Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 81 of 204
Found at i:24698627 original size:14 final size:14
Alignment explanation
Indices: 24698608--24698640 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
24698598 TGTTTGAATG
*
24698608 AAAATGGTTTCTGA
1 AAAATGATTTCTGA
24698622 AAAATGATTTCTGA
1 AAAATGATTTCTGA
24698636 AAAAT
1 AAAAT
24698641 TACTTACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:24701700 original size:11 final size:11
Alignment explanation
Indices: 24701684--24701710 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
24701674 TTAATTGGTA
24701684 TGTTTGAAAAG
1 TGTTTGAAAAG
24701695 TGTTTGAAAAG
1 TGTTTGAAAAG
24701706 TGTTT
1 TGTTT
24701711 AGGTCTTTTG
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:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (11 bp):
TGTTTGAAAAG
Found at i:24702395 original size:47 final size:47
Alignment explanation
Indices: 24702342--24702485 Score: 270
Period size: 47 Copynumber: 3.1 Consensus size: 47
24702332 AGTAAAAGAT
24702342 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
1 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
*
24702389 TAAGTGAGGTAACAATATATTCCTACATTAAAACAATTTAATCACAA
1 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
*
24702436 TAAGTGAGGTAACAATATGTTCCTACATTGAAACAATTTAATCACAA
1 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
24702483 TAA
1 TAA
24702486 TCTTGCAAGT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 94 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (47 bp):
TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
Found at i:24707823 original size:28 final size:28
Alignment explanation
Indices: 24707762--24707825 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
24707752 GACTCCAACA
* *
24707762 ATCATATTGTAACGGTTAGATTCCAATG
1 ATCATATTGTAACAGTCAGATTCCAATG
**
24707790 GCCATATTGTAACAGTCAGATTCCAATG
1 ATCATATTGTAACAGTCAGATTCCAATG
24707818 ATCATATT
1 ATCATATT
24707826 TTTGCATTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (28 bp):
ATCATATTGTAACAGTCAGATTCCAATG
Found at i:24714070 original size:12 final size:13
Alignment explanation
Indices: 24714053--24714081 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
24714043 CTCATACATG
24714053 AATAAATAAA-GC
1 AATAAATAAATGC
24714065 AATAAATAAATGC
1 AATAAATAAATGC
24714078 AATA
1 AATA
24714082 GTTATAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:24719893 original size:18 final size:18
Alignment explanation
Indices: 24719866--24719902 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24719856 TTTTTGTGTT
*
24719866 TACTACTCCTATGAACTA
1 TACTACTCCTACGAACTA
*
24719884 TACTATTCCTACGAACTA
1 TACTACTCCTACGAACTA
24719902 T
1 T
24719903 CTCCATGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (18 bp):
TACTACTCCTACGAACTA
Found at i:24726285 original size:40 final size:38
Alignment explanation
Indices: 24726241--24726341 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 38
24726231 CGAATATAAT
*
24726241 AATTATAATTACCATAATTATAATAATTTTTGA-CCAAAAA
1 AATTATAATTACCATAATTATAATAATATTTGATCC---AA
* *
24726281 AATTACAATTA-CAGTAATTATAATAATATTTGATCCTA
1 AATTATAATTACCA-TAATTATAATAATATTTGATCCAA
*
24726319 AATTATAATTACAATAATTATAA
1 AATTATAATTACCATAATTATAA
24726342 CAAGGATTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
38 20 0.38
39 3 0.06
40 28 0.53
41 2 0.04
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (38 bp):
AATTATAATTACCATAATTATAATAATATTTGATCCAA
Found at i:24728609 original size:13 final size:13
Alignment explanation
Indices: 24728591--24728616 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24728581 CATATATATT
24728591 TTATAAAAAAATA
1 TTATAAAAAAATA
24728604 TTATAAAAAAATA
1 TTATAAAAAAATA
24728617 AAAACATACC
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTATAAAAAAATA
Found at i:24731361 original size:17 final size:18
Alignment explanation
Indices: 24731330--24731371 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
24731320 GAGAAAATGA
24731330 AAAATGAAGAAAT-GGAG
1 AAAATGAAGAAATGGGAG
24731347 AAAATGAA-AATATGGGAG
1 AAAATGAAGAA-ATGGGAG
*
24731365 CAAATGA
1 AAAATGA
24731372 GTGGTATGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 10 0.45
18 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.26, T:0.14
Consensus pattern (18 bp):
AAAATGAAGAAATGGGAG
Found at i:24731943 original size:15 final size:15
Alignment explanation
Indices: 24731919--24731953 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
24731909 CACTCTCTCA
*
24731919 TTTTATTAACCCAAT
1 TTTTACTAACCCAAT
24731934 TTTTACTAACCCAAT
1 TTTTACTAACCCAAT
24731949 TTTTA
1 TTTTA
24731954 GGATGTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTACTAACCCAAT
Found at i:24746275 original size:102 final size:102
Alignment explanation
Indices: 24746154--24746455 Score: 498
Period size: 102 Copynumber: 3.0 Consensus size: 102
24746144 CAATGAGTCG
* *
24746154 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTTGG-TTCAGCACTTAGCAACCA
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGG-TGGAATCAGCACTTAGCAACCA
*
24746218 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCGA
65 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGA
24746256 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
* * * * *
24746321 CAATGAGTCGGGGAATCAGTAGTTAGCAACCCCTTGG
66 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGA
*
24746358 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGCGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
*
24746423 CAATGAATAGGGGAATCAGCACTTAGCAACCCC
66 CAATGAATCGGGGAATCAGCACTTAGCAACCCC
24746456 CTTTTTATTC
Statistics
Matches: 187, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
101 3 0.02
102 184 0.98
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (102 bp):
GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
CAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGA
Found at i:24751742 original size:50 final size:50
Alignment explanation
Indices: 24751634--24751880 Score: 230
Period size: 50 Copynumber: 4.8 Consensus size: 50
24751624 ATTTGGGTAA
**
24751634 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTGTCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATT-G-G-CACCGAG---ATG
* *
24751690 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *** * *
24751740 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
24751790 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * * *
24751839 AAACATCCCATATAAGACCATGTCTAGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24751881 TGTTATTATC
Statistics
Matches: 163, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 82 0.50
53 5 0.03
54 1 0.01
55 1 0.01
56 36 0.22
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:24751825 original size:100 final size:105
Alignment explanation
Indices: 24751646--24751831 Score: 265
Period size: 100 Copynumber: 1.8 Consensus size: 105
24751636 AGATCCCATG
* **
24751646 TAAGACCATGTCTGGGACATGGCATTGGTGTCATTGAGATTATGAGAGGTCCCATGTAAGACCAT
1 TAAGACCATGTCTGGGACATGGCATTGGTGTCA-TCAGATTATGAGAACTCCCATGTAAGACCAT
*
24751711 GTCTAGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCA
65 ATCTAGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCA
*
24751752 TAAGACCATGTCTGGGACATGGCA-TGG-G-CA-CCGA-TATGAGAACTCCCATGTAAGACCATA
1 TAAGACCATGTCTGGGACATGGCATTGGTGTCATCAGATTATGAGAACTCCCATGTAAGACCATA
* *
24751812 TCTGGGATATGGCATTGGCA
66 TCTAGGACATGGCATTGGCA
24751832 GTACAAGAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 41 0.56
101 2 0.03
103 2 0.03
104 1 0.01
105 3 0.04
106 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (105 bp):
TAAGACCATGTCTGGGACATGGCATTGGTGTCATCAGATTATGAGAACTCCCATGTAAGACCATA
TCTAGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCA
Found at i:24758463 original size:26 final size:26
Alignment explanation
Indices: 24758434--24758484 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
24758424 TTATTAAATT
*
24758434 TTTAATCTAAATTGAATTAAATCAAA
1 TTTAATCTAAATTGAATCAAATCAAA
* * *
24758460 TTTAATTTTAATTTAATCAAATCAA
1 TTTAATCTAAATTGAATCAAATCAA
24758485 TTTTTTAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (26 bp):
TTTAATCTAAATTGAATCAAATCAAA
Found at i:24758489 original size:21 final size:21
Alignment explanation
Indices: 24758448--24758488 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24758438 ATCTAAATTG
*
24758448 AATTAAATCAAATTTAATTTT
1 AATTAAATCAAATTCAATTTT
*
24758469 AATTTAATCAAA-TCAATTTT
1 AATTAAATCAAATTCAATTTT
24758489 TTAAGTCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTAAATCAAATTCAATTTT
Found at i:24762497 original size:13 final size:13
Alignment explanation
Indices: 24762479--24762504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24762469 GGCTTCCCCT
24762479 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
24762492 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
24762505 AGTTTAGCTG
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:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:24762549 original size:13 final size:13
Alignment explanation
Indices: 24762531--24762556 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24762521 AACTTAGTCG
24762531 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
24762544 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
24762557 AGTTTAGCTG
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:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:24763364 original size:127 final size:127
Alignment explanation
Indices: 24763181--24763435 Score: 501
Period size: 127 Copynumber: 2.0 Consensus size: 127
24763171 TTATCCAGCT
24763181 TTAGTGAGATGTTTCTGATTTAAAGATTCTAAATTACAGCTTGCATAGATATTCAGTGGCTGCTG
1 TTAGTGAGATGTTTCTGATTTAAAGATTCTAAATTACAGCTTGCATAGATATTCAGTGGCTGCTG
*
24763246 GAAAAGGAAAAGGGGGAAGTGATTTTATAATTAGAAACTGATTCACCGATAAACCATGTGAA
66 GAAAAGGAAAAGGGGGAAGTGATTTTATAATTAGAAACTAATTCACCGATAAACCATGTGAA
24763308 TTAGTGAGATGTTTCTGATTTAAAGATTCTAAATTACAGCTTGCATAGATATTCAGTGGCTGCTG
1 TTAGTGAGATGTTTCTGATTTAAAGATTCTAAATTACAGCTTGCATAGATATTCAGTGGCTGCTG
24763373 GAAAAGGAAAAGGGGGAAGTGATTTTATAATTAGAAACTAATTCACCGATAAACCATGTGAA
66 GAAAAGGAAAAGGGGGAAGTGATTTTATAATTAGAAACTAATTCACCGATAAACCATGTGAA
24763435 T
1 T
24763436 ACTTTAGCTC
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 127 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (127 bp):
TTAGTGAGATGTTTCTGATTTAAAGATTCTAAATTACAGCTTGCATAGATATTCAGTGGCTGCTG
GAAAAGGAAAAGGGGGAAGTGATTTTATAATTAGAAACTAATTCACCGATAAACCATGTGAA
Found at i:24765507 original size:16 final size:16
Alignment explanation
Indices: 24765483--24765513 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24765473 GTTATTATGA
*
24765483 TTGATTAAAAAACAAC
1 TTGAGTAAAAAACAAC
24765499 TTGAGTAAAAAACAA
1 TTGAGTAAAAAACAA
24765514 ATATTTGGTA
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:0.58, C:0.10, G:0.10, T:0.23
Consensus pattern (16 bp):
TTGAGTAAAAAACAAC
Found at i:24768822 original size:91 final size:91
Alignment explanation
Indices: 24768696--24768903 Score: 292
Period size: 91 Copynumber: 2.3 Consensus size: 91
24768686 TTGATTTTAG
* *
24768696 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
24768761 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
24768788 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
*
24768853 TGTAATAATTATTTTTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
24768879 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
24768904 GTTATAATTA
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
91 85 0.82
92 19 0.18
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:24769074 original size:122 final size:120
Alignment explanation
Indices: 24768919--24769333 Score: 674
Period size: 120 Copynumber: 3.4 Consensus size: 120
24768909 AATTATTTTA
* * *
24768919 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
* * *
24768981 TTTATAGTATCATATATTATAATTTGAGTAAATTCGTATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
** *
24769039 AATTTGCTCCATAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
1 AATTTTAT-TA-AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
*
24769104 TTACAGTATCATATAATATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
24769161 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
24769226 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
24769281 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
24769334 TAAATATGAT
Statistics
Matches: 276, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
120 168 0.61
121 8 0.03
122 98 0.36
123 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:24769081 original size:15 final size:15
Alignment explanation
Indices: 24769050--24769097 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
24769040 ATTTGCTCCA
24769050 TAATTAT-ATAT-TT
1 TAATTATAATATATT
24769063 TAATTATAATATATT
1 TAATTATAATATATT
*
24769078 TAATAATAAT-TATGT
1 TAATTATAATATAT-T
24769093 TAATT
1 TAATT
24769098 TATATTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 7 0.23
14 7 0.23
15 16 0.53
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TAATTATAATATATT
Found at i:24769201 original size:15 final size:15
Alignment explanation
Indices: 24769166--24769217 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24769156 TTAAGAATTT
*
24769166 TATTAAATTAT-ATA
1 TATTTAATTATAATA
24769180 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
24769194 TATTTAATAATAAT-
1 TATTTAATTATAATA
24769208 TATGTTAATT
1 TAT-TTAATT
24769218 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:24769316 original size:16 final size:16
Alignment explanation
Indices: 24769295--24769336 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
24769285 TTATTAAATT
*
24769295 ATATATTTTAATTATA
1 ATATATTTTAATAATA
24769311 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
24769326 AT-TATGTTTAA
1 ATATAT-TTTAA
24769337 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:24769321 original size:15 final size:15
Alignment explanation
Indices: 24769286--24769327 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24769276 TTAAGAATTT
*
24769286 TATTAAATTAT-ATA
1 TATTTAATTATAATA
24769300 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
24769314 TATTTAATAATAAT
1 TATTTAATTATAAT
24769328 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:24780058 original size:43 final size:42
Alignment explanation
Indices: 24780011--24780149 Score: 138
Period size: 42 Copynumber: 3.2 Consensus size: 42
24780001 TCCCAGACGA
* *
24780011 GGTCTTACATGTAATCAAATATCGATGCCACTATCCCAAACAG
1 GGTCTTACACGTAATCAAATAT-GATGCCAATATCCCAAACAG
* * * * *
24780054 GGTCTTACACGAAATCATATATGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATATGATGCCAATATCCCAAACAG
* *
24780096 GGTCTTACACGTAAATCTCAAAT-TGATGCCAACATCCCAGAC-G
1 GGTCTTACACGT-AA--TCAAATATGATGCCAATATCCCAAACAG
24780139 TGGTCTTACAC
1 -GGTCTTACAC
24780150 AAAATCACAT
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 27 0.34
43 21 0.26
44 27 0.34
45 5 0.06
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATATGATGCCAATATCCCAAACAG
Found at i:24780155 original size:86 final size:85
Alignment explanation
Indices: 24779992--24780161 Score: 206
Period size: 86 Copynumber: 2.0 Consensus size: 85
24779982 AGCTCGTACA
*
24779992 ATGCCAACGTCCCAGACGAGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAAACAGGGT
1 ATGCCAACGTCCCAGACGAGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAAACAGGGT
* *
24780057 CTTACACGAAATCATATATG
66 CTTACACAAAATCACATATG
* *
24780077 ATGCCAATGTCCCAGAC-ATGGTCTTACACGTAAATCTCAAAT-T-GATGCCAAC-ATCCCAGAC
1 ATGCCAACGTCCCAGACGA-GGTCTTACACGT-AA--TCAAATATCGATGCC-ACTATCCCAAAC
24780138 -GTGGTCTTACACAAAATCACATAT
61 AG-GGTCTTACACAAAATCACATAT
24780162 CAGAATCCTA
Statistics
Matches: 74, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
84 1 0.01
85 28 0.38
86 36 0.49
87 3 0.04
88 6 0.08
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACGAGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAAACAGGGT
CTTACACAAAATCACATATG
Found at i:24787789 original size:86 final size:85
Alignment explanation
Indices: 24787637--24787801 Score: 203
Period size: 86 Copynumber: 1.9 Consensus size: 85
24787627 AGCTCGTACA
*
24787637 ATGCCAACGTCCCAGACGAGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAAACAGGGT
1 ATGCCAACGTCCCAGACGAGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAAACAGGGT
*
24787702 CTTACACGAAATCATATACG
66 CTTACACAAAATCATATACG
* * * *
24787722 ATGCCAATGTCTCAGAC-ATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-ATCCCAGAC-
1 ATGCCAACGTCCCAGACGA-GGTCTTACACGT-AATC-AAATATCGATGCC-ACTATCCCAAACA
24787783 GTGGTCTTACACAAAATCA
62 G-GGTCTTACACAAAATCA
24787802 CATATCAGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
84 1 0.01
85 27 0.39
86 37 0.54
87 4 0.06
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACGAGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAAACAGGGT
CTTACACAAAATCATATACG
Found at i:24794806 original size:15 final size:15
Alignment explanation
Indices: 24794786--24794814 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24794776 GATTACCGTG
24794786 TTATTTAATTTGTTT
1 TTATTTAATTTGTTT
24794801 TTATTTAATTTGTT
1 TTATTTAATTTGTT
24794815 GCTATGGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
TTATTTAATTTGTTT
Found at i:24799323 original size:11 final size:11
Alignment explanation
Indices: 24799293--24799367 Score: 69
Period size: 11 Copynumber: 6.7 Consensus size: 11
24799283 AAACTAATCC
24799293 TCTCTCAATTAT
1 TCTCTCAATT-T
*
24799305 TTTCTCAATTT
1 TCTCTCAATTT
*
24799316 TCTCTCAAATT
1 TCTCTCAATTT
*
24799327 GCTCTCAATTT
1 TCTCTCAATTT
* *
24799338 GCTTTCAATTT
1 TCTCTCAATTT
* * *
24799349 CCTTTCAAATT
1 TCTCTCAATTT
24799360 TCTCTCAA
1 TCTCTCAA
24799368 ATCCATATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
11 44 0.83
12 9 0.17
ACGTcount: A:0.23, C:0.25, G:0.03, T:0.49
Consensus pattern (11 bp):
TCTCTCAATTT
Found at i:24803323 original size:125 final size:125
Alignment explanation
Indices: 24803028--24803464 Score: 671
Period size: 125 Copynumber: 3.5 Consensus size: 125
24803018 AACATGCTAA
* * *
24803028 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTACTTGA
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
* * * *
24803093 AGCATTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTA-TTTTTCAGAACCTAC
66 AGCATTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAAGGACCAAC
* * *
24803152 TTTAGCAAAAGCGCGTCCACGTGGACGCGATTTCAGAAATTATTCTGATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
*
24803217 AGCATTTTTTATACTATTCGCTCAGAAACGTCAACTCAAAATTATTTTTTAAGGACCAAC
66 AGCATTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAAGGACCAAC
*
24803277 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
* *
24803342 AGCATTTTTTATACTATTCGCTCATAAATGTCAACTCGAAATTATTTTTTCAA-GACCAAC
66 AGCATTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTT-AAGGACCAAC
** * * * *
24803402 TGTAGCAAAAAAGCATCCACGTGGGCACGATTTAAGAAATTCTTCTGATAAAGCATCATGCTT
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
24803465 TGATTTTATC
Statistics
Matches: 287, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
124 101 0.35
125 184 0.64
126 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (125 bp):
TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
AGCATTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAAGGACCAAC
Found at i:24803625 original size:21 final size:22
Alignment explanation
Indices: 24803582--24803627 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
24803572 ATTTCTCTAA
* *
24803582 AACCCTAAAAACCTTAAACCCT
1 AACCCTAAAAACCTCAAAACCT
*
24803604 AACCCTAAAAGCC-CAAAACCT
1 AACCCTAAAAACCTCAAAACCT
24803625 AAC
1 AAC
24803628 GTGGAGAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.37, G:0.02, T:0.13
Consensus pattern (22 bp):
AACCCTAAAAACCTCAAAACCT
Found at i:24805563 original size:76 final size:76
Alignment explanation
Indices: 24805414--24805688 Score: 273
Period size: 74 Copynumber: 3.7 Consensus size: 76
24805404 TAAAAAAAAT
* *
24805414 TATTGTAT-TTTACATCAATAATATA-A-TTATTTACAGTCTACAAAAAAAATTTAAAAATTGTT
1 TATTGTATCTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAAA-TTAAAAATTGTT
* *
24805476 TGTTTTATATTC
65 TGTATTGTATTC
* * * **
24805488 TATTGTAT-TTTATATCAATAATATATACTTATTTACAATCTATGAAAACAATTAAAGTTTTGTT
1 TATTGTATCTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAAATTAAA-AATTGTT
24805552 TGTATTGTATTC
65 TGTATTGTATTC
* * *
24805564 TATCGTATGCCTTT---TCAAT-A-ATATACTTATTTACAATCAACGAAAAAAATGAAAAAAATT
1 TATTGTAT--CTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAAAT--TAAAAATT
*
24805624 GTTTATATTGTATTC
62 GTTTGTATTGTATTC
* * * *
24805639 TACTAT-TCTTTACATCAATAATATATACTTATTTACAATTTACCAAAAAA
1 TATTGTATCTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAA
24805689 TGAGAAGTAA
Statistics
Matches: 165, Mismatches: 23, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
72 4 0.02
74 52 0.32
75 31 0.19
76 50 0.30
77 25 0.15
79 3 0.02
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.44
Consensus pattern (76 bp):
TATTGTATCTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAAATTAAAAATTGTTT
GTATTGTATTC
Found at i:24805724 original size:4 final size:4
Alignment explanation
Indices: 24805715--24805744 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
24805705 AATGAACAAA
*
24805715 TTGT TTGT TTGT TTGT TTGT TTGT ATGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TT
24805745 ATAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.23, T:0.73
Consensus pattern (4 bp):
TTGT
Found at i:24809351 original size:26 final size:25
Alignment explanation
Indices: 24809293--24809365 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 25
24809283 TTTCTCACTC
*
24809293 CAATTTTACCCTACTAAAATTTTGA
1 CAATTTTACCCTACTAAAATTTTAA
* * **
24809318 TAAATTTACCCTTGGTAAAATTTTAA
1 CAATTTTACCC-TACTAAAATTTTAA
* *
24809344 CAATTTTACCCCAATAAAATTT
1 CAATTTTACCCTACTAAAATTT
24809366 CAAGAAAATT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 17 0.46
26 20 0.54
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (25 bp):
CAATTTTACCCTACTAAAATTTTAA
Found at i:24811872 original size:26 final size:25
Alignment explanation
Indices: 24811814--24811875 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
24811804 TTTCTCACTC
*
24811814 CAATTTTACCCTACTAAAATTTTGA
1 CAATTTTACCCTACTAAAATTTTAA
* * **
24811839 TAAATTTACCCTTGGTAAAATTTTAA
1 CAATTTTACCC-TACTAAAATTTTAA
24811865 CAATTTTACCC
1 CAATTTTACCC
24811876 CCAATAAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (25 bp):
CAATTTTACCCTACTAAAATTTTAA
Found at i:24813966 original size:28 final size:28
Alignment explanation
Indices: 24813903--24814028 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
24813893 ATATTAAGTC
*
24813903 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
24813930 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
24813958 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
24813986 TGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
24814015 CGCACAGTTAGTGC
1 CGCACACTTAGTGC
24814029 CAATCTCATG
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 17 0.19
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:24817537 original size:26 final size:25
Alignment explanation
Indices: 24817479--24817540 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
24817469 TTTCTCACTC
*
24817479 CAATTTTACCCTACTAAAATTTTGA
1 CAATTTTACCCTACTAAAATTTTAA
* * **
24817504 TAAATTTACCCTTGGTAAAATTTTAA
1 CAATTTTACCC-TACTAAAATTTTAA
24817530 CAATTTTACCC
1 CAATTTTACCC
24817541 CCAATAAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (25 bp):
CAATTTTACCCTACTAAAATTTTAA
Found at i:24821609 original size:27 final size:28
Alignment explanation
Indices: 24821550--24821609 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
24821540 TCTTAGGTTA
* *
24821550 TGCCATGAAAGCATTCCTTTTCAGATAT
1 TGCCATGAAAGCATTCCTTTACAGAGAT
*
24821578 AGCCATG-AAG-ACTTCCTTTACAGAGAT
1 TGCCATGAAAGCA-TTCCTTTACAGAGAT
24821605 TGCCA
1 TGCCA
24821610 CAAAGGCTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 20 0.74
28 6 0.22
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (28 bp):
TGCCATGAAAGCATTCCTTTACAGAGAT
Found at i:24823345 original size:21 final size:21
Alignment explanation
Indices: 24823319--24823358 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
24823309 GAAAGTTGCT
24823319 CCTAAAAACAAGATTTTCTTC
1 CCTAAAAACAAGATTTTCTTC
24823340 CCTAAAAACAAGATTTTCT
1 CCTAAAAACAAGATTTTCT
24823359 AAGTTTCATG
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:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (21 bp):
CCTAAAAACAAGATTTTCTTC
Found at i:24833019 original size:21 final size:21
Alignment explanation
Indices: 24832995--24833034 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
24832985 CATGTATAGA
24832995 CTATTGTGGTTAAATGTTGGG
1 CTATTGTGGTTAAATGTTGGG
24833016 CTATTGTGGTTAAATGTTG
1 CTATTGTGGTTAAATGTTG
24833035 ATGTGTGGAA
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:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (21 bp):
CTATTGTGGTTAAATGTTGGG
Found at i:24835683 original size:27 final size:27
Alignment explanation
Indices: 24835653--24835857 Score: 198
Period size: 27 Copynumber: 7.6 Consensus size: 27
24835643 ATATTAAGTC
* *
24835653 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
24835680 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
24835708 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* ** *
24835735 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAATCAACT
** **
24835762 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
24835789 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
24835816 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
24835843 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24835858 GTACAATTTA
Statistics
Matches: 154, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
26 1 0.01
27 127 0.82
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24835792 original size:54 final size:53
Alignment explanation
Indices: 24835653--24835856 Score: 239
Period size: 54 Copynumber: 3.8 Consensus size: 53
24835643 ATATTAAGTC
* * * **
24835653 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAA-T
* *
24835708 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGTCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAAT
** **
24835762 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGC-ACATGGTCAAAT
* *
24835816 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
24835857 TGTACAATTT
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.02
54 79 0.62
55 46 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCACATGGTCAAAT
Found at i:24835819 original size:81 final size:81
Alignment explanation
Indices: 24835653--24835856 Score: 223
Period size: 81 Copynumber: 2.5 Consensus size: 81
24835643 ATATTAAGTC
* * ** * ** **
24835653 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTG-CATCATTTTC-ATTTCGCACACTT
* *
24835717 AGTGCTACATAGTCAACT
64 AGTGCAACATAGTCAAAT
* * * *
24835735 CGCACACTTAGTG-TCGCATGGTCAATTCGCACACTTAGTGCATCATTTTCATTTCGCACACTTA
1 CGCACACTTAGTGCT-ACATAGCCAAATCGCACACTTAGTGCATCATTTTCATTTCGCACACTTA
*
24835799 GTGCAACATGGTCAAAT
65 GTGCAACATAGTCAAAT
24835816 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
24835857 TGTACAATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
81 64 0.63
82 38 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGCATCATTTTCATTTCGCACACTTAG
TGCAACATAGTCAAAT
Found at i:24843837 original size:27 final size:27
Alignment explanation
Indices: 24843807--24844011 Score: 198
Period size: 27 Copynumber: 7.6 Consensus size: 27
24843797 ATATTAAGTC
* *
24843807 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
24843834 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
24843862 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* ** *
24843889 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAATCAACT
** **
24843916 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
24843943 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
24843970 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
24843997 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24844012 GTACAATTTA
Statistics
Matches: 154, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
26 1 0.01
27 127 0.82
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24843946 original size:54 final size:53
Alignment explanation
Indices: 24843807--24844010 Score: 239
Period size: 54 Copynumber: 3.8 Consensus size: 53
24843797 ATATTAAGTC
* * * **
24843807 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAA-T
* *
24843862 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGTCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAAT
** **
24843916 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGC-ACATGGTCAAAT
* *
24843970 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
24844011 TGTACAATTT
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.02
54 79 0.62
55 46 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCACATGGTCAAAT
Found at i:24843973 original size:81 final size:81
Alignment explanation
Indices: 24843807--24844010 Score: 223
Period size: 81 Copynumber: 2.5 Consensus size: 81
24843797 ATATTAAGTC
* * ** * ** **
24843807 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTG-CATCATTTTC-ATTTCGCACACTT
* *
24843871 AGTGCTACATAGTCAACT
64 AGTGCAACATAGTCAAAT
* * * *
24843889 CGCACACTTAGTG-TCGCATGGTCAATTCGCACACTTAGTGCATCATTTTCATTTCGCACACTTA
1 CGCACACTTAGTGCT-ACATAGCCAAATCGCACACTTAGTGCATCATTTTCATTTCGCACACTTA
*
24843953 GTGCAACATGGTCAAAT
65 GTGCAACATAGTCAAAT
24843970 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
24844011 TGTACAATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
81 64 0.63
82 38 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGCATCATTTTCATTTCGCACACTTAG
TGCAACATAGTCAAAT
Found at i:24850686 original size:54 final size:54
Alignment explanation
Indices: 24850604--24850707 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
24850594 CCTTCCTTAA
* * *
24850604 TTTTTTTTCATATGATACTATAACCCACCAGTTACAGTCTTACATGATATGGTC
1 TTTTTTCTCATATGATACCATAACCCACCAATTACAGTCTTACATGATATGGTC
* * **
24850658 TTTTTTCTCATATGGTTCCATAACCCACCAATTATGGTCTTACATGATAT
1 TTTTTTCTCATATGATACCATAACCCACCAATTACAGTCTTACATGATAT
24850708 AGTCCTTCAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (54 bp):
TTTTTTCTCATATGATACCATAACCCACCAATTACAGTCTTACATGATATGGTC
Found at i:24853024 original size:12 final size:12
Alignment explanation
Indices: 24853007--24853031 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24852997 CACCATAGTT
24853007 AAGATCATGTCA
1 AAGATCATGTCA
24853019 AAGATCATGTCA
1 AAGATCATGTCA
24853031 A
1 A
24853032 TAATTTTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
AAGATCATGTCA
Found at i:24866549 original size:21 final size:21
Alignment explanation
Indices: 24866523--24866575 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
24866513 ACTGCCCTCG
*
24866523 ATGTCGCGACACGACCCTCCT
1 ATGTCGCGACAAGACCCTCCT
* *
24866544 ATGTCGTGACAAGGCCCTCCT
1 ATGTCGCGACAAGACCCTCCT
*
24866565 ATGTCACGACA
1 ATGTCGCGACA
24866576 TACCCCTTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.21
Consensus pattern (21 bp):
ATGTCGCGACAAGACCCTCCT
Found at i:24868753 original size:51 final size:50
Alignment explanation
Indices: 24868690--24868912 Score: 236
Period size: 51 Copynumber: 4.4 Consensus size: 50
24868680 GTAGTACTGT
*
24868690 GTGAAGGCTACTATGTGTATCGATAAATAATGGTCACATGTGTAATACTAA
1 GTGAAGGCTACTATGTGTACCGATAAAT-ATGGTCACATGTGTAATACTAA
* * * **
24868741 GTGAAGGCTACTATGTGTACCGAGAAGTTTTGGTCAC--GTGTACAGTACTGC
1 GTGAAGGCTACTATGTGTACCGATAA-ATATGGTCACATGTGTA-A-TACTAA
* ** *
24868792 GTGAAGGCTACTACGTGTACCGATAAATGATGAACACATGTGTAGTACTAA
1 GTGAAGGCTACTATGTGTACCGATAAAT-ATGGTCACATGTGTAATACTAA
* * * *
24868843 GTGAAGGCTACTATGTGTACCGGA-AAGATTTGGTCACGTGTGTAGTACTAT
1 GTGAAGGCTACTATGTGTACC-GATAA-ATATGGTCACATGTGTAATACTAA
24868894 GTGAAGGCTACTATGTGTA
1 GTGAAGGCTACTATGTGTA
24868913 ACGGATGATA
Statistics
Matches: 143, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
49 5 0.03
50 2 0.01
51 126 0.88
52 5 0.03
53 5 0.03
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (50 bp):
GTGAAGGCTACTATGTGTACCGATAAATATGGTCACATGTGTAATACTAA
Found at i:24868849 original size:102 final size:102
Alignment explanation
Indices: 24868673--24868912 Score: 365
Period size: 102 Copynumber: 2.4 Consensus size: 102
24868663 ATCGATGAAA
* **
24868673 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAATAATGGTCACATGTGTAATAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGATAAATAATGAACACATGTGTAATAC
*
24868738 TAAGTGAAGGCTACTATGTGTACC-GAGAAGTTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGGA-AAGATTTGGT
** * * * *
24868775 CACGTGTACAGTACTGCGTGAAGGCTACTACGTGTACCGATAAATGATGAACACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGATAAATAATGAACACATGTGTAATAC
24868840 TAAGTGAAGGCTACTATGTGTACCGGAAAGATTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGGAAAGATTTGGT
*
24868877 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTA
24868913 ACGGATGATA
Statistics
Matches: 122, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
102 120 0.98
103 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGATAAATAATGAACACATGTGTAATAC
TAAGTGAAGGCTACTATGTGTACCGGAAAGATTTGGT
Found at i:24868939 original size:51 final size:51
Alignment explanation
Indices: 24868677--24868949 Score: 162
Period size: 51 Copynumber: 5.4 Consensus size: 51
24868667 ATGAAACACG
* * * *
24868677 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATC-GATAA-ATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTATGTGTAACGGA-AAGATAA-AGTAACA
* * * * *** * *
24868728 TGTGTAATACTAAGTGAAGGCTACTATGTGT-ACCGAGAAGTTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTATGTGTAACGGA-AAGATAAAGTAACA
** ** * * * * *
24868779 TGTACAGTACTGCGTGAAGGCTACTACGTGTACCGATAAATGATGAA--CACA
1 TGTGTAGTACTATGTGAAGGCTACTATGTGTAACG-GAAA-GATAAAGTAACA
* * *** * *
24868830 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGGAAAGATTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTATGTGTAACGGAAAGATAAAGTAACA
*
24868881 TGTGTAGTACTATGTGAAGGCTACTATGTGTAACGG-ATGATAAAAGTAACA
1 TGTGTAGTACTATGTGAAGGCTACTATGTGTAACGGAAAGAT-AAAGTAACA
* *
24868932 TGGGTAGTACTGTGTGAA
1 TGTGTAGTACTATGTGAA
24868950 AAACCCCAAA
Statistics
Matches: 171, Mismatches: 43, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
49 3 0.02
50 8 0.05
51 153 0.89
52 4 0.02
53 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTATGTGTAACGGAAAGATAAAGTAACA
Found at i:24868949 original size:102 final size:100
Alignment explanation
Indices: 24868673--24868942 Score: 321
Period size: 102 Copynumber: 2.6 Consensus size: 100
24868663 ATCGATGAAA
* * *
24868673 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATA-AATAATGGTCACATGTGTAATA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTAACGATATAA-AA--GTAACATGTGTAGTA
*
24868737 CTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGGT
63 CTAAGTGAAGGCTACTATGTGTACCGAGAAGATTTGGT
** * * * * *
24868775 CACGTGTACAGTACTGCGTGAAGGCTACTACGTGTACCGATA-AATGATGAACACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTAACGATATAA--AAGTA-ACATGTGTAGTA
24868839 CTAAGTGAAGGCTACTATGTGTACCG-GAAAGATTTGGT
63 CTAAGTGAAGGCTACTATGTGTACCGAG-AAGATTTGGT
* *
24868877 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTAACGGATGATAAAAGTAACATGGGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTAAC-GAT-ATAAAAGTAACATGTGTAGTAC
24868942 T
64 T
24868943 GTGTGAAAAA
Statistics
Matches: 142, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
101 2 0.01
102 130 0.92
103 7 0.05
104 1 0.01
105 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (100 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTAACGATATAAAAGTAACATGTGTAGTACTA
AGTGAAGGCTACTATGTGTACCGAGAAGATTTGGT
Found at i:24868949 original size:153 final size:154
Alignment explanation
Indices: 24868666--24868949 Score: 333
Period size: 153 Copynumber: 1.9 Consensus size: 154
24868656 ATAAGGTATC
* ** *
24868666 GATGAAACACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAATAATGGTCACATGT
1 GATGAAACACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGATAAATAATGGTCACATGT
* **** * * *
24868731 GTAATACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGGTCACGTGTACAGTACTGCGTGA
66 GTAATACTAAGTGAAGGCTACTATGTGTAACGAGAAGTAAAAGTAACATGGACAGTACTGCGTGA
24868796 AGGCTACTACGTGTACCGATAAAT
131 AGGCTACTACGTGTACCGATAAAT
* *
24868820 GATG-AACACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGGA-AAGAT-TTGGTCACGT
1 GATGAAACACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACC-GATAA-ATAATGGTCACAT
* * * ** *
24868882 GTGTAGTACTATGTGAAGGCTACTATGTGTAACG-GATGATAAAAGTAACATGGGTAGTACTGTG
64 GTGTAATACTAAGTGAAGGCTACTATGTGTAACGAGAAG-TAAAAGTAACATGGACAGTACTGCG
24868946 TGAA
128 TGAA
24868950 AAACCCCAAA
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
152 3 0.03
153 96 0.90
154 8 0.07
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (154 bp):
GATGAAACACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGATAAATAATGGTCACATGT
GTAATACTAAGTGAAGGCTACTATGTGTAACGAGAAGTAAAAGTAACATGGACAGTACTGCGTGA
AGGCTACTACGTGTACCGATAAAT
Found at i:24870685 original size:13 final size:13
Alignment explanation
Indices: 24870667--24870695 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24870657 ATGATATGTT
24870667 TATATAAAATTTG
1 TATATAAAATTTG
24870680 TATATAAAATTTG
1 TATATAAAATTTG
24870693 TAT
1 TAT
24870696 TCGTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TATATAAAATTTG
Found at i:24872412 original size:25 final size:25
Alignment explanation
Indices: 24872384--24872440 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
24872374 CTATAAACGG
*
24872384 TAAGCTCCTTCGTGCTGAATAACAA
1 TAAGCTCCTCCGTGCTGAATAACAA
**
24872409 TAAGCTCCTCCGTGCTGAATAATGA
1 TAAGCTCCTCCGTGCTGAATAACAA
24872434 TAAGCTC
1 TAAGCTC
24872441 ATGCGAGCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (25 bp):
TAAGCTCCTCCGTGCTGAATAACAA
Found at i:24872450 original size:25 final size:25
Alignment explanation
Indices: 24872397--24872477 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
24872387 GCTCCTTCGT
* * * *
24872397 GCTGAATAACAATAAGCTCCTCCGT
1 GCTGAATAATAATAAGCTCATACGA
* *
24872422 GCTGAATAATGATAAGCTCATGCGA
1 GCTGAATAATAATAAGCTCATACGA
* *
24872447 GCTG-AGAATCAGTAAGCTCATACGA
1 GCTGAATAAT-AATAAGCTCATACGA
24872472 GCTGAA
1 GCTGAA
24872478 ATCGGTAACC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 4 0.09
25 40 0.89
26 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (25 bp):
GCTGAATAATAATAAGCTCATACGA
Found at i:24872485 original size:24 final size:25
Alignment explanation
Indices: 24872434--24872485 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
24872424 TGAATAATGA
*
24872434 TAAGCTCATGCGAGCTGAGAATCAG
1 TAAGCTCATACGAGCTGAGAATCAG
*
24872459 TAAGCTCATACGAGCTGA-AATCGG
1 TAAGCTCATACGAGCTGAGAATCAG
24872483 TAA
1 TAA
24872486 CCCTAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAGAATCAG
Found at i:24876656 original size:17 final size:18
Alignment explanation
Indices: 24876623--24876664 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
24876613 TGGAATAGTT
*
24876623 AATAA-CAATTTATATTC
1 AATAATCAATTCATATTC
24876640 AATAATCAATTCA-ATTC
1 AATAATCAATTCATATTC
*
24876657 CATAATCA
1 AATAATCA
24876665 CAAGTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (18 bp):
AATAATCAATTCATATTC
Found at i:24877899 original size:38 final size:38
Alignment explanation
Indices: 24877827--24877923 Score: 110
Period size: 38 Copynumber: 2.6 Consensus size: 38
24877817 AAGTTTATCT
*
24877827 GTAG-ATTTTACTCATTTGAGC-TCCATTCAGTATAACA
1 GTAGAATTTT-CTCATTTGAGCTTCCATTCAATATAACA
24877864 GTAGAATTTTCTCATTTGAGCTTCACA-TCAATATAACA
1 GTAGAATTTTCTCATTTGAGCTTC-CATTCAATATAACA
* * * *
24877902 ATAAAATTTGCTCGTTTGAGCT
1 GTAGAATTTTCTCATTTGAGCT
24877924 ACTTTAAGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
37 15 0.29
38 35 0.67
39 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (38 bp):
GTAGAATTTTCTCATTTGAGCTTCCATTCAATATAACA
Found at i:24878063 original size:40 final size:40
Alignment explanation
Indices: 24878019--24878098 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
24878009 ATTGGAATCG
*
24878019 GTAGGTATGGCTCGAAAACACATACGTTTCACTAGATTCA
1 GTAGGTATAGCTCGAAAACACATACGTTTCACTAGATTCA
** *
24878059 GTAGGTATAGCTCGAAAGTACATACGTTTCAGTAGATTCA
1 GTAGGTATAGCTCGAAAACACATACGTTTCACTAGATTCA
24878099 ATAGATATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (40 bp):
GTAGGTATAGCTCGAAAACACATACGTTTCACTAGATTCA
Found at i:24882172 original size:29 final size:29
Alignment explanation
Indices: 24882139--24882295 Score: 208
Period size: 29 Copynumber: 5.4 Consensus size: 29
24882129 TCATTGACTA
24882139 ATGAAAAGGGATAGCTTCGACTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
24882168 ATGAAAAGGGATAGCTTCAACTATCCAGT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* *
24882197 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
24882226 ATGAAAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAAT
* *
24882255 ATGAAAAGGGATAGCTTCGATTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
24882284 ATGAAAAGGGAT
1 ATGAAAAGGGAT
24882296 GGTGACGACT
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
28 2 0.02
29 105 0.96
30 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGAAT
Found at i:24882203 original size:58 final size:58
Alignment explanation
Indices: 24882139--24882324 Score: 223
Period size: 58 Copynumber: 3.2 Consensus size: 58
24882129 TCATTGACTA
* * * *
24882139 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCT-TCAACTATCCAGT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGAT-GCTGACAACCATCCAAT
* * * *
24882197 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGCTGACAACCATCCAAT
* * * *
24882255 ATGAAAAGGGATAGCTTCGATTATCGATTATGAAAAGGGATGGTGACGACTAT-CAACT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGCTGACAACCATCCAA-T
*
24882313 ATGAAAAAGGAT
1 ATGAAAAGGGAT
24882325 GGTGATGACC
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
57 4 0.04
58 109 0.96
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.24
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGCTGACAACCATCCAAT
Found at i:24882308 original size:29 final size:28
Alignment explanation
Indices: 24882139--24882415 Score: 184
Period size: 29 Copynumber: 9.6 Consensus size: 28
24882129 TCATTGACTA
*
24882139 ATGAAAAGGGATAGCTTCGACTATCGAAT
1 ATGAAAAGGGAT-GGTTCGACTATCGAAT
* * * *
24882168 ATGAAAAGGGATAGCTTCAACTATCCAGT
1 ATGAAAAGGGAT-GGTTCGACTATCGAAT
* * *
24882197 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGAT-GGTTCGACTATCGAAT
* *
24882226 ATGAAAAGGGATGGTGACGACCATCGAAT
1 ATGAAAAGGGATGGT-TCGACTATCGAAT
* * *
24882255 ATGAAAAGGGATAGCTTCGATTATCGATT
1 ATGAAAAGGGAT-GGTTCGACTATCGAAT
*
24882284 ATGAAAAGGGATGGTGACGACTATC-AACT
1 ATGAAAAGGGATGGT-TCGACTATCGAA-T
* * *
24882313 ATGAAAAAGGATGGTGAT-GACCATC-AGCT
1 ATGAAAAGGGATGGT--TCGACTATCGA-AT
* * * * *
24882342 AAGAACAGGGATGGTGACGACCATCGATT
1 ATGAAAAGGGATGGT-TCGACTATCGAAT
* * *
24882371 AATGAAAAGGGAAGGTTTCGACCATCAAAT
1 -ATGAAAAGGGATGG-TTCGACTATCGAAT
24882401 ATG-AAAGGGATGGTT
1 ATGAAAAGGGATGGTT
24882416 ACAACCATCA
Statistics
Matches: 199, Mismatches: 39, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
27 2 0.01
28 14 0.07
29 158 0.79
30 24 0.12
31 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (28 bp):
ATGAAAAGGGATGGTTCGACTATCGAAT
Found at i:24882352 original size:87 final size:86
Alignment explanation
Indices: 24882139--24882424 Score: 247
Period size: 87 Copynumber: 3.3 Consensus size: 86
24882129 TCATTGACTA
* * * * * * *
24882139 ATGAAAAGGGATAGCT-TCGACTATCGAATATGAAAAGGGATAGCTTCAACTATCCAGTATGAAA
1 ATGAAAAGGGAT-GGTGACGACCATCGAATAAGAAAAGGGATAGCTTCGACTATCGATTATGAAA
* * * *
24882203 AGGGATAGCTTCGGCTATCGATT
65 AGGGAT-GGTTCGACTATCAAAT
* *
24882226 ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTCGATTATCGATTATGAAAA
1 ATGAAAAGGGATGGTGACGACCATCGAATAAGAAAAGGGATAGCTTCGACTATCGATTATGAAAA
* *
24882291 GGGATGGTGACGACTATCAACT
66 GGGATGGT-TCGACTATCAAAT
* * * * * * *
24882313 ATGAAAAAGGATGGTGATGACCATC-AGCTAAGAACAGGGAT-GGTGACGACCATCGATTAATGA
1 ATGAAAAGGGATGGTGACGACCATCGA-ATAAGAAAAGGGATAGCT-TCGACTATCGATT-ATGA
* *
24882376 AAAGGGAAGGTTTCGACCATCAAAT
63 AAAGGGATGG-TTCGACTATCAAAT
* *
24882401 ATG-AAAGGGATGGTTACAACCATC
1 ATGAAAAGGGATGGTGACGACCATC
24882425 ATTTAACACA
Statistics
Matches: 164, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
86 7 0.04
87 130 0.79
88 26 0.16
89 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.22
Consensus pattern (86 bp):
ATGAAAAGGGATGGTGACGACCATCGAATAAGAAAAGGGATAGCTTCGACTATCGATTATGAAAA
GGGATGGTTCGACTATCAAAT
Found at i:24885216 original size:55 final size:50
Alignment explanation
Indices: 24884990--24885238 Score: 184
Period size: 50 Copynumber: 4.9 Consensus size: 50
24884980 TGATAATAAC
* ** * * *
24884990 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGT-A
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA
* * ** ** * ** * *
24885039 CTGACAATTTCATAACCCAGATATGGTCTTACATGGGAGTTCTTATAC-CG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-CTCA
* * * * *
24885089 GTGCCCATGCCATGTCCCAAACATGGTCTTAC-GGGGAACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATCTCA
* *
24885139 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAAA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CTC--A
24885194 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCTCATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC
24885239 CCTTTAATTT
Statistics
Matches: 155, Mismatches: 35, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
49 37 0.24
50 70 0.45
51 3 0.02
53 9 0.06
55 36 0.23
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA
Found at i:24892323 original size:50 final size:51
Alignment explanation
Indices: 24892242--24892374 Score: 148
Period size: 50 Copynumber: 2.6 Consensus size: 51
24892232 CAATGTCATA
* * *
24892242 TCCCAGATATGGTCTTCCATGGGA-GTCCTCATACT-GGTGTCC-ATGCCATG
1 TCCCAGATATGGTCTTACATGGGACCT-CTCATACTCGGTG-CCAACGCCATG
* * *
24892292 TCCTAGATATGGTCTTACAGGGGACCTCTCAT-GTCGGTGCCAACGCCATG
1 TCCCAGATATGGTCTTACATGGGACCTCTCATACTCGGTGCCAACGCCATG
* *
24892342 TCCCAGACATGGTCTTACATGAGACCTCTCATA
1 TCCCAGATATGGTCTTACATGGGACCTCTCATA
24892375 ACCTCAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
49 3 0.04
50 65 0.94
51 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.28
Consensus pattern (51 bp):
TCCCAGATATGGTCTTACATGGGACCTCTCATACTCGGTGCCAACGCCATG
Found at i:24898041 original size:29 final size:29
Alignment explanation
Indices: 24898008--24898397 Score: 180
Period size: 29 Copynumber: 13.4 Consensus size: 29
24897998 TTATTGACTA
* *
24898008 ATGAAAAGGGATAACTTCGATTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* ** *
24898037 ATG-AAAGCGGATTGCTTCGGTTATCAAAT
1 ATGAAAAG-GGATAGCTTCGACTATCGAAT
* * * *
24898066 ATGAAAAGTGATAGCGTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * * * *
24898095 AAGAAAAGAGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGACTATCGAA-T
*
24898124 ATGAAAAGGGATA--TTGACGACCATCGAAT
1 ATGAAAAGGGATAGCTT--CGACTATCGAAT
* *
24898153 ATGAACAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
*
24898182 ATGAAAAGGGATAGCTTC-AGCTATCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAAT
* * * * * *
24898211 CTAAAAAGGGAT-GGTGACGACCATCAAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAAT
* * *
24898240 ATGAAAAGAGAT-GGTGAT-GACCATCGAAT
1 ATGAAAAGGGATAGCT--TCGACTATCGAAT
*
24898269 ATGAAAAGGGATAGCTTC-AGCTATCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAAT
* * * *
24898298 ATAAAAAGGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGACTATCGAA-T
* * *
24898327 ATGAAAAGGGAT-GGTGACGACCATC-AATT
1 ATGAAAAGGGATAGCT-TCGACTATCGAA-T
* *
24898356 AATGAAAAGGGAT-GGTTCCGACCATCGAAT
1 -ATGAAAAGGGATAGCTT-CGACTATCGAAT
*
24898386 ATGAAACGGGAT
1 ATGAAAAGGGAT
24898398 GGTTACAACC
Statistics
Matches: 285, Mismatches: 53, Indels: 46
0.74 0.14 0.12
Matches are distributed among these distances:
28 14 0.05
29 233 0.82
30 34 0.12
31 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGAAT
Found at i:24898218 original size:87 final size:85
Alignment explanation
Indices: 24898127--24898368 Score: 299
Period size: 87 Copynumber: 2.8 Consensus size: 85
24898117 ATCAACTATG
** * * *
24898127 AAAAGGGATATTGACGACCATCGAATATGAACAGGGATAGCT-TCGGCTATCGAATATGAAAAGG
1 AAAAGGGATGGTGACGACCATC-AATATGAAAAGGGAT-GCTAT-GACCATCGAATATGAAAAGG
*
24898191 GATAGCTTCAGCTATCGATTCTA
63 GATAGCTTCAGCTATCGATTATA
* *
24898214 AAAAGGGATGGTGACGACCATCAAATATGAAAAGAGATGGTGATGACCATCGAATATGAAAAGGG
1 AAAAGGGATGGTGACGACCATC-AATATGAAAAGGGATGCT-ATGACCATCGAATATGAAAAGGG
24898279 ATAGCTTCAGCTATCGATTATA
64 ATAGCTTCAGCTATCGATTATA
* *
24898301 AAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGACCATC-AATTAATGAAAAG
1 AAAAGGGATGGTGACGACCATCAA-TATGAAAAGGGATGCT-ATGACCATCGAA-T-ATGAAAAG
24898365 GGAT
62 GGAT
24898369 GGTTCCGACC
Statistics
Matches: 139, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
86 6 0.04
87 120 0.86
88 13 0.09
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (85 bp):
AAAAGGGATGGTGACGACCATCAATATGAAAAGGGATGCTATGACCATCGAATATGAAAAGGGAT
AGCTTCAGCTATCGATTATA
Found at i:24898218 original size:116 final size:114
Alignment explanation
Indices: 24898030--24898397 Score: 409
Period size: 116 Copynumber: 3.2 Consensus size: 114
24898020 AACTTCGATT
* * * * *
24898030 ATCGAATATGAAAGCGGATTGCTTCGGTTATCAAATATGAAAAGTGATAGCGTCGGCTATCGATT
1 ATCGAATATGAAAG-GGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCGTCAGCTATCGATT
* * * *
24898095 AAGAAAAGAGATGGTGACGACCATCAACTATGAAAAGGGATATTGACGACC
65 TA-AAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATGTTGACGACC
*
24898146 ATCGAATATGAACAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCAGCTATCGATT
1 ATCGAATATGAA-AGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCGTCAGCTATCGATT
* * *
24898211 CTAAAAAGGGATGGTGACGACCATCAAATATGAAAAGAGATGGTGATGACC
65 -TAAAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATGTTGACGACC
* * * * * *
24898262 ATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTATAAAAAGGGAT-G-GTGACGACCATCAA
1 ATCGAATATG-AAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCGTCA-G-CTATCGA
* * * *
24898325 CTATGAAAAGGGATGGTGACGACCATCAATTAATGAAAAGGGATGGTT-CCGACC
63 -TTTAAAAAGGGATGGTGACGACCATCAAAT-ATGAAAAGGGAT-GTTGACGACC
24898379 ATCGAATATGAAACGGGAT
1 ATCGAATATGAAA-GGGAT
24898398 GGTTACAACC
Statistics
Matches: 216, Mismatches: 27, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
114 2 0.01
115 2 0.01
116 174 0.81
117 36 0.17
118 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.22
Consensus pattern (114 bp):
ATCGAATATGAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCGTCAGCTATCGATTT
AAAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATGTTGACGACC
Found at i:24898399 original size:29 final size:29
Alignment explanation
Indices: 24898088--24898410 Score: 241
Period size: 29 Copynumber: 11.1 Consensus size: 29
24898078 AGCGTCGGCT
* * * *
24898088 ATCGATTAAGAAAAGAGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
*
24898117 ATC-AACTATGAAAAGGGAT-ATTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTT-ACGACC
* * * *
24898146 ATCGAATATGAACAGGGATAGCTT-CGGCT
1 ATCGAATATGAAAAGGGAT-GGTTACGACC
* *
24898175 ATCGAATATGAAAAGGGATAGCTT-C-AGCT
1 ATCGAATATGAAAAGGGAT-GGTTACGA-CC
* * * *
24898204 ATCGATTCTAAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
* * * *
24898233 ATCAAATATGAAAAGAGATGGTGATGACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
* *
24898262 ATCGAATATGAAAAGGGATAGCTT-C-AGCT
1 ATCGAATATGAAAAGGGAT-GGTTACGA-CC
* * *
24898291 ATCGATTATAAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
*
24898320 ATC-AACTATGAAAAGGGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTTACGACC
*
24898349 ATC-AATTAATGAAAAGGGATGGTTCCGACC
1 ATCGAA-T-ATGAAAAGGGATGGTTACGACC
* *
24898379 ATCGAATATGAAACGGGATGGTTACAACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
24898408 ATC
1 ATC
24898411 ATTTAGCACA
Statistics
Matches: 237, Mismatches: 42, Indels: 30
0.77 0.14 0.10
Matches are distributed among these distances:
28 8 0.03
29 195 0.82
30 30 0.13
31 4 0.02
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTTACGACC
Found at i:24901815 original size:46 final size:46
Alignment explanation
Indices: 24901748--24901840 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
24901738 TATTTTTAAA
*
24901748 TTTCATACCTATCCTATGCCTTAGAACGTTACAAGCTGAAAAGTCC
1 TTTCATACCTATCCTAAGCCTTAGAACGTTACAAGCTGAAAAGTCC
*
24901794 TTTCATACCTATCCTAAGCCTTAGAACGTTGCAAGCTGAAAAGTCC
1 TTTCATACCTATCCTAAGCCTTAGAACGTTACAAGCTGAAAAGTCC
24901840 T
1 T
24901841 ATGTGACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (46 bp):
TTTCATACCTATCCTAAGCCTTAGAACGTTACAAGCTGAAAAGTCC
Found at i:24905834 original size:37 final size:37
Alignment explanation
Indices: 24905793--24905871 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
24905783 TTATTACGAA
* *
24905793 GTCTTACCCAGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATTC-CCACACGAAGTCATCGG
* *
24905830 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATTCCCACACGAAGTCATCGG
24905867 GTCTT
1 GTCTT
24905872 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATTCCCACACGAAGTCATCGG
Found at i:24906068 original size:47 final size:47
Alignment explanation
Indices: 24905990--24906429 Score: 727
Period size: 47 Copynumber: 9.4 Consensus size: 47
24905980 CCCTTCGGGA
* * * * * * *
24905990 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24906037 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTATGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24906084 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24906131 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24906178 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24906225 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24906272 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24906319 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24906366 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24906413 CTTATCACATATATACA
1 CTTATCACATATATACA
24906430 TTGTCTTGGC
Statistics
Matches: 369, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 369 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24913551 original size:30 final size:30
Alignment explanation
Indices: 24913517--24913582 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
24913507 AATAGGCATA
24913517 AGTGACCTAATTTG-TCAATAATAAAAGTTT
1 AGTGACCTAATTTGATCAA-AATAAAAGTTT
** * *
24913547 AGTGATTTAATTTGATGAAATTAAAAGTTT
1 AGTGACCTAATTTGATCAAAATAAAAGTTT
24913577 A-TGACC
1 AGTGACC
24913583 CATATGATAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
29 3 0.10
30 23 0.79
31 3 0.10
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (30 bp):
AGTGACCTAATTTGATCAAAATAAAAGTTT
Found at i:24914041 original size:19 final size:19
Alignment explanation
Indices: 24913997--24914045 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
24913987 ATTAATTAAA
* *
24913997 ATTTAAAAAATTTAAAAGT
1 ATTTAAAAATTTTAAAAAT
*
24914016 -TGATAAAAATTTTAAAAAT
1 AT-TTAAAAATTTTAAAAAT
24914035 ATTTAAAAATT
1 ATTTAAAAATT
24914046 AAAAATGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
ATTTAAAAATTTTAAAAAT
Found at i:24914064 original size:22 final size:23
Alignment explanation
Indices: 24914032--24914074 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
24914022 AAATTTTAAA
* *
24914032 AATATTTAAAAATTA-AAAATGT
1 AATATTAAAAAAATATAAAATGT
24914054 AATATTAAAAAAATATAAAAT
1 AATATTAAAAAAATATAAAAT
24914075 ATATATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
AATATTAAAAAAATATAAAATGT
Found at i:24914080 original size:22 final size:22
Alignment explanation
Indices: 24914032--24914081 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
24914022 AAATTTTAAA
* * *
24914032 AATATTTAAAAATTAAAAATGT
1 AATATTAAAAAAATAAAAATAT
24914054 AATATTAAAAAAATATAAAATAT
1 AATATTAAAAAAATA-AAAATAT
24914077 -ATATT
1 AATATT
24914082 TCATTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
AATATTAAAAAAATAAAAATAT
Found at i:24922286 original size:16 final size:16
Alignment explanation
Indices: 24922265--24922297 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24922255 ATATAAATAT
*
24922265 AATAATATTAATAAAA
1 AATAATATCAATAAAA
24922281 AATAATATCAATAAAA
1 AATAATATCAATAAAA
24922297 A
1 A
24922298 TATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAATATCAATAAAA
Found at i:24922303 original size:28 final size:30
Alignment explanation
Indices: 24922246--24922303 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
24922236 TATTCTAAAT
*
24922246 TAAAAACTAATATAAATATAATAATATTAA
1 TAAAAAATAATATAAATATAATAATATTAA
*
24922276 TAAAAAATAATATCAATA-AA-AATATTAA
1 TAAAAAATAATATAAATATAATAATATTAA
24922304 AATTTAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 8 0.31
29 2 0.08
30 16 0.62
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (30 bp):
TAAAAAATAATATAAATATAATAATATTAA
Found at i:24922313 original size:23 final size:21
Alignment explanation
Indices: 24922287--24922328 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
24922277 AAAAAATAAT
24922287 ATCAATAAAAATATTAAAATTTA
1 ATCAATAAAAA-A-TAAAATTTA
24922310 ATCAATAAAAAATAAAATT
1 ATCAATAAAAAATAAAATT
24922329 AAAATCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 1 0.05
23 11 0.58
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
ATCAATAAAAAATAAAATTTA
Found at i:24922875 original size:9 final size:9
Alignment explanation
Indices: 24922861--24922927 Score: 84
Period size: 9 Copynumber: 7.4 Consensus size: 9
24922851 TTTGGTTAAA
24922861 AATTAACCG
1 AATTAACCG
24922870 AATTAACCG
1 AATTAACCG
24922879 AATT-ACTCG
1 AATTAAC-CG
24922888 AATTAACCG
1 AATTAACCG
24922897 AATT-ACTCG
1 AATTAAC-CG
* *
24922906 AATTACCCA
1 AATTAACCG
24922915 AATTAACCG
1 AATTAACCG
24922924 AATT
1 AATT
24922928 GAATCACTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
8 4 0.08
9 43 0.86
10 3 0.06
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:24922899 original size:27 final size:27
Alignment explanation
Indices: 24922860--24922927 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
24922850 TTTTGGTTAA
*
24922860 AAATTAACCGAATTAAC-CGAATTACTC
1 AAATTAACCGAATT-ACTCGAATTACCC
*
24922887 GAATTAACCGAATTACTCGAATTACCC
1 AAATTAACCGAATTACTCGAATTACCC
24922914 AAATTAACCGAATT
1 AAATTAACCGAATT
24922928 GAATCACTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.05
27 35 0.95
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (27 bp):
AAATTAACCGAATTACTCGAATTACCC
Found at i:24922957 original size:17 final size:17
Alignment explanation
Indices: 24922935--24922995 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
24922925 ATTGAATCAC
24922935 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
24922952 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
24922972 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
24922989 TACATAA
1 TACATAA
24922996 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:24922967 original size:37 final size:37
Alignment explanation
Indices: 24922926--24923000 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
24922916 ATTAACCGAA
24922926 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
24922963 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
24923000 T
1 T
24923001 GAAATTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:24923014 original size:37 final size:37
Alignment explanation
Indices: 24922926--24923017 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
24922916 ATTAACCGAA
*
24922926 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
*
24922963 TTGAATCACTACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
24922999 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
24923018 GAAATGTAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 3 0.06
37 46 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTCT
Found at i:24931336 original size:25 final size:26
Alignment explanation
Indices: 24931307--24931357 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
24931297 TTTCTCATCC
*
24931307 CAATTTTACTCCAA-TAAAATTTTGA
1 CAATTTTACCCCAAGTAAAATTTTGA
24931332 CAATTTTACCCCAAGTAAAATTTTGA
1 CAATTTTACCCCAAGTAAAATTTTGA
24931358 GAAAATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (26 bp):
CAATTTTACCCCAAGTAAAATTTTGA
Found at i:24934334 original size:36 final size:36
Alignment explanation
Indices: 24934285--24934354 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
24934275 AACTCTATTC
*
24934285 AGTTCAATAGCCTTTTGGATCTATTCTAACTGATTT
1 AGTTCAATAGCCTTTCGGATCTATTCTAACTGATTT
* * *
24934321 AGTTCAGTGGCCTTTCGGATCTATTCTGACTGAT
1 AGTTCAATAGCCTTTCGGATCTATTCTAACTGAT
24934355 GTGCTCCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (36 bp):
AGTTCAATAGCCTTTCGGATCTATTCTAACTGATTT
Found at i:24938426 original size:13 final size:13
Alignment explanation
Indices: 24938408--24938436 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24938398 ACATAAAAAT
24938408 AAAATTAAAATGA
1 AAAATTAAAATGA
24938421 AAAATTAAAATGA
1 AAAATTAAAATGA
24938434 AAA
1 AAA
24938437 TAAAAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (13 bp):
AAAATTAAAATGA
Found at i:24938429 original size:19 final size:18
Alignment explanation
Indices: 24938400--24938454 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
24938390 CTTATTGAAC
24938400 ATAAAAA-TAAAATTAAA
1 ATAAAAATTAAAATTAAA
*
24938417 ATGAAAAATTAAAATGAAA
1 AT-AAAAATTAAAATTAAA
24938436 ATAAAAATTTCAAAATTAA
1 ATAAAAA-TT-AAAATTAA
24938455 TTAGAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 2 0.06
18 10 0.31
19 13 0.41
20 7 0.22
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (18 bp):
ATAAAAATTAAAATTAAA
Found at i:24940701 original size:118 final size:118
Alignment explanation
Indices: 24940488--24940730 Score: 450
Period size: 118 Copynumber: 2.1 Consensus size: 118
24940478 CTCCAATGTT
* * * *
24940488 GTTGCTTGGCCTTGAATCAAGGCATCATTTTTAGCAGTTTATTTCTTTAATAAGTTCTCCAAATC
1 GTTGATTGGCCTTGAATCAAGGCATCATTTTTAACAGTTTAATTCTTTAACAAGTTCTCCAAATC
24940553 ATTTGAAGGCTCAACTTGCGATGGGTTTTGAACTTGTTGATTGAAACCAAGAG
66 ATTTGAAGGCTCAACTTGCGATGGGTTTTGAACTTGTTGATTGAAACCAAGAG
24940606 GTTGATTGGCCTTGAATCAAGGCATCATTTTTAACAGTTTAATTCTTTAACAAGTTCTCCAAATC
1 GTTGATTGGCCTTGAATCAAGGCATCATTTTTAACAGTTTAATTCTTTAACAAGTTCTCCAAATC
24940671 ATTTGAAGGCTCAACTTGCGATGGGTTTTGAACTTGTTGATTGAAACCAAGAG
66 ATTTGAAGGCTCAACTTGCGATGGGTTTTGAACTTGTTGATTGAAACCAAGAG
24940724 GTTGATT
1 GTTGATT
24940731 TGATTTGCGC
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 121 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (118 bp):
GTTGATTGGCCTTGAATCAAGGCATCATTTTTAACAGTTTAATTCTTTAACAAGTTCTCCAAATC
ATTTGAAGGCTCAACTTGCGATGGGTTTTGAACTTGTTGATTGAAACCAAGAG
Found at i:24955268 original size:40 final size:39
Alignment explanation
Indices: 24955216--24955399 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
24955206 TAACTCATTC
* *
24955216 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTATAACTCGCACA
* * *
24955256 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCACACA
1 AATGCCTTCGGGACTTAACCCGGATTTA-TAACTCGCACA
*
24955296 AAGGCCTTCGGGACTTAACCCGGAATTTATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTATAACTCGCACA
* ** * * *
24955336 AATACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-TAAC-TCGCACA
*
24955377 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24955400 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 10 0.08
40 95 0.79
41 15 0.12
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTATAACTCGCACA
Found at i:24955278 original size:79 final size:80
Alignment explanation
Indices: 24955179--24955399 Score: 218
Period size: 80 Copynumber: 2.8 Consensus size: 80
24955169 CTCGTTTAAG
* * ** * *
24955179 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAAT
*
24955242 TTAAAACTCGCACGAA
65 TTAAAACTCGCACAAA
* *
24955258 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
*
24955323 TATAACTCGCACAAA
66 TAAAACTCGCACAAA
* * ** * * *
24955338 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
24955400 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 34 0.28
80 79 0.66
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
TAAAACTCGCACAAA
Found at i:24955330 original size:80 final size:80
Alignment explanation
Indices: 24955219--24955399 Score: 226
Period size: 80 Copynumber: 2.3 Consensus size: 80
24955209 CTCATTCAAT
* * *
24955219 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGAATTTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
24955282 TAGT-ATCTCA-CACAAA
64 TAGTCA-CTCAGCACAAA
* **
24955298 GGCCTTCGGGACTTAACCCGGAATTTATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATAT
1 -GCCTTCGGGACTTAACCCGGAATTTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATAT
*
24955363 AGTCACTTAGCACAAA
65 AGTCACTCAGCACAAA
*
24955379 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
24955400 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
79 3 0.03
80 78 0.88
81 8 0.09
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGAATTTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTCAGCACAAA
Found at i:24963194 original size:40 final size:39
Alignment explanation
Indices: 24963142--24963324 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
24963132 TAACTCATTC
* * *
24963142 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTATAACTCGCACA
* *
24963182 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCACACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-TAACTCGCACA
*
24963222 AAGGCCTTCGGGACTTAACCCGGAATTATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTATAACTCGCACA
* ** * *
24963261 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TA-TAAC-TCGCACA
*
24963302 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24963325 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
38 5 0.04
39 29 0.24
40 75 0.62
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTATAACTCGCACA
Found at i:24963204 original size:79 final size:79
Alignment explanation
Indices: 24963105--24963324 Score: 207
Period size: 79 Copynumber: 2.8 Consensus size: 79
24963095 CTCGTTCAAG
* * ** * *
24963105 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
24963168 TTAAAACTCGCACGAA
64 TTAAAACTCGCACAAA
* *
24963184 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
*
24963249 ATAACTCGCACAAA
66 AAAACTCGCACAAA
* * ** * * *
24963263 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
24963325 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
78 6 0.05
79 84 0.71
80 29 0.24
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AAAACTCGCACAAA
Found at i:24966138 original size:26 final size:26
Alignment explanation
Indices: 24966109--24966200 Score: 107
Period size: 26 Copynumber: 3.6 Consensus size: 26
24966099 CTTCAGCCGG
*
24966109 TGTTTATTTAGTAGGCCTTAAG-CTGA
1 TGTTTATTTAGCAGGCCTTAAGTC-GA
*
24966135 TGTTTATATAGCAGGCCTTAAGTCGA
1 TGTTTATTTAGCAGGCCTTAAGTCGA
* * * *
24966161 TGTTTATTTAGCAGGACTTGACTCGG
1 TGTTTATTTAGCAGGCCTTAAGTCGA
24966187 T-TTTATTTAGCAGG
1 TGTTTATTTAGCAGG
24966201 ATTTGAGCCG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
25 13 0.22
26 44 0.76
27 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (26 bp):
TGTTTATTTAGCAGGCCTTAAGTCGA
Found at i:24971811 original size:26 final size:26
Alignment explanation
Indices: 24971782--24971834 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
24971772 TCATAAATGA
24971782 GTAAGACCATAGCTGAAACATGTTAT
1 GTAAGACCATAGCTGAAACATGTTAT
* *
24971808 GTAAGACCATAGTTGAAAGATGTTAT
1 GTAAGACCATAGCTGAAACATGTTAT
24971834 G
1 G
24971835 GCATCATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (26 bp):
GTAAGACCATAGCTGAAACATGTTAT
Found at i:24979610 original size:27 final size:27
Alignment explanation
Indices: 24979569--24979621 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
24979559 GGGGGTAACA
*
24979569 TAGAAAATTTGTTTTAAATTTTTATGC
1 TAGAAAATTTATTTTAAATTTTTATGC
24979596 TAGAAAATTTATTTTAAATTTTTATG
1 TAGAAAATTTATTTTAAATTTTTATG
24979622 TTGTTATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (27 bp):
TAGAAAATTTATTTTAAATTTTTATGC
Found at i:24985358 original size:62 final size:58
Alignment explanation
Indices: 24985239--24985371 Score: 176
Period size: 62 Copynumber: 2.2 Consensus size: 58
24985229 ATCACTTTAA
* **
24985239 TATTAAATTAATATAATATTTATCAAGAAAAATATTCTATTAAATTTAATATTAAATC
1 TATTAAATTAATAAAATATTTATCAAGAAAAATATTAAATTAAATTTAATATTAAATC
* *
24985297 TTATTAAATTAATAAAATATTTATCTGTAAGATAAATATTAAATTTAATTTAATATTAAATC
1 -TATTAAATTAATAAAATATTTATC---AAGAAAAATATTAAATTAAATTTAATATTAAATC
*
24985359 TATTAAAATAATA
1 TATTAAATTAATA
24985372 TTATTTTTGG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
59 23 0.35
61 12 0.18
62 30 0.46
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (58 bp):
TATTAAATTAATAAAATATTTATCAAGAAAAATATTAAATTAAATTTAATATTAAATC
Found at i:24990361 original size:25 final size:24
Alignment explanation
Indices: 24990260--24990386 Score: 107
Period size: 24 Copynumber: 5.2 Consensus size: 24
24990250 GTACATGTAT
* *
24990260 GCTCATACGAGCTCTGAAT-CGGTAT
1 GCTCATACGAG--CTGAATATGGTAA
* *
24990285 GCTCTTACGAGCTGTAA-AAGGTAA
1 GCTCATACGAGCTG-AATATGGTAA
*
24990309 GCTCATACGAGTTGTAA-ATGGTAA
1 GCTCATACGAGCTG-AATATGGTAA
*
24990333 GCTCATACAAGCTGAATACTGGTAA
1 GCTCATACGAGCTGAATA-TGGTAA
**
24990358 GCTCATGTGAGCTGAATATCGGTAA
1 GCTCATACGAGCTGAATAT-GGTAA
24990383 GCTC
1 GCTC
24990387 TCTTGAGCTG
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
23 5 0.06
24 41 0.48
25 40 0.47
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (24 bp):
GCTCATACGAGCTGAATATGGTAA
Found at i:24990393 original size:25 final size:25
Alignment explanation
Indices: 24990328--24990407 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
24990318 AGTTGTAAAT
***
24990328 GGTAAGCTCATACAAGCTGAATA-C
1 GGTAAGCTCATGTGAGCTGAATATC
24990352 TGGTAAGCTCATGTGAGCTGAATATC
1 -GGTAAGCTCATGTGAGCTGAATATC
*
24990378 GGTAAGCTC-TCTTGAGCTGAGA-ATC
1 GGTAAGCTCAT-GTGAGCTGA-ATATC
24990403 GGTAA
1 GGTAA
24990408 TCCTAATGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.02
25 45 0.94
26 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (25 bp):
GGTAAGCTCATGTGAGCTGAATATC
Found at i:25017484 original size:46 final size:46
Alignment explanation
Indices: 25017425--25017540 Score: 135
Period size: 46 Copynumber: 2.5 Consensus size: 46
25017415 TGTGATGCCG
* **
25017425 TAGTATCTTTCAACTATGGTCTTATTCATTTCCTGTCATATTT-TCA
1 TAGTGTCTTTCAACTATGGTCTTATTCATTTCCCATCAT-TTTATCA
* * * * *
25017471 TATTTTCTTTCAACCATGGCCTTATTCATTTCCCATCATTTTATTA
1 TAGTGTCTTTCAACTATGGTCTTATTCATTTCCCATCATTTTATCA
*
25017517 TAGTGTCTTTCAACTGTGGTCTTA
1 TAGTGTCTTTCAACTATGGTCTTA
25017541 CACTTCTGAA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 3 0.05
46 54 0.95
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (46 bp):
TAGTGTCTTTCAACTATGGTCTTATTCATTTCCCATCATTTTATCA
Found at i:25017565 original size:45 final size:46
Alignment explanation
Indices: 25017516--25017716 Score: 205
Period size: 45 Copynumber: 4.5 Consensus size: 46
25017506 TCATTTTATT
* *
25017516 ATAGTGTCTTTCAACTGTGGTCTTACAC-TTCTGAATCATGATGCC
1 ATAGTGTCTTTCAACTATGGTCTTACTCATTCTGAATCATGATGCC
* * * * * *
25017561 ATAGTGTCTTTTAGCTATTGTCATACTC-GTCTGAATCGTGATGCC
1 ATAGTGTCTTTCAACTATGGTCTTACTCATTCTGAATCATGATGCC
* *
25017606 ATAATGTCTTTTAACTATGGTCTTACTCATT-TGAATCATGATGCC
1 ATAGTGTCTTTCAACTATGGTCTTACTCATTCTGAATCATGATGCC
* * ** * * *
25017651 ATAATGTCTTTCAGCTACAGTCTTACTCGTTTCTG-GT-ATGGTGCC
1 ATAGTGTCTTTCAACTATGGTCTTACTC-ATTCTGAATCATGATGCC
25017696 ATAGTGTCTTTCAACTATGGT
1 ATAGTGTCTTTCAACTATGGT
25017717 TTTATTTATT
Statistics
Matches: 128, Mismatches: 25, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
45 122 0.95
46 4 0.03
47 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (46 bp):
ATAGTGTCTTTCAACTATGGTCTTACTCATTCTGAATCATGATGCC
Found at i:25017696 original size:90 final size:90
Alignment explanation
Indices: 25017520--25017716 Score: 240
Period size: 90 Copynumber: 2.2 Consensus size: 90
25017510 TTTATTATAG
* * * **
25017520 TGTCTTTCAACTGTGGTCTTACACTTCTGAATCATGATGCCATAGTGTCTTTTAGCTATTGTCAT
1 TGTCTTTCAACTATGGTCTTACACTTCTGAATCATGATGCCATAATGTCTTTCAGCTACAGTCAT
25017585 ACTCGTCTGAATCGTGATGCCATAA
66 ACTCGTCTGAATCGTGATGCCATAA
* * *
25017610 TGTCTTTTAACTATGGTCTTACTCATT-TGAATCATGATGCCATAATGTCTTTCAGCTACAGTCT
1 TGTCTTTCAACTATGGTCTTACAC-TTCTGAATCATGATGCCATAATGTCTTTCAGCTACAGTCA
* *
25017674 TACTCGTTTCTGGTAT-G-G-TGCCATAG
65 TACTCG--TCT-GAATCGTGATGCCATAA
25017700 TGTCTTTCAACTATGGT
1 TGTCTTTCAACTATGGT
25017717 TTTATTTATT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
90 82 0.89
91 3 0.03
92 4 0.04
93 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (90 bp):
TGTCTTTCAACTATGGTCTTACACTTCTGAATCATGATGCCATAATGTCTTTCAGCTACAGTCAT
ACTCGTCTGAATCGTGATGCCATAA
Found at i:25021909 original size:47 final size:47
Alignment explanation
Indices: 25021851--25022341 Score: 829
Period size: 47 Copynumber: 10.4 Consensus size: 47
25021841 CAGCCAAGAC
*
25021851 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25021898 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
25021945 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25021992 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25022039 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
25022086 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
25022135 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
25022182 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
25022229 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
25022276 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
25022323 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
25022342 TCCCGAAGGG
Statistics
Matches: 422, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 376 0.89
49 46 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:25022270 original size:237 final size:237
Alignment explanation
Indices: 25021855--25022341 Score: 852
Period size: 237 Copynumber: 2.1 Consensus size: 237
25021845 CAAGACAGTG
25021855 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
25021920 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGA
25021985 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
131 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
25022050 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
196 GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
25022092 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
25022157 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGA
*
25022222 ATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
131 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
25022287 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCA
196 GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
25022329 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
25022342 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
235 10 0.04
236 1 0.00
237 227 0.95
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (237 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
Found at i:25022516 original size:37 final size:37
Alignment explanation
Indices: 25022460--25022538 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
25022450 CCGAGCTCTA
* *
25022460 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
25022497 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25022534 AAGAC
1 AAGAC
25022539 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:25024436 original size:43 final size:43
Alignment explanation
Indices: 25024388--25024489 Score: 186
Period size: 43 Copynumber: 2.4 Consensus size: 43
25024378 TTGGTTTTCA
*
25024388 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGATTGTGAGATTG
*
25024431 GCACTAAGTGTGCGGGCAATAAGTGTTCCCGATTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGATTGTGAGATTG
25024474 GCACTAAGTGTGCGGG
1 GCACTAAGTGTGCGGG
25024490 ATTGAAATGC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGATTGTGAGATTG
Found at i:25024512 original size:29 final size:29
Alignment explanation
Indices: 25024472--25024545 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
25024462 ATTGTGAGAT
* *
25024472 TGGCACTAAGTGTGCGGGATTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
25024501 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
25024530 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
25024546 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:25025031 original size:38 final size:40
Alignment explanation
Indices: 25024849--25025022 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 40
25024839 TTGAATGATG
* *
25024849 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * *
25024889 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
25024929 TCCGGGCTAAGTTCCGAAGAGCATTC--GCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
25024967 TCC--G-TAA--CCCGAAGAGCATTCGTGCT-GTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
25025001 TCCGGGCT-AGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
25025023 ATCATGCTGG
Statistics
Matches: 116, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
33 13 0.11
34 10 0.09
35 6 0.05
36 3 0.03
37 1 0.01
38 25 0.22
40 44 0.38
41 7 0.06
42 7 0.06
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:25028604 original size:47 final size:47
Alignment explanation
Indices: 25028546--25028680 Score: 270
Period size: 47 Copynumber: 2.9 Consensus size: 47
25028536 CAGCCAAGAC
25028546 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25028593 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25028640 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
25028681 GGTGGTTTAC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:25031663 original size:37 final size:38
Alignment explanation
Indices: 25031589--25031668 Score: 110
Period size: 37 Copynumber: 2.1 Consensus size: 38
25031579 CTTATACGAA
* *
25031589 GTCTTACCCGAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAGACAAAATCTCCACACGAAGTCATCGG
*
25031627 GTCTTACCCG-GACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGAGACAAAATCT-CCACACGAAGTCATCGG
25031664 GTCTT
1 GTCTT
25031669 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 1 0.03
37 27 0.71
38 10 0.26
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (38 bp):
GTCTTACCCGAGACAAAATCTCCACACGAAGTCATCGG
Found at i:25031948 original size:46 final size:47
Alignment explanation
Indices: 25031782--25032278 Score: 637
Period size: 49 Copynumber: 10.3 Consensus size: 47
25031772 CCCTTCGGGA
* * * * * * *
25031782 CTTATCACATTTATGCACTTTCACATCCATCACGTTGAGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCG-GCCATTAGGC
* *
25031830 CCTGTCACATATATACACTTTCACATTCATTCACATCGGCCATTTAGGC
1 CTTATCACATATATACACTTTCACATTCA-TCACATCGGCCA-TTAGGC
*
25031879 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25031925 CTTATTACATATATACAAC-TTCACATTCCATCACACTCGGCTATTAGGC
1 CTTATCACATATATAC-ACTTTCACATT-CATCACA-TCGGCCATTAGGC
*
25031974 CTTATCACATATTATACCACTTTCACATTCATCACATCGGCTAATTAGGC
1 CTTATCACATA-TATA-CACTTTCACATTCATCACATCGGC-CATTAGGC
25032024 CTTATCACATAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC---ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25032074 GTTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 -CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25032122 CTTATCACATATATATAACCTTTCACATTCAATCACATC-GCCATTAGGC
1 CTTATCACATATATA-CA-CTTTCACATTC-ATCACATCGGCCATTAGGC
*
25032171 CTTATCACACATAT-CACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25032217 CTTATCACATAAATACAC-TTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25032263 CTTATCACATATATAC
1 CTTATCACATATATAC
25032279 CTGTCTTGGC
Statistics
Matches: 402, Mismatches: 27, Indels: 42
0.85 0.06 0.09
Matches are distributed among these distances:
45 8 0.02
46 106 0.26
47 24 0.06
48 69 0.17
49 113 0.28
50 35 0.09
51 40 0.10
52 4 0.01
53 3 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25032173 original size:197 final size:190
Alignment explanation
Indices: 25031838--25032278 Score: 667
Period size: 197 Copynumber: 2.3 Consensus size: 190
25031828 GCCCTGTCAC
*
25031838 ATATATACACTTTCACATTCATTCACATCGGCCATTTAGGCCTTACCACATATATACACTTTCAC
1 ATATATACACTTTCACATTCA-TCACATCGGCCA-TTAGGCCTTATCACATATATACACTTTCAC
* * *
25031903 ATTCATCACATCGGCCATTAGCCTTATTACATATATACAACTTCACATTCCATCACACTCGGCTA
64 ATTCATCACATCGGCCATTAGCCTTATCACATATATACAACTTCACATTCAATCACACTCGGCCA
*
25031968 TTAGGCCTTATCACATATTATACCACTTTCACATTCATCACATCGGCTAATTAGGCCTTATCACA
129 TTAGGCCTTATCACACA-TAT--CACTTTCACATTCATCACATCGGC-AATTAGGCCTTATCACA
25032033 T
190 T
*
25032034 AATATATACACTTTCACATTCATCACATCGGCCATTAGGCGTTTATCACAATATATACACTTTCA
1 -ATATATACACTTTCACATTCATCACATCGGCCATTAGGC-CTTATCAC-ATATATACACTTTCA
*
25032099 CATTCATCACATCGGCCATTAGCCTTATCACATATATATAACCTTTCACATTCAATCACA-TC-G
63 CATTCATCACATCGGCCATTAGCCTTATCACATATATACAA-C-TTCACATTCAATCACACTCGG
*
25032162 CCATTAGGCCTTATCACACATATCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
126 CCATTAGGCCTTATCACACATATCACTTTCACATTCATCACATCGGCAATTAGGCCTTATCACAT
*
25032227 A-A-ATACAC-TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
25032279 CTGTCTTGGC
Statistics
Matches: 230, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
187 8 0.03
188 7 0.03
189 27 0.12
190 6 0.03
191 1 0.00
192 1 0.00
193 17 0.07
194 24 0.10
195 6 0.03
196 21 0.09
197 94 0.41
198 3 0.01
199 15 0.07
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (190 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCGGCCATTAGCCTTATCACATATATACAACTTCACATTCAATCACACTCGGCCATT
AGGCCTTATCACACATATCACTTTCACATTCATCACATCGGCAATTAGGCCTTATCACAT
Found at i:25032224 original size:37 final size:39
Alignment explanation
Indices: 25032182--25032274 Score: 100
Period size: 46 Copynumber: 2.3 Consensus size: 39
25032172 TTATCACACA
25032182 TATCAC-T-TTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATTCACATTCATCACATCGGCCATTAGGCCT
*
25032219 TATCACATAAATACACTTCACATTCATCACATCGGCTATTAGGCCT
1 TATCAC----AT--A-TTCACATTCATCACATCGGCCATTAGGCCT
25032265 TATCACATAT
1 TATCACATAT
25032275 ATACCTGTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
37 6 0.13
39 1 0.02
40 1 0.02
42 3 0.07
46 35 0.76
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (39 bp):
TATCACATATTCACATTCATCACATCGGCCATTAGGCCT
Found at i:25038685 original size:47 final size:47
Alignment explanation
Indices: 25038546--25038991 Score: 645
Period size: 48 Copynumber: 9.3 Consensus size: 47
25038536 CTCGGCCCTG
25038546 TCACAATATATACAC-TTCACATTCATCACATCGGCCATTTAGGCCTTA
1 TCAC-ATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTA
*
25038594 CCA-ATATATTTACACTTTCACATTCATTCACATCGGCCATTAGGCCTTA
1 TCACATATA--TACACTTTCACATTCA-TCACATCGGCCATTAGGCCTTA
25038643 T-ACATATATTACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
25038690 TCA-ATATATACACTTTCACATTCATTCACATTCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCA-TCACA-TCGGCCATTAGGCCTTA
25038738 TCACATATATATACACTTTCACATTCATCACATCGGCCATTA-GCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
25038786 TCACATATATATACACTTTCACATCTCA-AACATCGGCCATTAGGCCTTA
1 TCAC--ATATATACACTTTCACAT-TCATCACATCGGCCATTAGGCCTTA
*
25038835 TCACATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
25038882 TCAACA-ATATACACTTTCACATTCATCACATCGGTCCATTAGGCATTA
1 TC-ACATATATACACTTTCACATTCATCACATCGG-CCATTAGGCCTTA
* *
25038930 TCACATATATACACTTTAACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
25038977 TCACATATATACACT
1 TCACATATATACACT
25038992 GTCTTGGCTG
Statistics
Matches: 369, Mismatches: 12, Indels: 35
0.89 0.03 0.08
Matches are distributed among these distances:
46 24 0.07
47 128 0.35
48 132 0.36
49 47 0.13
50 17 0.05
51 21 0.06
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:25038988 original size:95 final size:95
Alignment explanation
Indices: 25038494--25038991 Score: 656
Period size: 95 Copynumber: 5.2 Consensus size: 95
25038484 CCCTTCGGGA
* * * * * * * * *
25038494 CTTA-CACATTTATGCACTTTCACTATCCATTCACGTTGGCCACTCGGCCCTGTCACAATATATA
1 CTTATCACATATATACACTTTCAC-ATTCATTCACATCGGCCATTAGGCCTTATCAC-ATATATA
25038558 CAC-TTCACATTCATCACATCGGCCATTTAGGC
64 CACTTTCACATTCATCACATCGGCCA-TTAGGC
*
25038590 CTTACCA-ATATATTTACACTTTCACATTCATTCACATCGGCCATTAGGCCTTAT-ACATATATT
1 CTTATCACATATA--TACACTTTCACATTCATTCACATCGGCCATTAGGCCTTATCACATATA-T
25038653 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
25038686 CTTATCA-ATATATACACTTTCACATTCATTCACATTCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCACATATATACACTTTCACATTCATTCACA-TCGGCCATTAGGCCTTATCAC--ATATAT
25038750 ACACTTTCACATTCATCACATCGGCCATTA-GC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
25038782 CTTATCACATATATATACACTTTCACATCTCA--AACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC--ATATATACACTTTCACAT-TCATTCACATCGGCCATTAGGCCTTATCACATATAT
*
25038845 ACACTTCCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
25038878 CTTATCAACA-ATATACACTTTCACATTCA-TCACATCGGTCCATTAGGCATTATCACATATATA
1 CTTATC-ACATATATACACTTTCACATTCATTCACATCGG-CCATTAGGCCTTATCACATATATA
* *
25038941 CACTTTAACATTCATCACATCGGCTATTAGGC
64 CACTTTCACATTCATCACATCGGCCATTAGGC
25038973 CTTATCACATATATACACT
1 CTTATCACATATATACACT
25038992 GTCTTGGCTG
Statistics
Matches: 365, Mismatches: 19, Indels: 37
0.87 0.05 0.09
Matches are distributed among these distances:
93 3 0.01
94 48 0.13
95 125 0.34
96 51 0.14
97 99 0.27
98 18 0.05
99 18 0.05
100 3 0.01
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATTCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25052409 original size:47 final size:47
Alignment explanation
Indices: 25052289--25052785 Score: 538
Period size: 47 Copynumber: 10.4 Consensus size: 47
25052279 CCCTTCGGGA
* * * * ** * *
25052289 CTTATCACATTTATGCACTTTCACATCCATCACGTTAGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25052336 CCTGTCACATATA-ACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25052382 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25052429 CTATAT-ACATATATACAC-TTCACATTCAT-ACCATCCGGCTATTCAGGC
1 CT-TATCACATATATACACTTTCACATTCATCA-CAT-CGGCCATT-AGGC
*
25052477 CATTCATTTTGCCCAACATTATATACCACTTTCACATTCATCACATCGGCTATTAGGC
1 C-TT-A---T---C-ACA-TATATA-CACTTTCACATTCATCACATCGGCCATTAGGC
25052535 CTTATCACATATATATACACTTTCACATTCGATCACATCGGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTC-ATCACATC-GGCCATTAGGC
25052586 CTTAT-AC-TAATATACAC-TTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACAT-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
25052630 CTTATCACCATATATACACCTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCA-CATATATACA-CTTTCACATTCATCACATCGGCCATTAGGC
* *
25052678 CTTATCACACATATACAACTTTCA-AATCATCACATCGGCCATTAGGC
1 CTTATCACATATATAC-ACTTTCACATTCATCACATCGGCCATTAGGC
*
25052725 CTTATCACATATA-ACAC-TTCACA-TCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25052769 CTTATCA-A-ATATACACT
1 CTTATCACATATATACACT
25052786 GTCTTGGCTG
Statistics
Matches: 396, Mismatches: 20, Indels: 71
0.81 0.04 0.15
Matches are distributed among these distances:
42 3 0.01
43 5 0.01
44 46 0.12
45 5 0.01
46 79 0.20
47 112 0.28
48 51 0.13
49 17 0.04
50 17 0.04
51 16 0.04
52 1 0.00
53 1 0.00
56 1 0.00
57 5 0.01
58 11 0.03
59 11 0.03
60 14 0.04
61 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.