Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 239 of 335
Found at i:72428470 original size:14 final size:17
Alignment explanation
Indices: 72428433--72428473 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
72428423 CTATTTTTTC
72428433 TCTTCTTCCTCTTCTTAT
1 TCTTC-TCCTCTTCTTAT
*
72428451 TCTTCTCCTCTTCTTTT
1 TCTTCTCCTCTTCTTAT
72428468 TCTTCT
1 TCTTCT
72428474 TTTTCTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.63
Consensus pattern (17 bp):
TCTTCTCCTCTTCTTAT
Found at i:72429075 original size:8 final size:8
Alignment explanation
Indices: 72429062--72429101 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
72429052 AGGAAATATT
72429062 TATTTTTA
1 TATTTTTA
72429070 TATTTTTA
1 TATTTTTA
*
72429078 GTGTTTTTA
1 -TATTTTTA
*
72429087 TAGTTTTA
1 TATTTTTA
72429095 TATTTTT
1 TATTTTT
72429102 TAAGTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (8 bp):
TATTTTTA
Found at i:72429109 original size:15 final size:16
Alignment explanation
Indices: 72429064--72429119 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
72429054 GAAATATTTA
* *
72429064 TTTTTATATTTTTAGTG
1 TTTTTATAGTTTTA-TT
72429081 TTTTTATAGTTTTATAT
1 TTTTTATAGTTTTAT-T
72429098 TTTTTA-AG-TTTATT
1 TTTTTATAGTTTTATT
*
72429112 TTTATATA
1 TTTTTATA
72429120 AAAAAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 3 0.09
17 19 0.56
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
TTTTTATAGTTTTATT
Found at i:72431342 original size:12 final size:12
Alignment explanation
Indices: 72431325--72431352 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
72431315 TCAAGATTCT
72431325 GTTGGTTGGGAC
1 GTTGGTTGGGAC
72431337 GTTGGTTGGGAC
1 GTTGGTTGGGAC
72431349 GTTG
1 GTTG
72431353 ATGGCCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.50, T:0.36
Consensus pattern (12 bp):
GTTGGTTGGGAC
Found at i:72433912 original size:22 final size:22
Alignment explanation
Indices: 72433884--72433928 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
72433874 TTTGTATTAC
72433884 TTGATTAAATTACAAGAATAAA
1 TTGATTAAATTACAAGAATAAA
72433906 TTGATTAAATTACAAGAATAAA
1 TTGATTAAATTACAAGAATAAA
72433928 T
1 T
72433929 ATTTAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.33
Consensus pattern (22 bp):
TTGATTAAATTACAAGAATAAA
Found at i:72438969 original size:6 final size:6
Alignment explanation
Indices: 72438944--72438987 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
72438934 CTGTAATTAG
* *
72438944 TTTAAA TTTAAT TTTTAA TTTAAA TTT-AA TTTAAA TTTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TT
72438988 ATTTAGTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.16
6 21 0.66
7 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (6 bp):
TTTAAA
Found at i:72438973 original size:11 final size:11
Alignment explanation
Indices: 72438957--72438981 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
72438947 AAATTTAATT
72438957 TTTAATTTAAA
1 TTTAATTTAAA
72438968 TTTAATTTAAA
1 TTTAATTTAAA
72438979 TTT
1 TTT
72438982 TAAATTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:72438983 original size:18 final size:18
Alignment explanation
Indices: 72438944--72438987 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
72438934 CTGTAATTAG
*
72438944 TTTAAATTTAATTTTTAA
1 TTTAAATTTAATTTTAAA
72438962 TTTAAATTTAA-TTTAAA
1 TTTAAATTTAATTTTAAA
72438979 TTTTAAATT
1 -TTTAAATT
72438988 ATTTAGTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAAATTTAATTTTAAA
Found at i:72439004 original size:23 final size:23
Alignment explanation
Indices: 72438978--72439052 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
72438968 TTTAATTTAA
* * *
72438978 ATTTTAAATTATTTAGTGATAAT
1 ATTTAAAATTATTTATTAATAAT
72439001 ATTTAAAATTATTTATTAATAAT
1 ATTTAAAATTATTTATTAATAAT
*
72439024 ATTTAAAATTATTTATTCATAAT
1 ATTTAAAATTATTTATTAATAAT
72439047 ATTTAA
1 ATTTAA
72439053 GAAAAATCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (23 bp):
ATTTAAAATTATTTATTAATAAT
Found at i:72439120 original size:13 final size:13
Alignment explanation
Indices: 72439102--72439127 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72439092 AATAATTAGT
72439102 CACTACAACCAAA
1 CACTACAACCAAA
72439115 CACTACAACCAAA
1 CACTACAACCAAA
72439128 AACAGACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.38, G:0.00, T:0.08
Consensus pattern (13 bp):
CACTACAACCAAA
Found at i:72439393 original size:18 final size:19
Alignment explanation
Indices: 72439358--72439393 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
72439348 TTTTATTTAC
72439358 AAATTTACTTTATTTGCTT
1 AAATTTACTTTATTTGCTT
*
72439377 AAATTTA-TTTTTTTGCT
1 AAATTTACTTTATTTGCT
72439394 ATTTTGAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (19 bp):
AAATTTACTTTATTTGCTT
Found at i:72440789 original size:36 final size:36
Alignment explanation
Indices: 72440742--72440825 Score: 159
Period size: 36 Copynumber: 2.3 Consensus size: 36
72440732 TGAATTGTGT
72440742 CAAAACGACGTCGTTTTGGTGTCTGAAAATTAAGCC
1 CAAAACGACGTCGTTTTGGTGTCTGAAAATTAAGCC
72440778 CAAAACGACGTCGTTTTGGTGTCTGAAAATTAAGCC
1 CAAAACGACGTCGTTTTGGTGTCTGAAAATTAAGCC
*
72440814 CAAAATGACGTC
1 CAAAACGACGTC
72440826 ATATAGGACC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (36 bp):
CAAAACGACGTCGTTTTGGTGTCTGAAAATTAAGCC
Found at i:72441365 original size:14 final size:14
Alignment explanation
Indices: 72441346--72441372 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
72441336 TTTATTATAT
72441346 CTACTGTTCATTTA
1 CTACTGTTCATTTA
72441360 CTACTGTTCATTT
1 CTACTGTTCATTT
72441373 GTTTCTTATC
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:0.19, C:0.22, G:0.07, T:0.52
Consensus pattern (14 bp):
CTACTGTTCATTTA
Found at i:72442021 original size:44 final size:44
Alignment explanation
Indices: 72441892--72442576 Score: 494
Period size: 44 Copynumber: 15.2 Consensus size: 44
72441882 AACTTTTGAA
* * * * *
72441892 AGATAAGATTAGTAACTTCAATCGGTTCTACTGCAACTTTAGGG
1 AGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * * *
72441936 AGAT-A-ATAT-TCATTTTAATTTGCTCCACTGCAACTTTAGGG
1 AGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGG
* **
72441977 AGATAAGATTTGTAACTTCAATCTGCTCCATTATAACTTCAGGG
1 AGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGG
* **
72442021 AGGTAAGATTTGTAACTTCAATCTGCTCCTTTGCAACTTCAGGG
1 AGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGG
* * * *
72442065 AGATAAAATTCGCCATGCTAGA-TTTAGTCTGAC-CTACTGCAACTTCAGAGG
1 AGATAAGATT-----TG-TA-ACTTCAATCTG-CTCCACTGCAACTTCAG-GG
* * * * *
72442116 -TATAGGATTTAGT---TTTAATCTACTCCGCTGCAACTTCAGGG
1 AGATAAGATTT-GTAACTTCAATCTGCTCCACTGCAACTTCAGGG
* * * *
72442157 GGATAAGATTTGTAACTTGTAGTTTTAATCTGTTCCACTACAACTTCAGGG
1 AGATAAGATTTGTAAC-------TTCAATCTGCTCCACTGCAACTTCAGGG
* * * * *
72442208 AAATAAGGTTTGCTATCTTCATTCTGCTCCACTACAACTTCAGGG
1 AGATAAGATTTG-TAACTTCAATCTGCTCCACTGCAACTTCAGGG
* * *
72442253 AGATAAGGTTTGTAACTTGTAGCTTTAATCTGTTCCACTAC-ACTTCAGGG
1 AGATAAGATTTGTAAC-T-T--C---AATCTGCTCCACTGCAACTTCAGGG
* *
72442303 AAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGG
1 AGATAAGATTTG-TAACTTCAATCTGCTCCACTGCAACTTCAGGG
* * *
72442348 AGATGAGATTTGTAA-TTCCAATCTGCTCCACTACAACTTCAGTG
1 AGATAAGATTTGTAACTT-CAATCTGCTCCACTGCAACTTCAGGG
* * *
72442392 AGATAAGATTTGTAACTTCAATCTGTTCTACTGCAACTTCAGAG
1 AGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGG
* * *
72442436 AGATAAGATTTGCTATCTTCAATCTGCTCTACTGCAACTTCAGAG
1 AGATAAGATTTG-TAACTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * *
72442481 AGAT-AGAATTGTAACTTTAATTTGCTCTACTGCAACTTCAGAG
1 AGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * *
72442524 AGATAAAATTTGCTATCTTCAATCTACTCCATTGCAACTTTAGGG
1 AGATAAGATTTG-TAACTTCAATCTGCTCCACTGCAACTTCAGGG
72442569 AGATAAGA
1 AGATAAGA
72442577 CTCGCCACGA
Statistics
Matches: 516, Mismatches: 85, Indels: 79
0.76 0.12 0.12
Matches are distributed among these distances:
41 34 0.07
42 31 0.06
43 39 0.08
44 177 0.34
45 125 0.24
46 2 0.00
47 1 0.00
48 1 0.00
49 3 0.01
50 47 0.09
51 53 0.10
52 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
AGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGG
Found at i:72442201 original size:51 final size:51
Alignment explanation
Indices: 72442125--72442409 Score: 209
Period size: 45 Copynumber: 6.0 Consensus size: 51
72442115 GTATAGGATT
* * * **
72442125 TAGTTTTAATCTACTCCGCTGCAACTTCAGGGGGATAAGATTTGTAACTTG
1 TAGTTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGTAACTTG
* *
72442176 TAGTTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGGTTTG---C---
1 TAGTTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGTAACTTG
* * * *
72442221 TA-TCTTCATTCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTAACTTG
1 TAGT-TTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGTAACTTG
* *
72442272 TAGCTTTAATCTGTTCCACTAC-ACTTCAGGGAAATAAGATTTG---C---
1 TAGTTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGTAACTTG
* * * *
72442316 TA-TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGT-A----
1 TAGT-TTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGTAACTTG
** * *
72442362 -A-TTCCAATCTGCTCCACTACAACTTCAGTGAGATAAGATTTGTAACTT
1 TAGTTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGTAACTT
72442410 CAATCTGTTC
Statistics
Matches: 191, Mismatches: 27, Indels: 35
0.75 0.11 0.14
Matches are distributed among these distances:
44 55 0.29
45 60 0.31
47 1 0.01
48 2 0.01
50 19 0.10
51 54 0.28
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (51 bp):
TAGTTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGTAACTTG
Found at i:72442266 original size:96 final size:95
Alignment explanation
Indices: 72442132--72442447 Score: 387
Period size: 95 Copynumber: 3.4 Consensus size: 95
72442122 ATTTAGTTTT
* * * * *
72442132 AATCTACTCCGCTGCAACTTCAGGGGGATAAGATTTGTAACTTGTAGTTTTAATCTGTTCCACTA
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTA
*
72442197 CAACTTCAGGGAAATAAGGTTTGCTATCTTC
66 C-ACTTCAGGGAAATAAGATTTGCTATCTTC
* *
72442228 ATTCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTAACTTGTAGCTTTAATCTGTTCCACTA
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTA
72442293 CACTTCAGGGAAATAAGATTTGCTATCTTC
66 CACTTCAGGGAAATAAGATTTGCTATCTTC
* * * *
72442323 AATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAA--T-T--C--CAATCTGCTCCACTA
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTA
* * *
72442381 CAACTTCAGTGAGATAAGATTTG-TAACTTC
66 C-ACTTCAGGGAAATAAGATTTGCTATCTTC
* * * *
72442411 AATCTGTTCTACTGCAACTTCAGAGAGATAAGATTTG
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG
72442448 CTATCTTCAA
Statistics
Matches: 198, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
88 53 0.27
89 19 0.10
90 1 0.01
92 1 0.01
93 1 0.01
95 64 0.32
96 59 0.30
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (95 bp):
AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTA
CACTTCAGGGAAATAAGATTTGCTATCTTC
Found at i:72442470 original size:133 final size:132
Alignment explanation
Indices: 72441956--72442576 Score: 441
Period size: 133 Copynumber: 4.6 Consensus size: 132
72441946 CATTTTAATT
* * * * * **
72441956 TGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTCAATCTGCTCCATTATAACTTCAGGG
1 TGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGTTCCACTGCAACTTCAGGG
* * ** * * ** *
72442021 AGGTAAGATTTG-TAACTTCAATCTGCTCCTTTGCAACTTCAGGGAGATAAAATTCGCCA-TGCT
66 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGAATT-GTAACTTC-
*
72442084 AGATT
129 A-ATC
* * * ** *
72442089 TAGTCTGACCTACTGCAACTTCAGAG-GTATAGGATTTAGT---TTTAATCTACTCCGCTGCAAC
1 T-G-CT--CC-ACTACAACTTCAGAGAG-ATAAGATTT-GTAACTTCAATCTGTTCCACTGCAAC
* * * * * *
72442150 TTCAGGGGGATAAGATTTGTAACTTGTAGT-TTTAATCTGTTCCACTACAACTTCAGGGAAATAA
59 TTCAGGGAGATAAGATTTG---C---TA-TCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT-A
** * *
72442214 GGTTTGCTATCTTCATTC
116 GAATTG-TAACTTCAATC
* * *
72442232 TGCTCCACTACAACTTCAGGGAGATAAGGTTTGTAACTTGTAGCTTTAATCTGTTCCACTAC-AC
1 TGCTCCACTACAACTTCAGAGAGATAAGATTTGTAAC-T-T--C---AATCTGTTCCACTGCAAC
* * *
72442296 TTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGT
59 TTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT-AGAATTGT
72442361 AA-TTCCAATC
123 AACTT-CAATC
* * *
72442371 TGCTCCACTACAACTTCAGTGAGATAAGATTTGTAACTTCAATCTGTTCTACTGCAACTTCAGAG
1 TGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGTTCCACTGCAACTTCAGGG
* *
72442436 AGATAAGATTTGCTATCTTCAATCTGCTCTACTGCAACTTCAGAGAGATAGAATTGTAACTTTAA
66 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGAATTGTAACTTCAA
*
72442501 TT
131 TC
* * * * ** * *
72442503 TGCTCTACTGCAACTTCAGAGAGATAAAATTTGCTATCTTCAATCTACTCCATTGCAACTTTAGG
1 TGCTCCACTACAACTTCAGAGAGATAAGATTTG-TAACTTCAATCTGTTCCACTGCAACTTCAGG
72442568 GAGATAAGA
65 GAGATAAGA
72442577 CTCGCCACGA
Statistics
Matches: 386, Mismatches: 68, Indels: 68
0.74 0.13 0.13
Matches are distributed among these distances:
132 54 0.14
133 90 0.23
134 1 0.00
135 3 0.01
136 32 0.08
137 6 0.02
138 44 0.11
139 47 0.12
140 36 0.09
141 3 0.01
142 2 0.01
143 32 0.08
144 4 0.01
145 2 0.01
146 19 0.05
147 11 0.03
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (132 bp):
TGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGTTCCACTGCAACTTCAGGG
AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGAATTGTAACTTCAA
TC
Found at i:72446674 original size:19 final size:18
Alignment explanation
Indices: 72446647--72446689 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
72446637 TTCCTTGTAC
*
72446647 TCATAACAACCCATATTTT
1 TCATCACAA-CCATATTTT
*
72446666 TCATCACAATCATATTTT
1 TCATCACAACCATATTTT
72446684 T-ATCAC
1 TCATCAC
72446690 TTATTTTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 9 0.41
19 8 0.36
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.40
Consensus pattern (18 bp):
TCATCACAACCATATTTT
Found at i:72450272 original size:29 final size:29
Alignment explanation
Indices: 72450230--72450288 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
72450220 CAAACCTGAC
*
72450230 AATTCCTTCGGAAATACATCCGTGTACTT
1 AATTCCTTCGGAAATACATCCGCGTACTT
*
72450259 AATTCTTTCGGAAATACATCCGCGTACTT
1 AATTCCTTCGGAAATACATCCGCGTACTT
72450288 A
1 A
72450289 CATACAACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (29 bp):
AATTCCTTCGGAAATACATCCGCGTACTT
Found at i:72461918 original size:24 final size:24
Alignment explanation
Indices: 72461891--72461940 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
72461881 ACATCATCTC
72461891 ACTATATCAATAACCATTTCATGA
1 ACTATATCAATAACCATTTCATGA
*
72461915 ACTATATTAATAACCATTTCATGA
1 ACTATATCAATAACCATTTCATGA
72461939 AC
1 AC
72461941 CCATGGTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.34
Consensus pattern (24 bp):
ACTATATCAATAACCATTTCATGA
Found at i:72463250 original size:5 final size:5
Alignment explanation
Indices: 72463161--72463241 Score: 162
Period size: 5 Copynumber: 16.2 Consensus size: 5
72463151 TTTAATTATA
72463161 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
72463211 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
72463242 ATAAAATAAC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 76 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:72469450 original size:32 final size:32
Alignment explanation
Indices: 72469409--72469469 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
72469399 TGTTAGTTGT
*
72469409 AATATTTGTAAGTGTACAATGAAACACTTTGA
1 AATATTTGTAAGTGTACAATAAAACACTTTGA
* *
72469441 AATATTTGTAATTGTACATTAAAACACTT
1 AATATTTGTAAGTGTACAATAAAACACTT
72469470 AGAGCAGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (32 bp):
AATATTTGTAAGTGTACAATAAAACACTTTGA
Found at i:72476489 original size:5 final size:5
Alignment explanation
Indices: 72476479--72476510 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
72476469 GGAAAATATT
72476479 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
72476511 TTACAACAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:72478570 original size:27 final size:27
Alignment explanation
Indices: 72478532--72478583 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
72478522 AATAAAAAAA
*
72478532 TAGCATTGAAGG-AAGAAGAAGAATCCT
1 TAGCATTGAAGGCAA-AAAAAGAATCCT
72478559 TAGCATTGAAGGCAAAAAAAGAATC
1 TAGCATTGAAGGCAAAAAAAGAATC
72478584 ATTCTCACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.48, C:0.12, G:0.23, T:0.17
Consensus pattern (27 bp):
TAGCATTGAAGGCAAAAAAAGAATCCT
Found at i:72479149 original size:2 final size:2
Alignment explanation
Indices: 72479142--72479174 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
72479132 GAAATAAACA
72479142 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
72479175 AATTAAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72481373 original size:27 final size:28
Alignment explanation
Indices: 72481324--72481392 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
72481314 ATAGTGAGTC
*
72481324 CGCACAC-TAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
72481350 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
72481378 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72481393 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 7 0.18
27 13 0.33
28 19 0.49
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:72495324 original size:40 final size:40
Alignment explanation
Indices: 72495265--72495433 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
72495255 CGGGACTTTA
* * *
72495265 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
72495305 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
72495345 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
72495385 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
72495425 CCCGGATAT
1 CCCGGATAT
72495434 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:72506392 original size:24 final size:24
Alignment explanation
Indices: 72506345--72506393 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
72506335 TCAAATATTG
*
72506345 GAACACCAATTCCAAAATGAAAAA
1 GAACACCAATTCCAAAATCAAAAA
72506369 GAACACCAATTCCAAAATCCAAAAA
1 GAACACCAATTCCAAAAT-CAAAAA
72506394 TAAAGAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.57, C:0.24, G:0.06, T:0.12
Consensus pattern (24 bp):
GAACACCAATTCCAAAATCAAAAA
Found at i:72514044 original size:142 final size:142
Alignment explanation
Indices: 72513788--72514077 Score: 544
Period size: 142 Copynumber: 2.0 Consensus size: 142
72513778 ATTAATTTTT
72513788 ATAATTTATTGAGTGATTAGATGCATGTGTTAGAATATCGATAGAAAATTTCATGAATTGCATGT
1 ATAATTTATTGAGTGATTAGATGCATGTGTTAGAATATCGATAGAAAATTTCATGAATTGCATGT
72513853 CTAATTTGCCTATTAGAACTTAATTGCAAAAGTTGATAAATATGAGTTTTAGATGTTAAAAGATT
66 CTAATTTGCCTATTAGAACTTAATTGCAAAAGTTGATAAATATGAGTTTTAGATGTTAAAAGATT
72513918 TAATTGAAGAGC
131 TAATTGAAGAGC
*
72513930 ATAATTTATTGAGTGATTAGATGCATGTGTTAGAATATCGATAGAAAATTTCATGAATTGCGTGT
1 ATAATTTATTGAGTGATTAGATGCATGTGTTAGAATATCGATAGAAAATTTCATGAATTGCATGT
* * *
72513995 CTAATTTGCCTATTAGGACTTAATTGCAAAAGTTGATTAATATGAGTTTTAGATGTTAAAGGATT
66 CTAATTTGCCTATTAGAACTTAATTGCAAAAGTTGATAAATATGAGTTTTAGATGTTAAAAGATT
72514060 TAATTGAAGAGC
131 TAATTGAAGAGC
72514072 ATAATT
1 ATAATT
72514078 GAAGTAGAAG
Statistics
Matches: 144, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 144 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (142 bp):
ATAATTTATTGAGTGATTAGATGCATGTGTTAGAATATCGATAGAAAATTTCATGAATTGCATGT
CTAATTTGCCTATTAGAACTTAATTGCAAAAGTTGATAAATATGAGTTTTAGATGTTAAAAGATT
TAATTGAAGAGC
Found at i:72521665 original size:25 final size:27
Alignment explanation
Indices: 72521628--72521680 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
72521618 TCAAACATGC
72521628 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
72521654 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
72521680 A
1 A
72521681 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:72523212 original size:24 final size:25
Alignment explanation
Indices: 72523159--72523237 Score: 142
Period size: 25 Copynumber: 3.2 Consensus size: 25
72523149 TGAAATTCCC
72523159 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-CCATT
72523185 ATCAT-GAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
72523209 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
72523234 ATCA
1 ATCA
72523238 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
24 10 0.19
25 37 0.71
26 5 0.10
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (25 bp):
ATCATGGAACATTTACCTAACCATT
Found at i:72528665 original size:25 final size:26
Alignment explanation
Indices: 72528628--72528679 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
72528618 TCAAACATGC
72528628 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
72528654 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
72528679 A
1 A
72528680 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:72530193 original size:26 final size:26
Alignment explanation
Indices: 72530163--72530244 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
72530153 TGAAATTCCC
72530163 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
72530189 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
72530215 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
72530241 ATCA
1 ATCA
72530245 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:72532451 original size:2 final size:2
Alignment explanation
Indices: 72532444--72532481 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
72532434 TGAATCAAAG
* *
72532444 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72532482 TCGATTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72532681 original size:56 final size:55
Alignment explanation
Indices: 72532585--72532849 Score: 314
Period size: 56 Copynumber: 4.7 Consensus size: 55
72532575 ATGTATTTGA
* * * * * * *
72532585 GGCATCGACATGTGATTCTGATATATGTGTGTGAGAAAGACCATGTTTTATACATC
1 GGCATCAATATGTGATTC-GATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
** *
72532641 AACATCAATATGTGATTACGATATATATGTGCGAGTAAGACCACGTTTTATACGTT
1 GGCATCAATATGTGATT-CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
* * * *
72532697 GGCATCGATATGTGATTTGATATATCTGTGCGAGTAAGACCATGTTTTATACGTT
1 GGCATCAATATGTGATTCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
* * *
72532752 GGCATCAATATGTGATCCCGATATATGTGTGCGAGTAAGACCGCATTTTATACGTT
1 GGCATCAATATGTGAT-TCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
* * *
72532808 GGCATCGATATGTGACTCCAATATATGTGTGCGAGTAAGACC
1 GGCATCAATATGTGA-TTCGATATATGTGTGCGAGTAAGACC
72532850 CTGTCTGGGA
Statistics
Matches: 181, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
55 50 0.28
56 129 0.71
57 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (55 bp):
GGCATCAATATGTGATTCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
Found at i:72532744 original size:111 final size:111
Alignment explanation
Indices: 72532585--72532849 Score: 368
Period size: 111 Copynumber: 2.4 Consensus size: 111
72532575 ATGTATTTGA
* * *
72532585 GGCATCGACATGTGATTCTGATATATGTGTGTGAGAAAGACCATGTTTTATACATCAACATCAAT
1 GGCATCGATATGTGATT-TGATATATGTGTGCGAGTAAGACCATGTTTTATACATCAACATCAAT
* *
72532650 ATGTGATTACGATATATATGTGCGAGTAAGACCACGTTTTATACGTT
65 ATGTGATCACGATATATATGTGCGAGTAAGACCACATTTTATACGTT
* * ***
72532697 GGCATCGATATGTGATTTGATATATCTGTGCGAGTAAGACCATGTTTTATACGTTGGCATCAATA
1 GGCATCGATATGTGATTTGATATATGTGTGCGAGTAAGACCATGTTTTATACATCAACATCAATA
* * *
72532762 TGTGATCCCGATATATGTGTGCGAGTAAGACCGCATTTTATACGTT
66 TGTGATCACGATATATATGTGCGAGTAAGACCACATTTTATACGTT
***
72532808 GGCATCGATATGTGACTCCAATATATGTGTGCGAGTAAGACC
1 GGCATCGATATGTGA-TTTGATATATGTGTGCGAGTAAGACC
72532850 CTGTCTGGGA
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
111 97 0.72
112 38 0.28
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (111 bp):
GGCATCGATATGTGATTTGATATATGTGTGCGAGTAAGACCATGTTTTATACATCAACATCAATA
TGTGATCACGATATATATGTGCGAGTAAGACCACATTTTATACGTT
Found at i:72532867 original size:56 final size:54
Alignment explanation
Indices: 72532585--72532879 Score: 263
Period size: 56 Copynumber: 5.3 Consensus size: 54
72532575 ATGTATTTGA
* * * * * * * *
72532585 GGCATCGACATGTGATTCTGATATATGTGTGTGAGAAAGACCATGTTTTATACATC
1 GGCATCAATATGTGA-TCCGATATATGTGTGCGAGTAAGACCCTG-TTTATACGTT
** * *
72532641 AACATCAATATGTGATTACGATATATATGTGCGAGTAAGACCAC-GTTTTATACGTT
1 GGCATCAATATGTGA-TCCGATATATGTGTGCGAGTAAGACC-CTG-TTTATACGTT
* ** * *
72532697 GGCATCGATATGTGATTTGATATATCTGTGCGAGTAAGACCATGTTTTATACGTT
1 GGCATCAATATGTGATCCGATATATGTGTGCGAGTAAGACCCTG-TTTATACGTT
72532752 GGCATCAATATGTGATCCCGATATATGTGTGCGAGTAAGACCGCAT-TTTATACGTT
1 GGCATCAATATGTGAT-CCGATATATGTGTGCGAGTAAGACC-C-TGTTTATACGTT
* * ***
72532808 GGCATCGATATGTGACTCCAATATATGTGTGCGAGTAAGACCCTGTCTGGGACAG-T
1 GGCATCAATATGTGA-TCCGATATATGTGTGCGAGTAAGACCCTGT-TTATAC-GTT
72532864 GGCATCAATATGTGAT
1 GGCATCAATATGTGAT
72532880 TACATGTAAG
Statistics
Matches: 200, Mismatches: 30, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
54 1 0.00
55 53 0.26
56 143 0.71
57 2 0.01
58 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (54 bp):
GGCATCAATATGTGATCCGATATATGTGTGCGAGTAAGACCCTGTTTATACGTT
Found at i:72534254 original size:12 final size:12
Alignment explanation
Indices: 72534237--72534262 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72534227 AATAAAACAA
72534237 AAGAAAATAAAT
1 AAGAAAATAAAT
72534249 AAGAAAATAAAT
1 AAGAAAATAAAT
72534261 AA
1 AA
72534263 ATATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
AAGAAAATAAAT
Found at i:72536069 original size:39 final size:36
Alignment explanation
Indices: 72535958--72536075 Score: 104
Period size: 34 Copynumber: 3.2 Consensus size: 36
72535948 ATTTATGAAT
*
72535958 TTTTATTACATATTATATTTTACT-ATCTATCA-TA-ATA
1 TTTT-TTATATATTATATTTTA-TAAT-TAT-ATTATATA
72535995 TTTTTTATATATTATATTTTATACATTATATTATATA
1 TTTTTTATATATTATATTTTATA-ATTATATTATATA
*
72536032 --TTTT-TATATTATATTATATAATTTATATTACTATA
1 TTTTTTATATATTATATTTTATAA-TTATATTA-TATA
72536067 TATTTTTAT
1 T-TTTTTAT
72536076 TTGTAAATTA
Statistics
Matches: 69, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
33 1 0.01
34 23 0.33
35 10 0.14
36 21 0.30
37 9 0.13
38 4 0.06
39 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (36 bp):
TTTTTTATATATTATATTTTATAATTATATTATATA
Found at i:72536108 original size:5 final size:5
Alignment explanation
Indices: 72536002--72536092 Score: 59
Period size: 5 Copynumber: 18.8 Consensus size: 5
72535992 ATATTTTTTA
* * *
72536002 TATAT TATAT TTTA- TACAT TATAT TATA- TATTTT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT
* * *
72536051 AAT-T TATAT TACTA- TATAT T-T-T TATTT GTAAAT TATAT TATA
1 TATAT TATAT TA-TAT TATAT TATAT TATAT -TATAT TATAT TATA
72536093 CACTATATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
3 2 0.03
4 11 0.17
5 46 0.70
6 7 0.11
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:72539136 original size:76 final size:76
Alignment explanation
Indices: 72538912--72539143 Score: 286
Period size: 76 Copynumber: 3.1 Consensus size: 76
72538902 GCTAATCGGA
* * * * * *
72538912 TAAATTGATGATATCAAAAGTGTG-CTCAGCACTAGTTGAATAAACCGACAATGAGTTGCGCCTA
1 TAAACTGACGATATCAAATGTGTGCCT-AGCACTAGTTGAATATACCGACAATGAGTTGCACCCA
* *
72538976 GCACTAGTCAAG
65 ACACTAGTTAAG
* * * * *
72538988 TAAACTAACGATATCAAATGTGTGCCCAGCACTAGTTGAATGTACCGATAATGAGTTGCACCCCA
1 TAAACTGACGATATCAAATGTGTGCCTAGCACTAGTTGAATATACCGACAATGAGTTGCACCCAA
**
72539053 CACTAGTTGGG
66 CACTAGTTAAG
* *
72539064 TAAACTGACGATATCAAATGTGTGCCTAGCACTAGTTGAATTTACCAACAATGAGTTGCACCCAA
1 TAAACTGACGATATCAAATGTGTGCCTAGCACTAGTTGAATATACCGACAATGAGTTGCACCCAA
*
72539129 CACTAGTTAAA
66 CACTAGTTAAG
72539140 TAAA
1 TAAA
72539144 TCGACAAATA
Statistics
Matches: 131, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
76 130 0.99
77 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (76 bp):
TAAACTGACGATATCAAATGTGTGCCTAGCACTAGTTGAATATACCGACAATGAGTTGCACCCAA
CACTAGTTAAG
Found at i:72541982 original size:15 final size:15
Alignment explanation
Indices: 72541962--72541991 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
72541952 CAGCAACAAT
72541962 TAACCAACAACCCAG
1 TAACCAACAACCCAG
72541977 TAACCAACAACCCAG
1 TAACCAACAACCCAG
72541992 CAATAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.40, G:0.07, T:0.07
Consensus pattern (15 bp):
TAACCAACAACCCAG
Found at i:72548413 original size:19 final size:18
Alignment explanation
Indices: 72548389--72548431 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
72548379 TAGGTTGTTT
* *
72548389 TGGGCCTCGATGGGTTGTG
1 TGGGCCTCAATGGGCT-TG
72548408 TGGGCC-CAATGGGCTTG
1 TGGGCCTCAATGGGCTTG
72548425 TGGGCCT
1 TGGGCCT
72548432 ACACAGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 8 0.38
18 7 0.33
19 6 0.29
ACGTcount: A:0.07, C:0.21, G:0.44, T:0.28
Consensus pattern (18 bp):
TGGGCCTCAATGGGCTTG
Found at i:72548710 original size:27 final size:27
Alignment explanation
Indices: 72548679--72548749 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
72548669 CCCAGTTTAC
*
72548679 AAAATTACTGAAATACCCCTGTAGGGT
1 AAAATGACTGAAATACCCCTGTAGGGT
* * * *
72548706 GAAATGACTGTAATGCCCTTGTAGGGT
1 AAAATGACTGAAATACCCCTGTAGGGT
* *
72548733 AAAATGACCGTAATACC
1 AAAATGACTGAAATACC
72548750 TTTGTATGAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCTGTAGGGT
Found at i:72548754 original size:27 final size:27
Alignment explanation
Indices: 72548690--72548764 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
72548680 AAATTACTGA
* * *
72548690 AATACCCCTGTAGGGTGAAATGACTGT
1 AATACCCTTGTAGGGTAAAATGACCGT
*
72548717 AATGCCCTTGTAGGGTAAAATGACCGT
1 AATACCCTTGTAGGGTAAAATGACCGT
* * *
72548744 AATACCTTTGTATGATAAAAT
1 AATACCCTTGTAGGGTAAAAT
72548765 AATGATTATA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (27 bp):
AATACCCTTGTAGGGTAAAATGACCGT
Found at i:72548957 original size:27 final size:27
Alignment explanation
Indices: 72548927--72548991 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
72548917 TGTCATATTC
*
72548927 ACTGTTATTGGTGGCGATGCCACAATT
1 ACTGTTACTGGTGGCGATGCCACAATT
* ** *
72548954 ACTGATACTGGTGGCTTTGCCACATTT
1 ACTGTTACTGGTGGCGATGCCACAATT
*
72548981 ACTGTTTCTGG
1 ACTGTTACTGG
72548992 CAGCTATGCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (27 bp):
ACTGTTACTGGTGGCGATGCCACAATT
Found at i:72552152 original size:2 final size:2
Alignment explanation
Indices: 72552145--72552178 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
72552135 TAATCGTTTC
72552145 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72552179 CAAAGTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72557331 original size:14 final size:13
Alignment explanation
Indices: 72557312--72557367 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 13
72557302 AAAATATGTA
72557312 ATAATATAAATCAT
1 ATAATATAAAT-AT
72557326 ATAATAATAAAATAT
1 ATAAT-AT-AAATAT
72557341 ATGTAATA-AAATAT
1 A--TAATATAAATAT
72557355 ATAATAT-AATAT
1 ATAATATAAATAT
72557367 A
1 A
72557368 AGAAGAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 11 0.30
14 12 0.32
15 5 0.14
16 5 0.14
17 4 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
ATAATATAAATAT
Found at i:72557332 original size:17 final size:15
Alignment explanation
Indices: 72557302--72557360 Score: 75
Period size: 14 Copynumber: 3.9 Consensus size: 15
72557292 TTTACAAATA
*
72557302 AAAATATGTAATAAT
1 AAAATATATAATAAT
72557317 ATAAATCATATAATAAT
1 A-AAAT-ATATAATAAT
*
72557334 AAAATATAT-GTAAT
1 AAAATATATAATAAT
72557348 AAAATATATAATA
1 AAAATATATAATA
72557361 TAATATAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.34
15 7 0.18
16 8 0.21
17 10 0.26
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATATATAATAAT
Found at i:72557348 original size:34 final size:33
Alignment explanation
Indices: 72557298--72557365 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
72557288 ATAATTTACA
* *
72557298 AATAAAAATATGTAATAATATAAATCATATAAT
1 AATAAAAATATGTAATAAAATAAATAATATAAT
*
72557331 AATAAAATATATGTAATAAAATATATAATATAAT
1 AATAAAA-ATATGTAATAAAATAAATAATATAAT
72557365 A
1 A
72557366 TAAGAAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 7 0.23
34 24 0.77
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (33 bp):
AATAAAAATATGTAATAAAATAAATAATATAAT
Found at i:72557359 original size:12 final size:12
Alignment explanation
Indices: 72557324--72557367 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
72557314 AATATAAATC
72557324 ATATAATAATAAA
1 ATAT-ATAATAAA
72557337 ATATATGTAATAAA
1 ATATA--TAATAAA
*
72557351 ATATATAATATA
1 ATATATAATAAA
72557363 ATATA
1 ATATA
72557368 AGAAGAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.43
13 4 0.14
14 12 0.43
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:72557502 original size:17 final size:16
Alignment explanation
Indices: 72557480--72557654 Score: 64
Period size: 15 Copynumber: 11.4 Consensus size: 16
72557470 TAAATAAAAT
72557480 ATATAATAATATGAATA
1 ATATAATAATAT-AATA
72557497 ATATAAT-ATATAAT-
1 ATATAATAATATAATA
72557511 ATATAA-AA-ATAATA
1 ATATAATAATATAATA
* *
72557525 TGTACTAA-AACAT-ATA
1 -ATA-TAATAATATAATA
72557541 ATAT-A-AATATAAATA
1 ATATAATAATAT-AATA
72557556 ATAT-ATATATATAA-A
1 ATATAATA-ATATAATA
*
72557571 TATATGAA-AA-A-ATTA
1 -ATAT-AATAATATAATA
72557586 A-A-AAT-ATATAATA
1 ATATAATAATATAATA
*
72557599 ATATAATAGATAAAAT-
1 ATATAATA-ATATAATA
72557615 ATAGTAA-AATA-AATA
1 ATA-TAATAATATAATA
*
72557630 ATATATATAATGAAAATA
1 ATATA-ATAAT-ATAATA
72557648 CATATAA
1 -ATATAA
72557655 CATATAGTAA
Statistics
Matches: 125, Mismatches: 6, Indels: 53
0.68 0.03 0.29
Matches are distributed among these distances:
11 3 0.02
12 1 0.01
13 15 0.12
14 16 0.13
15 28 0.22
16 27 0.22
17 24 0.19
18 6 0.05
19 5 0.04
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (16 bp):
ATATAATAATATAATA
Found at i:72557574 original size:34 final size:35
Alignment explanation
Indices: 72557468--72557574 Score: 87
Period size: 39 Copynumber: 3.0 Consensus size: 35
72557458 TTACTAACTT
*
72557468 TATAAATA-AAAT-ATATA-ATAATATGAATAATATAA
1 TATAAATATAAATAATATATAT-ATAT-AA-CATATAA
* * *
72557503 TATATAATATATAAAAATAATATGTACTAAAACATATAA
1 TATA-AATATA-AATAAT-ATATATA-TATAACATATAA
72557542 TATAAATATAAATAATATATATATATAA-ATATA
1 TATAAATATAAATAATATATATATATAACATATA
72557575 TGAAAAAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
34 5 0.09
35 8 0.14
36 10 0.17
37 6 0.10
38 8 0.14
39 12 0.21
40 6 0.10
41 3 0.05
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (35 bp):
TATAAATATAAATAATATATATATATAACATATAA
Found at i:72557615 original size:43 final size:40
Alignment explanation
Indices: 72557540--72557676 Score: 109
Period size: 43 Copynumber: 3.3 Consensus size: 40
72557530 TAAAACATAT
* *
72557540 AATATAAATATA-AATAATATATATATATAAATATATGAAAA
1 AATAAAAATATATAATAATATATAGATATAAATATA-G-AAA
*
72557581 AATTAAAAATATATAATAATATAATAGATA-AAATATAGTAA
1 AA-TAAAAATATATAATAATAT-ATAGATATAAATATAGAAA
* * *
72557622 AATAAATAATATAT-ATAATGAAAATACATATAACATATAGTAA
1 AATAAA-AATATATAATAAT--ATATAGATATAA-ATATAGAAA
**
72557665 AATGCAAATATA
1 AATAAAAATATA
72557677 ACAAAATCAA
Statistics
Matches: 81, Mismatches: 7, Indels: 15
0.79 0.07 0.15
Matches are distributed among these distances:
40 9 0.11
41 19 0.23
42 19 0.23
43 28 0.35
44 6 0.07
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (40 bp):
AATAAAAATATATAATAATATATAGATATAAATATAGAAA
Found at i:72557630 original size:19 final size:19
Alignment explanation
Indices: 72557603--72557667 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 19
72557593 ATAATAATAT
*
72557603 AATAGATAAAATATAGTAA
1 AATAAATAAAATATAGTAA
*
72557622 AATAAATAATATATATAATGAA
1 AATAAATAA-A-ATATAGT-AA
*
72557644 AATACATATAACATATAGTAA
1 AATA-A-ATAAAATATAGTAA
72557665 AAT
1 AAT
72557668 GCAAATATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 8 0.22
20 1 0.03
21 11 0.30
22 12 0.32
23 1 0.03
24 4 0.11
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (19 bp):
AATAAATAAAATATAGTAA
Found at i:72557698 original size:16 final size:17
Alignment explanation
Indices: 72557656--72557698 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
72557646 TACATATAAC
72557656 ATATAGTAAAATGCAAAT
1 ATATA-TAAAATGCAAAT
*
72557674 ATA-ACAAAAT-CAAAT
1 ATATATAAAATGCAAAT
72557689 ATATATAAAA
1 ATATATAAAA
72557699 ATATATGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 8 0.36
16 10 0.45
17 1 0.05
18 3 0.14
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.26
Consensus pattern (17 bp):
ATATATAAAATGCAAAT
Found at i:72559818 original size:289 final size:289
Alignment explanation
Indices: 72559277--72560069 Score: 1271
Period size: 289 Copynumber: 2.7 Consensus size: 289
72559267 TTCGATCTAC
* * * * * ** * *
72559277 TCTCTGCCAATGCAGGGATGCAAAATCATCTTAGATTTGCTTCAGCGTAGGCACGCAAAAGCCAA
1 TCTCTGACAATACAGAGATGCAAAATCATCTTAGACTTGCTTCAACGTAAACACGTAAAAACCAA
** * * ** **
72559342 ATCAATTATGCCTTCGAATTACTCCTTGTAAGTACAAGGATACCAAATCATCTTGGATTTGTTTG
66 ATCAGCTATGGCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTG
*
72559407 AGAACATCTGAAAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
131 AGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
* * * *
72559472 TCATTTTGGATCTGCTTTAGTATAAACATCTGAAGATTAGATCTGCTACGTGTCTGCCCTTCGTC
196 TCATCTTGGATCTGCTTCAGTATAAACATCTAAAGATTAGATCTGCTACGTGTCTGCCCTCCGTC
* *
72559537 GAATATGGAGACGCTAAACTTTGATTTGT
261 GAATATGGAGACGCCAAACTTCGATTTGT
*
72559566 TCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTAAAAACCAA
1 TCTCTGACAATACAGAGATGCAAAATCATCTTAGACTTGCTTCAACGTAAACACGTAAAAACCAA
*
72559631 ATCAGCTATGGCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTTTTTG
66 ATCAGCTATGGCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTG
72559696 AGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
131 AGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
*
72559761 TCATCTTGGATCTGCTTCAGTATAAACATCTAAAGATTAGATCTGCTATGTGTCTGCCCTCCGTC
196 TCATCTTGGATCTGCTTCAGTATAAACATCTAAAGATTAGATCTGCTACGTGTCTGCCCTCCGTC
72559826 GAATATGGAGACGCCAAACTTCGATTTGT
261 GAATATGGAGACGCCAAACTTCGATTTGT
* * *
72559855 TCTCTGACAATACAGAGATGCTAAATCATCTTAGACTTGCTTCATCGTAAACACGTGAAAACCAA
1 TCTCTGACAATACAGAGATGCAAAATCATCTTAGACTTGCTTCAACGTAAACACGTAAAAACCAA
* * *
72559920 ATTAGCTATGGTTTCGATTTGTTCCTTGTAAACACAAGGATACCAAATCTTCTTGGATTTGTTTG
66 ATCAGCTATGGCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTG
*
72559985 AGAACAACTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
131 AGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
*
72560050 TCATCTTAGATCTGCTTCAG
196 TCATCTTGGATCTGCTTCAG
72560070 CCAGATCTGT
Statistics
Matches: 468, Mismatches: 36, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
289 468 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (289 bp):
TCTCTGACAATACAGAGATGCAAAATCATCTTAGACTTGCTTCAACGTAAACACGTAAAAACCAA
ATCAGCTATGGCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTG
AGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
TCATCTTGGATCTGCTTCAGTATAAACATCTAAAGATTAGATCTGCTACGTGTCTGCCCTCCGTC
GAATATGGAGACGCCAAACTTCGATTTGT
Found at i:72564193 original size:47 final size:47
Alignment explanation
Indices: 72564117--72564247 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
72564107 CAAAATCAAT
* * * *
72564117 AAATACATATACGATGGCCCTTAGCCAAATCAAGGTAACTTATCCCG
1 AAATACCTATACGATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * * * * *
72564164 GAGTACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTCCTCTCA
1 AAATACCTATACGATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
*
72564211 AAATACCTATATGATGGCCCGTAGCCAAATCAAGGTA
1 AAATACCTATACGATGGCCCGTAGCCAAATCAAGGTA
72564248 CTATTTGTAC
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (47 bp):
AAATACCTATACGATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
Found at i:72565708 original size:93 final size:93
Alignment explanation
Indices: 72565579--72565749 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
72565569 CGCCCATAAG
* * *
72565579 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
72565644 ATGAGTTCGGATGTCTAGTTACATCTCA
66 ACGAGTTCGGATGTCTAGTTACATCTCA
*
72565672 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
72565737 ACGAGTTCGGATG
66 ACGAGTTCGGATG
72565750 CTCAACCATC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGTCTAGTTACATCTCA
Found at i:72565747 original size:46 final size:46
Alignment explanation
Indices: 72565572--72565747 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
72565562 TGTAACCCGC
* * * *
72565572 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
72565618 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGTCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
72565668 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
72565711 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
72565748 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:72565766 original size:46 final size:46
Alignment explanation
Indices: 72565621--72565759 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
72565611 TTCGCATCCA
*
72565621 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATG-TCTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
72565669 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
72565714 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
72565760 CTAGTGACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.38
47 29 0.40
48 2 0.03
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:72572767 original size:28 final size:28
Alignment explanation
Indices: 72572721--72572789 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
72572711 TTTAAAACCC
*
72572721 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
72572748 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
72572776 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
72572790 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:72574439 original size:20 final size:20
Alignment explanation
Indices: 72574416--72574453 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
72574406 CACATCCAAA
*
72574416 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
72574436 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
72574454 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:72580768 original size:28 final size:28
Alignment explanation
Indices: 72580723--72580791 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
72580713 ATTAAAACCC
*
72580723 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
72580750 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
72580778 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
72580792 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:72581988 original size:28 final size:28
Alignment explanation
Indices: 72581943--72582011 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
72581933 CTTAAAACCC
*
72581943 TAGGGGT-ATATCGGTAATTTTGCTATT
1 TAGGGGTAATTTCGGTAATTTTGCTATT
*
72581970 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTATT
72581998 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
72582012 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.09, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTATT
Found at i:72583206 original size:28 final size:28
Alignment explanation
Indices: 72583160--72583228 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
72583150 TTTAAAACCC
*
72583160 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
72583187 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
72583215 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
72583229 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:72584880 original size:20 final size:20
Alignment explanation
Indices: 72584857--72584894 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
72584847 CACATCCAAA
*
72584857 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
72584877 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
72584895 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:72593300 original size:16 final size:17
Alignment explanation
Indices: 72593281--72593313 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
72593271 TTTTCCATTC
*
72593281 TTTTGGGTTTTG-GCAT
1 TTTTGGCTTTTGAGCAT
72593297 TTTTGGCTTTTGAGCAT
1 TTTTGGCTTTTGAGCAT
72593314 AAAGAAGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.09, C:0.09, G:0.27, T:0.55
Consensus pattern (17 bp):
TTTTGGCTTTTGAGCAT
Found at i:72598662 original size:6 final size:6
Alignment explanation
Indices: 72598651--72598690 Score: 71
Period size: 6 Copynumber: 6.5 Consensus size: 6
72598641 TTGTTTTATC
72598651 TTATTT TTATTT TTATTT TTATTT TTATTT TTATCTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTA
72598691 AAAACTTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:72600157 original size:27 final size:27
Alignment explanation
Indices: 72600127--72600186 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
72600117 ATACATCACG
*
72600127 TAGGGGCAAAACAGTCATTTTATCATA
1 TAGGGGCAAAACAGTCACTTTATCATA
*
72600154 TAGGGGCAAAATAGTCACTTTATCATA
1 TAGGGGCAAAACAGTCACTTTATCATA
72600181 TAGGGG
1 TAGGGG
72600187 GTCTAGGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (27 bp):
TAGGGGCAAAACAGTCACTTTATCATA
Found at i:72603229 original size:20 final size:20
Alignment explanation
Indices: 72603193--72603230 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
72603183 GTTTTTAGGA
*
72603193 TCCACACGGCCTGGGCATTT
1 TCCACACGGCCTAGGCATTT
*
72603213 TCCACACGGCTTAGGCAT
1 TCCACACGGCCTAGGCAT
72603231 ACGCCCATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.34, G:0.24, T:0.24
Consensus pattern (20 bp):
TCCACACGGCCTAGGCATTT
Found at i:72607715 original size:13 final size:13
Alignment explanation
Indices: 72607697--72607722 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72607687 TGCTATAGAA
72607697 AAGATCAGAACCT
1 AAGATCAGAACCT
72607710 AAGATCAGAACCT
1 AAGATCAGAACCT
72607723 TTCTCTCGTC
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:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
AAGATCAGAACCT
Found at i:72610082 original size:51 final size:50
Alignment explanation
Indices: 72609974--72610119 Score: 220
Period size: 51 Copynumber: 2.9 Consensus size: 50
72609964 CTACATCTTT
* * *
72609974 TAAATTATGACATGCATTATGTGACTCTCATGTTAGTTAAGTATGCATCA
1 TAAATAATGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCA
*
72610024 TTAATAATGACATGCATTATGTAACTCTCATGATTAGTTAAGTTTGCATCA
1 TAAATAATGACATGCATTATGTAACTCTCATG-TTAGTTAAGTTTGCATCA
* *
72610075 TAAATAATGACATGCATTATGTAACTCCCATGTTAATTAAAGTTT
1 TAAATAATGACATGCATTATGTAACTCTCATGTTAGTT-AAGTTT
72610120 ATATCTTTAA
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
50 34 0.39
51 53 0.61
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (50 bp):
TAAATAATGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCA
Found at i:72610152 original size:52 final size:51
Alignment explanation
Indices: 72609974--72610153 Score: 186
Period size: 51 Copynumber: 3.5 Consensus size: 51
72609964 CTACATCTTT
* * * * * *
72609974 TAAATTATGACATGCATTATGTGACTCTCATG-TTAGTTAAGTATGCATCA
1 TAAATAATGACATGCATTATGTAACTCCCATGATTAATTAAGTTTACATCA
* * * *
72610024 TTAATAATGACATGCATTATGTAACTCTCATGATTAGTTAAGTTTGCATCA
1 TAAATAATGACATGCATTATGTAACTCCCATGATTAATTAAGTTTACATCA
* *
72610075 TAAATAATGACATGCATTATGTAACTCCCATG-TTAATTAAAGTTTATATCTT
1 TAAATAATGACATGCATTATGTAACTCCCATGATTAATT-AAGTTTACATC-A
* *
72610127 TAAATTAA-GTCATGCATTAAGTAACTC
1 TAAA-TAATGACATGCATTATGTAACTC
72610154 ATTTGTTCAT
Statistics
Matches: 114, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
50 34 0.30
51 56 0.49
52 21 0.18
53 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (51 bp):
TAAATAATGACATGCATTATGTAACTCCCATGATTAATTAAGTTTACATCA
Found at i:72610155 original size:101 final size:100
Alignment explanation
Indices: 72609974--72610155 Score: 224
Period size: 101 Copynumber: 1.8 Consensus size: 100
72609964 CTACATCTTT
* * * * *
72609974 TAAATTATGACATGCATTATGTGACTCTCATGTTAGTTAAGTATGCATCATTAATAATGACATGC
1 TAAATAATGACATGCATTATGTAACTCCCATGTTAATTAAGTATACATCATTAATAATGACATGC
*
72610039 ATTATGTAACTCTCATGATTAGTTAAGTTTGCATCA
66 ATTAAGTAAC-CTCATGATTAGTTAAGTTTGCATCA
* * * *
72610075 TAAATAATGACATGCATTATGTAACTCCCATGTTAATTAAAGTTTATATCTTTAAATTAA-GTCA
1 TAAATAATGACATGCATTATGTAACTCCCATGTTAATT-AAGTATACATCATT-AA-TAATGACA
72610139 TGCATTAAGTAA-CTCAT
63 TGCATTAAGTAACCTCAT
72610156 TTGTTCATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
101 39 0.57
102 10 0.15
103 16 0.24
104 3 0.04
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (100 bp):
TAAATAATGACATGCATTATGTAACTCCCATGTTAATTAAGTATACATCATTAATAATGACATGC
ATTAAGTAACCTCATGATTAGTTAAGTTTGCATCA
Found at i:72616966 original size:17 final size:17
Alignment explanation
Indices: 72616918--72616967 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 17
72616908 TGAGAAAACT
*
72616918 AATTAATTGA-TAAATA
1 AATTTATTGATTAAATA
*
72616934 AATTTA-T--TTAATTA
1 AATTTATTGATTAAATA
72616948 AATTTATTGATTAAATA
1 AATTTATTGATTAAATA
72616965 AAT
1 AAT
72616968 AATGTTTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
14 11 0.41
15 2 0.07
16 5 0.19
17 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (17 bp):
AATTTATTGATTAAATA
Found at i:72617778 original size:20 final size:20
Alignment explanation
Indices: 72617753--72617797 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
72617743 CATGTACGAG
72617753 TAAGAATCCTAGAATTTGTT
1 TAAGAATCCTAGAATTTGTT
72617773 TAAGAATCCTAGAATTTGTT
1 TAAGAATCCTAGAATTTGTT
72617793 TAAGA
1 TAAGA
72617798 GATAAAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (20 bp):
TAAGAATCCTAGAATTTGTT
Found at i:72619157 original size:29 final size:29
Alignment explanation
Indices: 72619115--72619440 Score: 186
Period size: 29 Copynumber: 11.6 Consensus size: 29
72619105 AATACCATAA
*
72619115 AAAGGACAA-CCTTTGTAGCAAAACTCTAG
1 AAAGG-CAAGCCTTTGTGGCAAAACTCTAG
* * *
72619144 AAAGGCAAGCCTTTGTGGCAAACCTGTAA
1 AAAGGCAAGCCTTTGTGGCAAAACTCTAG
* * * *
72619173 AAAGAC-AGCCTTTGTGGAAAAAATCTGG
1 AAAGGCAAGCCTTTGTGGCAAAACTCTAG
* * *
72619201 AAAGGAAAGCCTTTGTGAC-AAAC-CTATT
1 AAAGGCAAGCCTTTGTGGCAAAACTCTA-G
* *
72619229 AAAGGACAA-CATTTGTGGAAAAACTCTAG
1 AAAGG-CAAGCCTTTGTGGCAAAACTCTAG
*
72619258 AAAGGCAAGCCTTTGTGGC-AAAC-CTATT
1 AAAGGCAAGCCTTTGTGGCAAAACTCTA-G
* *
72619286 AAAGGACAA-CCTTTGTTGCAAAACTTTAG
1 AAAGG-CAAGCCTTTGTGGCAAAACTCTAG
* * * *
72619315 AAAGGGAAGCCTTTGTGGC-GAACATGT-T
1 AAAGGCAAGCCTTTGTGGCAAAAC-TCTAG
* * *
72619343 AAAGGAAAACCTTTGTGGAAAAACTCT--
1 AAAGGCAAGCCTTTGTGGCAAAACTCTAG
* *
72619370 --A---AAGCCTTTGTGGCGAACCTCTA-
1 AAAGGCAAGCCTTTGTGGCAAAACTCTAG
* *
72619393 AAAGG-ATAGCCTTTTGTGGCCAAACTCTAA
1 AAAGGCA-AGCC-TTTGTGGCAAAACTCTAG
* *
72619423 AAAGGTAAACCTTTGTGG
1 AAAGGCAAGCCTTTGTGG
72619441 TGAACCTGTT
Statistics
Matches: 228, Mismatches: 46, Indels: 46
0.71 0.14 0.14
Matches are distributed among these distances:
22 17 0.07
25 2 0.01
27 6 0.03
28 86 0.38
29 103 0.45
30 13 0.06
31 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (29 bp):
AAAGGCAAGCCTTTGTGGCAAAACTCTAG
Found at i:72619187 original size:57 final size:57
Alignment explanation
Indices: 72619114--72619449 Score: 326
Period size: 57 Copynumber: 6.0 Consensus size: 57
72619104 AAATACCATA
* *
72619114 AAAAGGACAACCTTTGTAGCAAAACTCTAGAAAGGCAAGCCTTTGTGGCAAACCTGT
1 AAAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGCAAGCCTTTGTGGCAAACCTGT
* * * * * * *
72619171 AAAAAGACAGCCTTTGTGGAAAAAATCTGGAAAGGAAAGCCTTTGTGACAAACCTAT
1 AAAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGCAAGCCTTTGTGGCAAACCTGT
* * *
72619228 TAAAGGACAACATTTGTGGAAAAACTCTAGAAAGGCAAGCCTTTGTGGCAAACCTAT
1 AAAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGCAAGCCTTTGTGGCAAACCTGT
* * * * * * *
72619285 TAAAGGACAACCTTTGTTGCAAAACTTTAGAAAGGGAAGCCTTTGTGGCGAACATGT
1 AAAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGCAAGCCTTTGTGGCAAACCTGT
* * * *
72619342 TAAAGGAAAACCTTTGTGGAAAAACTCT----A---AAGCCTTTGTGGCGAACCTCT
1 AAAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGCAAGCCTTTGTGGCAAACCTGT
* * ** * * * **
72619392 AAAAGGATAGCCTTTTGTGGCCAAACTCTAAAAAGGTAAACCTTTGTGGTGAACCTGT
1 AAAAGGACAACC-TTTGTGGAAAAACTCTAGAAAGGCAAGCCTTTGTGGCAAACCTGT
72619450 TTAAGGACGA
Statistics
Matches: 232, Mismatches: 39, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
50 28 0.12
51 14 0.06
53 1 0.00
55 1 0.00
57 170 0.73
58 18 0.08
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (57 bp):
AAAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGCAAGCCTTTGTGGCAAACCTGT
Found at i:72619397 original size:50 final size:51
Alignment explanation
Indices: 72619321--72619423 Score: 136
Period size: 50 Copynumber: 2.0 Consensus size: 51
72619311 TTAGAAAGGG
* *
72619321 AAGCCTTTGTGGCGAACATGTTAAAGGAAAACC-TTTGTGGAAAAACTCTA
1 AAGCCTTTGTGGCGAACATCTAAAAGGAAAACCTTTTGTGGAAAAACTCTA
* * * **
72619371 AAGCCTTTGTGGCGAACCTCTAAAAGGATAGCCTTTTGTGGCCAAACTCTA
1 AAGCCTTTGTGGCGAACATCTAAAAGGAAAACCTTTTGTGGAAAAACTCTA
72619422 AA
1 AA
72619424 AAGGTAAACC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 28 0.62
51 17 0.38
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (51 bp):
AAGCCTTTGTGGCGAACATCTAAAAGGAAAACCTTTTGTGGAAAAACTCTA
Found at i:72623233 original size:65 final size:64
Alignment explanation
Indices: 72623129--72623271 Score: 250
Period size: 65 Copynumber: 2.2 Consensus size: 64
72623119 GAACTAATTA
* *
72623129 TCTACACGGCCGAAGACACAGGCGTGTGGCATGGCCGTGTGCACAAGTCCGAAAGTTACACAGGG
1 TCTACACGGCC-TAGACACAGGCGTGTGGCATGGCCGTGTGCACAAGTCAGAAAGTTACACAGGG
72623194 TCTACACGGCCTAGCACACAGGCGTGTGGCATGGCCGTGTGCACAAGTCAGAAAGTTACACAGGG
1 TCTACACGGCCTAG-ACACAGGCGTGTGGCATGGCCGTGTGCACAAGTCAGAAAGTTACACAGGG
72623259 TCTACACGGCCTA
1 TCTACACGGCCTA
72623272 TAGCACGGAC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
64 2 0.03
65 73 0.97
ACGTcount: A:0.26, C:0.27, G:0.30, T:0.17
Consensus pattern (64 bp):
TCTACACGGCCTAGACACAGGCGTGTGGCATGGCCGTGTGCACAAGTCAGAAAGTTACACAGGG
Found at i:72630585 original size:22 final size:21
Alignment explanation
Indices: 72630537--72630586 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
72630527 ACGGCCTGTA
**
72630537 ACACGGGCGTATCCTAGGGTC
1 ACACGGGCGTATCCTAGGACC
*
72630558 ACACGGGCGTATCCCTTGGACC
1 ACACGGGCGTAT-CCTAGGACC
72630580 ACACGGG
1 ACACGGG
72630587 TGTGTGAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (21 bp):
ACACGGGCGTATCCTAGGACC
Found at i:72643536 original size:30 final size:30
Alignment explanation
Indices: 72643500--72643560 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
72643490 AGTCAACTCG
72643500 TACAGGGATGATGGATCTAGAAGAAGGAAT
1 TACAGGGATGATGGATCTAGAAGAAGGAAT
72643530 TACAGGGATGATGGATCTAGAAGAAGGAAT
1 TACAGGGATGATGGATCTAGAAGAAGGAAT
72643560 T
1 T
72643561 CACGAAGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.07, G:0.33, T:0.21
Consensus pattern (30 bp):
TACAGGGATGATGGATCTAGAAGAAGGAAT
Found at i:72648204 original size:21 final size:21
Alignment explanation
Indices: 72648178--72648223 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
72648168 TAAATATGTC
*
72648178 AAATATT-ATTAAAATTTATAA
1 AAATATTAAATAAAATTTA-AA
72648199 AAATATTAAATAAAATTTAAA
1 AAATATTAAATAAAATTTAAA
72648220 AAAT
1 AAAT
72648224 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATATTAAATAAAATTTAAA
Found at i:72648231 original size:22 final size:22
Alignment explanation
Indices: 72648187--72648233 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
72648177 CAAATATTAT
**
72648187 TAAAATTTATAAAAATATTAAA
1 TAAAATTTATAAAAATAAAAAA
72648209 TAAAATTTA-AAAAATTAAAAAA
1 TAAAATTTATAAAAA-TAAAAAA
72648231 TAA
1 TAA
72648234 TAAAAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATTTATAAAAATAAAAAA
Found at i:72648443 original size:77 final size:77
Alignment explanation
Indices: 72648355--72648517 Score: 303
Period size: 77 Copynumber: 2.1 Consensus size: 77
72648345 TTGTGTATCG
*
72648355 ATGTTTTAATTATATTGGCACCTTTTAGGATCTTTAAAAAATTAAAAATATTTTAGAAAATAAAT
1 ATGTTTTAATTATATTGGCACCTTTTAGGATCTTTAAAAAATTAAAAATATTTAAGAAAATAAAT
72648420 AAATACAAATAA
66 AAATACAAATAA
72648432 ATGTTTTAATTATATTGGCACCTTTTAGGATCTTTAAAAAATTAAAAATATTTAAGAAAATAAAT
1 ATGTTTTAATTATATTGGCACCTTTTAGGATCTTTAAAAAATTAAAAATATTTAAGAAAATAAAT
72648497 AAATACAAATAA
66 AAATACAAATAA
72648509 A--TTTTAATT
1 ATGTTTTAATT
72648518 TTATAAATCG
Statistics
Matches: 85, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
75 8 0.09
77 77 0.91
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (77 bp):
ATGTTTTAATTATATTGGCACCTTTTAGGATCTTTAAAAAATTAAAAATATTTAAGAAAATAAAT
AAATACAAATAA
Found at i:72651608 original size:27 final size:28
Alignment explanation
Indices: 72651578--72651646 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
72651568 AATACACATT
*
72651578 TAAATGATTGAATATG-TTTTTAGTGAA
1 TAAATAATTGAATATGATTTTTAGTGAA
*
72651605 TAAATAATTGAATA-GATTTTTGGTGAA
1 TAAATAATTGAATATGATTTTTAGTGAA
72651632 TAAATAATTGAATAT
1 TAAATAATTGAATAT
72651647 ATTCAGACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (28 bp):
TAAATAATTGAATATGATTTTTAGTGAA
Found at i:72653771 original size:2 final size:2
Alignment explanation
Indices: 72653764--72653799 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
72653754 ATGAATGATA
72653764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72653800 TGTTAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72655019 original size:37 final size:37
Alignment explanation
Indices: 72654978--72655055 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
72654968 AAATACTTGG
* * *
72654978 AAATGATATTTACATGATATATTGAAACGTGACATGA
1 AAATGATATTTACATAATATATTAAAAAGTGACATGA
* * *
72655015 AAATGGTATTTACTTAATATATTAAAAAGTGACATGT
1 AAATGATATTTACATAATATATTAAAAAGTGACATGA
72655052 AAAT
1 AAAT
72655056 ATGTAATTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (37 bp):
AAATGATATTTACATAATATATTAAAAAGTGACATGA
Found at i:72657821 original size:17 final size:17
Alignment explanation
Indices: 72657789--72657820 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
72657779 TGTGATTTTA
72657789 TAAAAAAAATCTAAAAG
1 TAAAAAAAATCTAAAAG
72657806 TAAAAAAAAT-TAAAA
1 TAAAAAAAATCTAAAA
72657821 ATATTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (17 bp):
TAAAAAAAATCTAAAAG
Found at i:72657870 original size:18 final size:19
Alignment explanation
Indices: 72657849--72657892 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
72657839 TTCAAAAAAA
72657849 TTTAAAAATCTATAA-TTT
1 TTTAAAAATCTATAATTTT
*
72657867 TTT-AAAATTTATAATTTT
1 TTTAAAAATCTATAATTTT
72657885 TTTAAAAA
1 TTTAAAAA
72657893 ATTATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 9 0.39
19 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTAAAAATCTATAATTTT
Found at i:72659262 original size:26 final size:26
Alignment explanation
Indices: 72659233--72659360 Score: 111
Period size: 26 Copynumber: 4.9 Consensus size: 26
72659223 TATACCAGGA
72659233 AAAAAGATTTAAAATAAATAATATAT
1 AAAAAGATTTAAAATAAATAATATAT
*
72659259 AAAATA-ATTTAAGATAAATAATATAT
1 AAAA-AGATTTAAAATAAATAATATAT
* * *
72659285 -AAATGAGTTTAAAATAAATATTATGT
1 AAAAAGA-TTTAAAATAAATAATATAT
* *
72659311 AAAAAGAAATTTAATATAAGTAATATA-
1 AAAAAG--ATTTAAAATAAATAATATAT
* *
72659338 AAAAACATCTAAAAATAAA-AATA
1 AAAAAGAT-TTAAAATAAATAATA
72659361 AATGGTATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
25 10 0.12
26 46 0.57
27 10 0.12
28 14 0.17
29 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (26 bp):
AAAAAGATTTAAAATAAATAATATAT
Found at i:72659450 original size:76 final size:79
Alignment explanation
Indices: 72659370--72659528 Score: 172
Period size: 76 Copynumber: 2.1 Consensus size: 79
72659360 AAATGGTATA
* *
72659370 TAAAAAAT-AGATAATACATATAAA-AATTTGAAA-T-TGATAATATTTGAAAAAATTTAAAGTA
1 TAAAAAATGA-ATAATACATATAAACAATTT-AAAGTAT-ATAATATATGAAAAAATTTAAAATA
72659431 A-ATA-ATAAAACAATT
63 ATATATATAAAACAATT
* *
72659446 T--AAAATGAATAATACATATAAAGCAATTTAAAGTATATAGTATATGAAATAATTTAAAATAAT
1 TAAAAAATGAATAATACATATAAA-CAATTTAAAGTATATAATATATGAAAAAATTTAAAATAAT
* *
72659509 ATATCTAAATCAATT
65 ATATATAAAACAATT
72659524 TAAAA
1 TAAAA
72659529 TAGTATAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
74 19 0.28
75 4 0.06
76 29 0.43
77 4 0.06
78 10 0.15
80 2 0.03
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (79 bp):
TAAAAAATGAATAATACATATAAACAATTTAAAGTATATAATATATGAAAAAATTTAAAATAATA
TATATAAAACAATT
Found at i:72659480 original size:50 final size:47
Alignment explanation
Indices: 72659420--72659554 Score: 137
Period size: 50 Copynumber: 2.7 Consensus size: 47
72659410 TATTTGAAAA
72659420 AATTTAAAGTA-AATAATAAAACAATTTAAAATGAATAATACATATAAAGC
1 AATTTAAAGTAGAATAATAAAACAATTTAAAAT-AAT-AT--ATATAAAGC
* * * * *
72659470 AATTTAAAGTATATAGTATATGAAATAATTTAAAATAATATATCTAAATC
1 AATTTAAAGTAGA-A-TA-ATAAAACAATTTAAAATAATATATATAAAGC
* *
72659520 AATTTAAAATAGTATAATAAAACAATTTAAAATAA
1 AATTTAAAGTAGAATAATAAAACAATTTAAAATAA
72659555 AAAAAATCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
47 17 0.24
48 2 0.03
49 1 0.01
50 28 0.39
51 1 0.01
52 3 0.04
53 5 0.07
54 15 0.21
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (47 bp):
AATTTAAAGTAGAATAATAAAACAATTTAAAATAATATATATAAAGC
Found at i:72659527 original size:24 final size:24
Alignment explanation
Indices: 72659420--72659554 Score: 116
Period size: 23 Copynumber: 5.5 Consensus size: 24
72659410 TATTTGAAAA
* *
72659420 AATTTAAAGTAA-ATA-ATAAAAC
1 AATTTAAAATAATATATATAAATC
*
72659442 AATTTAAAATGAATAATACATATAAAGC
1 AATTTAAAAT-AAT-AT--ATATAAATC
*
72659470 AATTTAAAGTATATAGTATATGAAAT-
1 AATTTAAAATA-ATA-TATAT-AAATC
*
72659496 AATTTAAAATAATATATCTAAATC
1 AATTTAAAATAATATATATAAATC
* *
72659520 AATTTAAAATAGTATA-ATAAAAC
1 AATTTAAAATAATATATATAAATC
72659543 AATTTAAAATAA
1 AATTTAAAATAA
72659555 AAAAAATCAA
Statistics
Matches: 93, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
22 9 0.10
23 22 0.24
24 19 0.20
25 5 0.05
26 14 0.15
27 6 0.06
28 18 0.19
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (24 bp):
AATTTAAAATAATATATATAAATC
Found at i:72660860 original size:29 final size:29
Alignment explanation
Indices: 72660828--72660896 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
72660818 TGTTTTTATA
*
72660828 TTATTTTATGTAAATGTTCTCTTTTAAAT
1 TTATTTTATGTAAATATTCTCTTTTAAAT
* * *
72660857 TTATTATATGTATATATTCTCTTTTAAGT
1 TTATTTTATGTAAATATTCTCTTTTAAAT
72660886 TTA-TTTATGTA
1 TTATTTTATGTA
72660897 TAATTTGGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 7 0.20
29 28 0.80
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (29 bp):
TTATTTTATGTAAATATTCTCTTTTAAAT
Found at i:72661029 original size:2 final size:2
Alignment explanation
Indices: 72661022--72661053 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
72661012 ACATACATAC
72661022 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72661054 CATTAGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72666504 original size:127 final size:128
Alignment explanation
Indices: 72666359--72666609 Score: 423
Period size: 128 Copynumber: 2.0 Consensus size: 128
72666349 AATTTTCGTT
* *
72666359 GCGTGTTTTGGAAATCATGATGTGATCTCAG-TTTTTGGAGGCTTAAAATACCGTGTCCTAATGT
1 GCGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATACCGTGTCCTAATAT
* * *
72666423 GCTGGATGTGATATTTTATTCCTTTGGAACGAGTGAATCTCAAAATCCAATTGGAGTTGCTTC
66 GCTAGATGTGATATTTTATTCCTTTGGAACGAGTGAATCTCAAAATCCAACTCGAGTTGCTTC
*
72666486 GCGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATATCGTGTCCTAATAT
1 GCGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATACCGTGTCCTAATAT
* *
72666551 GCTAGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTCGAGTTG
66 GCTAGATGTGATATTTTATTCCTTTGGAACGAGTGAATCTCAAAATCCAACTCGAGTTG
72666610 TTCACACACT
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
127 30 0.26
128 85 0.74
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (128 bp):
GCGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATACCGTGTCCTAATAT
GCTAGATGTGATATTTTATTCCTTTGGAACGAGTGAATCTCAAAATCCAACTCGAGTTGCTTC
Found at i:72667050 original size:17 final size:17
Alignment explanation
Indices: 72667028--72667075 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
72667018 ATTTCATGGG
*
72667028 TTTTATAGTTTTTTTCA
1 TTTTATAGTTTTTTGCA
*
72667045 TTTTATTCGTTTTTTGCA
1 TTTTA-TAGTTTTTTGCA
*
72667063 TTTT-GAGTTTTTT
1 TTTTATAGTTTTTT
72667076 ATATCCCCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 7 0.27
17 5 0.19
18 14 0.54
ACGTcount: A:0.12, C:0.06, G:0.10, T:0.71
Consensus pattern (17 bp):
TTTTATAGTTTTTTGCA
Found at i:72678120 original size:177 final size:176
Alignment explanation
Indices: 72677819--72678623 Score: 1188
Period size: 177 Copynumber: 4.6 Consensus size: 176
72677809 GACATCAGTG
* *
72677819 AAAATTACAGATCTTATCTCCATGTATCGACAATGG-GCAGATCGAAAATGGCGAGTCTTATCTC
1 AAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTC
* *
72677883 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAG
66 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGTTA-CAAGAGAGCAG
* * *
72677948 GTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGTAGACTA
130 GTTGAAGATACAAGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTA
* *
72677995 AAAATTACAGATCTTATCTCCATGTATCGGTTAT-GAGGCAGATCGAAAATGGTGAGTCTTATCT
1 AAAATTACAGATCTTATCTCCATGTATCGGCTATGGA-GCAGATCGAAAATGGCGAGTCTTATCT
*
72678059 CCATGTATCGGCTATGGAGCAGATTTTAGCCATCAGCCTTATCTCTCTGAGTTAACAAGAGAGCA
65 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGTT-ACAAGAGAGCA
*
72678124 GGTTGAAGATACAAGTCTTATCTTCCTGAAATTGCAAGAAGCAGACTA
129 GGTTGAAGATACAAGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTA
* * *
72678172 AAAATTACAGATCTTATCTCCATGTATCGGTTATGGAGCAGATCAAAAATGGCAAGTCTTATCTC
1 AAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTC
* * * *
72678237 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCCCTCTAAAGTTGC-AGTGGAGCA
66 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCT-GAGTTACAAG-AGAGCA
* * * * * *
72678301 GGCTCAATATGCAAGTCTTATCTTCTTGAAATTGCAGGAAGCAGACTG
129 GGTTGAAGATACAAGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTA
* * * *
72678349 AAAATTGCAGATCTTATCTCCATGTATCGGATATGGAGTAGATCGAAAATGGCGAGTATTATCTC
1 AAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTC
* *
72678414 CATGTATCGGCTATGAAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTACAA-AGAGCAG
66 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTG-AGTTACAAGAGAGCAG
* * *
72678478 GTTGAATATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTG
130 GTTGAAGATACAAGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTA
* *
72678525 AAAATTACAGATCTTATCTCTATGTATCGGCTATGGAGCAGATC-AAAGATGGTGAGTCTTATCT
1 AAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAA-ATGGCGAGTCTTATCT
*
72678589 CCATGTATCGGTTATGGAGCAGATTTTAGCCACCA
65 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCA
72678624 ACTTTGTCTC
Statistics
Matches: 568, Mismatches: 52, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
175 4 0.01
176 167 0.29
177 389 0.68
178 8 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (176 bp):
AAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTC
CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGTTACAAGAGAGCAGG
TTGAAGATACAAGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTA
Found at i:72678220 original size:45 final size:46
Alignment explanation
Indices: 72678163--72678259 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 46
72678153 AATTGCAAGA
* *
72678163 AGCAGA-CTAAAAATTAC-AGATCTTATCTCCATGTATCGGTTATGG
1 AGCAGATCTAAAAATGACAAG-TCTTATCTCCATGTATCGGCTATGG
*
72678208 AGCAGATC-AAAAATGGCAAGTCTTATCTCCATGTATCGGCTATGG
1 AGCAGATCTAAAAATGACAAGTCTTATCTCCATGTATCGGCTATGG
72678253 AGCAGAT
1 AGCAGAT
72678260 TTTAGCCACC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
45 44 0.94
46 3 0.06
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (46 bp):
AGCAGATCTAAAAATGACAAGTCTTATCTCCATGTATCGGCTATGG
Found at i:72679916 original size:2 final size:2
Alignment explanation
Indices: 72679909--72679956 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
72679899 CATTTAGCTT
72679909 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72679951 TA TA TA
1 TA TA TA
72679957 AAATCACTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72680145 original size:29 final size:28
Alignment explanation
Indices: 72680111--72680175 Score: 94
Period size: 29 Copynumber: 2.3 Consensus size: 28
72680101 TTCATATTAT
*
72680111 TTTATGTAAATGTTCTCTTTTAAATTTA
1 TTTATGTAAATATTCTCTTTTAAATTTA
* *
72680139 TTATATGTATATATTCTCTTTTAAGTTTA
1 TT-TATGTAAATATTCTCTTTTAAATTTA
72680168 TTTATGTA
1 TTTATGTA
72680176 TAATTTGGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 8 0.24
29 25 0.76
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (28 bp):
TTTATGTAAATATTCTCTTTTAAATTTA
Found at i:72680295 original size:2 final size:2
Alignment explanation
Indices: 72680288--72680317 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
72680278 TCATACATAC
72680288 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72680318 CATTAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72680976 original size:127 final size:128
Alignment explanation
Indices: 72680828--72681078 Score: 423
Period size: 128 Copynumber: 2.0 Consensus size: 128
72680818 AATTTTGGTT
*
72680828 GCGTGTTTTGAAAATCATGAGGTGATCTCAGT-TTTTGGAGGCTTAAAATATCGTGTCCTAATGT
1 GCGTGTTTTGAAAATCATGAGGTGATCTCAGTATTTTGGAGGCTTAAAATATCGTGTCCTAACGT
* * *
72680892 GCTGGATGTGGTATTTTATTCCTTTGGAACAAGTGAATCTCAAAATCCAATTGGAGTTGCTTC
66 GCTGGATGTAGTATTTTATTCCTTTGGAACAAGTGAATCTCAAAATCCAACTCGAGTTGCTTC
*
72680955 GCGTGTTTTGGAAATCATGAGGTGATCTCAGTATTTTGGAGGCTTAAAATATCGTGTCCTAACGT
1 GCGTGTTTTGAAAATCATGAGGTGATCTCAGTATTTTGGAGGCTTAAAATATCGTGTCCTAACGT
* * *
72681020 GCTGGATGTAGTATTTTATTCTTTTGGAACGAGTGAATCTTAAAATCCAACTCGAGTTG
66 GCTGGATGTAGTATTTTATTCCTTTGGAACAAGTGAATCTCAAAATCCAACTCGAGTTG
72681079 TTCACACACT
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
127 31 0.27
128 84 0.73
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (128 bp):
GCGTGTTTTGAAAATCATGAGGTGATCTCAGTATTTTGGAGGCTTAAAATATCGTGTCCTAACGT
GCTGGATGTAGTATTTTATTCCTTTGGAACAAGTGAATCTCAAAATCCAACTCGAGTTGCTTC
Found at i:72681916 original size:34 final size:34
Alignment explanation
Indices: 72681873--72681941 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
72681863 ATTGCCATCG
*
72681873 TCAACCATCACATTAGCCTCCGAGACTTCCTTGT
1 TCAACCATCACATCAGCCTCCGAGACTTCCTTGT
72681907 TCAACCATCACATCAGCCTCCGAGACTTCCTTGT
1 TCAACCATCACATCAGCCTCCGAGACTTCCTTGT
72681941 T
1 T
72681942 GCTCTTCCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.23, C:0.36, G:0.12, T:0.29
Consensus pattern (34 bp):
TCAACCATCACATCAGCCTCCGAGACTTCCTTGT
Found at i:72685353 original size:22 final size:23
Alignment explanation
Indices: 72685328--72685381 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
72685318 ATAAAATTTA
*
72685328 ATAAATGAAAATATT-AT-TAAAT
1 ATAAAT-AAAAAATTAATATAAAT
72685350 ATAAAATAAAAAATTAATATAAAT
1 AT-AAATAAAAAATTAATATAAAT
72685374 ATAAATAA
1 ATAAATAA
72685382 TTTAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 9 0.32
23 12 0.43
24 7 0.25
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
ATAAATAAAAAATTAATATAAAT
Found at i:72685365 original size:19 final size:21
Alignment explanation
Indices: 72685343--72685392 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
72685333 TGAAAATATT
72685343 ATTAAATATAAA-ATAAA-AA
1 ATTAAATATAAATATAAATAA
72685362 ATT-AATATAAATATAAATAA
1 ATTAAATATAAATATAAATAA
*
72685382 TTTAAA-ATAAA
1 ATTAAATATAAA
72685393 CTTGAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 8 0.30
19 8 0.30
20 9 0.33
21 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTAAATATAAATATAAATAA
Found at i:72685370 original size:18 final size:19
Alignment explanation
Indices: 72685347--72685383 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
72685337 AATATTATTA
72685347 AATATAAA-ATAAAAAATT
1 AATATAAATATAAAAAATT
*
72685365 AATATAAATATAAATAATT
1 AATATAAATATAAAAAATT
72685384 TAAAATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AATATAAATATAAAAAATT
Found at i:72686235 original size:20 final size:20
Alignment explanation
Indices: 72686212--72686256 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
72686202 ATTTATTTAT
72686212 TAAAATAATAAT-TCTATAAA
1 TAAAATAATAATCT-TATAAA
*
72686232 TAAAATAATAATCTTATGAA
1 TAAAATAATAATCTTATAAA
72686252 TAAAA
1 TAAAA
72686257 CTTTAAGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:72686615 original size:28 final size:28
Alignment explanation
Indices: 72686583--72686645 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
72686573 GAAGTTCAGA
72686583 GTAAGGATTATTAGTTCTGATGATTGAT
1 GTAAGGATTATTAGTTCTGATGATTGAT
72686611 GTAAGGATTATTAGTTCTGATGATTGAT
1 GTAAGGATTATTAGTTCTGATGATTGAT
72686639 GTGAAGG
1 GT-AAGG
72686646 CGGTGTCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.40
Consensus pattern (28 bp):
GTAAGGATTATTAGTTCTGATGATTGAT
Found at i:72695973 original size:2 final size:2
Alignment explanation
Indices: 72695966--72696001 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
72695956 TAAACTTTAT
* *
72695966 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72696002 ATGTGGCATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:72701143 original size:38 final size:38
Alignment explanation
Indices: 72701092--72701170 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
72701082 ATAAAGTTAA
*
72701092 TTTCACATTTCACTGTTATATCTTTTGTGTTTTTGTAT
1 TTTCACATTTCACTATTATATCTTTTGTGTTTTTGTAT
*
72701130 TTTCACATTTCACTATTATATCTTTTGTGTTTTTGTCT
1 TTTCACATTTCACTATTATATCTTTTGTGTTTTTGTAT
72701168 TTT
1 TTT
72701171 ATGTTTTGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.15, C:0.14, G:0.09, T:0.62
Consensus pattern (38 bp):
TTTCACATTTCACTATTATATCTTTTGTGTTTTTGTAT
Found at i:72703944 original size:53 final size:55
Alignment explanation
Indices: 72703812--72703956 Score: 197
Period size: 53 Copynumber: 2.7 Consensus size: 55
72703802 GCAAGGAAAT
* *
72703812 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAAGCAAAGGTCC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTATAAAGCAAAGGTAC
* * * *
72703867 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-C-ATAAGGC-AAGGCTAC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTATAAAGCAAAGG-TAC
*
72703920 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
72703957 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
52 4 0.05
53 41 0.52
54 1 0.01
55 33 0.42
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (55 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTATAAAGCAAAGGTAC
Found at i:72704216 original size:16 final size:16
Alignment explanation
Indices: 72704195--72704225 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72704185 ATAAATTTGA
72704195 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
72704211 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
72704226 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:72706327 original size:12 final size:12
Alignment explanation
Indices: 72706310--72706348 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
72706300 GTTATTAATA
72706310 TAATTTAGTTCT
1 TAATTTAGTTCT
72706322 TAATTTAGTTC-
1 TAATTTAGTTCT
72706333 TAATTT-GTT-T
1 TAATTTAGTTCT
72706343 TAATTT
1 TAATTT
72706349 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:72706473 original size:19 final size:19
Alignment explanation
Indices: 72706435--72706474 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
72706425 TTATTTTTTA
*
72706435 TTTTTGTTTTAATATTTAT
1 TTTTTGTTTTAATATGTAT
72706454 TTTTATGTTTTAA-ATGTAT
1 TTTT-TGTTTTAATATGTAT
72706473 TT
1 TT
72706475 GATTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTGTTTTAATATGTAT
Found at i:72706484 original size:25 final size:23
Alignment explanation
Indices: 72706447--72706492 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
72706437 TTTGTTTTAA
*
72706447 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
72706470 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
72706493 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:72707185 original size:21 final size:21
Alignment explanation
Indices: 72707159--72707198 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
72707149 TGAATGCTAG
72707159 GTTGATCAAATTCTCATCATA
1 GTTGATCAAATTCTCATCATA
72707180 GTTGATCAAATTCTCATCA
1 GTTGATCAAATTCTCATCA
72707199 CAAAGGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (21 bp):
GTTGATCAAATTCTCATCATA
Found at i:72726640 original size:30 final size:30
Alignment explanation
Indices: 72726604--72726664 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
72726594 ATATTCAGAT
72726604 ACAGTCATGTTTCCCTGTTTGAGCTCTAAA
1 ACAGTCATGTTTCCCTGTTTGAGCTCTAAA
72726634 ACAGTCATGTTTCCCTGTTTGAGCTCTAAA
1 ACAGTCATGTTTCCCTGTTTGAGCTCTAAA
72726664 A
1 A
72726665 ATTCTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (30 bp):
ACAGTCATGTTTCCCTGTTTGAGCTCTAAA
Done.