Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 107 of 211
Found at i:29706871 original size:20 final size:20
Alignment explanation
Indices: 29706846--29706883 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29706836 GGTTCTCTTC
* *
29706846 TTTCTTTTGTTTTGTTTTTT
1 TTTCTTTTATTTTCTTTTTT
29706866 TTTCTTTTATTTTCTTTT
1 TTTCTTTTATTTTCTTTT
29706884 AGGTTTCAAT
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:0.03, C:0.08, G:0.05, T:0.84
Consensus pattern (20 bp):
TTTCTTTTATTTTCTTTTTT
Found at i:29720033 original size:20 final size:21
Alignment explanation
Indices: 29719998--29720036 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
29719988 TTAATGGTTT
*
29719998 TAAATAATTTTTGGTTAAAAA
1 TAAATAATTTTGGGTTAAAAA
29720019 TAAAT-ATTTTGGGTTAAA
1 TAAATAATTTTGGGTTAAA
29720037 TTGGATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
TAAATAATTTTGGGTTAAAAA
Found at i:29721801 original size:21 final size:20
Alignment explanation
Indices: 29721771--29721809 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
29721761 GTTTCTTTAA
29721771 TATTAATATAATATTTTAATT
1 TATTAATATAAT-TTTTAATT
*
29721792 TATTATTATAATTTTTAA
1 TATTAATATAATTTTTAA
29721810 AAATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTAATATAATTTTTAATT
Found at i:29721816 original size:21 final size:21
Alignment explanation
Indices: 29721769--29721816 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
29721759 CAGTTTCTTT
29721769 AATATTAATATAATATTTTAA
1 AATATTAATATAATATTTTAA
** *
29721790 TTTATTATTATAAT-TTTTAAA
1 AATATTAATATAATATTTT-AA
29721811 AATATT
1 AATATT
29721817 TATTTATTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATATTAATATAATATTTTAA
Found at i:29721834 original size:17 final size:17
Alignment explanation
Indices: 29721812--29721857 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
29721802 ATTTTTAAAA
29721812 ATATTTATTTATTTTAT
1 ATATTTATTTATTTTAT
*
29721829 ATATTT-TTAAATTTTAT
1 ATATTTATT-TATTTTAT
*
29721846 A-ATTTATATATT
1 ATATTTATTTATT
29721858 ATGATTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTTATTTATTTTAT
Found at i:29721834 original size:29 final size:31
Alignment explanation
Indices: 29721780--29721864 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 31
29721770 ATATTAATAT
29721780 AATATTTTAATTTATTATTATAATTTTTAAA
1 AATATTTTAATTTATTATTATAATTTTTAAA
29721811 AATA-TTT-ATTTATT-TTATATATTTTT--A
1 AATATTTTAATTTATTATTATA-ATTTTTAAA
*
29721838 AAT-TTTATAATTTATATATTATGATTT
1 AATATTT-TAATTTAT-TATTATAATTT
29721865 CTTGTCAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
27 6 0.13
28 6 0.13
29 19 0.40
30 8 0.17
31 8 0.17
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (31 bp):
AATATTTTAATTTATTATTATAATTTTTAAA
Found at i:29722012 original size:51 final size:51
Alignment explanation
Indices: 29721915--29722018 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 51
29721905 TATTTCTTTA
* ** *
29721915 AATTTTTTAGAATTAGAATCAAATTGAGATCAATTGTAAATTTTGAGTGTT
1 AATTTTTTAAAATTAGAATCAAATTGAGATCAATTGTAAAAGTTGAGGGTT
* *
29721966 AATTTTTTAAAATTATG-ATTAAATTGATAT-AATATGTAAAAGTTGAGGGTT
1 AATTTTTTAAAATTA-GAATCAAATTGAGATCAAT-TGTAAAAGTTGAGGGTT
29722017 AA
1 AA
29722019 ATTTGTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
50 3 0.07
51 41 0.91
52 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.42
Consensus pattern (51 bp):
AATTTTTTAAAATTAGAATCAAATTGAGATCAATTGTAAAAGTTGAGGGTT
Found at i:29742975 original size:28 final size:28
Alignment explanation
Indices: 29742942--29743007 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
29742932 ATTTTTTAAT
*
29742942 AAATATTAAAAAATTATTTTAAAAATAA
1 AAATATTAAAAAAGTATTTTAAAAATAA
** *
29742970 AAATATTTTAAAAGTATTTTAAAATTAA
1 AAATATTAAAAAAGTATTTTAAAAATAA
29742998 AAA-A-TAAAAA
1 AAATATTAAAAA
29743008 TAAAATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.12
27 1 0.03
28 27 0.84
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (28 bp):
AAATATTAAAAAAGTATTTTAAAAATAA
Found at i:29744733 original size:24 final size:24
Alignment explanation
Indices: 29744706--29744754 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
29744696 ATAATATTCT
29744706 AGTTAAACTCTGTTTATTTATTTC
1 AGTTAAACTCTGTTTATTTATTTC
*
29744730 AGTTAAACTCTGTTTATTTGTTTC
1 AGTTAAACTCTGTTTATTTATTTC
29744754 A
1 A
29744755 ATCAAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.53
Consensus pattern (24 bp):
AGTTAAACTCTGTTTATTTATTTC
Found at i:29744761 original size:24 final size:24
Alignment explanation
Indices: 29744710--29744762 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
29744700 TATTCTAGTT
* *
29744710 AAACTCTGTTTATTTATTTCAGTT
1 AAACTCTGTTTATTTATTTCAATC
*
29744734 AAACTCTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTATTTCAATC
29744758 AAACT
1 AAACT
29744763 TTGATAAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTATTTATTTCAATC
Found at i:29749612 original size:53 final size:53
Alignment explanation
Indices: 29749532--29749641 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
29749522 TCTTTGATTA
29749532 ACTAACTAGACATAATTACTTAAGCTTAATCTTACATTAGTTAAAGTATATAT
1 ACTAACTAGACATAATTACTTAAGCTTAATCTTACATTAGTTAAAGTATATAT
29749585 ACTAACTAGACATAATTACTTAAGCTTAATCTTACATTAGTTAAAGTATATAT
1 ACTAACTAGACATAATTACTTAAGCTTAATCTTACATTAGTTAAAGTATATAT
29749638 ACTA
1 ACTA
29749642 TATGAGAAAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (53 bp):
ACTAACTAGACATAATTACTTAAGCTTAATCTTACATTAGTTAAAGTATATAT
Found at i:29751416 original size:11 final size:11
Alignment explanation
Indices: 29751400--29751427 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
29751390 AAACACAATT
29751400 AAACATGCTCA
1 AAACATGCTCA
29751411 AAACATGCTCA
1 AAACATGCTCA
29751422 AAACAT
1 AAACAT
29751428 CCAACCTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.07, T:0.18
Consensus pattern (11 bp):
AAACATGCTCA
Found at i:29757153 original size:16 final size:17
Alignment explanation
Indices: 29757131--29757173 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
29757121 AAATTGTATG
29757131 TATTAATTTATAATATA
1 TATTAATTTATAATATA
*
29757148 -ATTAATTT-TAATTTA
1 TATTAATTTATAATATA
29757163 TATCTAATTTA
1 TAT-TAATTTA
29757174 ATTTGGGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 6 0.27
16 10 0.45
17 6 0.27
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTAATTTATAATATA
Found at i:29757158 original size:22 final size:22
Alignment explanation
Indices: 29757133--29757177 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
29757123 ATTGTATGTA
29757133 TTAATTTATAATATAA-TTAATT
1 TTAATTTAT-ATATAATTTAATT
*
29757155 TTAATTTATATCTAATTTAATT
1 TTAATTTATATATAATTTAATT
29757177 T
1 T
29757178 GGGTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTTATATATAATTTAATT
Found at i:29762251 original size:31 final size:31
Alignment explanation
Indices: 29762216--29762396 Score: 130
Period size: 31 Copynumber: 5.8 Consensus size: 31
29762206 GAATCACCCC
* * *
29762216 ATGTTTACTATCTCAACGAACTATCTGTTCT
1 ATGTTTATTGTCTCAACGAACTATCTATTCT
* * * * *
29762247 ATGTTTATTATCTTAGC-ACACTATTTTTTCT
1 ATGTTTATTGTCTCAACGA-ACTATCTATTCT
* * *
29762278 ATGTTTATTGTCTCAACAAACTATTTACTCT
1 ATGTTTATTGTCTCAACGAACTATCTATTCT
* * * *
29762309 GTGTTTATTGTCCCAACGGACTATCTATCCT
1 ATGTTTATTGTCTCAACGAACTATCTATTCT
* * * * * *
29762340 ATGTTTACTGTCCCAGCGGACTACCTGTTCT
1 ATGTTTATTGTCTCAACGAACTATCTATTCT
* * *
29762371 ATGTTTATTGTCCCAGCGGACTATCT
1 ATGTTTATTGTCTCAACGAACTATCT
29762397 TTATGGATGC
Statistics
Matches: 123, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
30 1 0.01
31 121 0.98
32 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.43
Consensus pattern (31 bp):
ATGTTTATTGTCTCAACGAACTATCTATTCT
Found at i:29765936 original size:2 final size:2
Alignment explanation
Indices: 29765929--29765965 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
29765919 GGAAGGGAAA
29765929 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
29765966 ACATGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:29770204 original size:129 final size:129
Alignment explanation
Indices: 29769973--29770229 Score: 356
Period size: 129 Copynumber: 2.0 Consensus size: 129
29769963 TCTACAGTCT
* * *
29769973 GGTGAATGCCCAAACAATGCCTGGTATTCCAAAGCAACCTCCCCATTGACATCCTGTTTTTTTTC
1 GGTGAATGCCCAAACAATGCCTGCTATTCCAAAGCAACCTCCCCATTGACATCCTCTTTTTTATC
* * * * *
29770038 GATTCCTTTAACCTGACACTCGGAGAAGCCATCTTGAATGCAGACTGAAGAATCTCTCCCATCA
66 AATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAACGCAGACTGAAGAATCTCTCCCATCA
* *
29770102 GGTGAATGTCCAAACAATGCCTCGCT-TTCCAAAGCAACGCT-TCCATTGACATCCTCTTTTTTA
1 GGTGAATGCCCAAACAATGCCT-GCTATTCCAAAGCAAC-CTCCCCATTGACATCCTCTTTTTTA
* * * *
29770165 TCAATTCCCTTCACCTGACACTCAGAGAAACCATTTTGAACGCAGATTGAAGTATCTCTCCCATC
64 TCAATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAACGCAGACTGAAGAATCTCTCCCATC
29770230 TGATTGTTGA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
129 108 0.96
130 4 0.04
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (129 bp):
GGTGAATGCCCAAACAATGCCTGCTATTCCAAAGCAACCTCCCCATTGACATCCTCTTTTTTATC
AATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAACGCAGACTGAAGAATCTCTCCCATCA
Found at i:29783951 original size:37 final size:37
Alignment explanation
Indices: 29783879--29783993 Score: 160
Period size: 37 Copynumber: 3.1 Consensus size: 37
29783869 TTATTACGAA
* * * *
29783879 GTCTTACCCGGACATAA-CTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
29783915 GTCTTACCCGGATAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
* *
29783952 GTCTTACCCGGACAAAATCCTCACACGTCGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
29783989 GTCTT
1 GTCTT
29783994 TAGAGCTCGG
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
36 15 0.21
37 55 0.79
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:29784287 original size:49 final size:47
Alignment explanation
Indices: 29784112--29784336 Score: 317
Period size: 47 Copynumber: 4.7 Consensus size: 47
29784102 CCCTTCGGGA
* * * * *
29784112 CTTATCACATTTATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29784159 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29784206 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29784253 CTTATCACATGTATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29784302 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
29784337 AGAATCCTAA
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 116 0.72
49 45 0.28
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29784307 original size:96 final size:94
Alignment explanation
Indices: 29784112--29784336 Score: 317
Period size: 96 Copynumber: 2.4 Consensus size: 94
29784102 CCCTTCGGGA
* * * * *
29784112 CTTATCACATTTATACACTTTCACATTCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
29784177 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCAGCCATTAGGC
* *
29784206 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACA--TATATAC
29784271 ACTTTCACATTCATCACATCAGCCATTAGGC
64 ACTTTCACATTCATCACATCAGCCATTAGGC
* * *
29784302 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
29784337 AGAATCCTAA
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 49 0.42
95 1 0.01
96 67 0.57
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCAGCCATTAGGC
Found at i:29788824 original size:23 final size:21
Alignment explanation
Indices: 29788772--29788829 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
29788762 GGGTTTGTAA
* *
29788772 ATTGGGCTCAGGTAGTTTTAGG
1 ATTGGGCT-AGGTTGGTTTAGG
29788794 ATTGGGCTAGGTTGGTTTAGGG
1 ATTGGGCTAGGTTGGTTTA-GG
29788816 TATTGGGCTAGGTT
1 -ATTGGGCTAGGTT
29788830 AGTTGGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 9 0.28
22 10 0.31
23 13 0.41
ACGTcount: A:0.16, C:0.07, G:0.40, T:0.38
Consensus pattern (21 bp):
ATTGGGCTAGGTTGGTTTAGG
Found at i:29789672 original size:145 final size:145
Alignment explanation
Indices: 29789378--29790210 Score: 1255
Period size: 145 Copynumber: 5.8 Consensus size: 145
29789368 TGGCATGTGA
* * * * * *
29789378 TCTTGA-GCCCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAACAAAAACT-AAAGATA
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT-TTTGAAAAGCAGAAATTGAAA-ATA
* * * *
29789440 CCTCAACATGTGAAC-TGAGGCTCAACTCACTTT-TCGTAATATGAGTTGATTGTTTTGACAACA
64 CCTCAAC--GTG-TCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACA
*
29789503 GAAATTGAAATTACCTCAGCGTG
123 GAAATTGAAATTACCTCAACGTG
*** *
29789526 TCCAAAGGCTCAACTCATGTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
* *
29789591 TCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGGGTTGAATTTTGAAAACAGAAATTGA
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
*
29789656 AATTACCTCAATGTG
131 AATTACCTCAACGTG
*
29789671 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
* *
29789736 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTAA
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
29789801 AATTACCTCAACGTG
131 AATTACCTCAACGTG
29789816 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
29789881 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGA
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
29789945 AATTACCTCAACGTG
131 AATTACCTCAACGTG
* *
29789960 TC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAA-CAGAAATTGAAATTACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
29790023 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGA
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
*
29790087 AAATACCTCAACGTG
131 AATTACCTCAACGTG
*
29790102 TCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTG-ATTTTGAAAA--A-AAATTG-AAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
*
29790162 TCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTT
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
29790211 CTTGGAAAGC
Statistics
Matches: 640, Mismatches: 38, Indels: 24
0.91 0.05 0.03
Matches are distributed among these distances:
138 23 0.04
139 31 0.05
140 6 0.01
141 1 0.00
142 92 0.14
143 87 0.14
144 35 0.05
145 274 0.43
146 4 0.01
147 31 0.05
148 6 0.01
149 47 0.07
150 3 0.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (145 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
AATTACCTCAACGTG
Found at i:29789686 original size:72 final size:72
Alignment explanation
Indices: 29789378--29790210 Score: 1224
Period size: 72 Copynumber: 11.6 Consensus size: 72
29789368 TGGCATGTGA
* * * * * *
29789378 TCTTGA-GCCCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAACAAAAACT-AAAGATAC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT-TTTGAAAACAGAAATTGAAA-ATAC
29789441 CTCAACATGTG
64 CTCAAC--GTG
* * * * *
29789452 AAC-TGAGGCTCAACTCACTTT-TCGTAATATGAGTTGATTGTTTTGACAACAGAAATTGAAATT
1 -TCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAAT
*
29789515 ACCTCAGCGTG
62 ACCTCAACGTG
*** *
29789526 TCCAAAGGCTCAACTCATGTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACC
*
29789591 TCAATGTG
65 TCAACGTG
* *
29789599 TCTTGAGGCTCAACTCATTTCTCGCAATATGGGTTGAATTTTGAAAACAGAAATTGAAATTACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
*
29789664 CAATGTG
66 CAACGTG
*
29789671 TCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACC
29789736 TCAACGTG
65 TCAACGTG
*
29789744 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATT-AAAATTACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAA-TACC
29789808 TCAACGTG
65 TCAACGTG
29789816 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACC
29789881 TCAACGTG
65 TCAACGTG
*
29789889 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAATTACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
29789953 CAACGTG
66 CAACGTG
* *
29789960 TC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGAAATTACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
29790024 CAACGTG
66 CAACGTG
29790031 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAAATACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
29790095 CAACGTG
66 CAACGTG
*
29790102 TCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTG-ATTTTGAAAA-A-AAATTG-AAATACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
29790163 CAACGTG
66 CAACGTG
*
29790170 TCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
29790211 CTTGGAAAGC
Statistics
Matches: 703, Mismatches: 40, Indels: 37
0.90 0.05 0.05
Matches are distributed among these distances:
67 18 0.03
68 36 0.05
69 7 0.01
70 43 0.06
71 122 0.17
72 198 0.28
73 191 0.27
74 37 0.05
75 24 0.03
76 23 0.03
77 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
CAACGTG
Found at i:29802127 original size:15 final size:15
Alignment explanation
Indices: 29802109--29802141 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
29802099 TATATCATTA
29802109 TTAATTATATTT-AAT
1 TTAATTAT-TTTAAAT
29802124 TTAATTATTTTAAAT
1 TTAATTATTTTAAAT
29802139 TTA
1 TTA
29802142 TATAAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTAATTATTTTAAAT
Found at i:29802189 original size:86 final size:85
Alignment explanation
Indices: 29802056--29802249 Score: 218
Period size: 86 Copynumber: 2.3 Consensus size: 85
29802046 TGATTTTAGG
*
29802056 TAAATTCATTATAAAACATTTATTATTAAGAATTATATGAAATTATATCATTATTAATTAT-ATT
1 TAAATTCA-TATAAAA-ATTTATTATCAAGAATTATATGAAATTATATCATTA-TAATTATAATT
**
29802120 TAATTTAATTATTTT-AAATTTATA
63 TAATAAAATTATTTTCAAA-TTA-A
* * * *
29802144 TAAATTCATATAAAAATTTATTATCAAGATTTTTA-GAATTATATATTATTATAATTATAATTTA
1 TAAATTCATATAAAAATTTATTATCAAGAATTATATGAAAT-TATATCATTATAATTATAATTTA
29802208 ATAAAATTATTTTCAAATTAA
65 ATAAAATTATTTTCAAATTAA
* *
29802229 CAAA-T-ATATAAGAATTTATTA
1 TAAATTCATATAAAAATTTATTA
29802250 GTTATAATTA
Statistics
Matches: 94, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
83 15 0.16
84 1 0.01
85 15 0.16
86 45 0.48
87 10 0.11
88 8 0.09
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (85 bp):
TAAATTCATATAAAAATTTATTATCAAGAATTATATGAAATTATATCATTATAATTATAATTTAA
TAAAATTATTTTCAAATTAA
Found at i:29815024 original size:3 final size:3
Alignment explanation
Indices: 29815016--29815079 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
29815006 ATGTGTTCAA
*
29815016 AAT AAT AAT AAT AAT AAT AAT AAT AAT -GT AGAT AGAT ACAT AA- AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT A-AT AAT AAT
*
29815061 AAT GAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
29815080 ACTAAGGAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 7 0.13
3 37 0.70
4 9 0.17
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:29816332 original size:21 final size:23
Alignment explanation
Indices: 29816297--29816354 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
29816287 GGGTTTGTAA
*
29816297 ATTGGGCTCAGGTTGTTTTA-GG-
1 ATTGGGCT-AGGTTGGTTTAGGGT
29816319 ATTGGGCTAGGTTGGTTTAGGGT
1 ATTGGGCTAGGTTGGTTTAGGGT
29816342 ATTGGGCTAGGTT
1 ATTGGGCTAGGTT
29816355 AGTTGGGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 10 0.30
22 10 0.30
23 13 0.39
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.40
Consensus pattern (23 bp):
ATTGGGCTAGGTTGGTTTAGGGT
Found at i:29818388 original size:37 final size:37
Alignment explanation
Indices: 29818338--29818490 Score: 243
Period size: 37 Copynumber: 4.1 Consensus size: 37
29818328 TTATTACGAA
* * * * *
29818338 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
29818375 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
* *
29818412 GTCTTACCCGGATAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
29818449 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
29818486 GTCTT
1 GTCTT
29818491 TAGAGCTCGG
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
Found at i:29818927 original size:47 final size:47
Alignment explanation
Indices: 29818609--29818906 Score: 488
Period size: 47 Copynumber: 6.3 Consensus size: 47
29818599 CCCTTCGGCA
* * * * * *
29818609 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29818656 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29818703 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29818750 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29818797 CTTATCACATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29818844 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29818893 CTTATCTCATATAT
1 CTTATCACATATAT
29818907 GCATGTTCAT
Statistics
Matches: 236, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 191 0.81
49 45 0.19
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29822832 original size:57 final size:58
Alignment explanation
Indices: 29822757--29822874 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 58
29822747 CATTTTCAAA
* * *
29822757 TCATTTTCATTTTCGAGAAAACCACATTCATTTTCAAATGATT-CTATTTCTCTATTT
1 TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
* * * * *
29822814 TCATTTTTATTTTGGAGAAAACCATAATAATTTTCAAGTGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
29822872 TCA
1 TCA
29822875 CCATCTCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 36 0.69
58 16 0.31
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (58 bp):
TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
Found at i:29824993 original size:9 final size:9
Alignment explanation
Indices: 29824979--29825009 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
29824969 GTTAAACGAA
29824979 TCGAGTTAT
1 TCGAGTTAT
*
29824988 TCGAGTTAA
1 TCGAGTTAT
29824997 TCGAGTTAT
1 TCGAGTTAT
29825006 TCGA
1 TCGA
29825010 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:29825079 original size:9 final size:9
Alignment explanation
Indices: 29825062--29825098 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
29825052 TGAGTTTTCG
29825062 AATTCGAAT
1 AATTCGAAT
*
29825071 AACTCGAAT
1 AATTCGAAT
29825080 AATTCGAAT
1 AATTCGAAT
29825089 AATTCGAAT
1 AATTCGAAT
29825098 A
1 A
29825099 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:29827471 original size:42 final size:42
Alignment explanation
Indices: 29827408--29827518 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
29827398 CAGGTTTATA
* * *
29827408 CTTCGATTTATCCGATTATGCACTTACATGACAATATATTTG
1 CTTCGGTTTATCTGATAATGCACTTACATGACAATATATTTG
* * * *
29827450 CTTCGGTTTATCTGATGATGCACTTACGTGCCAGTATATTTG
1 CTTCGGTTTATCTGATAATGCACTTACATGACAATATATTTG
* ** *
29827492 TTTCGGTACATCTGATAAGGCACTTAC
1 CTTCGGTTTATCTGATAATGCACTTAC
29827519 GTGCCGGTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (42 bp):
CTTCGGTTTATCTGATAATGCACTTACATGACAATATATTTG
Found at i:29827519 original size:42 final size:42
Alignment explanation
Indices: 29827427--29827536 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
29827417 ATCCGATTAT
* * * ** * *
29827427 GCACTTACATGACAATATATTTGCTTCGGTTTATCTGATGAT
1 GCACTTACGTGCCAGTATATTTGCTTCGGTACATCTGATAAG
*
29827469 GCACTTACGTGCCAGTATATTTGTTTCGGTACATCTGATAAG
1 GCACTTACGTGCCAGTATATTTGCTTCGGTACATCTGATAAG
*
29827511 GCACTTACGTGCCGGTATGA-TTGCTT
1 GCACTTACGTGCCAGTAT-ATTTGCTT
29827537 AAGTTTATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (42 bp):
GCACTTACGTGCCAGTATATTTGCTTCGGTACATCTGATAAG
Found at i:29836666 original size:19 final size:19
Alignment explanation
Indices: 29836642--29836679 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
29836632 CACACATAGT
*
29836642 CTGTTTTGAAAGTATAAAC
1 CTGTTTTAAAAGTATAAAC
29836661 CTGTTTTAAAAGTATAAAC
1 CTGTTTTAAAAGTATAAAC
29836680 TATCGTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (19 bp):
CTGTTTTAAAAGTATAAAC
Found at i:29843884 original size:25 final size:25
Alignment explanation
Indices: 29843815--29844000 Score: 111
Period size: 25 Copynumber: 7.6 Consensus size: 25
29843805 TGGCTCTCCG
* * *
29843815 GAGCTTCCCG-TTATATGGTTCTTAC
1 GAGCTTCCCGATAAT-TGGATCTTAT
* *
29843840 GAGCTT-CCTATTA-TGGATCTTAT
1 GAGCTTCCCGATAATTGGATCTTAT
*
29843863 GAGCTTTCCGATAATTGGATCTT-T
1 GAGCTTCCCGATAATTGGATCTTAT
* * * *
29843887 GGTGTTTCCCGATAACTGGCTCTTAT
1 -GAGCTTCCCGATAATTGGATCTTAT
* * *
29843913 GAGCTTCTCGATTAA-TAGCTCTCTA-
1 GAGCTTCCCGA-TAATTGGATCT-TAT
29843938 GAGCTTCCCGAT-ATTGGATCGTT-T
1 GAGCTTCCCGATAATTGGATC-TTAT
* * *
29843962 GAACTTCCCGAT-ATTGGCTCGTAT
1 GAGCTTCCCGATAATTGGATCTTAT
*
29843986 GAGCTTCCCGTTAAT
1 GAGCTTCCCGATAAT
29844001 GGCTATCCGG
Statistics
Matches: 127, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
23 16 0.13
24 43 0.34
25 62 0.49
26 6 0.05
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCGATAATTGGATCTTAT
Found at i:29843969 original size:24 final size:24
Alignment explanation
Indices: 29843941--29843995 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
29843931 CTCTCTAGAG
*
29843941 CTTCCCGATATTGGATCGTTTGAA
1 CTTCCCGATATTGGATCGTATGAA
* *
29843965 CTTCCCGATATTGGCTCGTATGAG
1 CTTCCCGATATTGGATCGTATGAA
29843989 CTTCCCG
1 CTTCCCG
29843996 TTAATGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.35
Consensus pattern (24 bp):
CTTCCCGATATTGGATCGTATGAA
Found at i:29844003 original size:24 final size:24
Alignment explanation
Indices: 29843787--29844004 Score: 102
Period size: 25 Copynumber: 8.9 Consensus size: 24
29843777 CCGTAGCTTT
*
29843787 TATGAGCGTCCCGATATATGGCTC-
1 TATGAGCTTCCCGATA-ATGGCTCG
** * * *
29843811 TCCGGAGCTTCCCGTTATATGGTTCT
1 T-ATGAGCTTCCCGATA-ATGGCTCG
* * * * *
29843837 TACGAGCTT-CCTATTATGGATCT
1 TATGAGCTTCCCGATAATGGCTCG
* *
29843860 TATGAGCTTTCCGATAATTGGATC-
1 TATGAGCTTCCCGATAA-TGGCTCG
* * * *
29843884 TTTGGTGTTTCCCGATAACTGGCTCT
1 TAT-GAGCTTCCCGATAA-TGGCTCG
* *
29843910 TATGAGCTTCTCGATTAATAGCTC-
1 TATGAGCTTCCCGA-TAATGGCTCG
* * *
29843934 TCTAGAGCTTCCCGATATTGGATCG
1 TAT-GAGCTTCCCGATAATGGCTCG
* * *
29843959 TTTGAACTTCCCGATATTGGCTCG
1 TATGAGCTTCCCGATAATGGCTCG
*
29843983 TATGAGCTTCCCGTTAATGGCT
1 TATGAGCTTCCCGATAATGGCT
29844005 ATCCGGAGCT
Statistics
Matches: 148, Mismatches: 37, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
23 15 0.10
24 56 0.38
25 71 0.48
26 6 0.04
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (24 bp):
TATGAGCTTCCCGATAATGGCTCG
Found at i:29844064 original size:25 final size:25
Alignment explanation
Indices: 29844010--29844077 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
29844000 TGGCTATCCG
*
29844010 GAGCTTCCTGTTACATGGATCACAT
1 GAGCTTCCTGTTACATGGATCAAAT
* *
29844035 GAGCTTCCTGTTATATGGCTCGAAAT
1 GAGCTTCCTGTTACATGGATC-AAAT
*
29844061 -AGCTTCTTGTTTACATG
1 GAGCTTCCTG-TTACATG
29844078 TTTTCAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 27 0.75
26 9 0.25
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (25 bp):
GAGCTTCCTGTTACATGGATCAAAT
Found at i:29852762 original size:70 final size:70
Alignment explanation
Indices: 29852649--29852787 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 70
29852639 CTTTCCCCTA
29852649 ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
1 ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
29852714 AGTCG
66 AGTCG
** * *
29852719 ATTCAAGTTTGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAGCTTAATTAAGTATTCCAAAT
1 ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
29852784 AGTC
66 AGTC
29852788 AAAAATCATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (70 bp):
ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
AGTCG
Found at i:29857275 original size:3 final size:3
Alignment explanation
Indices: 29857269--29857321 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
29857259 ATTAACCTAA
29857269 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
29857317 AAG AA
1 AAG AA
29857322 AAGTTGGAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:29859919 original size:2 final size:2
Alignment explanation
Indices: 29859912--29859944 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
29859902 GTCATAATAT
*
29859912 AC AC AC AC AC AC AC AC AC AC AC AC AA AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
29859945 TTATATGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:29866454 original size:25 final size:24
Alignment explanation
Indices: 29866425--29866515 Score: 74
Period size: 25 Copynumber: 3.7 Consensus size: 24
29866415 GCTGTAAACG
*
29866425 GTAAGCTCCTCCGAGCTAAATAACA
1 GTAAGCTCATCCGAGCTAAATAA-A
** *
29866450 GTAAGCTCATTTGAGCTAAATAAG
1 GTAAGCTCATCCGAGCTAAATAAA
* * * * *
29866474 GTAAGCTCATACGAGTTGAGTAATG
1 GTAAGCTCATCCGAGCTAAATAA-A
*
29866499 GTAAGCTCATACGAGCT
1 GTAAGCTCATCCGAGCT
29866516 GAGTATCGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 18 0.33
25 37 0.67
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (24 bp):
GTAAGCTCATCCGAGCTAAATAAA
Found at i:29866482 original size:24 final size:25
Alignment explanation
Indices: 29866437--29866483 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
29866427 AAGCTCCTCC
29866437 GAGCTAAATAACAGTAAGCTCATTT
1 GAGCTAAATAACAGTAAGCTCATTT
*
29866462 GAGCTAAATAA-GGTAAGCTCAT
1 GAGCTAAATAACAGTAAGCTCAT
29866484 ACGAGTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (25 bp):
GAGCTAAATAACAGTAAGCTCATTT
Found at i:29866518 original size:25 final size:25
Alignment explanation
Indices: 29866450--29866534 Score: 102
Period size: 25 Copynumber: 3.4 Consensus size: 25
29866440 CTAAATAACA
** * *
29866450 GTAAGCTCATTTGAGCTAAATAA-G
1 GTAAGCTCATACGAGCTGAGTAATG
*
29866474 GTAAGCTCATACGAGTTGAGTAATG
1 GTAAGCTCATACGAGCTGAGTAATG
29866499 GTAAGCTCATACGAGCTGAGT-ATCG
1 GTAAGCTCATACGAGCTGAGTAAT-G
29866524 GTAAGCTCATA
1 GTAAGCTCATA
29866535 ATAGTTGAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
24 20 0.38
25 33 0.62
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAGTAATG
Found at i:29866693 original size:19 final size:22
Alignment explanation
Indices: 29866660--29866710 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
29866650 TGATGATTAC
*
29866660 ACAATTCACAAACATA-TAAT-T
1 ACAATTTA-AAACATATTAATGT
29866681 -CAATTTAAAACATATTAATGT
1 ACAATTTAAAACATATTAATGT
29866702 ACAATTTAA
1 ACAATTTAA
29866711 TTACATGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 1 0.04
22 8 0.31
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (22 bp):
ACAATTTAAAACATATTAATGT
Found at i:29866709 original size:22 final size:20
Alignment explanation
Indices: 29866669--29866710 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
29866659 CACAATTCAC
29866669 AAACATATAATT-CAATTTA
1 AAACATATAATTACAATTTA
29866688 AAACATATTAATGTACAATTTA
1 AAACATA-TAAT-TACAATTTA
29866710 A
1 A
29866711 TTACATGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 1 0.05
22 8 0.40
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (20 bp):
AAACATATAATTACAATTTA
Found at i:29868979 original size:27 final size:27
Alignment explanation
Indices: 29868939--29869392 Score: 462
Period size: 27 Copynumber: 16.9 Consensus size: 27
29868929 ATCTGCACCA
29868939 AAATA-CCCTCATAGGGTAAAATGACCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
**
29868966 AAATACCCCTATAGGACAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
29868993 AAATA-CCCTCATAGGGTAATATAACCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
* *
29869020 AAATA-CCCTATAGGTTAAAATGACTG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
29869046 AATTA-CCCTCATAGGGTAAAATGATCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
* * *
29869073 AATTACCCCCATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * * *
29869100 AATTACCCCCATAAGGTAAAATGATC-
1 AAATACCCCTATAGGGTAAAATGACCG
*
29869126 AAATTACCCCTATAGGGTAAAATGATCG
1 AAA-TACCCCTATAGGGTAAAATGACCG
* ***
29869154 AAATACCCCCATAAAATAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
29869181 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
29869208 AAATA-CCCTCATAGGGTAAAATGACC-
1 AAATACCCCT-ATAGGGTAAAATGACCG
29869234 AAATTA-CCCTCATAGGGT-AAATGACCG
1 AAA-TACCCCT-ATAGGGTAAAATGACCG
* *
29869261 AATTACCCTTATAGGGT-AAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * *
29869287 AATTACCCCCATAAGGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * * * *
29869314 AATTACCCCCATAAGGTGAAATAACCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
29869341 AAATACCCCTATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
29869368 AAATACCTCC-ATAGGGTAAAATGAC
1 AAATACC-CCTATAGGGTAAAATGAC
29869393 TGTTAAACCC
Statistics
Matches: 371, Mismatches: 44, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
26 73 0.20
27 286 0.77
28 12 0.03
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACCG
Found at i:29869147 original size:81 final size:81
Alignment explanation
Indices: 29868939--29869392 Score: 510
Period size: 81 Copynumber: 5.6 Consensus size: 81
29868929 ATCTGCACCA
* * ** * *
29868939 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGACAAAATGACCGAAATACCCTCA
1 AAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGACCGAATTACCCCCA
* *
29869004 TAGGGTAATATAACCG
66 TAGGGTAAAATGACCG
* * * *
29869020 AAATA-CCCTATAGGTTAAAATGA-CTGAATTA-CCCTCATAGGGTAAAATGATCGAATTACCCC
1 AAATACCCCCATAGGGTAAAATGATC-GAAATACCCCT-ATAGGGTAAAATGACCGAATTACCCC
*
29869082 CATAGGGTAAAATGATCG
64 CATAGGGTAAAATGACCG
* * * *
29869100 AATTACCCCCATAAGGTAAAATGATC-AAATTACCCCTATAGGGTAAAATGATCGAAATACCCCC
1 AAATACCCCCATAGGGTAAAATGATCGAAA-TACCCCTATAGGGTAAAATGACCGAATTACCCCC
***
29869164 ATAAAATAAAATGACCG
65 ATAGGGTAAAATGACCG
* *
29869181 AAATACCCCCATAGGGTAAAATGATCGAAATA-CCCTCATAGGGTAAAATGACCAAATTACCCTC
1 AAATACCCCCATAGGGTAAAATGATCGAAATACCCCT-ATAGGGTAAAATGACCGAATTACCCCC
29869245 ATAGGGT-AAATGACCG
65 ATAGGGTAAAATGACCG
* ** * * * *
29869261 AATTACCCTTATAGGGT-AAATGACCGAATTACCCCCATAAGGTAAAATGACCGAATTACCCCCA
1 AAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGACCGAATTACCCCCA
* * *
29869325 TAAGGTGAAATAACCG
66 TAGGGTAAAATGACCG
*
29869341 AAATACCCCTATAGGGTAAAATGATCGAAATACCTCC-ATAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGATCGAAATACC-CCTATAGGGTAAAATGAC
29869393 TGTTAAACCC
Statistics
Matches: 314, Mismatches: 47, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
79 47 0.15
80 115 0.37
81 142 0.45
82 10 0.03
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (81 bp):
AAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGACCGAATTACCCCCA
TAGGGTAAAATGACCG
Found at i:29869405 original size:54 final size:54
Alignment explanation
Indices: 29868939--29869392 Score: 528
Period size: 54 Copynumber: 8.5 Consensus size: 54
29868929 ATCTGCACCA
** *
29868939 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGACAAAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCG
* * *
29868993 AAATACCCTCATAGGGTAATATAACCGAAATA-CCCTATAGGTTAAAATGA-CTG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATC-G
* * * *
29869046 AATTACCCTCATAGGGTAAAATGATCGAATTACCCCCATAGGGTAAAATGATCG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCG
* * * *
29869100 AATTACCCCCATAAGGTAAAATGATC-AAATTACCCCTATAGGGTAAAATGATCG
1 AAATACCCTCATAGGGTAAAATGACCGAAA-TACCCCTATAGGGTAAAATGATCG
* *** *
29869154 AAATACCCCCATAAAATAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCG
*
29869208 AAATACCCTCATAGGGTAAAATGACC-AAATTA-CCCTCATAGGGT-AAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCGAAA-TACCCCT-ATAGGGTAAAATGATCG
* * * * * *
29869261 AATTACCCTTATAGGGT-AAATGACCGAATTACCCCCATAAGGTAAAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCG
* * * * *
29869314 AATTACCCCCATAAGGTGAAATAACCGAAATACCCCTATAGGGTAAAATGATCG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCG
29869368 AAATA-CCTCCATAGGGTAAAATGAC
1 AAATACCCT-CATAGGGTAAAATGAC
29869393 TGTTAAACCC
Statistics
Matches: 344, Mismatches: 44, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
52 17 0.05
53 105 0.31
54 218 0.63
55 4 0.01
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (54 bp):
AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCG
Found at i:29869797 original size:28 final size:28
Alignment explanation
Indices: 29869757--29869845 Score: 153
Period size: 28 Copynumber: 3.2 Consensus size: 28
29869747 ACTATACCGA
29869757 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
29869785 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
29869813 TACTGTATTGGGCTAAGGTCCACACTG-
1 TACTGTATTGGGCTAAGGCCCACATTGT
29869840 TACTGT
1 TACTGT
29869846 TACTGAATAG
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 6 0.10
28 53 0.90
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:29869859 original size:33 final size:33
Alignment explanation
Indices: 29869782--29869873 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 33
29869772 AGGCCCACAT
* *
29869782 TGTTACTGTATTGGGCTAAGGCCCACA---T--
1 TGTTACTGAATAGGGCTAAGGCCCACACTGTAC
* * *
29869810 TGTTACTGTATTGGGCTAAGGTCCACACTGTAC
1 TGTTACTGAATAGGGCTAAGGCCCACACTGTAC
* *
29869843 TGTTACTGAATAGGGCTCAGGCCCAGACTGT
1 TGTTACTGAATAGGGCTAAGGCCCACACTGT
29869874 CACTACTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 26 0.49
31 1 0.02
33 26 0.49
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (33 bp):
TGTTACTGAATAGGGCTAAGGCCCACACTGTAC
Found at i:29874563 original size:24 final size:24
Alignment explanation
Indices: 29874552--29874601 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
29874542 ATTTTGTCCC
29874552 TATCTCAATATTCAATTTCAACCA
1 TATCTCAATATTCAATTTCAACCA
29874576 TATCTCAATATTCAATTTCAACCA
1 TATCTCAATATTCAATTTCAACCA
29874600 TA
1 TA
29874602 CTATTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (24 bp):
TATCTCAATATTCAATTTCAACCA
Found at i:29876384 original size:23 final size:23
Alignment explanation
Indices: 29876353--29876396 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
29876343 TATGTAAATG
*
29876353 TGGAATGGTTAGATTATATGACA
1 TGGAATGGTTAGATTAAATGACA
* *
29876376 TGGATTGGTTAGTTTAAATGA
1 TGGAATGGTTAGATTAAATGA
29876397 TTAGATACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (23 bp):
TGGAATGGTTAGATTAAATGACA
Found at i:29885059 original size:45 final size:45
Alignment explanation
Indices: 29884971--29885086 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 45
29884961 CTACGCGTAC
*
29884971 CGGGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTATTTCCAT
1 CGGGTACCATTGATTATAAAGGTGGTTGTTATGTGCTATTTCCAT
* * *
29885016 CGGGTACTATTGATTATGAAGGTGGTT-TCTATGTGCTGA-TTCCAC
1 CGGGTACCATTGATTATAAAGGTGGTTGT-TATGTGCT-ATTTCCAT
* * * *
29885061 CGAGTATCATTGACTATAAGGGTGGT
1 CGGGTACCATTGATTATAAAGGTGGT
29885087 GCTATGTTCT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.02
45 57 0.97
46 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.37
Consensus pattern (45 bp):
CGGGTACCATTGATTATAAAGGTGGTTGTTATGTGCTATTTCCAT
Found at i:29887464 original size:21 final size:21
Alignment explanation
Indices: 29887440--29887481 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29887430 TTTATCAAGA
29887440 TAAATATTA-TAAATTTAATAC
1 TAAATATTATTAAA-TTAATAC
*
29887461 TAAATCTTATTAAATTAATAC
1 TAAATATTATTAAATTAATAC
29887482 AATATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATATTATTAAATTAATAC
Found at i:29888575 original size:50 final size:47
Alignment explanation
Indices: 29888516--29888736 Score: 239
Period size: 50 Copynumber: 4.6 Consensus size: 47
29888506 GGCAGTGAGT
*
29888516 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATTGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA--GAGGA
* *
29888566 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGACAGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-G--AGAGGA
* * * * *
29888616 GAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCGAGATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGAGGA
* *
29888663 GTGCCAGTGTAAGACCTTGTCTGGGACATGGCATCGGCACCGATATGTGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAGA-G-GA
* *
29888713 -TCCCA-TGTAAGACCATATCTGGGA
1 GTGCCAGTGTAAGACCATGTCTGGGA
29888737 TATGACATTG
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
47 39 0.27
48 21 0.14
49 5 0.03
50 79 0.54
52 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (47 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGAGGA
Found at i:29888696 original size:97 final size:99
Alignment explanation
Indices: 29888520--29888702 Score: 280
Period size: 97 Copynumber: 1.9 Consensus size: 99
29888510 GTGAGTGTGC
* *
29888520 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATTGAGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGA-TGAGGAGTGCCAGTGTAAGACCATG
*
29888585 TCTGGGACATGGCATTGGCACGGACAGAGGAGAGT
65 TCTGGGACATGGCATCGGCACGGACAGAGGAGAGT
* * * *
29888620 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTC-GA-GATGAGTGCCAGTGTAAGACCTTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGATGAGGAGTGCCAGTGTAAGACCATGT
29888683 CTGGGACATGGCATCGGCAC
66 CTGGGACATGGCATCGGCAC
29888703 CGATATGTGA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
97 41 0.54
99 2 0.03
100 33 0.43
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (99 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGATGAGGAGTGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCACGGACAGAGGAGAGT
Found at i:29894254 original size:19 final size:19
Alignment explanation
Indices: 29894230--29894267 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29894220 TTCAACAAAA
29894230 CTAAATCACAAAATAATTG
1 CTAAATCACAAAATAATTG
29894249 CTAAATCACAAAATAATTG
1 CTAAATCACAAAATAATTG
29894268 TAACTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (19 bp):
CTAAATCACAAAATAATTG
Found at i:29900254 original size:37 final size:37
Alignment explanation
Indices: 29900202--29900282 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
29900192 CCCTGTCTAG
* *
29900202 CCCTACACTCTTGTGGGGATTAAATCGATCCACCCAT
1 CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
*
29900239 CCCTACACTCCTGTGGGGATTAGATCGACCCACCCAT
1 CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
*
29900276 ACCTACA
1 CCCTACA
29900283 TGCGGCACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.36, G:0.16, T:0.23
Consensus pattern (37 bp):
CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
Found at i:29900499 original size:26 final size:27
Alignment explanation
Indices: 29900464--29900516 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
29900454 ACCATAGCAC
29900464 AAATCAGTCATTTACCCTCGAGGGGCA
1 AAATCAGTCATTTACCCTCGAGGGGCA
*
29900491 AAAT-AGTCATTTACCCTCTAGGGGCA
1 AAATCAGTCATTTACCCTCGAGGGGCA
29900517 TTACGGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCGAGGGGCA
Found at i:29902583 original size:24 final size:23
Alignment explanation
Indices: 29902537--29902585 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
29902527 AATAAAAAGG
**
29902537 ATATTTATACTAACAAATGCTAA
1 ATATTTATACTAACAAAAACTAA
*
29902560 ATATATTATACTAATAAAAACTAA
1 ATAT-TTATACTAACAAAAACTAA
29902584 AT
1 AT
29902586 CTTCTAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATTTATACTAACAAAAACTAA
Found at i:29907198 original size:22 final size:22
Alignment explanation
Indices: 29907173--29907221 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
29907163 TTTCATGGTA
*
29907173 TTATTCAATTAGGCGATGGATT
1 TTATTCAATTAGGCAATGGATT
29907195 TTATTCAATTAGGCAATGGATT
1 TTATTCAATTAGGCAATGGATT
29907217 TTATT
1 TTATT
29907222 GTTGATTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (22 bp):
TTATTCAATTAGGCAATGGATT
Found at i:29918823 original size:17 final size:17
Alignment explanation
Indices: 29918801--29918833 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29918791 GTTAGTGCAC
*
29918801 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
29918818 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
29918834 AATGTTAGTG
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:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:29931434 original size:24 final size:25
Alignment explanation
Indices: 29931404--29931460 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
29931394 TTTTATTTGC
29931404 TTTTCTTTTTA-TG-TCTATTTTTA
1 TTTTCTTTTTAGTGTTCTATTTTTA
*
29931427 TTATTCTTTTTAGTTGTTTTATTTTTA
1 TT-TTCTTTTTAG-TGTTCTATTTTTA
29931454 TTTTCTT
1 TTTTCTT
29931461 AGACTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 9 0.31
26 7 0.24
27 11 0.38
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTTCTTTTTAGTGTTCTATTTTTA
Found at i:29933861 original size:42 final size:43
Alignment explanation
Indices: 29933747--29933866 Score: 109
Period size: 42 Copynumber: 2.8 Consensus size: 43
29933737 AGCTTGTACA
* * * * *
29933747 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATC-ACATATCG
1 ATGCCAATGTCCTAGACATGGTCTTACACG-AAACAAAATATCG
* * * **
29933790 ATGCCACTGTCCCAGACAAGGTCCAACACGAAACAAAATAT-G
1 ATGCCAATGTCCTAGACATGGTCTTACACGAAACAAAATATCG
* *
29933832 ATGCCAATGTCTTAGACATGGTCTTACACGTAACA
1 ATGCCAATGTCCTAGACATGGTCTTACACGAAACA
29933867 CAAGTCAAGG
Statistics
Matches: 59, Mismatches: 17, Indels: 3
0.75 0.22 0.04
Matches are distributed among these distances:
42 32 0.54
43 27 0.46
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGAAACAAAATATCG
Found at i:29935649 original size:15 final size:17
Alignment explanation
Indices: 29935627--29935665 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
29935617 TGTTCTAGAT
29935627 TAGAAAAGA-AAAA-AA
1 TAGAAAAGATAAAAGAA
*
29935642 TTGAAAAGATAAAAGAA
1 TAGAAAAGATAAAAGAA
29935659 TAGAAAA
1 TAGAAAA
29935666 AAATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (17 bp):
TAGAAAAGATAAAAGAA
Found at i:29939031 original size:7 final size:7
Alignment explanation
Indices: 29938998--29939040 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
29938988 GCCTGTACCA
29938998 TAAACCC
1 TAAACCC
*
29939005 TAAAACC
1 TAAACCC
*
29939012 TAAAACAC
1 T-AAACCC
29939020 TAAACCC
1 TAAACCC
29939027 TAAACCC
1 TAAACCC
*
29939034 CAAACCC
1 TAAACCC
29939041 CCTTTGTGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
TAAACCC
Found at i:29949662 original size:22 final size:23
Alignment explanation
Indices: 29949626--29949680 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
29949616 AAAAATATAA
29949626 ATAT-AAAT-AAATAAATA-TGT
1 ATATAAAATAAAATAAATATTGT
29949646 ATATAAAATAAAATAAATATTTGT
1 ATATAAAATAAAATAAATA-TTGT
*
29949670 ATTTAAAATAA
1 ATATAAAATAA
29949681 CATATACGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 4 0.13
21 4 0.13
22 9 0.30
24 13 0.43
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAAAATAAAATAAATATTGT
Found at i:29955918 original size:50 final size:50
Alignment explanation
Indices: 29955803--29955992 Score: 227
Period size: 50 Copynumber: 3.8 Consensus size: 50
29955793 GATAATAACA
* * ** **
29955803 TGCCAAAGGCATGTCCCAGACATGGTCTTACATGGGATTTTCTCAAATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* ** *
29955854 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
29955904 TGCCAATGCTATGTCCCAAACATAGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
29955954 TGCCAACACCATGTCCTAGACATGGTCTTACATGGGACC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACC
29955993 ACTTTACCCA
Statistics
Matches: 116, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 84 0.72
51 32 0.28
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:29959217 original size:40 final size:40
Alignment explanation
Indices: 29959162--29959393 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
29959152 ATTTGAATGA
*
29959162 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
29959202 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
29959242 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
29959282 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * *
29959323 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
29959363 G-CCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCT
29959394 TGTGGTAATA
Statistics
Matches: 180, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 175 0.97
41 5 0.03
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:29959405 original size:80 final size:80
Alignment explanation
Indices: 29959163--29959421 Score: 319
Period size: 80 Copynumber: 3.2 Consensus size: 80
29959153 TTTGAATGAG
*
29959163 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATT
* *
29959228 TGTGCTAGTGAT-TT
66 TGTGCTAGTGGTAAT
29959242 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCAT
1 -ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCAT
* *
29959307 TTGTGCGAGTTG-ATAT
65 TTGTGCTAGTGGTA-AT
* * * * * * * *
29959323 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATG-CCCGGGTTAAGACCCGAAGGCAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTTGATCCGGGCTAAGACCCGAAGGCAT
*
29959387 TTGTGCTTGTGGTAAT
65 TTGTGCTAGTGGTAAT
* *
29959403 ATCC-GGCTAAATTCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
29959422 AAACTTGGGT
Statistics
Matches: 156, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
79 12 0.08
80 137 0.88
81 7 0.04
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATT
TGTGCTAGTGGTAAT
Found at i:29967611 original size:40 final size:40
Alignment explanation
Indices: 29967556--29967786 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
29967546 ATTTGAATGA
*
29967556 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
29967596 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
29967636 GATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
29967675 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * *
29967716 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
29967756 G-CCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCT
29967787 TGTGGTAATA
Statistics
Matches: 177, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 38 0.21
40 134 0.76
41 5 0.03
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (40 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:29967670 original size:79 final size:80
Alignment explanation
Indices: 29967556--29967786 Score: 315
Period size: 79 Copynumber: 2.9 Consensus size: 80
29967546 ATTTGAATGA
*
29967556 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGTCCCGAAGGCAT
1 GATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCAT
*
29967621 TTGTGCTAG-TGATTT
65 TTGTGCTAGTTGATAT
29967636 GATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATT
1 GATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATT
*
29967701 TGTGCGAGTTGATAT
66 TGTGCTAGTTGATAT
* * * * * * *
29967716 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATG-CCCGGGTTAAGACCCGAAGGCA
1 GATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAG-TGATTTGATCCGGGCTAAGACCCGAAGGCA
*
29967779 ATTGTGCT
64 TTTGTGCT
29967787 TGTGGTAATA
Statistics
Matches: 136, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 69 0.51
80 62 0.46
81 5 0.04
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (80 bp):
GATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATT
TGTGCTAGTTGATAT
Found at i:29967805 original size:119 final size:119
Alignment explanation
Indices: 29967556--29967786 Score: 304
Period size: 119 Copynumber: 1.9 Consensus size: 119
29967546 ATTTGAATGA
* * * *
29967556 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGTCCCGAAGGCAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATATGATCCGGGCTAAGACCCGAAGGCAT
* * * * * * *
29967621 TTGTGCTAGTGATTTGATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGATTT
66 TCGTGCGAGTGATATGACCCGGGCTAAGCCCGAAGGCAATTGTGCTAGTGATAT
29967675 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT-ATCCGGGCTAAGACCCGAAGGCA
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATATGATCCGGGCTAAGACCCGAAGGCA
* *
29967739 TTCGTGCGAGTTGCTATG-CCCGGGTTAAGACCCGAAGGCAATTGTGCT
65 TTCGTGCGAG-TGATATGACCCGGGCTAAG-CCCGAAGGCAATTGTGCT
29967787 TGTGGTAATA
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
119 71 0.73
120 26 0.27
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (119 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATATGATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTGATATGACCCGGGCTAAGCCCGAAGGCAATTGTGCTAGTGATAT
Found at i:29967813 original size:119 final size:119
Alignment explanation
Indices: 29967556--29967814 Score: 294
Period size: 119 Copynumber: 2.2 Consensus size: 119
29967546 ATTTGAATGA
* * * *
29967556 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGTCCCGAAGGCAT
1 GATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTGATATGATCCGGGCTAAGACCCGAAGGCAT
* * * * * * *
29967621 TTGTGCTAGTGATTTGATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGATTT
66 TCGTGCGAGTGATATGACCCGGGCTAAGCCCGAAGGCAATTGTGCTAGTGATAT
29967675 GATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTGATAT-ATCCGGGCTAAGACCCGAAGGC
1 GATCCGGGCTAA-ATCCCGAAGGCATTTGTGCGAG-TGATATGATCCGGGCTAAGACCCGAAGGC
* * * *
29967738 ATTCGTGCGAGTTGCTATG-CCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTAAT
64 ATTCGTGCGAG-TGATATGACCCGGGCTAAG-CCCGAAGGCAATTGTGCTAGTGAT-AT
*
29967796 -ATCC-GGCTAAATTCCGAAG
1 GATCCGGGCTAAATCCCGAAG
29967815 AAACTTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
118 1 0.01
119 82 0.69
120 34 0.29
121 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (119 bp):
GATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTGATATGATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTGATATGACCCGGGCTAAGCCCGAAGGCAATTGTGCTAGTGATAT
Found at i:29972216 original size:21 final size:21
Alignment explanation
Indices: 29972175--29972216 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29972165 CTGAAAACAC
*
29972175 ATCAGATAATTCCTATGTCTG
1 ATCAGATAATTCCCATGTCTG
29972196 ATCAGATAATTCTCCAT-TCTG
1 ATCAGATAATTC-CCATGTCTG
29972217 GCACTTCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (21 bp):
ATCAGATAATTCCCATGTCTG
Found at i:29975426 original size:50 final size:50
Alignment explanation
Indices: 29975243--29975435 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
29975233 GATAATAACA
* ** *
29975243 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * ** * *
29975294 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCACTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
29975344 TGCCAACACCATGTCTCAGACATGGTCTTACATAAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
29975394 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29975436 TTACCCAAAT
Statistics
Matches: 119, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 86 0.72
51 33 0.28
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:29975805 original size:29 final size:28
Alignment explanation
Indices: 29975773--29975841 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 28
29975763 CCTCGACTCT
29975773 AACTTTAGAAAATTATGATTTTGCCCCTA
1 AACTTTAGAAAATTATGATTTTGCCCC-A
* * *
29975802 AACTTTTACATAATTATGCTTTTGCCCCA
1 AAC-TTTAGAAAATTATGATTTTGCCCCA
*
29975831 AAGTTTAGAAA
1 AACTTTAGAAA
29975842 TTAAACTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 6 0.18
29 6 0.18
30 21 0.64
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (28 bp):
AACTTTAGAAAATTATGATTTTGCCCCA
Found at i:29977086 original size:26 final size:26
Alignment explanation
Indices: 29977051--29977100 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
29977041 CCCATACACC
* *
29977051 AATATTGCAGCATAGCTGCCAGTAAT
1 AATATCGCAGCAGAGCTGCCAGTAAT
29977077 AATATCGCAGCAGAGCTGCCAGTA
1 AATATCGCAGCAGAGCTGCCAGTA
29977101 CAGTATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
AATATCGCAGCAGAGCTGCCAGTAAT
Found at i:29977331 original size:26 final size:26
Alignment explanation
Indices: 29977293--29977454 Score: 171
Period size: 26 Copynumber: 6.2 Consensus size: 26
29977283 AGGGGTATAA
* * *
29977293 CGGTCATTCTACCCTTCGGGGGTATTT
1 CGGTAATT-TACCCATCGAGGGTATTT
* *
29977320 GGGTAATTTACCCATCGAGGGTATGT
1 CGGTAATTTACCCATCGAGGGTATTT
* *
29977346 CGATAATTTACCCATCAAGGGTATTT
1 CGGTAATTTACCCATCGAGGGTATTT
*
29977372 CGGTAATTTACCCATCGAGGTTATTT
1 CGGTAATTTACCCATCGAGGGTATTT
** * *
29977398 TAGTAATTTACCCATCGACGTTATTT
1 CGGTAATTTACCCATCGAGGGTATTT
* * *
29977424 CGATAATTTAACCATCGAAGGTATTT
1 CGGTAATTTACCCATCGAGGGTATTT
*
29977450 TGGTA
1 CGGTA
29977455 CAGTTAACGA
Statistics
Matches: 112, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 106 0.95
27 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (26 bp):
CGGTAATTTACCCATCGAGGGTATTT
Found at i:29987272 original size:26 final size:26
Alignment explanation
Indices: 29987238--29987287 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
29987228 CCATTTCGAA
29987238 TATCAAATTCA-TCTCATAAATTTTCT
1 TATCAAATTCATTC-CATAAATTTTCT
*
29987264 TATCCAATTCATTCCATAAATTTT
1 TATCAAATTCATTCCATAAATTTT
29987288 AATAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (26 bp):
TATCAAATTCATTCCATAAATTTTCT
Found at i:29991151 original size:27 final size:27
Alignment explanation
Indices: 29991121--29991313 Score: 250
Period size: 27 Copynumber: 7.2 Consensus size: 27
29991111 GGAATATAAT
*
29991121 AGTCATTTTACCCTATGGTGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
29991148 AGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
29991175 -GATCATTCTACCCTAT-GGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
29991201 -GTTCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
* * * *
29991228 GGTTATTTTAACTTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
29991255 GGTCATTCTACCCTAT-GGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
29991281 GGTTATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
29991308 AGTCAT
1 AGTCAT
29991314 AATAGTGTAA
Statistics
Matches: 147, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 49 0.33
27 97 0.66
28 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTC
Found at i:29991209 original size:53 final size:53
Alignment explanation
Indices: 29991122--29991313 Score: 262
Period size: 53 Copynumber: 3.6 Consensus size: 53
29991112 GAATATAATA
*
29991122 GTCATTTTACCCTATGGTGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTC-GTCATTTTACCCTATGGGGGTATTTCG
* *
29991176 ATCATTCTACCCTAT-GGGGTATTTCGTTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG-TCATTTTACCCTATGGGGGTATTTCG
* * * *
29991229 GTTATTTTAACTTATGGGGGTATTTCGGTCATTCTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTC-GTCATTTTACCCTATGGGGGTATTTCG
*
29991282 GTTATTTTACCCTATGGGGGTATTTCAGTCAT
1 GTCATTTTACCCTATGGGGGTATTTC-GTCAT
29991314 AATAGTGTAA
Statistics
Matches: 123, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
52 1 0.01
53 85 0.69
54 36 0.29
55 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (53 bp):
GTCATTTTACCCTATGGGGGTATTTCGTCATTTTACCCTATGGGGGTATTTCG
Found at i:29991218 original size:80 final size:81
Alignment explanation
Indices: 29991123--29991313 Score: 314
Period size: 80 Copynumber: 2.4 Consensus size: 81
29991113 AATATAATAG
* *
29991123 TCATTTTACCCTATGGTGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
29991188 TATGGGGTATTTC-GT
66 TATGGGGTATTTCGGT
* * * *
29991203 TCATTTTACCCTATGGGGGTATTTCGGTTATTTTAACTTATGGGGGTATTTCGGTCATTCTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
29991268 TATGGGGTATTTCGGT
66 TATGGGGTATTTCGGT
29991284 T-ATTTTACCCTATGGGGGTATTTCAGTCAT
1 TCATTTTACCCTATGGGGGTATTTCAGTCAT
29991314 AATAGTGTAA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 99 0.97
81 3 0.03
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
TATGGGGTATTTCGGT
Found at i:29997617 original size:15 final size:15
Alignment explanation
Indices: 29997592--29997626 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
29997582 GACTCTATTT
*
29997592 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
29997606 TAATTAATATTAAGA
1 TAATTAATATTAAGA
29997621 TAATTA
1 TAATTA
29997627 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:29999245 original size:47 final size:48
Alignment explanation
Indices: 29999187--29999280 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 48
29999177 TTATTAGCTA
* *
29999187 CTGCTATTTAATTTGTCCAGCCGAAAT-TAGTCATT-AATTTGTCTTTG
1 CTGCTATTTAATTTGTCCAGCCG-AATCTAGACATTAAACTTGTCTTTG
29999234 CTGCTATTTAATTTGTCCAGCCGAATCTAGACATTAAACTTGTCTTT
1 CTGCTATTTAATTTGTCCAGCCGAATCTAGACATTAAACTTGTCTTT
29999281 TTGCAACTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 3 0.07
47 30 0.70
48 10 0.23
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (48 bp):
CTGCTATTTAATTTGTCCAGCCGAATCTAGACATTAAACTTGTCTTTG
Found at i:30000580 original size:16 final size:16
Alignment explanation
Indices: 30000550--30000584 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
30000540 GTATTGAATT
30000550 AAAAAAATTCAAAAAA
1 AAAAAAATTCAAAAAA
30000566 AAAATAAATTCAAAAAA
1 AAAA-AAATTCAAAAAA
30000583 AA
1 AA
30000585 TCAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAAAATTCAAAAAA
Found at i:30001714 original size:29 final size:28
Alignment explanation
Indices: 30001701--30001754 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
30001691 AAATGTGATC
30001701 AAGAAAAGAAAATTGAAAAAGAGAGTGA
1 AAGAAAAGAAAATTGAAAAAGAGAGTGA
*
30001729 AAGAAAAGAAAA-TGAGAAAGA-AGTGA
1 AAGAAAAGAAAATTGAAAAAGAGAGTGA
30001755 GTGTCATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.20
27 8 0.32
28 12 0.48
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (28 bp):
AAGAAAAGAAAATTGAAAAAGAGAGTGA
Found at i:30003704 original size:16 final size:17
Alignment explanation
Indices: 30003672--30003705 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30003662 GTTAAATTAG
*
30003672 TTAAGTTCAGCTCAAAA
1 TTAAGTTAAGCTCAAAA
30003689 TTAAGTTAAG-TCAAAA
1 TTAAGTTAAGCTCAAAA
30003705 T
1 T
30003706 AATTTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (17 bp):
TTAAGTTAAGCTCAAAA
Found at i:30007752 original size:5 final size:5
Alignment explanation
Indices: 30007729--30007785 Score: 60
Period size: 5 Copynumber: 10.4 Consensus size: 5
30007719 GCAACCCAAT
*
30007729 TTTTA TTTTTA TTTATTA TTTTA TTTTA TTTTA TTTATTA CTTTA TTTTA
1 TTTTA -TTTTA -TT-TTA TTTTA TTTTA TTTTA -TT-TTA TTTTA TTTTA
30007779 TTTTA TT
1 TTTTA TT
30007786 ATTTATTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
5 27 0.59
6 13 0.28
7 6 0.13
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:30007763 original size:22 final size:22
Alignment explanation
Indices: 30007729--30007785 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 22
30007719 GCAACCCAAT
*
30007729 TTTTATTTTTATTTATTATTTTA
1 TTTTA-TTTTATTTATTACTTTA
30007752 TTTTATTTTATTTATTACTTTA
1 TTTTATTTTATTTATTACTTTA
30007774 TTTTATTTTATT
1 TTTTATTTTATT
30007786 ATTTATTACT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 28 0.85
23 5 0.15
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTATTTTATTTATTACTTTA
Found at i:30007790 original size:17 final size:18
Alignment explanation
Indices: 30007736--30007792 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
30007726 AATTTTTATT
*
30007736 TTTA-TTTATTATT-TTAT
1 TTTATTTTATT-TTATTAC
30007753 TTTATTTTA-TTTATTAC
1 TTTATTTTATTTTATTAC
30007770 TTTATTTTATTTTATTA-
1 TTTATTTTATTTTATTAC
30007787 TTTATT
1 TTTATT
30007793 ACTTATTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 2 0.06
17 23 0.64
18 11 0.31
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTTTATTTTATTAC
Found at i:30007900 original size:17 final size:17
Alignment explanation
Indices: 30007856--30007894 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
30007846 AAAATACGAA
30007856 GAAAAAGGAACAGCTAG
1 GAAAAAGGAACAGCTAG
30007873 GAAAAAGGAACAGCTAG
1 GAAAAAGGAACAGCTAG
30007890 GAAAA
1 GAAAA
30007895 TTGAACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.28, T:0.05
Consensus pattern (17 bp):
GAAAAAGGAACAGCTAG
Found at i:30009274 original size:50 final size:50
Alignment explanation
Indices: 30009193--30009436 Score: 244
Period size: 50 Copynumber: 4.9 Consensus size: 50
30009183 CATTGAGAAT
* * * *
30009193 ATGAGAGGTCTCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAG
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
* *
30009243 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
* * * * * *
30009293 ATGAGAGGTCTCC-CGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAAAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
* * * * **
30009343 ATGAGAA-ATCTCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACA-
1 ATGA-AAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AG
** *
30009393 A-GAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30009437 TGTTATTATT
Statistics
Matches: 164, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
48 2 0.01
49 37 0.23
50 121 0.74
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
Found at i:30009327 original size:100 final size:103
Alignment explanation
Indices: 30009148--30009387 Score: 272
Period size: 100 Copynumber: 2.3 Consensus size: 103
30009138 AATGAGATCA
* * * *
30009148 CATGTAAGACCATGTCTAGGACATGGCATTGCCATCATTGAGAATATGAGAGGTCTCATGTAAGA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG-A-ATGAGAGGTCTCACGTAAGA
* * * * *
30009213 CCATGTTTGGGACATGGCGTTGGCACCAAGATGA-AAGGTCC
63 CCATGTCTAGGACATGGCATGGGCACCAAGATGAGAA-ATCC
* *
30009254 CATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGAG-ATGAGAGGTCTCCCGTAAGACCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGAATGAGAGGTCTCACGTAAGACCA
* * *
30009316 TGTCTAGGACATGGCATGGGCACCGATATGAGAAATCT
66 TGTCTAGGACATGGCATGGGCACCAAGATGAGAAATCC
* *
30009354 CATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
30009388 GTACAAGAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
100 79 0.68
101 2 0.02
103 3 0.03
105 1 0.01
106 31 0.27
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (103 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGAATGAGAGGTCTCACGTAAGACCA
TGTCTAGGACATGGCATGGGCACCAAGATGAGAAATCC
Found at i:30013711 original size:56 final size:56
Alignment explanation
Indices: 30013629--30013827 Score: 250
Period size: 56 Copynumber: 3.7 Consensus size: 56
30013619 GGGAATGAGA
30013629 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
* *
30013685 TCCCATGTAAGACCATGTCTGCGACATGGCGTTGGCATCATTGA-AGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGA-TTATGAGAGG
* * * *
30013741 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCA-C--CGAG---ATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
** * *
30013791 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30013828 CCGATATGAG
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
50 38 0.30
53 2 0.02
55 2 0.02
56 86 0.67
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (56 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
Found at i:30013791 original size:50 final size:53
Alignment explanation
Indices: 30013629--30013862 Score: 246
Period size: 56 Copynumber: 4.4 Consensus size: 53
30013619 GGGAATGAGA
*
30013629 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG--TATGAGAGG
* * *
30013685 TCCCATGTAAGACCATGTCTGCGACATGGCGTTGGCATCATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CG-AG-TATGAGAGG
* * *
30013741 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCA-C-CGAG-ATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGG
** * * **
30013791 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCA-C-CGA-TATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGG
*
30013841 TCCCATGTAAGACCATATCTGG
1 TCCCATGTAAGACCATGTCTGG
30013863 TATTTTTGAT
Statistics
Matches: 157, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
50 66 0.42
52 2 0.01
53 1 0.01
55 1 0.01
56 85 0.54
57 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (53 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGG
Found at i:30014116 original size:56 final size:55
Alignment explanation
Indices: 30014034--30014182 Score: 219
Period size: 56 Copynumber: 2.7 Consensus size: 55
30014024 GGGAATGAGA
*
30014034 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTG-AGATTATGAGAGG
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCATCATTGAAG-TTATGAGAGG
* *
30014090 TCCTATGTAAGACCATGTCTGCGACATGGCGTTGGCATTATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTG-GACATGGCGTTGGCATCATTGAAGTTATGAGAGG
*
30014146 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCA
1 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCA
30014183 CCGAGATGAG
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
55 1 0.01
56 81 0.95
57 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (55 bp):
TCCCATGTAAGACCATGTCTGGACATGGCGTTGGCATCATTGAAGTTATGAGAGG
Found at i:30014196 original size:50 final size:51
Alignment explanation
Indices: 30014034--30014331 Score: 237
Period size: 50 Copynumber: 5.7 Consensus size: 51
30014024 GGGAATGAGA
*
30014034 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG--TATGAGAGG
* * * **
30014090 TCCTATGTAAGACCATGTCTGCGACATGGCGTTGGCATTATTGAAGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCG-AG-TATGAGAGG
* * *
30014146 TCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAG-ATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATGAGAGG
** * * **
30014196 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGA-TATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATGAGAGG
* * * * * * **
30014246 TCCCATGTAAGACCATATCTGGGATATGGCATTGTCA--GTA-CAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGTATGAGAGG
* *
30014295 TCCCATGTAAGACCAAGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30014332 TGTTATTATC
Statistics
Matches: 200, Mismatches: 36, Indels: 19
0.78 0.14 0.07
Matches are distributed among these distances:
48 1 0.00
49 37 0.19
50 78 0.39
52 2 0.01
53 2 0.01
56 77 0.38
57 2 0.01
59 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATGAGAGG
Found at i:30014212 original size:405 final size:405
Alignment explanation
Indices: 30013461--30014267 Score: 1578
Period size: 405 Copynumber: 2.0 Consensus size: 405
30013451 AAATGTAATA
*
30013461 TTTTGATAATTATTATTAATGCTGTTATTTTTCAGAAATTATGTATTTATTTCATGAAAATATCT
1 TTTTGATAATTATTATTAATGCTGTTATTTTTCAGAAATTATGTATTTATTTCATCAAAATATCT
30013526 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCGTTGCAACATTGGGAAT
66 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCGTTGCAACATTGGGAAT
30013591 GTATCGAATACAAATGTCATGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
131 GTATCGAATACAAATGTCATGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
30013656 GGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
196 GGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
30013721 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
261 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
30013786 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
326 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
30013851 GACCATATCTGGTAT
391 GACCATATCTGGTAT
*
30013866 TTTTGATAATTATTATTAATGCTGTTATTTTTCAGCAATTATGTATTTATTTCATCAAAATATCT
1 TTTTGATAATTATTATTAATGCTGTTATTTTTCAGAAATTATGTATTTATTTCATCAAAATATCT
30013931 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCGTTGCAACATTGGGAAT
66 AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCGTTGCAACATTGGGAAT
30013996 GTATCGAATACAAATGTCATGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
131 GTATCGAATACAAATGTCATGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
*
30014061 GGCATTGGCATCATTGAGATTATGAGAGGTCCTATGTAAGACCATGTCTGCGACATGGCGTTGGC
196 GGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
*
30014126 ATTATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
261 ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
30014191 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
326 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
30014256 GACCATATCTGG
391 GACCATATCTGG
30014268 GATATGGCAT
Statistics
Matches: 398, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
405 398 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (405 bp):
TTTTGATAATTATTATTAATGCTGTTATTTTTCAGAAATTATGTATTTATTTCATCAAAATATCT
AATGTTGACTTAAGTATGAGGTGACAAAGAATCAATGATAAAAGCCCCGTTGCAACATTGGGAAT
GTATCGAATACAAATGTCATGACATTAAGGGAATGAGATCCCATGTAAGACCATGTCTGGGACAT
GGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTCTGCGACATGGCGTTGGC
ATCATTGAAGTTATGAGAGGTCCCATGTAAGATCATGTCTAGGACATGGCGTTGGCACCGAGATG
AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
GACCATATCTGGTAT
Found at i:30015681 original size:21 final size:22
Alignment explanation
Indices: 30015633--30015675 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30015623 CCAGCCCAAA
*
30015633 ATTCCTGTAACCAAACTACCCT
1 ATTCCTGTAACCAAACCACCCT
*
30015655 ATTCCTGTAGCC-AACCACCCT
1 ATTCCTGTAACCAAACCACCCT
30015676 TATCCTTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.28, C:0.40, G:0.07, T:0.26
Consensus pattern (22 bp):
ATTCCTGTAACCAAACCACCCT
Found at i:30017430 original size:15 final size:15
Alignment explanation
Indices: 30017405--30017439 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30017395 GACTCTATTT
*
30017405 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
30017419 TAATTAATATTAAGA
1 TAATTAATATTAAGA
30017434 TAATTA
1 TAATTA
30017440 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:30027198 original size:23 final size:22
Alignment explanation
Indices: 30027147--30027198 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
30027137 CCTCGTCTTT
*
30027147 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
30027169 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
30027192 TTCTTTT
1 TTCTTTT
30027199 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:30027207 original size:12 final size:12
Alignment explanation
Indices: 30027156--30027211 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
30027146 TTTCTTTTGT
30027156 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
30027169 -TCATTTTC-TC
1 TTCTTTTTCAAC
30027179 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
30027192 TTCTTTTTCAAT
1 TTCTTTTTCAAC
30027204 TTCTTTTT
1 TTCTTTTT
30027212 GTTTCACATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.11
12 23 0.66
13 7 0.20
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:30045023 original size:22 final size:22
Alignment explanation
Indices: 30044992--30045058 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
30044982 TGCACTAATG
30044992 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* * *
30045014 TATAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
* *
30045036 AACAGAGAGCACTGACGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
30045058 A
1 A
30045059 TAATCAGAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:30052338 original size:27 final size:27
Alignment explanation
Indices: 30052280--30052477 Score: 173
Period size: 27 Copynumber: 7.4 Consensus size: 27
30052270 ACCTAAAAAT
*
30052280 AGGGTAAAATGACCGAAATA-CCCCAA
1 AGGGTAAAATGACCGAAATACCCCCAG
**
30052306 AGGGTAAAATGACAAAAATACCCCCAG
1 AGGGTAAAATGACCGAAATACCCCCAG
* *
30052333 AGGGTAAAATGACCGAAATACCCCTAT
1 AGGGTAAAATGACCGAAATACCCCCAG
* * * *
30052360 AGGGTAAAACGACTGAAATATCCTCAG
1 AGGGTAAAATGACCGAAATACCCCCAG
* * * **
30052387 AAGGTAAAATGACTGAAATAACCTTAG
1 AGGGTAAAATGACCGAAATACCCCCAG
* ** *
30052414 AGTGTAAAGCGACCGAAATACCCCCAA
1 AGGGTAAAATGACCGAAATACCCCCAG
** * * * *
30052441 AGGGTAAGTTGACTGAAATAGCCTCAT
1 AGGGTAAAATGACCGAAATACCCCCAG
30052468 AGGGTAAAAT
1 AGGGTAAAAT
30052478 AACTGTTATA
Statistics
Matches: 135, Mismatches: 36, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
26 18 0.13
27 117 0.87
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (27 bp):
AGGGTAAAATGACCGAAATACCCCCAG
Found at i:30052421 original size:81 final size:79
Alignment explanation
Indices: 30052278--30052482 Score: 212
Period size: 81 Copynumber: 2.5 Consensus size: 79
30052268 AGACCTAAAA
* * ** * *
30052278 ATAGGGTAAAATGACCGAAATACCCCAAAGGGTAAAATGACAAAAATACCCCCAGAGGGTAAAAT
1 ATAGGGTAAAATGACTGAAATACCTCAAA-GGTAAAATGACTGAAATAACCCCAGAGGGTAAAAC
*
30052343 GACCGAAATACCCCT
65 GACCGAAATACCCCC
* ** * *
30052358 ATAGGGTAAAACGACTGAAATATCCTCAGAAGGTAAAATGACTGAAATAACCTTAGAGTGTAAAG
1 ATAGGGTAAAATGACTGAAATA-CCTCA-AAGGTAAAATGACTGAAATAACCCCAGAGGGTAAAA
30052423 CGACCGAAATACCCCC
64 CGACCGAAATACCCCC
* ** * *
30052439 AAAGGGTAAGTTGACTGAAATAGCCTCATAGGGTAAAATAACTG
1 ATAGGGTAAAATGACTGAAATA-CCTCA-AAGGTAAAATGACTG
30052483 TTATACCCCT
Statistics
Matches: 103, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 20 0.19
81 81 0.79
82 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (79 bp):
ATAGGGTAAAATGACTGAAATACCTCAAAGGTAAAATGACTGAAATAACCCCAGAGGGTAAAACG
ACCGAAATACCCCC
Found at i:30053710 original size:27 final size:27
Alignment explanation
Indices: 30053680--30053758 Score: 124
Period size: 27 Copynumber: 2.9 Consensus size: 27
30053670 TAAAATAACT
*
30053680 GAAATACCCCCATAGGGTATAATGATC
1 GAAATACCCCCATAGGGTAAAATGATC
30053707 GAAATACCCCCATAGGGTAAAATGATC
1 GAAATACCCCCATAGGGTAAAATGATC
*
30053734 GAAATACCCCTATTA-GGTAAAATGA
1 GAAATACCCCCA-TAGGGTAAAATGA
30053759 CTATTATACC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 47 0.96
28 2 0.04
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATGATC
Found at i:30057399 original size:3 final size:3
Alignment explanation
Indices: 30057393--30057422 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
30057383 ATAATAATAG
30057393 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
30057423 TAATAATAAT
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:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:30057427 original size:3 final size:3
Alignment explanation
Indices: 30057421--30057453 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
30057411 CAACAACAAC
30057421 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30057454 GAAACATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:30061702 original size:27 final size:27
Alignment explanation
Indices: 30061671--30061846 Score: 122
Period size: 27 Copynumber: 6.6 Consensus size: 27
30061661 CTAATATTTA
*
30061671 TAAAATAACTGTAATAACCTTATAGGG
1 TAAAATAACCGTAATAACCTTATAGGG
* *
30061698 TAAAATAACCGTAATACCCCTATAGGG
1 TAAAATAACCGTAATAACCTTATAGGG
* * * **
30061725 TAAAATGACC-AAAAAACCCCATAGGG
1 TAAAATAACCGTAATAACCTTATAGGG
* * * *
30061751 TAAAATGACCGTGAT-GCCTCTGTAGGG
1 TAAAATAACCGTAATAACCT-TATAGGG
* *
30061778 TAAAATAACCGTAATACCCTCATAGGG
1 TAAAATAACCGTAATAACCTTATAGGG
* * * * * * * *
30061805 TTAAATGATCGAAATATCCCTGTAAGG
1 TAAAATAACCGTAATAACCTTATAGGG
*
30061832 TAAAATGACCGTAAT
1 TAAAATAACCGTAAT
30061847 GCCTCTAGAG
Statistics
Matches: 114, Mismatches: 32, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
26 24 0.21
27 87 0.76
28 3 0.03
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (27 bp):
TAAAATAACCGTAATAACCTTATAGGG
Found at i:30061754 original size:53 final size:54
Alignment explanation
Indices: 30061692--30061841 Score: 167
Period size: 53 Copynumber: 2.8 Consensus size: 54
30061682 TAATAACCTT
* *
30061692 ATAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATGACCAAAAAACCC-C
1 ATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCAAAAAACCCTC
* * * * ** *
30061745 ATAGGGTAAAATGACCGTGATGCCTCTGTAGGGTAAAATAACCGTAATACCCTC
1 ATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCAAAAAACCCTC
* * * * *
30061799 ATAGGGTTAAATGATCGAAATATCCCTGTAAGGTAAAATGACC
1 ATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACC
30061842 GTAATGCCTC
Statistics
Matches: 78, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
53 43 0.55
54 35 0.45
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.22
Consensus pattern (54 bp):
ATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCAAAAAACCCTC
Found at i:30061804 original size:80 final size:82
Alignment explanation
Indices: 30061693--30061862 Score: 231
Period size: 81 Copynumber: 2.1 Consensus size: 82
30061683 AATAACCTTA
*
30061693 TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATGA-CCAAAAAACCCCATAGGGTAAAAT
1 TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATGATCCAAAAAACCCCATAAGGTAAAAT
*
30061757 GACCGTGATGCCTCT-G
66 GACCGTAATGCCTCTAG
* * * * **
30061773 TAGGGTAAAATAACCGTAATA-CCCTCATAGGGTTAAATGATCGAAATATCCCTGTAAGGTAAAA
1 TAGGGTAAAATAACCGTAATACCCCT-ATAGGGTAAAATGATCCAAAAAACCCCATAAGGTAAAA
30061837 TGACCGTAATGCCTCTAG
65 TGACCGTAATGCCTCTAG
30061855 -AGGGTAAA
1 TAGGGTAAA
30061863 TGACCATTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 4 0.05
80 34 0.43
81 40 0.51
82 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (82 bp):
TAGGGTAAAATAACCGTAATACCCCTATAGGGTAAAATGATCCAAAAAACCCCATAAGGTAAAAT
GACCGTAATGCCTCTAG
Found at i:30061860 original size:27 final size:26
Alignment explanation
Indices: 30061671--30061867 Score: 121
Period size: 27 Copynumber: 7.4 Consensus size: 26
30061661 CTAATATTTA
* * * *
30061671 TAAAATAACTGTAATAACCTTATAGGG
1 TAAAATGACCGTAAT-ACCCTAGAGGG
* *
30061698 TAAAATAACCGTAATACCCCTATAGGG
1 TAAAATGACCGTAATA-CCCTAGAGGG
** * * *
30061725 TAAAATGACCAAAAAACCCCATAGGG
1 TAAAATGACCGTAATACCCTAGAGGG
* *
30061751 TAAAATGACCGTGATGCCTCT-GTAGGG
1 TAAAATGACCGTAATACC-CTAG-AGGG
* *
30061778 TAAAATAACCGTAATACCCTCATAGGG
1 TAAAATGACCGTAATACCCT-AGAGGG
* * * *
30061805 TTAAATGATCGAAATATCCCT-GTAAGG
1 TAAAATGACCGTAATA-CCCTAG-AGGG
*
30061832 TAAAATGACCGTAATGCCTCTAGAGGG
1 TAAAATGACCGTAATACC-CTAGAGGG
30061859 T-AAATGACC
1 TAAAATGACC
30061868 ATTTTACCTT
Statistics
Matches: 132, Mismatches: 29, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
26 35 0.27
27 92 0.70
28 5 0.04
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (26 bp):
TAAAATGACCGTAATACCCTAGAGGG
Found at i:30063306 original size:27 final size:27
Alignment explanation
Indices: 30063266--30063552 Score: 283
Period size: 27 Copynumber: 10.6 Consensus size: 27
30063256 AGAGCCAAAA
*
30063266 ATAGGGTAAAATGACTGAAATACCCTC
1 ATAGGGTAAAATGACTGAAATACCCCC
*
30063293 ATAGGGTAACATGA-TCGAAATACCCCC
1 ATAGGGTAAAATGACT-GAAATACCCCC
* * * *
30063320 AGAGAGTAAAATGACTGAAATGCCCCA
1 ATAGGGTAAAATGACTGAAATACCCCC
** *
30063347 ATAGGGTAAAACAACAGAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCCC
* *
30063374 ATAGGATAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCCC
* *
30063401 ATAGGGTAAAACGA-TCGAAATAACCCC
1 ATAGGGTAAAATGACT-GAAATACCCCC
* **
30063428 ATAGGATAAAATGACCAAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCCC
* *
30063455 AAAGGGTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCCC
* * *
30063482 ATAGGGTAAATTGATTGAAATACCCTC
1 ATAGGGTAAAATGACTGAAATACCCCC
* * *
30063509 ATAAGGTAAAAT-AATCAAAATACCCCC
1 ATAGGGTAAAATGACT-GAAATACCCCC
* * *
30063536 AAAGTGTAACATGACTG
1 ATAGGGTAAAATGACTG
30063553 TTATACTCCT
Statistics
Matches: 208, Mismatches: 46, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.01
27 202 0.97
28 3 0.01
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (27 bp):
ATAGGGTAAAATGACTGAAATACCCCC
Found at i:30067083 original size:2 final size:2
Alignment explanation
Indices: 30067042--30067075 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
30067032 TGGGTTTTGT
30067042 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30067076 GCATATATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30067957 original size:147 final size:147
Alignment explanation
Indices: 30067765--30068070 Score: 445
Period size: 150 Copynumber: 2.1 Consensus size: 147
30067755 AAGTTTTCAT
* *
30067765 TTTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATTTGTCTTTT-GTCATATTAAAGG
1 TTTTTTTAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTTAGTCATATTAAAGG
* *
30067829 AAAAGTTTAAA-ATTAAAAAAAATGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATT
66 AAAAATTTAAATATTAAAAAAAA-GTTTTAATCTTTTTCAACTATTTCGAAATAAAATTTTGATT
*
30067893 TTTAAGAAAAATAGTTATA
130 TTTAAGAAAAATAGTGA-A
* *
30067912 TTTTTTTAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTTTTTTAGTCATTTTAAAGG
1 TTTTTTTAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTTAGTCATATTAAAGG
* * **
30067977 AAAAATTTAAATTTTTTAAAACAAAGTTTTGGTCTTTTTCAACTATTTCGAAATAAAATTTTGAT
66 AAAAATTTAAA--TATTAAAAAAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAATTTTGAT
* *
30068042 TTTTAAGAAAAGTAGTGAC
129 TTTTAAGAAAAATAGTGAA
30068061 TTTTTTTAAA
1 TTTTTTTAAA
30068071 GAAAAATTCG
Statistics
Matches: 142, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
147 48 0.34
148 22 0.15
149 10 0.07
150 53 0.37
151 9 0.06
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (147 bp):
TTTTTTTAAAAAAGAGAAAGTTTAGATTTTAAAAATAAAAATTTGTCTTTTAGTCATATTAAAGG
AAAAATTTAAATATTAAAAAAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAATTTTGATTT
TTAAGAAAAATAGTGAA
Found at i:30068992 original size:27 final size:27
Alignment explanation
Indices: 30068959--30069047 Score: 160
Period size: 27 Copynumber: 3.3 Consensus size: 27
30068949 TAAGTAGGTG
*
30068959 TTACATTTTAATGAAACCATAATGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
30068986 TTACATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
*
30069013 TTACATTTTAAGGAAACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
30069040 TTACATTT
1 TTACATTT
30069048 GAATTTAGGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (27 bp):
TTACATTTTAATGAAACCATAAGGTTT
Found at i:30070928 original size:15 final size:17
Alignment explanation
Indices: 30070885--30070922 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30070875 GAATGGATTA
* *
30070885 TTATATTGAACGAACTG
1 TTATATTGTATGAACTG
30070902 TTATATTGTATGAACTG
1 TTATATTGTATGAACTG
30070919 TTAT
1 TTAT
30070923 TTTATGCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (17 bp):
TTATATTGTATGAACTG
Done.