Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 65 of 213
Found at i:17499579 original size:49 final size:49
Alignment explanation
Indices: 17499485--17499579 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
17499475 AATTAGTTCT
* * **
17499485 TTTTTATTGTAATATTTTCAGTTTATTTTAGTTATTTCACCAAAAATCA
1 TTTTTATTATAATATTTTCAGTTTATTTTAGTTATATCAAAAAAAATCA
*
17499534 TTTTTATTATAATCTTTTCAGTTTATTTT-GCTTATATCAAAAAAAA
1 TTTTTATTATAATATTTTCAGTTTATTTTAG-TTATATCAAAAAAAA
17499580 AAAAAAGCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 1 0.03
49 39 0.98
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (49 bp):
TTTTTATTATAATATTTTCAGTTTATTTTAGTTATATCAAAAAAAATCA
Found at i:17502834 original size:21 final size:22
Alignment explanation
Indices: 17502801--17502845 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
17502791 ATCAATACCA
* *
17502801 TTACCATTATCATTCTTAACAT
1 TTACCATTATCATTATCAACAT
*
17502823 TTACCA-TCTCATTATCAACAT
1 TTACCATTATCATTATCAACAT
17502844 TT
1 TT
17502846 TGCTCACCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.44
Consensus pattern (22 bp):
TTACCATTATCATTATCAACAT
Found at i:17509204 original size:12 final size:12
Alignment explanation
Indices: 17509187--17509263 Score: 82
Period size: 12 Copynumber: 6.1 Consensus size: 12
17509177 AAATACAATG
17509187 ATAGTAATAATA
1 ATAGTAATAATA
*
17509199 ATAGTAGTAATA
1 ATAGTAATAATA
* *
17509211 ATACTAACAATA
1 ATAGTAATAATA
17509223 ATAGTAAAGATAATA
1 ATAGT--A-ATAATA
17509238 ATAGTAAATAATA
1 ATAGT-AATAATA
*
17509251 ATAATAATAATA
1 ATAGTAATAATA
17509263 A
1 A
17509264 ATAAACAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
12 32 0.58
13 10 0.18
14 3 0.05
15 10 0.18
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.30
Consensus pattern (12 bp):
ATAGTAATAATA
Found at i:17509275 original size:19 final size:19
Alignment explanation
Indices: 17509234--17509279 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
17509224 TAGTAAAGAT
* *
17509234 AATAATAGTAAATAATAAT
1 AATAATAATAAATAATAAA
17509253 AATAATAATAAATAA-ACAA
1 AATAATAATAAATAATA-AA
17509272 AATAATAA
1 AATAATAA
17509280 AGCGACTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAATAAATAATAAA
Found at i:17509279 original size:3 final size:3
Alignment explanation
Indices: 17509191--17509263 Score: 67
Period size: 3 Copynumber: 24.0 Consensus size: 3
17509181 ACAATGATAG
* * * * *
17509191 TAA TAA TAA TAG TAG TAA TAA TAC TAA CAA TAA TAG TAA -AGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
*
17509236 TAA TAG TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA
17509264 ATAAACAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
2 1 0.02
3 53 0.93
4 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:17510917 original size:44 final size:44
Alignment explanation
Indices: 17510869--17511315 Score: 160
Period size: 44 Copynumber: 10.4 Consensus size: 44
17510859 CTACTGCCAA
* *
17510869 TTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAAC
1 TTCAGGGAGATAAGATTCTTTATTTTAATCTGCTCCACTGTAAC
* * * * *
17510913 TTCAGGGAGATAGGATTATGT-CTTTAATCTGCTCCGCTGTAAC
1 TTCAGGGAGATAAGATTCTTTATTTTAATCTGCTCCACTGTAAC
* * *** * *
17510956 CTCAGGGAGATAAGATCTGCAATT-TTTCGGTCTACTCCGCTGTAAC
1 TTCAGGGAGATAAGAT-T-C-TTTATTTTAATCTGCTCCACTGTAAC
* * * * *** * *
17511002 CTCAGGGAAATAAGA--CCTGA-TGCGATCTACTCTACTGTAAC
1 TTCAGGGAGATAAGATTCTTTATTTTAATCTGCTCCACTGTAAC
* * *
17511043 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-
1 TTCAGGGAGATAAGATTCTTTATTTTAATCTGCTCCACTGTAAC
* * * **
17511086 TCTCAGGGAGATAGGATTAC--TAGCTTCAATCTGCTCTGCTGTAA-
1 T-TCAGGGAGATAAGATT-CTTTA-TTTTAATCTGCTCCACTGTAAC
* **** * *
17511130 TCTCAGGGAGATAAGA-TC-TGA-CACGATCTACTCTACTGTAAC
1 T-TCAGGGAGATAAGATTCTTTATTTTAATCTGCTCCACTGTAAC
* * **** * *
17511172 TTCAGAGAGATAAGA-TC-TGA-CACGATCTACTCTACTGTAAC
1 TTCAGGGAGATAAGATTCTTTATTTTAATCTGCTCCACTGTAAC
* * ** * *
17511213 TTCAGAGAGATAAGA-TCCTTCGTTTAATCCGCTCCACTTTAA-
1 TTCAGGGAGATAAGATTCTTTATTTTAATCTGCTCCACTGTAAC
* * *
17511255 TATCAGGGAGATAGGATTAC--TATCTTCAATCTGCTCCGCTGT-AC
1 T-TCAGGGAGATAAGATT-CTTTAT-TTTAATCTGCTCCACTGTAAC
17511299 TCTCAGGGAGATAAGAT
1 T-TCAGGGAGATAAGAT
17511316 CTGAAATTTT
Statistics
Matches: 313, Mismatches: 71, Indels: 38
0.74 0.17 0.09
Matches are distributed among these distances:
41 101 0.32
42 5 0.02
43 67 0.21
44 106 0.34
45 2 0.01
46 32 0.10
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
TTCAGGGAGATAAGATTCTTTATTTTAATCTGCTCCACTGTAAC
Found at i:17511049 original size:174 final size:174
Alignment explanation
Indices: 17510852--17511360 Score: 655
Period size: 174 Copynumber: 3.0 Consensus size: 174
17510842 CTTGGACGTA
*
17510852 ATCTACTCTACTGCCAA-TTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACT-T
1 ATCTACTCTACTG-TAACTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAA-TAT
*
17510915 CAGGGAGATAGGATTA-TGTCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAAT
64 CAGGGAGATAGGATTACTGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTG-AAT
* **
17510979 TTTTCGGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCG
128 TTTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGACACG
* *
17511026 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAATATCA
* *
17511091 GGGAGATAGGATTACTAG-CTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTGACA--
66 GGGAGATAGGATTACT-GTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGA-ATT
* * * * * *
17511153 ---CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGACACG
129 TTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGACACG
* ** *
17511196 ATCTACTCTACTGTAACTTCAGAGAGATAAGA-TCCTTCGTTTAATCCGCTCCACTTTAATATCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAATATCA
*
17511260 GGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGT-ACTCTCAGGGAGATAAGATCTGAAATT
66 GGGAGATAGGATTACTGTCTTCAATCTGCTCCGCTGTAAC-CTCAGGGAGATAAGATCTG-AATT
** * *
17511324 TTTCGGTCTGTTCCAATGTAATCTCAGGG-AATAAGAC
129 TTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGAC
17511361 TGTATAATGA
Statistics
Matches: 289, Mismatches: 33, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
168 1 0.00
169 80 0.28
170 67 0.23
173 9 0.03
174 91 0.31
175 40 0.14
176 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (174 bp):
ATCTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAATATCA
GGGAGATAGGATTACTGTCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAATTTT
TCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGACACG
Found at i:17511056 original size:41 final size:41
Alignment explanation
Indices: 17510986--17511227 Score: 164
Period size: 41 Copynumber: 5.8 Consensus size: 41
17510976 AATTTTTCGG
** * * * *
17510986 TCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCGA
1 TCTACTCTACTGTAACTTCAGAGAGATAAGACCTGATACGA
* ***
17511027 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCTACTGTAACTTCAGAGAGATAAGA-CC-TGA-TACGA
** * * * * * * *
17511071 TCCGCTCCACTGTAA-TCTCAGGGAGATAGGATTACTAGCTTCAA
1 TCTACTCTACTGTAACT-TCAGAGAGATAAGA--CCT-GATACGA
* * * * *
17511115 TCTGCTCTGCTGTAA-TCTCAGGGAGATAAGATCTGACACGA
1 TCTACTCTACTGTAACT-TCAGAGAGATAAGACCTGATACGA
* *
17511156 TCTACTCTACTGTAACTTCAGAGAGATAAGATCTGACACGA
1 TCTACTCTACTGTAACTTCAGAGAGATAAGACCTGATACGA
17511197 TCTACTCTACTGTAACTTCAGAGAGATAAGA
1 TCTACTCTACTGTAACTTCAGAGAGATAAGA
17511228 TCCTTCGTTT
Statistics
Matches: 164, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
41 96 0.59
42 5 0.03
43 3 0.02
44 58 0.35
45 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (41 bp):
TCTACTCTACTGTAACTTCAGAGAGATAAGACCTGATACGA
Found at i:17511228 original size:41 final size:41
Alignment explanation
Indices: 17511114--17511229 Score: 189
Period size: 41 Copynumber: 2.8 Consensus size: 41
17511104 ACTAGCTTCA
* * *
17511114 ATCTGCTCTGCTGTAA-TCTCAGGGAGATAAGATCTGACACG
1 ATCTACTCTACTGTAACT-TCAGAGAGATAAGATCTGACACG
17511155 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGACACG
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGACACG
17511196 ATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATC
17511230 CTTCGTTTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 70 0.99
42 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (41 bp):
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGACACG
Found at i:17511305 original size:169 final size:170
Alignment explanation
Indices: 17510852--17511319 Score: 624
Period size: 169 Copynumber: 2.7 Consensus size: 170
17510842 CTTGGACGTA
* *
17510852 ATCTACTCTACTGCCAA-TTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTC
1 ATCTACTCTACTG-TAACTTCAGAGAGATAAGA-TCCTTATTTTAATCCGCTCCACTGTAA-TTC
* *
17510916 AGGGAGATAGGATTA-TGTCTTTAATCTGCTCCGCTGTAAC-CTCAGGGAGATAAGATCTG-CAA
63 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGT-ACTCTCAGGGAGATAAGATCTGACAA
* * * **
17510978 TTTTTCGGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCG
127 ----TCGATCTACTCCACTGTAACCTCAGAGAAATAAGACCTGACACG
17511026 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCC-TTATTTTAATCCGCTCCACTGTAAT-TCA
* * *
17511091 GGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTGAC-A-C
64 GGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTACTCTCAGGGAGATAAGATCTGACAATC
* * * *
17511154 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGACACG
129 GATCTACTCCACTGTAACCTCAGAGAAATAAGACCTGACACG
** *
17511196 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCGTTTAATCCGCTCCACTTTAATATCAG
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTATTTTAATCCGCTCCACTGTAAT-TCAG
17511261 GGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTACTCTCAGGGAGATAAGATCTGA
65 GGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTACTCTCAGGGAGATAAGATCTGA
17511320 AATTTTTCGG
Statistics
Matches: 265, Mismatches: 23, Indels: 17
0.87 0.08 0.06
Matches are distributed among these distances:
169 82 0.31
170 69 0.26
173 5 0.02
174 70 0.26
175 38 0.14
176 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (170 bp):
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTATTTTAATCCGCTCCACTGTAATTCAGG
GAGATAGGATTACTATCTTCAATCTGCTCCGCTGTACTCTCAGGGAGATAAGATCTGACAATCGA
TCTACTCCACTGTAACCTCAGAGAAATAAGACCTGACACG
Found at i:17523496 original size:13 final size:13
Alignment explanation
Indices: 17523478--17523507 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17523468 TCAAAACTTG
*
17523478 AAAATAATAATAA
1 AAAATAAAAATAA
17523491 AAAATAAAAATAA
1 AAAATAAAAATAA
17523504 AAAA
1 AAAA
17523508 AGTAAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:17523828 original size:12 final size:12
Alignment explanation
Indices: 17523813--17523892 Score: 79
Period size: 12 Copynumber: 6.3 Consensus size: 12
17523803 AAGTATAAAT
*
17523813 ATAATGATAGTA
1 ATAATAATAGTA
17523825 ATAATAATAGTA
1 ATAATAATAGTA
* *
17523837 GTAATAATACTA
1 ATAATAATAGTA
*
17523849 ACAATAATAGTAAA
1 ATAATAATAGT--A
17523863 GATAATAATAGTAA
1 -ATAATAATAGT-A
*
17523877 ATAATAATAATA
1 ATAATAATAGTA
17523889 ATAA
1 ATAA
17523893 ATAAACAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
12 34 0.60
13 10 0.18
14 3 0.05
15 10 0.18
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.30
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:17523885 original size:16 final size:16
Alignment explanation
Indices: 17523851--17523896 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
17523841 TAATACTAAC
*
17523851 AATAATAGTAAA-GAT
1 AATAATAGTAAATAAT
17523866 AATAATAGTAAATAAT
1 AATAATAGTAAATAAT
*
17523882 AATAATAATAAATAA
1 AATAATAGTAAATAA
17523897 ACAAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (16 bp):
AATAATAGTAAATAAT
Found at i:17523908 original size:3 final size:3
Alignment explanation
Indices: 17523813--17523892 Score: 63
Period size: 3 Copynumber: 26.3 Consensus size: 3
17523803 AAGTATAAAT
* * * * * * *
17523813 ATA ATG ATA GTA ATA ATA ATA GTA GTA ATA ATA CTA ACA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
17523861 A-A GATA ATA ATA GTAA ATA ATA ATA ATA ATA A
1 ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA A
17523893 ATAAACAAAA
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 1 0.02
3 56 0.93
4 3 0.05
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:17528704 original size:50 final size:50
Alignment explanation
Indices: 17528629--17528819 Score: 283
Period size: 50 Copynumber: 3.8 Consensus size: 50
17528619 TTGGGTAAAG
17528629 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAA
* *
17528679 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAA
** * * *
17528729 AGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-A
** *
17528780 ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17528820 TGTTATTATC
Statistics
Matches: 124, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 91 0.73
51 33 0.27
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAA
Found at i:17530427 original size:24 final size:24
Alignment explanation
Indices: 17530395--17530441 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
17530385 GAGAAGCAGA
17530395 AAATTGCTCAAAACAAAAAAAATT
1 AAATTGCTCAAAACAAAAAAAATT
17530419 AAATTGCTCAAAACAAAAAAAAT
1 AAATTGCTCAAAACAAAAAAAAT
17530442 AGGGACCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.64, C:0.13, G:0.04, T:0.19
Consensus pattern (24 bp):
AAATTGCTCAAAACAAAAAAAATT
Found at i:17534685 original size:18 final size:18
Alignment explanation
Indices: 17534664--17534705 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17534654 TTTTCAATTT
17534664 AATTTATACTTAAT-TAAA
1 AATTTATA-TTAATATAAA
*
17534682 AATTTTTATTAATATAAA
1 AATTTATATTAATATAAA
*
17534700 ACTTTA
1 AATTTA
17534706 ATCAAGCACC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTTATATTAATATAAA
Found at i:17540755 original size:17 final size:18
Alignment explanation
Indices: 17540678--17540796 Score: 73
Period size: 19 Copynumber: 6.2 Consensus size: 18
17540668 TATTAATATA
17540678 TTAATATATTTTATAACTTT
1 TTAATAT-TTTTATAA-TTT
* *
17540698 TTAAATAATTTTTA-CATGT
1 TT-AAT-ATTTTTATAATTT
17540717 TTATATAATTTTATAATAATTT
1 TTA-AT-ATTTT-T-ATAATTT
*
17540739 TTAAT-TTTTTGTAA-TT
1 TTAATATTTTTATAATTT
*
17540755 TTCATATTTTTATAATTT
1 TTAATATTTTTATAATTT
*
17540773 TTTATATGTTTATATAATATT
1 TTAATAT-TTT-TATAAT-TT
17540794 TTA
1 TTA
17540797 CAATTTTTGA
Statistics
Matches: 79, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
16 6 0.08
17 11 0.14
18 10 0.13
19 19 0.24
20 10 0.13
21 15 0.19
22 8 0.10
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
TTAATATTTTTATAATTT
Found at i:17540756 original size:9 final size:9
Alignment explanation
Indices: 17540686--17540804 Score: 66
Period size: 9 Copynumber: 12.4 Consensus size: 9
17540676 TATTAATATA
17540686 TTTTATAACT
1 TTTTATAA-T
17540696 TTTTAAATAAT
1 TTTT--ATAAT
*
17540707 TTTTA-CAT
1 TTTTATAAT
17540715 GTTTATATAAT
1 -TTT-TATAAT
17540726 TTTATAATAAT
1 TTT-T-ATAAT
*
17540737 TTTTA-ATT
1 TTTTATAAT
*
17540745 TTTTGTAAT
1 TTTTATAAT
*
17540754 TTTCAT-AT
1 TTTTATAAT
17540762 TTTTATAAT
1 TTTTATAAT
17540771 TTTT-TATAT
1 TTTTATA-AT
17540780 GTTTATATAAT
1 -TTT-TATAAT
*
17540791 ATTTTACAAT
1 -TTTTATAAT
17540801 TTTT
1 TTTT
17540805 GATGACATTT
Statistics
Matches: 87, Mismatches: 10, Indels: 25
0.71 0.08 0.20
Matches are distributed among these distances:
8 17 0.20
9 23 0.26
10 20 0.23
11 21 0.24
12 6 0.07
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:17540774 original size:18 final size:18
Alignment explanation
Indices: 17540732--17540804 Score: 62
Period size: 17 Copynumber: 4.0 Consensus size: 18
17540722 TAATTTTATA
*
17540732 ATAATTTTTAAT-TTTTT
1 ATAATTTTTCATATTTTT
*
17540749 GTAA-TTTTCATATTTTT
1 ATAATTTTTCATATTTTT
*
17540766 ATAATTTTTTATATGTTTAT
1 ATAATTTTTCATAT-TTT-T
17540786 ATAATATTTTACA-ATTTTT
1 ATAAT-TTTT-CATATTTTT
17540805 GATGACATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 6 0.13
17 11 0.24
18 8 0.18
19 4 0.09
20 9 0.20
21 6 0.13
22 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
ATAATTTTTCATATTTTT
Found at i:17540844 original size:23 final size:25
Alignment explanation
Indices: 17540792--17540852 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 25
17540782 TTATATAATA
*
17540792 TTTTACAATTTTTGATGACATTTTTC
1 TTTTACAAATTTTGATGA-ATTTTTC
*
17540818 TTTTACAAATTTT-ATG-ATTTTTG
1 TTTTACAAATTTTGATGAATTTTTC
*
17540841 TTTTATAAATTT
1 TTTTACAAATTT
17540853 GTATTAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.53
25 3 0.09
26 12 0.38
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.61
Consensus pattern (25 bp):
TTTTACAAATTTTGATGAATTTTTC
Found at i:17542159 original size:111 final size:112
Alignment explanation
Indices: 17541995--17542270 Score: 299
Period size: 111 Copynumber: 2.4 Consensus size: 112
17541985 CTGTTGGTTG
* *** *
17541995 CTGCTATTTTG-TGATTCAATTGCTATTTGTTGCTATTCAATTGTTGTTTTTCTTGGCACTTCAT
1 CTGCTATTTTGCT-ATTCAATTGTTGGCTGTTGCTATTCAATTGTTGTTCTTCTTGGCACTTC-T
*
17542059 -TGCAACTACTGACTACTACTATTCATTTGTTGTTTTTCCAGCAAC-TG-
64 CTGCAACTACTGACTACTACTATTCATTTATT-TTTTTCCAGCAACTTGC
*
17542106 CTGCTATTTTTCTATTCAATTGTTGGCTGTTGCTATTCAATTGTTGTTCTTCTTGGCACTTCTCT
1 CTGCTATTTTGCTATTCAATTGTTGGCTGTTGCTATTCAATTGTTGTTCTTCTTGGCACTTCTCT
* * ** * * *
17542171 GCAACTGCTGGCTGTTGCTATTCATTTATTTTTTTTCGGCAACTGTTGCC
66 GCAACTACTGACTACTACTATTCATTTATTTTTTTCCAGCAAC--TTG-C
* * *
17542221 TACTGCTATTTTGCTATTCAATTGTTGGCTGCTACTATTCAATTTTTGTT
1 --CTGCTATTTTGCTATTCAATTGTTGGCTGTTGCTATTCAATTGTTGTT
17542271 TCAAGATAAG
Statistics
Matches: 138, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
110 12 0.09
111 79 0.57
112 1 0.01
113 2 0.01
117 44 0.32
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (112 bp):
CTGCTATTTTGCTATTCAATTGTTGGCTGTTGCTATTCAATTGTTGTTCTTCTTGGCACTTCTCT
GCAACTACTGACTACTACTATTCATTTATTTTTTTCCAGCAACTTGC
Found at i:17546279 original size:40 final size:42
Alignment explanation
Indices: 17546234--17546334 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 42
17546224 TAATCTTCAA
17546234 ATATATGTAATCTTAGATATGA-TATGCAATCTT-AGATATG
1 ATATATGTAATCTTAGATATGATTATGCAATCTTAAGATATG
*
17546274 ATATATGCAATCTTAGATATGATTTATGCAATCTTAGAAGATATG
1 ATATATGTAATCTTAGATATGA-TTATGCAATCTT--AAGATATG
*
17546319 AT-TTTGTAATCTTAGA
1 ATATATGTAATCTTAGA
17546335 GATTTAATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 21 0.40
42 11 0.21
44 12 0.23
45 9 0.17
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.41
Consensus pattern (42 bp):
ATATATGTAATCTTAGATATGATTATGCAATCTTAAGATATG
Found at i:17546281 original size:21 final size:21
Alignment explanation
Indices: 17546234--17546311 Score: 124
Period size: 21 Copynumber: 3.8 Consensus size: 21
17546224 TAATCTTCAA
*
17546234 ATATATGTAATCTTAGATATG
1 ATATATGCAATCTTAGATATG
17546255 --ATATGCAATCTTAGATATG
1 ATATATGCAATCTTAGATATG
17546274 ATATATGCAATCTTAGATATG
1 ATATATGCAATCTTAGATATG
*
17546295 ATTTATGCAATCTTAGA
1 ATATATGCAATCTTAGA
17546312 AGATATGATT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 18 0.34
21 35 0.66
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATATGCAATCTTAGATATG
Found at i:17546320 original size:24 final size:21
Alignment explanation
Indices: 17546237--17546334 Score: 121
Period size: 21 Copynumber: 4.7 Consensus size: 21
17546227 TCTTCAAATA
*
17546237 TATGTAATCTTAGATATGA--
1 TATGCAATCTTAGATATGATT
*
17546256 TATGCAATCTTAGATATGATA
1 TATGCAATCTTAGATATGATT
17546277 TATGCAATCTTAGATATGATT
1 TATGCAATCTTAGATATGATT
17546298 TATGCAATCTTAGAAGATATGATT
1 TATGCAATCTT---AGATATGATT
*
17546322 T-TGTAATCTTAGA
1 TATGCAATCTTAGA
17546335 GATTTAATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
19 18 0.25
20 3 0.04
21 31 0.44
23 8 0.11
24 11 0.15
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (21 bp):
TATGCAATCTTAGATATGATT
Found at i:17546616 original size:3 final size:3
Alignment explanation
Indices: 17546610--17546701 Score: 55
Period size: 3 Copynumber: 30.0 Consensus size: 3
17546600 CTTTTTTTAT
* * * *
17546610 TTA TTA TTTA TTA CTTA TTA TTTA TTT TTA TTA -AA TT- TAA TT- TTC
1 TTA TTA -TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
17546655 TTG TTA TTAA GTTA TTA TTA TTG TTA TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17546702 CTATATATAC
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
2 4 0.06
3 52 0.75
4 11 0.16
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:17546618 original size:7 final size:7
Alignment explanation
Indices: 17546606--17546642 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
17546596 TAGTCTTTTT
17546606 TTATTTA
1 TTATTTA
17546613 TTATTTA
1 TTATTTA
*
17546620 TTACTTA
1 TTATTTA
17546627 TTATTTA
1 TTATTTA
17546634 TT-TTTA
1 TTATTTA
17546640 TTA
1 TTA
17546643 AATTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
TTATTTA
Found at i:17546831 original size:25 final size:27
Alignment explanation
Indices: 17546803--17546856 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
17546793 TATATTATTC
*
17546803 TATTTGCA-TAAC-TTTTATATACATA
1 TATTTACATTAACATTTTATATACATA
*
17546828 TATTTACATTTACATTTTATATACATA
1 TATTTACATTAACATTTTATATACATA
17546855 TA
1 TA
17546857 CATTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.28
26 3 0.12
27 15 0.60
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (27 bp):
TATTTACATTAACATTTTATATACATA
Found at i:17546858 original size:17 final size:17
Alignment explanation
Indices: 17546819--17546862 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
17546809 CATAACTTTT
* *
17546819 ATATACA-TATATTTAC
1 ATATACATTTTATATAC
*
17546835 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
17546852 ATATACATTTT
1 ATATACATTTT
17546863 TTATTTCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:17546985 original size:23 final size:24
Alignment explanation
Indices: 17546939--17546987 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
17546929 TATATGTATG
17546939 TTTTCTTATATTATTCTTCATAAA
1 TTTTCTTATATTATTCTTCATAAA
*
17546963 TTTT-TTATATATATTTTTC-TAAA
1 TTTTCTTATAT-TATTCTTCATAAA
17546986 TT
1 TT
17546988 AATTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTCTTATATTATTCTTCATAAA
Found at i:17547076 original size:28 final size:28
Alignment explanation
Indices: 17547045--17547106 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
17547035 CTAATTATCT
* *
17547045 TTTTTATAATCTATATATATGTATATAA
1 TTTTTATAATATATATACATGTATATAA
* * * *
17547073 TTTTTTTTATATATGTACATGTATATAT
1 TTTTTATAATATATATACATGTATATAA
17547101 TTTTTA
1 TTTTTA
17547107 CCCTTTTTTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (28 bp):
TTTTTATAATATATATACATGTATATAA
Found at i:17547268 original size:18 final size:18
Alignment explanation
Indices: 17547229--17547272 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
17547219 CTTTGCATGT
*
17547229 TATTGATTTATTTTTATT
1 TATTGATTTATTTTTATA
17547247 TATTGATTTATTTGTT-TA
1 TATTGATTTATTT-TTATA
17547265 TATT-ATTT
1 TATTGATTT
17547273 TTATGTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 18 0.75
19 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
TATTGATTTATTTTTATA
Found at i:17551704 original size:22 final size:22
Alignment explanation
Indices: 17551676--17551718 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17551666 CATTTATGAC
17551676 TTAAACACATTCATAATACGAA
1 TTAAACACATTCATAATACGAA
*
17551698 TTAAACACGTTCATAATACGA
1 TTAAACACATTCATAATACGA
17551719 TTCACAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.28
Consensus pattern (22 bp):
TTAAACACATTCATAATACGAA
Found at i:17552041 original size:7 final size:7
Alignment explanation
Indices: 17552029--17552054 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17552019 TTATATCCTG
17552029 CATTTAA
1 CATTTAA
17552036 CATTTAA
1 CATTTAA
17552043 CATTTAA
1 CATTTAA
17552050 CATTT
1 CATTT
17552055 TCCAATCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (7 bp):
CATTTAA
Found at i:17552835 original size:16 final size:16
Alignment explanation
Indices: 17552814--17552844 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17552804 CCTGACTATG
17552814 CCAATTCAATACCATA
1 CCAATTCAATACCATA
17552830 CCAATTCAATACCAT
1 CCAATTCAATACCAT
17552845 TCATATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (16 bp):
CCAATTCAATACCATA
Found at i:17558367 original size:20 final size:20
Alignment explanation
Indices: 17558342--17558381 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17558332 CTAATGTGGT
*
17558342 CCACACAGCCTCACACATGC
1 CCACACAACCTCACACATGC
17558362 CCACACAACCTCACACATGC
1 CCACACAACCTCACACATGC
17558382 TCGTGTGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.50, G:0.07, T:0.10
Consensus pattern (20 bp):
CCACACAACCTCACACATGC
Found at i:17564193 original size:79 final size:79
Alignment explanation
Indices: 17564062--17564223 Score: 306
Period size: 79 Copynumber: 2.1 Consensus size: 79
17564052 CACCACCGTC
*
17564062 TTATGTCATATACAAAAAGTAAAAGTTCAATCTAAATGAAGCATAGTCCATCTTAGTATTCATAT
1 TTATGTCATATACAAAAAGTAAAAGTTCAATCTAAACGAAGCATAGTCCATCTTAGTATTCATAT
17564127 AGGTTTTAAGTCAA
66 AGGTTTTAAGTCAA
*
17564141 TTATGTCATATACAACAAGTAAAAGTTCAATCTAAACGAAGCATAGTCCATCTTAGTATTCATAT
1 TTATGTCATATACAAAAAGTAAAAGTTCAATCTAAACGAAGCATAGTCCATCTTAGTATTCATAT
17564206 AGGTTTTAAGTCAA
66 AGGTTTTAAGTCAA
17564220 TTAT
1 TTAT
17564224 ACTTGTTATT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (79 bp):
TTATGTCATATACAAAAAGTAAAAGTTCAATCTAAACGAAGCATAGTCCATCTTAGTATTCATAT
AGGTTTTAAGTCAA
Found at i:17572576 original size:24 final size:24
Alignment explanation
Indices: 17572543--17572600 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
17572533 AACATATTCT
17572543 CAAGCCAATACAAAACATTCAAGC
1 CAAGCCAATACAAAACATTCAAGC
*
17572567 CAATCCAATACAAAACATTCAAGC
1 CAAGCCAATACAAAACATTCAAGC
17572591 CAAGCCAATA
1 CAAGCCAATA
17572601 TCAAGTCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.50, C:0.29, G:0.07, T:0.14
Consensus pattern (24 bp):
CAAGCCAATACAAAACATTCAAGC
Found at i:17573716 original size:25 final size:25
Alignment explanation
Indices: 17573674--17573721 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
17573664 CTCACAAGAA
*
17573674 CCATATAATGGGAAGCTCGTGAGAG
1 CCATATAATGGGAAGCTCATGAGAG
* **
17573699 CCATATATTGGGGTGCTCATGAG
1 CCATATAATGGGAAGCTCATGAG
17573722 GGCTAATAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (25 bp):
CCATATAATGGGAAGCTCATGAGAG
Found at i:17574844 original size:14 final size:14
Alignment explanation
Indices: 17574825--17574851 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17574815 TGTAATCGGT
17574825 AAAATTTTCTTAAC
1 AAAATTTTCTTAAC
17574839 AAAATTTTCTTAA
1 AAAATTTTCTTAA
17574852 GACATTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATTTTCTTAAC
Found at i:17575686 original size:6 final size:6
Alignment explanation
Indices: 17575675--17575713 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
17575665 ACTTTTTTAA
17575675 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
17575714 TATAATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:17579441 original size:85 final size:83
Alignment explanation
Indices: 17579293--17579448 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 83
17579283 GTGCACTCAC
** * * * *
17579293 AACCTAGTGGCAGTTTGTTTAATTTGCAACCATGTTATATACTTACAACAAGTGTCAATAACTAC
1 AACCTAGTGGCAGTTTGTTTAATCCGCAACCATGTTATACACTCACAACAAGTGACAAGAACTA-
17579358 AAACATGTGGCTCGTTGACA
65 AAA-ATGTGGCTCGTTGACA
* * *
17579378 AACCTAGTGGCAGTTTGTTTAATCCGCAACCATGTTGTGCACTCACAACAAGTGACAGGAACTAA
1 AACCTAGTGGCAGTTTGTTTAATCCGCAACCATGTTATACACTCACAACAAGTGACAAGAACTAA
17579443 AAATGT
66 AAATGT
17579449 TTTTATCTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 4 0.06
84 3 0.05
85 55 0.89
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (83 bp):
AACCTAGTGGCAGTTTGTTTAATCCGCAACCATGTTATACACTCACAACAAGTGACAAGAACTAA
AAATGTGGCTCGTTGACA
Found at i:17590222 original size:50 final size:50
Alignment explanation
Indices: 17590102--17590294 Score: 215
Period size: 50 Copynumber: 3.7 Consensus size: 50
17590092 GGAAATGAGA
* *
17590102 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGATAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* *
17590158 TCCCATGTAAGACCATGTCTGCGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
17590208 TCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
17590258 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17590295 GTACAGAAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 80 0.67
53 3 0.03
55 1 0.01
56 35 0.29
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:17594099 original size:17 final size:17
Alignment explanation
Indices: 17594074--17594114 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
17594064 TCTGGTTATT
17594074 ATTAGTTGCAGGTTAAAG
1 ATTA-TTGCAGGTTAAAG
*
17594092 ATTATTGCGGGTTAAAG
1 ATTATTGCAGGTTAAAG
17594109 ATTATT
1 ATTATT
17594115 CGGCACTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (17 bp):
ATTATTGCAGGTTAAAG
Found at i:17597654 original size:12 final size:12
Alignment explanation
Indices: 17597629--17597667 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17597619 ACTCGCTTCT
* *
17597629 TTACTTACTCAC
1 TTACTTGCTTAC
*
17597641 TTACTTGTTTAC
1 TTACTTGCTTAC
17597653 TTACTTGCTTAC
1 TTACTTGCTTAC
17597665 TTA
1 TTA
17597668 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:17598025 original size:50 final size:52
Alignment explanation
Indices: 17597966--17598112 Score: 190
Period size: 54 Copynumber: 2.8 Consensus size: 52
17597956 TTTATATCGG
* * ** *
17597966 TGCCCATGCCATGTCTCAGACATGGTCTTACGGGGGATCTC-TCATCTC-GA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATAATCTCAGA
* *
17598016 TGCTAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATAATCTC-A-GA
*
17598070 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCTCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCAT
17598113 TCCCTTAATG
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
50 35 0.42
51 6 0.07
54 42 0.51
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (52 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATAATCTCAGA
Found at i:17599461 original size:5 final size:5
Alignment explanation
Indices: 17599454--17599488 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
17599444 TGAAATAGAA
* *
17599454 ATGAA ATGAG ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
17599489 TAATTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (5 bp):
ATGAT
Found at i:17600137 original size:14 final size:16
Alignment explanation
Indices: 17600104--17600140 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17600094 CTAAAATTCC
*
17600104 TCTTTGCAATTCTGTT
1 TCTTTTCAATTCTGTT
17600120 TCTTTTCAATT-T-TT
1 TCTTTTCAATTCTGTT
17600134 TCTTTTC
1 TCTTTTC
17600141 CAAGATTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 10 0.50
ACGTcount: A:0.11, C:0.19, G:0.05, T:0.65
Consensus pattern (16 bp):
TCTTTTCAATTCTGTT
Found at i:17600482 original size:36 final size:36
Alignment explanation
Indices: 17600413--17600483 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
17600403 TTCCCATTAG
* * *
17600413 CACACGGCCGTGTGAAATCATGCAGACTATGTGGGA
1 CACAAGGCCGTGTGAAATCATACAGACCATGTGGGA
* *
17600449 CACAAGGCTGTGTGAAATCATACAGACCGTGTGGG
1 CACAAGGCCGTGTGAAATCATACAGACCATGTGGG
17600484 TAAACCGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (36 bp):
CACAAGGCCGTGTGAAATCATACAGACCATGTGGGA
Found at i:17601815 original size:22 final size:20
Alignment explanation
Indices: 17601782--17601836 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 20
17601772 TTTATTTCTT
*
17601782 AAAATTTCAAAATTAAAAATTA
1 AAAATTT-AAAAATAAAAA-TA
17601804 AAAACTTTAAAAATAAAAATA
1 AAAA-TTTAAAAATAAAAATA
17601825 AAATATTTAAAA
1 AAA-ATTTAAAA
17601837 GTTCTTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 12 0.40
22 15 0.50
23 3 0.10
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATTTAAAAATAAAAATA
Found at i:17601833 original size:21 final size:22
Alignment explanation
Indices: 17601780--17601836 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
17601770 GTTTTATTTC
* *
17601780 TTAAAAT-TTCAAAATTAAAAA
1 TTAAAATATTTAAAAATAAAAA
17601801 TTAAAA-ACTTTAAAAATAAAAA
1 TTAAAATA-TTTAAAAATAAAAA
17601823 -TAAAATATTTAAAA
1 TTAAAATATTTAAAA
17601837 GTTCTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAAAATATTTAAAAATAAAAA
Found at i:17606420 original size:123 final size:124
Alignment explanation
Indices: 17606293--17606546 Score: 361
Period size: 123 Copynumber: 2.1 Consensus size: 124
17606283 AAATAGTGGG
** * * *
17606293 AAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGGCCTCGTGGACGCGATT
* *
17606358 TCGCTACAG-TGGTCATGT-GAGAAATAA-TTTTTTTGACGTTTTCTGAGGAAATAGTATA
66 TCGCTACAGTTGGTCATGTAG-GAAATAATTTTTTTTGACG-TTTCTGAGCAAACAGTATA
* * *
17606416 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGTCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGGCCTCGTGGACGCGATT
* *
17606481 TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAACAGTGTC
66 TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAACAGTATA
17606540 AAATCGC
1 AAATCGC
17606547 GCCCTCGTGG
Statistics
Matches: 116, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
123 66 0.57
124 38 0.33
125 12 0.10
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (124 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGGCCTCGTGGACGCGATT
TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAACAGTATA
Found at i:17607260 original size:41 final size:41
Alignment explanation
Indices: 17607203--17607284 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
17607193 AGCTAGAGAA
17607203 CCGCATCAAGTTCTACTAGATGGCAATCTACATCCAATTGG
1 CCGCATCAAGTTCTACTAGATGGCAATCTACATCCAATTGG
17607244 CCGCATCAAGTTCTACTAGATGGCAATCTACATCCAATTGG
1 CCGCATCAAGTTCTACTAGATGGCAATCTACATCCAATTGG
17607285 GGGCGTTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (41 bp):
CCGCATCAAGTTCTACTAGATGGCAATCTACATCCAATTGG
Found at i:17609844 original size:77 final size:81
Alignment explanation
Indices: 17609759--17610365 Score: 296
Period size: 90 Copynumber: 6.9 Consensus size: 81
17609749 TAATTAGGGT
* * *
17609759 TTTTAATTAAA-TA-G-GGTTAGGGTTTTTAATTTAGTTAAATTAGGTTA-GGTTAATTAATTAA
1 TTTTAATTAAATTAGGTGGTTACGGTTTTTAATTAAATTAAATTAGGTTAGGGTT-ATTAATTAA
17609820 A-TAGGTTAGGGTTTGG
65 ATTAGGTTAGGGTTTGG
** *
17609836 TTTTAATTAAATTAGGTTAGGTTACGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTA
1 TTTTAATTAAATTAGG-T-GGTTACGGTTTTTAATTAAATTAAATTAGGTTAGGGTTATTAATTA
*
17609901 AATTAGGTTAGGGTTAGGG
64 AATTAGGTTAGGGTT-TGG
* * * * *
17609920 TTTTTAATTTAGTTAAATTAGGTTAGGTTATGGTTTTTAATTTAGTTAAATAGGTTTGGGTTTGG
1 -TTTT-A---A-TTAAATTAGG-T-GGTTACGGTTTTTAATTAAATT-AA-A---TTAGGTTAGG
* *
17609985 GTTTTTAATTAAATTAGGTTA-GGTTAGGG
53 GTTATTAATTAAATTAGGTTAGGGTT-TGG
* ** *
17610014 TTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAAT
1 -TTTTAATTAAATTAGG-T-GGTTACGGTTTTTAATTAAATTAAATTA-GGTT-AGG--GTT-A-
* *
17610079 TTAGTTAAATTAGGTTA-GGTTAGGG
57 TTAATTAAATTAGGTTAGGGTT-TGG
* ** ** *
17610104 TTTTTAATTTAATTAAATAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTT
1 -TTTTAA-TT-A--AATTAGG-T--GGTTACGGTTTTTAATTAAATTAAATTAGGTTAGGGTTAT
* * *
17610169 TAATTAAACTAGGGTA-GGTTACGG
58 TAATTAAATTAGGTTAGGGTT-TGG
* **
17610193 TTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 -TTTTAATTAAATTAGG-T-GGTTACGGTTTTTAATTAAATTAAATTA-GGTTAGGG---TT-A-
* *
17610258 TTAGTTAAATTAGGTTA-GGTTAGGG
57 TTAATTAAATTAGGTTAGGGTT-TGG
* ** ** *
17610283 TTTTTAATTTATTTAAATAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTT
1 -TTTTAA-TTA---AATTAGG-T--GGTTACGGTTTTTAATTAAATTAAATTAGGTTAGGGTTAT
17610348 TAATTAAATTAGGTTAGG
58 TAATTAAATTAGGTTAGG
17610366 TTAGGTTAGG
Statistics
Matches: 442, Mismatches: 46, Indels: 71
0.79 0.08 0.13
Matches are distributed among these distances:
77 11 0.02
78 2 0.00
79 1 0.00
82 37 0.08
83 16 0.04
84 31 0.07
85 24 0.05
86 3 0.01
87 1 0.00
88 7 0.02
89 77 0.17
90 93 0.21
91 10 0.02
92 1 0.00
93 4 0.01
94 41 0.09
95 83 0.19
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.47
Consensus pattern (81 bp):
TTTTAATTAAATTAGGTGGTTACGGTTTTTAATTAAATTAAATTAGGTTAGGGTTATTAATTAAA
TTAGGTTAGGGTTTGG
Found at i:17609998 original size:151 final size:150
Alignment explanation
Indices: 17609808--17610370 Score: 874
Period size: 151 Copynumber: 3.8 Consensus size: 150
17609798 TTAGGTTAGG
*
17609808 TTAA-TTAATTAAATAGGTTAGGGTTT-GG-TTTTAATTAAATTAGGTTAGGTTACGGTTTTTAA
1 TTAATTTAATTAAATAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAA
17609870 TTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTTAGTTA
66 TTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAGTTA
*
17609935 AATTAGGTTAGGTTATGGTTT
130 AATTAGGTTAGGTTAGGGTTT
* *
17609956 TTAATTTAGTTAAATAGGTTTGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTAATTTAATTAAATAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAA
*
17610021 TTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTTAGTTA
66 TTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAGTTA
17610086 AATTAGGTTAGGTTAGGGTTT
130 AATTAGGTTAGGTTAGGGTTT
17610107 TTAATTTAATTAAATAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTAATTTAATTAAATAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAA
* * *
17610172 TTAAACTAGGGTAGGTTACGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTT-A---A-TTAA
66 TTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAGTTAA
17610232 ATTAGGTTAGGGTTAGGGTTT
131 ATTAGGTTA-GGTTAGGGTTT
* * * *
17610253 TTAATTTAGTTAAATTAGGTTA-GGTTAGGGTTTTTAATTTATTTAAATAGGTTAGGGTTTGGGT
1 TTAATTTAATTAAA-TAGGTTAGGGTTTGGGTTTTTAA-TTA---AATTAGGTTA-GGTTAGGGT
17610317 TTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGG
60 TTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGG
17610371 TTAGGTTTTT
Statistics
Matches: 387, Mismatches: 18, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
145 13 0.03
146 39 0.10
147 10 0.03
148 4 0.01
149 21 0.05
150 23 0.06
151 277 0.72
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.47
Consensus pattern (150 bp):
TTAATTTAATTAAATAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAA
TTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAGTTAA
ATTAGGTTAGGTTAGGGTTT
Found at i:17610097 original size:179 final size:177
Alignment explanation
Indices: 17609770--17610370 Score: 828
Period size: 179 Copynumber: 3.4 Consensus size: 177
17609760 TTTAATTAAA
* * * ** *
17609770 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTA-GGTTAATTAATTAAA-TAGGTTAGGGTT
1 TAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTT-TTTAATTAAATTAGGTTA-GGTT
* *
17609833 -TGG-TTTTAATTAAATTAGGTTAGGTTACGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTT
64 AGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
* *
17609895 TAA-TTA---AATTAGGTTAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGT
129 TAATTTAGTTAAATA-GTTA-GGTTAGGGTTTTTAATTTAATTAAA-TAGGT
* * *
17609943 TA-GGTTAT-GGTTTTTAATTTAGTTAAATAGGTTTGGGTTTGGGTTTTTAATTAAATTAGGTTA
1 TAGGGTT-TGGGTTTTTAA-TTA---AATTAGG-TTAGGTTAGGGTTTTTAATTAAATTAGGTTA
*
17610006 GGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGG
60 GGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
17610071 TTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGT
125 TTTTTAATTTAGTTAAA-TA-GTTAGGTTAGGGTTTTTAATTTAATTAAATAGGT
* * *
17610126 TAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAACTAGGGTAGGTTAC
1 TAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAG
17610191 GGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
66 GGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
*
17610256 ATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTATTTAAATAGGT
131 ATTTAGTTAAA-TA-GTTAGGTTAGGGTTTTTAATTTAATTAAATAGGT
17610305 TAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAG
1 TAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAG
17610370 G
66 G
17610371 TTAGGTTTTT
Statistics
Matches: 385, Mismatches: 25, Indels: 30
0.88 0.06 0.07
Matches are distributed among these distances:
172 13 0.03
173 4 0.01
176 3 0.01
177 19 0.05
178 13 0.03
179 253 0.66
180 20 0.05
181 3 0.01
183 11 0.03
184 39 0.10
185 7 0.02
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (177 bp):
TAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAG
GGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
ATTTAGTTAAATAGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGT
Found at i:17610382 original size:28 final size:28
Alignment explanation
Indices: 17609752--17610370 Score: 689
Period size: 28 Copynumber: 21.2 Consensus size: 28
17609742 TACAAGTTAA
17609752 TTAGGGTTTTTAATTAAA-TA-G---GG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
* * **
17609775 TTAGGGTTTTTAATTTAGTTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
*
17609803 TTA-GGTTAATTAATTAAA-TAGGTTAGGG
1 TTAGGGTT-TTTAATTAAATTAGGTTA-GG
*
17609831 TT-TGG-TTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
*
17609857 TTACGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17609885 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTA-GG
17609914 TTAGGGTTTTTAATTTAGTTAAATTAGGTTAGG
1 TTAGGGTTTTT-A---A-TTAAATTAGGTTAGG
* * *
17609947 TTATGGTTTTTAATTTAGTTAAATAGGTTTGGG
1 TTAGGGTTTTTAA-TTA---AATTAGG-TTAGG
*
17609980 TTTGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17610008 TTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17610036 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTA-GG
*
17610065 TTAAGGTTTTTAATTTAGTTAAATTAGGTTAGG
1 TTAGGGTTTTT-A---A-TTAAATTAGGTTAGG
*
17610098 TTAGGGTTTTTAATTTAATTAAATAGGTTAGGG
1 TTAGGGTTTTTAA-TT-A--AATTAGGTTA-GG
*
17610131 TTTGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
* *
17610159 TTAGGGTTTTTAATTAAACTAGGGTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
*
17610187 TTACGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17610215 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTA-GG
17610244 TTAGGGTTTTTAATTTAGTTAAATTAGGTTAGG
1 TTAGGGTTTTT-A---A-TTAAATTAGGTTAGG
*
17610277 TTAGGGTTTTTAATTTATTTAAATAGGTTAGGG
1 TTAGGGTTTTTAA-TTA---AATTAGGTTA-GG
*
17610310 TTTGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17610338 TTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17610366 TTAGG
1 TTAGG
17610371 TTAGGTTTTT
Statistics
Matches: 517, Mismatches: 38, Indels: 77
0.82 0.06 0.12
Matches are distributed among these distances:
23 16 0.03
24 2 0.00
26 13 0.03
27 19 0.04
28 232 0.45
29 73 0.14
30 4 0.01
31 1 0.00
32 35 0.07
33 83 0.16
34 39 0.08
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (28 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:17612882 original size:22 final size:21
Alignment explanation
Indices: 17612816--17612883 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 21
17612806 ATTTGAGAGT
*
17612816 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGAAAGG-AA
*
17612838 TTGAGAGAAATTTTGAAGGGAA
1 TTGAGAG-AATTTTGAAAGGAA
17612860 TTGAGAGAATTTTTGAAAGGAA
1 TTGAGAGAA-TTTTGAAAGGAA
17612882 TT
1 TT
17612884 TGTTTTTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 2 0.05
22 29 0.71
23 10 0.24
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAAGGAA
Found at i:17625774 original size:24 final size:24
Alignment explanation
Indices: 17625746--17625796 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
17625736 CCTAAAAAAA
*
17625746 TTTTAATTGTCCATAACCTCATTT
1 TTTTAATTGTCCATAACCCCATTT
*
17625770 TTTTAATTGTCTATAACCCCATTT
1 TTTTAATTGTCCATAACCCCATTT
17625794 TTT
1 TTT
17625797 CTCACAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTTAATTGTCCATAACCCCATTT
Found at i:17626359 original size:14 final size:13
Alignment explanation
Indices: 17626342--17626401 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
17626332 TATTTAATTA
17626342 AATAAATATAATAT
1 AATAAATA-AATAT
*
17626356 AATAAAGTAAATCT
1 AATAAA-TAAATAT
17626370 AATAAAATAAATA-
1 AAT-AAATAAATAT
*
17626383 AGTAAATGAAATA-
1 AATAAAT-AAATAT
17626396 AATAAA
1 AATAAA
17626402 GAAACGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 4 0.10
13 12 0.31
14 18 0.46
15 5 0.13
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (13 bp):
AATAAATAAATAT
Found at i:17626366 original size:19 final size:18
Alignment explanation
Indices: 17626340--17626401 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 18
17626330 AATATTTAAT
*
17626340 TAAATAAATATAATATAA
1 TAAATAAATATAATAAAA
*
17626358 TAAAGTAAATCTAATAAAA
1 TAAA-TAAATATAATAAAA
* *
17626377 TAAATAAGTA-AATGAAA
1 TAAATAAATATAATAAAA
17626394 TAAATAAA
1 TAAATAAA
17626402 GAAACGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 13 0.35
18 8 0.22
19 16 0.43
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (18 bp):
TAAATAAATATAATAAAA
Found at i:17626395 original size:22 final size:22
Alignment explanation
Indices: 17626340--17626401 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
17626330 AATATTTAAT
*
17626340 TAAATAAATATAATATAATAAAG
1 TAAATAAATAAAATA-AATAAAG
*
17626363 TAAATCTAATAAAATAAAT-AAG
1 TAAAT-AAATAAAATAAATAAAG
17626385 TAAATGAAAT-AAATAAA
1 TAAAT-AAATAAAATAAA
17626402 GAAACGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.21
22 11 0.32
23 8 0.24
24 8 0.24
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (22 bp):
TAAATAAATAAAATAAATAAAG
Found at i:17627189 original size:24 final size:26
Alignment explanation
Indices: 17627135--17627189 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
17627125 GTGTTTTGCA
17627135 ATTGAAATAGATTGATTTGATATATG
1 ATTGAAATAGATTGATTTGATATATG
*
17627161 A-TGAAAT-TATTGAATTT-ATAT-TG
1 ATTGAAATAGATTG-ATTTGATATATG
17627184 ATTGAA
1 ATTGAA
17627190 TTGAATTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 3 0.12
24 12 0.46
25 10 0.38
26 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (26 bp):
ATTGAAATAGATTGATTTGATATATG
Found at i:17627670 original size:21 final size:20
Alignment explanation
Indices: 17627622--17627670 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
17627612 GAAAAGCTAT
*
17627622 TTGAATAGAAAGTATGAGAT
1 TTGAATAGAAAGTATGAGAA
17627642 TTGAAATAGCAATAG-ATGAGAA
1 TTG-AATAG-AA-AGTATGAGAA
17627664 TTGAATA
1 TTGAATA
17627671 TGTTATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 9 0.36
22 11 0.44
23 2 0.08
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (20 bp):
TTGAATAGAAAGTATGAGAA
Found at i:17632428 original size:23 final size:24
Alignment explanation
Indices: 17632400--17632444 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
17632390 AGAAAAGATC
17632400 TTTCTTTCCA-GTGTTTGTTCCCT
1 TTTCTTTCCAGGTGTTTGTTCCCT
* *
17632423 TTTCTTTGCAGGTTTTTGTTCC
1 TTTCTTTCCAGGTGTTTGTTCC
17632445 TTGATTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.04, C:0.22, G:0.16, T:0.58
Consensus pattern (24 bp):
TTTCTTTCCAGGTGTTTGTTCCCT
Found at i:17640122 original size:15 final size:16
Alignment explanation
Indices: 17640087--17640130 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
17640077 GGATTTAGAT
*
17640087 AATTTTAAATTTTTATA
1 AATTTTAAA-TATTATA
17640104 AATTTTAAATATT-TA
1 AATTTTAAATATTATA
17640119 AATTTTAAATAT
1 AATTTTAAATAT
17640131 AACAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 14 0.54
16 3 0.12
17 9 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTTAAATATTATA
Found at i:17644241 original size:18 final size:17
Alignment explanation
Indices: 17644208--17644241 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17644198 AAGTTAGTAT
17644208 AATAAAAAAAATAAAGA
1 AATAAAAAAAATAAAGA
*
17644225 AATAAAGAAAGATAAAG
1 AATAAA-AAAAATAAAG
17644242 CCATACAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AATAAAAAAAATAAAGA
Found at i:17644271 original size:13 final size:14
Alignment explanation
Indices: 17644253--17644281 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17644243 CATACAAATT
17644253 AGAAAG-AAAAGAA
1 AGAAAGAAAAAGAA
17644266 AGAAAGAAAAAGAA
1 AGAAAGAAAAAGAA
17644280 AG
1 AG
17644282 GAGAAAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAGAA
Found at i:17644731 original size:7 final size:7
Alignment explanation
Indices: 17644719--17644758 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
17644709 TAAAAATTGA
17644719 AATATTC
1 AATATTC
17644726 AATATTC
1 AATATTC
17644733 AATATTC
1 AATATTC
*
17644740 AAGATTC
1 AATATTC
*
17644747 AAGATTC
1 AATATTC
17644754 AATAT
1 AATAT
17644759 GAAATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (7 bp):
AATATTC
Found at i:17657921 original size:24 final size:24
Alignment explanation
Indices: 17657888--17657941 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
17657878 AAAAATGATG
*
17657888 CACACAGCTTGGGACACGAGTTGT
1 CACACGGCTTGGGACACGAGTTGT
*
17657912 CACACGGCTTGGGACACGGGTTGT
1 CACACGGCTTGGGACACGAGTTGT
17657936 CACACG
1 CACACG
17657942 ATCGTGTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.19
Consensus pattern (24 bp):
CACACGGCTTGGGACACGAGTTGT
Found at i:17688167 original size:11 final size:11
Alignment explanation
Indices: 17688136--17688161 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17688126 TTAATTTGGG
17688136 TTTTATATTTA
1 TTTTATATTTA
17688147 TTTTATATTTA
1 TTTTATATTTA
17688158 TTTT
1 TTTT
17688162 TGATTTGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATATTTA
Found at i:17689036 original size:32 final size:33
Alignment explanation
Indices: 17689000--17689064 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
17688990 AAAGTATTTT
17689000 AAAAA-TATTTTAAAAATATTTTT-AAAATAAAA
1 AAAAAGTATTTT-AAAATATTTTTAAAAATAAAA
17689032 AAAAAGTATTTTAAAATATTTTTAAAAATAAAA
1 AAAAAGTATTTTAAAATATTTTTAAAAATAAAA
17689065 TATATATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (33 bp):
AAAAAGTATTTTAAAATATTTTTAAAAATAAAA
Found at i:17689061 original size:12 final size:11
Alignment explanation
Indices: 17688988--17689061 Score: 71
Period size: 11 Copynumber: 6.6 Consensus size: 11
17688978 AGAAAATTAG
17688988 AAAAAGTATTTT
1 AAAAA-TATTTT
17689000 AAAAATATTTT
1 AAAAATATTTT
17689011 AAAAATATTTT
1 AAAAATATTTT
* ***
17689022 TAAAATA-AAA
1 AAAAATATTTT
17689032 AAAAAGTATTTT
1 AAAAA-TATTTT
17689044 -AAAATATTTTT
1 AAAAATA-TTTT
17689055 AAAAATA
1 AAAAATA
17689062 AAATATATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
10 6 0.12
11 33 0.66
12 11 0.22
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:17690200 original size:31 final size:32
Alignment explanation
Indices: 17690165--17690226 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
17690155 CTTTTAACAT
*
17690165 TCCAGTGACTT-AAAT-AAAAGCTTTCGAATAG
1 TCCAGTGACTTAAAATGAAAA-CTTTCAAATAG
17690196 TCCAGTGACTTAAAATGAAAACTTTCAAATA
1 TCCAGTGACTTAAAATGAAAACTTTCAAATA
17690227 ATTCAGTGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 11 0.39
32 13 0.46
33 4 0.14
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (32 bp):
TCCAGTGACTTAAAATGAAAACTTTCAAATAG
Found at i:17690234 original size:32 final size:31
Alignment explanation
Indices: 17690165--17690234 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
17690155 CTTTTAACAT
* *
17690165 TCCAGTGACTTAAATAAAAGCTTTCGAATAG
1 TCCAGTGACTTAAATAAAAGCTTTCAAATAA
17690196 TCCAGTGACTTAAAATGAAAA-CTTTCAAATAA
1 TCCAGTGACTT-AAAT-AAAAGCTTTCAAATAA
*
17690228 TTCAGTG
1 TCCAGTG
17690235 GCCATTTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 11 0.32
32 19 0.56
33 4 0.12
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (31 bp):
TCCAGTGACTTAAATAAAAGCTTTCAAATAA
Found at i:17705032 original size:555 final size:554
Alignment explanation
Indices: 17703727--17705810 Score: 3108
Period size: 555 Copynumber: 3.8 Consensus size: 554
17703717 ATAAACCTTT
* *
17703727 ATTGTTGTTGTCGCCTAAACCTTCCATTTTACCATCTC--T-TTCTTCTTTTTGTATCAAGATTG
1 ATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTG
** * *
17703789 TGCACCATCTTATTTAATCTATTGCTTCCATTTATCCTCATTTAAATCAGCACCAAATCTGAAAT
66 TGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTAAAAT
* * * *
17703854 CTTGAACTCCAAGATCGATTCTGAACATTGCCAAGAAAGTCCCATTATCATTTCTCTCAACTAGC
131 CTTAAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTATCATTTCTTTCAACTAGC
* * *
17703919 TTGGGTAAGAACTATTATTTCTTCAAGTTTTTGATTAATCTTGCAAATTAAAAACCTAAATTTCC
196 TTGGGTAAGAACTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCC
*
17703984 AGATTTGGAATTTGGGAGCATTTTGATGATTTTTAATATATTTTTTTCAG-TTTTTAATGGGT-T
261 AGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATA-TTTTTTCAGTTTTTTAATGGGTCT
* *
17704047 TTAAATCGTATTTAAATTAGTCCCAAGTTCAAATCCCTTCTCTTTCAAATAATTTAATTTTTTGA
325 TTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGA
* *
17704112 CAAAAATCCCTTATTTTAATGTGTGTGTCATCC-TGCCCTAGTAAACCTAGGTATAAGTATTATT
390 CAAAAATCCCTTATTTTAATGTGTGTGTCGTCCAAG-CCTAGTAAACCTAGGTATAAGTATTATT
* * * *
17704176 TTTTCACAAATAATAAGCCTTTGATCCTCCTCCTCATTGCCCTAGTCATTCCTTTCCTTCTCTTA
454 TTTT-ACAAATAATAAGCCTTTAATCCTCCTCCTCATTGCCCTAGTCATTCCTCTCCTCCTCTCA
17704241 TTCTCTTTGATTTTAATG--TTTTTTTCCTTTCCTCC
518 TTCTCTTTGATTTTAATGTTTTTTTTTCCTTTCCTCC
* * *
17704276 ATTGTTGTTGTCGCCTACACCTCCCATTTTACTATCTCTTTCTTCCTCTTTTTGTATCAAGAGTG
1 ATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTG
* * *
17704341 TGCACCATCTCCTTTAATCTATTGCTTACATTTATCCTCATTTAAATCAGCACCAAATTTGAAAA
66 TGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCT-AAAA
* *
17704406 T-TTAAACTCCAAGATCGATTCTGAACATTGCCAAGAATGTGCCATTATCATTTCTTTCAACTAG
130 TCTTAAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTATCATTTCTTTCAACTAG
* ** *
17704470 CTTGGGTAAGAACTCTTCTTTCTTCAATTTTTTGATTAATCTTAACAACTAAAAACCTAAATTTC
195 CTTGGGTAAGAACTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTC
17704535 CAGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTTCAGTTTTTTAATGGGTCT
260 CAGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTTCAGTTTTTTAATGGGTCT
* * * * *
17704600 TTAAATCGTATTTAAATTAGTCCTAACTTCAAATCCTTTCTCTTGCAAATAATTTAATGTTTTGA
325 TTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGA
* * * * *
17704665 C-AAAATCCCCTTGTTTTAATGTATGCGTTGTCCAAGCCTAGTAAACTTAGGTATAAGTATTATT
390 CAAAAAT-CCCTTATTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATT
* * *
17704729 TTTTACAAAAAATCAGCCTTTAATCCTCCTCCTCATTTCCCTAGTCATTCCTCTCCTCCTCTCAT
454 TTTTACAAATAATAAGCCTTTAATCCTCCTCCTCATTGCCCTAGTCATTCCTCTCCTCCTCTCAT
* *
17704794 TCACTTTGATTTTAATGTTTTTTTTTTCATTTCCTCC
519 TCTCTTTGATTTTAATG-TTTTTTTTTCCTTTCCTCC
* *
17704831 ATTGTTGTTGTTGCCTACACCTCCCATTTTACCATCTCTTTCGTCTTCTTTTTGTATCAAGATTG
1 ATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTG
* *
17704896 CGCATCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTAAAAT
66 TGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTAAAAT
* * *
17704961 CTTGAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATAATCGTTTCTTTCAACTAGC
131 CTTAAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTATCATTTCTTTCAACTAGC
* * * *
17705026 TTGGGTAAGAGCTTTTATTTCTTCAATTTTTTGATTAATCTTGCCAATGAAAAACCTAAATTTTC
196 TTGGGTAAGAACTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCC
17705091 AGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTT-A-TTTTTTAATGGGTCTT
261 AGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTTCAGTTTTTTAATGGGTCTT
* *
17705154 TAAATCGCATTTAAATCAGTCCCAAGTTCAAATCCCTTCTATTGCAAATAATTTAATTTTTTGAC
326 TAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGAC
* *
17705219 AAAAATCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCAAGGTATAAGTATTAATTT
391 AAAAATCCCTTATTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATT-A-TT
*
17705284 TTTTACAAATAATAAGCCTTTAATCCTCCTCCTCATTGCACTAGTCATTCCTCTCCTCCTCTCAT
454 TTTTACAAATAATAAGCCTTTAATCCTCCTCCTCATTGCCCTAGTCATTCCTCTCCTCCTCTCAT
*
17705349 TCTCTTTGATTTTAATGTTTTTTTTTCCTTTCTTCC
519 TCTCTTTGATTTTAATGTTTTTTTTTCCTTTCCTCC
*
17705385 ATTGTTGTTGTTGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTG
1 ATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTG
* * * * *
17705450 TGCACCATCTCCTTTAATATATTGCTTTCA-TT-T-GTCATCT-AA--AGCATCAAATCTGAAAT
66 TGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTAAAAT
* * * *
17705509 CTTAAACTCAAAGATCGATCCTGAACATTTCCAAGAAAGTGTCATTATCGTTT-TTATCAACTAG
131 CTTAAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTATCATTTCTT-TCAACTAG
** * * * *
17705573 CTTGGGTAAGAGTTCTTCTTTCTTAAATTTTTTGATTAATCTTGCCAATTAATAACCTAAATGTC
195 CTTGGGTAAGAACTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTC
* * * * * *
17705638 TAGATTTGGAATTTGAGAGAATTTCGATGATTTTAAATATATTTTTTCAATTTTTTACTGGGTCT
260 CAGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTTCAGTTTTTTAATGGGTCT
* ** *
17705703 TTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTTTAAATAATTTAAATTTTTGA
325 TTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGA
*
17705768 CAAAAACCCCTTTATTTTAATGTGTGTGTCGTCCAAGCCTAGT
390 CAAAAATCCC-TTATTTTAATGTGTGTGTCGTCCAAGCCTAGT
17705811 GATGGCCACT
Statistics
Matches: 1397, Mismatches: 119, Indels: 36
0.90 0.08 0.02
Matches are distributed among these distances:
547 2 0.00
548 171 0.12
549 36 0.03
550 84 0.06
551 47 0.03
552 322 0.23
553 243 0.17
554 120 0.09
555 372 0.27
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (554 bp):
ATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTG
TGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTAAAAT
CTTAAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTATCATTTCTTTCAACTAGC
TTGGGTAAGAACTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCC
AGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTTCAGTTTTTTAATGGGTCTT
TAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGAC
AAAAATCCCTTATTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTT
TTACAAATAATAAGCCTTTAATCCTCCTCCTCATTGCCCTAGTCATTCCTCTCCTCCTCTCATTC
TCTTTGATTTTAATGTTTTTTTTTCCTTTCCTCC
Found at i:17708474 original size:305 final size:304
Alignment explanation
Indices: 17707905--17708505 Score: 902
Period size: 305 Copynumber: 2.0 Consensus size: 304
17707895 TCATTATTGT
* * * *
17707905 TTCTCTCAACAAGTTTGGGTAAAAGCTCTTCTTTCTTCATTTTTTTGATTAATCTTGCTAATTAA
1 TTCTCCCAACAAGTTTAGGTAAAAGCTATTCTTTCTTCAATTTTTTGATTAATCTTGCTAATTAA
*
17707970 AAACCTAAATTTCAAGATTTGGAATTTGGGAGAATTGTGATGATTTTAATGGATATCTTTTCAAA
66 AAACCTAAATTTCAAGATTTGGAATTTGGGAAAATTGTGATGATTTTAAT-GATATCTTTTCAAA
* *
17708035 TTTTAATGGATATTTAAATTGTATTCAAATCAATCCCAACTTCAAATCCCTTTTCTTGCAAGTAA
130 TTTTAATGGATATTTAAATTGTATTCAAATCAATCCCAACTTCAAATCCCTTCTCTTGCAAATAA
* * * * *
17708100 TTTAATTTTTTGACAAAACCCCTTGTTTTAATGCGTGTGTCGTCCAAAGCTAGTAAACCTAGTTA
195 GTTAATTTTTTGACAAAACCCCTTGCTTTAATGCATGTATCGTCCAAAGCTAGTAAACCTAGGTA
* *
17708165 TAAGTATTATTTTTTCTCAAATAATCAGCCTTTAATACTTATACC
260 TAAGTATTATTTTGTCACAAATAATCAGCCTTTAATACTTATACC
* *
17708210 TTCTCCCAACAAGTTTAGGTAACAGCTATTCTTTTTTCAATTTTTTGATTAATCTTGCTAATTAA
1 TTCTCCCAACAAGTTTAGGTAAAAGCTATTCTTTCTTCAATTTTTTGATTAATCTTGCTAATTAA
* * *
17708275 AAACCTAAATTTCATGATTTTGAATTTGGGAAAATTGTGATGATTTTACAT-ATATTTTTTCAAT
66 AAACCTAAATTTCAAGATTTGGAATTTGGGAAAATTGTGATGATTTTA-ATGATATCTTTTCAA-
* * * *
17708339 TTTTTAATAGG-TCTTTAAATTGTATTTAAATCAATCCCAACTTTAAATCCCTTCTCTTGCAAAT
129 ATTTTAAT-GGATATTTAAATTGTATTCAAATCAATCCCAACTTCAAATCCCTTCTCTTGCAAAT
* *
17708403 AAGTTAATTTTTTGACAAAACCCCTTGCTTTAATGTATGTATCGTCC-AAGCCTAGTAAAGCTAG
193 AAGTTAATTTTTTGACAAAACCCCTTGCTTTAATGCATGTATCGTCCAAAG-CTAGTAAACCTAG
*
17708467 GTATAAGTATTATTTTGTCACAAATAATCAGTCTTTAAT
257 GTATAAGTATTATTTTGTCACAAATAATCAGCCTTTAAT
17708506 CCTCCTCTTC
Statistics
Matches: 266, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
304 14 0.05
305 248 0.93
306 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.42
Consensus pattern (304 bp):
TTCTCCCAACAAGTTTAGGTAAAAGCTATTCTTTCTTCAATTTTTTGATTAATCTTGCTAATTAA
AAACCTAAATTTCAAGATTTGGAATTTGGGAAAATTGTGATGATTTTAATGATATCTTTTCAAAT
TTTAATGGATATTTAAATTGTATTCAAATCAATCCCAACTTCAAATCCCTTCTCTTGCAAATAAG
TTAATTTTTTGACAAAACCCCTTGCTTTAATGCATGTATCGTCCAAAGCTAGTAAACCTAGGTAT
AAGTATTATTTTGTCACAAATAATCAGCCTTTAATACTTATACC
Found at i:17709908 original size:551 final size:541
Alignment explanation
Indices: 17708227--17710610 Score: 2953
Period size: 551 Copynumber: 4.4 Consensus size: 541
17708217 AACAAGTTTA
* * * *
17708227 GGTAACAGCTATTCTTTTTTCAATTTTTTGATTAATCTTGCTAATTAAAAACCTAAATTT-CATG
1 GGTAAGAGCTCTTCTTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCA-G
* * * *
17708291 ATTTTGAATTTGGGAAAATTGTGATGATTTTACATATATTTTTTCAA-TTTTTTAATAGGTCTTT
65 ATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTT-AAGTTTTTTAATAGGTCTTT
* * * * * *
17708355 AAATTGTATTTAAATCAATCCCAACTTTAAATCCCTTCTCTTGCAAATAAGTTAATTTTTTGACA
129 AAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGAAA
* * *
17708420 AAACCCCTTGCTTTAATGTATGTATCGTCCAAGCCTAGTAAAGCTAGGTATAAGTATTATTTTGT
194 AAACCCCTTGTTTTAATGTATGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTGT
* * *
17708485 CACAAATAATCAGTCTTTAATCCTCCTCTTCATTGCTCTAATCATTCCTCTCCTCCTCTCATTTT
259 CACAAATAATCA----TT-A---TCCT-TT-AAT-C-CTAGTCATTCCTCTCCTCCTCTCATTCT
* * *
17708550 CTTTAATTTTAATGTTTTTTTTCCTTTCCACCATTGTTGTTGTCGCCTACACCTCCCCTTTTGCC
312 CTTTGATTTTAATGTTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACC
* * * * *
17708615 ATCTCTTTCTTTTTCTTTTTGTATCAAGATTGTGCACTATTTGCTTTAATCTATTCCTTCCATTT
377 ATCACTTTCTTCTTCTTTTTGTATCAAGATTGTGCACTATCTCCTTTAATCTATTGCTTCCATTT
* *** * * *
17708680 GTCCTCATCTAAATCAGTTTCAAATCTAAAATATTAAACTCC---A-AGATCCTGAACATTACCA
442 ATCCTCATCTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATAGATCCTGAACATTGCCA
* * *
17708741 AAAAAGTGCCATTATCGTTTCTCTCATCTAGCTTC
507 AGAAAGTGCCATTATCGTTTCTCTCAACTAGCTTG
* * * * *
17708776 CGTAAAAGCTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTCAAAATCTAAATTTCCAGA
1 GGTAAGAGCTCTTCTTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCAGA
* * * * * * * *
17708841 TTTGGAATCTGGAAGGATTTTTAAGATTTTAACTATATTTTTTCAGTTTTTTAATGGGTCTTTAA
66 TTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAAGTTTTTTAATAGGTCTTTAA
* * * *
17708906 ATCGTATTTAAATCAGTCCCAAGTTAAAATCCCTTCTCTTGCAACTAATTTAATTTTTTCATAAA
131 ATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGAAAAA
* * * * *
17708971 ACCCCTTATTTTAATATGTGCGTCGTCCAACCCTAGTAAACCTAGGTATAAGTATTATTTTGTCA
196 ACCCCTTGTTTTAATGTATGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTGTCA
* * *
17709036 CAAAAAATCA--AT-CTTTAATCCTAGTCATTCCTCTCCTCCTCTTACTCTCTTTGATTTTAATG
261 CAAATAATCATTATCCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATG
* * * *
17709098 TTTTTTTTCCTTTCCTTCATTGTTGTTGTCACCTACATCTCCCCTTTTACCATCTCTTTCTTCTT
326 TTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCATCACTTTCTTCTT
* * * *
17709163 CTATTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATGGCTTCCATTTATCCTCATCTAAGT
391 CTTTTTGTATCAAGATTGTGCACTATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAAT
* * * * * *
17709228 CAGCACCAAATTTGAAATCTTGAACTCCACGATCGATCTTAAACATTGCCAAGAAAGTGCCATTA
456 CAGCACCAAATCTAAAATCTTGAACTCCAAGATAGATCCTGAACATTGCCAAGAAAGTGCCATTA
17709293 TCGTTTCTCTCAACTAGCTTG
521 TCGTTTCTCTCAACTAGCTTG
* * *
17709314 AGTAAGAGCTCTTCTTTCTTCAATTTTTTAATTAATCTTGCCAAGTAAAAACCTAAATTTCCAGA
1 GGTAAGAGCTCTTCTTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCAGA
* * * * * * **
17709379 TTTTGAAGTTGGGATAATTTTGATGATGTTATATATATTTTTTAAGTTTTTTCATTTGTCTTTAA
66 TTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAAGTTTTTTAATAGGTCTTTAA
*
17709444 ATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGAGAAA
131 ATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGAAAAA
* ** * *
17709509 GCCTTTTGTTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTTTCA
196 ACCCCTTGTTTTAATGTATGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTGTCA
* * *
17709574 CAAATAATCAGCCTTTCATCCTCCTCCTCATTGTCATAGTCAGTCCTCTCCTCCTCTCATTCTCT
261 CAAATAATCA----TT-ATCCT--T--T-A--ATCCTAGTCATTCCTCTCCTCCTCTCATTCTCT
*
17709639 TTGATTTTAATG-TTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTACCCTTTTACCAT
314 TTGATTTTAATGTTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCAT
* * *
17709703 CACATTATTCTTCTTTTTG-ATCAAGATTGTGCA-TCATATCCTTTAATCTATTGCTTCCATTTA
379 CACTTTCTTCTTCTTTTTGTATCAAGATTGTGCACT-ATCTCCTTTAATCTATTGCTTCCATTTA
* * * *
17709766 TCCTCGTCTAAATCAACACCAAATTTGAAATCTTGAACTCCAAGATAGATCCTGAACATTGCCAA
443 TCCTCATCTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATAGATCCTGAACATTGCCAA
17709831 GAAAGTGCCATTATCGTTTCTCTCAACTAGCTTG
508 GAAAGTGCCATTATCGTTTCTCTCAACTAGCTTG
* * * *
17709865 GGTTAGAGCTCTTCTCTCTTCAATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCTAGA
1 GGTAAGAGCTCTTCTTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCAGA
* * *
17709930 TTTGGAATTTGGGAGAATTTTGATGATTTGAAATATATTTTTTTAGTTTTTGAATAGGT-TTGTA
66 TTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAAGTTTTTTAATAGGTCTT-TA
* * * *
17709994 AATCATATTTAAATCAGTCCCAAGTTTAAAACCCTTCTCTTGCAAACAATTTAATTTTTTGACAA
130 AATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGA-AA
* *
17710059 AAACCCCTTGTTTTAATGTATGTGTCATCCAAGGCTAGTAAACCTAGGTATAAGTATTATTTTGT
194 AAACCCCTTGTTTTAATGTATGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTGT
* * ** * *
17710124 CACAAAT-A--ATTATCCTTTAATCCTAGTCATTCCTCTCTTTCTCAAATTCCCTTTGATTTTAT
259 CACAAATAATCATTATCCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAA
* *
17710186 TG-TTTTTTT-CTTTCCTCCATTGTTGTTGTCGCCCACACC-CCCCTTTTACCATGTA-TTTCTT
324 TGTTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCAT-CACTTTCTT
* * * *
17710247 CTTCTTTTTGTATCAAGATTGTGCACTATCTCCTTTAATCTATTGGTCCCATTTTTCATCATCTA
388 CTTCTTTTTGTATCAAGATTGTGCACTATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTA
* * * * *
17710312 AATTAGCACCAAATCTAAAATCTTGAATTTCAAGATCGATCCTGAACATTGCCAAGAAAGTTCCA
453 AATCAGCACCAAATCTAAAATCTTGAACTCCAAGATAGATCCTGAACATTGCCAAGAAAGTGCCA
*
17710377 TTATCGTTTCTCTCAACTAGCTTA
518 TTATCGTTTCTCTCAACTAGCTTG
* * *
17710401 GGTCAGAGTTCTTCTTT-TTCAAATTTTTT-ATTAATCTTGCAAATTAAAAACCTAAATTTCCAG
1 GGTAAGAGCTCTTCTTTCTTC-AATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCAG
* *** * * * *
17710464 ATTTAGAATTTGGGAGAATTGCAAAGATTTTAAATATA-GTTTTCAG-TTTTTAATGGGTCTTTA
65 ATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAAGTTTTTTAATAGGTCTTTA
* * *
17710527 AATCGTATTTAAATAAGTCCCGAGTTCAAATCCCTTCTCTTGCAAACAATTTAATTTTTTGAAAA
130 AATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGAAAA
*
17710592 AACCCCATTGTATTAATGT
195 AACCCC-TTGTTTTAATGT
17710611 GCGCTTTCAA
Statistics
Matches: 1597, Mismatches: 208, Indels: 76
0.85 0.11 0.04
Matches are distributed among these distances:
532 9 0.01
533 80 0.05
534 182 0.11
535 94 0.06
536 180 0.11
537 47 0.03
538 283 0.18
539 2 0.00
540 1 0.00
542 2 0.00
544 5 0.00
545 4 0.00
546 2 0.00
548 2 0.00
549 229 0.14
550 5 0.00
551 301 0.19
552 129 0.08
553 40 0.03
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (541 bp):
GGTAAGAGCTCTTCTTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCAGA
TTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAAGTTTTTTAATAGGTCTTTAA
ATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGAAAAA
ACCCCTTGTTTTAATGTATGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTGTCA
CAAATAATCATTATCCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATG
TTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCATCACTTTCTTCTT
CTTTTTGTATCAAGATTGTGCACTATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAAT
CAGCACCAAATCTAAAATCTTGAACTCCAAGATAGATCCTGAACATTGCCAAGAAAGTGCCATTA
TCGTTTCTCTCAACTAGCTTG
Found at i:17710791 original size:228 final size:230
Alignment explanation
Indices: 17710389--17710827 Score: 690
Period size: 228 Copynumber: 1.9 Consensus size: 230
17710379 ATCGTTTCTC
* * *
17710389 TCAACTAGCTTAGGTCAGAGTTCTTCTTTTTCAAATTTTTTATTAATCTTGCAAATTAAAAACCT
1 TCAACTAACTTAGGTAAGAGCTCTTCTTTTTCAAATTTTTTATTAATCTTGCAAATTAAAAACCT
17710454 AAATTTCCAGATTTAGAATTTGGGAGAATTGCAAAGATTTTAAATATAGTTTTCAGTTTTTAATG
66 AAATTTCCAGATTTAGAATTTGGGAGAATTGCAAAGATTTTAAATATAGTTTTCAGTTTTTAATG
* *
17710519 GGTCTTTAAATCGTATTTAAATAAGTCCCGAGTTCAAATCCCTTCTCTTGCAAACAATTTAA-TT
131 GGTCTTTAAATCGTATTTAAATAAGTCCCAAGTTCAAATCCCTTCTCCTGCAAACAATTTAATTT
17710583 TTTTGA-AAAAACCCCATTGTATTAATGTGCGCTT
196 TTTTGACAAAAACCCCATTGTATTAATGTGCGCTT
* *
17710617 TCAACTAACTTGGGTAAGAGCTCTTTTTTCTTC-AA-TTTTTATTAATCTTGGC-AATTAAAAAC
1 TCAACTAACTTAGGTAAGAGCTCTTCTTT-TTCAAATTTTTTATTAATCTT-GCAAATTAAAAAC
* * ** *
17710679 CTAAATTTCCATATTTGGAATTTGGGAGAATTGTGAAGATTTTAAATATATTTTTTCAGTTTTTA
64 CTAAATTTCCAGATTTAGAATTTGGGAGAATTGCAAAGATTTTAAATATA-GTTTTCAGTTTTTA
* *
17710744 ATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCCTGCAAATAATTTAA
128 ATGGGTCTTTAAATCGTATTTAAATAAGTCCCAAGTTCAAATCCCTTCTCCTGCAAACAATTTAA
17710809 TTTTTTTGACAAAAACCCC
193 TTTTTTTGACAAAAACCCC
17710828 TAGTTTTAAT
Statistics
Matches: 192, Mismatches: 14, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
227 70 0.36
228 102 0.53
229 11 0.06
230 9 0.05
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (230 bp):
TCAACTAACTTAGGTAAGAGCTCTTCTTTTTCAAATTTTTTATTAATCTTGCAAATTAAAAACCT
AAATTTCCAGATTTAGAATTTGGGAGAATTGCAAAGATTTTAAATATAGTTTTCAGTTTTTAATG
GGTCTTTAAATCGTATTTAAATAAGTCCCAAGTTCAAATCCCTTCTCCTGCAAACAATTTAATTT
TTTTGACAAAAACCCCATTGTATTAATGTGCGCTT
Found at i:17712765 original size:538 final size:536
Alignment explanation
Indices: 17710617--17712766 Score: 2831
Period size: 537 Copynumber: 4.0 Consensus size: 536
17710607 ATGTGCGCTT
* * *
17710617 TCAACTAACTTGGGTAAGAGCTCTTTTTTCTTCAA--TTTTTATTAATCTTGGCAATTAAAAACC
1 TCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTATTAATCTTGCCAATTAAAAA-C
* * * * *
17710680 T-AAATTTCCATATTTGGAATTTGGGAGAATTGTGAAGATTTTAAATATATTTTTT-CAGTTTTT
65 TAAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAAATTTTTT
*
17710743 AATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCCTGCAAATAATTTA
130 AATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTTCT-CTGCAAATAATTTA
* * * * *
17710808 ATTTTTTTGACAAAAACCCCTAGTTTTAATGTCTGAGTCGCCCAAGCCTAGTAAACCTTGGTATA
194 A-TTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATA
* * *
17710873 AGCATTATTTTTTCACAAATAATCAAACTTTAATCCTCATCTTCATTGCCCTAGTCATTCCTCTC
258 AGTATTATTTTTTCACAAATAAT----C----A-GC-C-T-TT-AAT--CCTAGTCATTCCTCTC
17710938 CTCCTCTCATTCTCTTTGATTTTAATGTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACC
308 CTCCTCTCATTCTCTTTGATTTTAATGTTTTTTT-CTTTCCTCCATTGTTGTTGTCGCCTACACC
* * * * *
17711003 TCCCATTTTACCATCTCTTTCTTCTGCTTTTTATATCAAGATTTTGCACCATCTCCTCTAATCTA
372 TCCCCTTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTA
* * * * *
17711068 TTGCTTCCATTTATCCTCATATGAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCAATCC
437 TTGCTTCCATTTATCTTCATCTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCC
* * *
17711133 TGAACATTGCCAAGAAATTGCCATTATCATTTCTT
502 TGAACATTGCCAAGAAAGTGCCATTATCGTTTCTC
* *
17711168 TGAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTTATTAATCATGCCAATTAAAAAC
1 TCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAA-TTTTTTTATTAATCTTGCCAATTAAAAAC
* * * *
17711233 TAAAATTACTAGATTTGGAATTT-GGAGGAATTTTGATGATTTGAAATAT-TTTTTTAAGTCTTT
65 TAAAATTTCCAGATTTGGAATTTGGGA-GAATTTTGATGATTTTAAATATATTTTTTAAAT-TTT
*
17711296 TT-ATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGATCAAATCCCTTCTCTTGCAAATAATT
128 TTAATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTTCTC-TGCAAATAATT
* **
17711360 TAATTTTTTGACAAAAACCCCTTATTTTAATGTGTGCATCGTCCAAGCCTAGTAAACCTAGGTAT
192 TAATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTAT
*
17711425 AAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTAGTCATTCCTCTCCTCCTTTCATTCTC
257 AAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTC
* * * *
17711490 TTTGATTTTAATGTCTTTTTTCTTTCCTCCATTGTTGTTATCCCCCACACCTCCCCTTTTAGCAT
322 TTTGATTTTAATGT-TTTTTTCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCAT
* *
17711555 CTCTTTCTTCTTCTTTTTGTATCAAGATTGTGTACCATCTCCTTTAATCTATGGCTTCCATTT-T
386 CTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTAT
* * * * *
17711619 TTTTATCTAAATCAGCACCAACTCTAAAATCTTGAACTACAAGATCGATCCTTAACATTGCCAAG
451 CTTCATCTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCCAAG
* *
17711684 AAAGTTCCATTATTGTTTCTC
516 AAAGTGCCATTATCGTTTCTC
* *
17711705 TCAACTAGAC-TGAGTAAGAGCTCTTCTTTCTTCAATTTTTTTATTAATCTTGCCAATTAAAACC
1 TCAACTAG-CTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTATTAATCTTGCCAATTAAAA-A
*** * * * * * **
17711769 CTAAAATTT-TTTATTTGTAATTTGTGAGAATTTTTATGACTTTAAATATATTTTATATGTTTTT
64 CTAAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAAATTTTT
** *
17711833 TAATGGGTCTTTAAATTGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTTTTGCAAATAATTT
129 TAATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTTC-TCTGCAAATAATTT
* *
17711898 AAATTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCATCCAAGCCTAGTAAACCTAGGTATA
193 AATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATA
* * ** * *
17711963 AGTATTATTTTGTCACAAATAATCAGCCTTTAATCCTAATCATTCCTCAACTCTTCTCATTCTTT
258 AGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCT
* * *
17712028 TTGATTTTAATG-TTTTTTCTTTTCCTCTATTGTTGTTGTTGCCTACACCCGCCCCTTTTACCAT
323 TTGATTTTAATGTTTTTTTC-TTTCCTCCATTGTTGTTGTCGCCTACA-CCTCCCCTTTTACCAT
*
17712092 CTCTTTCTTCTT-TGTTTTGTATCAAGATTGTG-AGCTATCTCCTTTAATCTATTGCTTCCATTT
386 CTCTTTCTTCTTCT-TTTTGTATCAAGATTGTGCA-CCATCTCCTTTAATCTATTGCTTCCATTT
* * *
17712155 ATCTTCATC-AGAATCAGGATCAAATCTAAAATCTTGTACTCCAAGATCGATCCTGAACATTGCC
449 ATCTTCATCTA-AATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCC
17712219 AAGAAAGTGCCATTATCGTTTCTC
513 AAGAAAGTGCCATTATCGTTTCTC
17712243 TCAACTAGCTTGGGT-AGAGCTCTTCTTTCTTCAATTTTTTTATTAAT-TATGCCAATTAAAAAC
1 TCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTATTAATCT-TGCCAATTAAAAAC
*
17712306 TTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAAATTTTTT
65 TAAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAAATTTTTT
* * ** *
17712371 ATTGGGTCTTTAAATCAAATTTAAATCAGTCCCAAGTTCAAATCTTATTCTCTACTAAATAATTT
130 AATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATC-CCTTCTCTGC-AAATAATTT
* *
17712436 AATTTTTTGACAAAATCCCCTTGTATTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATA
193 AATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATA
* * ** *
17712501 AGTATTATTTTTTCACAACTAATCAGCCTTTAATCCTAGTCATTCCTCTCTTCCTCAAATTCTTT
258 AGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCT
* * * *
17712566 TTTATTTTATTGCTTTTTTTCTTTCCTTCATTGTTATTGTCGTCC-ACACCTCCCCTTTTACCAT
323 TTGATTTTAATG-TTTTTTTCTTTCCTCCATTGTTGTTGTCG-CCTACACCTCCCCTTTTACCAT
* * * * * * *
17712630 ATCTTTCTTCTTATTTTTGTATAAAGATTGTGCACTATCTCCTTTAATCTACTGCTTCAATTTGT
386 CTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTAT
* * * * *
17712695 CTTTATCTAAATCAGCACCAAATCTGACATCTTGAATTCCAAGATCGATCCTGAACATTGCCAGG
451 CTTCATCTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCCAAG
17712760 AAAGTGC
516 AAAGTGC
17712767 TTGTAAAAAT
Statistics
Matches: 1411, Mismatches: 156, Indels: 77
0.86 0.09 0.05
Matches are distributed among these distances:
535 7 0.00
536 94 0.07
537 514 0.36
538 500 0.35
539 29 0.02
540 11 0.01
541 2 0.00
542 1 0.00
543 1 0.00
544 1 0.00
545 1 0.00
549 1 0.00
551 32 0.02
553 90 0.06
554 122 0.09
555 5 0.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (536 bp):
TCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTATTAATCTTGCCAATTAAAAACT
AAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAAATTTTTTA
ATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTGCAAATAATTTAAT
TTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGT
ATTATTTTTTCACAAATAATCAGCCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCTTTG
ATTTTAATGTTTTTTTCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCATCTCTT
TCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATCTTCA
TCTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGT
GCCATTATCGTTTCTC
Found at i:17726981 original size:18 final size:18
Alignment explanation
Indices: 17726960--17726996 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17726950 TGAATTTTCG
*
17726960 AATTCGAATAACTCAAAT
1 AATTCGAATAAATCAAAT
17726978 AATTCGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
17726996 A
1 A
17726997 TCAAACTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:17727074 original size:18 final size:19
Alignment explanation
Indices: 17727051--17727090 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
17727041 TTCTTTTCAT
**
17727051 TTCCCC-CAAAAGTTTTAC
1 TTCCCCTCAAAAAATTTAC
17727069 TTCCCCTCAAAAAATTTAC
1 TTCCCCTCAAAAAATTTAC
17727088 TTC
1 TTC
17727091 TCTTCAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.35
Consensus pattern (19 bp):
TTCCCCTCAAAAAATTTAC
Found at i:17727246 original size:17 final size:17
Alignment explanation
Indices: 17727190--17727248 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
17727180 TTATGTCTAC
17727190 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
* *
17727207 TAAATTTCACATT-TT-ATAC
1 T--ATTT-ATATTATTGA-AT
17727226 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
17727243 TATTTA
1 TATTTA
17727249 ATCATACTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
16 4 0.12
17 14 0.44
18 2 0.06
19 8 0.25
20 4 0.12
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:17732094 original size:39 final size:39
Alignment explanation
Indices: 17732040--17732216 Score: 121
Period size: 39 Copynumber: 4.5 Consensus size: 39
17732030 CTCTGGGGTT
17732040 AACTGAGATTTTTCTTCAGTGCA-TTTTATCGGTGCCAGC
1 AACTGAGATTTTTCTTCAGTGCACTTTTAT-GGTGCCAGC
* * * *
17732079 AACTGAGATTTTTCTTCA--GCAAGTTCTATAGGCGTCAGC
1 AACTGAGATTTTTCTTCAGTGC-ACTTTTAT-GGTGCCAGC
* * * * *
17732118 GAGTGAGATTTTTCTTCTGTGTACTCTTT-TAGTGCCAGC
1 AACTGAGATTTTTCTTCAGTGCACT-TTTATGGTGCCAGC
* * * * *
17732157 AACTGGGATTTTTCTTCAATGTACTCTTT-TGGTGTCATC
1 AACTGAGATTTTTCTTCAGTGCACT-TTTATGGTGCCAGC
* * *
17732196 AGCTGAGGTTTCTCTTCAGTG
1 AACTGAGATTTTTCTTCAGTG
17732217 TACTGAACAG
Statistics
Matches: 107, Mismatches: 26, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 98 0.92
40 3 0.03
41 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (39 bp):
AACTGAGATTTTTCTTCAGTGCACTTTTATGGTGCCAGC
Found at i:17747757 original size:12 final size:12
Alignment explanation
Indices: 17747740--17747773 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17747730 TTGCACTTGT
* *
17747740 AATTTTGTGAGA
1 AATTTTCTGAAA
17747752 AATTTTCTGAAA
1 AATTTTCTGAAA
17747764 AATTTTCTGA
1 AATTTTCTGA
17747774 TTCGAAGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (12 bp):
AATTTTCTGAAA
Found at i:17748438 original size:9 final size:9
Alignment explanation
Indices: 17748424--17748449 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
17748414 CTTTTGGAAG
17748424 CTCTATTTA
1 CTCTATTTA
17748433 CTCTATTTA
1 CTCTATTTA
17748442 CTCTATTT
1 CTCTATTT
17748450 CAAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (9 bp):
CTCTATTTA
Found at i:17755188 original size:19 final size:19
Alignment explanation
Indices: 17755160--17755204 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
17755150 TGTTAATTTC
*
17755160 ATGAATTATATAATGTA-TG
1 ATGAAATATAT-ATGTATTG
*
17755179 ATGAAATATATATTTATTG
1 ATGAAATATATATGTATTG
17755198 ATGAAAT
1 ATGAAAT
17755205 GAGAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (19 bp):
ATGAAATATATATGTATTG
Found at i:17755361 original size:46 final size:46
Alignment explanation
Indices: 17755285--17755486 Score: 347
Period size: 46 Copynumber: 4.5 Consensus size: 46
17755275 TGATAAGTGA
*
17755285 CAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
17755331 CAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
17755377 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
17755423 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
17755468 C-AGGGAC-AAGTGATAAGTG
1 CAAGTGACAAAGTGATAAGTG
17755487 ATCATACGTA
Statistics
Matches: 151, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
43 12 0.08
44 5 0.03
45 19 0.13
46 115 0.76
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
Found at i:17757441 original size:6 final size:6
Alignment explanation
Indices: 17757430--17757455 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17757420 ATAATTCAGC
17757430 CTCCTA CTCCTA CTCCTA CTCCTA CT
1 CTCCTA CTCCTA CTCCTA CTCCTA CT
17757456 AAAGATTCCT
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:0.50, G:0.00, T:0.35
Consensus pattern (6 bp):
CTCCTA
Found at i:17772091 original size:26 final size:26
Alignment explanation
Indices: 17772059--17772146 Score: 122
Period size: 26 Copynumber: 3.4 Consensus size: 26
17772049 TTTTACTCTA
*
17772059 GTAAAATTTTGATGATTTTACCCCTG
1 GTAAAATTTTAATGATTTTACCCCTG
*
17772085 GTAAAATTTTAATGATTTTACCCTTG
1 GTAAAATTTTAATGATTTTACCCCTG
* * *
17772111 TTAAAATTTTAACGATTTTACCCCTA
1 GTAAAATTTTAATGATTTTACCCCTG
*
17772137 ATAAAATTTT
1 GTAAAATTTT
17772147 GAGAAATTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (26 bp):
GTAAAATTTTAATGATTTTACCCCTG
Found at i:17775419 original size:13 final size:13
Alignment explanation
Indices: 17775403--17775428 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17775393 ACTTTACGCA
17775403 AACAAATGGTTTT
1 AACAAATGGTTTT
17775416 AACAAATGGTTTT
1 AACAAATGGTTTT
17775429 TGGAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:17786145 original size:42 final size:41
Alignment explanation
Indices: 17785991--17786146 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
17785981 TATGTTATCG
*
17785991 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
17786033 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
17786077 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
17786119 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
17786147 TGTACGATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:17791628 original size:11 final size:11
Alignment explanation
Indices: 17791612--17791638 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17791602 ATCAGATCCT
17791612 TCAAATCGTCC
1 TCAAATCGTCC
17791623 TCAAATCGTCC
1 TCAAATCGTCC
17791634 TCAAA
1 TCAAA
17791639 GTGGACGCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.26
Consensus pattern (11 bp):
TCAAATCGTCC
Found at i:17796306 original size:23 final size:22
Alignment explanation
Indices: 17796263--17796306 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
17796253 TTCTAAGTCG
17796263 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
17796286 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
17796307 TTTGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:17796408 original size:45 final size:45
Alignment explanation
Indices: 17796353--17796439 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
17796343 CAGATACTCG
* *
17796353 GTGGAGTCAACACATAGCAACCACCTTATTAATCAATGATGTCGA
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCGA
*
17796398 GTGGAATCAACACATAGCAACCACTTTACTAATCAATGATGT
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
17796440 TCGGTTCACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (45 bp):
GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCGA
Found at i:17796508 original size:50 final size:50
Alignment explanation
Indices: 17796439--17796634 Score: 207
Period size: 50 Copynumber: 3.9 Consensus size: 50
17796429 ATCAATGATG
* * * *
17796439 TTCGGTTCACATAGTAGCCTGAACATAGT-CTACACATGTTACCATTACCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCA
* * * * * * *
17796489 TTCGATACACGTAGTAGCCTTCACATAGTACTACATACGTGATCGAAACTA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCA
* * * *
17796540 TCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATACCA
*
17796589 TTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCA
17796635 CCACTTTCAC
Statistics
Matches: 116, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
49 3 0.03
50 64 0.55
51 47 0.41
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATACCA
Found at i:17796599 original size:101 final size:100
Alignment explanation
Indices: 17796448--17796631 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 100
17796438 GTTCGGTTCA
* *
17796448 CATAGTAGCCTGAACATAGTCTACACATGTTACCATTACCATTCGATACACGTAGTAGCCTTCAC
1 CATAGTAGCCTGAACATAGTCTACACATGTGACCA-TACCATTCGATACACGTAGTAGCCTGCAC
*
17796513 ATAGTACTACATACGTGATCGAAACTATCCGGTACG
65 ATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * *
17796549 CATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGAACATAGT-CTACACATGTGACCATACCATT-CGATACACGTAGTAGCCTGCA
17796613 CATAGTACTACACACGTGA
64 CATAGTACTACACACGTGA
17796632 CCACCACTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
100 6 0.08
101 56 0.75
102 13 0.17
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (100 bp):
CATAGTAGCCTGAACATAGTCTACACATGTGACCATACCATTCGATACACGTAGTAGCCTGCACA
TAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:17804883 original size:39 final size:39
Alignment explanation
Indices: 17804819--17805008 Score: 265
Period size: 39 Copynumber: 4.9 Consensus size: 39
17804809 CAGCTTGTTA
* * * * *
17804819 GGCACAAAGCCTACTAAGCATTTAGCCAGAATAATCACC
1 GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAATCACT
*
17804858 GGCACAAAGCCTGTTAGGCACTTAGCCTGAATAATCACT
1 GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAATCACT
* *
17804897 GGCACAATA-CCTGCTAGGCACTTAGCCTGAACATTCACT
1 GGCACAA-AGCCTGCTAGGCACTTAGCCTGAATAATCACT
17804936 GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAATCACT
1 GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAATCACT
** *
17804975 GATACAAAGCCTGCTAGGCACTTAGCCCGAATAA
1 GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAA
17805009 GCACCGTATT
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
39 133 0.99
40 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (39 bp):
GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAATCACT
Found at i:17810084 original size:25 final size:25
Alignment explanation
Indices: 17810036--17810084 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
17810026 CTAAGTTAAT
* *
17810036 TAGATTTTAAGTGGGAAAGTAAAAA
1 TAGAGTTTAAGTAGGAAAGTAAAAA
17810061 TAGAGTTTAAGTAGGAGAAG-AAAA
1 TAGAGTTTAAGTAGGA-AAGTAAAA
17810085 TCCAAAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (25 bp):
TAGAGTTTAAGTAGGAAAGTAAAAA
Found at i:17810619 original size:26 final size:27
Alignment explanation
Indices: 17810590--17810662 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 27
17810580 CGATTACAAG
17810590 TGGAATATAAGATTACCT-TGTTTGGT
1 TGGAATATAAGATTACCTGTGTTTGGT
* * *
17810616 TGGAATGTAAAATT-CATGTGTTTGGT
1 TGGAATATAAGATTACCTGTGTTTGGT
*
17810642 TGACAAAATATAAGATTACCT
1 TG---GAATATAAGATTACCT
17810663 AAAAGTAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
25 2 0.06
26 22 0.63
29 9 0.26
30 2 0.06
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
TGGAATATAAGATTACCTGTGTTTGGT
Found at i:17815303 original size:28 final size:29
Alignment explanation
Indices: 17815271--17815329 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
17815261 TACAGTCAGT
17815271 TGTTCTTACTCTC-AAAGAGACATTAACA
1 TGTTCTTACTCTCGAAAGAGACATTAACA
*
17815299 TGTTCTTACTCTCGAAAGAGATATTAACA
1 TGTTCTTACTCTCGAAAGAGACATTAACA
17815328 TG
1 TG
17815330 ATTTAGGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (29 bp):
TGTTCTTACTCTCGAAAGAGACATTAACA
Found at i:17824756 original size:25 final size:25
Alignment explanation
Indices: 17824712--17824847 Score: 98
Period size: 25 Copynumber: 5.4 Consensus size: 25
17824702 GGCAATCACA
* * *
17824712 AGCTTCTCATTATTTAGCTCTCATG
1 AGCTTCCCATTATATGGCTCTCATG
*
17824737 AGCTTCCCGATTA-ATGGCTCTCTTG
1 AGCTTCCC-ATTATATGGCTCTCATG
* * * * *
17824762 AGCTTCTCAATATTTGGCTCGCAAG
1 AGCTTCCCATTATATGGCTCTCATG
* *
17824787 AGCTTCCCGTTAT-TCAGCTCAT-ATG
1 AGCTTCCCATTATAT-GGCTC-TCATG
** *
17824812 AGCTTCCCATTATATGGCTCGGAAG
1 AGCTTCCCATTATATGGCTCTCATG
17824837 AGCTTCCCATT
1 AGCTTCCCATT
17824848 TACATGAATT
Statistics
Matches: 85, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
24 4 0.05
25 76 0.89
26 5 0.06
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (25 bp):
AGCTTCCCATTATATGGCTCTCATG
Found at i:17824814 original size:50 final size:50
Alignment explanation
Indices: 17824712--17824844 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 50
17824702 GGCAATCACA
* * * * *
17824712 AGCTTCTCATTATTTAGCTCTCATGAGCTTCCCGATTAATGGCTCTCTTG
1 AGCTTCTCATTATTTGGCTCGCAAGAGCTTCCCGATTAATAGCTCTCATG
* *
17824762 AGCTTCTCAATATTTGGCTCGCAAGAGCTTCCCG-TTATTCAGCTCAT-ATG
1 AGCTTCTCATTATTTGGCTCGCAAGAGCTTCCCGATTAAT-AGCTC-TCATG
* * *
17824812 AGCTTCCCATTATATGGCTCGGAAGAGCTTCCC
1 AGCTTCTCATTATTTGGCTCGCAAGAGCTTCCC
17824845 ATTTACATGA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 4 0.06
50 65 0.93
51 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (50 bp):
AGCTTCTCATTATTTGGCTCGCAAGAGCTTCCCGATTAATAGCTCTCATG
Found at i:17826237 original size:16 final size:17
Alignment explanation
Indices: 17826216--17826249 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17826206 GATTTGTTTC
17826216 TGATATG-AATGTTTGT
1 TGATATGAAATGTTTGT
17826232 TGATATGAAATGTTTGT
1 TGATATGAAATGTTTGT
17826249 T
1 T
17826250 ATTTGATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (17 bp):
TGATATGAAATGTTTGT
Found at i:17831831 original size:25 final size:25
Alignment explanation
Indices: 17831803--17831869 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
17831793 CCGATATTTG
17831803 GCTCGCAAGAGCTTCCCGTTATACA
1 GCTCGCAAGAGCTTCCCGTTATACA
* * * **
17831828 GCTCACATGAGCTTCTCGTTATATG
1 GCTCGCAAGAGCTTCCCGTTATACA
*
17831853 GCTCGGAAGAGCTTCCC
1 GCTCGCAAGAGCTTCCC
17831870 ATTTATATGT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (25 bp):
GCTCGCAAGAGCTTCCCGTTATACA
Found at i:17836642 original size:22 final size:22
Alignment explanation
Indices: 17836617--17836667 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
17836607 GGTAAGACAA
17836617 AGAACAGATT-AGATACAGATGC
1 AGAACA-ATTCAGATACAGATGC
*
17836639 AGAACAATTCATATACAGATGC
1 AGAACAATTCAGATACAGATGC
*
17836661 AAAACAA
1 AGAACAA
17836668 ATCAAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.18
Consensus pattern (22 bp):
AGAACAATTCAGATACAGATGC
Found at i:17837314 original size:26 final size:26
Alignment explanation
Indices: 17837285--17837365 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
17837275 AGTTACACGG
17837285 CACATGCCTTGTGACCCACAACCCAT
1 CACATGCCTTGTGACCCACAACCCAT
** * ** * *
17837311 CACACAACC-TG-GACACACGGCCAAG
1 CACA-TGCCTTGTGACCCACAACCCAT
17837336 CACATGCCTTGTGACCCACAACCCAT
1 CACATGCCTTGTGACCCACAACCCAT
17837362 CACA
1 CACA
17837366 CAACCTGGAC
Statistics
Matches: 38, Mismatches: 14, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
24 2 0.05
25 15 0.39
26 19 0.50
27 2 0.05
ACGTcount: A:0.31, C:0.42, G:0.14, T:0.14
Consensus pattern (26 bp):
CACATGCCTTGTGACCCACAACCCAT
Found at i:17837350 original size:51 final size:51
Alignment explanation
Indices: 17837284--17837380 Score: 194
Period size: 51 Copynumber: 1.9 Consensus size: 51
17837274 GAGTTACACG
17837284 GCACATGCCTTGTGACCCACAACCCATCACACAACCTGGACACACGGCCAA
1 GCACATGCCTTGTGACCCACAACCCATCACACAACCTGGACACACGGCCAA
17837335 GCACATGCCTTGTGACCCACAACCCATCACACAACCTGGACACACG
1 GCACATGCCTTGTGACCCACAACCCATCACACAACCTGGACACACG
17837381 CCCGTGTCCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.31, C:0.41, G:0.15, T:0.12
Consensus pattern (51 bp):
GCACATGCCTTGTGACCCACAACCCATCACACAACCTGGACACACGGCCAA
Found at i:17837985 original size:17 final size:17
Alignment explanation
Indices: 17837959--17837998 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
17837949 CACACAAGGA
17837959 AAGAAAAAGAAAAAAAG
1 AAGAAAAAGAAAAAAAG
* * *
17837976 AAGAAGAAGAGAAAAAT
1 AAGAAAAAGAAAAAAAG
17837993 AAGAAA
1 AAGAAA
17837999 GGAAAAGAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (17 bp):
AAGAAAAAGAAAAAAAG
Found at i:17850836 original size:18 final size:19
Alignment explanation
Indices: 17850792--17850837 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
17850782 TCACAATCGC
*
17850792 CATATTTCAAGTCATGCAAA
1 CATA-TTCAATTCATGCAAA
17850812 -A-ATTCAATTCATG-AAA
1 CATATTCAATTCATGCAAA
17850828 CATATTCAAT
1 CATATTCAAT
17850838 AAGCACACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 3 0.13
17 11 0.48
18 8 0.35
19 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (19 bp):
CATATTCAATTCATGCAAA
Found at i:17854490 original size:21 final size:20
Alignment explanation
Indices: 17854460--17854498 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17854450 ATAAAAAAAC
17854460 TATATCATTTTTATGAATAAG
1 TATATCATTTTTAT-AATAAG
*
17854481 TATATTATTTTTATAATA
1 TATATCATTTTTATAATA
17854499 TATAGCACGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (20 bp):
TATATCATTTTTATAATAAG
Found at i:17856187 original size:10 final size:9
Alignment explanation
Indices: 17856159--17856185 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
17856149 TATTTTAGTT
17856159 TTTTAAAAA
1 TTTTAAAAA
17856168 TTTTAAAAA
1 TTTTAAAAA
17856177 TTTTAAAAA
1 TTTTAAAAA
17856186 ATAAACTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:17856213 original size:27 final size:27
Alignment explanation
Indices: 17856165--17856241 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 27
17856155 AGTTTTTTAA
* *
17856165 AAATTTTAAAAATT-TTAAAAAATAAACT
1 AAATTATAAAAATTATT-TAAAAT-AACT
*
17856193 -AATTATAAAAATTATTTAAAATTACT
1 AAATTATAAAAATTATTTAAAATAACT
* *
17856219 GAAATTATTAAACTTATTTAAAA
1 -AAATTATAAAAATTATTTAAAA
17856242 AGTACAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
26 3 0.07
27 17 0.41
28 21 0.51
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (27 bp):
AAATTATAAAAATTATTTAAAATAACT
Found at i:17856251 original size:28 final size:27
Alignment explanation
Indices: 17856201--17856265 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
17856191 CTAATTATAA
* *
17856201 AAATTATTTAAAATTACTGAAATTATT
1 AAATTATTTAAAAGTACTAAAATTATT
17856228 AAACTTATTTAAAAAGTAC-AAAATTA-T
1 AAA-TTATTT-AAAAGTACTAAAATTATT
17856255 AAATT-TTTAAA
1 AAATTATTTAAA
17856266 TATTTTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
24 3 0.09
25 3 0.09
26 2 0.06
27 7 0.21
28 12 0.35
29 7 0.21
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (27 bp):
AAATTATTTAAAAGTACTAAAATTATT
Found at i:17856293 original size:19 final size:18
Alignment explanation
Indices: 17856247--17856295 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
17856237 TAAAAAGTAC
*
17856247 AAAATTA-TAAATTTTTA
1 AAAATTATTAATTTTTTA
* *
17856264 AATATTTTTAATTTTTTA
1 AAAATTATTAATTTTTTA
17856282 AAAATTAATTAATT
1 AAAATT-ATTAATT
17856296 GCTAACGTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
19 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AAAATTATTAATTTTTTA
Found at i:17857712 original size:14 final size:14
Alignment explanation
Indices: 17857693--17857719 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17857683 AAGACCATGT
17857693 TCTTTAGCGGCGCG
1 TCTTTAGCGGCGCG
17857707 TCTTTAGCGGCGC
1 TCTTTAGCGGCGC
17857720 TTAGAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.30, G:0.33, T:0.30
Consensus pattern (14 bp):
TCTTTAGCGGCGCG
Found at i:17857784 original size:42 final size:42
Alignment explanation
Indices: 17857707--17857832 Score: 198
Period size: 42 Copynumber: 3.0 Consensus size: 42
17857697 TAGCGGCGCG
*
17857707 TCTTTAGCGGCGCTTAGAAAAAAAACGCCTCTAAAGACCATGT
1 TCTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGACCATGT
*
17857750 TCTTTAGCGGCACTTAGAAAAAAACGCCGCTAAAGACCATGT
1 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGT
* * *
17857792 ACTTTAGCGGCGCTTAGAAAAAAACACCGCTAAAGAACATG
1 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATG
17857833 AAAAATAGTG
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 61 0.79
43 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGT
Found at i:17858235 original size:21 final size:21
Alignment explanation
Indices: 17858210--17858259 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
17858200 TTTTGGCTTG
*
17858210 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
17858231 TTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
17858252 CTCTGCTT
1 CTCTGCTT
17858260 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.44, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:17863786 original size:7 final size:7
Alignment explanation
Indices: 17863776--17863812 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
17863766 TGATATATTT
17863776 TTATGTA
1 TTATGTA
17863783 TTATGTAA
1 TTATGT-A
17863791 GTTATGTA
1 -TTATGTA
17863799 TTATGTA
1 TTATGTA
17863806 TTATGTA
1 TTATGTA
17863813 AGTACTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 20 0.71
8 2 0.07
9 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (7 bp):
TTATGTA
Found at i:17863797 original size:9 final size:9
Alignment explanation
Indices: 17863783--17864546 Score: 704
Period size: 9 Copynumber: 86.2 Consensus size: 9
17863773 TTTTTATGTA
17863783 TTATGTAAG
1 TTATGTAAG
17863792 TTATGT-A-
1 TTATGTAAG
17863799 TTATGT-A-
1 TTATGTAAG
17863806 TTATGTAAG
1 TTATGTAAG
17863815 -TACTGTAAG
1 TTA-TGTAAG
*
17863824 TAATGTAAG
1 TTATGTAAG
*
17863833 TAATGTAAG
1 TTATGTAAG
17863842 TTATGTAAG
1 TTATGTAAG
* * *
17863851 -AAAGTTA-
1 TTATGTAAG
17863858 TTATGTAAG
1 TTATGTAAG
*
17863867 TTGTGTATA-
1 TTATGTA-AG
*
17863876 ATAT-TAA-
1 TTATGTAAG
*
17863883 TTATGTGAG
1 TTATGTAAG
**
17863892 TCGTGT-A-
1 TTATGTAAG
*
17863899 TAATGTAAG
1 TTATGTAAG
*
17863908 TTAAG-AAGG
1 TTATGTAA-G
17863917 TTATGT-A-
1 TTATGTAAG
*
17863924 TAATGTAAG
1 TTATGTAAG
17863933 TTATGTAAG
1 TTATGTAAG
* * *
17863942 TAATTTAAT
1 TTATGTAAG
17863951 TTATGTAAG
1 TTATGTAAG
17863960 TTATGTAAG
1 TTATGTAAG
* *
17863969 TTATTTAAT
1 TTATGTAAG
*
17863978 TTATGCAAG
1 TTATGTAAG
17863987 TTATGTAAG
1 TTATGTAAG
* *
17863996 TTATTTAAT
1 TTATGTAAG
* *
17864005 TTGTGTAGG
1 TTATGTAAG
*
17864014 TTATGTGAG
1 TTATGTAAG
17864023 TTATGTAAG
1 TTATGTAAG
* *
17864032 TTATTTAAT
1 TTATGTAAG
17864041 TTATGTAAG
1 TTATGTAAG
17864050 TTATGTAAG
1 TTATGTAAG
* *
17864059 TTATTTAAT
1 TTATGTAAG
*
17864068 TTATGTAGG
1 TTATGTAAG
17864077 TTATGTAAG
1 TTATGTAAG
17864086 TTATGTAAG
1 TTATGTAAG
* *
17864095 TTATTTAAT
1 TTATGTAAG
* *
17864104 TTGTGTAGG
1 TTATGTAAG
17864113 TTATGTAAG
1 TTATGTAAG
17864122 TTATGTAAG
1 TTATGTAAG
*
17864131 TTATTTAAG
1 TTATGTAAG
* *
17864140 TTATTTAAT
1 TTATGTAAG
17864149 TTATGTAAG
1 TTATGTAAG
*
17864158 TTACGTAAG
1 TTATGTAAG
* *
17864167 TTATTTAAT
1 TTATGTAAG
*
17864176 TTATGTAGG
1 TTATGTAAG
17864185 TTATGTAAG
1 TTATGTAAG
17864194 TTATGTAAG
1 TTATGTAAG
* *
17864203 TTATTTAAT
1 TTATGTAAG
*
17864212 TTATGTAGG
1 TTATGTAAG
17864221 TTATGTAAG
1 TTATGTAAG
* *
17864230 TCCACG--A-
1 T-TATGTAAG
17864237 TTATGTAAG
1 TTATGTAAG
17864246 TTATGTAAG
1 TTATGTAAG
* *
17864255 TTATTTAAT
1 TTATGTAAG
17864264 TTATGTAAG
1 TTATGTAAG
17864273 TTATGTAAG
1 TTATGTAAG
* *
17864282 TTATTTAAT
1 TTATGTAAG
*
17864291 TTATGTTAG
1 TTATGTAAG
17864300 TTATGTAAG
1 TTATGTAAG
* *
17864309 TTATTTAAT
1 TTATGTAAG
*
17864318 TTATGTAGG
1 TTATGTAAG
17864327 TTATGTAAG
1 TTATGTAAG
17864336 TTATGTAAG
1 TTATGTAAG
* *
17864345 TTATTTAAT
1 TTATGTAAG
*
17864354 TTATGCAAG
1 TTATGTAAG
17864363 TTTATGTAAG
1 -TTATGTAAG
17864373 TTATGTAAG
1 TTATGTAAG
*
17864382 TTACT-TAAT
1 TTA-TGTAAG
17864391 TTATGTAAG
1 TTATGTAAG
17864400 TTATGTAAG
1 TTATGTAAG
* *
17864409 TTATTTAAT
1 TTATGTAAG
17864418 TTATGTAAG
1 TTATGTAAG
17864427 TTATGTAAG
1 TTATGTAAG
* *
17864436 TTATTTAAT
1 TTATGTAAG
*
17864445 TTATGCAAG
1 TTATGTAAG
17864454 TTTATGTAAG
1 -TTATGTAAG
17864464 TTATGTAAG
1 TTATGTAAG
*
17864473 TTACT-TAAT
1 TTA-TGTAAG
17864482 TTATGTAAG
1 TTATGTAAG
17864491 TTATGTAAG
1 TTATGTAAG
* *
17864500 TTATTTAAT
1 TTATGTAAG
17864509 TTATGTAAG
1 TTATGTAAG
17864518 TTATGTAAG
1 TTATGTAAG
* *
17864527 TTATTTAAT
1 TTATGTAAG
*
17864536 TTATGTCAG
1 TTATGTAAG
17864545 TT
1 TT
17864547 TCTATATATG
Statistics
Matches: 601, Mismatches: 129, Indels: 50
0.77 0.17 0.06
Matches are distributed among these distances:
6 2 0.00
7 27 0.04
8 25 0.04
9 525 0.87
10 22 0.04
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Done.