Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 30 of 228
Found at i:9429926 original size:23 final size:22
Alignment explanation
Indices: 9429886--9429933 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
9429876 CCTTGAAATT
*
9429886 TAATTACTATTTTAGAATTTTA
1 TAATTACTATTATAGAATTTTA
*
9429908 TAATTACATATTATGGAATTTTA
1 TAATTAC-TATTATAGAATTTTA
9429931 TAA
1 TAA
9429934 AAAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (22 bp):
TAATTACTATTATAGAATTTTA
Found at i:9431303 original size:86 final size:86
Alignment explanation
Indices: 9431158--9431326 Score: 302
Period size: 86 Copynumber: 2.0 Consensus size: 86
9431148 GTCGTTCCTG
** *
9431158 GCTTTCAACCGAACGGTCTTCTCCGCTAGTCTTGTACCATGAACTGCTTCGAGTGTGGGCTCGAA
1 GCTTTCAACCGAACGGTCTTCTCCGCTAGTCTTGTACCACAAACTGCTTCGAGTGTGGGCTCAAA
9431223 CGATTCGAATCAAACACAAAT
66 CGATTCGAATCAAACACAAAT
*
9431244 GCTTTCAACCGAACGGTCTTCTCCGCTATTCTTGTACCACAAACTGCTTCGAGTGTGGGCTCAAA
1 GCTTTCAACCGAACGGTCTTCTCCGCTAGTCTTGTACCACAAACTGCTTCGAGTGTGGGCTCAAA
9431309 CGATTCGAATCAAACACA
66 CGATTCGAATCAAACACA
9431327 GATACAAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (86 bp):
GCTTTCAACCGAACGGTCTTCTCCGCTAGTCTTGTACCACAAACTGCTTCGAGTGTGGGCTCAAA
CGATTCGAATCAAACACAAAT
Found at i:9431957 original size:6 final size:6
Alignment explanation
Indices: 9431946--9431971 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9431936 AAACCATAAA
9431946 TTCATT TTCATT TTCATT TTCATT TT
1 TTCATT TTCATT TTCATT TTCATT TT
9431972 GGAGAAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCATT
Found at i:9432022 original size:51 final size:51
Alignment explanation
Indices: 9431954--9432070 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
9431944 AATTCATTTT
9431954 CATTT-TCATTTTCATTTTGGAGAAAACCACATTCATTTTCAAATGTTT-C
1 CATTTCTCATTTTCATTTTGGAGAAAACCACATTCATTTTCAAATGTTTCC
* *
9432003 CATTTCTCTATTTTTATTTTGGAGAAAGCCACATTCATTTTCAAATGTTTCC
1 CATTTCTC-ATTTTCATTTTGGAGAAAACCACATTCATTTTCAAATGTTTCC
9432055 CATTTCTCCATTTTCA
1 CATTTCT-CATTTTCA
9432071 CAATTTCTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
49 5 0.08
50 2 0.03
51 39 0.64
52 14 0.23
53 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.46
Consensus pattern (51 bp):
CATTTCTCATTTTCATTTTGGAGAAAACCACATTCATTTTCAAATGTTTCC
Found at i:9437245 original size:22 final size:22
Alignment explanation
Indices: 9437217--9437262 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
9437207 CATGGTACTA
**
9437217 TGAGGATGGATATTGACAATTG
1 TGAGGATGGATATCAACAATTG
9437239 TGAGGATGGATATCAACAATTG
1 TGAGGATGGATATCAACAATTG
9437261 TG
1 TG
9437263 GTTACATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (22 bp):
TGAGGATGGATATCAACAATTG
Found at i:9442161 original size:21 final size:21
Alignment explanation
Indices: 9442135--9442190 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
9442125 AACAGCGGTG
*
9442135 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
9442156 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
9442177 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
9442191 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:9444563 original size:68 final size:71
Alignment explanation
Indices: 9444469--9444621 Score: 170
Period size: 71 Copynumber: 2.2 Consensus size: 71
9444459 GAGGTATTCT
* * **
9444469 AAAATACCTTTTTATTTTATTTAAAAAAT-AA-AGGAAAATGAAAAA-AAATCATTTAT-ATAAA
1 AAAAT-CCATTTTGTTTTATTTAAAAAATAAACAAAAAAATGAAAAAGAAATCATTTATGA-AAA
* * *
9444530 TTGAAGTA
64 CTCAAGGA
* * *
9444538 AAAATCCATTTTGTTTTCTTTAAAAAGTAAACAAAAAAATGAAAAAGAAATCATTTATGAGAACT
1 AAAATCCATTTTGTTTTATTTAAAAAATAAACAAAAAAATGAAAAAGAAATCATTTATGAAAACT
9444603 CAAGGA
66 CAAGGA
9444609 AAAATCCATTTTG
1 AAAATCCATTTTG
9444622 ATAGGAGTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
68 19 0.27
69 7 0.10
70 12 0.17
71 31 0.44
72 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (71 bp):
AAAATCCATTTTGTTTTATTTAAAAAATAAACAAAAAAATGAAAAAGAAATCATTTATGAAAACT
CAAGGA
Found at i:9450238 original size:35 final size:35
Alignment explanation
Indices: 9450192--9450272 Score: 162
Period size: 35 Copynumber: 2.3 Consensus size: 35
9450182 CATACCTTAG
9450192 CCAATTAGCTCTGGATCATTGCTTCTAGTGTAGCT
1 CCAATTAGCTCTGGATCATTGCTTCTAGTGTAGCT
9450227 CCAATTAGCTCTGGATCATTGCTTCTAGTGTAGCT
1 CCAATTAGCTCTGGATCATTGCTTCTAGTGTAGCT
9450262 CCAATTAGCTC
1 CCAATTAGCTC
9450273 CGTGTTGCGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (35 bp):
CCAATTAGCTCTGGATCATTGCTTCTAGTGTAGCT
Found at i:9454868 original size:18 final size:18
Alignment explanation
Indices: 9454845--9454937 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
9454835 CCCAACTACT
*
9454845 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
9454863 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
9454881 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
9454899 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
9454917 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
9454935 GTA
1 GTA
9454938 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:9454897 original size:36 final size:36
Alignment explanation
Indices: 9454845--9454937 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
9454835 CCCAACTACT
*
9454845 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
9454881 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
9454917 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
9454938 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:9460074 original size:30 final size:30
Alignment explanation
Indices: 9460025--9460099 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
9460015 CAAACAACAT
* *
9460025 TCAATTAAGCCCTCGATTGAGTTTAAGTGC
1 TCAATTAAGCCCTCAATTGAATTTAAGTGC
* * ***
9460055 TCAATTGAGCTCTCAATTGAATTTAAGCAA
1 TCAATTAAGCCCTCAATTGAATTTAAGTGC
9460085 TCAATTAAGCCCTCA
1 TCAATTAAGCCCTCA
9460100 TCCCTTGACA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (30 bp):
TCAATTAAGCCCTCAATTGAATTTAAGTGC
Found at i:9460469 original size:12 final size:13
Alignment explanation
Indices: 9460454--9460482 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9460444 CAATATACGA
9460454 AAAAAT-AAAAAT
1 AAAAATAAAAAAT
9460466 AAAAATAAAAAAT
1 AAAAATAAAAAAT
9460479 AAAA
1 AAAA
9460483 TTTTTATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:9461085 original size:20 final size:20
Alignment explanation
Indices: 9461060--9461099 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9461050 CGTAAAATGA
*
9461060 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
9461080 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
9461100 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:9461089 original size:34 final size:35
Alignment explanation
Indices: 9461045--9461111 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
9461035 CAGTAAAATA
*
9461045 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
9461079 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
9461112 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:9462005 original size:27 final size:25
Alignment explanation
Indices: 9461965--9462020 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
9461955 TTCTCGAATG
* *
9461965 TTTTTCTATTATTTTAATATTTTCCAT
1 TTTTTCTATAATTTTAA-A-TTTCAAT
*
9461992 TTTTTTTATAATTTTAAATTTCAAT
1 TTTTTCTATAATTTTAAATTTCAAT
9462017 TTTT
1 TTTT
9462021 AAATAGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 1 0.04
27 15 0.58
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTTCTATAATTTTAAATTTCAAT
Found at i:9462459 original size:24 final size:24
Alignment explanation
Indices: 9462432--9462477 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9462422 AATAACAAAA
9462432 TAAAATTTATAAATTTGATTAACT
1 TAAAATTTATAAATTTGATTAACT
* **
9462456 TAAAATTTTTCGATTTGATTAA
1 TAAAATTTATAAATTTGATTAA
9462478 ATACCTAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (24 bp):
TAAAATTTATAAATTTGATTAACT
Found at i:9465072 original size:16 final size:16
Alignment explanation
Indices: 9465048--9465078 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9465038 TATGTACCGA
*
9465048 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
9465064 AAATATAAATAAATA
1 AAATATAAATAAATA
9465079 GATAACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:9466638 original size:40 final size:39
Alignment explanation
Indices: 9466591--9466743 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 39
9466581 TGTGTTTTTA
*
9466591 GTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGT
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGT
* *
9466630 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTT
1 G-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGT
*
9466673 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGT
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGT
9466712 GGTCTGCTCCACTACTGCTTAGGGAGATAAGA
1 -GTCTGCTCCACTACTGCTTAGGGAGATAAGA
9466744 TCTGTAATCT
Statistics
Matches: 103, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
39 4 0.04
40 60 0.58
41 4 0.04
42 31 0.30
43 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (39 bp):
GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGT
Found at i:9466685 original size:82 final size:83
Alignment explanation
Indices: 9466581--9466748 Score: 293
Period size: 82 Copynumber: 2.0 Consensus size: 83
9466571 GGATGAGACT
* * *
9466581 TGTGTTTTTAGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACT
1 TGTGGTTTTAGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACT
9466646 GCTTAGGGAGATAAGATC
66 GCTTAGGGAGATAAGATC
*
9466664 TGTGGTTTT-GTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGGTCTGCTCCACTACT
1 TGTGGTTTTAGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACT
9466728 GCTTAGGGAGATAAGATC
66 GCTTAGGGAGATAAGATC
9466746 TGT
1 TGT
9466749 AATCTTCACT
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 73 0.90
83 8 0.10
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (83 bp):
TGTGGTTTTAGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACT
GCTTAGGGAGATAAGATC
Found at i:9466945 original size:40 final size:43
Alignment explanation
Indices: 9466592--9466963 Score: 171
Period size: 40 Copynumber: 8.8 Consensus size: 43
9466582 GTGTTTTTAG
* * *
9466592 TCTGCTCCACTACTT-CTTAGGGAGATAAGA-CTTG-ATGTG-A
1 TCTGCTCCACTA-TTGCTTAGGGAGATAAGATCTGGTATCTGTC
* *
9466632 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGT-T-T-TG
1 TCTGCTCCACTATTGCTTAGGGAGATAAGATC--TGGTATCTGTC
* * *
9466674 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGG-ATGTG-G
1 TCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTATCTGTC
*
9466714 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTAATCT-TCAC
1 TCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGT-ATCTGT--C
** * ** * *
9466758 TCTATTCCACTGTTGCCCAGGGAGAT-AGAACTACTGGCTTTAATGTAC
1 TCTGCTCCACTATTGCTTAGGGAGATAAG-A-T-CTGG-TAT-CTGT-C
* * * * * **
9466806 TC--CACCA-TAAT-C--GGGGAGGTAAAAT-TCGCCATCT-TC
1 TCTGCTCCACTATTGCTTAGGGAGATAAGATCT-GGTATCTGTC
* * *
9466842 GACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTTTCTTTC
1 --TCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTATCTGTC
* *
9466887 GTCTGCTCCACTATTGCTTAGGGAGATAAGA-CTTG-ATGTGT-
1 -TCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTATCTGTC
*
9466928 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGT
1 TCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGT
9466964 TTTCTTCACT
Statistics
Matches: 255, Mismatches: 41, Indels: 70
0.70 0.11 0.19
Matches are distributed among these distances:
36 1 0.00
37 1 0.00
38 2 0.01
39 7 0.03
40 94 0.37
41 11 0.04
42 45 0.18
43 9 0.04
44 65 0.25
45 6 0.02
46 5 0.02
47 2 0.01
48 6 0.02
49 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (43 bp):
TCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTATCTGTC
Found at i:9467156 original size:132 final size:131
Alignment explanation
Indices: 9467009--9467461 Score: 595
Period size: 132 Copynumber: 3.4 Consensus size: 131
9466999 ATAGAGTTAT
* * * * * *
9467009 CGGCTTCAATGTACTCCACTGT-A-GTCAGGGAGGTAAAATCTGTCATCTTTGATCTGTTTCGCT
1 CGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* * * * ** *
9467072 GCCAAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAA
66 -AC-AAT-TAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAA
* *
9467137 CTAC
128 TTTC
9467141 CGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
1 CGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
** *
9467206 ACTGTTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAATAGAATT
66 AC-AATTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATT
9467271 TC
130 TC
* * *
9467273 CGGCTTCAATGTACTCCACTATAATCTCAGGGAGGTAAAATCTGTCATATTCGATCTGCTCCACT
1 CGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
**
9467338 ACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATT
66 AC-AATTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATT
9467403 TC
130 TC
** * * *
9467405 TAGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATTTTCGATCT
1 CGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCT
9467462 TTTAAATTGC
Statistics
Matches: 288, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
132 251 0.87
133 3 0.01
134 34 0.12
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (131 bp):
CGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
ACAATTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTT
C
Found at i:9467393 original size:44 final size:44
Alignment explanation
Indices: 9467089--9467393 Score: 149
Period size: 44 Copynumber: 6.9 Consensus size: 44
9467079 ACAAGAAGGC
* *
9467089 AAGATCTG-CAATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT
1 AAGATCTGAC-ATCTTCAATCTACTCCACTGTTGCTCAGGGAGA-T
* ** * *
9467133 -AGAACT-ACCGGCTTCAATGTACTCCACTGTAAT-CTCAGGGAGGT
1 AAGATCTGA-CATCTTCAATCTACTCCACTGT--TGCTCAGGGAGAT
* * * * ** * *
9467177 AAAATCTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGAT
1 AAGATCTGACATCTTCAATCTACTCCACTGTTGCTCAGGGAGAT
* * * *
9467221 AAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAAT
1 AAGATCTGACATCTTCAATCTACTCCACTGTTGCTCAGGGAGAT
** ** * * *
9467265 -AGAAT-TTCCGGCTTCAATGTACTCCACTATAAT-CTCAGGGAGGT
1 AAG-ATCTGACATCTTCAATCTACTCCACTGT--TGCTCAGGGAGAT
* * * * * ** *
9467309 AAAATCTGTCATATTCGATCTGCTCCACTACTGCTTAGGGAGAT
1 AAGATCTGACATCTTCAATCTACTCCACTGTTGCTCAGGGAGAT
* * *
9467353 AAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGA
1 AAGATCTGACATCTTCAATCTACTCCACTGTTGCTCAGGGA
9467394 AGTAGAATTT
Statistics
Matches: 181, Mismatches: 66, Indels: 28
0.66 0.24 0.10
Matches are distributed among these distances:
43 43 0.24
44 100 0.55
45 38 0.21
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
AAGATCTGACATCTTCAATCTACTCCACTGTTGCTCAGGGAGAT
Found at i:9467584 original size:100 final size:99
Alignment explanation
Indices: 9467458--9467832 Score: 520
Period size: 100 Copynumber: 3.8 Consensus size: 99
9467448 GCCATTTTCG
* * *
9467458 ATCT-TTTAAATTGCAATGTCAGGGAAGCAAGAATCGCCGTCGTAGCTTTAATCTGCTCTACTGT
1 ATCTCTTT-AATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC
9467522 ACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCA
65 ACTGCCAG-GAAGTGAGATTCGCCGTTGTGGCTTCA
** *
9467558 ATCTCTTTAATTGCAATGTTGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTACA
1 ATCTCTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCA
** ** * * *
9467623 CCACCATGGAAGAAAGATTTGCCGTTGCGGTTTCA
66 CTGCCA-GGAAGTGAGATTCGCCGTTGTGGCTTCA
* * * * *
9467658 ATCTTTTTAATTGCAATATCAAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGTA
1 ATCTCTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCA
*
9467723 CTGCCAGAGAAGTGAGATTCTCCGTTGTGGCTTCA
66 CTGCCAG-GAAGTGAGATTCGCCGTTGTGGCTTCA
*
9467758 ATCTCTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCA
1 ATCTCTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCA
9467822 CTGCCAGGAAG
66 CTGCCAGGAAG
9467833 GTAACTTCAT
Statistics
Matches: 237, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
98 4 0.02
99 44 0.19
100 185 0.78
101 4 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (99 bp):
ATCTCTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCA
CTGCCAGGAAGTGAGATTCGCCGTTGTGGCTTCA
Found at i:9467591 original size:50 final size:50
Alignment explanation
Indices: 9467458--9467810 Score: 194
Period size: 50 Copynumber: 7.1 Consensus size: 50
9467448 GCCATTTTCG
* *
9467458 ATCT-TTTAAATTGCAATGTCAGGGAAGCAAGAATCGCCGTCGTAGCTTTA
1 ATCTCTTT-AATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTCA
* * * * * * ** * *
9467508 ATCTGCTCT-ACTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCA
1 ATCT-CTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTCA
** *
9467558 ATCTCTTTAATTGCAATGTTGGGGAAGCAAGATTCGCCGTCGTAGCTTTA
1 ATCTCTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTCA
** * * **** * * * * ** *
9467608 ATCTGC-TCCACTACACCACCATGGAAGAAAGATTTGCCGTTGCGGTTTCA
1 ATCT-CTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTCA
* * * * *
9467658 ATCTTTTTAATTGCAATATCAAGGAAGCAAGATTCACCGTCGTAGCTTTA
1 ATCTCTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTCA
** * * * * * ** * * *
9467708 ATCTGC-TCCACTGTACTGCCAGAGAAGTGAGATTCTCCGTTGTGGCTTCA
1 ATCT-CTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTCA
* *
9467758 ATCTCTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCGTCGTAGCTTTA
1 ATCTCTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTCA
9467807 ATCT
1 ATCT
9467811 GCTCCACTGC
Statistics
Matches: 206, Mismatches: 90, Indels: 15
0.66 0.29 0.05
Matches are distributed among these distances:
49 25 0.12
50 178 0.86
51 1 0.00
52 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (50 bp):
ATCTCTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGCTTCA
Found at i:9467944 original size:44 final size:43
Alignment explanation
Indices: 9467844--9468111 Score: 236
Period size: 44 Copynumber: 6.2 Consensus size: 43
9467834 TAACTTCATT
* * * *
9467844 GATCTGTTTTCTTCGATCTACTT-CACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCCACCAATATAGGAAGACAA
* * *
9467886 TATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * *
9467929 GACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAA
* * * *
9467973 GATCTGCTTTCTCCGATCTACTTCACCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* * * *
9468018 GATCTGC-GTCTTCGATCCACTTCCTACCAATGTAAGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * * * *
9468061 GACCGGCTATATTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAA
9468105 GATCTGC
1 GATCTGC
9468112 CTTTGTGACT
Statistics
Matches: 177, Mismatches: 40, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
41 13 0.07
42 8 0.05
43 39 0.22
44 93 0.53
45 23 0.13
46 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
GATCTGCTATCTTCGATCTACTTCCACCAATATAGGAAGACAA
Found at i:9468078 original size:132 final size:129
Alignment explanation
Indices: 9467844--9468111 Score: 428
Period size: 132 Copynumber: 2.1 Consensus size: 129
9467834 TAACTTCATT
* * *
9467844 GATCTGTTTTCTTCGATCTACTTCACCAGTATGGGAAGACAATATCTGCATCTTCGATCCACTTC
1 GATCTGCTTTCTCCGATCTACTTCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
* * * *
9467909 CTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
66 CTACCAATATAAGAAGACAAGACCGGCTATATTCGATCTACTTCACGCCAATACATGAAGACAA
*
9467973 GATCTGCTTTCTCCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCGTCTTCGATCCAC
1 GATCTGCTTTCTCCGATCTACTT---CACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
9468038 TTCCTACCAATGTAAGAAGACAAGACCGGCTATATTCGATCTACTTCACGCCAATACATGAAGAC
63 TTCCTACCAATATAAGAAGACAAGACCGGCTATATTCGATCTACTTCACGCCAATACATGAAGAC
9468103 AA
128 AA
9468105 GATCTGC
1 GATCTGC
9468112 CTTTGTGACT
Statistics
Matches: 127, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
129 21 0.17
132 106 0.83
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (129 bp):
GATCTGCTTTCTCCGATCTACTTCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
CTACCAATATAAGAAGACAAGACCGGCTATATTCGATCTACTTCACGCCAATACATGAAGACAA
Found at i:9469148 original size:20 final size:20
Alignment explanation
Indices: 9469125--9469189 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
9469115 TGGCCTCTCC
*
9469125 TTTTTCTATTTTGTTTTT-CT
1 TTTTTCTATTTT-TTTTTGAT
9469145 TTTTTCT-TTTCTTTTTTGAT
1 TTTTTCTATTT-TTTTTTGAT
* *
9469165 TTTTTCTATTTTCTTTTCAT
1 TTTTTCTATTTTTTTTTGAT
9469185 TTTTT
1 TTTTT
9469190 TTCAAGTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
19 8 0.21
20 28 0.72
21 3 0.08
ACGTcount: A:0.06, C:0.11, G:0.03, T:0.80
Consensus pattern (20 bp):
TTTTTCTATTTTTTTTTGAT
Found at i:9469652 original size:17 final size:17
Alignment explanation
Indices: 9469616--9469670 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 17
9469606 CCCAGTAGAG
*
9469616 TTTTTTTG-TTTTGTTCT
1 TTTTTTTGTTTTTG-TGT
9469633 TTTTTTTGTTTTTGTG-
1 TTTTTTTGTTTTTGTGT
*
9469649 -TTTTTGGTTTTTG-GT
1 TTTTTTTGTTTTTGTGT
9469664 TTTTTTT
1 TTTTTTT
9469671 TTGCTTCCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 1 0.03
15 12 0.38
16 5 0.16
17 9 0.28
18 5 0.16
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.82
Consensus pattern (17 bp):
TTTTTTTGTTTTTGTGT
Found at i:9471038 original size:62 final size:62
Alignment explanation
Indices: 9470931--9471114 Score: 323
Period size: 62 Copynumber: 3.0 Consensus size: 62
9470921 CTAAACTCGA
*
9470931 CGTACTTTTGGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAATG
1 CGTATTTTTGGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAATG
*
9470993 CGTATTTTTAGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAATG
1 CGTATTTTTGGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAATG
* * *
9471055 CATATTTTTGGATTTTAAGAAATTTATTGTATGCAATAAAATGTAATGTTGATGCATGAA
1 CGTATTTTTGGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAA
9471115 AAGATACGTG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 116 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAATG
Found at i:9473485 original size:16 final size:16
Alignment explanation
Indices: 9473461--9473491 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9473451 TATGTACCGA
*
9473461 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
9473477 AAATATAAATAAATA
1 AAATATAAATAAATA
9473492 GATAACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:9475286 original size:14 final size:14
Alignment explanation
Indices: 9475241--9475286 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
9475231 AAAATTATTC
*
9475241 AATTTTTATTAAAA
1 AATTTTTATAAAAA
* * *
9475255 TATTTTTATAATAC
1 AATTTTTATAAAAA
9475269 AATTTTTATAAAAA
1 AATTTTTATAAAAA
9475283 AATT
1 AATT
9475287 GATTGTATTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTTTATAAAAA
Found at i:9475435 original size:10 final size:10
Alignment explanation
Indices: 9475396--9475498 Score: 56
Period size: 10 Copynumber: 10.5 Consensus size: 10
9475386 TTTAAAAAAA
*
9475396 TTTAATAGTT
1 TTTAATAATT
* *
9475406 TTTCACAATCT
1 TTTAATAAT-T
9475417 TTT-ATAATT
1 TTTAATAATT
9475426 TTTAATAATT
1 TTTAATAATT
9475436 TTT-ATAATTT
1 TTTAATAA-TT
* *
9475446 TTTTACAATAT
1 TTTAATAAT-T
9475457 TTTAA-AATT
1 TTTAATAATT
* *
9475466 TCTAAT-AGT
1 TTTAATAATT
9475475 TTT-ATAACTT
1 TTTAATAA-TT
*
9475485 TTT-ACAATT
1 TTTAATAATT
9475494 TTTAA
1 TTTAA
9475499 AAAAAATTAT
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
8 2 0.03
9 23 0.32
10 36 0.49
11 12 0.16
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (10 bp):
TTTAATAATT
Found at i:9475438 original size:19 final size:20
Alignment explanation
Indices: 9475404--9475497 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
9475394 AATTTAATAG
*
9475404 TTTTTCACAATCTTTTATAA-
1 TTTTTAACAAT-TTTTATAAC
* *
9475424 TTTTTAATAATTTTTATAAT
1 TTTTTAACAATTTTTATAAC
* *
9475444 TTTTTTACAATATTTTA-AAA
1 TTTTTAACAAT-TTTTATAAC
* * *
9475464 TTTCTAA-TAGTTTTATAAC
1 TTTTTAACAATTTTTATAAC
9475483 TTTTT-ACAATTTTTA
1 TTTTTAACAATTTTTA
9475498 AAAAAAATTA
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
18 6 0.11
19 21 0.37
20 25 0.44
21 5 0.09
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (20 bp):
TTTTTAACAATTTTTATAAC
Found at i:9475447 original size:9 final size:9
Alignment explanation
Indices: 9475416--9475497 Score: 58
Period size: 9 Copynumber: 8.6 Consensus size: 9
9475406 TTTCACAATC
9475416 TTTTATAAT
1 TTTTATAAT
9475425 TTTTAATAAT
1 TTTT-ATAAT
9475435 TTTTATAATTT
1 TTTTATAA--T
*
9475446 TTTTACAAT
1 TTTTATAAT
*
9475455 ATTTTAAAAT
1 -TTTTATAAT
* *
9475465 TTCTA-ATAG
1 TTTTATA-AT
9475474 TTTTATAACT
1 TTTTATAA-T
*
9475484 TTTTACAAT
1 TTTTATAAT
9475493 TTTTA
1 TTTTA
9475498 AAAAAAATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 25 0.42
10 25 0.42
11 8 0.14
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:9475448 original size:40 final size:37
Alignment explanation
Indices: 9475404--9475500 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 37
9475394 AATTTAATAG
* * * *
9475404 TTTTTCACAATCTTTTATAATTTTTAATAATTTTTATAATT
1 TTTTT-ACAAT-TTTTAAAATTTCTAAT-AGTTTTATAA-C
9475445 TTTTTACAATATTTTAAAATTTCTAATAGTTTTATAAC
1 TTTTTACAAT-TTTTAAAATTTCTAATAGTTTTATAAC
9475483 TTTTTACAATTTTTAAAA
1 TTTTTACAATTTTTAAAA
9475501 AAAATTATAC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
37 8 0.16
38 10 0.20
39 9 0.18
40 19 0.37
41 5 0.10
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (37 bp):
TTTTTACAATTTTTAAAATTTCTAATAGTTTTATAAC
Found at i:9479862 original size:19 final size:19
Alignment explanation
Indices: 9479835--9479875 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9479825 TCATATAAGA
9479835 ATAAGAATT-TTATTAAATT
1 ATAAGAATTATT-TTAAATT
*
9479854 ATAATAATTATTTTAAATT
1 ATAAGAATTATTTTAAATT
9479873 ATA
1 ATA
9479876 TTTTAGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATAAGAATTATTTTAAATT
Found at i:9479954 original size:17 final size:17
Alignment explanation
Indices: 9479934--9479967 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9479924 TTTATTAACA
9479934 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
9479951 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
9479968 TCTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:9480156 original size:39 final size:40
Alignment explanation
Indices: 9480113--9480218 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 40
9480103 TTTCCTTATG
* *
9480113 CTATTACACCTCTATTTCATTCAACCAAACACAAGAA-TA
1 CTATTACGCCTCTATTTCATTCAACCAAACAAAAGAATTA
9480152 CTATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTA
1 CTATTACGCCTCTA-T---TT-CATTCAACCAAACAAAAGAATTA
* *
9480197 CTTTTTACGCCTCTATTCCATT
1 C-TATTACGCCTCTATTTCATT
9480219 ACGCCTCTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
39 13 0.23
40 1 0.02
41 4 0.07
42 1 0.02
43 2 0.04
44 19 0.34
45 4 0.07
46 12 0.21
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (40 bp):
CTATTACGCCTCTATTTCATTCAACCAAACAAAAGAATTA
Found at i:9480193 original size:44 final size:46
Alignment explanation
Indices: 9480130--9480220 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
9480120 ACCTCTATTT
*
9480130 CATTCAACCAAACACAAGAA-TAC-TATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACTTATTACGCCTCTATTCCATTA
*
9480174 CATTCAACCAAACAAAAGAATTACTTTTTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACTTATTACGCCTCTATTCCATTA
9480220 C
1 C
9480221 GCCTCTATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 19 0.44
45 3 0.07
46 21 0.49
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.30
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACTTATTACGCCTCTATTCCATTA
Found at i:9480222 original size:16 final size:16
Alignment explanation
Indices: 9480201--9480236 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9480191 GAATTACTTT
9480201 TTACGCCTCTATTCCA
1 TTACGCCTCTATTCCA
*
9480217 TTACGCCTCTATTCTA
1 TTACGCCTCTATTCCA
9480233 TTAC
1 TTAC
9480237 AGCGAACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.33, G:0.06, T:0.42
Consensus pattern (16 bp):
TTACGCCTCTATTCCA
Found at i:9482980 original size:27 final size:27
Alignment explanation
Indices: 9482950--9483003 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
9482940 GTTTTTAAGT
9482950 TTAGAGTTTTTAAGTTAAGGGTTAGGG
1 TTAGAGTTTTTAAGTTAAGGGTTAGGG
*
9482977 TTAGGGTTTTTAAGTTAAGGGTTAGGG
1 TTAGAGTTTTTAAGTTAAGGGTTAGGG
9483004 GTTTTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (27 bp):
TTAGAGTTTTTAAGTTAAGGGTTAGGG
Found at i:9482998 original size:21 final size:21
Alignment explanation
Indices: 9482973--9483069 Score: 149
Period size: 21 Copynumber: 4.6 Consensus size: 21
9482963 GTTAAGGGTT
*
9482973 AGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAATTA
*
9482994 AGGGTTAGGGGTTTTAAATTA
1 AGGGTTAGGGTTTTTAAATTA
9483015 AGGGTTTAGGGTTTTTAAATTA
1 AGGG-TTAGGGTTTTTAAATTA
*
9483037 AGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAATTA
*
9483058 AAGGTTAGGGTT
1 AGGGTTAGGGTT
9483070 AGGGTTTTTG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
21 50 0.71
22 20 0.29
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (21 bp):
AGGGTTAGGGTTTTTAAATTA
Found at i:9482999 original size:15 final size:15
Alignment explanation
Indices: 9482940--9482999 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
9482930 AAGTTTTGGT
* *
9482940 GTTTTTAAGTTTAGA
1 GTTTTTAAGTTAAGG
9482955 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
*
9482970 G---TTAGGGTT-AGG
1 GTTTTTA-AGTTAAGG
9482982 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
9482997 GTT
1 GTT
9483000 AGGGGTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
12 7 0.19
13 3 0.08
14 3 0.08
15 23 0.64
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (15 bp):
GTTTTTAAGTTAAGG
Found at i:9483038 original size:43 final size:42
Alignment explanation
Indices: 9482973--9483069 Score: 149
Period size: 43 Copynumber: 2.3 Consensus size: 42
9482963 GTTAAGGGTT
*
9482973 AGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGGTTTTAAATTA
1 AGGGTTAGGGTTTTTAAATTAAGGGTTAGGGGTTTTAAATTA
* *
9483015 AGGGTTTAGGGTTTTTAAATTAAGGGTTAGGGTTTTTAAGTTA
1 AGGG-TTAGGGTTTTTAAATTAAGGGTTAGGGGTTTTAAATTA
*
9483058 AAGGTTAGGGTT
1 AGGGTTAGGGTT
9483070 AGGGTTTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 12 0.24
43 38 0.76
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (42 bp):
AGGGTTAGGGTTTTTAAATTAAGGGTTAGGGGTTTTAAATTA
Found at i:9485536 original size:51 final size:51
Alignment explanation
Indices: 9485475--9485572 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
9485465 AAATAATTAA
9485475 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGAAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGAAAATTGAAATT
* * * *
9485526 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGAAAATTGA
9485573 GAAAATAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.26, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGAAAATTGAAATT
Found at i:9497028 original size:107 final size:107
Alignment explanation
Indices: 9496835--9497040 Score: 331
Period size: 107 Copynumber: 1.9 Consensus size: 107
9496825 AAGGAAAAAT
* * * *
9496835 TTTCAAAACGAGGCAATGTTTTGCTTTTGGAAAATCGAGAAAATGTGCCCTAACATGCTGGGTTT
1 TTTCAAAACGAGGCAATATTTTGCGTTTAGAAAATCGAGAAAACGTGCCCTAACATGCTGGGTTT
* *
9496900 CGATTTCTCGTTTGACCAAATAGCCAAATATCCTTTCAATAA
66 CGATTTCTCATTCGACCAAATAGCCAAATATCCTTTCAATAA
* *
9496942 TTTCAAAACGAGGCAATATTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAACGAGGCAATATTTTGCGTTTAGAAAATCGAGAAAACGTGCCCTAACATGCTGGGTTT
*
9497007 CGATTTCTCATTCGACTAAATAGCCAAATATCCT
66 CGATTTCTCATTCGACCAAATAGCCAAATATCCT
9497041 CTTAAAACTT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 90 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (107 bp):
TTTCAAAACGAGGCAATATTTTGCGTTTAGAAAATCGAGAAAACGTGCCCTAACATGCTGGGTTT
CGATTTCTCATTCGACCAAATAGCCAAATATCCTTTCAATAA
Found at i:9505943 original size:19 final size:20
Alignment explanation
Indices: 9505919--9505957 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9505909 ATTAATAAGC
9505919 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
9505938 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
9505958 TTCCACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:9509483 original size:18 final size:18
Alignment explanation
Indices: 9509460--9509495 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9509450 CTTTAGGAAG
9509460 TTCAGTTAGCTCCCACGT
1 TTCAGTTAGCTCCCACGT
9509478 TTCAGTTAGCTCCCACGT
1 TTCAGTTAGCTCCCACGT
9509496 CTTGTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (18 bp):
TTCAGTTAGCTCCCACGT
Found at i:9514147 original size:27 final size:27
Alignment explanation
Indices: 9514130--9514194 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
9514120 AATTTAAATT
* *
9514130 TATTATTATGT-TTTTAAAATTTTTATG
1 TATTATTATATATTTTAAAA-TTTTATA
*
9514157 TATTTTTATATATTTTAAAATTTTATA
1 TATTATTATATATTTTAAAATTTTATA
9514184 TATTATTATAT
1 TATTATTATAT
9514195 CTTGTCAGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 25 0.76
28 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (27 bp):
TATTATTATATATTTTAAAATTTTATA
Found at i:9514162 original size:9 final size:10
Alignment explanation
Indices: 9514148--9514287 Score: 68
Period size: 10 Copynumber: 14.6 Consensus size: 10
9514138 TGTTTTTAAA
*
9514148 ATTTTTATGT
1 ATTTTTATAT
9514158 ATTTTTATAT
1 ATTTTTATAT
9514168 A-TTTTA-A-
1 ATTTTTATAT
*
9514175 AATTTTATAT
1 ATTTTTATAT
*
9514185 ATTATTATAT
1 ATTTTTATAT
* * * *
9514195 CTTGTCAGCAAT
1 ATTTTTA--TAT
9514207 CATTTTT-T-T
1 -ATTTTTATAT
9514216 ATTTTTATAT
1 ATTTTTATAT
9514226 ATTTTTA-A-
1 ATTTTTATAT
9514234 ATTTATTAT-T
1 ATTT-TTATAT
*
9514244 ATTTTTTTGA-
1 ATTTTTAT-AT
*
9514254 ATTTTT-TTT
1 ATTTTTATAT
9514263 ATTTTTATAT
1 ATTTTTATAT
*
9514273 ATTTTTTTA-
1 ATTTTTATAT
9514282 ATTTTT
1 ATTTTT
9514288 CTGATTAAGA
Statistics
Matches: 100, Mismatches: 15, Indels: 31
0.68 0.10 0.21
Matches are distributed among these distances:
7 1 0.01
8 16 0.16
9 28 0.28
10 50 0.50
12 2 0.02
13 3 0.03
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:9514163 original size:20 final size:21
Alignment explanation
Indices: 9514125--9514163 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9514115 TATAAAATTT
9514125 AAATTTATTATTATGTTTTTA
1 AAATTTATTATTATGTTTTTA
9514146 AAATTT-TTATGTAT-TTTT
1 AAATTTATTAT-TATGTTTT
9514164 ATATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
AAATTTATTATTATGTTTTTA
Found at i:9514238 original size:22 final size:20
Alignment explanation
Indices: 9514213--9514287 Score: 73
Period size: 19 Copynumber: 3.8 Consensus size: 20
9514203 CAATCATTTT
9514213 TTTATTTTTATATATTTTTAAA
1 TTTATTTTTAT-T-TTTTTAAA
* *
9514235 TTTATTATTATTTTTTTGAA
1 TTTATTTTTATTTTTTTAAA
* *
9514255 TTT-TTTTTATTTTTATATA
1 TTTATTTTTATTTTTTTAAA
*
9514274 TTT-TTTTAATTTTT
1 TTTATTTTTATTTTT
9514288 CTGATTAAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
19 25 0.54
20 10 0.22
21 1 0.02
22 10 0.22
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (20 bp):
TTTATTTTTATTTTTTTAAA
Found at i:9514257 original size:28 final size:27
Alignment explanation
Indices: 9514208--9514287 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 27
9514198 GTCAGCAATC
*
9514208 ATTTTT-T-TATTTTTATATATTTTTAA
1 ATTTTTATATATTTTTTTA-ATTTTTAA
**
9514234 ATTTATTAT-TATTTTTTTGAATTTTTTTT
1 ATTT-TTATATATTTTTTT-AA-TTTTTAA
9514263 ATTTTTATATATTTTTTTAATTTTT
1 ATTTTTATATATTTTTTTAATTTTT
9514288 CTGATTAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
26 4 0.09
27 7 0.15
28 16 0.35
29 19 0.41
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (27 bp):
ATTTTTATATATTTTTTTAATTTTTAA
Found at i:9516363 original size:118 final size:118
Alignment explanation
Indices: 9516221--9516457 Score: 474
Period size: 118 Copynumber: 2.0 Consensus size: 118
9516211 GTTTATTAAC
9516221 AAACTAAAATCTAAACCACAAATCCATATTCAAAAATATGCATAAACTTTTTGGTACGGGTGTAC
1 AAACTAAAATCTAAACCACAAATCCATATTCAAAAATATGCATAAACTTTTTGGTACGGGTGTAC
9516286 TGGTAACAAAACAAAAACGACATACCTACCAATACCAAAGTGAATTTTTGAAT
66 TGGTAACAAAACAAAAACGACATACCTACCAATACCAAAGTGAATTTTTGAAT
9516339 AAACTAAAATCTAAACCACAAATCCATATTCAAAAATATGCATAAACTTTTTGGTACGGGTGTAC
1 AAACTAAAATCTAAACCACAAATCCATATTCAAAAATATGCATAAACTTTTTGGTACGGGTGTAC
9516404 TGGTAACAAAACAAAAACGACATACCTACCAATACCAAAGTGAATTTTTGAAT
66 TGGTAACAAAACAAAAACGACATACCTACCAATACCAAAGTGAATTTTTGAAT
9516457 A
1 A
9516458 TTCAAAAATC
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (118 bp):
AAACTAAAATCTAAACCACAAATCCATATTCAAAAATATGCATAAACTTTTTGGTACGGGTGTAC
TGGTAACAAAACAAAAACGACATACCTACCAATACCAAAGTGAATTTTTGAAT
Found at i:9529609 original size:21 final size:21
Alignment explanation
Indices: 9529563--9529609 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
9529553 AACAGTGGTG
9529563 GCGGTGAGATTAATTACTGTA
1 GCGGTGAGATTAATTACTGTA
* *
9529584 ACGGTGAGATTGGA-TACTGTA
1 GCGGTGAGATT-AATTACTGTA
9529605 GCGGT
1 GCGGT
9529610 ACAATGGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.26, C:0.11, G:0.34, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAATTACTGTA
Found at i:9532881 original size:16 final size:17
Alignment explanation
Indices: 9532860--9532894 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9532850 AAACATCACA
*
9532860 AATTAATTAA-TTTCTC
1 AATTAAATAATTTTCTC
9532876 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
9532893 AA
1 AA
9532895 CCCAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:9532937 original size:20 final size:20
Alignment explanation
Indices: 9532912--9532951 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9532902 TTAATTTCGT
9532912 TAAAATCATGATAACTTTAC
1 TAAAATCATGATAACTTTAC
9532932 TAAAATCATGATAACTTTAC
1 TAAAATCATGATAACTTTAC
9532952 CGTAAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (20 bp):
TAAAATCATGATAACTTTAC
Found at i:9536365 original size:16 final size:16
Alignment explanation
Indices: 9536344--9536379 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
9536334 TTTGGTTCGC
9536344 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9536360 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9536376 TGTA
1 TGTA
9536380 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9536448 original size:44 final size:45
Alignment explanation
Indices: 9536360--9536473 Score: 114
Period size: 45 Copynumber: 2.6 Consensus size: 45
9536350 GGATTAGAGG
* * *
9536360 TGTATTGGATTAGAGGTGTAATAGCTAATCCATTGTTTGATTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCATTGTTTGATTGAA
* **
9536405 TGTAATGGAATAGAGGCGTAATAG-TAAT-C-TTG--TGTTTGGT
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCATTGTTTGATTGAA
*
9536445 TG-AATGGAATAGAGGTGTAATAGCATAAT
1 TGTAATGGAATAGAGGCGTAATAGC-TAAT
9536474 GGAAAAAACT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
39 20 0.33
40 7 0.12
41 4 0.07
42 3 0.05
43 1 0.02
44 4 0.07
45 21 0.35
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCATTGTTTGATTGAA
Found at i:9536636 original size:18 final size:17
Alignment explanation
Indices: 9536615--9536649 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9536605 TTATTATTAA
*
9536615 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9536633 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9536650 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9536695 original size:61 final size:61
Alignment explanation
Indices: 9536630--9536817 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
9536620 TTTTAATTAA
9536630 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATCAT
* * * * * * * * *
9536691 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATAAATTTACTCA-AATCAT
* *
9536750 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATCAT
9536811 AATATAT
1 AATATAT
9536818 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 31 0.32
60 23 0.24
61 37 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATCAT
Found at i:9536748 original size:120 final size:121
Alignment explanation
Indices: 9536598--9536890 Score: 509
Period size: 120 Copynumber: 2.4 Consensus size: 121
9536588 ATCATATTTA
9536598 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
9536663 TATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
9536718 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
9536783 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
9536839 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
9536891 TAAAATAATT
Statistics
Matches: 164, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 162 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:9536763 original size:14 final size:15
Alignment explanation
Indices: 9536714--9536765 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9536704 ATAAAATATA
9536714 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
9536729 TATTAAATATATTAT
1 AATTAAATATATTAT
9536744 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
9536757 AATTTAATA
1 AATTAAATA
9536766 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:9536937 original size:101 final size:93
Alignment explanation
Indices: 9536831--9537113 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
9536821 ACTATAAAAG
* * * *
9536831 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
9536895 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
9536932 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
9536995 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
9537023 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
9537086 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
9537114 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:9536960 original size:26 final size:28
Alignment explanation
Indices: 9536931--9536991 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
9536921 TATGAATTTG
*
9536931 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
9536957 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
9536985 TAAAATT
1 TATAATT
9536992 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:9536989 original size:47 final size:46
Alignment explanation
Indices: 9536938--9537081 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
9536928 TTGTATAATT
9536938 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
9536985 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
9537029 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
9537076 TAAAAT
1 TAAAAT
9537082 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:9537001 original size:91 final size:90
Alignment explanation
Indices: 9536906--9537113 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
9536896 TAATTATAAC
* * * *
9536906 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
9536971 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
9536997 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
9537062 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
9537088 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
9537114 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:9537073 original size:44 final size:43
Alignment explanation
Indices: 9536931--9537073 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
9536921 TATGAATTTG
* *
9536931 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
9536975 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
9537022 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
9537066 TATAATTT
1 TATAATTT
9537074 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:9537088 original size:47 final size:47
Alignment explanation
Indices: 9536956--9537094 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
9536946 TTATTATTAC
* *
9536956 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
9537003 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
9537047 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
9537094 A
1 A
9537095 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:9553848 original size:29 final size:30
Alignment explanation
Indices: 9553776--9553849 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
9553766 TTAAGGTGTT
* * * *
9553776 TCAGGCACTATGTGCCGGTGGTTATAGTTA
1 TCAGGCACTATGTACAGGTGGTTACAATTA
* * *
9553806 CCAGGTACTTTGTACAGGT-GTTACAATTA
1 TCAGGCACTATGTACAGGTGGTTACAATTA
9553835 TCAGGCACTATGTAC
1 TCAGGCACTATGTAC
9553850 TAGTGGTGGA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
29 20 0.59
30 14 0.41
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (30 bp):
TCAGGCACTATGTACAGGTGGTTACAATTA
Found at i:9557258 original size:24 final size:24
Alignment explanation
Indices: 9557231--9557276 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
9557221 CCTATAACGG
*
9557231 GTAGCTCTAAAGAGCAATTAATGT
1 GTAGCTCCAAAGAGCAATTAATGT
*
9557255 GTAGCTCCGAAGAGCAATTAAT
1 GTAGCTCCAAAGAGCAATTAAT
9557277 TAGGAAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (24 bp):
GTAGCTCCAAAGAGCAATTAATGT
Found at i:9560393 original size:64 final size:64
Alignment explanation
Indices: 9560266--9560394 Score: 141
Period size: 64 Copynumber: 2.0 Consensus size: 64
9560256 CAAGCATCTC
* * * * * * * * ***
9560266 GATCGGTATTGATCTTGCATGTGTTGCGGACATGCCGTAACTTTTTGTGAGCATCCTGTTATAT
1 GATCGGTATTGATCCTACATATATTGCAGACATACCGCAACTTTTTATGAGCATCCCAATATAT
* *
9560330 GATCGGTATTGATCCTACATATATTGCAGACATACCGCAGCTTTTTATGAGCGTCCCAATATAT
1 GATCGGTATTGATCCTACATATATTGCAGACATACCGCAACTTTTTATGAGCATCCCAATATAT
9560394 G
1 G
9560395 GCTCTTCATG
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (64 bp):
GATCGGTATTGATCCTACATATATTGCAGACATACCGCAACTTTTTATGAGCATCCCAATATAT
Found at i:9565057 original size:15 final size:15
Alignment explanation
Indices: 9565037--9565065 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9565027 GTGAGATATG
9565037 AGAACTTTGAAAAAT
1 AGAACTTTGAAAAAT
9565052 AGAACTTTGAAAAA
1 AGAACTTTGAAAAA
9565066 AACCATGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (15 bp):
AGAACTTTGAAAAAT
Found at i:9568334 original size:5 final size:5
Alignment explanation
Indices: 9568324--9568352 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
9568314 AATTGTCATC
9568324 AATTA AATTA AATTA AATTA AATTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATT
9568353 GAATAGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTA
Found at i:9568958 original size:24 final size:24
Alignment explanation
Indices: 9568912--9568959 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9568902 TTCCCAATAT
*
9568912 ATGGCTATTCGGAGCTTCCCGTTA
1 ATGGCTATTCGGAGCTACCCGTTA
* *
9568936 ATGGCTCTTCGGAGCTACTCGTTA
1 ATGGCTATTCGGAGCTACCCGTTA
9568960 TAAGCTCGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (24 bp):
ATGGCTATTCGGAGCTACCCGTTA
Found at i:9570588 original size:21 final size:21
Alignment explanation
Indices: 9570562--9570621 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
9570552 TGGGTGGATT
9570562 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* *
9570583 AGCTCTTATGAGCTTTTGTTC
1 AGCTCTTACGAGCTTCTGTTC
*
9570604 AGCT-TT-CAAGCTTCTGTT
1 AGCTCTTACGAGCTTCTGTT
9570622 AGCGTATTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 9 0.26
20 2 0.06
21 23 0.68
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.43
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:9591812 original size:20 final size:21
Alignment explanation
Indices: 9591778--9591817 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9591768 GTCATTTGTC
*
9591778 AAATAAAAGATAAATTAGTTA
1 AAATAAAAGACAAATTAGTTA
9591799 AAAT-AAAGACAAATTAGTT
1 AAATAAAAGACAAATTAGTT
9591818 GTCATTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.28
Consensus pattern (21 bp):
AAATAAAAGACAAATTAGTTA
Found at i:9592792 original size:43 final size:44
Alignment explanation
Indices: 9592687--9592792 Score: 105
Period size: 44 Copynumber: 2.4 Consensus size: 44
9592677 TGTGTTATCG
* * *
9592687 TGTAAGACCACGTCTAGGACGTTGGCAGCGACTTGTGATTTACG
1 TGTAAGACCACGTCTGGGAAGTTGGCAGCGACTTGTGATTTACA
*
9592731 TGTAAGACC-CTGTTTGGGATAG-TGGCA-CTGA-TATGTGA-TTACA
1 TGTAAGACCAC-GTCTGGGA-AGTTGGCAGC-GACT-TGTGATTTACA
9592774 TGTAAGACCACGTCTGGGA
1 TGTAAGACCACGTCTGGGA
9592793 CGATGGCGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
43 23 0.44
44 28 0.54
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGAAGTTGGCAGCGACTTGTGATTTACA
Found at i:9614615 original size:20 final size:22
Alignment explanation
Indices: 9614585--9614627 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
9614575 TCTAGAAAAT
9614585 TATACTTTTT-AAATTAATTTA
1 TATACTTTTTAAAATTAATTTA
9614606 TATA-TTTTTAAAATTAATTTA
1 TATACTTTTTAAAATTAATTTA
9614627 T
1 T
9614628 GTCTGACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TATACTTTTTAAAATTAATTTA
Found at i:9617440 original size:43 final size:42
Alignment explanation
Indices: 9617291--9617494 Score: 261
Period size: 42 Copynumber: 4.8 Consensus size: 42
9617281 GTTTTCAAAT
* * * *
9617291 AAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTAG-G
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
9617332 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGACGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
9617374 CAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
9617416 AAGAAACGCCGCTAAAGAAAATGTTCTTTAGCGGCGCTTTA-AA
1 AA-AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TTAGAA
* * *
9617459 AGAAATGCCGCTAAAG-ACAATGCTCTTTTAGCGGCG
1 AAAAACGCCGCTAAAGAAC-ATGTTC-TTTAGCGGCG
9617495 TTTATTCTTA
Statistics
Matches: 145, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
41 37 0.26
42 59 0.41
43 46 0.32
44 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:9617448 original size:85 final size:82
Alignment explanation
Indices: 9617291--9617494 Score: 259
Period size: 85 Copynumber: 2.4 Consensus size: 82
9617281 GTTTTCAAAT
* * * * *
9617291 AAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTAGGAAAAACGCCGCTAAAGAACATGTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGAAAATGTT
9617356 CTTTAGCGACGC-TTAGA
66 CTTTAGCGACGCTTTA-A
9617373 ACAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAGAAACGCCGCTAAAGAAAAT
1 A-AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AAA-AAACGCCGCTAAAGAAAAT
*
9617438 GTTCTTTAGCGGCGCTTTAA
63 GTTCTTTAGCGACGCTTTAA
* *
9617458 AAGAAATGCCGCTAAAG-ACAATGCTCTTTTAGCGGCG
1 AA-AAACGCCGCTAAAGAAC-ATGTTC-TTTAGCGGCG
9617495 TTTATTCTTA
Statistics
Matches: 107, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
82 1 0.01
83 36 0.34
84 5 0.05
85 52 0.49
86 13 0.12
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGAAAATGTT
CTTTAGCGACGCTTTAA
Found at i:9617511 original size:85 final size:82
Alignment explanation
Indices: 9617291--9617533 Score: 253
Period size: 85 Copynumber: 2.9 Consensus size: 82
9617281 GTTTTCAAAT
* **
9617291 AAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTAGGAAAAACGCCGCTAAAGAACATGTT
1 AAAA-CGCCGCTAAAGACAATGTTCTTTAGCGGCGTTTAAAAAAAACGCCGCTAAAGAA-ATGTT
*
9617356 CTTTAGCGACGCTTAGAAC
64 CTTTAGCGGCGCTTAGAAC
*
9617375 AAAACGCCGCTAAAGA-ACATGTTCTTTAGCGGCGCTTAGAAAAGAAACGCCGCTAAAGAAAATG
1 AAAACGCCGCTAAAGACA-ATGTTCTTTAGCGGCGTTTA-AAAA-AAACGCCGCTAAAG-AAATG
9617439 TTCTTTAGCGGCGCTTTA-AA-
62 TTCTTTAGCGGCGC-TTAGAAC
* * **** *
9617459 AGAAATGCCGCTAAAGACAATGCTCTTTTAGCGGCGTTTATTCTTAAGCGCCGCTAAAG--ATGT
1 A-AAACGCCGCTAAAGACAATGTTC-TTTAGCGGCGTTTA-AAAAAAACGCCGCTAAAGAAATGT
9617522 TCTTTAGCGGCG
63 TCTTTAGCGGCG
9617534 TTTTTGTAAA
Statistics
Matches: 137, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
82 16 0.12
83 31 0.23
84 7 0.05
85 64 0.47
86 19 0.14
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (82 bp):
AAAACGCCGCTAAAGACAATGTTCTTTAGCGGCGTTTAAAAAAAACGCCGCTAAAGAAATGTTCT
TTAGCGGCGCTTAGAAC
Found at i:9617884 original size:21 final size:21
Alignment explanation
Indices: 9617858--9617906 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
9617848 GGCCTGCTCG
*
9617858 GCTTCTCTTGCTGCAGCTTCT
1 GCTTCTCTCGCTGCAGCTTCT
9617879 GCTTCTCTCGCTGCAGCTTCT
1 GCTTCTCTCGCTGCAGCTTCT
9617900 GCTTCTC
1 GCTTCTC
9617907 GCACTGTCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.37, G:0.18, T:0.41
Consensus pattern (21 bp):
GCTTCTCTCGCTGCAGCTTCT
Found at i:9623477 original size:9 final size:9
Alignment explanation
Indices: 9623465--9623672 Score: 130
Period size: 9 Copynumber: 23.8 Consensus size: 9
9623455 TGTACATGTA
9623465 TAAGTTATG
1 TAAGTTATG
9623474 TAAGTTATG
1 TAAGTTATG
*
9623483 T-AG-TAAG
1 TAAGTTATG
* *
9623490 TAAGCTATT
1 TAAGTTATG
*
9623499 TAAGTTGTG
1 TAAGTTATG
9623508 T-AG-TATG
1 TAAGTTATG
9623515 TAAGTTATG
1 TAAGTTATG
* *
9623524 TAAGTTTTC
1 TAAGTTATG
* *
9623533 AAAGTAATG
1 TAAGTTATG
*
9623542 TATGTTATG
1 TAAGTTATG
9623551 TAAG-T-TG
1 TAAGTTATG
9623558 TAAGTTAT-
1 TAAGTTATG
*
9623566 TATGTATTATG
1 TAAG--TTATG
*
9623577 TAGGTTATG
1 TAAGTTATG
9623586 TAAGTTATG
1 TAAGTTATG
*
9623595 TAAGTTTTG
1 TAAGTTATG
*
9623604 T-A-TTATT
1 TAAGTTATG
*
9623611 TAAGTTGTG
1 TAAGTTATG
9623620 TAAGTTATG
1 TAAGTTATG
* * *
9623629 GATGCTATG
1 TAAGTTATG
*
9623638 TAAGTAATG
1 TAAGTTATG
*
9623647 TGTA-TTATG
1 T-AAGTTATG
*
9623656 TAAGCTTATA
1 TAAG-TTATG
9623666 TAAGTTA
1 TAAGTTA
9623673 ATATGTAACT
Statistics
Matches: 148, Mismatches: 37, Indels: 28
0.69 0.17 0.13
Matches are distributed among these distances:
7 18 0.12
8 16 0.11
9 98 0.66
10 13 0.09
11 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:9623502 original size:25 final size:25
Alignment explanation
Indices: 9623465--9623628 Score: 101
Period size: 25 Copynumber: 6.7 Consensus size: 25
9623455 TGTACATGTA
9623465 TAAGTTATGTAAGTTATGTAGTAAG
1 TAAGTTATGTAAGTTATGTAGTAAG
* * * *
9623490 TAAGCTATTTAAGTTGTGTAGTATG
1 TAAGTTATGTAAGTTATGTAGTAAG
* **
9623515 TAAGTTATGTAAGTTTTCAAAGTAATG
1 TAAGTTATGTAAGTTAT-GTAGTAA-G
*
9623542 TATGTTATGTAAG---T-T-GTAAG
1 TAAGTTATGTAAGTTATGTAGTAAG
* *
9623562 TTA-TTATGT-A-TTATGTAGGTTATG
1 TAAGTTATGTAAGTTATGTA-G-TAAG
* * **
9623586 TAAGTTATGTAAGTTTTGTATTATT
1 TAAGTTATGTAAGTTATGTAGTAAG
*
9623611 TAAGTTGTGTAAGTTATG
1 TAAGTTATGTAAGTTATG
9623629 GATGCTATGT
Statistics
Matches: 106, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
18 1 0.01
19 6 0.06
20 3 0.03
21 5 0.05
23 1 0.01
24 6 0.06
25 60 0.57
26 5 0.05
27 19 0.18
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTAAGTTATGTAGTAAG
Found at i:9623755 original size:16 final size:16
Alignment explanation
Indices: 9623713--9623755 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
9623703 TTTGAGAATT
* *
9623713 TTATATAAGTCATGTA
1 TTATGTAAGTTATGTA
9623729 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
9623745 TTATGTAAGTT
1 TTATGTAAGTT
9623756 TAATAAGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:9624003 original size:42 final size:42
Alignment explanation
Indices: 9623950--9624072 Score: 145
Period size: 42 Copynumber: 3.1 Consensus size: 42
9623940 AATATATATT
9623950 TAAGTAATGTAAGATATCAATTTTAAAATATATATTCATTAA
1 TAAGTAATGTAAGATATCAATTTTAAAATATATATTCATTAA
** * * *
9623992 TAAGTCGTGTAAAATAT--A-CTTAATA-ATATA-T-ATT--
1 TAAGTAATGTAAGATATCAATTTTAAAATATATATTCATTAA
9624026 TAAGTAATGTAAGATATCAATTTTAAAATATATATTCATTAA
1 TAAGTAATGTAAGATATCAATTTTAAAATATATATTCATTAA
9624068 TAAGT
1 TAAGT
9624073 TAAATGAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
34 14 0.22
36 4 0.06
37 6 0.10
38 10 0.16
39 6 0.10
40 4 0.06
42 19 0.30
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (42 bp):
TAAGTAATGTAAGATATCAATTTTAAAATATATATTCATTAA
Found at i:9624009 original size:76 final size:76
Alignment explanation
Indices: 9623843--9624072 Score: 421
Period size: 76 Copynumber: 3.1 Consensus size: 76
9623833 GTAAGTAATG
*
9623843 TAAGTCATGTAAAATGTACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATA-
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
9623907 ATA-T-ATTAA
66 ATATTCATTAA
9623916 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
9623981 ATATTCATTAA
66 ATATTCATTAA
*
9623992 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
9624057 ATATTCATTAA
66 ATATTCATTAA
9624068 TAAGT
1 TAAGT
9624073 TAAATGAAAT
Statistics
Matches: 152, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
73 63 0.41
74 3 0.02
75 1 0.01
76 85 0.56
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (76 bp):
TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
ATATTCATTAA
Found at i:9624349 original size:16 final size:16
Alignment explanation
Indices: 9624328--9624363 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9624318 ATTAATTGAA
*
9624328 ATAAAATTGTAAATCG
1 ATAAAATTGCAAATCG
9624344 ATAAAATTGCAAATCG
1 ATAAAATTGCAAATCG
9624360 ATAA
1 ATAA
9624364 TTATAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (16 bp):
ATAAAATTGCAAATCG
Found at i:9626428 original size:44 final size:44
Alignment explanation
Indices: 9626344--9626429 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
9626334 ACATATCCAA
* **
9626344 TTGCGGCGTTTTAAGCAAAGCGCCACAAAATGTAGGTCAAAAAT
1 TTGCGGCGTTTTAAGCAAAGCGCCACAAAATATAACTCAAAAAT
* * *
9626388 TTGCGGCGTTTTATA-CTAAGCGCCACTAACTATAACTCAAAA
1 TTGCGGCGTTTTA-AGCAAAGCGCCACAAAATATAACTCAAAA
9626430 CGTGGTCGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (44 bp):
TTGCGGCGTTTTAAGCAAAGCGCCACAAAATATAACTCAAAAAT
Found at i:9627011 original size:7 final size:7
Alignment explanation
Indices: 9626976--9627023 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
9626966 CTTAAAAACC
9626976 AAACCCT
1 AAACCCT
*
9626983 AATCCCT
1 AAACCCT
9626990 AAACCAC-
1 AAACC-CT
9626997 AAACCCT
1 AAACCCT
*
9627004 AAATCCT
1 AAACCCT
9627011 AAACCCT
1 AAACCCT
9627018 AAACCC
1 AAACCC
9627024 CAAAACCCCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 1 0.03
7 33 0.94
8 1 0.03
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:9628531 original size:114 final size:114
Alignment explanation
Indices: 9628098--9628519 Score: 772
Period size: 114 Copynumber: 3.7 Consensus size: 114
9628088 CCGCTAGTAC
* *
9628098 TATACTTCAGCGGCGTTTTTAACCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
*
9628163 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAATGCCGCTGATGA
66 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
9628212 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
* *
9628277 CGTTTTGGTTAAGATGATTTGCGGCGCATCAGACAAACGCCACTGATGA
66 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
*
9628326 TATACTTTAGCGGCGTTTTTAATCAAGTGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
*
9628391 CGTTTTGGTTAAGATGATTTGCGGCGCGTCCGACAAACGCCGCTGATGA
66 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
*
9628440 TATACTTTAGCGGCGTTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
9628505 CGTTTTGGTTAAGAT
66 CGTTTTGGTTAAGAT
9628520 ATCTAGAGGC
Statistics
Matches: 297, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 297 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (114 bp):
TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
Found at i:9628784 original size:114 final size:114
Alignment explanation
Indices: 9628088--9628802 Score: 722
Period size: 114 Copynumber: 6.3 Consensus size: 114
9628078 CGTAAAAGCC
* * *
9628088 CCGCTAGT-ACTATACTTCAGCGGCGTTTTTAACCAAGCGCCACTAATTCTAATACTCCTAAAGA
1 CCGCTAATGACTATACTTTAGCGGCGTTTTTAA-TAAGCGCCACTAATTCTAATACTCCTAAAGA
* * *
9628152 CCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAATG
65 CCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCTTCCCACAAACG
*
9628202 CCGCTGATGA-TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGA
1 CCGCTAATGACTATACTTTAGCGGCGTTTTTAAT-AAGCGCCACTAATTCTAATACTCCTAAAGA
* **
9628266 CCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCATCAGACAAACG
65 CCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCTTCCCACAAACG
* * *
9628316 CCACTGATGA-TATACTTTAGCGGCGTTTTTAATCAAGTGCCACTAATTCTAATACTCCTAAAGA
1 CCGCTAATGACTATACTTTAGCGGCGTTTTTAAT-AAGCGCCACTAATTCTAATACTCCTAAAGA
* *
9628380 CCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCGTCCGACAAACG
65 CCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCTTCCCACAAACG
* *
9628430 CCGCTGATGA-TATACTTTAGCGGCGTTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGA
1 CCGCTAATGACTATACTTTAGCGGCGTTTTTAAT-AAGCGCCACTAATTCTAATACTCCTAAAGA
* *
9628494 CCAAAACTCTGCGTTTTGGTTAAGAT-ATCTAGAGGCGCTTCCCACCAAACG
65 CCAAAACTCTGCGTTTTGGTTAAGATGAT-TTGCGGCGCTTCCCA-CAAACG
* * * *** * * * * *
9628545 CTGCT-ATAACTATCCTTTA-CTGGCGTTTTCCTTAAACGCCACTAATTATAGTA-TACATCAAG
1 CCGCTAATGACTATACTTTAGC-GGCGTTTTTAATAAGCGCCACTAATTCTAATACT-CCTAAAG
*** * * * **** **
9628607 ACCAAAACGGAGCGTTTTGATTAGGAT-ATCTTGCGGCGTTTAATGCTATGCG
64 ACCAAAACTCTGCGTTTTGGTTAAGATGAT-TTGCGGCGCTTCCCAC-AAACG
* * * *
9628659 CCGCTAAT-ACTATACATTAGCGGCGTTTTATTTATAAGCGCCACTAATTGC-AATA-TACATCA
1 CCGCTAATGACTATACTTTAGCGGCG-TTT-TTAATAAGCGCCACTAATT-CTAATACT-CCTAA
* * *
9628721 AGACC-AAACTCTGCGTTTTGGTTAACATCG-TTTGCGGCGCTTCCCATAAGCG
62 AGACCAAAACTCTGCGTTTTGGTTAAGAT-GATTTGCGGCGCTTCCCACAAACG
* **
9628773 CCGCTAAT-ACTATACATTATTGGCGTTTTT
1 CCGCTAATGACTATACTTTAGCGGCGTTTTT
9628803 TCGTAAGCGC
Statistics
Matches: 520, Mismatches: 66, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
112 2 0.00
113 7 0.01
114 419 0.81
115 61 0.12
116 31 0.06
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (114 bp):
CCGCTAATGACTATACTTTAGCGGCGTTTTTAATAAGCGCCACTAATTCTAATACTCCTAAAGAC
CAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCTTCCCACAAACG
Found at i:9629232 original size:30 final size:27
Alignment explanation
Indices: 9629198--9629261 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 27
9629188 CTTCTGGGAT
*
9629198 AATGTCATATTTGGCATCTATATTTTTATA
1 AATGTCA-ATGTGGCATCTATA-TTTTA-A
*
9629228 AATGTTCAATGTGGTATCTATATTTTAA
1 AATG-TCAATGTGGCATCTATATTTTAA
9629256 AATGTC
1 AATGTC
9629262 TGATGTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 2 0.06
28 5 0.16
29 5 0.16
30 16 0.52
31 3 0.10
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (27 bp):
AATGTCAATGTGGCATCTATATTTTAA
Found at i:9629951 original size:41 final size:42
Alignment explanation
Indices: 9629894--9629975 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 42
9629884 TATTGCACAT
**
9629894 GTAAAAAGGTTAGTATAT-ATTATATTACAAAGTCTAAAATG
1 GTAAAAAAATTAGTATATAATTATATTACAAAGTCTAAAATG
* *
9629935 GTAAAAAAATTAGTATATACATTATATTATAAGGTCTAAAA
1 GTAAAAAAATTAGTATATA-ATTATATTACAAAGTCTAAAA
9629976 CAAAAGTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 16 0.46
43 19 0.54
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (42 bp):
GTAAAAAAATTAGTATATAATTATATTACAAAGTCTAAAATG
Found at i:9632463 original size:76 final size:73
Alignment explanation
Indices: 9632360--9632551 Score: 242
Period size: 75 Copynumber: 2.6 Consensus size: 73
9632350 CATGGGCATA
* * * * *
9632360 AAAAAAATCTTAATTTTAAAAAAATTAAACTCTTATTTTTTATTCAATTTTGTATTTAAATTTTT
1 AAAAAATTCTTAAATTAAAAAAAATTAAACTCTTATTTTTTATT-AATTTTATATTTAAA-ATTT
9632425 ATAATGTATT
64 ATAATGTATT
*
9632435 AAAAAATTCTTAAATTAAAACAAAATTAAACTCTTATTTTCTATTAATTTTATATTTAAAATTTA
1 AAAAAATTCTTAAATTAAAA-AAAATTAAACTCTTATTTTTTATTAATTTTATATTTAAAATTTA
9632500 TAATGTATT
65 TAATGTATT
* * *
9632509 -AAAAATTATTGAATTAAAAAAAACAATTAAACTCTTACTTTTT
1 AAAAAATTCTTAAATT--AAAAAA-AATTAAACTCTTATTTTTT
9632552 CTTTTTGACT
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
73 13 0.13
74 15 0.15
75 52 0.50
76 23 0.22
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (73 bp):
AAAAAATTCTTAAATTAAAAAAAATTAAACTCTTATTTTTTATTAATTTTATATTTAAAATTTAT
AATGTATT
Found at i:9638875 original size:31 final size:31
Alignment explanation
Indices: 9638837--9638902 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
9638827 TTACCCTCAA
9638837 CTTTACCCAAACCACTTTGGTTCCATGTTCC
1 CTTTACCCAAACCACTTTGGTTCCATGTTCC
9638868 CTTTACCCAAACCACTTTGGTTCCATGTTCC
1 CTTTACCCAAACCACTTTGGTTCCATGTTCC
9638899 CTTT
1 CTTT
9638903 CTCTCTTCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.18, C:0.35, G:0.09, T:0.38
Consensus pattern (31 bp):
CTTTACCCAAACCACTTTGGTTCCATGTTCC
Found at i:9640489 original size:26 final size:26
Alignment explanation
Indices: 9640460--9640515 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 26
9640450 TTTCTTGGAA
*
9640460 TAAGGTTCATCTCCTTAATTCCCAAT
1 TAAGGTTCATCTCCCTAATTCCCAAT
9640486 TAA-GTTCATCTCCCTAATTCCCAAT
1 TAAGGTTCATCTCCCTAATTCCCAAT
9640511 TAAGG
1 TAAGG
9640516 AAGGATGCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.36
Consensus pattern (26 bp):
TAAGGTTCATCTCCCTAATTCCCAAT
Found at i:9648914 original size:127 final size:126
Alignment explanation
Indices: 9648635--9649203 Score: 669
Period size: 126 Copynumber: 4.5 Consensus size: 126
9648625 GATAAAATCA
* * * * * * * * *
9648635 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCCCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGCATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * * *
9648700 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGTAAATAGTTT-AAAAAACGATTT
66 AGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * * *
9648760 AAGCAGCATGCTTTATGAGAAGAATTTGTGAAATCGCGCCTTCGTGGTCGCGCTTTTGTTACAGT
1 AAGCAGCATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * *
9648825 TGGTCCTGGAAGAAATAATTTTGAGTTGACATTTTTGAGCAAATAGTTTAAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTTGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * * * * * *
9648887 AAGCAGGATGCTTTATAAGAAAAATTTGTGAAGTCACTCCCACGTGGACACGCTTTTGCTACAGT
1 AAGCAGCATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGT
** * * * *
9648952 AGGTCCTAAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
66 AGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* *
9649013 AAGCAACATGCTATT-TGAGAAGAATTTGTGAAATCACGCCCTCATGGACGCGCTTTTGCTACAG
1 AAGCAGCATGCT-TTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAG
* *
9649077 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAG--TATAAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * * ** * * *
9649137 TAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCACGTGAATGCGCTTTTGCTACAGT
1 AAGCAGCATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGT
9649202 AG
66 AG
9649204 CATGTTTAGG
Statistics
Matches: 374, Mismatches: 66, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
123 2 0.01
124 64 0.17
125 62 0.17
126 172 0.46
127 74 0.20
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (126 bp):
AAGCAGCATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
Found at i:9649095 original size:252 final size:249
Alignment explanation
Indices: 9648635--9649203 Score: 746
Period size: 252 Copynumber: 2.3 Consensus size: 249
9648625 GATAAAATCA
* * * * * *
9648635 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCCCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGT-CCTCCCACGTGAACGCGCTTTTGCTACAGT
* * * **
9648700 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGTAAATAGTTTAAAAAACGATTTAAGCA
65 AGGTCCTAAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGATGCAAGCA
* * * * * * *
9648765 GCATGCTTTATGAGAAGAATTTGTGAAATCGCGCCTTCGTGGTCGCGCTTTTGTTACAGTTGGTC
130 ACATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCATGGACGCGCTTTTGCTACAGTAGGTC
* *
9648830 CTGGAAGAAATAATTTTGAGTTGACATTTTTGAGCAAATAGTTTAAAAAAACGCTTC
195 CTGGAAGAAATAATTTTGACTTGACATTTCTGAGCAAATAG--TAAAAAAACGCTTC
* * *
9648887 AAGCAGGATGCTTTATAAGAAAAATTTGTGAAGTCACTCCCACGTGGACACGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTC-CTCCCACGTGAACGCGCTTTTGCTACAGT
* * *
9648952 AGGTCCTAAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGC
65 AGGTCCTAAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGATGCAAGC
9649017 AACATGCTATT-TGAGAAGAATTTGTGAAATCACGCCCTCATGGACGCGCTTTTGCTACAGTAGG
129 AACATGCT-TTATGAGAAGAATTTGTGAAATCACGCCCTCATGGACGCGCTTTTGCTACAGTAGG
* * *
9649081 TCCTGGAA-AAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
193 TCCTGGAAGAAATAATTTTGACTTGACATTTCTGAGCAAATAGTAAAAAAACGCTTC
* * * * * *
9649137 TAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCACGTGAATGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCCT-CCCACGTGAACGCGCTTTTGCTACAGT
9649202 AG
65 AG
9649204 CATGTTTAGG
Statistics
Matches: 276, Mismatches: 37, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
249 1 0.00
250 68 0.25
251 1 0.00
252 133 0.48
253 71 0.26
254 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (249 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCCTCCCACGTGAACGCGCTTTTGCTACAGTA
GGTCCTAAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGATGCAAGCAA
CATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCC
TGGAAGAAATAATTTTGACTTGACATTTCTGAGCAAATAGTAAAAAAACGCTTC
Found at i:9652411 original size:113 final size:113
Alignment explanation
Indices: 9652212--9652704 Score: 808
Period size: 113 Copynumber: 4.4 Consensus size: 113
9652202 TATATTTTTT
*
9652212 AATTATTAATTGATAATTGTATTAATTGTGAGTAAAATTATCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAA-TGTTAGTAAAATTATCAAATTATATCAAATTATTAATTG
9652277 TTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAA
65 TTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAA
9652326 AATTATTAATTGATAATTGTATTAATGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGT
1 AATTATTAATTGATAATTGTATTAATGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGT
*
9652391 TAGTACCAGTCAAAATATTTTTCCAAATCTAACATTATGTGAATGTAA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAA
* *
9652439 AATTATTAACTGATAATTGCATTAATGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGT
1 AATTATTAATTGATAATTGTATTAATGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGT
* * *
9652504 TAGTACTAGTCTAAACAATTTTCCAAATCTAACATTATGTGAATGTAA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAA
* *
9652552 AATTATTAACTGATAATTGTATTAATATTAG----A--A--AAA-T-TATCAAATTATTAATTGT
1 AATTATTAATTGATAATTGTATTAATGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGT
*
9652607 TAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAA
*
9652655 AATTATTAATCGATAATTGTATTAATGTTAGTAAAATTATCAAATTATAT
1 AATTATTAATTGATAATTGTATTAATGTTAGTAAAATTATCAAATTATAT
9652705 TTAAGTTAAG
Statistics
Matches: 352, Mismatches: 17, Indels: 21
0.90 0.04 0.05
Matches are distributed among these distances:
103 90 0.26
104 1 0.00
105 3 0.01
107 2 0.01
109 2 0.01
111 3 0.01
112 1 0.00
113 225 0.64
114 25 0.07
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (113 bp):
AATTATTAATTGATAATTGTATTAATGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAA
Found at i:9652778 original size:43 final size:43
Alignment explanation
Indices: 9652704--9653180 Score: 542
Period size: 43 Copynumber: 11.0 Consensus size: 43
9652694 TCAAATTATA
9652704 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGG-TT
* * * *
9652746 TTTAGGTTAAGGGTTTATGGATTTTAATTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTA-GGTT
* * *
9652790 TTTAATTTAAGGGTTTAGGGTTTTAAAGTTAATGG-TTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAG-GTT
*
9652833 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGAAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG-GGTTTA-GGTT
*
9652877 TTT-AGTTAAGGGTTTAGAGTTTTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTA-GGTT
* * *
9652920 TTAAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTTATAAG-T
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TT-TAGGTT
*
9652963 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTT-AGGTT
* * *
9653007 TTAAAGTTAAGGG-TTAGGGTTTTTAAGATAATGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTA-GGTT
* * * * *
9653050 TTAAAGTTAAGGG-TTAAGGTTTTTAGGTTAAGAGGCTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG-GGTTTAGGTT
* *
9653093 TTTAAGTTAAGGGTTTAGGGTTTTTAGGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTA-GGTT
* *
9653137 TTTAATTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTT-AGGTT
9653180 T
1 T
9653181 GTCAATTAAA
Statistics
Matches: 374, Mismatches: 43, Indels: 35
0.83 0.10 0.08
Matches are distributed among these distances:
42 16 0.04
43 228 0.61
44 125 0.33
45 5 0.01
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGTT
Found at i:9652861 original size:130 final size:127
Alignment explanation
Indices: 9652704--9653180 Score: 600
Period size: 130 Copynumber: 3.7 Consensus size: 127
9652694 TCAAATTATA
* * * *
9652704 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGATTTTTAGGTTAAGGGTTTATGGAT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* * * * * *
9652768 TTTAATTTAAGGGTTTATGGTTTTTAATTTAAGGGTTTAGGGTTTTAAAGTTAATGGTTAGAGTT
65 TTTAAGTTAAGGGTTTATGGTTTTAAAGTTAAGGG-TTAGGGTTTTTAGGTTAAAGGTTA-AGTT
* *
9652833 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGAAGTTAGGGTTTTT-AGTTAAGGGTTTAGAGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGT
*
9652897 TTTTAAGTTAAGGGTTTATGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATAAG
64 TTTTAAGTTAAGGGTTTATGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAAGG--T-TAAG
9652962 -T
126 TT
* * *
9652963 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAAGGTTTTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * *
9653028 TTTAAGATAATGGTTTATGGTTTTAAAGTTAAGGGTTAAGGTTTTTAGGTTAAGAGGCTAAGGTT
65 TTTAAGTTAAGGGTTTATGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAA-AGGTTAA-GTT
* * *
9653093 TTTAAGTTAAGGGTTTAGGGTTTTTAGGTTAAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
9653158 TTTAGGTTAAGGGTTTAAGGTTT
65 TTTAAGTTAAGGGTTTATGGTTT
9653181 GTCAATTAAA
Statistics
Matches: 305, Mismatches: 32, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
128 3 0.01
129 33 0.11
130 238 0.78
131 29 0.10
132 2 0.01
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (127 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTT
TTAAGTTAAGGGTTTATGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAAGGTTAAGTT
Found at i:9653189 original size:22 final size:22
Alignment explanation
Indices: 9652704--9653180 Score: 553
Period size: 22 Copynumber: 22.0 Consensus size: 22
9652694 TCAAATTATA
9652704 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
9652725 TTTAAGTTAAGGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
9652746 TTTAGGTTAAGGGTTTATGGAT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
9652768 TTTAATTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
9652790 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
9652812 TTAAAGTTAATGG-TTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
9652833 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
9652855 TTTAAGTTAAGAAG-TTAGGGTT
1 TTTAAGTTAAG-GGTTTAGGGTT
*
9652877 TTT-AGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
9652898 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
9652920 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
9652941 TTTAGGTTAAGGGTTTATAAG-T
1 TTTAAGTTAAGGGTTTA-GGGTT
9652963 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
9652985 TTTAATTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
9653007 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
9653028 TTTAAGATAATGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
9653050 TTAAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
9653071 TTTAGGTTAAGAGG-CTAAGGTT
1 TTTAAGTTAAG-GGTTTAGGGTT
9653093 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
9653115 TTTAGGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
9653137 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
9653158 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
9653180 T
1 T
9653181 GTCAATTAAA
Statistics
Matches: 387, Mismatches: 57, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
20 1 0.00
21 140 0.36
22 244 0.63
23 2 0.01
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:9653752 original size:18 final size:18
Alignment explanation
Indices: 9653726--9653768 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9653716 GACTCGAAAA
* *
9653726 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
9653744 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
9653762 AGGAAAC
1 AGGAAAC
9653769 GCACCTGACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:9654402 original size:7 final size:7
Alignment explanation
Indices: 9654390--9654417 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9654380 ATACATAATG
9654390 CTAAATA
1 CTAAATA
9654397 CTAAATA
1 CTAAATA
9654404 CTAAATA
1 CTAAATA
9654411 CTAAATA
1 CTAAATA
9654418 TCAATCGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (7 bp):
CTAAATA
Found at i:9654624 original size:20 final size:20
Alignment explanation
Indices: 9654587--9654624 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9654577 TTTATTTTTA
*
9654587 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
9654607 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
9654625 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:9655606 original size:51 final size:51
Alignment explanation
Indices: 9655551--9655648 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
9655541 AATTATTTAA
9655551 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
9655602 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
9655649 GAGAAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:9655624 original size:11 final size:11
Alignment explanation
Indices: 9655610--9655686 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
9655600 ATAAATATGG
9655610 ATTTGAGAGAA
1 ATTTGAGAGAA
*
9655621 ATTTTGA-AGGA
1 A-TTTGAGAGAA
9655632 ATTTGAGAGCAA
1 ATTTGAGAG-AA
9655644 A-TTGAGAGAAA
1 ATTTGAGAG-AA
9655655 ATTT-AGAAGAA
1 ATTTGAG-AGAA
9655666 A-TTGAGAGGAA
1 ATTTGAGA-GAA
9655677 ATTTGAGAGA
1 ATTTGAGAGA
9655687 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
10 8 0.15
11 30 0.55
12 17 0.31
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:9655649 original size:33 final size:33
Alignment explanation
Indices: 9655610--9655686 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
9655600 ATAAATATGG
* *
9655610 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAGCAA
*
9655644 A-TTGAGAGAAAATTTAGAAGAAATTGAGAGGAA
1 ATTTGAGAG-AAATTTAGAAGAAATTGAGAGCAA
9655677 ATTTGAGAGA
1 ATTTGAGAGA
9655687 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAGCAA
Found at i:9658589 original size:38 final size:39
Alignment explanation
Indices: 9658532--9658618 Score: 131
Period size: 38 Copynumber: 2.3 Consensus size: 39
9658522 ATTTATTTAA
*
9658532 AGGAGTAGTTTTCTATATTATAGGAAGTAGAAGATGAAT
1 AGGAGTAGTTTTCTATATTATAGGAAGTAGAAGACGAAT
* * *
9658571 AGGAATAGTTTT-TATATTATAGGAAGTAGAGGGCGAAT
1 AGGAGTAGTTTTCTATATTATAGGAAGTAGAAGACGAAT
9658609 AGGAGTAGTT
1 AGGAGTAGTT
9658619 CTCCTATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 32 0.74
39 11 0.26
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (39 bp):
AGGAGTAGTTTTCTATATTATAGGAAGTAGAAGACGAAT
Found at i:9659551 original size:204 final size:204
Alignment explanation
Indices: 9659201--9659608 Score: 816
Period size: 204 Copynumber: 2.0 Consensus size: 204
9659191 TATGAACCTA
9659201 TATTATGTTGTAAGTGTGGCAAGTGTACCTGTAATCTTGGCAAGACTCATGAGAAACGTAGAGAA
1 TATTATGTTGTAAGTGTGGCAAGTGTACCTGTAATCTTGGCAAGACTCATGAGAAACGTAGAGAA
9659266 GAGGAACAACTTCATCAATTTTTGATGGGTTTATATTCGGAGTATTACGGCCAGATTCGGTCAAA
66 GAGGAACAACTTCATCAATTTTTGATGGGTTTATATTCGGAGTATTACGGCCAGATTCGGTCAAA
9659331 TTTGCTATCGCAAAAGCCTTTGCCTAGCCTTAATCGAGCATTTCAATAGATTTTTCAAGATGAAA
131 TTTGCTATCGCAAAAGCCTTTGCCTAGCCTTAATCGAGCATTTCAATAGATTTTTCAAGATGAAA
9659396 GGGTCTGGG
196 GGGTCTGGG
9659405 TATTATGTTGTAAGTGTGGCAAGTGTACCTGTAATCTTGGCAAGACTCATGAGAAACGTAGAGAA
1 TATTATGTTGTAAGTGTGGCAAGTGTACCTGTAATCTTGGCAAGACTCATGAGAAACGTAGAGAA
9659470 GAGGAACAACTTCATCAATTTTTGATGGGTTTATATTCGGAGTATTACGGCCAGATTCGGTCAAA
66 GAGGAACAACTTCATCAATTTTTGATGGGTTTATATTCGGAGTATTACGGCCAGATTCGGTCAAA
9659535 TTTGCTATCGCAAAAGCCTTTGCCTAGCCTTAATCGAGCATTTCAATAGATTTTTCAAGATGAAA
131 TTTGCTATCGCAAAAGCCTTTGCCTAGCCTTAATCGAGCATTTCAATAGATTTTTCAAGATGAAA
9659600 GGGTCTGGG
196 GGGTCTGGG
9659609 GAGTTACTTG
Statistics
Matches: 204, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 204 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (204 bp):
TATTATGTTGTAAGTGTGGCAAGTGTACCTGTAATCTTGGCAAGACTCATGAGAAACGTAGAGAA
GAGGAACAACTTCATCAATTTTTGATGGGTTTATATTCGGAGTATTACGGCCAGATTCGGTCAAA
TTTGCTATCGCAAAAGCCTTTGCCTAGCCTTAATCGAGCATTTCAATAGATTTTTCAAGATGAAA
GGGTCTGGG
Found at i:9664764 original size:80 final size:81
Alignment explanation
Indices: 9664672--9664830 Score: 293
Period size: 81 Copynumber: 2.0 Consensus size: 81
9664662 TACTATTCTC
* *
9664672 ATTAATTAAACATACATTTAATAACAAAAA-TTATAACTTCCTTTGATATTAAAGAAAGCTAATT
1 ATTAATTAAACATACATTTAATAAAAAAAATTTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
9664736 CATTCCATATATATAT
66 CATTCCATATATATAT
9664752 ATTAATTAAACATACATTTAATAAAAAAAATTTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
1 ATTAATTAAACATACATTTAATAAAAAAAATTTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
9664817 CATTCCATATATAT
66 CATTCCATATATAT
9664831 TTTTTATTAA
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
80 29 0.38
81 47 0.62
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (81 bp):
ATTAATTAAACATACATTTAATAAAAAAAATTTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
CATTCCATATATATAT
Found at i:9664860 original size:81 final size:80
Alignment explanation
Indices: 9664672--9664850 Score: 238
Period size: 81 Copynumber: 2.3 Consensus size: 80
9664662 TACTATTCTC
** * * *
9664672 ATTAATTAAACATACATTTAATAACAAAAATTATAACTTCCTTTGATATTAAAGAAAGCTAATTC
1 ATTAATTAAACATACAGCTAAAAAAAAAAATTAGAACTTCCTTTGATATTAAAGAAAGCTAATTC
9664737 ATTCCATATATATAT
66 ATTCCATATATATAT
** *
9664752 ATTAATTAAACATACATTTAATAAAAAAAATTTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
1 ATTAATTAAACATACAGCTAA-AAAAAAAAATTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
9664817 CATTCCATATATAT-T
65 CATTCCATATATATAT
* *
9664832 TTTTATTAAA-ATA-AGCTAA
1 ATTAATTAAACATACAGCTAA
9664851 CAACGAAAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 4 0.04
79 3 0.03
80 30 0.33
81 53 0.59
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.38
Consensus pattern (80 bp):
ATTAATTAAACATACAGCTAAAAAAAAAAATTAGAACTTCCTTTGATATTAAAGAAAGCTAATTC
ATTCCATATATATAT
Found at i:9665374 original size:27 final size:27
Alignment explanation
Indices: 9665365--9665497 Score: 185
Period size: 27 Copynumber: 4.9 Consensus size: 27
9665355 CAACGGCAGT
* *
9665365 CAAGGATGGTAACGTGCCAATTCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
* *
9665392 TACGGATGGTAACATGCCAATGCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
9665419 CAAGGATGGTAACATGCCAATGCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
*
9665446 CAAGGATGGTAATATGCCAATGCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
* * **
9665473 CATGGCTGGTAATTTGCCAATGCCA
1 CAAGGATGGTAACATGCCAATGCCA
9665498 ATGCCAATGC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.20
Consensus pattern (27 bp):
CAAGGATGGTAACATGCCAATGCCAGG
Found at i:9669868 original size:30 final size:30
Alignment explanation
Indices: 9669832--9669892 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
9669822 ACTTAGTTAC
9669832 AGGTATATAAGGAAACCCAATAACGGTCTA
1 AGGTATATAAGGAAACCCAATAACGGTCTA
9669862 AGGTATATAAGGAAACCCAATAACGGTCTA
1 AGGTATATAAGGAAACCCAATAACGGTCTA
9669892 A
1 A
9669893 CACCAATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (30 bp):
AGGTATATAAGGAAACCCAATAACGGTCTA
Found at i:9675500 original size:49 final size:48
Alignment explanation
Indices: 9675409--9675505 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 48
9675399 TTTCTTTGCT
* * *
9675409 TAAAAACGCCTAAGTCAGCCTAACTCGCAATGATAACGGATTCAACAG
1 TAAAAACACCTAAGTCAACCTAACTCGCAATGATAAAGGATTCAACAG
* *
9675457 TAAAAACACCTAAGTCAACTTAATCTTGCAATGATAAAGGATTCAACAG
1 TAAAAACACCTAAGTCAACCTAA-CTCGCAATGATAAAGGATTCAACAG
9675506 AATTCCCTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 20 0.47
49 23 0.53
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (48 bp):
TAAAAACACCTAAGTCAACCTAACTCGCAATGATAAAGGATTCAACAG
Found at i:9675739 original size:36 final size:36
Alignment explanation
Indices: 9675699--9675769 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
9675689 ATCAAGGGCT
*
9675699 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
9675735 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
9675770 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:9675740 original size:19 final size:19
Alignment explanation
Indices: 9675716--9675769 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
9675706 AAAGTTGTAT
9675716 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
9675735 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
9675752 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
9675770 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:9675757 original size:17 final size:17
Alignment explanation
Indices: 9675698--9675761 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
9675688 CATCAAGGGC
* *
9675698 TACAATTAAAAGTTGTA
1 TACAATTAGAAGCTGTA
*
9675715 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
9675734 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
9675751 TACAATTAGAA
1 TACAATTAGAA
9675762 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 2 0.05
17 21 0.57
19 11 0.30
20 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Done.