAGGAACCGATTA
261 ACATGTGATTTCTCCAACAGAAATTGAGATTCGATCGGACTTGACCTATGATGAGGAACCGATTA
17339108 AGATTTTGGCTCGAGAAGTAAAACAATTGAGAAAGAAAAGCATAGCTTTAGTGAAAGTGTTATGT
326 AGATTTTGGCTCGAGAAGTAAAACAATTGAGAAAGAAAAGCATAGCTTTAGTGAAAGTGTTATGT
17339173 CAAAGACATAGAGCAGACGAAGCTACATGGGAACCGGAGGAAGCCATGAGAAAACAGTACCCAAA
391 CAAAGACATAGAGCAGACGAAGCTACATGGGAACCGGAGGAAGCCATGAGAAAACAGTACCCAAA
17339238 TCTCTTTACCGGTAAGATTTTCAGGGACGAAAATCCCTAAAGGGGGGAGAGTTGTAACAGCCCGA
456 TCTCTTTACCGGTAAGATTTTCAGGGACGAAAATCCCTAAAGGGGGGAGAGTTGTAACAGCCCGA
17339303 TTTAGGGCCAAAATAGAAAGTGGTTTCGAAACCATGAATCAGAGGTTGAAAAAAAATTATTTTGA
521 TTTAGGGCCAAAATAGAAAGTGGTTTCGAAACCATGAATCAGAGGTTGAAAAAAAATTATTTTGA
* *
17339368 TTTAGTTTTAGTGTTTATATTATGATTGCATAATTGTGTG-AAACTTTCGTTGCGAAATTTTATT
586 TTTAGTTTTAGTGTTTATATTATGATTGCATAATTGTGTGAAAAATTT-GTTGCGAAATTTTATC
17339432 GATTGGGTGTTTAATTTAACGTTTAGGACTAAATTGAAATAGGTGAAAAATGTGTGTGTTCTAGT
650 GATTGGGTGTTTAATTTAACGTTTAGGACTAAATTGAAATAGGTGAAAAA--TGTGTGTTCTAGT
17339497 TCATA
713 TCATA
17339502 CGACAAAAGTCATATGCGGATTTAAAAAGAAAAGAGATTGAATTTTAGGTGGGTGATAGAGTGTT
1 CGACAAAAGTCATATGCGGATTTAAAAAGAAAAGAGATTGAATTTTAGGTGGGTGATAGAGTGTT
17339567 CTTGAAGGTGTCACCATGGAAAAAGATTCTAAGATTTAGCTGAAAAGGCAAGTTGAGTCCGCGTT
66 CTTGAAGGTGTCACCATGGAAAAAGATTCTAAGATTTAGCTGAAAAGGCAAGTTGAGTCCGCGTT
17339632 TTATTGGGCCGTACGAGATTATTGAGAGGATTGGACCAGTGGCATATCGGTTGGCATTACCAGCA
131 TTATTGGGCCGTACGAGATTATTGAGAGGATTGGACCAGTGGCATATCGGTTGGCATTACCAGCA
17339697 GAATTTGAAAGAATTCATAACATGTTTCATATATCAATGTTGCGACGTTATCGTTTTGATCCTTC
196 GAATTTGAAAGAATTCATAACATGTTTCATATATCAATGTTGCGACGTTATCGTTTTGATCCTTC
17339762 ACATGTGATTTCTCCAACAGAAATTGAGATTCGATCGGACTTGACCTATGATGAGGAACCGATTA
261 ACATGTGATTTCTCCAACAGAAATTGAGATTCGATCGGACTTGACCTATGATGAGGAACCGATTA
17339827 AGATTTTGGCTCGAGAAGTAAAACAATTGAGAAAGAAAAGCATAGCTTTAGTGAAAGTGTTATGT
326 AGATTTTGGCTCGAGAAGTAAAACAATTGAGAAAGAAAAGCATAGCTTTAGTGAAAGTGTTATGT
17339892 CAAAGACATAGAGCAGACGAAGCTACATGGGAACCGGAGGAAGCCATGAGAAAACAGTACCCAAA
391 CAAAGACATAGAGCAGACGAAGCTACATGGGAACCGGAGGAAGCCATGAGAAAACAGTACCCAAA
17339957 TCTCTTTACCGGTAAGATTTTCAGGGACGAAAATCCCTAAAGGGGGGAGAGTTGTAACAGCCCGA
456 TCTCTTTACCGGTAAGATTTTCAGGGACGAAAATCCCTAAAGGGGGGAGAGTTGTAACAGCCCGA
17340022 TTTAGGGCCAAAATAGAAAGTGGTTTCGAAACCATGAATCAGAGGTTGAAAAAAAATTATTTTGA
521 TTTAGGGCCAAAATAGAAAGTGGTTTCGAAACCATGAATCAGAGGTTGAAAAAAAATTATTTTGA
17340087 TTTAGTTTTAGTGTTTATATTATGATTGCATAATTGTGTGAAAAATTTGTTGCGAAATTTTATCG
586 TTTAGTTTTAGTGTTTATATTATGATTGCATAATTGTGTGAAAAATTTGTTGCGAAATTTTATCG
*
17340152 ATTGGGTGTTTAATTTGACGTTTAGGACTAAATTGAAATAGGTGAAAAATGTGTGTTCTAGTTCA
651 ATTGGGTGTTTAATTTAACGTTTAGGACTAAATTGAAATAGGTGAAAAATGTGTGTTCTAGTTCA
17340217 TA
716 TA
17340219 AAGTACTTGA
Statistics
Matches: 713, Mismatches: 3, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
717 18 0.03
719 689 0.97
720 6 0.01
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (717 bp):
CGACAAAAGTCATATGCGGATTTAAAAAGAAAAGAGATTGAATTTTAGGTGGGTGATAGAGTGTT
CTTGAAGGTGTCACCATGGAAAAAGATTCTAAGATTTAGCTGAAAAGGCAAGTTGAGTCCGCGTT
TTATTGGGCCGTACGAGATTATTGAGAGGATTGGACCAGTGGCATATCGGTTGGCATTACCAGCA
GAATTTGAAAGAATTCATAACATGTTTCATATATCAATGTTGCGACGTTATCGTTTTGATCCTTC
ACATGTGATTTCTCCAACAGAAATTGAGATTCGATCGGACTTGACCTATGATGAGGAACCGATTA
AGATTTTGGCTCGAGAAGTAAAACAATTGAGAAAGAAAAGCATAGCTTTAGTGAAAGTGTTATGT
CAAAGACATAGAGCAGACGAAGCTACATGGGAACCGGAGGAAGCCATGAGAAAACAGTACCCAAA
TCTCTTTACCGGTAAGATTTTCAGGGACGAAAATCCCTAAAGGGGGGAGAGTTGTAACAGCCCGA
TTTAGGGCCAAAATAGAAAGTGGTTTCGAAACCATGAATCAGAGGTTGAAAAAAAATTATTTTGA
TTTAGTTTTAGTGTTTATATTATGATTGCATAATTGTGTGAAAAATTTGTTGCGAAATTTTATCG
ATTGGGTGTTTAATTTAACGTTTAGGACTAAATTGAAATAGGTGAAAAATGTGTGTTCTAGTTCA
TA
Found at i:17351115 original size:49 final size:47
Alignment explanation
Indices: 17350977--17351148 Score: 132
Period size: 49 Copynumber: 3.6 Consensus size: 47
17350967 TGAGGTGTGC
* * * * *
17350977 CAGTGTAAGACCTATCTGGGACATGGCATCGAAATAGATAAATGAGAG
1 CAGTGTAAGACCTGTCTAGAACATGGCATCGACATAGAT-GATGAGAG
* * * * * * *
17351025 CTAGTGTAAGAGCTGTCTGGGACATGGCA-CTGTCCTCGATGTATGAAAG
1 C-AGTGTAAGACCTGTCTAGAACATGGCATC-GACATAGATG-ATGAGAG
*
17351074 TCAGTGTAAGACCTGTCTAGAACATGGCATCGACTTAGATG-TGAGAG
1 -CAGTGTAAGACCTGTCTAGAACATGGCATCGACATAGATGATGAGAG
* *
17351121 CCAGTGTAAGACCATGTTTAGAATATGG
1 -CAGTGTAAGACC-TGTCTAGAACATGG
17351149 AATCAGCGTC
Statistics
Matches: 100, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
47 17 0.17
48 14 0.14
49 67 0.67
50 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCTGTCTAGAACATGGCATCGACATAGATGATGAGAG
Found at i:17362548 original size:11 final size:11
Alignment explanation
Indices: 17362529--17362558 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
17362519 GTAATGGAGT
17362529 AAAATTGGAATG
1 AAAA-TGGAATG
17362541 AAAATGGAATG
1 AAAATGGAATG
17362552 AAAATGG
1 AAAATGG
17362559 TATTAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.53, C:0.00, G:0.27, T:0.20
Consensus pattern (11 bp):
AAAATGGAATG
Found at i:17374420 original size:46 final size:46
Alignment explanation
Indices: 17374370--17374545 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17374360 TGGTTGAGCA
17374370 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17374416 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17374461 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17374509 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17374546 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17374526 original size:93 final size:93
Alignment explanation
Indices: 17374367--17374538 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17374357 GGATGGTTGA
* *
17374367 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17374432 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
17374460 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17374525 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
17374539 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17383432 original size:47 final size:47
Alignment explanation
Indices: 17383363--17383553 Score: 276
Period size: 47 Copynumber: 4.1 Consensus size: 47
17383353 GAAATGATAG
*
17383363 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
17383410 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
17383457 TAAGGCCTAATGGCTGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
17383503 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
17383550 TAAG
1 TAAG
17383554 TCCCAAAGGG
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 39 0.30
47 90 0.70
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:17383525 original size:93 final size:94
Alignment explanation
Indices: 17383363--17383553 Score: 276
Period size: 93 Copynumber: 2.0 Consensus size: 94
17383353 GAAATGATAG
* * * *
17383363 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAACAAGGCCGAATGGCCAAC
* *
17383428 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGCATAAATGTGA
* * * *
17383457 TAAGGCCTAATGGCTGATGTG-TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAACAAGGCCGAATGGCCAAC
*
17383521 GTGATGGATGTGAAAGTGCATAAATGTGA
66 GTGATGAATGTGAAAGTGCATAAATGTGA
17383550 TAAG
1 TAAG
17383554 TCCCAAAGGG
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
93 66 0.77
94 20 0.23
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAACAAGGCCGAATGGCCAAC
GTGATGAATGTGAAAGTGCATAAATGTGA
Found at i:17383728 original size:37 final size:37
Alignment explanation
Indices: 17383672--17383750 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17383662 CCGAGCTCTA
* * *
17383672 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
17383709 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
17383746 AAGAC
1 AAGAC
17383751 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17385654 original size:43 final size:43
Alignment explanation
Indices: 17385606--17385708 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
17385596 TTGGTTTTCA
*
17385606 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGTGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
17385649 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
17385692 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
17385709 TTGAGATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.21, C:0.16, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:17386170 original size:40 final size:40
Alignment explanation
Indices: 17386047--17386242 Score: 150
Period size: 40 Copynumber: 4.9 Consensus size: 40
17386037 TTGAATGATG
* ** *
17386047 TCCGAGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
17386087 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
17386127 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
17386167 TCCGGGCTAAGTTCCGAAGAGCTTTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
17386207 TCCGTG-TTAGATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA
17386243 CGTGTATTCG
Statistics
Matches: 126, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
39 4 0.03
40 103 0.82
41 19 0.15
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:17386185 original size:80 final size:80
Alignment explanation
Indices: 17386085--17386242 Score: 185
Period size: 80 Copynumber: 2.0 Consensus size: 80
17386075 TAAGTGACCA
* *
17386085 TATCCGGACTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGCTAAG-TCCCGAAGAG
1 TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGA-TAAATCCGGG-TAAGATCCCGAAGAG
*
17386148 CATTCATGCTAGTGATG
64 CAATCATGCTAGTGATG
* * * * * * *
17386165 TATCCGGGCTAAGTTCCGAAGAGCTTTCGTGCTAGTGATATATCCGTGTTAGATCCCGAAGAGCA
1 TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGATAAATCCGGGTAAGATCCCGAAGAGCA
*
17386230 ATCATGCTGGTGA
66 ATCATGCTAGTGA
17386243 CGTGTATTCG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
79 3 0.05
80 50 0.77
81 12 0.18
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGATAAATCCGGGTAAGATCCCGAAGAGCA
ATCATGCTAGTGATG
Found at i:17395409 original size:15 final size:15
Alignment explanation
Indices: 17395389--17395419 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17395379 ATACATAGAG
*
17395389 AGTCTCCTGTTGAAC
1 AGTCTCCTATTGAAC
17395404 AGTCTCCTATTGAAC
1 AGTCTCCTATTGAAC
17395419 A
1 A
17395420 TTTCGGATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (15 bp):
AGTCTCCTATTGAAC
Done.