Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 80 of 126
Found at i:24303837 original size:86 final size:80
Alignment explanation
Indices: 24303681--24303959 Score: 317
Period size: 81 Copynumber: 3.4 Consensus size: 80
24303671 AAAGGTATCC
* * * * *
24303681 CCTTT-ATAGATCACCACGAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTTAGAGA
1 CCTTTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTTATAGA
24303745 TCGCCACAAATGTTT
66 TCGCCACAAATGTTT
*
24303760 CCTATTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATAGCCACACCACAAAGGCTTTCTTTT
1 CCT-TTCATAGATCGCTACAAAGGCTTCCTTTTCATAGAT-----CACCACAAAGGCTTCCTTTT
24303825 TATAGATCGCCACAAATGCTTT
60 TATAGATCGCCACAAATG-TTT
* * * * * *
24303847 CTTTTCATTGATAGCTACAAAGGCTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTCATTGA
1 CCTTTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTTATAGA
* *
24303912 TAGCCACAAATGATT
66 TCGCCACAAATGTTT
* * * *
24303927 CCTTTCAATAGATCACCATAAAGGCTTTCTTTT
1 CCTTTC-ATAGATCGCTACAAAGGCTTCCTTTT
24303960 ATGATGTATT
Statistics
Matches: 169, Mismatches: 22, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
79 3 0.02
80 9 0.05
81 82 0.49
86 70 0.41
87 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (80 bp):
CCTTTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTTATAGA
TCGCCACAAATGTTT
Found at i:24303894 original size:113 final size:113
Alignment explanation
Indices: 24303692--24303919 Score: 321
Period size: 113 Copynumber: 2.0 Consensus size: 113
24303682 CTTTATAGAT
* * * *
24303692 CACCACGAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTTAGAGATCGCCACAAATG
1 CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATAGCCACAAAGG
* *
24303757 TTTCCTATTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATAGCCA
66 CTTCCTATTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATAGCCA
* * * * ** *
24303805 CACCACAAAGGCTTTCTTTTTATAGATCGCCACAAATGCTTTCTTTTCATTGATAGCTACAAAGG
1 CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATAGCCACAAAGG
* *
24303870 CTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTCATTGATAGCCA
66 CTTCCTATTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATAGCCA
24303918 CA
1 CA
24303920 AATGATTCCT
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
113 100 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (113 bp):
CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATAGCCACAAAGG
CTTCCTATTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATAGCCA
Found at i:24312824 original size:20 final size:20
Alignment explanation
Indices: 24312789--24312837 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
24312779 TATCATTTCT
*
24312789 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
24312808 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
24312828 TTGCTTACTT
1 TTGCTTACTT
24312838 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:24313166 original size:50 final size:50
Alignment explanation
Indices: 24313103--24313225 Score: 129
Period size: 50 Copynumber: 2.5 Consensus size: 50
24313093 GATGCCATAT
* ** * * *
24313103 CCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCTATGC
1 CCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGC
** * * *
24313153 CCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCTAACGCCATGT
1 CCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGC
* *
24313203 CCCAAACATGGTCTTACTTGGGA
1 CCCAGACATGGTCTTACATGGGA
24313226 TCTCATTCCC
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.27
Consensus pattern (50 bp):
CCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGC
Found at i:24316312 original size:30 final size:30
Alignment explanation
Indices: 24316276--24316474 Score: 114
Period size: 30 Copynumber: 6.7 Consensus size: 30
24316266 TGGTTGACCC
* *
24316276 ATCCCTTTTCGTAATTCGATAACCGAAGTT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* *
24316306 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* * **** * *
24316336 ATCTCTTTTCATAATTTGATGGTTGTCA-CC
1 ATCCCTTTTCATAATTCGATAACCG-AAGCT
** * ***
24316366 ATCCCTTTTCATTGTT-GCTGGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
** * * * *
24316395 ATAGCTTTTCATAGTTCGATAGCTGAAGCC
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* * * * *
24316425 ATCCCTTTTCATATTTTGATAGCTGAAGCC
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
24316455 ATCCCTTTTCATAATTCGAT
1 ATCCCTTTTCATAATTCGAT
24316475 GGTCGTCACC
Statistics
Matches: 133, Mismatches: 33, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
28 1 0.01
29 20 0.15
30 111 0.83
31 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAACCGAAGCT
Found at i:24316392 original size:89 final size:89
Alignment explanation
Indices: 24316299--24316466 Score: 230
Period size: 89 Copynumber: 1.9 Consensus size: 89
24316289 ATTCGATAAC
* * * * * * *
24316299 CGAAGTTATCCCTTTTCATAGTTCGATAGCCGAAGCTATCTCTTTTCATAATTTGATGGTTGTCA
1 CGAAGCTATACCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATAGCTG-AA
24316364 -CCATCCCTTTTCATTGTTGCTGGT
65 GCCATCCCTTTTCATTGTTGCTGGT
* * *
24316388 CGAAGCTATAGCTTTTCATAGTTCGATAGCTGAAGCCATCCCTTTTCATATTTTGATAGCTGAAG
1 CGAAGCTATACCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATAGCTGAAG
24316453 CCATCCCTTTTCAT
66 CCATCCCTTTTCAT
24316467 AATTCGATGG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
88 1 0.01
89 67 0.99
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.39
Consensus pattern (89 bp):
CGAAGCTATACCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATAGCTGAAG
CCATCCCTTTTCATTGTTGCTGGT
Found at i:24316514 original size:29 final size:30
Alignment explanation
Indices: 24316453--24316528 Score: 127
Period size: 29 Copynumber: 2.6 Consensus size: 30
24316443 ATAGCTGAAG
24316453 CCATCCCTTTTCATAATTCGATGGTCGTCA
1 CCATCCCTTTTCATAATTCGATGGTCGTCA
**
24316483 CCATCCCTTTTCATTGTT-GATGGTCGTCA
1 CCATCCCTTTTCATAATTCGATGGTCGTCA
24316512 CCATCCCTTTTCATAAT
1 CCATCCCTTTTCATAAT
24316529 CGACAGCCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 26 0.62
30 16 0.38
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTCGATGGTCGTCA
Found at i:24316522 original size:119 final size:118
Alignment explanation
Indices: 24316274--24316562 Score: 373
Period size: 119 Copynumber: 2.4 Consensus size: 118
24316264 GATGGTTGAC
* * * *
24316274 CCATCCCTTTTCGTAATTCGATAACCGAAGTTATCCCTTTTCATAGTTCGATAGCCGAAGCTATC
1 CCATCCCTTTTCAT-ATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAGCCATC
* * * *
24316339 TCTTTTCATAATTTGATGGTTGTCACCATCCCTTTTCATTGTTGCTGGTCGAAG
65 CCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGAAG
* ** * * * * *
24316393 CTATAGCTTTTCATAGTTCGATAGCTGAAGCCATCCCTTTTCATATTTTGATAGCTGAAGCCATC
1 CCATCCCTTTTCATA-TTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAGCCATC
*
24316458 CCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGTCA-
65 CCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCG-AAG
* *
24316512 CCATCCCTTTTCATAATCGACAGCCGAAGCTATCCCTTTTCATAGTTCGAT
1 CCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGAT
24316563 GATTGACATT
Statistics
Matches: 142, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
118 31 0.22
119 110 0.77
120 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (118 bp):
CCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAGCCATCC
CTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGAAG
Found at i:24316527 original size:59 final size:60
Alignment explanation
Indices: 24316306--24316528 Score: 199
Period size: 59 Copynumber: 3.8 Consensus size: 60
24316296 AACCGAAGTT
* * * * * * *
24316306 ATCCCTTTTCATAGTTCGATAGCCG-AAGCTATCTCTTTTCATAATTTGATGGTTGTCACC
1 ATCCCTTTTCATTGTT-GATGGTCGTAAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
* * ** * * *
24316366 ATCCCTTTTCATTGTTGCTGGTCG-AAGCTATAGCTTTTCATAGTTCGATAG-C-TGAAGCC
1 ATCCCTTTTCATTGTTGATGGTCGTAAGCCATCCCTTTTCATAATTCGATGGTCGT-CA-CC
* *
24316425 ATCCCTTTTCATATTTTGATAG-C-TGAAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
1 ATCCCTTTTCAT-TGTTGATGGTCGT-AAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
*
24316485 ATCCCTTTTCATTGTTGATGGTCGTCA-CCATCCCTTTTCATAAT
1 ATCCCTTTTCATTGTTGATGGTCGTAAGCCATCCCTTTTCATAAT
24316529 CGACAGCCGA
Statistics
Matches: 131, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
57 1 0.01
58 1 0.01
59 66 0.50
60 59 0.45
61 3 0.02
62 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (60 bp):
ATCCCTTTTCATTGTTGATGGTCGTAAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
Found at i:24327933 original size:50 final size:50
Alignment explanation
Indices: 24327866--24328160 Score: 401
Period size: 50 Copynumber: 5.9 Consensus size: 50
24327856 TTTCCTGTAC
* * * * ** *
24327866 TGCCAATGCCATATCCCAAATATGATCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * * **
24327916 TGCCTATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
24327966 TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
24328016 TGCCAACACCATGTCCCAAACATGGTCTTACATAGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
*
24328066 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* *
24328116 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT
24328161 AATTTCAATA
Statistics
Matches: 217, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 217 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24336347 original size:17 final size:17
Alignment explanation
Indices: 24336325--24336382 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 17
24336315 TCAAGATAAG
24336325 TATTAAATATAATTTAA
1 TATTAAATATAATTTAA
*
24336342 TATTAAAATGATTATCTTAA
1 TATT-AAAT-ATAAT-TTAA
*
24336362 TATTAAATTTAATTTAA
1 TATTAAATATAATTTAA
24336379 TATT
1 TATT
24336383 TATCTTGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 12 0.34
18 7 0.20
19 8 0.23
20 8 0.23
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TATTAAATATAATTTAA
Found at i:24336415 original size:69 final size:68
Alignment explanation
Indices: 24336290--24336424 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 68
24336280 TTTAATAAAT
24336290 TTAATATTAAATTAATATAATACTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGATT
1 TTAATATTAAATTAATATAATACTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGATT
24336355 ATC
66 ATC
* * ** * * * *
24336358 TTAATATTAAATTTAATTTAATATTTATCTTGATAAGTATTATAT-TTATTTAGTATTAAAGTGA
1 TTAATATTAAA-TTAATATAATA-CTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGA
24336422 TTA
64 TTA
24336425 AGTTTGATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
68 11 0.19
69 29 0.51
70 17 0.30
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (68 bp):
TTAATATTAAATTAATATAATACTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGATT
ATC
Found at i:24337027 original size:25 final size:24
Alignment explanation
Indices: 24336997--24337060 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
24336987 GAAATGAAAC
* *
24336997 AAAAAAAAGAAAATATATTCTAAA
1 AAAAAAAAGAAAACATAATCTAAA
* *
24337021 AAGAAAAGAGAAAACCTAATCTAAA
1 AA-AAAAAAGAAAACATAATCTAAA
24337046 AAAATGAAAAGAAAA
1 AAAA--AAAAGAAAA
24337061 GAAAACCCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 4 0.12
25 20 0.62
26 8 0.25
ACGTcount: A:0.70, C:0.06, G:0.09, T:0.14
Consensus pattern (24 bp):
AAAAAAAAGAAAACATAATCTAAA
Found at i:24337058 original size:33 final size:33
Alignment explanation
Indices: 24337019--24337088 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
24337009 ATATATTCTA
24337019 AAAAGAAAAGAGAAA-ACCTAATCTAAAAAAATG
1 AAAAGAAAAGA-AAACACCTAATCTAAAAAAATG
* **
24337052 AAAAGAAAAGAAAACCCCTAATCTAAAACTATG
1 AAAAGAAAAGAAAACACCTAATCTAAAAAAATG
24337085 AAAA
1 AAAA
24337089 CCTAAGGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.64, C:0.13, G:0.10, T:0.13
Consensus pattern (33 bp):
AAAAGAAAAGAAAACACCTAATCTAAAAAAATG
Found at i:24347764 original size:28 final size:28
Alignment explanation
Indices: 24347699--24347755 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
24347689 TAGTTAATTA
24347699 AGACATAATTAAGCATATAATTTTTTCT
1 AGACATAATTAAGCATATAATTTTTTCT
24347727 AGACATAATTAAGCATATAATTTTTTCT
1 AGACATAATTAAGCATATAATTTTTTCT
24347755 A
1 A
24347756 AGTGGAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (28 bp):
AGACATAATTAAGCATATAATTTTTTCT
Found at i:24349998 original size:14 final size:14
Alignment explanation
Indices: 24349979--24350009 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24349969 TGATTGTTTT
*
24349979 TAATCTAAATTTAC
1 TAATCTAAATTAAC
24349993 TAATCTAAATTAAC
1 TAATCTAAATTAAC
24350007 TAA
1 TAA
24350010 GAACGTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:24356294 original size:25 final size:25
Alignment explanation
Indices: 24356265--24356315 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
24356255 ATTGTTTAAC
24356265 TGTATTTCAAATTTAAAACTCTTTA
1 TGTATTTCAAATTTAAAACTCTTTA
24356290 TGTATTTCAAATTTAAAACTCTTTA
1 TGTATTTCAAATTTAAAACTCTTTA
24356315 T
1 T
24356316 AATTTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.49
Consensus pattern (25 bp):
TGTATTTCAAATTTAAAACTCTTTA
Found at i:24368460 original size:23 final size:24
Alignment explanation
Indices: 24368399--24368470 Score: 94
Period size: 23 Copynumber: 3.0 Consensus size: 24
24368389 GTGTGTTGTC
*
24368399 TCATCAATTTTTTTT-TTGTTTTT
1 TCATCAGTTTTTTTTATTGTTTTT
*
24368422 TCATCAGTTTTATTTATTG-TTTT
1 TCATCAGTTTTTTTTATTGTTTTT
*
24368445 TCATCAGTTTTTTTTATCAGTTTTT
1 TCATCAGTTTTTTTTAT-TGTTTTT
24368470 T
1 T
24368471 TTCTTTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 33 0.79
24 4 0.10
25 5 0.12
ACGTcount: A:0.15, C:0.10, G:0.07, T:0.68
Consensus pattern (24 bp):
TCATCAGTTTTTTTTATTGTTTTT
Found at i:24368472 original size:14 final size:13
Alignment explanation
Indices: 24368417--24368471 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
24368407 TTTTTTTTTG
24368417 TTTTTTCATCAGT
1 TTTTTTCATCAGT
24368430 TTTATTT-AT---T
1 TTT-TTTCATCAGT
*
24368440 GTTTTTCATCAGT
1 TTTTTTCATCAGT
*
24368453 TTTTTTTATCAGT
1 TTTTTTCATCAGT
24368466 TTTTTT
1 TTTTTT
24368472 TCTTTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
9 3 0.09
10 5 0.15
13 23 0.68
14 3 0.09
ACGTcount: A:0.15, C:0.09, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTTCATCAGT
Found at i:24368586 original size:16 final size:18
Alignment explanation
Indices: 24368567--24368599 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
24368557 AAACATAGCC
24368567 ATTTTAT-TT-TTTTAAA
1 ATTTTATATTATTTTAAA
24368583 ATTTTATATTATTTTAA
1 ATTTTATATTATTTTAA
24368600 TAAAAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTATATTATTTTAAA
Found at i:24373427 original size:25 final size:25
Alignment explanation
Indices: 24373377--24373446 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
24373367 TAGGCCCATT
* **
24373377 TTCATAGCTCGTGTGAG-ACTTTTGA
1 TTCACAGCTCGTGTGAGCA-TCCTGA
*
24373402 TTTACAGCTCGTGTGAGCATCCTGA
1 TTCACAGCTCGTGTGAGCATCCTGA
*
24373427 TTCACAACTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
24373447 ACATGTACAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATCCTGA
Found at i:24375137 original size:101 final size:102
Alignment explanation
Indices: 24375016--24375209 Score: 311
Period size: 102 Copynumber: 1.9 Consensus size: 102
24375006 AAAGTGATAG
* *
24375016 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAATGGTCACATATGTAGT
* *
24375079 ACTATGTGCAGGCTACTATGTGTACCGAATAGTTTCAA
65 ACTATGTGCAAGCTACTATGTGAACCGAATAGTTTCAA
* *
24375117 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACATATGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATATGTAGTA
24375182 CTATGTGCAAGCTACTATGTGAACCGAA
66 CTATGTGCAAGCTACTATGTGAACCGAA
24375210 CATCATTGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
100 6 0.07
101 39 0.46
102 40 0.47
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATATGTAGTA
CTATGTGCAAGCTACTATGTGAACCGAATAGTTTCAA
Found at i:24375146 original size:51 final size:49
Alignment explanation
Indices: 24375012--24375209 Score: 227
Period size: 51 Copynumber: 3.9 Consensus size: 49
24375002 AGTGAAAGTG
*
24375012 ATAGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATG-
1 ATAGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGT
* *
24375061 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGT
1 ATA-GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT-GT
* * * *
24375112 TTCAATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGT
1 AT-AGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT-GT
* * * * *
24375163 AATGGTCACATATGTAGTACTATGTGCAAGCTACTATGTGAACCGAA
1 -ATAGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
24375210 CATCATTGAT
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
49 7 0.06
50 38 0.30
51 78 0.62
52 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (49 bp):
ATAGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGT
Found at i:24375260 original size:45 final size:45
Alignment explanation
Indices: 24375209--24375294 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
24375199 TGTGAACCGA
* *
24375209 ACATCATTGATTAGTAAAGTGGTTGCTATGTGCTGATTCCATCGG
1 ACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCATCGG
**
24375254 ACATCATTGATTAATAGGGTGGTTGCTATGTGCTGAATCCA
1 ACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCA
24375295 CCGAGTATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (45 bp):
ACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCATCGG
Found at i:24383256 original size:30 final size:31
Alignment explanation
Indices: 24383201--24383268 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
24383191 ACCCTTAAAA
** * **
24383201 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
24383232 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
24383262 TATTTAC
1 TATTTAC
24383269 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:24385648 original size:50 final size:50
Alignment explanation
Indices: 24385585--24385825 Score: 286
Period size: 50 Copynumber: 4.8 Consensus size: 50
24385575 CATTTGGGTA
* * *
24385585 AAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGACATCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* * *
24385635 AAGAGATCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* *
24385685 AAGAGATCCCATATAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* * *** * * *
24385735 GAGAGTTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* * * *
24385785 GAGA-ACTCCCATGTAAGACTATATCTAGGATATGGCATTGG
1 AAGAGA-TCCCATGTAAGACCATGTCTAGGACATGGCATTGG
24385826 TAGTACAGAA
Statistics
Matches: 164, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
50 164 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (50 bp):
AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
Found at i:24390028 original size:36 final size:36
Alignment explanation
Indices: 24389981--24390127 Score: 204
Period size: 36 Copynumber: 4.1 Consensus size: 36
24389971 AAAAAAAAGA
24389981 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
** *
24390017 TTTGTATACATAATAGGGTTTGCATACATGTAAGGA
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
* *
24390053 TTTGTATACATAATAGGGTTTACATACATGTAAGTG
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
* * * *
24390089 TTCGCATACATAATAAGGTTCACATACATGACAAGGG
1 TTTGTATACATAATAGGGTTCACATACATG-TAAGGG
24390126 TT
1 TT
24390128 CGTAGAAATA
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
36 92 0.94
37 6 0.06
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (36 bp):
TTTGTATACATAATAGGGTTCACATACATGTAAGGG
Found at i:24390117 original size:18 final size:18
Alignment explanation
Indices: 24389981--24390108 Score: 91
Period size: 18 Copynumber: 7.1 Consensus size: 18
24389971 AAAAAAAAGA
* *
24389981 TTTGTATACATAATAGGG
1 TTTGCATACATAATAAGG
** *
24389999 TTCACATACAT-GTAAGGG
1 TTTGCATACATAATAA-GG
* *
24390017 TTTGTATACATAATAGGG
1 TTTGCATACATAATAAGG
*
24390035 TTTGCATACAT-GTAAGG
1 TTTGCATACATAATAAGG
* *
24390052 ATTTGTATACATAATAGGG
1 -TTTGCATACATAATAAGG
* *
24390071 TTTACATACAT-GTAAGTG
1 TTTGCATACATAATAAG-G
*
24390089 TTCGCATACATAATAAGG
1 TTTGCATACATAATAAGG
24390107 TT
1 TT
24390109 CACATACATG
Statistics
Matches: 81, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
17 9 0.11
18 62 0.77
19 10 0.12
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (18 bp):
TTTGCATACATAATAAGG
Found at i:24390124 original size:18 final size:18
Alignment explanation
Indices: 24389986--24390124 Score: 68
Period size: 18 Copynumber: 7.7 Consensus size: 18
24389976 AAAGATTTGT
* *
24389986 ATACATAATAGGGTTCAC
1 ATACATGATAAGGTTCAC
***
24390004 ATACATG-TAAGGGTTTGT
1 ATACATGATAA-GGTTCAC
* * **
24390022 ATACATAATAGGGTTTGC
1 ATACATGATAAGGTTCAC
***
24390040 ATACATG-TAAGGATTTGT
1 ATACATGATAAGG-TTCAC
* * *
24390058 ATACATAATAGGGTTTAC
1 ATACATGATAAGGTTCAC
*
24390076 ATACATG-TAAGTGTTCGC
1 ATACATGATAAG-GTTCAC
*
24390094 ATACATAATAAGGTTCAC
1 ATACATGATAAGGTTCAC
*
24390112 ATACATGACAAGG
1 ATACATGATAAGG
24390125 GTTCGTAGAA
Statistics
Matches: 92, Mismatches: 23, Indels: 12
0.72 0.18 0.09
Matches are distributed among these distances:
17 9 0.10
18 73 0.79
19 10 0.11
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (18 bp):
ATACATGATAAGGTTCAC
Found at i:24390604 original size:27 final size:27
Alignment explanation
Indices: 24390574--24390625 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
24390564 CTCAACTCTT
* * *
24390574 CAAAACATATTTGTGAGCTTGGCTCGC
1 CAAAACATATATGTAAGCTTAGCTCGC
24390601 CAAAACATATATGTAAGCTTAGCTC
1 CAAAACATATATGTAAGCTTAGCTC
24390626 ACCAGAACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (27 bp):
CAAAACATATATGTAAGCTTAGCTCGC
Found at i:24401371 original size:18 final size:18
Alignment explanation
Indices: 24401350--24401386 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24401340 AAGAGTGAAA
24401350 AATAAGGGATAACATAGT
1 AATAAGGGATAACATAGT
24401368 AATAAGGGATAACATAGT
1 AATAAGGGATAACATAGT
24401386 A
1 A
24401387 TCATAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.22, T:0.22
Consensus pattern (18 bp):
AATAAGGGATAACATAGT
Found at i:24406041 original size:11 final size:11
Alignment explanation
Indices: 24405991--24406041 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
24405981 ATAAAAGTTC
24405991 TAAAATA-AAT
1 TAAAATAGAAT
24406001 TAAATATATGAAT
1 TAAA-ATA-GAAT
*
24406014 TCAAAATAGACT
1 T-AAAATAGAAT
*
24406026 CAAAATAGAAT
1 TAAAATAGAAT
24406037 TAAAA
1 TAAAA
24406042 GAACCATTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 4 0.12
11 16 0.48
12 3 0.09
13 7 0.21
14 3 0.09
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (11 bp):
TAAAATAGAAT
Found at i:24406131 original size:3 final size:3
Alignment explanation
Indices: 24406123--24406152 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24406113 AAAGATAAAC
24406123 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24406153 CATATACTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24408246 original size:79 final size:82
Alignment explanation
Indices: 24408135--24408319 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
24408125 GCTACTCGTT
* *
24408135 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
24408198 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
24408215 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
24408278 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
24408295 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24408320 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:24408319 original size:40 final size:40
Alignment explanation
Indices: 24408116--24408319 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
24408106 CGGAATTTAA
** *
24408116 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24408156 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
24408196 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24408235 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
24408275 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
24408315 CCGGA
1 CCGGA
24408320 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:24416187 original size:79 final size:78
Alignment explanation
Indices: 24416085--24416307 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
24416075 GCTCCTCGTT
* *
24416085 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
24416150 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
24416165 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
24416229 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
24416243 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
24416306 GA
63 GA
24416308 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:24416202 original size:39 final size:40
Alignment explanation
Indices: 24416085--24416307 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
24416075 GCTCCTCGTT
* *
24416085 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
24416125 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
24416165 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
24416204 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
24416243 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
24416284 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24416308 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:24418946 original size:100 final size:100
Alignment explanation
Indices: 24418822--24419186 Score: 453
Period size: 100 Copynumber: 3.6 Consensus size: 100
24418812 TAACTCGCAA
** * * * * * *
24418822 CTTTAAT-CTATTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCC
1 CTTTAATCCT-TTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCC
* * * * *
24418886 ACTACACCGCCTGGGAAGTAAGATTTGCTGTTGTAG
65 ACTGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
* ** *
24418922 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGAATTTAATCTGTTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
* * * * *
24418987 CTGCATCGTCAGGGAGGTAATATTCACTGCTGTGG
66 CTGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
*
24419022 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
* *
24419087 CTGCATCGCCAGGGTGGTAAGATTCGCTATTGTAG
66 CTGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
* * **
24419122 CTTTAATCTTTTTAACTGCAGTGTCGGGGAAGTGAGATTCACTGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
24419187 TGATGTGGCT
Statistics
Matches: 229, Mismatches: 35, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
100 227 0.99
101 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (100 bp):
CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
CTGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
Found at i:24418952 original size:50 final size:50
Alignment explanation
Indices: 24418822--24419181 Score: 253
Period size: 50 Copynumber: 7.2 Consensus size: 50
24418812 TAACTCGCAA
* ** * * * *
24418822 CTTTAATCTATTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
* ** * ** * * ** *
24418872 CTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTTGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
* *
24418922 CTTTAATCCT-TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGT-G
1 CTTTAAT-CTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
* ** * * * * *
24418971 AATTTAATCTGTTCCACTGC-ATCGTCAGGGAGGTAATATTCACTGCTGTGG
1 -CTTTAATCTGTTTAACTGCAAT-GTCGGGGAAGTAAGATTCACTGATGTAG
* * *
24419022 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
* ** * * ** *
24419072 CTTTAATCTGCTCCACTGC-ATCGCCAGGGTGGTAAGATTCGCT-ATTGTAG
1 CTTTAATCTGTTTAACTGCAAT-GTCGGGGAAGTAAGATTCACTGA-TGTAG
* * * *
24419122 CTTTAATCTTTTTAACTGCAGTGTCGGGGAAGTGAGATTCACTGATGTGG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
24419172 CTTTAATCTG
1 CTTTAATCTG
24419182 CTCCATGATG
Statistics
Matches: 231, Mismatches: 69, Indels: 20
0.72 0.22 0.06
Matches are distributed among these distances:
49 8 0.03
50 216 0.94
51 7 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (50 bp):
CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
Found at i:24419179 original size:200 final size:200
Alignment explanation
Indices: 24418822--24419186 Score: 514
Period size: 200 Copynumber: 1.8 Consensus size: 200
24418812 TAACTCGCAA
** * * *
24418822 CTTTAATCTATTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTTTAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGATGTAGCTTCAATCTGCTCCA
* * *
24418887 CTACACCGCCTGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
66 CTACACCGCCAGGGAAGTAAGATTCGCTATTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
*
24418952 AGCAAGATTCACCGATGTGAATTTAATCTGTTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
131 AGCAAGATTCACCGATGTGAATTTAATCTGCTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
24419017 TGTGG
196 TGTGG
* * * *
24419022 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGATGTAGCTTCAATCTGCTCCA
* * ** * *
24419087 CTGCATCGCCAGGGTGGTAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTGCAGTGTCGGGGA
66 CTACACCGCCAGGGAAGTAAGATTCGCTATTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
** * **
24419152 AGTGAGATTCACTGATGTGGCTTTAATCTGCTCCA
131 AGCAAGATTCACCGATGTGAATTTAATCTGCTCCA
24419187 TGATGTGGCT
Statistics
Matches: 141, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
200 141 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (200 bp):
CTTTAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGATGTAGCTTCAATCTGCTCCA
CTACACCGCCAGGGAAGTAAGATTCGCTATTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
AGCAAGATTCACCGATGTGAATTTAATCTGCTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
TGTGG
Found at i:24419379 original size:44 final size:44
Alignment explanation
Indices: 24419330--24419564 Score: 147
Period size: 44 Copynumber: 5.1 Consensus size: 44
24419320 CCTTTATTTT
*
24419330 AATCTGCTCCACT-TCAAT-TTCAAGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGT-AATCTT-AAGGAGATAAGATTACTAGCTTC
* * * *
24419374 AATCTGCTCCTCTGTAATCTTAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTTAAGGAGATAAGATTACTAGCTTC
* * * *
24419418 AATCTGATGCATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATC---TG---CT-C-C-ACTGTAATCTTAAG-GAGATAAGAT--TACTAGCTTC
* * * *
24419471 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTTAAGGAGATAAGATTACTAGCTTC
* * * * *
24419515 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTTAAGGAGATAAGATTACTAGCTTC
24419559 AATCTG
1 AATCTG
24419565 TGGCTTAAAT
Statistics
Matches: 149, Mismatches: 25, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 101 0.68
45 7 0.05
46 1 0.01
47 4 0.03
50 3 0.02
51 1 0.01
52 5 0.03
53 22 0.15
54 1 0.01
55 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTTAAGGAGATAAGATTACTAGCTTC
Found at i:24419460 original size:141 final size:142
Alignment explanation
Indices: 24419280--24419564 Score: 493
Period size: 141 Copynumber: 2.0 Consensus size: 142
24419270 AGATAAGACA
* *
24419280 TGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACT-T
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
* * *
24419344 CAATTTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCTCTGTAATCTTAGGGAGATAAGATT
66 -AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
24419409 TCTGGCTTCAATC
130 TCTGGCTTCAATC
24419422 TGATGC-ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
*
24419486 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
24419551 CTGGCTTCAATC
131 CTGGCTTCAATC
24419563 TG
1 TG
24419565 TGGCTTAAAT
Statistics
Matches: 136, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
141 129 0.95
142 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (142 bp):
TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
CTGGCTTCAATC
Found at i:24421888 original size:15 final size:15
Alignment explanation
Indices: 24421864--24421897 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24421854 TTTTTCTCTC
*
24421864 ATTTTTATTTTGATT
1 ATTTTGATTTTGATT
24421879 ATTTTGATTTTGATT
1 ATTTTGATTTTGATT
24421894 -TTTT
1 ATTTT
24421898 TTGAAAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (15 bp):
ATTTTGATTTTGATT
Found at i:24428887 original size:15 final size:15
Alignment explanation
Indices: 24428867--24428895 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24428857 GTATTGTTGC
24428867 TTGATAACATGGTGA
1 TTGATAACATGGTGA
24428882 TTGATAACATGGTG
1 TTGATAACATGGTG
24428896 TGTGAGACAT
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:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
TTGATAACATGGTGA
Found at i:24431778 original size:45 final size:45
Alignment explanation
Indices: 24431727--24431815 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
24431717 AACAGATACT
* * *
24431727 CGGTGGATTCAGCACATAGTAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
24431772 CGGTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
24431816 TCAGTTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:24446031 original size:16 final size:15
Alignment explanation
Indices: 24446006--24446039 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
24445996 GAAGTTGATA
*
24446006 ATAATTAATATACATT
1 ATAATAAATATA-ATT
24446022 ATAATAAATATAATT
1 ATAATAAATATAATT
24446037 ATA
1 ATA
24446040 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:24454248 original size:17 final size:17
Alignment explanation
Indices: 24454222--24454254 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24454212 TTTCGGAACA
24454222 AAATAAAAATAAAATAC
1 AAATAAAAATAAAATAC
*
24454239 AAATACAAATAAAATA
1 AAATAAAAATAAAATA
24454255 AAGGTAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATAAAAATAAAATAC
Found at i:24456775 original size:79 final size:78
Alignment explanation
Indices: 24456673--24456895 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
24456663 GCTCCTCGTT
* *
24456673 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
24456738 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
24456753 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
24456817 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
24456831 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
24456894 GA
63 GA
24456896 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:24456790 original size:39 final size:40
Alignment explanation
Indices: 24456673--24456895 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
24456663 GCTCCTCGTT
* *
24456673 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
24456713 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
24456753 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
24456792 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
24456831 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
24456872 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24456896 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:24467447 original size:10 final size:9
Alignment explanation
Indices: 24467422--24467449 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
24467412 ATTTTAGATG
24467422 AAATTTTTT
1 AAATTTTTT
24467431 AAATTTTTT
1 AAATTTTTT
24467440 AAATTTTTT
1 AAATTTTTT
24467449 A
1 A
24467450 TTATTGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
AAATTTTTT
Found at i:24475564 original size:69 final size:69
Alignment explanation
Indices: 24475479--24475615 Score: 172
Period size: 69 Copynumber: 2.0 Consensus size: 69
24475469 GCTAAAGCTC
* * *
24475479 AATATGGATAAACCACCAATGTCAGTAATG-AAGTTAAACTAG-CAACAAC-GATGCAGACAAGC
1 AATATGGACAAACCACCAATATCAGTAATGCAA-ATAAA-TAGCCAACAACAG-TGCAGACAAGC
24475541 TGCTAGA
63 TGCTAGA
* * *
24475548 AATATGGACAAGCCACCAATATCAGTAATGCAAATAAATTGCCAATAACAGTGCAGACAAGCTGC
1 AATATGGACAAACCACCAATATCAGTAATGCAAATAAATAGCCAACAACAGTGCAGACAAGCTGC
24475613 TAG
66 TAG
24475616 TAATGTGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
68 2 0.03
69 54 0.92
70 3 0.05
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (69 bp):
AATATGGACAAACCACCAATATCAGTAATGCAAATAAATAGCCAACAACAGTGCAGACAAGCTGC
TAGA
Found at i:24483506 original size:7 final size:7
Alignment explanation
Indices: 24483477--24483542 Score: 51
Period size: 7 Copynumber: 9.1 Consensus size: 7
24483467 TTTTAATTTT
*
24483477 TAATAAA
1 TAATATA
*
24483484 TAAGATAA
1 TAATAT-A
*
24483492 TAAAATA
1 TAATATA
24483499 TAATATA
1 TAATATA
24483506 TTAATATA
1 -TAATATA
*
24483514 TTATATA
1 TAATATA
*
24483521 TTATATA
1 TAATATA
*
24483528 TTATATA
1 TAATATA
*
24483535 TTATATA
1 TAATATA
24483542 T
1 T
24483543 TAATTGTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
7 39 0.75
8 13 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
TAATATA
Found at i:24483543 original size:7 final size:7
Alignment explanation
Indices: 24483496--24483544 Score: 80
Period size: 7 Copynumber: 6.9 Consensus size: 7
24483486 AGATAATAAA
*
24483496 ATATAAT
1 ATATTAT
24483503 ATATTAAT
1 ATATT-AT
24483511 ATATTAT
1 ATATTAT
24483518 ATATTAT
1 ATATTAT
24483525 ATATTAT
1 ATATTAT
24483532 ATATTAT
1 ATATTAT
24483539 ATATTA
1 ATATTA
24483545 ATTGTAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
7 33 0.82
8 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
ATATTAT
Found at i:24495717 original size:6 final size:6
Alignment explanation
Indices: 24495706--24495733 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
24495696 GACTTGAATG
24495706 AATATA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATA
24495734 AACAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:24496131 original size:12 final size:12
Alignment explanation
Indices: 24496102--24496138 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 12
24496092 AATTGAGATA
24496102 AAAATAAATAATG
1 AAAATAAATAA-G
24496115 AAAATAAATAAG
1 AAAATAAATAAG
24496127 AAAATAAA-AAG
1 AAAATAAATAAG
24496138 A
1 A
24496139 CTATTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.17
12 9 0.38
13 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATAAATAAG
Found at i:24507934 original size:20 final size:20
Alignment explanation
Indices: 24507888--24507934 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
24507878 GCTTGTACGG
24507888 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* *
24507908 ATCTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
24507928 GTTTGCA
1 GTTTGCA
24507935 TTATGGTGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.09, C:0.30, G:0.23, T:0.38
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:24512112 original size:11 final size:11
Alignment explanation
Indices: 24512086--24512127 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
24512076 TGAATTAATA
24512086 TTTTCTTTTTTC
1 TTTTC-TTTTTC
24512098 TTTTC-TTTTC
1 TTTTCTTTTTC
*
24512108 TTTTTTTTTTC
1 TTTTCTTTTTC
24512119 TTTT-TTTTT
1 TTTTCTTTTT
24512128 TTTGAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 14 0.50
11 9 0.32
12 5 0.18
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:24512117 original size:16 final size:16
Alignment explanation
Indices: 24512086--24512130 Score: 74
Period size: 17 Copynumber: 2.8 Consensus size: 16
24512076 TGAATTAATA
24512086 TTTTCTTTTTTCTTTTC
1 TTTTCTTTTTT-TTTTC
24512103 TTTTCTTTTTTTTTTC
1 TTTTCTTTTTTTTTTC
24512119 TTTT-TTTTTTTT
1 TTTTCTTTTTTTT
24512131 GAGAAAAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.29
16 9 0.32
17 11 0.39
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTC
Found at i:24512129 original size:12 final size:11
Alignment explanation
Indices: 24512086--24512128 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
24512076 TGAATTAATA
24512086 TTTTCTTTTTTC
1 TTTT-TTTTTTC
*
24512098 -TTTTCTTTTC
1 TTTTTTTTTTC
24512108 TTTTTTTTTTC
1 TTTTTTTTTTC
24512119 TTTTTTTTTT
1 TTTTTTTTTT
24512129 TTGAGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 6 0.21
11 22 0.79
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:24512129 original size:17 final size:17
Alignment explanation
Indices: 24512086--24512130 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
24512076 TGAATTAATA
* *
24512086 TTTTCTTTTTTCTTTTC
1 TTTTTTTTTTTTTTTTC
*
24512103 -TTTTCTTTTTTTTTTC
1 TTTTTTTTTTTTTTTTC
24512119 TTTTTTTTTTTT
1 TTTTTTTTTTTT
24512131 GAGAAAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTTC
Found at i:24519512 original size:12 final size:13
Alignment explanation
Indices: 24519482--24519511 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
24519472 TTTTTTTTCC
24519482 TTTTTT-TCAATT
1 TTTTTTCTCAATT
24519494 TTTTTTCTCAATT
1 TTTTTTCTCAATT
24519507 TTTTT
1 TTTTT
24519512 CCACAATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTCTCAATT
Found at i:24521914 original size:18 final size:19
Alignment explanation
Indices: 24521885--24521920 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
24521875 TGATATGGCC
24521885 AAAATCACTTTTTCACTTA
1 AAAATCACTTTTTCACTTA
24521904 AAAATCA-TTTTTCACTT
1 AAAATCACTTTTTCACTT
24521921 TGGCAAGCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATCACTTTTTCACTTA
Found at i:24522222 original size:25 final size:25
Alignment explanation
Indices: 24522188--24522241 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
24522178 CGATGGGTTT
24522188 TATCTCTCTTAATGGATAAATAAAG
1 TATCTCTCTTAATGGATAAATAAAG
24522213 TATCTCTCTTAATGGATAAATAAAG
1 TATCTCTCTTAATGGATAAATAAAG
24522238 TATC
1 TATC
24522242 CTCATCAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (25 bp):
TATCTCTCTTAATGGATAAATAAAG
Found at i:24530848 original size:12 final size:12
Alignment explanation
Indices: 24530823--24530861 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
24530813 ACTCGCTTCT
* *
24530823 TTACTTACTCAC
1 TTACTTGCTTAC
*
24530835 TTACTTGTTTAC
1 TTACTTGCTTAC
24530847 TTACTTGCTTAC
1 TTACTTGCTTAC
24530859 TTA
1 TTA
24530862 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:24531188 original size:50 final size:50
Alignment explanation
Indices: 24531060--24531299 Score: 180
Period size: 50 Copynumber: 4.7 Consensus size: 50
24531050 CTGATAATAC
* * * *
24531060 GTGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TGT-A
1 GTGCCAATGCCATGTCCCAGACATAGTCTTACATGGGA-GTTCTCATATCA
* * * *
24531109 CTGCCAATGCCATATCCCAGATATAGTCTTGCATGGGAGTTCTCATATCA
1 GTGCCAATGCCATGTCCCAGACATAGTCTTACATGGGAGTTCTCATATCA
* * ** ** * *
24531159 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 GTGCCAATGCCATGTCCCAGACATAGTCTTACATGGGAGTTCTCATATCA
* * * ***
24531209 GTGCGAACGCCATGTCCCAGACATGGTCTTACATGGGTCCTCTCATAATCTCAA
1 GTGCCAATGCCATGTCCCAGACATAGTCTTACATGGGAGTTCTCAT-A--TC-A
*
24531263 TGATGTCAATGCCATGTCCCAGACA-ACGTCTTACATG
1 -G-TGCCAATGCCATGTCCCAGACATA-GTCTTACATG
24531300 TGATCTCATT
Statistics
Matches: 150, Mismatches: 32, Indels: 11
0.78 0.17 0.06
Matches are distributed among these distances:
48 5 0.03
49 34 0.23
50 79 0.53
53 2 0.01
55 1 0.01
56 29 0.19
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
GTGCCAATGCCATGTCCCAGACATAGTCTTACATGGGAGTTCTCATATCA
Found at i:24538674 original size:49 final size:49
Alignment explanation
Indices: 24538609--24538740 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 49
24538599 TTTGATAATA
* * * * *
24538609 CATGCCAAAGCTATATCCCAGACATAGTCTTACATGGGATGTT-TTCTGT
1 CATGCCAATGCCATATCCCAGACATGGTCTTACATGGGA-GTTCTTATAT
* *
24538658 -ACTGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTTATAT
1 CA-TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTTATAT
* *
24538707 CGATGCCCATGCCATGTCCCAGACATGGTCTTAC
1 C-ATGCCAATGCCATATCCCAGACATGGTCTTAC
24538741 GGGGGACCTC
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
48 4 0.06
49 36 0.53
50 27 0.40
51 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (49 bp):
CATGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTTATAT
Found at i:24557458 original size:87 final size:86
Alignment explanation
Indices: 24557301--24557464 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 86
24557291 TGCATGCATA
* * * *
24557301 AGGTTGAGTTCTTACTCTTAATTCATTCATAGCCCAGGGTTTGGGTGGTCCTATTAAGACAAACT
1 AGGTTGAGTTATTACTCTTAATTCATTCATAGCCCAGAGTTTGGGTGGTCCAAGTAAGACAAACT
24557366 TGATGAATTCACTGACATGTG
66 TGATGAATTCACTGACATGTG
* * * * **
24557387 AGGTTGAGTTTATTACTCTTAA-TGAGTTCATATCCCATAGTTTGGGTGGTCCAAGTGAGACGGA
1 AGGTTGAG-TTATTACTCTTAATTCA-TTCATAGCCCAGAGTTTGGGTGGTCCAAGTAAGACAAA
24557451 CTTGATGAATTCAC
64 CTTGATGAATTCAC
24557465 CAAATTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
86 10 0.15
87 56 0.85
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (86 bp):
AGGTTGAGTTATTACTCTTAATTCATTCATAGCCCAGAGTTTGGGTGGTCCAAGTAAGACAAACT
TGATGAATTCACTGACATGTG
Found at i:24557868 original size:19 final size:19
Alignment explanation
Indices: 24557844--24557887 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
24557834 AGGGATCAAA
* *
24557844 TTGAGACAAATCAT-AAATT
1 TTGAGA-AAAACATGAAAAT
24557863 TTGAGAAAAACATGAAAAT
1 TTGAGAAAAACATGAAAAT
24557882 TTGAGA
1 TTGAGA
24557888 TGTAGGGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (19 bp):
TTGAGAAAAACATGAAAAT
Found at i:24559139 original size:40 final size:40
Alignment explanation
Indices: 24559080--24559178 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
24559070 ATGCATTTAG
*
24559080 AGGGTATCAAAGTACAAACAAGGGCACATATGTGCAGTCA
1 AGGGTACCAAAGTACAAACAAGGGCACATATGTGCAGTCA
* * * * *
24559120 GGGGTACCGAAGTATAAACAAGGGCACGTATGTGCATTCA
1 AGGGTACCAAAGTACAAACAAGGGCACATATGTGCAGTCA
24559160 AGGGTACCAAAGTACAAAC
1 AGGGTACCAAAGTACAAAC
24559179 GGGGACATGG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.17
Consensus pattern (40 bp):
AGGGTACCAAAGTACAAACAAGGGCACATATGTGCAGTCA
Found at i:24559193 original size:40 final size:40
Alignment explanation
Indices: 24559071--24559199 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
24559061 GACATTAAAA
* * *
24559071 TGCATTTAGAGGGTATCAAAGTACAAACAAGGGCACAT-ATG
1 TGCATTCA-AGGGTACCAAAGTACAAAC-AGGGGACATGATG
* * * * * *
24559112 TGCAGTCAGGGGTACCGAAGTATAAACAAGGG-CACGTATG
1 TGCATTCAAGGGTACCAAAGTACAAACAGGGGACATG-ATG
24559152 TGCATTCAAGGGTACCAAAGTACAAAC-GGGGACATGGATG
1 TGCATTCAAGGGTACCAAAGTACAAACAGGGGACAT-GATG
24559192 TGCATTCA
1 TGCATTCA
24559200 TATATAACCT
Statistics
Matches: 69, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
38 2 0.03
39 6 0.09
40 54 0.78
41 7 0.10
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (40 bp):
TGCATTCAAGGGTACCAAAGTACAAACAGGGGACATGATG
Found at i:24573349 original size:44 final size:44
Alignment explanation
Indices: 24573286--24573384 Score: 189
Period size: 44 Copynumber: 2.2 Consensus size: 44
24573276 CTAGGCATAC
*
24573286 GGATACCCTTCCGGGCTCTCTACTGGCATAAGTTATACACGACA
1 GGATACCCTTCCGGGCTCTCTACTGACATAAGTTATACACGACA
24573330 GGATACCCTTCCGGGCTCTCTACTGACATAAGTTATACACGACA
1 GGATACCCTTCCGGGCTCTCTACTGACATAAGTTATACACGACA
24573374 GGATACCCTTC
1 GGATACCCTTC
24573385 TAGTCTCACA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (44 bp):
GGATACCCTTCCGGGCTCTCTACTGACATAAGTTATACACGACA
Found at i:24576212 original size:15 final size:15
Alignment explanation
Indices: 24576192--24576220 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24576182 TTCTAGTGGT
24576192 TTAGGGTTTTATTAA
1 TTAGGGTTTTATTAA
24576207 TTAGGGTTTTATTA
1 TTAGGGTTTTATTA
24576221 CTAGCTTTTT
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:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTAGGGTTTTATTAA
Found at i:24579994 original size:57 final size:57
Alignment explanation
Indices: 24579921--24580056 Score: 188
Period size: 57 Copynumber: 2.4 Consensus size: 57
24579911 AAAATCTGCC
*
24579921 TAAAAAAAGGAGAAGATAATCTTGGGATGTT-AGTTTTTATCCTAG-AAAAAATAATT
1 TAAAAAAAGGAGAAGATAATCTTGGGATGTTGA-TTTTTATCCTAGAAAAAAAGAATT
* * *
24579977 TAAATAAAAGGAAAAGATATTCTTGGGTTGTTGATTTTTATCCTAGAAAAAAAGAATT
1 TAAA-AAAAGGAGAAGATAATCTTGGGATGTTGATTTTTATCCTAGAAAAAAAGAATT
*
24580035 T-AGAAAAGGAGAAGATAATCTT
1 TAAAAAAAGGAGAAGATAATCTT
24580057 AGATTGTTGA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
56 21 0.30
57 37 0.53
58 12 0.17
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (57 bp):
TAAAAAAAGGAGAAGATAATCTTGGGATGTTGATTTTTATCCTAGAAAAAAAGAATT
Found at i:24580105 original size:41 final size:42
Alignment explanation
Indices: 24580024--24580106 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 42
24580014 TTATCCTAGA
* *
24580024 AAAAAAGAATTTAGAAAAGGAGAAGATAATCTTAGATTGTTG
1 AAAAAAGAATTTAGAAAAGGAGAAGATAAACATAGATTGTTG
* * * *
24580066 AAAAAAGAATTTA-AAGAGGAGAATATAAACATGGGTTGTTG
1 AAAAAAGAATTTAGAAAAGGAGAAGATAAACATAGATTGTTG
24580107 GATTTACCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAAAGAATTTAGAAAAGGAGAAGATAAACATAGATTGTTG
Found at i:24585625 original size:57 final size:54
Alignment explanation
Indices: 24585551--24585691 Score: 201
Period size: 57 Copynumber: 2.6 Consensus size: 54
24585541 ATCTACTTAA
* * * *
24585551 AAAAAAGGAGAATATAATCCTGGGATGTTGGTTTTTATCCTAGAAAAGAAAATTTT
1 AAAAAAGGAGAAGATAATCTTGGGTTGTTGGTTTTTATCCTAGAAAA-AAAA-ATT
*
24585607 AAAAAGAGGAGAAGATAATCTTGGGTTGTTAGTTTTTATCCTAGAAAAAAAAATT
1 AAAAA-AGGAGAAGATAATCTTGGGTTGTTGGTTTTTATCCTAGAAAAAAAAATT
*
24585662 AAAAAATGAGAAGATAATCTTGGGTTGTTG
1 AAAAAAGGAGAAGATAATCTTGGGTTGTTG
24585692 AAAAAAGAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
54 23 0.30
55 7 0.09
56 9 0.12
57 38 0.49
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (54 bp):
AAAAAAGGAGAAGATAATCTTGGGTTGTTGGTTTTTATCCTAGAAAAAAAAATT
Found at i:24585696 original size:40 final size:43
Alignment explanation
Indices: 24585650--24585730 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
24585640 TTTTATCCTA
* * * *
24585650 GAAAAAA-AAATTAAAAA-ATGAGAAGATAATCTTGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
24585691 GAAAAAAGAATTTAAAAAGAGGAGAAGATAAACATGGGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAAACATGGGTT
24585731 CGTGGATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 7 0.21
42 9 0.26
43 18 0.53
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.22
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
Found at i:24589490 original size:32 final size:33
Alignment explanation
Indices: 24589426--24589490 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
24589416 TTTTCATAAA
* * *
24589426 TTAAATATTTATCATTTATATTATGTTTTTATT
1 TTAAATATTTATCATATATATTATATTATTATT
24589459 TTAAATA-TTATCATATA-ATTATATTAATTATT
1 TTAAATATTTATCATATATATTATATT-ATTATT
24589491 ATTTGTTTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 7 0.25
32 14 0.50
33 7 0.25
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (33 bp):
TTAAATATTTATCATATATATTATATTATTATT
Found at i:24603373 original size:33 final size:33
Alignment explanation
Indices: 24603317--24603381 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
24603307 AATGATGAAT
24603317 TGCACATATGTGCCCTAGATTGTA-TTTCGGTAA
1 TGCACATATGTGCCCTAGATTGTACTTT-GGTAA
* *
24603350 TGCACATATGTGCCCTTGGTTGTACTTTGGTA
1 TGCACATATGTGCCCTAGATTGTACTTTGGTA
24603382 CCCCTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (33 bp):
TGCACATATGTGCCCTAGATTGTACTTTGGTAA
Found at i:24606397 original size:24 final size:24
Alignment explanation
Indices: 24606370--24606424 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
24606360 TATATGATGC
24606370 TATTGTGAATTGTAAAAGAAAACA
1 TATTGTGAATTGTAAAAGAAAACA
*
24606394 TATTGTGAATTGTAGAAGAAAACA
1 TATTGTGAATTGTAAAAGAAAACA
24606418 TATTGTG
1 TATTGTG
24606425 TTAAAATGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.33
Consensus pattern (24 bp):
TATTGTGAATTGTAAAAGAAAACA
Found at i:24610553 original size:20 final size:20
Alignment explanation
Indices: 24610530--24610605 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
24610520 GACATATGTT
24610530 CCCCTGATTGTACTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* *
24610550 CCCCTGAGTTGCACATAC-GT-
1 CCCCTGA-TTGTAC-TTCGGTA
* *
24610570 GCCCTTATTCGTACTTCGGTA
1 CCCCTGATT-GTACTTCGGTA
24610591 CCCCTAGA-TGTACTT
1 CCCCT-GATTGTACTT
24610606 TTGTACTCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
19 4 0.10
20 23 0.55
21 12 0.29
22 3 0.07
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.33
Consensus pattern (20 bp):
CCCCTGATTGTACTTCGGTA
Found at i:24618509 original size:21 final size:21
Alignment explanation
Indices: 24618468--24618509 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
24618458 ACGAAAAATC
*
24618468 CAAGTATAGTGTGGAACTTGT
1 CAAGTATAGTGTGAAACTTGT
*
24618489 CAAGTAATAG-GTGAAATTTGT
1 CAAGT-ATAGTGTGAAACTTGT
24618510 ATACGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (21 bp):
CAAGTATAGTGTGAAACTTGT
Found at i:24621781 original size:22 final size:22
Alignment explanation
Indices: 24621756--24621798 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24621746 GGTATAATTG
* *
24621756 TAAATTAATAATAAAACTAAAT
1 TAAAATAATAATAAAAATAAAT
24621778 TAAAATAATAATAAAAATAAA
1 TAAAATAATAATAAAAATAAA
24621799 ATTTTCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAATAATAATAAAAATAAAT
Found at i:24623518 original size:23 final size:23
Alignment explanation
Indices: 24623492--24623564 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
24623482 ATAAGTGCCA
24623492 CACTTATATGTAGCCGAAGCTAC
1 CACTTATATGTAGCCGAAGCTAC
* *
24623515 CACTGATATGTAGCCGTAGCTAC
1 CACTTATATGTAGCCGAAGCTAC
* *
24623538 CA-TTGAAATGTAGTCGAAGCTAC
1 CACTT-ATATGTAGCCGAAGCTAC
24623561 CACT
1 CACT
24623565 GATCAATAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.02
23 40 0.95
24 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (23 bp):
CACTTATATGTAGCCGAAGCTAC
Found at i:24623819 original size:18 final size:17
Alignment explanation
Indices: 24623793--24623831 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
24623783 ATTTTCCTTC
24623793 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
24623810 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
24623828 CACA
1 CACA
24623832 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:24630238 original size:17 final size:17
Alignment explanation
Indices: 24630216--24630255 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
24630206 TCATTCATGT
*
24630216 AAACATATATAACACCC
1 AAACATATATAACACCA
24630233 AAACATATATAACACCA
1 AAACATATATAACACCA
24630250 AAACAT
1 AAACAT
24630256 GTTCTTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.17
Consensus pattern (17 bp):
AAACATATATAACACCA
Found at i:24630788 original size:23 final size:23
Alignment explanation
Indices: 24630762--24630814 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
24630752 ATAAGTGCCA
*
24630762 CACTGATATGTAGCCGAAGGTAC
1 CACTGATATGTAGCCGAAGCTAC
* **
24630785 CACTGAAATGTAGTTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24630808 CACTGAT
1 CACTGAT
24630815 CAATAACACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:24632550 original size:59 final size:60
Alignment explanation
Indices: 24632434--24632551 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 60
24632424 TTTACTTAGA
*
24632434 TACCCCTGAATGCACATATGTGCCCTTGTTTGTACTTCGATATCCCTAAATGCACATACC
1 TACCCCTGAATGCACATATGTGCCCTTGTTTGTACTTCGATACCCCTAAATGCACATACC
* * * * * *
24632494 TACCCCTGAATGCTCAT-TGTGTCCTTGATTT-TACTTTGGTACCCCTGAATGTACATAC
1 TACCCCTGAATGCACATATGTGCCCTTG-TTTGTACTTCGATACCCCTAAATGCACATAC
24632552 GTGCCTCTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 31 0.62
60 19 0.38
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (60 bp):
TACCCCTGAATGCACATATGTGCCCTTGTTTGTACTTCGATACCCCTAAATGCACATACC
Found at i:24632576 original size:40 final size:40
Alignment explanation
Indices: 24632494--24632662 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
24632484 TGCACATACC
* * * *
24632494 TACCCCTGAATGCTCAT-TGTGTCCTTGATTT-TACTTTGG
1 TACCCCTGAATGCACATACGTGCCCCTG-TTTGTACTTTGG
* * *
24632533 TACCCCTGAATGTACATACGTGCCTCTTTTTGTACTTTGG
1 TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
* *
24632573 TACCCCTGAATGCACATACATGCCCCTGTTTGTACTTCGG
1 TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
* *
24632613 TACCCCTGAATGCACTTACGTTCCCCTGTTTGTACTTTGG
1 TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
*
24632653 TACCTCTGAA
1 TACCCCTGAA
24632663 AGCATTATAT
Statistics
Matches: 111, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 18 0.16
40 93 0.84
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (40 bp):
TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
Found at i:24632618 original size:20 final size:20
Alignment explanation
Indices: 24632595--24632656 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
24632585 CACATACATG
24632595 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * *
24632615 CCCCTGAATGCACTTAC-GTT
1 CCCCTGTTTGTACTT-CGGTA
*
24632635 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
24632655 CC
1 CC
24632657 TCTGAAAGCA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.13, C:0.32, G:0.18, T:0.37
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:24634535 original size:25 final size:25
Alignment explanation
Indices: 24634455--24634570 Score: 76
Period size: 25 Copynumber: 4.6 Consensus size: 25
24634445 ACATACCACA
* * *
24634455 GCTCTTGCGAGCATCCTGATATTTT
1 GCTCTTGCGAGCTTCCTGATAATTG
** *
24634480 GCTCTTATGAGCTT-CTCG-TTATATG
1 GCTCTTGCGAGCTTCCT-GATAAT-TG
*
24634505 GTTCTTGCGAGCTTCCTGATAATTG
1 GCTCTTGCGAGCTTCCTGATAATTG
** *
24634530 GCTCTTTG-GAGCTTCCCAATAACTG
1 GCTC-TTGCGAGCTTCCTGATAATTG
**
24634555 GCTCTTATGAGCTTCC
1 GCTCTTGCGAGCTTCC
24634571 CAAATAATAG
Statistics
Matches: 70, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
24 6 0.09
25 56 0.80
26 8 0.11
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (25 bp):
GCTCTTGCGAGCTTCCTGATAATTG
Found at i:24634571 original size:25 final size:25
Alignment explanation
Indices: 24634513--24634595 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 25
24634503 TGGTTCTTGC
** *
24634513 GAGCTTCCTGATAATTGGCTCTTTG
1 GAGCTTCCCAATAACTGGCTCTTTG
24634538 GAGCTTCCCAATAACTGGCTCTTAT-
1 GAGCTTCCCAATAACTGGCTCTT-TG
*
24634563 GAGCTTCCCAAATAA-TAGCT-TTTCG
1 GAGCTTCCC-AATAACTGGCTCTTT-G
24634588 GAGCTTCC
1 GAGCTTCC
24634596 TGATATTGGC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 41 0.82
26 6 0.12
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCAATAACTGGCTCTTTG
Found at i:24642289 original size:73 final size:73
Alignment explanation
Indices: 24642180--24642332 Score: 234
Period size: 73 Copynumber: 2.1 Consensus size: 73
24642170 TAGCTCTCAC
* * * * * *
24642180 GAGCATCTCGATATTGGCTCTCTTGAGCTTCCTGATATATGGCACTTACGAGCTTTCTGTTAATA
1 GAGCATCTCGATATTGGCTCTCTTAAGCTTACTGATATATGACACTCACGAGCTTCCCGTTAATA
24642245 GCTCTTGG
66 GCTCTTGG
*
24642253 GAGCATCTCGATATTGGCTCTCTTAAGCTTATTGATATATGACACTCACGAGCTTCCCGTTAATA
1 GAGCATCTCGATATTGGCTCTCTTAAGCTTACTGATATATGACACTCACGAGCTTCCCGTTAATA
*
24642318 GCTCTTTG
66 GCTCTTGG
24642326 GAGCATC
1 GAGCATC
24642333 CTGATTGGTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (73 bp):
GAGCATCTCGATATTGGCTCTCTTAAGCTTACTGATATATGACACTCACGAGCTTCCCGTTAATA
GCTCTTGG
Found at i:24642500 original size:25 final size:26
Alignment explanation
Indices: 24642432--24642503 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 26
24642422 TGGTTATTGT
* * *
24642432 GAGCTTCCT-AATAATTGACTTTTCA
1 GAGCTTCCTGAATAACTGGCTTTACA
*
24642457 GAGCTTCCCG-ATAACTGGCTCTTAC-
1 GAGCTTCCTGAATAACTGGCT-TTACA
24642482 GAGCTTCCTGAATAA-TGGCTTT
1 GAGCTTCCTGAATAACTGGCTTT
24642504 CTAGAGATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 2 0.05
25 30 0.77
26 7 0.18
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (26 bp):
GAGCTTCCTGAATAACTGGCTTTACA
Found at i:24642573 original size:25 final size:25
Alignment explanation
Indices: 24642521--24642573 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
24642511 TAGTTGATAT
* *
24642521 TGGCTCGCATGAACTTCCCGTTACA
1 TGGCTCACATGAACTTCCCATTACA
* * *
24642546 TGGCTCACATGAGCTTCTCATTATA
1 TGGCTCACATGAACTTCCCATTACA
24642571 TGG
1 TGG
24642574 ATTAAGATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (25 bp):
TGGCTCACATGAACTTCCCATTACA
Found at i:24647924 original size:21 final size:21
Alignment explanation
Indices: 24647898--24647938 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24647888 ACTAACATGT
*
24647898 ATGTCTCTAGA-TTAGAGTGCC
1 ATGTCTCAAGACTTA-AGTGCC
24647919 ATGTCTCAAGACTTAAGTGC
1 ATGTCTCAAGACTTAAGTGC
24647939 AAAGGACTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (21 bp):
ATGTCTCAAGACTTAAGTGCC
Found at i:24689951 original size:49 final size:49
Alignment explanation
Indices: 24689885--24690025 Score: 185
Period size: 49 Copynumber: 2.9 Consensus size: 49
24689875 TTTCTCAATG
* * *
24689885 CCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATACCGATA
1 CCATAGCCCAACAATGGTCTTACACGGAATCACAAATCACATACCGATA
* * *
24689934 CCATA-CCCAAGCAATGGTCTTACACGGAATCACATATCACTTACCGATG
1 CCATAGCCCAA-CAATGGTCTTACACGGAATCACAAATCACATACCGATA
* *
24689983 CCATAGCCCAACTATGGTCTTATACGGAATCACATAATCACAT
1 CCATAGCCCAACAATGGTCTTACACGGAATCACA-AATCACAT
24690026 GTTCACATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
48 4 0.05
49 64 0.81
50 11 0.14
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (49 bp):
CCATAGCCCAACAATGGTCTTACACGGAATCACAAATCACATACCGATA
Found at i:24691061 original size:102 final size:102
Alignment explanation
Indices: 24690892--24691633 Score: 1184
Period size: 102 Copynumber: 7.3 Consensus size: 102
24690882 CCAGTGATTC
* * * * * *
24690892 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATTAGCACTCAACAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACGGTGGAATCAGCACTTAGCAACC
* *
24690957 ACCAATG-ATTCAGGGAATCAGCACTTAGCAACCCCTCG
65 ACCGATGAATT-AGGGAATCAGCACTTAGCAACCCCTTG
*
24690995 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* ** * *
24691060 CCAATGAATCGGGGAATCAGCACTCAGCAACTCCTTG
66 CCGATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
*
24691097 GGGGAATCAGCACTTAGCAA-CCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* * *
24691161 CCAATGAATTGGGGAATCAGCACGTAGCAACCCCATTG
66 CCGATGAATTAGGGAATCAGCACTTAGCAACCCC-TTG
* *
24691199 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGAAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
24691264 CCGATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
66 CCGATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
* *
24691301 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGAAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
24691366 CCGATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
66 CCGATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
* *
24691403 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGAAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
24691468 CCGATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
66 CCGATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
24691505 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
24691570 CCGATGAATTGGGGAATCAACACTTAGCAACCCCTTG
66 CCGATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
*
24691607 GGGGAATCGGCACTTAGC-ACTCCCCTT
1 GGGGAATCAGCACTTAGCAAC-CCCCTT
24691634 TATATTCAAT
Statistics
Matches: 608, Mismatches: 27, Indels: 9
0.94 0.04 0.01
Matches are distributed among these distances:
101 74 0.12
102 425 0.70
103 109 0.18
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCGATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
Found at i:24691104 original size:27 final size:27
Alignment explanation
Indices: 24691070--24691122 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
24691060 CCAATGAATC
*
24691070 GGGGAATCAGCACTCAGCAACTCCTTG
1 GGGGAATCAGCACTCAGCAACCCCTTG
*
24691097 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTCAGCAACCCCTT
24691123 CACATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.19
Consensus pattern (27 bp):
GGGGAATCAGCACTCAGCAACCCCTTG
Found at i:24693393 original size:11 final size:13
Alignment explanation
Indices: 24693373--24693404 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24693363 AATAAATTAA
24693373 TAAAATATCAT-T
1 TAAAATATCATAT
24693385 TAAAA-ATCATAT
1 TAAAATATCATAT
24693397 TAAAATAT
1 TAAAATAT
24693405 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:24695174 original size:49 final size:49
Alignment explanation
Indices: 24695111--24695303 Score: 298
Period size: 49 Copynumber: 3.9 Consensus size: 49
24695101 CGTTTTCTCA
* *
24695111 ATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATACCG
1 ATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACCG
*
24695160 ATACCATAGCCCAACTATGGTCTTACA-GGTAATCACAAATCACATACCG
1 ATGCCATAGCCCAACTATGGTCTTACACGG-AATCACAAATCACATACCG
* * *
24695209 ATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTACCG
1 ATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACCG
*
24695258 ATGCCATAGCCCAACTATGGTCTTATACGGAATCACATAATCACAT
1 ATGCCATAGCCCAACTATGGTCTTACACGGAATCACA-AATCACAT
24695304 GTTCACATAT
Statistics
Matches: 130, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
48 1 0.01
49 121 0.93
50 8 0.06
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.24
Consensus pattern (49 bp):
ATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACCG
Found at i:24696325 original size:42 final size:42
Alignment explanation
Indices: 24696266--24696401 Score: 182
Period size: 42 Copynumber: 3.5 Consensus size: 42
24696256 ACCCCTCGGG
24696266 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
* *
24696308 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
*
24696341 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
24696383 GGAATCAGCACTTAGCAAC
1 GGAATCAGCACTTAGCAAC
24696402 TACCAATGAA
Statistics
Matches: 80, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
33 18 0.22
34 6 0.08
35 3 0.04
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 3 0.04
41 5 0.06
42 37 0.46
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
Found at i:24696334 original size:102 final size:103
Alignment explanation
Indices: 24696161--24696362 Score: 325
Period size: 102 Copynumber: 2.0 Consensus size: 103
24696151 CCAGTGATTC
* * *
24696161 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATTAGCACTCAACAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTCAACAACC
*
24696226 ACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTCG
66 ACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCG
* * *
24696264 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTCAACAACC
*
24696328 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCC
66 ACCAATGAATCAGGGAATCAGCACTTAGCAACCCC
24696363 CTTCACATTT
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 56 0.62
103 35 0.38
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTCAACAACC
ACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCG
Found at i:24696350 original size:33 final size:33
Alignment explanation
Indices: 24696308--24696538 Score: 139
Period size: 33 Copynumber: 6.6 Consensus size: 33
24696298 AAAATACGGT
24696308 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
24696341 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGT
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-C-GG
* *
24696383 GGAATCAGCACTTAGCAACTACCAATGAATTGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* *
24696416 GGAATTAGCACTTAGCAACC-CC-AT---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* *
24696444 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CGG
* * * **
24696485 TGGAATCAACAATTAGCAACCACCGATGAATTAG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
24696519 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
24696539 CCCTTCACAT
Statistics
Matches: 153, Mismatches: 22, Indels: 46
0.69 0.10 0.21
Matches are distributed among these distances:
28 20 0.13
29 2 0.01
30 1 0.01
31 2 0.01
32 3 0.02
33 55 0.36
34 5 0.03
35 6 0.04
36 5 0.03
37 1 0.01
38 2 0.01
39 4 0.03
40 4 0.03
41 8 0.05
42 35 0.23
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:24696358 original size:75 final size:75
Alignment explanation
Indices: 24696264--24696437 Score: 312
Period size: 75 Copynumber: 2.3 Consensus size: 75
24696254 CAACCCCTCG
*
24696264 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACCA
24696329 CCAATGAATC
66 CCAATGAATC
*
24696339 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACTA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACCA
*
24696404 CCAATGAATT
66 CCAATGAATC
*
24696414 GGGGAATTAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
24696438 ATTGGGGGAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 95 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACCA
CCAATGAATC
Found at i:24696447 original size:178 final size:177
Alignment explanation
Indices: 24696126--24696580 Score: 687
Period size: 178 Copynumber: 2.6 Consensus size: 177
24696116 TATCCGTTAT
* * * * * *
24696126 CGGTGGATTCAGTATTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCAATTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
* * * * *
24696191 ATTCAAAGATATGGTGGAATTAGCACTCAACAACCACCAATGATTCAGGGAATCAGCACTTAGCA
66 ATTTAAA-ATACGGTGGAATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCA
24696256 ACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
130 ACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
*
24696304 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCAATTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
* * * *
24696369 ATTTAAAATACAGTGGAATCAGCACTTAGCAACTACCAATGAATT-GGGGAATTAGCACTTAGCA
66 ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATG-ATTCAGGGAATCAGCACTTAGCA
*
24696433 ACCCCATTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
130 ACCCC-TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
* * **
24696482 CGGTGGAATCAACAATTAGCAACCACCGATGAATTAGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCAATTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
24696547 ATTTAAAATACGGTGGAATCAGCACTTAGCAACC
66 ATTTAAAATACGGTGGAATCAGCACTTAGCAACC
24696581 CTTTGGGGGA
Statistics
Matches: 252, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
177 50 0.20
178 202 0.80
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (177 bp):
CGGTGGAATCAGCAATTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAA
CCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
Found at i:24696459 original size:103 final size:103
Alignment explanation
Indices: 24696308--24696540 Score: 349
Period size: 103 Copynumber: 2.2 Consensus size: 103
24696298 AAAATACGGT
*
24696308 GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCACATTT
1 GGAATCAGCACTTAGCAACC-CC-AT---TGGGGGAATCAGCACTTAGCAACCCCCTTCACATTT
* * * *
24696373 AAAATACAGTGGAATCAGCACTTAGCAACTACCAATGAATTGG
61 AAAATACAGTGGAATCAACAATTAGCAACCACCAATGAATTAG
*
24696416 GGAATTAGCACTTAGCAACCCCATTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAAT
1 GGAATCAGCACTTAGCAACCCCATTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAAT
* *
24696481 ACGGTGGAATCAACAATTAGCAACCACCGATGAATTAG
66 ACAGTGGAATCAACAATTAGCAACCACCAATGAATTAG
24696519 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
24696541 CTTCACATTT
Statistics
Matches: 116, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
103 93 0.80
106 2 0.02
107 2 0.02
108 19 0.16
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (103 bp):
GGAATCAGCACTTAGCAACCCCATTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAAT
ACAGTGGAATCAACAATTAGCAACCACCAATGAATTAG
Found at i:24696503 original size:42 final size:42
Alignment explanation
Indices: 24696444--24696581 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 42
24696434 CCCCATTGGG
24696444 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
* * * * * *
24696486 GGAATCAACAATTAGCAA-CCAC--C-GA--TGAATTA--G-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
24696519 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
24696561 GGAATCAGCACTTAGCAACCC
1 GGAATCAGCACTTAGCAACCC
24696582 TTTGGGGGAA
Statistics
Matches: 75, Mismatches: 12, Indels: 18
0.71 0.11 0.17
Matches are distributed among these distances:
33 16 0.21
34 4 0.05
36 6 0.08
37 1 0.01
38 1 0.01
39 6 0.08
41 4 0.05
42 37 0.49
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.21
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
Found at i:24698539 original size:11 final size:13
Alignment explanation
Indices: 24698519--24698550 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24698509 AATAAATTAA
24698519 TAAAATATCAT-T
1 TAAAATATCATAT
24698531 TAAAA-ATCATAT
1 TAAAATATCATAT
24698543 TAAAATAT
1 TAAAATAT
24698551 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:24700240 original size:49 final size:49
Alignment explanation
Indices: 24700169--24700297 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
24700159 GGGCTTGAAA
* * * *** *
24700169 ATATCTTATGTTCCTCAACCATTCTGATAAGCGTGTTAAGTGTGGGAAC
1 ATATTTTATGTTTCTCAGCCATTCTGATAAGCACATTAAGTGTGAGAAC
* *
24700218 ATATTTTATGTTTCTCAGCCATTCTAATAAGTACATTAAGTGTGAGAAC
1 ATATTTTATGTTTCTCAGCCATTCTGATAAGCACATTAAGTGTGAGAAC
*
24700267 ATATTTTATGTTTCTCAGCCATTTTGATAAG
1 ATATTTTATGTTTCTCAGCCATTCTGATAAG
24700298 GTAAGTATTT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (49 bp):
ATATTTTATGTTTCTCAGCCATTCTGATAAGCACATTAAGTGTGAGAAC
Found at i:24718589 original size:21 final size:20
Alignment explanation
Indices: 24718565--24718613 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
24718555 GTTGTGACTA
24718565 CATCTGATTCTAG-TGTGGATG
1 CATCTGATT-T-GTTGTGGATG
*
24718586 CATCTAGCTTTGTTGTGGATG
1 CATCT-GATTTGTTGTGGATG
24718607 CATCTGA
1 CATCTGA
24718614 GTGTGCTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 2 0.08
21 19 0.79
22 3 0.12
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (20 bp):
CATCTGATTTGTTGTGGATG
Found at i:24721761 original size:15 final size:16
Alignment explanation
Indices: 24721741--24721773 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
24721731 TTTTAGTTAA
24721741 TTAAATA-TTTTTATT
1 TTAAATATTTTTTATT
24721756 TTAAATATTTTTTATT
1 TTAAATATTTTTTATT
24721772 TT
1 TT
24721774 CCTAGTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTAAATATTTTTTATT
Found at i:24736951 original size:8 final size:8
Alignment explanation
Indices: 24736938--24736969 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
24736928 TTCCATCCAA
24736938 ACAAATAT
1 ACAAATAT
24736946 ACAAATAT
1 ACAAATAT
24736954 ACAAATAT
1 ACAAATAT
*
24736962 ACATATAT
1 ACAAATAT
24736970 GTTCAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (8 bp):
ACAAATAT
Found at i:24747444 original size:20 final size:20
Alignment explanation
Indices: 24747410--24747447 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24747400 ATCAATCAAT
**
24747410 GATAATTAATTATTTAATTA
1 GATAATTAAGGATTTAATTA
24747430 GATAATTAAGGATTTAAT
1 GATAATTAAGGATTTAAT
24747448 CGATTATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
GATAATTAAGGATTTAATTA
Found at i:24750433 original size:15 final size:15
Alignment explanation
Indices: 24750413--24750441 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24750403 TAAAATGATC
24750413 GAAATACCCTCGATT
1 GAAATACCCTCGATT
24750428 GAAATACCCTCGAT
1 GAAATACCCTCGAT
24750442 GGATAAAATG
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:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (15 bp):
GAAATACCCTCGATT
Found at i:24750459 original size:27 final size:27
Alignment explanation
Indices: 24750428--24750721 Score: 201
Period size: 27 Copynumber: 11.0 Consensus size: 27
24750418 ACCCTCGATT
* *
24750428 GAAATACCCTCGATGGATAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGATC
* * *
24750455 AAAATA-CCT-AATGGGTAAAATGATT
1 GAAATACCCTCGATGGGTAAAATGATC
*
24750480 GAAATACCCTCGAAGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGATC
* *
24750507 GAAATACCCTCGAAGGGTAAAATGGTC
1 GAAATACCCTCGATGGGTAAAATGATC
* * * *
24750534 GAAGTATCCTTGATGGGTAAAATGATT
1 GAAATACCCTCGATGGGTAAAATGATC
* * *
24750561 GAAATGCCC-CTATAGGGTAAAATGACC
1 GAAATACCCTCGAT-GGGTAAAATGATC
* ** * *
24750588 AAAATACCCTCGCCGAGTAGAAT-ATC
1 GAAATACCCTCGATGGGTAAAATGATC
*
24750614 GAAATACCCTC-ATAGGGTAAAATGACC
1 GAAATACCCTCGAT-GGGTAAAATGATC
* * *
24750641 GTAATACCC-CTG-TAGAGTAAAATGACC
1 GAAATACCCTC-GAT-GGGTAAAATGATC
* * *
24750668 GTAATACCCTTG-TCGGGTAAAATGACC
1 GAAATACCCTCGAT-GGGTAAAATGATC
* * *
24750695 GTAATGCCC-CAATAGGGTAAAATGATC
1 GAAATACCCTCGAT-GGGTAAAATGATC
24750722 ATAATAACCC
Statistics
Matches: 210, Mismatches: 47, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
25 17 0.08
26 28 0.13
27 164 0.78
28 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (27 bp):
GAAATACCCTCGATGGGTAAAATGATC
Found at i:24750552 original size:54 final size:54
Alignment explanation
Indices: 24750428--24750800 Score: 192
Period size: 54 Copynumber: 7.0 Consensus size: 54
24750418 ACCCTCGATT
* * * * ** *
24750428 GAAATACCCTCGATGGATAAAATGACCAAAATA-CCTAAT-GGGTAAAATGATT
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCGATAGGGTAAAATGATC
*
24750480 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGA-AGGGTAAAATGGTC
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCC-CGATAGGGTAAAATGATC
* * * * * * * *
24750534 GAAGTATCCTTGATGGGTAAAATGATTGAAATGCCCCTATAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCGATAGGGTAAAATGATC
* ** * * *
24750588 AAAATACCCTCGCCGAGTAGAAT-ATCGAAATACCCTC-ATAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCC-CGATAGGGTAAAATGATC
* * * * * * * *
24750641 GTAATACCC-CTGTAGAGTAAAATGACCGTAATACCCTTG-TCGGGTAAAATGACC
1 GAAATACCCTC-GAAGGGTAAAATGATCGAAATACCC-CGATAGGGTAAAATGATC
* * * * * *
24750695 GTAATGCCC-CAATAGGGTAAAATGATC-ATAATAACCCTG-TAAGGTAAAATGACC
1 GAAATACCCTCGA-AGGGTAAAATGATCGA-AAT-ACCCCGATAGGGTAAAATGATC
* * * * * * * **
24750749 GTACTGCCCTTGTAGGGTAAAATGA-CTGTAATGCCCATATAGGGTAAAATGA
1 GAAATACCCTCGAAGGGTAAAATGATC-GAAATACCCCGATAGGGTAAAATGA
24750801 CCGTACTGCC
Statistics
Matches: 253, Mismatches: 53, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
52 30 0.12
53 50 0.20
54 169 0.67
55 4 0.02
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (54 bp):
GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCGATAGGGTAAAATGATC
Found at i:24750661 original size:80 final size:81
Alignment explanation
Indices: 24750445--24750910 Score: 232
Period size: 81 Copynumber: 5.8 Consensus size: 81
24750435 CCTCGATGGA
* * * * * * *
24750445 TAAAATGACCAAAATA-CCTAAT-GGGTAAAATGATTGAAATA-CCCTCGAAGGGTAAAATGATC
1 TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCT-GTAGAGTAAAATGACC
* ** *
24750507 GAAATACCCTCGAAGGG
65 AAAATACCCTCGCCGAG
** * *** * * * * *
24750524 TAAAATGGTCGAAGTATCCTTGAT-GGGTAAAATGATTGAAATGCCCCTATAGGGTAAAATGACC
1 TAAAATGACCGAAATA-CCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACC
24750588 AAAATACCCTCGCCGAG
65 AAAATACCCTCGCCGAG
* * *
24750605 TAGAAT-ATCGAAATACCCTC-ATAGGGTAAAATGACCGTAATACCCCTGTAGAGTAAAATGACC
1 TAAAATGACCGAAATACCC-CAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACC
** * * *
24750668 GTAATACCCTTGTCGGG
65 AAAATACCCTCGCCGAG
* * * *
24750685 TAAAATGACCGTAATGCCCCAATAGGGTAAAATGATCATAATAACCCTGTA-AGGTAAAATGACC
1 TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGA-GTAAAATGACC
** * * * ** *
24750749 GTACTGCCCTTGTAGGG
65 AAAATACCCTCGCCGAG
* * * * * *
24750766 TAAAATGACTGTAAT-GCCCATATAGGGTAAAATGACCGTACTGCCCCTGTA-AGGTAAAATGAC
1 TAAAATGACCGAAATACCCCA-ATAGGGTAAAATGATCGTAATACCCCTGTAGA-GTAAAATGAC
*** * ** *
24750829 TTTAATGCCCAT-GTAGGG
64 CAAAATACCC-TCGCCGAG
* * ** * * * *
24750847 TAAAATGATCGTAATACCCCTGTAAGGTAAAATGATTGTAATACCCTTGTAGGGTAAAATGACC
1 TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACC
24750911 GTAATGCCTT
Statistics
Matches: 312, Mismatches: 63, Indels: 22
0.79 0.16 0.06
Matches are distributed among these distances:
79 16 0.05
80 64 0.21
81 224 0.72
82 8 0.03
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACCA
AAATACCCTCGCCGAG
Found at i:24750726 original size:27 final size:27
Alignment explanation
Indices: 24750626--24750918 Score: 325
Period size: 27 Copynumber: 10.9 Consensus size: 27
24750616 AATACCCTCA
*
24750626 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * *
24750653 TAGAGTAAAATGACCGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* **
24750680 TCGGGTAAAATGACCGTAATGCCCCAA
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * **
24750707 TAGGGTAAAATGATCATAATAACCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * *
24750734 TAAGGTAAAATGACCGTACTGCCCTTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * *
24750761 TAGGGTAAAATGACTGTAATGCCCATA
1 TAGGGTAAAATGACCGTAATGCCCCTG
*
24750788 TAGGGTAAAATGACCGTACTGCCCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* ** *
24750815 TAAGGTAAAATGACTTTAATGCCCATG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* *
24750842 TAGGGTAAAATGATCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* ** * *
24750869 TAAGGTAAAATGATTGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
24750896 TAGGGTAAAATGACCGTAATGCC
1 TAGGGTAAAATGACCGTAATGCC
24750919 TTGGTGGGTA
Statistics
Matches: 217, Mismatches: 49, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 217 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATGCCCCTG
Found at i:24751031 original size:24 final size:24
Alignment explanation
Indices: 24750956--24751037 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
24750946 CTCGAGGTCA
* * *
24750956 AATGATTGATTTGTCTATGGTTA-
1 AATGACTGATTTGTCTGTGATTAG
* * *
24750979 AATGACTGATTTGTGTGTGTTTGG
1 AATGACTGATTTGTCTGTGATTAG
* * *
24751003 TATGATTGATTTGTTTGTGATTAG
1 AATGACTGATTTGTCTGTGATTAG
24751027 AATGACTGATT
1 AATGACTGATT
24751038 CTGAGCATGA
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 18 0.39
24 28 0.61
ACGTcount: A:0.23, C:0.04, G:0.26, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTAG
Found at i:24751253 original size:32 final size:32
Alignment explanation
Indices: 24751212--24751411 Score: 224
Period size: 32 Copynumber: 6.3 Consensus size: 32
24751202 GCGATGCTAT
* *
24751212 TGATGGCTTTGTGTCGATTATATTACCGTTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
*
24751244 TGATGGCTTTGTGCCGGTCATATTACCGTTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
* * **
24751276 TGATGGCTTTATGCCGGTCATATTACCACTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
* *
24751308 TGACGGCTTTGTGCCGATCATATTACAGTTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
* * * * *
24751340 TGATGG-TTGTGTGCCGGTTATATCACTGCTAC
1 TGATGGCTT-TGTGCCGATCATATTACCGTTAC
* *
24751372 TGATGGCTTTGTGCCAATCATATTACTG-TAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
*
24751403 TTATGGCTT
1 TGATGGCTT
24751412 GTAGCCGTTC
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
31 13 0.09
32 128 0.90
33 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACCGTTAC
Done.