Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 110 of 444
Found at i:27672582 original size:55 final size:54
Alignment explanation
Indices: 27672471--27672583 Score: 129
Period size: 55 Copynumber: 2.1 Consensus size: 54
27672461 AGCATGGCTG
* *
27672471 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCA
* * * * * *
27672525 CCAGAACAGATATATGTGGCAAAGCCATCATAT-CAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAAAGCCACCAGATACAGATAA-TCGTGGCAGAACCA
27672580 CCAG
1 CCAG
27672584 GATGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
54 19 0.39
55 30 0.61
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCA
Found at i:27674030 original size:24 final size:24
Alignment explanation
Indices: 27674010--27674069 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
27674000 CCTTTATATG
27674010 CTCCTAAATCCTATCCCTTATCAA
1 CTCCTAAATCCTATCCCTTATCAA
*
27674034 CTCCGAAATCCTATCCCTTATCAA
1 CTCCTAAATCCTATCCCTTATCAA
27674058 CTCCTAAATCCT
1 CTCCTAAATCCT
27674070 CTCCTGACAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.28, C:0.38, G:0.02, T:0.32
Consensus pattern (24 bp):
CTCCTAAATCCTATCCCTTATCAA
Found at i:27682912 original size:28 final size:28
Alignment explanation
Indices: 27682881--27682994 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
27682871 ATAATCTGAC
27682881 TTGGGCCGGATGGGCCATATTAATGAGA
1 TTGGGCCGGATGGGCCATATTAATGAGA
** * *
27682909 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCGGATGGGCCATATTAATGAG-A
** *
27682938 TTGGGCCTTAAGGGCCAT-TTGAACATGA-A
1 TTGGGCCGGATGGGCCATATT--A-ATGAGA
* *
27682967 TTGGGCCGGATGGGCAATATAAATGAGA
1 TTGGGCCGGATGGGCCATATTAATGAGA
27682995 CCGGGCCTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
27 4 0.06
28 26 0.39
29 32 0.48
30 2 0.03
31 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.25
Consensus pattern (28 bp):
TTGGGCCGGATGGGCCATATTAATGAGA
Found at i:27682952 original size:29 final size:29
Alignment explanation
Indices: 27682881--27683020 Score: 106
Period size: 28 Copynumber: 4.9 Consensus size: 29
27682871 ATAATCTGAC
** * *
27682881 TTGGGCCGGATGGGCCATATTAATGAG-A
1 TTGGGCCTAATGGGCCATATGAATGTGAA
27682909 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* **
27682938 TTGGGCCTTAA-GGGCCATTTGAACATGAA
1 TTGGGCC-TAATGGGCCATATGAATGTGAA
** * * *
27682967 TTGGGCCGGATGGGCAATATAAATGAG-A
1 TTGGGCCTAATGGGCCATATGAATGTGAA
** * *
27682995 CCGGGCCTAATGGACCATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
27683021 TTGTAGGGGT
Statistics
Matches: 85, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
28 42 0.49
29 40 0.47
30 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:27686959 original size:16 final size:16
Alignment explanation
Indices: 27686921--27686959 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
27686911 GTAGATCGGC
* *
27686921 AAAAGCCAAAATGCCG
1 AAAAGCTAAAATGCCA
27686937 AAAAGCTAAAATGCCA
1 AAAAGCTAAAATGCCA
27686953 AAAAGCT
1 AAAAGCT
27686960 GAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.21, G:0.15, T:0.10
Consensus pattern (16 bp):
AAAAGCTAAAATGCCA
Found at i:27687287 original size:29 final size:28
Alignment explanation
Indices: 27687182--27687292 Score: 71
Period size: 29 Copynumber: 3.9 Consensus size: 28
27687172 TGAATATAAT
* *
27687182 GTGATTTGGGCCGGATGAGCCATAT-AA
1 GTGAATTGGGCCGGATGGGCCATATGAA
* ** * **
27687209 ATGAGATTGGGCCTAATAGGTTATATGAA
1 GTGA-ATTGGGCCGGATGGGCCATATGAA
* ** *
27687238 TGTGAATTGGGTCTCAAGGGCCATATGAA
1 -GTGAATTGGGCCGGATGGGCCATATGAA
*
27687267 CGTGAATTGGGCCGGATGGGCTATAT
1 -GTGAATTGGGCCGGATGGGCCATAT
27687293 AAATGAGACT
Statistics
Matches: 60, Mismatches: 21, Indels: 4
0.71 0.25 0.05
Matches are distributed among these distances:
27 3 0.05
28 14 0.23
29 40 0.67
30 3 0.05
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (28 bp):
GTGAATTGGGCCGGATGGGCCATATGAA
Found at i:27696363 original size:16 final size:18
Alignment explanation
Indices: 27696344--27696381 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
27696334 ATATTCTCAT
27696344 TTTTTTCA-TTTCT-TCC
1 TTTTTTCATTTTCTCTCC
27696360 -TTTTTCATTTTCTCTCC
1 TTTTTTCATTTTCTCTCC
27696377 TTTTT
1 TTTTT
27696382 GACAAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.37
16 5 0.26
17 3 0.16
18 4 0.21
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTCATTTTCTCTCC
Found at i:27696365 original size:15 final size:17
Alignment explanation
Indices: 27696345--27696381 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
27696335 TATTCTCATT
27696345 TTTTTCA-TTTCT-TCC
1 TTTTTCATTTTCTCTCC
27696360 TTTTTCATTTTCTCTCC
1 TTTTTCATTTTCTCTCC
27696377 TTTTT
1 TTTTT
27696382 GACAAATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 5 0.25
17 8 0.40
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTCATTTTCTCTCC
Found at i:27700169 original size:24 final size:24
Alignment explanation
Indices: 27700139--27700187 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
27700129 TGATTGCCAG
27700139 TGAATTTATTTCC-GATGATTGTTA
1 TGAATTTATTTCCAG-TGATTGTTA
27700163 TGAATTTATTTCCAGTGATTGTTA
1 TGAATTTATTTCCAGTGATTGTTA
27700187 T
1 T
27700188 AAAAATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.51
Consensus pattern (24 bp):
TGAATTTATTTCCAGTGATTGTTA
Found at i:27709526 original size:18 final size:19
Alignment explanation
Indices: 27709493--27709529 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
27709483 ACTGTTGCAC
27709493 ATGAATGGATTAGTTACAT
1 ATGAATGGATTAGTTACAT
27709512 ATGAATGGA-TAGTTACAT
1 ATGAATGGATTAGTTACAT
27709530 GTTAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (19 bp):
ATGAATGGATTAGTTACAT
Found at i:27710063 original size:32 final size:32
Alignment explanation
Indices: 27710022--27710084 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
27710012 TGTTAAATGA
* *
27710022 ACAAATTTGACGAGGAAGATTCGACAACTTTG
1 ACAAATTTGACAAGGAAGATTCAACAACTTTG
*
27710054 ACAAATTTGACAAGGAAGATTCAACATCTTT
1 ACAAATTTGACAAGGAAGATTCAACAACTTT
27710085 AAAATGTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (32 bp):
ACAAATTTGACAAGGAAGATTCAACAACTTTG
Found at i:27710191 original size:69 final size:69
Alignment explanation
Indices: 27710080--27710677 Score: 842
Period size: 69 Copynumber: 8.7 Consensus size: 69
27710070 AGATTCAACA
*
27710080 TCTTTAAAATGTGTTCATTTACGTTCTATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
27710145 GTAG
66 GTAG
* *
27710149 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGTTGTAAAGGGCTGATAT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
27710214 GTAG
66 GTAG
* * * * * *
27710218 TCTTTAAAATATGTTCATTTACATTCGTTTTAAATGCTTAAGGTGCTACTATAAAGGGCTGA-TT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
27710282 GTAG
66 GTAG
* * * *
27710286 TCTTTAAAATGTGTTAATCTACATTCGATTTAAATGCTTAATGTGCTACTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
27710351 GTAG
66 GTAG
* * * * * *
27710355 TCTTTAAAATGAGTTCGTTTACGGTCGATTCAAGTGCTTAATGTGCTGCCGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
27710420 GTAG
66 GTAG
* *
27710424 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGTTTAATGTGCTACTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
27710489 GTAG
66 GTAG
* * * *
27710493 TCTTTAAAATGTGTTAATTTACATTCGATTGAAATGCTTAATGTGCTGCTGTAAAGGGCTAATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
*
27710558 GTAT
66 GTAG
* * * * * * *
27710562 TCTTTAAAATGTGTTCATTTACATTCGATTTAAGTTCTTAATGAGTTGTTGTATAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
*
27710627 GTTG
66 GTAG
*
27710631 TC-TTAAAACTGTGTTCATTAACGTTC-ATTTTAAATGCTTAATGTGCT
1 TCTTTAAAA-TGTGTTCATTTACGTTCGA-TTTAAATGCTTAATGTGCT
27710678 TTTCAAAAAT
Statistics
Matches: 467, Mismatches: 59, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
68 68 0.15
69 399 0.85
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.42
Consensus pattern (69 bp):
TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
GTAG
Found at i:27710441 original size:206 final size:207
Alignment explanation
Indices: 27710080--27710677 Score: 903
Period size: 206 Copynumber: 2.9 Consensus size: 207
27710070 AGATTCAACA
* * *
27710080 TCTTTAAAATGTGTTCATTTACGTTCTATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTAATTTACATTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
*
27710145 GTAGTCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGTTGTAAAGGGCTG
66 GTAGTCTTTAAAATGTGTTCATTTACGTTCGATTTAAGTGCTTAATGTGCTGTTGTAAAGGGCTG
* * * *
27710210 ATATGTAGTCTTTAAAATATGTTCATTTACATTCGTTTTAAATGCTTAAGGTGCTACTATAAAGG
131 ATTTGTAGTCTTTAAAATGTGTTCATTTACGTTCGTTTTAAATGCTTAATGTGCTACTATAAAGG
27710275 GCTGA-TTGTAG
196 GCTGATTTGTAG
* *
27710286 TCTTTAAAATGTGTTAATCTACATTCGATTTAAATGCTTAATGTGCTACTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTAATTTACATTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
* * * * **
27710351 GTAGTCTTTAAAATGAGTTCGTTTACGGTCGATTCAAGTGCTTAATGTGCTGCCGTAAAGGGCTG
66 GTAGTCTTTAAAATGTGTTCATTTACGTTCGATTTAAGTGCTTAATGTGCTGTTGTAAAGGGCTG
* * *
27710416 ATTTGTAGTCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGTTTAATGTGCTACTGTAAAGG
131 ATTTGTAGTCTTTAAAATGTGTTCATTTACGTTCGTTTTAAATGCTTAATGTGCTACTATAAAGG
27710481 GCTGATTTGTAG
196 GCTGATTTGTAG
* *
27710493 TCTTTAAAATGTGTTAATTTACATTCGATTGAAATGCTTAATGTGCTGCTGTAAAGGGCTAATTT
1 TCTTTAAAATGTGTTAATTTACATTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
* * * * * *
27710558 GTATTCTTTAAAATGTGTTCATTTACATTCGATTTAAGTTCTTAATGAGTTGTTGTATAGGGCTG
66 GTAGTCTTTAAAATGTGTTCATTTACGTTCGATTTAAGTGCTTAATGTGCTGTTGTAAAGGGCTG
* * *
27710623 ATTTGTTGTC-TTAAAACTGTGTTCATTAACGTTCATTTTAAATGCTTAATGTGCT
131 ATTTGTAGTCTTTAAAA-TGTGTTCATTTACGTTCGTTTTAAATGCTTAATGTGCT
27710678 TTTCAAAAAT
Statistics
Matches: 350, Mismatches: 40, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
206 187 0.53
207 163 0.47
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.42
Consensus pattern (207 bp):
TCTTTAAAATGTGTTAATTTACATTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
GTAGTCTTTAAAATGTGTTCATTTACGTTCGATTTAAGTGCTTAATGTGCTGTTGTAAAGGGCTG
ATTTGTAGTCTTTAAAATGTGTTCATTTACGTTCGTTTTAAATGCTTAATGTGCTACTATAAAGG
GCTGATTTGTAG
Found at i:27718872 original size:6 final size:6
Alignment explanation
Indices: 27718853--27718885 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
27718843 GGATAGCAAT
*
27718853 TTTCCA TTTTCA TTTCCA TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
27718886 TTATAAACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (6 bp):
TTTCCA
Found at i:27745715 original size:29 final size:29
Alignment explanation
Indices: 27745653--27745755 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
27745643 GTGACGAGAT
* * *
27745653 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
27745682 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
27745711 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
27745740 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
27745756 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:27755852 original size:40 final size:39
Alignment explanation
Indices: 27755725--27755854 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
27755715 ATGCTGGAAA
* *
27755725 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
27755765 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
27755805 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
27755845 TTATATCCGG
1 TTATATCCGG
27755855 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:27763906 original size:40 final size:39
Alignment explanation
Indices: 27763779--27763908 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
27763769 ATGCTGGAAA
* *
27763779 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
27763819 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
27763859 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
27763899 TTATATCCGG
1 TTATATCCGG
27763909 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:27768764 original size:20 final size:20
Alignment explanation
Indices: 27768741--27768900 Score: 187
Period size: 20 Copynumber: 8.0 Consensus size: 20
27768731 GATTGTGGAC
*
27768741 CTACTGATGGGTTTGTGCCA
1 CTACTGATGGCTTTGTGCCA
27768761 CTACTGATGGCTTTGTGCCA
1 CTACTGATGGCTTTGTGCCA
* * * *
27768781 TTACTGATTG-TTGTGTACTA
1 CTACTGATGGCTT-TGTGCCA
* *
27768801 CTATTGATGTCTTTGTGCCA
1 CTACTGATGGCTTTGTGCCA
*
27768821 CTACTGATGGCTTTGTGCCG
1 CTACTGATGGCTTTGTGCCA
*
27768841 CTATTGATGGCTTTGTGCCA
1 CTACTGATGGCTTTGTGCCA
* * *
27768861 CTACTGACGGCTTCGTGCCG
1 CTACTGATGGCTTTGTGCCA
*
27768881 CTACTCATGGCTTTGTGCCA
1 CTACTGATGGCTTTGTGCCA
27768901 TATATTGATA
Statistics
Matches: 114, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
19 2 0.02
20 110 0.96
21 2 0.02
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.38
Consensus pattern (20 bp):
CTACTGATGGCTTTGTGCCA
Found at i:27771062 original size:48 final size:48
Alignment explanation
Indices: 27770987--27771160 Score: 172
Period size: 48 Copynumber: 3.6 Consensus size: 48
27770977 GTAAAATGCC
* * * * * *
27770987 GATGCCCTGTCCCAGACATGGTTTTACAGTGGCTCACATGTCGAGGCT
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATCGAGGCT
* * * * * * * *
27771035 GATGCCATGTTCTAGACATGGTCTTACACTAGTTCTCGTCTCAATGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATCGAGGCT
*
27771083 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGG-T
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT-ATCGAGGCT
*
27771130 CGATGCCATGTCCCAGACATGGTCTTACACT
1 -GATGCCATGTCCTAGACATGGTCTTACACT
27771161 AGCACACATA
Statistics
Matches: 101, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
48 100 0.99
49 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (48 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATCGAGGCT
Found at i:27771148 original size:96 final size:96
Alignment explanation
Indices: 27770981--27771162 Score: 251
Period size: 96 Copynumber: 1.9 Consensus size: 96
27770971 AAGAGGGTAA
* * * * *
27770981 AATGCCGATGCCCTGTCCCAGACATGGTTTTACAGTGGCTCACATGTCGAGGCTGATGCCATGTT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTC
*
27771046 CTAGACATGGTCTTACACTAGTTCTCGTCTC
66 CCAGACATGGTCTTACACTAGTTCTCGTCTC
* * *
27771077 AATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGG-TCGATGCCATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCT-GATGCCATG
27771140 TCCCAGACATGGTCTTACACTAG
64 TCCCAGACATGGTCTTACACTAG
27771163 CACACATATC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
95 1 0.01
96 73 0.97
97 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (96 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTC
CCAGACATGGTCTTACACTAGTTCTCGTCTC
Found at i:27791746 original size:40 final size:40
Alignment explanation
Indices: 27791701--27791867 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
27791691 CGGAATATAA
27791701 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
27791741 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
27791781 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
27791821 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
27791860 CCGGATAT
1 CCGGATAT
27791868 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:27791851 original size:80 final size:79
Alignment explanation
Indices: 27791717--27791867 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
27791707 ATAATCACGT
*
27791717 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
27791782 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
27791797 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
27791860 CCGGATAT
64 CCGGATAT
27791868 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:27799837 original size:40 final size:39
Alignment explanation
Indices: 27799726--27799876 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
27799716 TTAATCACGT
* * *
27799726 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
27799766 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
27799806 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
27799846 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
27799877 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:27799860 original size:80 final size:79
Alignment explanation
Indices: 27799726--27799876 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
27799716 TTAATCACGT
*
27799726 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
27799791 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
27799806 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
27799869 CCGGATAT
64 CCGGATAT
27799877 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:27804352 original size:18 final size:19
Alignment explanation
Indices: 27804323--27804359 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
27804313 TTTAATCATT
27804323 TCATATTCCATTTCCCATC
1 TCATATTCCATTTCCCATC
*
27804342 TCATA-TCCATTTCTCATC
1 TCATATTCCATTTCCCATC
27804360 CTTGTCATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (19 bp):
TCATATTCCATTTCCCATC
Found at i:27808067 original size:5 final size:5
Alignment explanation
Indices: 27808057--27808115 Score: 118
Period size: 5 Copynumber: 11.8 Consensus size: 5
27808047 TTTAAGTAAA
27808057 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
27808107 TATAT TATA
1 TATAT TATA
27808116 ATAATACAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 54 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:27808202 original size:20 final size:19
Alignment explanation
Indices: 27808145--27808200 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
27808135 AAATGGAAAT
*
27808145 AGAAAAAGAGAAAGATAGAA
1 AGAAAAAG-GAAAGAAAGAA
* * *
27808165 TGAAACAGGGAAGGAAAGAA
1 AGAAA-AAGGAAAGAAAGAA
27808185 AGAAAAAGGAAAGAAA
1 AGAAAAAGGAAAGAAA
27808201 AGGAGAAAGA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 9 0.32
20 17 0.61
21 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.29, T:0.04
Consensus pattern (19 bp):
AGAAAAAGGAAAGAAAGAA
Found at i:27808900 original size:24 final size:24
Alignment explanation
Indices: 27808873--27808919 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
27808863 ATTGAAATGG
27808873 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
27808897 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
27808920 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:27809482 original size:2 final size:2
Alignment explanation
Indices: 27809475--27809509 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
27809465 GCGTGATTAA
27809475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27809510 ACTTGCCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27814785 original size:27 final size:26
Alignment explanation
Indices: 27814750--27814861 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
27814740 AGCATGGCTG
* *
27814750 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
27814776 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
27814804 CCAGAACAGATATATATGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
27814831 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
27814858 CCAG
1 CCAG
27814862 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:27814814 original size:54 final size:54
Alignment explanation
Indices: 27814750--27814861 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
27814740 AGCATGGCTG
* *
27814750 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATATGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
27814804 CCAGAACAGATATATATGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
27814858 CCAG
1 CCAG
27814862 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:27822521 original size:27 final size:26
Alignment explanation
Indices: 27822486--27822595 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
27822476 AGCATGGCTG
* *
27822486 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
27822512 CCAGATACAGATAATCGTGGCA-A-CCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
27822538 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
27822565 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
27822592 CCAG
1 CCAG
27822596 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
25 13 0.18
26 16 0.22
27 40 0.54
28 5 0.07
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:27822548 original size:52 final size:54
Alignment explanation
Indices: 27822486--27822595 Score: 163
Period size: 52 Copynumber: 2.1 Consensus size: 54
27822476 AGCATGGCTG
*
27822486 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCA-A-CCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCATAGCCA
* *
27822538 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
27822592 CCAG
1 CCAG
27822596 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
52 26 0.50
53 19 0.37
54 7 0.13
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
Found at i:27824038 original size:24 final size:24
Alignment explanation
Indices: 27824011--27824061 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
27824001 CTAGATTTCC
**
27824011 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
27824035 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
27824059 TCC
1 TCC
27824062 TGACAGGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.39, G:0.02, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:27829706 original size:19 final size:20
Alignment explanation
Indices: 27829673--27829715 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
27829663 TTTTTTCCAT
27829673 AAAAATATTAAAAAATAAGA
1 AAAAATATTAAAAAATAAGA
* *
27829693 AAAAATA-TAGAAAATTAGA
1 AAAAATATTAAAAAATAAGA
27829712 AAAA
1 AAAA
27829716 TAAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (20 bp):
AAAAATATTAAAAAATAAGA
Found at i:27829724 original size:24 final size:23
Alignment explanation
Indices: 27829674--27829763 Score: 72
Period size: 26 Copynumber: 3.5 Consensus size: 23
27829664 TTTTTCCATA
*
27829674 AAAATATTAAAAAATAAGAAAAAATAT
1 AAAA-ATTAAAAAAT-A-AAAATAT-T
27829701 AGAAAATTAGAAAAATAAAAATATT
1 A-AAAATTA-AAAAATAAAAATATT
*
27829726 AAAAATTAAAAAATGAAAATTGATAT
1 AAAAATTAAAAAAT-AAAAAT-AT-T
27829752 AAAAATATAAAA
1 AAAAAT-TAAAA
27829764 TTAACAAAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
23 6 0.11
24 12 0.22
25 4 0.07
26 13 0.24
27 11 0.20
28 9 0.16
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (23 bp):
AAAAATTAAAAAATAAAAATATT
Found at i:27829737 original size:8 final size:8
Alignment explanation
Indices: 27829672--27829744 Score: 51
Period size: 8 Copynumber: 8.6 Consensus size: 8
27829662 ATTTTTTCCA
27829672 TAAAAATAT
1 TAAAAA-AT
27829681 TAAAAAAT
1 TAAAAAAT
*
27829689 AAGAAAAAAT
1 --TAAAAAAT
*
27829699 ATAGAAAAT
1 -TAAAAAAT
27829708 TAGAAAAA-
1 TA-AAAAAT
27829716 TAAAAATAT
1 TAAAAA-AT
27829725 T-AAAAAT
1 TAAAAAAT
27829732 TAAAAAAT
1 TAAAAAAT
*
27829740 GAAAA
1 TAAAA
27829745 TTGATATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
7 7 0.13
8 21 0.40
9 18 0.34
10 7 0.13
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (8 bp):
TAAAAAAT
Found at i:27829763 original size:7 final size:8
Alignment explanation
Indices: 27829693--27829763 Score: 51
Period size: 8 Copynumber: 8.5 Consensus size: 8
27829683 AAAAATAAGA
27829693 AAAAATAT
1 AAAAATAT
27829701 AGAAAAT-T
1 A-AAAATAT
27829709 AGAAAA-AT
1 A-AAAATAT
27829717 AAAAATATT
1 AAAAATA-T
27829726 AAAAAT-T
1 AAAAATAT
27829733 AAAAA-AT
1 AAAAATAT
27829740 GAAAATTGATAT
1 -AAAA---ATAT
27829752 AAAAATAT
1 AAAAATAT
27829760 AAAA
1 AAAA
27829764 TTAACAAAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 20
0.73 0.00 0.27
Matches are distributed among these distances:
7 11 0.21
8 23 0.43
9 12 0.23
11 5 0.09
12 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (8 bp):
AAAAATAT
Found at i:27830213 original size:9 final size:9
Alignment explanation
Indices: 27830194--27830359 Score: 65
Period size: 9 Copynumber: 17.6 Consensus size: 9
27830184 TTTTTATATG
27830194 TTTATATAAT
1 TTTA-ATAAT
27830204 TTTAATAAT
1 TTTAATAAT
27830213 TTTAAT-AT
1 TTTAATAAT
*
27830221 TCTTTATAAAT
1 T-TTAAT-AAT
27830232 TTTAATAATT
1 TTTAATAA-T
* *
27830242 TATTATTATTT
1 T-TTAATA-AT
*
27830253 TTTAAGAAT
1 TTTAATAAT
*
27830262 TATAATACAT
1 TTTAATA-AT
**
27830272 TTTTCTAAT
1 TTTAATAAT
27830281 TTTAA-ATAT
1 TTTAATA-AT
27830290 TTTAAATAAGT
1 TTT-AATAA-T
*
27830301 TTTATTAAT
1 TTTAATAAT
27830310 TTT-ATAAAT
1 TTTAAT-AAT
*
27830319 TCTTGTATAA-
1 T-TT-AATAAT
*
27830329 TTTATTAGAT
1 TTTAATA-AT
*
27830339 TTTTAT-AT
1 TTTAATAAT
27830347 TTT-ATAAT
1 TTTAATAAT
27830355 TTTAA
1 TTTAA
27830360 ATTTATATCA
Statistics
Matches: 117, Mismatches: 20, Indels: 39
0.66 0.11 0.22
Matches are distributed among these distances:
7 2 0.02
8 17 0.15
9 45 0.38
10 34 0.29
11 17 0.15
12 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTAATAAT
Found at i:27830220 original size:28 final size:28
Alignment explanation
Indices: 27830194--27830401 Score: 89
Period size: 30 Copynumber: 7.4 Consensus size: 28
27830184 TTTTTATATG
27830194 TTTATATAATTTTAATAATTTTAATATTC
1 TTTATA-AATTTTAATAATTTTAATATTC
* *
27830223 TTTATAAATTTTAATAATTTATTATTATTT
1 TTTATAAATTTTAATAA-TT-TTAATATTC
* ** *
27830253 TTTA-AGAATTATAATACATTTTTCTAAT-
1 TTTATA-AATTTTAATA-ATTTTAATATTC
* *
27830281 TTTA-AATATTTTAAATAAGTTTTATTAAT-
1 TTTATAA-ATTTT-AATAA-TTTTAATATTC
* * *
27830310 TTTATAAATTCTTGTATAATTTATTAGATT-
1 TTTATAAATT-TT-AATAATTT-TAATATTC
27830340 TTTAT--ATTTT-ATAATTTTAA-ATT-
1 TTTATAAATTTTAATAATTTTAATATTC
* * * *
27830363 TATATCAATTTTAATATTTTTTATATT-
1 TTTATAAATTTTAATAATTTTAATATTC
27830390 TTT-TAAAGTTTT
1 TTTATAAA-TTTT
27830402 TTTTAAGAAT
Statistics
Matches: 143, Mismatches: 21, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
23 7 0.05
24 2 0.01
25 12 0.08
26 11 0.08
27 12 0.08
28 24 0.17
29 36 0.25
30 38 0.27
31 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTATAAATTTTAATAATTTTAATATTC
Found at i:27834636 original size:13 final size:14
Alignment explanation
Indices: 27834600--27834636 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
27834590 TATGTCTATA
*
27834600 TATTTTAAA-AATT
1 TATTTTAAATTATT
27834613 TATTTTAAATTATT
1 TATTTTAAATTATT
27834627 TA-TTTAAATT
1 TATTTTAAATT
27834637 TAAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTTAAATTATT
Found at i:27834662 original size:32 final size:32
Alignment explanation
Indices: 27834603--27834664 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
27834593 GTCTATATAT
** *
27834603 TTTAAAAATTTATTTTAAATTATTTATTTAAA
1 TTTAAAAATTTATCATAAAATATTTATTTAAA
27834635 TTTAAAAA-TTATCATAAAATATATTATTTA
1 TTTAAAAATTTATCATAAAATAT-TTATTTA
27834665 TCTTAACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (32 bp):
TTTAAAAATTTATCATAAAATATTTATTTAAA
Found at i:27838114 original size:87 final size:87
Alignment explanation
Indices: 27838012--27838172 Score: 277
Period size: 87 Copynumber: 1.9 Consensus size: 87
27838002 TTTATTCAAA
** * *
27838012 CTAGAGGAGGGAATAAATATTTTATTACCTTCATTGATGATAGTACAAAATATTGCTATGTATAT
1 CTAGAGGAGAAAATAAATATTTTATTACCTTCATTAATGATAGTACAAAATATTGCTATATATAT
27838077 TTGCTTAAAAGCAAAGGTGACG
66 TTGCTTAAAAGCAAAGGTGACG
*
27838099 CTAGAGGAGAAAATAAATATTTTATTACCTTCATTAATGTTAGTACAAAATATTGCTATATATAT
1 CTAGAGGAGAAAATAAATATTTTATTACCTTCATTAATGATAGTACAAAATATTGCTATATATAT
27838164 TTGCTTAAA
66 TTGCTTAAA
27838173 GGAAATATGA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.36
Consensus pattern (87 bp):
CTAGAGGAGAAAATAAATATTTTATTACCTTCATTAATGATAGTACAAAATATTGCTATATATAT
TTGCTTAAAAGCAAAGGTGACG
Found at i:27841355 original size:10 final size:10
Alignment explanation
Indices: 27841341--27841393 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
27841331 AGTTTTTACT
27841341 TTTATTTATC
1 TTTATTTATC
* *
27841351 CTTATTTTTC
1 TTTATTTATC
*
27841361 TTTAATTATC
1 TTTATTTATC
27841371 TTTATTTAAT-
1 TTTATTT-ATC
*
27841381 TGTATTTATC
1 TTTATTTATC
27841391 TTT
1 TTT
27841394 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTATTTATC
Found at i:27842763 original size:46 final size:46
Alignment explanation
Indices: 27842708--27842885 Score: 186
Period size: 46 Copynumber: 3.8 Consensus size: 46
27842698 TAGGATGGTT
27842708 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * * *
27842754 GAGCGTCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
* *
27842800 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
27842847 GAACGC-T-CGAGCTCGTTGAGTTGATTCCAAGTTCACTTA
1 G-A-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27842886 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 62 0.57
47 32 0.29
48 5 0.05
50 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:27842869 original size:93 final size:93
Alignment explanation
Indices: 27842710--27842880 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
27842700 GGATGGTTGA
* *
27842710 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
27842775 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
27842803 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
*
27842867 TTGATTCCAAGTTC
65 TTGAGTCCAAGTTC
27842881 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:27843147 original size:19 final size:20
Alignment explanation
Indices: 27843110--27843147 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
27843100 ATAAGGTGGT
27843110 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
27843130 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
27843148 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:27853243 original size:13 final size:13
Alignment explanation
Indices: 27853222--27853303 Score: 66
Period size: 13 Copynumber: 6.2 Consensus size: 13
27853212 CCAACCTTTA
27853222 TTTTTATTTAT-T
1 TTTTTATTTATAT
27853234 TTTCTTATTT-TAT
1 TTT-TTATTTATAT
*
27853247 ATTTTATTTTACTAT
1 TTTTTA-TTTA-TAT
27853262 TTTATTATTT-TAT
1 TTT-TTATTTATAT
27853275 TATTTTATTT-TAT
1 T-TTTTATTTATAT
27853288 TTTATTATTTAT-T
1 TTT-TTATTTATAT
27853301 TTT
1 TTT
27853304 GGATATTGAT
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
12 9 0.15
13 36 0.61
14 3 0.05
15 8 0.14
16 3 0.05
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATTTATAT
Found at i:27853254 original size:5 final size:5
Alignment explanation
Indices: 27853218--27853293 Score: 54
Period size: 5 Copynumber: 15.2 Consensus size: 5
27853208 CAACCCAACC
* *
27853218 TTTAT TTT-T ATTTAT TTT-T CTTATT TTATAT TTTAT TTTA- -CTAT
1 TTTAT TTTAT -TTTAT TTTAT TTTA-T TT-TAT TTTAT TTTAT TTTAT
27853262 TTTAT TATT-T TATTAT TTTAT TTTAT TTTAT T
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT T
27853294 ATTTATTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
3 2 0.03
4 4 0.07
5 40 0.69
6 10 0.17
7 2 0.03
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:27853254 original size:21 final size:21
Alignment explanation
Indices: 27853219--27853297 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
27853209 AACCCAACCT
27853219 TTATTTT-TA-TTTATTTTTC
1 TTATTTTATATTTTATTTTTC
*
27853238 TTATTTTATATTTTATTTTAC
1 TTATTTTATATTTTATTTTTC
*
27853259 -TATTTTATTATTTTATTATT-
1 TTATTTTA-TATTTTATTTTTC
*
27853279 TTATTTTATTTTATTATTT
1 TTATTTTATATT-TTATTT
27853298 ATTTTTGGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 7 0.14
20 12 0.24
21 31 0.62
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (21 bp):
TTATTTTATATTTTATTTTTC
Found at i:27853262 original size:8 final size:8
Alignment explanation
Indices: 27853250--27853297 Score: 69
Period size: 8 Copynumber: 5.8 Consensus size: 8
27853240 ATTTTATATT
27853250 TTATTTTA
1 TTATTTTA
*
27853258 CTATTTTA
1 TTATTTTA
27853266 TTATTTTA
1 TTATTTTA
27853274 TTATTTTA
1 TTATTTTA
27853282 TTTTATTTTA
1 --TTATTTTA
27853292 TTATTT
1 TTATTT
27853298 ATTTTTGGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 28 0.78
10 8 0.22
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTTTA
Found at i:27855492 original size:26 final size:26
Alignment explanation
Indices: 27855463--27855647 Score: 129
Period size: 26 Copynumber: 7.3 Consensus size: 26
27855453 AAACGAAACA
* *
27855463 AAATAATATGTAAAGCAATTTAAAGT
1 AAATAATATGTAAAGAAATTTAAAAT
* *
27855489 AAATAAGA--TAAA-ATAATTTAAGAT
1 AAATAATATGTAAAGA-AATTTAAAAT
* *
27855513 AAATAATAAGTAAA-AAAATTAAAAT
1 AAATAATATGTAAAGAAATTTAAAAT
** * *
27855538 AAATAATATACAATGCAATTTAAAAT
1 AAATAATATGTAAAGAAATTTAAAAT
* * *
27855564 AAATAATATATATAA-TACTTTAAAAT
1 AAATAATATGTA-AAGAAATTTAAAAT
*
27855590 AACAT-ATA---AAAG-AGTTTAAAAT
1 AA-ATAATATGTAAAGAAATTTAAAAT
*
27855612 AAATAATATGTAAAATAAATTTAAAAT
1 AAATAATATGT-AAAGAAATTTAAAAT
27855639 AAATAATAT
1 AAATAATAT
27855648 ACAAAACAAA
Statistics
Matches: 126, Mismatches: 20, Indels: 25
0.74 0.12 0.15
Matches are distributed among these distances:
21 2 0.02
22 16 0.13
23 1 0.01
24 19 0.15
25 18 0.14
26 49 0.39
27 21 0.17
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (26 bp):
AAATAATATGTAAAGAAATTTAAAAT
Found at i:27855540 original size:25 final size:27
Alignment explanation
Indices: 27855490--27855545 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 27
27855480 ATTTAAAGTA
* *
27855490 AATAAGATAAAATAATTTAAGATAAAT
1 AATAAGATAAAATAAATTAAAATAAAT
27855517 AATAAG-TAAAA-AAATTAAAATAAAT
1 AATAAGATAAAATAAATTAAAATAAAT
27855542 AATA
1 AATA
27855546 TACAATGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 16 0.59
26 5 0.19
27 6 0.22
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (27 bp):
AATAAGATAAAATAAATTAAAATAAAT
Found at i:27855589 original size:22 final size:22
Alignment explanation
Indices: 27855564--27855613 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
27855554 AATTTAAAAT
* * *
27855564 AAATAATATATATAATACTTTA
1 AAATAACATATAAAAGACTTTA
*
27855586 AAATAACATATAAAAGAGTTTA
1 AAATAACATATAAAAGACTTTA
27855608 AAATAA
1 AAATAA
27855614 ATAATATGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (22 bp):
AAATAACATATAAAAGACTTTA
Found at i:27855659 original size:48 final size:49
Alignment explanation
Indices: 27855463--27855662 Score: 146
Period size: 49 Copynumber: 4.1 Consensus size: 49
27855453 AAACGAAACA
** * * * * *
27855463 AAATAATATGT-AAAGCAATTTAAAGTAAATAAGATAAAATAATTTAAGAT
1 AAATAATATGTAAAATAAATTTAAAATAAATAATATACAAGAA--TAAAAT
*
27855513 AAATAATAAGTAAAA-AAA-TTAAAATAAATAATATACAATGCAATTTAAAAT
1 AAATAATATGTAAAATAAATTTAAAATAAATAATATACAA-G-AA--TAAAAT
* * * *
27855564 AAATAATATATATAAT-ACTTTAAAATAACAT-ATA-A-AAGAGTTTAAAAT
1 AAATAATATGTAAAATAAATTTAAAATAA-ATAATATACAAGA--ATAAAAT
*
27855612 AAATAATATGTAAAATAAATTTAAAATAAATAATATACAA-AACAAAAT
1 AAATAATATGTAAAATAAATTTAAAATAAATAATATACAAGAATAAAAT
27855660 AAA
1 AAA
27855663 AGATATACAT
Statistics
Matches: 121, Mismatches: 17, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
48 31 0.26
49 32 0.26
50 16 0.13
51 28 0.23
52 12 0.10
53 2 0.02
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (49 bp):
AAATAATATGTAAAATAAATTTAAAATAAATAATATACAAGAATAAAAT
Found at i:27855660 original size:21 final size:21
Alignment explanation
Indices: 27855634--27855682 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
27855624 AAATAAATTT
27855634 AAAATAAATA-ATATACA-AAA
1 AAAATAAA-AGATATACATAAA
27855654 CAAAATAAAAGATATACATAAA
1 -AAAATAAAAGATATACATAAA
27855676 AAAATAA
1 AAAATAA
27855683 TTCGAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 1 0.04
21 22 0.85
22 3 0.12
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAATAAAAGATATACATAAA
Found at i:27855691 original size:101 final size:100
Alignment explanation
Indices: 27855496--27855732 Score: 246
Period size: 101 Copynumber: 2.3 Consensus size: 100
27855486 AGTAAATAAG
* * * ** **
27855496 ATAAAATAATTTAAGATAAATAATAAGTAAAA-AAATTAAAATAAATAATATACAATGCAATTTA
1 ATAAAATAGTTTAAAATAAATAATATGTAAAATAAATTAAAATAAATAATATACAAAACAAAATA
* * * * *
27855560 AAATAAATAATATATATAATACTTTAAAATAACAT-
66 AAAGAAATAATATAAAAAATAATTCAAAATAA-ATA
*
27855595 ATAAAAGAGTTTAAAATAAATAATATGTAAAATAAATTTAAAATAAATAATATACAAAACAAAAT
1 ATAAAATAGTTTAAAATAAATAATATGTAAAATAAA-TTAAAATAAATAATATACAAAACAAAAT
* *
27855660 AAAAGATATACATA-AAAAAATAATTCGAAATAAATA
65 AAAAGAAATA-ATATAAAAAATAATTCAAAATAAATA
*
27855696 ATATATAATAGTTTAAAATAAACTATATATATAAAAT
1 ATA-A-AATAGTTTAAAATAAA-TA-ATATGTAAAAT
27855733 TGGATAATAG
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
99 28 0.25
100 5 0.04
101 49 0.43
102 4 0.04
103 15 0.13
104 2 0.02
105 10 0.09
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (100 bp):
ATAAAATAGTTTAAAATAAATAATATGTAAAATAAATTAAAATAAATAATATACAAAACAAAATA
AAAGAAATAATATAAAAAATAATTCAAAATAAATA
Found at i:27855715 original size:17 final size:17
Alignment explanation
Indices: 27855695--27855758 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 17
27855685 CGAAATAAAT
27855695 AATATATAATAGTTTAA
1 AATATATAATAGTTTAA
* *
27855712 AATAAACTATATA-TATAA
1 AATATA-TA-ATAGTTTAA
27855730 AAT-TGGATAATAGTTTAA
1 AATAT--ATAATAGTTTAA
*
27855748 AATACATAATA
1 AATATATAATA
27855759 TATGAAAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
17 14 0.39
18 18 0.50
19 4 0.11
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (17 bp):
AATATATAATAGTTTAA
Found at i:27855772 original size:25 final size:25
Alignment explanation
Indices: 27855744--27855818 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
27855734 GGATAATAGT
*
27855744 TTAAAATACATAATATATGAAAAAC
1 TTAAAATAAATAATATATGAAAAAC
*
27855769 TTAAAATAAATAATA-ATGAAACAAT
1 TTAAAATAAATAATATATGAAA-AAC
*
27855794 TTAAAATAAATAATATGAGGAAAAA
1 TTAAAATAAATAATAT-ATGAAAAA
27855819 AGGTTTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
24 6 0.14
25 31 0.70
26 2 0.05
27 5 0.11
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.27
Consensus pattern (25 bp):
TTAAAATAAATAATATATGAAAAAC
Found at i:27857332 original size:44 final size:44
Alignment explanation
Indices: 27857242--27857334 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
27857232 ACAACTTTAG
* * * *
27857242 GGAGATGAGACTTGTAGCTTCGATTTACTCCAATGTAATTTCAA
1 GGAGAAGAGACTTGTAGCTTCGATCTACTCCAATGTAACTTAAA
* **
27857286 GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTAG-AACTTAAA
1 GGAGAAGAGACTTGTAGCTTCGATCTACTCCAAT-GTAACTTAAA
27857330 GGAGA
1 GGAGA
27857335 TAAGAATTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (44 bp):
GGAGAAGAGACTTGTAGCTTCGATCTACTCCAATGTAACTTAAA
Found at i:27857542 original size:45 final size:44
Alignment explanation
Indices: 27857478--27857593 Score: 115
Period size: 45 Copynumber: 2.6 Consensus size: 44
27857468 CCATGATTTG
* ** * *
27857478 TAGCTTCTATCTATTCCACTGTAACTTCAAGGAAATGAGATTTGC
1 TAGCTTCAATCTGCTCCACTGTAACTTCAAGGAAATAAGA-CTGC
* * * * * * *
27857523 TATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTGG
1 TAGCTTCAATCTGCTCCACTGTAACTTCAAGGAAATAAGACTGC
27857567 TAGCTTCAATCTGCTCCACTGTAACTT
1 TAGCTTCAATCTGCTCCACTGTAACTT
27857594 TAGAGAGATA
Statistics
Matches: 55, Mismatches: 16, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
44 25 0.45
45 30 0.55
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (44 bp):
TAGCTTCAATCTGCTCCACTGTAACTTCAAGGAAATAAGACTGC
Found at i:27857586 original size:44 final size:44
Alignment explanation
Indices: 27857534--27857749 Score: 162
Period size: 44 Copynumber: 4.7 Consensus size: 44
27857524 ATCTTCAGTT
27857534 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTCAATC
* * * * * *
27857578 TGCTCCACTGTAACTTTAGAGAGATAAGGTTCGCCATAATTTGTAGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAA-----G-----ACTGGTAGCTTCAATC
* * * * ** ** * * *
27857632 TGTTCTACTGCAACGTCAGGGAAATAAGATCTTCTATTTTTAGTT
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGTAGCTTCAATC
* *
27857677 TGCTCCGCTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTCAATC
27857721 TGCTCCACTGCAACTTCAGGGAGATAAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGA
27857750 TTCGCCATTA
Statistics
Matches: 128, Mismatches: 33, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
44 60 0.47
45 33 0.26
49 2 0.02
54 33 0.26
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTCAATC
Found at i:27857655 original size:143 final size:142
Alignment explanation
Indices: 27857391--27857757 Score: 488
Period size: 143 Copynumber: 2.6 Consensus size: 142
27857381 TGTGGCTTCC
** * *
27857391 TGCTCCACTGCAACTTCACAGAGATAAAGA-TTGTGGCTTCAATCTGCTTCACTGTAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGAT-AAGACTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGG
* * * * *
27857455 TAGATAAGATCCGCCATGATTTGTAGCTTCTATCTATTCCACTGTAACTTCAAGGAAATGAGAT-
65 -AGATAAGATTCGCCATAATTTGTAGCTTCTATCTATTCCACTGCAACGTCAAGGAAATAAGATC
27857519 TTGCTATCTTCAGTT
129 TT-CTATCTTCAGTT
* *
27857534 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTCAATCTGCTCCACTGTAACTTTAGAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGTAACTTCAG-G
* * * *
27857599 AGATAAGGTTCGCCATAATTTGTAGCTT-TAATCTGTTCTACTGCAACGTCAGGGAAATAAGATC
65 AGATAAGATTCGCCATAATTTGTAGCTTCT-ATCTATTCCACTGCAACGTCAAGGAAATAAGATC
* *
27857663 TTCTATTTTTAGTT
129 TTCTATCTTCAGTT
* *
27857677 TGCTCCGCTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGTAACTTCA-GG
27857742 AGATAAGATTCGCCAT
65 AGATAAGATTCGCCAT
27857758 TATAACCTCA
Statistics
Matches: 197, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
142 5 0.03
143 188 0.95
144 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (142 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGA
GATAAGATTCGCCATAATTTGTAGCTTCTATCTATTCCACTGCAACGTCAAGGAAATAAGATCTT
CTATCTTCAGTT
Found at i:27862614 original size:19 final size:20
Alignment explanation
Indices: 27862590--27862628 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
27862580 TTGTGACATT
*
27862590 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
27862609 CAATGCAGATGCATGAAATG
1 CAATGCAGATGCATGAAATG
27862629 AGTGCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:27865523 original size:92 final size:94
Alignment explanation
Indices: 27865354--27865523 Score: 256
Period size: 92 Copynumber: 1.8 Consensus size: 94
27865344 TTGTGTGTGA
*
27865354 GCCAGTGTAAGACATGTCTGGGACATGCATAAATCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATAAATCACATGATGAGAGCCAGTGTAAGACCATGTC
27865419 TGGGACATGGCATCGACATTGAGACGAGT
66 TGGGACATGGCATCGACATTGAGACGAGT
** * * *
27865448 GCCAGTGTAAGACATGTCTGGGACATGCATCGA-C-TATGA-GATGTGTCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATAAATCACATGATGA-GAGCCAGTGTAAGACCATGT
27865510 CTGGGACATGGCAT
65 CTGGGACATGGCAT
27865524 AGGCCTCGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
91 2 0.03
92 35 0.51
93 1 0.01
94 31 0.45
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATAAATCACATGATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACATTGAGACGAGT
Found at i:27865551 original size:92 final size:94
Alignment explanation
Indices: 27865402--27865573 Score: 226
Period size: 92 Copynumber: 1.9 Consensus size: 94
27865392 TTATGAGAGC
* * *
27865402 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGTGCCAGTGTAAGA-CATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATAGACATCGAGACGAGTGCCAGTGTAAGACCATATC
*
27865466 TGGGACAT-GCATCGACTATGAGATGTGT
66 TAGGACATGGCATCGACTATGAGATGTGT
* * * *
27865494 CAGTGTAAGACCATGTCTGGGACATGGCATAGGCCTCGAAGATGA-TAGGCAGT-TAAGACCATA
1 CAGTGTAAGACCATGTCTGGGACATGGCATAGACATCG-AGACGAGT-GCCAGTGTAAGACCATA
27865557 TCTAGGACATGGCATCG
64 TCTAGGACATGGCATCG
27865574 GCACCTTACC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 40 0.59
93 22 0.32
94 6 0.09
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATAGACATCGAGACGAGTGCCAGTGTAAGACCATATC
TAGGACATGGCATCGACTATGAGATGTGT
Found at i:27876208 original size:40 final size:39
Alignment explanation
Indices: 27876160--27876367 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 39
27876150 TCTTCGAAAT
* *
27876160 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
27876199 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
27876239 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
27876279 TTAGCCCGGATATAACAACTCA-CACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACT-AGCAC-AATGCCTTCGGGTC
* * *
27876319 TTAGCCCGGATATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
27876359 TTAGCCCGG
1 TTAGCCCGG
27876368 GTATCATTCA
Statistics
Matches: 144, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 4 0.03
40 137 0.95
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:27877643 original size:14 final size:15
Alignment explanation
Indices: 27877616--27877644 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27877606 AGGATGAAGC
27877616 TTTTCTTTTCTCTTT
1 TTTTCTTTTCTCTTT
27877631 TTTTCTTTT-TCTTT
1 TTTTCTTTTCTCTTT
27877645 CTAGTTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTCTCTTT
Found at i:27885277 original size:47 final size:47
Alignment explanation
Indices: 27885206--27885423 Score: 257
Period size: 46 Copynumber: 4.7 Consensus size: 47
27885196 TTGTGTGTGA
*
27885206 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGAGT
1 GCCAGTGTAAGACATGTCTAGGACATGGCATCAGCATTGAGACGAGT
* * *
27885253 GCCAGTATAAGACATGTCTAGGACAT-GCATTAGCATTGAAACGAGT
1 GCCAGTGTAAGACATGTCTAGGACATGGCATCAGCATTGAGACGAGT
* * **
27885299 GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATAAGT
1 GCCAGTGTAAGACATGTCTAGGACATGGCATCAGCATTGAGACGAGT
* * * * *
27885346 GCTAGTGTAAAACATGTCTAGGACAT-GCATCGGC-CTCAGA--ATGT
1 GCCAGTGTAAGACATGTCTAGGACATGGCATCAGCATTGAGACGA-GT
27885390 AAGCCAGTGTAAGACATGTCTAGGACATGGCATC
1 --GCCAGTGTAAGACATGTCTAGGACATGGCATC
27885424 GGCACGAATA
Statistics
Matches: 148, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
43 1 0.01
44 2 0.01
45 4 0.03
46 72 0.49
47 69 0.47
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTAGGACATGGCATCAGCATTGAGACGAGT
Found at i:27885399 original size:93 final size:92
Alignment explanation
Indices: 27885204--27885522 Score: 320
Period size: 93 Copynumber: 3.4 Consensus size: 92
27885194 ATTTGTGTGT
** * * *
27885204 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGAGTGCCAGTATAAGACATG
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATAAGTGCTAGTGTAAAACATG
** * *
27885269 TCTAGGACATGCATTAGCATTGAAACG-A
66 TCTAGGACATGCATCGGCCTCG-AA-GTA
* *
27885297 GTGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATAAGTGCTAGTGTAAAACATG
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATAAGTGCTAGTGTAAAACATG
27885362 TCTAGGACATGCATCGGCCTCAGAATGTA
66 TCTAGGACATGCATCGGCCTC-GAA-GTA
* * * * * * *
27885391 -AGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCA-CGAATATACGAGAGCTAATGTAAGAC
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATTG-AGATA--AGTGCTAGTGTAA-AA
* *
27885454 CATGTCTGGGACATAGTATCGGCCTCGAAGATGA
62 CATGTCTAGGACAT-GCATCGGCCTCGAAG-T-A
*
27885488 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATC
27885523 GGCACCTTAC
Statistics
Matches: 191, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
92 1 0.01
93 115 0.60
94 2 0.01
95 12 0.06
96 18 0.09
97 11 0.06
98 13 0.07
99 19 0.10
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (92 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATAAGTGCTAGTGTAAAACATG
TCTAGGACATGCATCGGCCTCGAAGTA
Found at i:27885466 original size:50 final size:48
Alignment explanation
Indices: 27885204--27885527 Score: 186
Period size: 47 Copynumber: 6.8 Consensus size: 48
27885194 ATTTGTGTGT
* * * *
27885204 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATTG-AGACGA
1 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAAGATGA
* * * * ** * *
27885251 GTGCCAGTATAAGA-CATGTCTAGGACAT-GCATTAGCATTGAA-ACGA
1 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAAGATGA
* * * * * *
27885297 GTGCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATTG-AGATAA
1 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAAGATGA
* * * * * **
27885344 GTGCTAGTGTAA-AACATGTCTAGGACAT-GCATCGGC-CTCAGAATGTA
1 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCACGAAG-ATG-A
* * *
27885391 -AGCCAGTGTAAGA-CATGTCTAGGACATGGCATCGGCACGAATATACGA
1 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCACGAAGAT--GA
* * * *
27885439 GAGCTAATGTAAGACCATGTCTGGGACATAGTATCGGCCTCGAAGATGA
1 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGG-CACGAAGATGA
* *
27885488 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAC
27885528 CTTACCCTAT
Statistics
Matches: 229, Mismatches: 33, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.01
46 74 0.32
47 76 0.33
48 5 0.02
49 46 0.20
50 19 0.08
51 7 0.03
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (48 bp):
GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCACGAAGATGA
Found at i:27885500 original size:49 final size:47
Alignment explanation
Indices: 27885205--27885525 Score: 235
Period size: 46 Copynumber: 6.8 Consensus size: 47
27885195 TTTGTGTGTG
* * * *
27885205 AGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGAGT
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGA-T
* * ** * * * *
27885253 -GCCAGTATAAGACATGTCTAGGACAT-GCATTAGCATTGAAACGAGT
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGA-T
* * * * *
27885299 -GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATAAGT
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGA-T
* * *
27885346 -GCTAGTGTAAAACATGTCTAGGACAT-GCATCGGCCTC-AGAATG-T
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAG-ATGAT
* * * *
27885390 AAGCCAGTGTAAGACATGTCTAGGACATGGCATCGG-CACGAATATACGAG
1 -AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG-AGAT--GAT
* * * *
27885440 AGCTAATGTAAGACCATGTCTGGGACATAGTATCGGCCTCGAAGATGAT
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCG-AGATGAT
27885489 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
27885526 ACCTTACCCT
Statistics
Matches: 227, Mismatches: 34, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
44 1 0.00
45 2 0.01
46 77 0.34
47 73 0.32
48 1 0.00
49 47 0.21
50 19 0.08
51 7 0.03
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGAT
Found at i:27887361 original size:50 final size:52
Alignment explanation
Indices: 27887282--27887391 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 52
27887272 AAACGAAACA
* * * * *
27887282 AAATAATATATAAAGCAAATTGAAGTAAATAAGATA-AAA-TAATTTAAGAT
1 AAATAATACATAAAACAAATTAAAATAAATAAGATACAAAGTAATTTAAAAT
* *
27887332 AAATAATACGTAAAACAAATTAAAATAAATAATATACAAAGTAATTTAAAAT
1 AAATAATACATAAAACAAATTAAAATAAATAAGATACAAAGTAATTTAAAAT
27887384 AAATAATA
1 AAATAATA
27887392 TATATAATAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 30 0.59
51 3 0.06
52 18 0.35
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (52 bp):
AAATAATACATAAAACAAATTAAAATAAATAAGATACAAAGTAATTTAAAAT
Found at i:27887405 original size:26 final size:26
Alignment explanation
Indices: 27887282--27887549 Score: 123
Period size: 26 Copynumber: 10.4 Consensus size: 26
27887272 AAACGAAACA
* * * * *
27887282 AAATAATATATAAAGCAAATTGAAGT
1 AAATAATATACAAAGTAATTTAAAAT
* *
27887308 AAATAAGATA-AAA-TAATTTAAGAT
1 AAATAATATACAAAGTAATTTAAAAT
* *
27887332 AAATAATACGTA-AAA-CAAATTAAAAT
1 AAATAATA--TACAAAGTAATTTAAAAT
27887358 AAATAATATACAAAGTAATTTAAAAT
1 AAATAATATACAAAGTAATTTAAAAT
* *
27887384 AAATAATATATATAA-TACTTTAAAAT
1 AAATAATATACA-AAGTAATTTAAAAT
* *
27887410 AGCAT-A-A-A-AAAG-AGTTT-AAAT
1 A-AATAATATACAAAGTAATTTAAAAT
* *
27887431 AAATAATATGTAAAAAGAAATTTAAAAT
1 AAATAATA--TACAAAGTAATTTAAAAT
** *
27887459 AAATAATATACAAAACAACTTAAAAT
1 AAATAATATACAAAGTAATTTAAAAT
* *
27887485 AAA-AGATATACATAAAAAAATAATTTGAAAT
1 AAATA-ATATAC-----AAAGTAATTTAAAAT
* *
27887516 AAATAATATA-TAA-TAGTTTAAAAT
1 AAATAATATACAAAGTAATTTAAAAT
*
27887540 AAACAATATA
1 AAATAATATA
27887550 TATAATTGGA
Statistics
Matches: 191, Mismatches: 29, Indels: 46
0.72 0.11 0.17
Matches are distributed among these distances:
20 2 0.01
21 6 0.03
22 7 0.04
23 1 0.01
24 34 0.18
25 11 0.06
26 89 0.47
27 8 0.04
28 12 0.06
31 20 0.10
32 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (26 bp):
AAATAATATACAAAGTAATTTAAAAT
Found at i:27887518 original size:101 final size:100
Alignment explanation
Indices: 27887324--27887507 Score: 228
Period size: 101 Copynumber: 1.8 Consensus size: 100
27887314 GATAAAATAA
** *
27887324 TTTAAGATAAATAATACGTAAAACAAATTAAAATAAATAATATACAAAGTAATTTAAAATAAATA
1 TTTAAGATAAATAATACGTAAAACAAATTAAAATAAATAATATACAAAACAACTTAAAATAAATA
* * *** *
27887389 ATATATATAATACTTTAAAATAGCATAAAAAAGAG
66 ATATACATAAAAAAATAAAATAGAATAAAAAAGAG
* *
27887424 TTTAA-ATAAATAATATGTAAAAAGAAATTTAAAATAAATAATATACAAAACAACTTAAAATAAA
1 TTTAAGATAAATAATACGT-AAAACAAA-TTAAAATAAATAATATACAAAACAACTTAAAATAAA
27887488 -AGATATACATAAAAAAATAA
64 TA-ATATACATAAAAAAATAA
27887508 TTTGAAATAA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
99 12 0.17
100 13 0.18
101 46 0.65
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (100 bp):
TTTAAGATAAATAATACGTAAAACAAATTAAAATAAATAATATACAAAACAACTTAAAATAAATA
ATATACATAAAAAAATAAAATAGAATAAAAAAGAG
Found at i:27887539 original size:24 final size:24
Alignment explanation
Indices: 27887503--27887556 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
27887493 TACATAAAAA
* *
27887503 AATAATTTGAAATAAATAATATAT
1 AATAATTTAAAATAAACAATATAT
*
27887527 AATAGTTTAAAATAAACAATATAT
1 AATAATTTAAAATAAACAATATAT
27887551 -ATAATT
1 AATAATT
27887557 GGATAATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (24 bp):
AATAATTTAAAATAAACAATATAT
Found at i:27887595 original size:25 final size:26
Alignment explanation
Indices: 27887567--27887633 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 26
27887557 GGATAATAGT
*
27887567 TTAAAATACATAATATGTGAAAC-AC
1 TTAAAATAAATAATATGTGAAACAAC
* *
27887592 TTAAAATAAATAATA-ATGAAACAAT
1 TTAAAATAAATAATATGTGAAACAAC
27887617 TTAAAATAAATAATATG
1 TTAAAATAAATAATATG
27887634 AGGAAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 6 0.17
25 30 0.83
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (26 bp):
TTAAAATAAATAATATGTGAAACAAC
Found at i:27887631 original size:28 final size:28
Alignment explanation
Indices: 27887586--27887661 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 28
27887576 ATAATATGTG
* *
27887586 AAACACTTAAAATAAAT-A-ATAATGAA
1 AAACATTTAAAATAAATAATATAAGGAA
* *
27887612 ACA-ATTTAAAATAAATAATATGAGGAA
1 AAACATTTAAAATAAATAATATAAGGAA
*
27887639 AAACATTTAAAATGAATAA-ATAA
1 AAACATTTAAAATAAATAATATAA
27887662 CAAATTTGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
25 12 0.30
26 3 0.08
27 11 0.28
28 14 0.35
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (28 bp):
AAACATTTAAAATAAATAATATAAGGAA
Found at i:27890384 original size:99 final size:99
Alignment explanation
Indices: 27890204--27890387 Score: 251
Period size: 99 Copynumber: 1.9 Consensus size: 99
27890194 TAAATTCTTT
* * * * *
27890204 TTAGGAATATGTTGGATTGAGTAACTGGGGCAGGGTGCTTAGCTGTCATCACTCTTCGCGTCAAA
1 TTAGGAATATGTTGGACTGAGTAACCGGGGCAGGGTACTTAGCTATCATCACTCTTCGCATCAAA
** *
27890269 AGGTTCGTTATGTTCTTAAGAAAAATATAATAAA
66 AGGTTCAATATATTCTTAAGAAAAATATAATAAA
* ** * *
27890303 TTAGGAGTATGTTGGACTGAGTAACCGGGGTGGGGTACTTGGCTATCATCTCTCTTCGCATCAAA
1 TTAGGAATATGTTGGACTGAGTAACCGGGGCAGGGTACTTAGCTATCATCACTCTTCGCATCAAA
27890368 AGGTTCAATATATTCTTAAG
66 AGGTTCAATATATTCTTAAG
27890388 CAATAATAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
99 72 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (99 bp):
TTAGGAATATGTTGGACTGAGTAACCGGGGCAGGGTACTTAGCTATCATCACTCTTCGCATCAAA
AGGTTCAATATATTCTTAAGAAAAATATAATAAA
Found at i:27890448 original size:7 final size:8
Alignment explanation
Indices: 27890419--27890447 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
27890409 AAAAAAAAGG
27890419 GAAAAATA
1 GAAAAATA
27890427 GAAAAATA
1 GAAAAATA
27890435 GAAAAA-A
1 GAAAAATA
27890442 GAAAAA
1 GAAAAA
27890448 AAATGATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (8 bp):
GAAAAATA
Found at i:27891098 original size:10 final size:10
Alignment explanation
Indices: 27891083--27891140 Score: 73
Period size: 10 Copynumber: 5.8 Consensus size: 10
27891073 AATTTTAGCT
27891083 TTTATCTTTA
1 TTTATCTTTA
27891093 TTTATCTTTA
1 TTTATCTTTA
*
27891103 TTTATCCTTA
1 TTTATCTTTA
*
27891113 TTCATCTTTA
1 TTTATCTTTA
*
27891123 TTTAAT-TGTA
1 TTT-ATCTTTA
27891133 TTTATCTT
1 TTTATCTT
27891141 CTAGAATGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 2 0.05
10 36 0.90
11 2 0.05
ACGTcount: A:0.21, C:0.12, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:27894349 original size:12 final size:12
Alignment explanation
Indices: 27894332--27894370 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
27894322 AAAAAATATG
27894332 TTATTTTTTTAT
1 TTATTTTTTTAT
27894344 TTATTTTTTTAAT
1 TTATTTTTTT-AT
*
27894357 GTTACTTTTTTAT
1 -TTATTTTTTTAT
27894370 T
1 T
27894371 GTTTTTTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 11 0.46
13 4 0.17
14 9 0.38
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (12 bp):
TTATTTTTTTAT
Found at i:27895956 original size:8 final size:8
Alignment explanation
Indices: 27895943--27895987 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
27895933 AAAACAGATT
27895943 AAATCGAA
1 AAATCGAA
27895951 AAATCGAA
1 AAATCGAA
*
27895959 TAAACCGAA
1 -AAATCGAA
*
27895968 AAATTGAA
1 AAATCGAA
27895976 TAAATCGAA
1 -AAATCGAA
27895985 AAA
1 AAA
27895988 ATTCAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 17 0.55
9 14 0.45
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.16
Consensus pattern (8 bp):
AAATCGAA
Found at i:27895962 original size:17 final size:17
Alignment explanation
Indices: 27895942--27895987 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
27895932 GAAAACAGAT
27895942 TAAATCGAAAAATCGAA
1 TAAATCGAAAAATCGAA
* *
27895959 TAAACCGAAAAATTGAA
1 TAAATCGAAAAATCGAA
27895976 TAAATCGAAAAA
1 TAAATCGAAAAA
27895988 ATTCAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.17
Consensus pattern (17 bp):
TAAATCGAAAAATCGAA
Found at i:27895980 original size:9 final size:9
Alignment explanation
Indices: 27895942--27895989 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
27895932 GAAAACAGAT
27895942 TAAATCGAA
1 TAAATCGAA
27895951 -AAATCGAA
1 TAAATCGAA
*
27895959 TAAACCGAA
1 TAAATCGAA
*
27895968 -AAATTGAA
1 TAAATCGAA
27895976 TAAATCGAA
1 TAAATCGAA
*
27895985 AAAAT
1 TAAAT
27895990 TCAATTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
8 14 0.44
9 18 0.56
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.19
Consensus pattern (9 bp):
TAAATCGAA
Found at i:27902563 original size:31 final size:31
Alignment explanation
Indices: 27902525--27902605 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
27902515 GTCAGCACAT
27902525 ACTGGGCCGAAGCCTTTACATTATTCATACC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
* *
27902556 ACTGGGCCGAAGCCTTTTCATTATTCATATC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
* *
27902587 ACTAGGCCGAAACCTTTAC
1 ACTGGGCCGAAGCCTTTAC
27902606 TGTAAACAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTACATTATTCATACC
Found at i:27902927 original size:10 final size:10
Alignment explanation
Indices: 27902914--27902948 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
27902904 ATATATGTAT
27902914 ATATCATGGC
1 ATATCATGGC
27902924 ATATCATGTGC
1 ATATCATG-GC
27902935 ATATCATGGC
1 ATATCATGGC
27902945 ATAT
1 ATAT
27902949 TATGTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:27902961 original size:21 final size:21
Alignment explanation
Indices: 27902902--27902961 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
27902892 CCCAACCAAT
*
27902902 GCATA-TATGTATATATCATG
1 GCATATTATGTACATATCATG
* *
27902922 GCATATCATGTGCATATCATG
1 GCATATTATGTACATATCATG
*
27902943 GCATATTATGTACAAATCA
1 GCATATTATGTACATATCA
27902962 GTATCACATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
GCATATTATGTACATATCATG
Found at i:27906011 original size:42 final size:44
Alignment explanation
Indices: 27905940--27906029 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 44
27905930 TCTTACATGT
27905940 AATCAAATATCGATACCACTGTCCCAGACAAGATCCTACACG-A
1 AATCAAATATCGATACCACTGTCCCAGACAAGATCCTACACGTA
* * * * *
27905983 AATCAAATAT-GATGCCGA-TGTCCTAGACATGGTCTTACACGTA
1 AATCAAATATCGATACC-ACTGTCCCAGACAAGATCCTACACGTA
27906026 AATC
1 AATC
27906030 TCAAATCGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 24 0.60
43 16 0.40
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (44 bp):
AATCAAATATCGATACCACTGTCCCAGACAAGATCCTACACGTA
Found at i:27906029 original size:43 final size:44
Alignment explanation
Indices: 27905917--27906079 Score: 122
Period size: 43 Copynumber: 3.8 Consensus size: 44
27905907 CAATGCCAAC
* * *
27905917 GTCCCAAACGTGGTCTTACATGT-AATCAAATATCGATACCACT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCACT
* * * *
27905960 GTCCCAGACAAGATCCTACACG-AAATCAAATAT-GATGCCGA-T
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACC-ACT
* * * *
27906002 GTCCTAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATC-AAATATCGATACCACT
* * ** *
27906046 GTCTCAAATGTGGTCTTACATG-AAATCAAATATC
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATC
27906080 AGAATCCTAT
Statistics
Matches: 94, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
42 26 0.28
43 43 0.46
44 25 0.27
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCACT
Found at i:27912912 original size:34 final size:34
Alignment explanation
Indices: 27912869--27912942 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
27912859 CATTTATAAA
*
27912869 CATTTCAACCATAAAACTAACTTACCAAAAAGAC
1 CATTTCAACCACAAAACTAACTTACCAAAAAGAC
27912903 CATTTCAACCACAAAACTAACTTACCAAAAAGAC
1 CATTTCAACCACAAAACTAACTTACCAAAAAGAC
27912937 CATTTC
1 CATTTC
27912943 TCACTAGGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.22
Consensus pattern (34 bp):
CATTTCAACCACAAAACTAACTTACCAAAAAGAC
Found at i:27913683 original size:43 final size:42
Alignment explanation
Indices: 27913569--27913731 Score: 138
Period size: 43 Copynumber: 3.8 Consensus size: 42
27913559 TACAATGCCA
** *
27913569 ATGTCCCAGATGTGGTCTTACATGT-AATCAAATATCGATACC
1 ATGTCCCAGACATGGTCTTACACGTAAATCAAATA-CGATACC
* *
27913611 ACTGTCCCAGACA-GGATCTTACA-GGAAATCAAATACGATTCC
1 A-TGTCCCAGACATGG-TCTTACACGTAAATCAAATACGATACC
* *
27913653 GATGTCCCAGACATGGTTTTACACGTAAATCTCAAAT-CGATGCC
1 -ATGTCCCAGACATGGTCTTACACGTAAA--TCAAATACGATACC
* * *
27913697 AACGTCCCAAACGTGGTCTTACACG-AAATCAAATA
1 -ATGTCCCAGACATGGTCTTACACGTAAATCAAATA
27913732 TCAGAATCCT
Statistics
Matches: 100, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
41 6 0.06
42 27 0.27
43 35 0.35
44 26 0.26
45 6 0.06
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACACGTAAATCAAATACGATACC
Found at i:27918278 original size:13 final size:13
Alignment explanation
Indices: 27918260--27918287 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27918250 CTGGACTTCC
27918260 TCACACGGGCGTG
1 TCACACGGGCGTG
27918273 TCACACGGGCGTG
1 TCACACGGGCGTG
27918286 TC
1 TC
27918288 CATTTGGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:27922031 original size:29 final size:28
Alignment explanation
Indices: 27921997--27922099 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
27921987 TACTCAATCA
*
27921997 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
27922026 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
27922055 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
27922084 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
27922100 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:27930044 original size:29 final size:28
Alignment explanation
Indices: 27930010--27930112 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
27930000 TACTCAATCA
*
27930010 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
27930039 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
27930068 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
27930097 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
27930113 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:27940089 original size:29 final size:28
Alignment explanation
Indices: 27940055--27940157 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
27940045 TACTCAATCA
*
27940055 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
27940084 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
27940113 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
27940142 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
27940158 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:27943150 original size:29 final size:28
Alignment explanation
Indices: 27943060--27943151 Score: 98
Period size: 28 Copynumber: 3.3 Consensus size: 28
27943050 ACACCTATAT
* *
27943060 ATATGGCCCACTA-GCCCAATCTC-TTCC
1 ATATGGCCCATTAGGCCCAATCACATT-C
* * *
27943087 ATATGGCCCATTAGACCCATTCACATTT
1 ATATGGCCCATTAGGCCCAATCACATTC
*
27943115 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCACATTC
27943144 ATATGGCC
1 ATATGGCC
27943152 ACTATTTACA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 12 0.23
28 23 0.44
29 17 0.33
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.27
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:27950601 original size:10 final size:10
Alignment explanation
Indices: 27950586--27950647 Score: 124
Period size: 10 Copynumber: 6.2 Consensus size: 10
27950576 ATTTGCATTA
27950586 GTAGCAATTC
1 GTAGCAATTC
27950596 GTAGCAATTC
1 GTAGCAATTC
27950606 GTAGCAATTC
1 GTAGCAATTC
27950616 GTAGCAATTC
1 GTAGCAATTC
27950626 GTAGCAATTC
1 GTAGCAATTC
27950636 GTAGCAATTC
1 GTAGCAATTC
27950646 GT
1 GT
27950648 TATTTTTCTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 52 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (10 bp):
GTAGCAATTC
Found at i:27950721 original size:52 final size:52
Alignment explanation
Indices: 27950660--27950763 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
27950650 TTTTTCTAGT
27950660 TAGGTGATTTCTTCAATTCAATCTCGATTCTAACCTTTTCTTTCAGCTTGTG
1 TAGGTGATTTCTTCAATTCAATCTCGATTCTAACCTTTTCTTTCAGCTTGTG
27950712 TAGGTGATTTCTTCAATTCAATCTCGATTCTAACCTTTTCTTTCAGCTTGTG
1 TAGGTGATTTCTTCAATTCAATCTCGATTCTAACCTTTTCTTTCAGCTTGTG
27950764 ACCATACTCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (52 bp):
TAGGTGATTTCTTCAATTCAATCTCGATTCTAACCTTTTCTTTCAGCTTGTG
Found at i:27954943 original size:27 final size:27
Alignment explanation
Indices: 27954909--27954975 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
27954899 TACCCTGGTT
*
27954909 TGTAAAATTACTGAAATACCCTTGTAG
1 TGTAAAATTACTGAAATACCCCTGTAG
27954936 TGTAAAATTACTGAAATACCCCTGTAG
1 TGTAAAATTACTGAAATACCCCTGTAG
* *
27954963 GGTAAAATGACTG
1 TGTAAAATTACTG
27954976 TTTGCCCTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACTGAAATACCCCTGTAG
Found at i:27955326 original size:32 final size:32
Alignment explanation
Indices: 27955279--27955342 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
27955269 CCATATGGGT
* * *
27955279 TTGATTCTGATATGGGCTAGGTCCAATTGATA
1 TTGATTATGAGATGGGCTAGGCCCAATTGATA
27955311 TTGATTATGAGATGGGCTAGGCCCAATTGATA
1 TTGATTATGAGATGGGCTAGGCCCAATTGATA
27955343 CTGTGATGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (32 bp):
TTGATTATGAGATGGGCTAGGCCCAATTGATA
Found at i:27959394 original size:12 final size:11
Alignment explanation
Indices: 27959371--27959414 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
27959361 TAAGTCTAAG
*
27959371 AAAATAACAAT
1 AAAATAAAAAT
27959382 AAACATAAAAAT
1 AAA-ATAAAAAT
*
27959394 AAAACTAAAACT
1 AAAA-TAAAAAT
27959406 AAAATAAAA
1 AAAATAAAA
27959415 CAAATGGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:27961120 original size:26 final size:24
Alignment explanation
Indices: 27961062--27961145 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 24
27961052 ACATATAACT
* *
27961062 AAAAATAAAATAATCACAAATAATA
1 AAAAATAAAATAAT-ATAACTAATA
27961087 AACAAATAAAATAATATAACTAATA
1 AA-AAATAAAATAATATAACTAATA
27961112 AGAATAAT-AAATAA-ATAAC-AATA
1 A-AA-AATAAAATAATATAACTAATA
27961135 ATAAAATAAAA
1 A-AAAATAAAA
27961146 CAATTGGTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
22 3 0.06
23 10 0.19
24 5 0.10
25 18 0.35
26 16 0.31
ACGTcount: A:0.71, C:0.06, G:0.01, T:0.21
Consensus pattern (24 bp):
AAAAATAAAATAATATAACTAATA
Found at i:27961128 original size:17 final size:16
Alignment explanation
Indices: 27961079--27961144 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 16
27961069 AAATAATCAC
*
27961079 AAATAATAAACAAATA
1 AAATAATAAATAAATA
27961095 AAATAATATAACT-AATA
1 AAATAATA-AA-TAAATA
27961112 AGAATAATAAATAAATA
1 A-AATAATAAATAAATA
27961129 ACAATAATAAAATAAA
1 A-AATAAT-AAATAAA
27961145 ACAATTGGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.21
17 20 0.47
18 14 0.33
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (16 bp):
AAATAATAAATAAATA
Found at i:27970569 original size:11 final size:11
Alignment explanation
Indices: 27970553--27970577 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27970543 AATATGTTAA
27970553 AATAATTAATT
1 AATAATTAATT
27970564 AATAATTAATT
1 AATAATTAATT
27970575 AAT
1 AAT
27970578 CATGAAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATAATTAATT
Found at i:27980824 original size:27 final size:27
Alignment explanation
Indices: 27980780--27980833 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
27980770 ATTTGTTTAG
* *
27980780 GGTTTAGGGATTTTAAAAAATATATTAA
1 GGTTTAGGAATTTAAAAAAATA-ATTAA
27980808 GGTTTA-GAATTTAAAAAAATAATTAA
1 GGTTTAGGAATTTAAAAAAATAATTAA
27980834 TTAAATTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 13 0.54
28 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (27 bp):
GGTTTAGGAATTTAAAAAAATAATTAA
Found at i:27980894 original size:32 final size:33
Alignment explanation
Indices: 27980823--27980899 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
27980813 AGAATTTAAA
27980823 AAAATAATTAATTAAATTAGGGTTTATAGTTTTT
1 AAAA-AATTAATTAAATTAGGGTTTATAGTTTTT
27980857 AAAAAATTAATTAAATTAGGG-TT-TAGTCTTTT
1 AAAAAATTAATTAAATTAGGGTTTATAGT-TTTT
27980889 AAAAAA-TAATT
1 AAAAAATTAATT
27980900 TTGTGTTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
31 9 0.21
32 12 0.29
33 17 0.40
34 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.43
Consensus pattern (33 bp):
AAAAAATTAATTAAATTAGGGTTTATAGTTTTT
Found at i:27981468 original size:124 final size:125
Alignment explanation
Indices: 27980986--27981505 Score: 684
Period size: 126 Copynumber: 4.2 Consensus size: 125
27980976 TTATTTTTTA
* * ** * * * *
27980986 TTTTTTTACAGTAGTTTCTGAAAATTTAATTTTGAGAAAACAGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * * *
27981051 ACGGTTCAAGTAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACACTT
65 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTC
* *
27981112 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * *
27981177 ATGCTTCATGCAAGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCTCACATGGACGCTC
65 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTC
* * *
27981238 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAAAAGACGATTATGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
*
27981303 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTATTGAAAAAAGCTCCCACATGGACGCTC
65 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTC
* * *
27981364 TTTTTCTACAGTAATTCCT-AAAAATAATTTTGAGAAGATGGTTCTAAAAAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
* ** * *
27981428 TGCTTCAAGCAGGATGCATTG-CAGCAAAATTACTGAAAAAAGCTCCCATGTGTATGCTC
66 TGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTC
*
27981487 TTTTTTTACAGTAGTTCCT
1 TTTTTCTACAGTAGTTCCT
27981506 GTTTGGCCTT
Statistics
Matches: 347, Mismatches: 47, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
123 50 0.14
124 60 0.17
126 237 0.68
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
TGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTC
Found at i:27982840 original size:15 final size:15
Alignment explanation
Indices: 27982820--27982858 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
27982810 TAATTCTATT
27982820 ATTACTTAATGTTGC
1 ATTACTTAATGTTGC
27982835 ATTACTTAATGTTGC
1 ATTACTTAATGTTGC
27982850 ATTACTTAA
1 ATTACTTAA
27982859 CGTACTTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (15 bp):
ATTACTTAATGTTGC
Found at i:27987850 original size:40 final size:39
Alignment explanation
Indices: 27987700--27987852 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
27987690 AAATGTTCGA
* *
27987700 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
27987739 GTGACATCCGGGCTAAGCCTGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
27987778 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
27987817 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
27987853 GGTTACCATA
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:27987868 original size:40 final size:39
Alignment explanation
Indices: 27987701--27987883 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
27987691 AATGTTCGAG
* * *
27987701 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
27987740 TGACATCCGGGCTAAGCCTGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
27987779 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
27987818 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
27987858 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
27987884 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 85 0.67
40 41 0.33
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:28000856 original size:18 final size:19
Alignment explanation
Indices: 28000820--28000856 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
28000810 AGGTGAGAGC
28000820 AGATATTTTGTAAAATATAT
1 AGATATTTTGT-AAATATAT
28000840 AGATATTTTGT-AATATA
1 AGATATTTTGTAAATATA
28000857 AAAATAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (19 bp):
AGATATTTTGTAAATATAT
Found at i:28004326 original size:20 final size:22
Alignment explanation
Indices: 28004283--28004326 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
28004273 CTTTTAAGAC
* *
28004283 TATTTTAAAAATAATATTTGAT
1 TATTTTAAAAATAATAATTAAT
28004305 TATTTT-AAAA-AATAATTAAT
1 TATTTTAAAAATAATAATTAAT
28004325 TA
1 TA
28004327 CATTAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 4 0.20
22 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TATTTTAAAAATAATAATTAAT
Found at i:28006176 original size:29 final size:31
Alignment explanation
Indices: 28006112--28006182 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 31
28006102 ATTAATTTTT
28006112 TATTTTATTATTTTGAAAGGGATTAAATATA
1 TATTTTATTATTTTGAAAGGGATTAAATATA
* *
28006143 TATTTT-TTATTTT-TAATGGATTAAAGTATA
1 TATTTTATTATTTTGAAAGGGATTAAA-TATA
28006173 -ATTTTATTAT
1 TATTTTATTAT
28006183 ATATTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 15 0.42
30 15 0.42
31 6 0.17
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTTTATTATTTTGAAAGGGATTAAATATA
Found at i:28009562 original size:27 final size:25
Alignment explanation
Indices: 28009518--28009573 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 25
28009508 TATAAGAAAA
28009518 AAAAATTCTAAAAGAAAACTC-AAG
1 AAAAATTCTAAAAGAAAACTCAAAG
28009542 AAAAATTCTTGAAAAGAAAAACTCAAAG
1 AAAAATTC-T-AAAAG-AAAACTCAAAG
28009570 AAAA
1 AAAA
28009574 TTTATTAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.29
25 1 0.04
26 5 0.18
27 7 0.25
28 7 0.25
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.16
Consensus pattern (25 bp):
AAAAATTCTAAAAGAAAACTCAAAG
Found at i:28012816 original size:46 final size:46
Alignment explanation
Indices: 28012763--28013031 Score: 307
Period size: 46 Copynumber: 5.8 Consensus size: 46
28012753 TATTTGGGCA
*
28012763 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
28012809 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
*
28012854 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
28012902 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
* * *
28012947 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *
28012995 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28013032 GCGGGTTACA
Statistics
Matches: 189, Mismatches: 20, Indels: 28
0.80 0.08 0.12
Matches are distributed among these distances:
43 12 0.06
45 8 0.04
46 92 0.49
47 58 0.31
48 8 0.04
50 11 0.06
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
Found at i:28012897 original size:93 final size:93
Alignment explanation
Indices: 28012759--28013023 Score: 485
Period size: 93 Copynumber: 2.8 Consensus size: 93
28012749 GGGATATTTG
28012759 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
28012824 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
28012852 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
28012917 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * *
28012945 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
28013010 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
28013024 ACTTATGGGC
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 167 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:28015335 original size:3 final size:3
Alignment explanation
Indices: 28015327--28015391 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
28015317 AGACTACATT
28015327 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
28015375 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
28015392 CAACCACCAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:28016743 original size:34 final size:34
Alignment explanation
Indices: 28016705--28016770 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
28016695 ATTCAAAAGT
28016705 ATAAGGTAAAACTAATTGTTAAAAGATTCACTGA
1 ATAAGGTAAAACTAATTGTTAAAAGATTCACTGA
*
28016739 ATAAGGTAAAACTAGTTGTTAAAAGATTCACT
1 ATAAGGTAAAACTAATTGTTAAAAGATTCACT
28016771 CAGAAATTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (34 bp):
ATAAGGTAAAACTAATTGTTAAAAGATTCACTGA
Found at i:28021177 original size:47 final size:46
Alignment explanation
Indices: 28021020--28021192 Score: 176
Period size: 49 Copynumber: 3.7 Consensus size: 46
28021010 TATAATGCTA
* * ** *
28021020 ATGCCATGTCCTAGACATGGTCTTACACTGGCTATCAAAATCG-AGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-A-C-ATCTCGTA-GCCG
*
28021069 ATTCCATGTCCCAGACATGGTCTTACACTAGCACATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACATCTCGTAGCCG
*
28021115 ATG-CATGTCCCAGACAT-GTCTTACACTAGTAC-TCGTC-TCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACATC-TCGT--A-GCCG
28021161 ATGCCATGTCCCAGACATGGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
28021193 TCACAATAAC
Statistics
Matches: 108, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.03
44 16 0.15
45 15 0.14
46 16 0.15
47 16 0.15
48 13 0.12
49 29 0.27
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACATCTCGTAGCCG
Done.