Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 21 of 59
Found at i:7640550 original size:35 final size:35
Alignment explanation
Indices: 7640510--7640600 Score: 132
Period size: 35 Copynumber: 2.6 Consensus size: 35
7640500 CCAACACTGT
7640510 GTGAAGTATAGCTTCACTTATTATAGTTGTTCTAC
1 GTGAAGTATAGCTTCACTTATTATAGTTGTTCTAC
* *
7640545 GTGAAGT-TGAGCTTCACTTATTCTAGTTGTTTTAC
1 GTGAAGTAT-AGCTTCACTTATTATAGTTGTTCTAC
7640580 GTGAAGTAGTA-CTTCACTTAT
1 GTGAAGTA-TAGCTTCACTTAT
7640601 AATGGTTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
34 1 0.02
35 48 0.94
36 1 0.02
37 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (35 bp):
GTGAAGTATAGCTTCACTTATTATAGTTGTTCTAC
Found at i:7653534 original size:63 final size:63
Alignment explanation
Indices: 7653452--7653575 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 63
7653442 AGTCATCTTT
* *
7653452 CTCTCTCAACTCTCCGAACTGTCTCAACTCTGCCAACTCTCTGTTGAGCACCATCATCATCAA
1 CTCTCTCAACTCTCCGAACTGTATCAACTCTACCAACTCTCTGTTGAGCACCATCATCATCAA
* * * * * * *
7653515 CTCTCTCAGCTCTCTGAACTGTATGAGCTCTATCAACTCTTTGTTGAGCACCATCGTCATC
1 CTCTCTCAACTCTCCGAACTGTATCAACTCTACCAACTCTCTGTTGAGCACCATCATCATC
7653576 GGGCTGTGGT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.22, C:0.35, G:0.12, T:0.31
Consensus pattern (63 bp):
CTCTCTCAACTCTCCGAACTGTATCAACTCTACCAACTCTCTGTTGAGCACCATCATCATCAA
Found at i:7653967 original size:31 final size:30
Alignment explanation
Indices: 7653932--7654164 Score: 247
Period size: 31 Copynumber: 7.5 Consensus size: 30
7653922 GTGTCAGCGT
* *
7653932 TGGCGAGTTACCATAGTTTACATTATATGCA
1 TGGCGAGTTACCACA-TTTACGTTATATGCA
*
7653963 TGGCGTGTTACCACATTTGACGTTATATGCA
1 TGGCGAGTTACCACATTT-ACGTTATATGCA
* *
7653994 CGGCGTGTTACCACATTTGACGTTATATGCA
1 TGGCGAGTTACCACATTT-ACGTTATATGCA
*
7654025 TGGC-ATGTTACCACATTTTACGATATATGCA
1 TGGCGA-GTTACCACA-TTTACGTTATATGCA
* *
7654056 TGACGTGTTACCACATTTGACGTTATATGCA
1 TGGCGAGTTACCACATTT-ACGTTATATGCA
* *
7654087 TGGC-ATGTTACCATATTTTAAGTTATATGCA
1 TGGCGA-GTTACCACA-TTTACGTTATATGCA
*
7654118 TGGCGTA-TTACCACATTTTACGTCATATGCA
1 TGGCG-AGTTACCACA-TTTACGTTATATGCA
*
7654149 TGGCGTGTTACCACAT
1 TGGCGAGTTACCACAT
7654165 GACTGACAAA
Statistics
Matches: 174, Mismatches: 18, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
30 7 0.04
31 160 0.92
32 6 0.03
33 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (30 bp):
TGGCGAGTTACCACATTTACGTTATATGCA
Found at i:7654006 original size:62 final size:62
Alignment explanation
Indices: 7653932--7654164 Score: 324
Period size: 62 Copynumber: 3.8 Consensus size: 62
7653922 GTGTCAGCGT
* * * * *
7653932 TGGCGAGTTACCATAGTTT-ACATTATATGCATGGCGTGTTACCACATTTGACGTTATATGCA
1 TGGCGTGTTACCACA-TTTGACGTTATATGCATGGCATGTTACCACATTTTACGTTATATGCA
* *
7653994 CGGCGTGTTACCACATTTGACGTTATATGCATGGCATGTTACCACATTTTACGATATATGCA
1 TGGCGTGTTACCACATTTGACGTTATATGCATGGCATGTTACCACATTTTACGTTATATGCA
* * *
7654056 TGACGTGTTACCACATTTGACGTTATATGCATGGCATGTTACCATATTTTAAGTTATATGCA
1 TGGCGTGTTACCACATTTGACGTTATATGCATGGCATGTTACCACATTTTACGTTATATGCA
* * * *
7654118 TGGCGTATTACCACATTTTACGTCATATGCATGGCGTGTTACCACAT
1 TGGCGTGTTACCACATTTGACGTTATATGCATGGCATGTTACCACAT
7654165 GACTGACAAA
Statistics
Matches: 152, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
61 3 0.02
62 149 0.98
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (62 bp):
TGGCGTGTTACCACATTTGACGTTATATGCATGGCATGTTACCACATTTTACGTTATATGCA
Found at i:7654076 original size:93 final size:93
Alignment explanation
Indices: 7653938--7654164 Score: 332
Period size: 93 Copynumber: 2.4 Consensus size: 93
7653928 GCGTTGGCGA
* * *
7653938 GTTACCATAGTTTAC-ATTATATGCATGGCGTGTTACCACATTTGACGTTATATGCACGGCGTGT
1 GTTACCACATTTTACGA-TATATGCATGGCGTGTTACCACATTTGACGTTATATGCACGGCATGT
*
7654002 TACCACATTTGACGTTATATGCATGGCAT
65 TACCACATTTGAAGTTATATGCATGGCAT
* *
7654031 GTTACCACATTTTACGATATATGCATGACGTGTTACCACATTTGACGTTATATGCATGGCATGTT
1 GTTACCACATTTTACGATATATGCATGGCGTGTTACCACATTTGACGTTATATGCACGGCATGTT
* * *
7654096 ACCATATTTTAAGTTATATGCATGGCGT
66 ACCACATTTGAAGTTATATGCATGGCAT
*
7654124 ATTACCACATTTTACG-TCATATGCATGGCGTGTTACCACAT
1 GTTACCACATTTTACGAT-ATATGCATGGCGTGTTACCACAT
7654165 GACTGACAAA
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 119 0.98
94 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (93 bp):
GTTACCACATTTTACGATATATGCATGGCGTGTTACCACATTTGACGTTATATGCACGGCATGTT
ACCACATTTGAAGTTATATGCATGGCAT
Found at i:7657956 original size:117 final size:117
Alignment explanation
Indices: 7657587--7658183 Score: 761
Period size: 117 Copynumber: 5.1 Consensus size: 117
7657577 TATTCTAAGC
* * *
7657587 TGACACAC-GAGTGCATGCAGATTTCTATGGTGACACGCTGACTTCTTGCAT-TATTGTGGGGTG
1 TGACACGCTGAGTGCATGAAGATTTCTGTGGTGACACGCTGACTTCTTGC-TGTATTGTGGGGTG
* * * * * *
7657650 ACATGGCATGCCTCATCTTGTGGCGACACGCTGAGTGGAAGCAGATAGTTGGTG
65 ACACGGCATGCCCCA-ATTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCG
* * * * ** *
7657704 TGACATGTTGAGTGCAT-ACAGATTTTTGTGATGACACATTGACTTCTTGCAGTATTGTGGGGTG
1 TGACACGCTGAGTGCATGA-AGATTTCTGTGGTGACACGCTGACTTCTTGCTGTATTGTGGGGTG
* * * * **
7657768 ACATGGCACGCCCCATCTTGTGGTGACACGTTGAGTGGAAGCAGATGGTTGGCG
65 ACACGGCATGCCCCA-ATTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCG
*
7657822 TGACACGCTGAGTGCATGAAGATTTCTGTGGTGACATGCTGACTTCTTGCTGTATTGTGGGGTGA
1 TGACACGCTGAGTGCATGAAGATTTCTGTGGTGACACGCTGACTTCTTGCTGTATTGTGGGGTGA
*
7657887 CACGGCATGCCCCAATTGTGGTGACACGCTGAGTGGAAACAGATACTTGGCG
66 CACGGCATGCCCCAATTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCG
** * * * * *
7657939 TGACACATTGAGTGCATGCAA-ATTTCTGTGGTGATACGTTGATTTCTTGTTTTATTGTGGGGTG
1 TGACACGCTGAGTGCATG-AAGATTTCTGTGGTGACACGCTGACTTCTTGCTGTATTGTGGGGTG
* * * *
7658003 ACACGACATGCCCCAATTGTGGTGACAAGTTGAGTGGAAGCAGATACTTGACG
65 ACACGGCATGCCCCAATTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCG
* * * *
7658056 TGACACGCTAAGTTCATGTAGATTTCTGTGGTGACACACTGACTTCTTGCTGTATTGTGGGGTGA
1 TGACACGCTGAGTGCATGAAGATTTCTGTGGTGACACGCTGACTTCTTGCTGTATTGTGGGGTGA
*
7658121 CACGGCATGCCCCAATTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGTG
66 CACGGCATGCCCCAATTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCG
7658173 TGACACGCTGA
1 TGACACGCTGA
7658184 CTTGTTCCAA
Statistics
Matches: 413, Mismatches: 61, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
116 1 0.00
117 248 0.60
118 163 0.39
119 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (117 bp):
TGACACGCTGAGTGCATGAAGATTTCTGTGGTGACACGCTGACTTCTTGCTGTATTGTGGGGTGA
CACGGCATGCCCCAATTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCG
Found at i:7660468 original size:145 final size:145
Alignment explanation
Indices: 7660314--7660584 Score: 382
Period size: 145 Copynumber: 1.9 Consensus size: 145
7660304 AGCACTGTGC
* *
7660314 GTCTAAAGAGGACCTCTCAATGGTTGAGAAGCTGTCGTCGCATGGTCCAACTGCAAACACAGA-A
1 GTCTAAAGAGGACCTATCAATGGTTGAGAAGCTGTCATCGCATGGTCCAACTGCAAACACAGATA
* *
7660378 GTGTTATTCAATAATCACATATGGAATTGTTGAACACAAACCGTTATAACCGTTCTTACCGGTTC
66 -TGTTATTCAATAATCACATATGGAATTGTTGAACACAAACCGTTAGAACCGTCCTTACCGGTTC
7660443 CTCATTAGCATCATGA
130 CTCATTAGCATCATGA
* ** * * * *
7660459 GTCTGAAGAGGACCTATCGGTGGTTGTGGAGTTGTCATCGCATGGTCTAACTGCAAACACAGATA
1 GTCTAAAGAGGACCTATCAATGGTTGAGAAGCTGTCATCGCATGGTCCAACTGCAAACACAGATA
* * * * *
7660524 TGTTATTCGATTATCACATATGGAATTGTTTAACACAAACCTTTAGAACTGTCCTTACCGG
66 TGTTATTCAATAATCACATATGGAATTGTTGAACACAAACCGTTAGAACCGTCCTTACCGG
7660585 CTCTTCACTA
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
145 108 0.99
146 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (145 bp):
GTCTAAAGAGGACCTATCAATGGTTGAGAAGCTGTCATCGCATGGTCCAACTGCAAACACAGATA
TGTTATTCAATAATCACATATGGAATTGTTGAACACAAACCGTTAGAACCGTCCTTACCGGTTCC
TCATTAGCATCATGA
Found at i:7661997 original size:31 final size:31
Alignment explanation
Indices: 7661962--7662288 Score: 530
Period size: 31 Copynumber: 10.5 Consensus size: 31
7661952 GTTAACCCAT
*
7661962 AATGTGGTAACACGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* *
7661993 AATGTGGTAACACGCCATGCATATAATGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
7662024 AATGTTGTAACACGCCATGCATATAAAGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
7662055 AATGTAGTAACACGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
7662086 AATGTTGTAGCACGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* *
7662117 AATGTGGTAACACGTCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
7662148 AATGTTGTAACACGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* *
7662179 AATGTTGTAACACGCCATGCAGATAACATAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
7662210 AATGTGGTAACACGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
7662241 AATGTTGTAACACGCCATGCATATCAA-GTCA
1 AATGTTGTAACACGCCATGCATAT-AACGTAA
7662272 AATGTTGTAACACGCCA
1 AATGTTGTAACACGCCA
7662289 ACGCTGACAT
Statistics
Matches: 276, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
31 274 0.99
32 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (31 bp):
AATGTTGTAACACGCCATGCATATAACGTAA
Found at i:7662612 original size:31 final size:31
Alignment explanation
Indices: 7662577--7662841 Score: 406
Period size: 31 Copynumber: 8.5 Consensus size: 31
7662567 GTTAACCCAT
*
7662577 AATGTGGTAACACGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* * * *
7662608 AATGTGGTAACATGCTATGCATATAATGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
7662639 AATGTTGTAACTCGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* *
7662670 AATGTGGTAACACGCCATGCATATAACATAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
7662701 AATGTTGTAACAAGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
7662732 AATGTGGTAACACGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
7662763 AATGTTGTAACACGCCATGTATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
7662794 AATGTTGTAACACGCCATGCATATCAA-GTCA
1 AATGTTGTAACACGCCATGCATAT-AACGTAA
7662825 AATGTTGTAACACGCCA
1 AATGTTGTAACACGCCA
7662842 ACCCTGACAC
Statistics
Matches: 213, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
31 211 0.99
32 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (31 bp):
AATGTTGTAACACGCCATGCATATAACGTAA
Found at i:7663556 original size:47 final size:47
Alignment explanation
Indices: 7663506--7663905 Score: 476
Period size: 47 Copynumber: 8.5 Consensus size: 47
7663496 GAGTCTAACA
* * * * ** *
7663506 AACTCTAAACACTGGCATGTCACAGATTGCCTCCATGGCAAGTCACA
1 AACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACC
* *
7663553 AACTCTGAACGCTGACGTGTCACAGATTCCCTCCATGGCGTGTCACT
1 AACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACC
* **
7663600 AACTCTGAACCCTGGAATGTCACAGATTCCCTCCATGGCGTGTCACC
1 AACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACC
* * * * ** *
7663647 AACTCTGAACTCTGGCGTGTCACAGATTCCCCCCATGGCTTATTGCG
1 AACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACC
* * *
7663694 AACTCTAAACGCTGGCGTATCACAGATTCCTTCCATGGCGTGTCACC
1 AACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACC
* * * * * **
7663741 AACTTTAAACGCTGGAGTCTCACAGATTCCCCCCATGGCGTGTCATA
1 AACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACC
***
7663788 AACTCTGAACGCTAATGTGTCACAGATTCCCTCCATGGCGTGTCACC
1 AACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACC
* * *
7663835 AACTCTGAACTCTGGCATGTCACAGATTTCCTCCATGGCGTGTCACC
1 AACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACC
*
7663882 AACTCTGAACTCTGGCGTGTCACA
1 AACTCTGAACGCTGGCGTGTCACA
7663906 AACTCTAAAT
Statistics
Matches: 298, Mismatches: 55, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 298 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (47 bp):
AACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACC
Found at i:7663596 original size:23 final size:23
Alignment explanation
Indices: 7663568--7663645 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
7663558 TGAACGCTGA
7663568 CGTGTCACAGATTCCCTCCATGG
1 CGTGTCACAGATTCCCTCCATGG
* *** *
7663591 CGTGTCACTA-ACTCTGAACCCTGG
1 CGTGTCAC-AGATTC-CCTCCATGG
**
7663615 AATGTCACAGATTCCCTCCATGG
1 CGTGTCACAGATTCCCTCCATGG
7663638 CGTGTCAC
1 CGTGTCAC
7663646 CAACTCTGAA
Statistics
Matches: 38, Mismatches: 14, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
23 23 0.61
24 15 0.39
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.26
Consensus pattern (23 bp):
CGTGTCACAGATTCCCTCCATGG
Found at i:7663832 original size:23 final size:23
Alignment explanation
Indices: 7663804--7663880 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
7663794 GAACGCTAAT
*
7663804 GTGTCACAGATTCCCTCCATGGC
1 GTGTCACAGATTACCTCCATGGC
*
7663827 GTGTCACCA-ACTCTGAACT-C-TGGC
1 GTGTCA-CAGA-T-T-ACCTCCATGGC
* *
7663851 ATGTCACAGATTTCCTCCATGGC
1 GTGTCACAGATTACCTCCATGGC
7663874 GTGTCAC
1 GTGTCAC
7663881 CAACTCTGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 2 0.05
22 2 0.05
23 20 0.49
24 13 0.32
25 2 0.05
26 2 0.05
ACGTcount: A:0.19, C:0.32, G:0.21, T:0.27
Consensus pattern (23 bp):
GTGTCACAGATTACCTCCATGGC
Found at i:7663855 original size:24 final size:24
Alignment explanation
Indices: 7663823--7663928 Score: 87
Period size: 24 Copynumber: 4.5 Consensus size: 24
7663813 ATTCCCTCCA
7663823 TGGCGTGTCACCAACTCTGAACTC
1 TGGCGTGTCACCAACTCTGAACTC
* **
7663847 TGGCATGTCA-CAGA-T-T-TCCTCC
1 TGGCGTGTCACCA-ACTCTGAACT-C
7663869 ATGGCGTGTCACCAACTCTGAACTC
1 -TGGCGTGTCACCAACTCTGAACTC
* *
7663894 TGGCGTGTCACAAACTCT-AAATCC
1 TGGCGTGTCACCAACTCTGAACT-C
*
7663918 TGCCGTGTCAC
1 TGGCGTGTCAC
7663929 AGCCCTGTCA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
21 2 0.03
22 2 0.03
23 16 0.25
24 41 0.63
25 2 0.03
26 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (24 bp):
TGGCGTGTCACCAACTCTGAACTC
Found at i:7663964 original size:23 final size:23
Alignment explanation
Indices: 7663934--7663986 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
7663924 GTCACAGCCC
* *
7663934 TGTCACACATTCCCACCATGTCG
1 TGTCACACATTCCCAACATGCCG
*
7663957 TGTCACACATTCTCAACATGCCG
1 TGTCACACATTCCCAACATGCCG
*
7663980 TTTCACA
1 TGTCACA
7663987 AACTCTAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.36, G:0.11, T:0.28
Consensus pattern (23 bp):
TGTCACACATTCCCAACATGCCG
Found at i:7664638 original size:23 final size:23
Alignment explanation
Indices: 7664586--7664630 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7664576 GTCACAGCCC
* *
7664586 TGTCACACATTCCCACCATGTCA
1 TGTCACACATTCCCAACATGCCA
*
7664609 TGTCACACATTCCTAACATGCC
1 TGTCACACATTCCCAACATGCC
7664631 GTTTCACAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.38, G:0.09, T:0.27
Consensus pattern (23 bp):
TGTCACACATTCCCAACATGCCA
Found at i:7665139 original size:652 final size:651
Alignment explanation
Indices: 7663895--7665198 Score: 2452
Period size: 652 Copynumber: 2.0 Consensus size: 651
7663885 TCTGAACTCT
*
7663895 GGCGTGTCACAAACTCTAAATCCTGCCGTGTCACAGCCCTGTCACACATTCCCACCATGTCGTGT
1 GGCGTGTCACAAACTCTAAATCCTGCCGTGTCACAGCCCTGTCACACATTCCCACCATGTCATGT
7663960 CACACATTCTCAACATGCCGTTTCACAAACTCTAAACCCTGCCCTGCCACACCCATCTCACATAT
66 CACACATTCTCAACATGCCGTTTCACAAACTCTAAACCCTGCCCTGCCACACCCATCTCACATAT
7664025 GGCCTACTGTAACACGACCATTTCGTGCTTTGGATTCACATCTTTCTTCTTTCGATTCACCACTG
131 GGCCTACTGTAACACGACCATTTCGTGCTTTGGATTCACATCTTTCTTCTTTCGATTCACCACTG
7664090 TATTAGGGATTTCTGGTTTCACATCATTCTCCAAGCTTTCGATTCATCACGACCAGTTCCTCGTT
196 TATTAGGGATTTCTGGTTTCACATCATTCTCCAAGCTTTCGATTCATCACGACCAGTTCCTCGTT
7664155 CGATTTAATATCATTCTTTTCCTATTATCTGAATGCCATGTCTAAAATCTCTGAAAAATCATCTC
261 CGATTTAATATCATTCTTTTCCTATTATCTGAATGCCATGTCTAAAATCTCTGAAAAATCATCTC
7664220 ATACAACATTATTTTGTTTTGCACAAGCTTCGCGAAAAAAAGGATGTTTTGCACAAAATTAGATG
326 ATACAACATTATTTTGTTTTGCACAAGCTTCGCGAAAAAAAGGATGTTTTGCACAAAATTAGATG
7664285 TTCGCAATTTCTTTACATATTTATTTTCTCATTTTTCGTCTGTTTGAGAGAGCGCTTCAACGAAG
391 TTCGCAATTTCTTTACATATTTATTTTCTCATTTTTCGTCTGTTTGAGAGAGCGCTTCAACGAAG
* * * *
7664350 ATGGCTCATTAAAGGCATTTTTGTCTCAAAATCTATTCTTGTGACTAAAAACAATTAAAATTATC
456 ATGGCTCATTAAAGGCATTTTTATCCCAAAATCTATTCTCGTGACTAAAAACAATTAAAAATATC
7664415 TAAAAACTTATTTACAAAAACACGTTATTTTTAAGGGCTAAAAAAAAATTTTCCTCTTTTCTAAT
521 TAAAAACTTATTTACAAAAACACGTTATTTTTAAGGGCTAAAAAAAAATTTTCCTCTTTTCTAAT
7664480 TTATGTCATCAAAAATAGCAAAAAACTAAAGTATAGCGTAGAAAAGATGTGTTGACTTGGTAGTT
586 TTATGTCATCAAAAATAGCAAAAAACTAAAGTATAGCGTAGAAAAGATGTGTTGACTTGGTAGTT
7664545 G
651 G
7664546 GNGCGTGTCACAAACTCTAAATCCTGCCGTGTCACAGCCCTGTCACACATTCCCACCATGTCATG
1 G-GCGTGTCACAAACTCTAAATCCTGCCGTGTCACAGCCCTGTCACACATTCCCACCATGTCATG
7664611 TCACACATTC-CTAACATGCCGTTTCACAAACTCTAAACCCTGCCCTGCCACACCCATCTCACAT
65 TCACACATTCTC-AACATGCCGTTTCACAAACTCTAAACCCTGCCCTGCCACACCCATCTCACAT
7664675 ATGGCCTACTGTAACACGACCATTTCGTGCTTTGGATTCACATCTTTC-TCGTTTCGATTCACCA
129 ATGGCCTACTGTAACACGACCATTTCGTGCTTTGGATTCACATCTTTCTTC-TTTCGATTCACCA
7664739 CTGTATTAGGGATTTCTGGTTTCACATCATTCTCCAAGCTTTCGATTCATCACGACCAGTTCCTC
193 CTGTATTAGGGATTTCTGGTTTCACATCATTCTCCAAGCTTTCGATTCATCACGACCAGTTCCTC
7664804 GTTCGATTTAATATCATTCTTTTCCTATTATCTGAATGCCATGTCTAAAATCTCTGAAAAATCAT
258 GTTCGATTTAATATCATTCTTTTCCTATTATCTGAATGCCATGTCTAAAATCTCTGAAAAATCAT
7664869 CTCATACAACATTATTTTGTTTTGCACAAGCTTCGCGAAAAAAAGGATGTTTTGCACAAAATTAG
323 CTCATACAACATTATTTTGTTTTGCACAAGCTTCGCGAAAAAAAGGATGTTTTGCACAAAATTAG
7664934 ATGTTCGCAATTTCTTTACATATTTATTTTCTCATTTTTCGTCTGTTTGAGAGAGCGCTTCAACG
388 ATGTTCGCAATTTCTTTACATATTTATTTTCTCATTTTTCGTCTGTTTGAGAGAGCGCTTCAACG
* *
7664999 AAGATGGCTCATTAAAGGCATTTTTATCCCAAAATCTATTCTCGTGGCTAAAAACAGTTAAAAAT
453 AAGATGGCTCATTAAAGGCATTTTTATCCCAAAATCTATTCTCGTGACTAAAAACAATTAAAAAT
* ***
7665064 ATCCT-GACGGTTATTTACAAAAACACGTTATTTTTAAGGGCTAAAAAAAAATTTTCCTCTTTTC
518 AT-CTAAAAACTTATTTACAAAAACACGTTATTTTTAAGGGCTAAAAAAAAATTTTCCTCTTTTC
7665128 TAATTTATGTCATCAAAAATAGCAAAAAACTAAAGTATAGCGTAGAAAAGATGTGTTGACTTGGT
582 TAATTTATGTCATCAAAAATAGCAAAAAACTAAAGTATAGCGTAGAAAAGATGTGTTGACTTGGT
7665193 AGTTG
647 AGTTG
7665198 G
1 G
7665199 AGTCTTCTCC
Statistics
Matches: 638, Mismatches: 11, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
651 4 0.01
652 632 0.99
653 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (651 bp):
GGCGTGTCACAAACTCTAAATCCTGCCGTGTCACAGCCCTGTCACACATTCCCACCATGTCATGT
CACACATTCTCAACATGCCGTTTCACAAACTCTAAACCCTGCCCTGCCACACCCATCTCACATAT
GGCCTACTGTAACACGACCATTTCGTGCTTTGGATTCACATCTTTCTTCTTTCGATTCACCACTG
TATTAGGGATTTCTGGTTTCACATCATTCTCCAAGCTTTCGATTCATCACGACCAGTTCCTCGTT
CGATTTAATATCATTCTTTTCCTATTATCTGAATGCCATGTCTAAAATCTCTGAAAAATCATCTC
ATACAACATTATTTTGTTTTGCACAAGCTTCGCGAAAAAAAGGATGTTTTGCACAAAATTAGATG
TTCGCAATTTCTTTACATATTTATTTTCTCATTTTTCGTCTGTTTGAGAGAGCGCTTCAACGAAG
ATGGCTCATTAAAGGCATTTTTATCCCAAAATCTATTCTCGTGACTAAAAACAATTAAAAATATC
TAAAAACTTATTTACAAAAACACGTTATTTTTAAGGGCTAAAAAAAAATTTTCCTCTTTTCTAAT
TTATGTCATCAAAAATAGCAAAAAACTAAAGTATAGCGTAGAAAAGATGTGTTGACTTGGTAGTT
G
Found at i:7666300 original size:19 final size:21
Alignment explanation
Indices: 7666264--7666313 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
7666254 TAATAAAAGT
*
7666264 ATTTTTATATTAACATTTTA-
1 ATTTTTAAATTAACATTTTAG
*
7666284 ATTTTTAAATT-ATATTTTAG
1 ATTTTTAAATTAACATTTTAG
*
7666304 ATTTTAAAAT
1 ATTTTTAAAT
7666314 ATTTATTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTTAAATTAACATTTTAG
Found at i:7668993 original size:134 final size:134
Alignment explanation
Indices: 7668846--7669103 Score: 507
Period size: 134 Copynumber: 1.9 Consensus size: 134
7668836 GGACAAAATC
*
7668846 TATATATACACGGAATGATTTTGATTTTCGGAGGATGATTATATCTATGCGTAGTTGCAATGAAG
1 TATATATACACGGAATGATTTTGATTTTCGGAGGATGATTATATCTATGCGTAGTTGCAATGAAA
7668911 CTTAAAATATCAAAATGTTCAAAACATACCACAATGCTTAATAGAAAAATAAGTTAATATATATA
66 CTTAAAATATCAAAATGTTCAAAACATACCACAATGCTTAATAGAAAAATAAGTTAATATATATA
7668976 TATA
131 TATA
7668980 TATATATACACGGAATGATTTTGATTTTCGGAGGATGATTATATCTATGCGTAGTTGCAATGAAA
1 TATATATACACGGAATGATTTTGATTTTCGGAGGATGATTATATCTATGCGTAGTTGCAATGAAA
7669045 CTTAAAATATCAAAATGTTCAAAACATACCACAATGCTTAATAGAAAAATAAGTTAATA
66 CTTAAAATATCAAAATGTTCAAAACATACCACAATGCTTAATAGAAAAATAAGTTAATA
7669104 ATTCCAATAG
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 123 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (134 bp):
TATATATACACGGAATGATTTTGATTTTCGGAGGATGATTATATCTATGCGTAGTTGCAATGAAA
CTTAAAATATCAAAATGTTCAAAACATACCACAATGCTTAATAGAAAAATAAGTTAATATATATA
TATA
Found at i:7669153 original size:134 final size:133
Alignment explanation
Indices: 7668868--7669141 Score: 372
Period size: 134 Copynumber: 2.0 Consensus size: 133
7668858 GAATGATTTT
*
7668868 GATTTTCGGAGGATGATTATATCTATGCGTAGTTGCAATGAAGCTTAAAATATCAAAATGTTCAA
1 GATTTTCGGA-GATGATTATATCTATGCGTAGTTGCAATGAAACTTAAAATATCAAAATGTTCAA
* * * * * *
7668933 AACATACCACAATGCTTAATAGAAAAATAAGTTAATATATATATATATATATATACACGGAATGA
65 AACATACCACAATGCTTAATAGAAAAATAAGTTAATATATATATAGATAGAAATACAAGCAAAGA
** *
7668998 TTTT
130 GATA
7669002 GATTTTCGGAGGATGATTATATCTATGCGTAGTTGCAATGAAACTTAAAATATCAAAATGTTCAA
1 GATTTTCGGA-GATGATTATATCTATGCGTAGTTGCAATGAAACTTAAAATATCAAAATGTTCAA
* *
7669067 AACATACCACAATGCTTAATAGAAAAATAAGTTAATA-AT-TCCAATAGATAGAAATAGAATCAA
65 AACATACCACAATGCTTAATAGAAAAATAAGTTAATATATAT---ATAGATAGAAATACAAGCAA
7669130 AGTAGATA
127 AG-AGATA
7669138 GATT
1 GATT
7669142 GTTTTAATGA
Statistics
Matches: 124, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
132 1 0.01
133 2 0.02
134 101 0.81
135 14 0.11
136 6 0.05
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (133 bp):
GATTTTCGGAGATGATTATATCTATGCGTAGTTGCAATGAAACTTAAAATATCAAAATGTTCAAA
ACATACCACAATGCTTAATAGAAAAATAAGTTAATATATATATAGATAGAAATACAAGCAAAGAG
ATA
Found at i:7672928 original size:88 final size:88
Alignment explanation
Indices: 7672779--7672954 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
7672769 TTACTCGATT
7672779 TATATGAATTGATTTTATTTGATTGAAATCAGTTGAAAGGTAATGAAATTACAGTATGATGACTT
1 TATATGAATTGATTTTATTTGATTGAAATCAGTTGAAAGGTAATGAAATTACAGTATGATGACTT
7672844 ATTTTAATTGTCTCCATTTACTC
66 ATTTTAATTGTCTCCATTTACTC
7672867 TATATGAATTGATTTTATTTGATTGAAATCAGTTGAAAGGTAATGAAATTACAGTATGATGACTT
1 TATATGAATTGATTTTATTTGATTGAAATCAGTTGAAAGGTAATGAAATTACAGTATGATGACTT
7672932 ATTTTAATTGTCTCCATTTACTC
66 ATTTTAATTGTCTCCATTTACTC
7672955 GACTTTAGAT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (88 bp):
TATATGAATTGATTTTATTTGATTGAAATCAGTTGAAAGGTAATGAAATTACAGTATGATGACTT
ATTTTAATTGTCTCCATTTACTC
Found at i:7678267 original size:40 final size:38
Alignment explanation
Indices: 7678202--7678307 Score: 131
Period size: 38 Copynumber: 2.7 Consensus size: 38
7678192 CTCATCTAGC
* * *
7678202 TCATATGCATCCCCCCACATTGTGCACATAGTCGGAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACA-A-TCAGAGTCA
* * *
7678242 TCGTGTGCATCCCCCCACATCGTGCACAATTAGTGTCA
1 TCATGTGCATCCCCCCACATCGTGCACAATCAGAGTCA
*
7678280 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
7678308 CGGGCACTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 32 0.55
39 1 0.02
40 25 0.43
ACGTcount: A:0.24, C:0.36, G:0.16, T:0.25
Consensus pattern (38 bp):
TCATGTGCATCCCCCCACATCGTGCACAATCAGAGTCA
Found at i:7680533 original size:35 final size:35
Alignment explanation
Indices: 7680508--7680763 Score: 302
Period size: 35 Copynumber: 7.3 Consensus size: 35
7680498 TTAATTGTTT
7680508 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * * *
7680543 AATTTAATTAATTAAGCCTAACAATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
*
7680578 AATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
1 AA-TTTAATCAATTAGGCCCAATAACTTAATTAAAC
****
7680614 AAATTTAATCAATTAGGCCCAATAACTTAATTGTTT
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
7680650 AATTTAATTAATTAGGCCTAATGACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
7680685 AATTTAATTAATTAGGCCCAATGATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* *
7680720 AATTTAATTAATTAGG--C-ACAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
7680752 AATTTCAATCAA
1 AATTT-AATCAA
7680764 GTGCTTGAGA
Statistics
Matches: 189, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
32 17 0.09
33 6 0.03
35 109 0.58
36 55 0.29
37 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
Found at i:7680625 original size:107 final size:105
Alignment explanation
Indices: 7680508--7680756 Score: 351
Period size: 107 Copynumber: 2.4 Consensus size: 105
7680498 TTAATTGTTT
*
7680508 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCTAACAATTTAAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCTAACAACTTAAT
7680573 TAAACAATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
66 TAAACAA-TTTAATCAATTAGGCCCAATGACTTAATTAAAC
**** * **
7680614 AAATTTAATCAATTAGGCCCAATAACTTAATTGTTTAATTTAATTAATTAGGCCTAATGACTTAA
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCTAACAACTTAA
* *
7680679 TTAAACAATTTAATTAATTAGGCCCAATGATTTAATTAAAC
65 TTAAACAATTTAATCAATTAGGCCCAATGACTTAATTAAAC
* *
7680720 AATTTAATTAATTAGG--C-ACAACTTAATTAAACAATTT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTT
7680757 CAATCAAGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
102 15 0.12
103 1 0.01
105 15 0.12
106 31 0.25
107 64 0.51
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (105 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGCCTAACAACTTAAT
TAAACAATTTAATCAATTAGGCCCAATGACTTAATTAAAC
Found at i:7680642 original size:142 final size:139
Alignment explanation
Indices: 7680489--7680763 Score: 410
Period size: 142 Copynumber: 2.0 Consensus size: 139
7680479 CTTAAGAAGT
7680489 CCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAA
1 CCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAA
* *
7680554 TTAAGCCTAACAATTTAATTAAACAATTTTAATCAATTAGGCCCAATGACTTAATTAAACAAATT
66 TTAAGCCCAACAATTTAATTAAACAA-TTTAATCAATTAGGCAC-A--ACTTAATTAAAC-AATT
7680619 T-AATCAATTAGGC
126 TCAATCAATTAGGC
* * *
7680632 CCAA-TAACTTAATTGTTTAATTTAATTAATTAGGCCTAATGACTTAATTAAACAATTTAATTAA
1 CCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAA
* ** *
7680696 TTAGGCCCAATGATTTAATTAAACAATTTAATTAATTAGGCACAACTTAATTAAACAATTTCAAT
66 TTAAGCCCAACAATTTAATTAAACAATTTAATCAATTAGGCACAACTTAATTAAACAATTTCAAT
7680761 CAA
131 CAA
7680764 GTGCTTGAGA
Statistics
Matches: 122, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
137 5 0.04
138 18 0.15
140 1 0.01
141 15 0.12
142 79 0.65
143 4 0.03
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (139 bp):
CCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAA
TTAAGCCCAACAATTTAATTAAACAATTTAATCAATTAGGCACAACTTAATTAAACAATTTCAAT
CAATTAGGC
Found at i:7695945 original size:22 final size:22
Alignment explanation
Indices: 7695920--7695963 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7695910 TTTAAAACAA
* *
7695920 CTTTAAAGCCAAAAGCTTTGAT
1 CTTTAAAACCAAAAGCTCTGAT
*
7695942 CTTTAAAATCAAAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
7695964 ACCAATCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTGAT
Found at i:7696409 original size:24 final size:25
Alignment explanation
Indices: 7696366--7696412 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
7696356 TTTTCTTATA
*
7696366 AAACAATATTTATAGAGTTACCGGT
1 AAACAATATTAATAGAGTTACCGGT
*
7696391 AAACAATA-TAATAGGGTTACCG
1 AAACAATATTAATAGAGTTACCG
7696413 TGCCCCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (25 bp):
AAACAATATTAATAGAGTTACCGGT
Found at i:7697612 original size:21 final size:20
Alignment explanation
Indices: 7697588--7697635 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
7697578 TTACCTTTTT
*
7697588 TTTTTCACTTGTTTCCTTAAA
1 TTTTTCACTT-TTCCCTTAAA
* *
7697609 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTAAA
7697630 TTTTTC
1 TTTTTC
7697636 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.17, C:0.23, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTAAA
Found at i:7697618 original size:22 final size:21
Alignment explanation
Indices: 7697593--7697633 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7697583 TTTTTTTTTT
*
7697593 CACTTGTTTCCTTAAATTTTCA
1 CACTT-TTCCCTTAAATTTTCA
*
7697615 CACTTTTCCCTTGAATTTT
1 CACTTTTCCCTTAAATTTT
7697634 TCCACCTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.20, C:0.24, G:0.05, T:0.51
Consensus pattern (21 bp):
CACTTTTCCCTTAAATTTTCA
Found at i:7700410 original size:43 final size:43
Alignment explanation
Indices: 7700329--7700444 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
7700319 TTATCATCAC
* * ** *
7700329 CAGCTCATGCGCCCTCCCTACTCGCACATGGCTAGGTCATCAC-
1 CAGCTTATGCGCACTCCCTACTCGCACATAACCAGGTCATC-CT
* * * *
7700372 CGGGTTATGCGCACTCCCTACTCGCATATAACCGGGTCATCCT
1 CAGCTTATGCGCACTCCCTACTCGCACATAACCAGGTCATCCT
*
7700415 CAGCTTATGCGCACTCTCTACTCGCACATA
1 CAGCTTATGCGCACTCCCTACTCGCACATA
7700445 GCCGAGTCAA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.20, C:0.38, G:0.18, T:0.24
Consensus pattern (43 bp):
CAGCTTATGCGCACTCCCTACTCGCACATAACCAGGTCATCCT
Found at i:7727155 original size:2 final size:2
Alignment explanation
Indices: 7727119--7727147 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7727109 ACATATTTAC
7727119 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 A
7727148 CGTATATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7727217 original size:20 final size:20
Alignment explanation
Indices: 7727160--7727222 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
7727150 TATATACCCA
*
7727160 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
7727179 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
7727199 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
7727219 TCAT
1 TCAT
7727223 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:7727269 original size:43 final size:43
Alignment explanation
Indices: 7727221--7727339 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
7727211 TCACCAGCTC
** * *
7727221 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
7727264 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
7727307 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
7727340 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:7730093 original size:32 final size:34
Alignment explanation
Indices: 7730051--7730148 Score: 103
Period size: 32 Copynumber: 2.9 Consensus size: 34
7730041 CACAACCTTT
7730051 AACAATGGTTTTTCACGAGATCAACCAAAACT-C
1 AACAATGGTTTTTCACGAGATCAACCAAAACTAC
* ** * * *
7730084 AA-AGTGGTTTTTCAAAAGCTTAACCACAACCTAC
1 AACAATGGTTTTTCACGAGATCAACCA-AAACTAC
7730118 AACAATGGTTTTT-ACCGAGATCAACCAAAAC
1 AACAATGGTTTTTCA-CGAGATCAACCAAAAC
7730149 CTAACAACCA
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
32 19 0.39
33 6 0.12
34 7 0.14
35 17 0.35
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.24
Consensus pattern (34 bp):
AACAATGGTTTTTCACGAGATCAACCAAAACTAC
Found at i:7730129 original size:35 final size:34
Alignment explanation
Indices: 7730034--7730130 Score: 90
Period size: 32 Copynumber: 2.9 Consensus size: 34
7730024 CTTTTTGTAG
* * **
7730034 GCTTAGCCACAACCTTTAACAATGGTTTTTCACGA
1 GCTTAACCACAACC-TCAACAATGGTTTTTCAAAA
* * * *
7730069 GATCAACCA-AAACTCAA-AGTGGTTTTTCAAAA
1 GCTTAACCACAACCTCAACAATGGTTTTTCAAAA
7730101 GCTTAACCACAACCTACAACAATGGTTTTT
1 GCTTAACCACAACCT-CAACAATGGTTTTT
7730131 ACCGAGATCA
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
32 19 0.40
33 7 0.15
34 6 0.13
35 15 0.32
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (34 bp):
GCTTAACCACAACCTCAACAATGGTTTTTCAAAA
Found at i:7730144 original size:35 final size:35
Alignment explanation
Indices: 7730040--7730156 Score: 107
Period size: 35 Copynumber: 3.4 Consensus size: 35
7730030 GTAGGCTTAG
**
7730040 CCACAACCTTTAACAATGGTTTTTCACGAGATCAA
1 CCACAACCTACAACAATGGTTTTTCACGAGATCAA
* * ** * *
7730075 CCA-AAACT-CAA-AGTGGTTTTTCAAAAGCTTAA
1 CCACAACCTACAACAATGGTTTTTCACGAGATCAA
7730107 CCACAACCTACAACAATGGTTTTT-ACCGAGATCAA
1 CCACAACCTACAACAATGGTTTTTCA-CGAGATCAA
*
7730142 CCAAAACCTAACAAC
1 CCACAACCT-ACAAC
7730157 CAACTTTTCT
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
32 19 0.30
33 6 0.10
34 8 0.13
35 25 0.40
36 5 0.08
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.24
Consensus pattern (35 bp):
CCACAACCTACAACAATGGTTTTTCACGAGATCAA
Found at i:7737987 original size:5 final size:5
Alignment explanation
Indices: 7737977--7738013 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
7737967 GGATTAATGG
*
7737977 AATTA AATTA AATCA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AATTA AATTA AA
7738014 CAATAGTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (5 bp):
AATTA
Found at i:7738846 original size:90 final size:90
Alignment explanation
Indices: 7738693--7738860 Score: 214
Period size: 90 Copynumber: 1.9 Consensus size: 90
7738683 AACGACAATG
* * * * * *
7738693 CACACCAAAACTTCAGCACTAAATGTTACATGCCAAGGCCAAAGTTCCAATACCAGATATTACAT
1 CACACCAAAACTTCAGCACTAAATGTTACACGCCAAGGCAAAACTTCCAACACCAAATATTACAC
7738758 GCCAAGGCCAAAGTAGAATATATTA
66 GCCAAGGCCAAAGTAGAATATATTA
* * *
7738783 CACACCAAAACTTCAGCAGC-AAATGTTATACGCTAAGGTCAAAACTT-CAACATCAAATATTAC
1 CACACCAAAACTTCAGCA-CTAAATGTTACACGCCAAGG-CAAAACTTCCAACACCAAATATTAC
*
7738846 ACGTCAAGGCCAAAG
64 ACGCCAAGGCCAAAG
7738861 CTTTAGTACC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
90 59 0.89
91 7 0.11
ACGTcount: A:0.42, C:0.25, G:0.13, T:0.20
Consensus pattern (90 bp):
CACACCAAAACTTCAGCACTAAATGTTACACGCCAAGGCAAAACTTCCAACACCAAATATTACAC
GCCAAGGCCAAAGTAGAATATATTA
Found at i:7744930 original size:19 final size:19
Alignment explanation
Indices: 7744884--7744930 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
7744874 ATGAGAGGAA
* *
7744884 ATTATAATATTGAAATAAT
1 ATTATAATACTAAAATAAT
* *
7744903 ATAAAAATACTAAAATAAT
1 ATTATAATACTAAAATAAT
7744922 ATTATAATA
1 ATTATAATA
7744931 TTGTTAAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATTATAATACTAAAATAAT
Found at i:7750429 original size:62 final size:60
Alignment explanation
Indices: 7750227--7750435 Score: 188
Period size: 61 Copynumber: 3.4 Consensus size: 60
7750217 CATGCAGGAT
** * *
7750227 AGAAAGTTTCTCGCTGCAGCGA-AATTCATTCTCGCTATAGCGAGATTTTGGCTGCCAAAAC
1 AGAAAGTTTCTCGCTGCAGCGAGAA-TCATTCTCGCTATAGCGAG-TTCAGGCAGCTAAAAC
* ** * * * * * *
7750288 AGAAAGTTTATCATTGCAGCAAGAATCCATTCTCGTTGTAGCAAAATTCAAGCAG-TAAAAC
1 AGAAAGTTTCTCGCTGCAGCGAGAAT-CATTCTCGCTATAGC-GAGTTCAGGCAGCTAAAAC
* * * *
7750349 AGAAAGTTTTTTGCTGCAGCGAGAACTCATTCTCGCTACAGCGAGTTGCAGGCAGCTAAAAT
1 AGAAAGTTTCTCGCTGCAGCGAGAA-TCATTCTCGCTATAGCGAGTT-CAGGCAGCTAAAAC
*
7750411 AGAACGTTTCTCGCTGCAGCGAGAA
1 AGAAAGTTTCTCGCTGCAGCGAGAA
7750436 GCAGGGCACC
Statistics
Matches: 114, Mismatches: 28, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
60 3 0.03
61 62 0.54
62 48 0.42
63 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (60 bp):
AGAAAGTTTCTCGCTGCAGCGAGAATCATTCTCGCTATAGCGAGTTCAGGCAGCTAAAAC
Found at i:7750604 original size:14 final size:14
Alignment explanation
Indices: 7750565--7750608 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
7750555 TTTCTATTGC
* *
7750565 ATATATATATATAT
1 ATATATAAACATAT
*
7750579 ATATATATACATAT
1 ATATATAAACATAT
*
7750593 ATATCTAAACATAT
1 ATATATAAACATAT
7750607 AT
1 AT
7750609 CAATTTGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATAAACATAT
Found at i:7750608 original size:2 final size:2
Alignment explanation
Indices: 7750565--7750596 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7750555 TTTCTATTGC
*
7750565 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7750597 CTAAACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7750814 original size:2 final size:2
Alignment explanation
Indices: 7750807--7750833 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7750797 AATGCACAAC
7750807 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 A
7750834 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7750942 original size:2 final size:2
Alignment explanation
Indices: 7750937--7750999 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
7750927 NNAGACACAC
7750937 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7750979 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
7751000 CCAACATAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7754784 original size:40 final size:40
Alignment explanation
Indices: 7754729--7754809 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
7754719 TATTGGGCTA
7754729 CATTAGTGGAAAGAGAGATGAAAAGTAAACCTATGGAAAT
1 CATTAGTGGAAAGAGAGATGAAAAGTAAACCTATGGAAAT
7754769 CATTAGTGGAAAGAGAGATGAAAAGTAAACCTATGGAAAT
1 CATTAGTGGAAAGAGAGATGAAAAGTAAACCTATGGAAAT
7754809 C
1 C
7754810 TAGTATTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.20
Consensus pattern (40 bp):
CATTAGTGGAAAGAGAGATGAAAAGTAAACCTATGGAAAT
Found at i:7761553 original size:36 final size:36
Alignment explanation
Indices: 7761506--7761667 Score: 165
Period size: 36 Copynumber: 4.6 Consensus size: 36
7761496 TCACCAACTT
* * *
7761506 ATGTGTACTCCCACACTGAACATAGCTGAA-ATCATC
1 ATGTGCACTCCCACACCGCACATAGCT-AATATCATC
* *
7761542 ATGTGCACTCCCACACCGCACATAGCTAATACCGTC
1 ATGTGCACTCCCACACCGCACATAGCTAATATCATC
* *
7761578 ATGTGCACTCCCACACCGCACATGGCAAATATCATC
1 ATGTGCACTCCCACACCGCACATAGCTAATATCATC
* * * *
7761614 ATGTACACTCCCGCA-C-CACAT--C-AATACCAGC
1 ATGTGCACTCCCACACCGCACATAGCTAATATCATC
*
7761645 ATGTGCACTTCCACACCGCACAT
1 ATGTGCACTCCCACACCGCACAT
7761668 GCTCGGTTGT
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
31 19 0.18
32 2 0.02
33 5 0.05
34 5 0.05
35 3 0.03
36 73 0.68
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.20
Consensus pattern (36 bp):
ATGTGCACTCCCACACCGCACATAGCTAATATCATC
Found at i:7761659 original size:67 final size:71
Alignment explanation
Indices: 7761536--7761668 Score: 186
Period size: 67 Copynumber: 1.9 Consensus size: 71
7761526 CATAGCTGAA
*
7761536 ATCATCATGTGCACTCCCACACCGCACATAGCTAATACCGTCATGTGCACTCCCACACCGCACAT
1 ATCATCATGTACACTCCCACACCGCACATA-CTAATACCGTCATGTGCACTCCCACACCGCACAT
7761601 GGCAAAT
65 GGCAAAT
* *
7761608 ATCATCATGTACACTCCCGCA-C-CACAT-C-AATACCAG-CATGTGCACTTCCACACCGCACAT
1 ATCATCATGTACACTCCCACACCGCACATACTAATACC-GTCATGTGCACTCCCACACCGCACAT
7761668 G
65 G
7761669 CTCGGTTGTA
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
67 30 0.53
68 2 0.04
70 5 0.09
71 1 0.02
72 19 0.33
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (71 bp):
ATCATCATGTACACTCCCACACCGCACATACTAATACCGTCATGTGCACTCCCACACCGCACATG
GCAAAT
Found at i:7763000 original size:43 final size:42
Alignment explanation
Indices: 7762939--7763061 Score: 174
Period size: 43 Copynumber: 2.9 Consensus size: 42
7762929 CCTGTCGTAC
* *
7762939 TATGATGCCATCCATTGAGATTACTCTAGATGATGATTGTGTT
1 TATGATGCCATCCGTTGAGATTACTCTAGATGATGATTATG-T
* *
7762982 TATGATGCCATCCGTTGAGACTATTCTAGATGATGATTATGT
1 TATGATGCCATCCGTTGAGATTACTCTAGATGATGATTATGT
*
7763024 TATAATGCCATCCGTTGGGAGATTACTCTAGATGATGA
1 TATGATGCCATCCGTT--GAGATTACTCTAGATGATGA
7763062 CTTTAATACT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
42 16 0.23
43 37 0.52
44 18 0.25
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (42 bp):
TATGATGCCATCCGTTGAGATTACTCTAGATGATGATTATGT
Found at i:7765582 original size:80 final size:80
Alignment explanation
Indices: 7765344--7765588 Score: 325
Period size: 80 Copynumber: 3.1 Consensus size: 80
7765334 GAGTTCCATC
* *
7765344 TATGAGATTATGACATGTACGCCATGAGATGTATGTGTTGAGA-ATGTCATGTACACTATGGGCT
1 TATGAGATTATGACATGTATGCCATGAGATGTATGTGTTGAGATATATCATGTACACTATGGGCT
* * **
7765408 AAGCATGTGGCTGAAC
66 AAACATGT-GATGATT
* *
7765424 TATGAGATTATGACATGTATGCCATGAGTTGTATGTGTT-AAATATATCATGTACACTATGGGCT
1 TATGAGATTATGACATGTATGCCATGAGATGTATGTGTTGAGATATATCATGTACACTATGGGCT
*
7765488 ACACATGTGAATGATT
66 AAACATGTG-ATGATT
* * * *
7765504 TATGAGATTATGAAACGCATGCCATGAGATGTATGTGTTGAGATA-ATCATATACACTATGGGCT
1 TATGAGATTATGACATGTATGCCATGAGATGTATGTGTTGAGATATATCATGTACACTATGGGCT
7765568 AAACATGATGATGATT
66 AAACATG-TGATGATT
7765584 TATGA
1 TATGA
7765589 AAATGTTACG
Statistics
Matches: 145, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 3 0.02
80 136 0.94
81 6 0.04
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.33
Consensus pattern (80 bp):
TATGAGATTATGACATGTATGCCATGAGATGTATGTGTTGAGATATATCATGTACACTATGGGCT
AAACATGTGATGATT
Found at i:7771090 original size:54 final size:53
Alignment explanation
Indices: 7771005--7771109 Score: 165
Period size: 54 Copynumber: 2.0 Consensus size: 53
7770995 TCTCTCTCAG
* *
7771005 CTCTCTGACTGTCTCAACTCTGTCAATTCTTTGTTGAGCACCATCGTCATCAA
1 CTCTCTGACTGTATCAACTCTGTCAACTCTTTGTTGAGCACCATCGTCATCAA
* *
7771058 CTCTCTGAACTGTATGAGCTCTGTCAACTCTTTGTTGAGCACCATCGTCATC
1 CTCTCTG-ACTGTATCAACTCTGTCAACTCTTTGTTGAGCACCATCGTCATC
7771110 GGGGTTGTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 7 0.15
54 40 0.85
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (53 bp):
CTCTCTGACTGTATCAACTCTGTCAACTCTTTGTTGAGCACCATCGTCATCAA
Found at i:7771487 original size:31 final size:31
Alignment explanation
Indices: 7771446--7771677 Score: 358
Period size: 31 Copynumber: 7.5 Consensus size: 31
7771436 TTATAGTGAT
* * * * *
7771446 TGGCATGTTACCATAGTTTACATTATATGAA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
7771477 TGGCGTGTTACCACATTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
7771508 TGGCGTGTTACCACATTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
*
7771539 TGGCGTGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
7771570 TGGCGTGTTACCACATTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* * *
7771601 TGGTGTGTTACCGCATTTTACGTTACATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
*
7771632 TGGCGTG-TACCACATTTTACATTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
*
7771662 TGGCGTGTTACAACAT
1 TGGCGTGTTACCACAT
7771678 GATTGACAAA
Statistics
Matches: 185, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
30 27 0.15
31 158 0.85
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (31 bp):
TGGCGTGTTACCACATTTTACGTTATATGCA
Found at i:7775508 original size:86 final size:86
Alignment explanation
Indices: 7775355--7775685 Score: 477
Period size: 86 Copynumber: 3.9 Consensus size: 86
7775345 CAATGACATC
* * *
7775355 TTGTGGTGACACACTGAGTGCATGTAGACTTTTGGCTTGACACACTGACTTGTTGCAGCCTTGTG
1 TTGTGGTGACACACTGAGTGCATGTAGACTTCTGGCGTGACACACTGACTTGTTGCAGTCTTGTG
*
7775420 GGGTGACACGGCACGGGCCAA
66 GGGTGACACGGCACCGGCCAA
** * *
7775441 TTGTGGTGACA-AGCTGAGTGCATACAGACTTCTGGCGTGACACGCTGACTTGTTGCAGTCTTAT
1 TTGTGGTGACACA-CTGAGTGCATGTAGACTTCTGGCGTGACACACTGACTTGTTGCAGTCTTGT
* *
7775505 GGGGTGACACGACACCGACCAA
65 GGGGTGACACGGCACCGGCCAA
* * **
7775527 TTGTGGTGACACGCTGAGTGCATGTAGACTTCTGACGTGACATGCTGACTTG-TGCAGTCTTGTG
1 TTGTGGTGACACACTGAGTGCATGTAGACTTCTGGCGTGACACACTGACTTGTTGCAGTCTTGTG
*
7775591 GGGTGACACGGCACTGGCCAA
66 GGGTGACACGGCACCGGCCAA
* * *
7775612 TTGTGGTGACACACTAAGTGCATGTAGACTTCTGGCATGACACACTGACTTGTTGTAGTCTTGTG
1 TTGTGGTGACACACTGAGTGCATGTAGACTTCTGGCGTGACACACTGACTTGTTGCAGTCTTGTG
7775677 GGGTGACAC
66 GGGTGACAC
7775686 ACTGCGTGCA
Statistics
Matches: 216, Mismatches: 26, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
85 76 0.35
86 140 0.65
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (86 bp):
TTGTGGTGACACACTGAGTGCATGTAGACTTCTGGCGTGACACACTGACTTGTTGCAGTCTTGTG
GGGTGACACGGCACCGGCCAA
Found at i:7775643 original size:171 final size:172
Alignment explanation
Indices: 7775355--7775685 Score: 504
Period size: 171 Copynumber: 1.9 Consensus size: 172
7775345 CAATGACATC
* * *
7775355 TTGTGGTGACACACTGAGTGCATGTAGACTTTTGGCTTGACACACTGACTTGTTGCAGCCTTGTG
1 TTGTGGTGACACACTGAGTGCATGTAGACTTCTGACGTGACACACTGACTTGTTGCAGCCTTGTG
* * *
7775420 GGGTGACACGGCACGGGCCAATTGTGGTGACAAGCTGAGTGCATACAGACTTCTGGCGTGACACG
66 GGGTGACACGGCACGGGCCAATTGTGGTGACAAGCTAAGTGCATACAGACTTCTGGCATGACACA
7775485 CTGACTTGTTGCAGTCTTATGGGGTGACACGACACCGACCAA
131 CTGACTTGTTGCAGTCTTATGGGGTGACACGACACCGACCAA
* ** *
7775527 TTGTGGTGACACGCTGAGTGCATGTAGACTTCTGACGTGACATGCTGACTTG-TGCAGTCTTGTG
1 TTGTGGTGACACACTGAGTGCATGTAGACTTCTGACGTGACACACTGACTTGTTGCAGCCTTGTG
* **
7775591 GGGTGACACGGCACTGGCCAATTGTGGTGACACA-CTAAGTGCATGTAGACTTCTGGCATGACAC
66 GGGTGACACGGCACGGGCCAATTGTGGTGACA-AGCTAAGTGCATACAGACTTCTGGCATGACAC
* *
7775655 ACTGACTTGTTGTAGTCTTGTGGGGTGACAC
130 ACTGACTTGTTGCAGTCTTATGGGGTGACAC
7775686 ACTGCGTGCA
Statistics
Matches: 143, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
171 96 0.67
172 47 0.33
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (172 bp):
TTGTGGTGACACACTGAGTGCATGTAGACTTCTGACGTGACACACTGACTTGTTGCAGCCTTGTG
GGGTGACACGGCACGGGCCAATTGTGGTGACAAGCTAAGTGCATACAGACTTCTGGCATGACACA
CTGACTTGTTGCAGTCTTATGGGGTGACACGACACCGACCAA
Found at i:7775737 original size:61 final size:62
Alignment explanation
Indices: 7775616--7775746 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 62
7775606 GGCCAATTGT
* * ** *
7775616 GGTGACACACTAAGTGCATGTAGACTTCTGGCATGACACACTGACTTGTTGTAGTCTTGTGG
1 GGTGACACACTAAGTGCATGCAGACTTCTGGCATGACACACTAACTTGTTACAGTATTGTGG
** * * * *
7775678 GGTGACACACTGCGTGCATGCAGATTTTTGG-TTGACACGCTAACTTGTTACAGTATTGTGG
1 GGTGACACACTAAGTGCATGCAGACTTCTGGCATGACACACTAACTTGTTACAGTATTGTGG
7775739 GGTGACAC
1 GGTGACAC
7775747 GTCATCCCCC
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
61 32 0.55
62 26 0.45
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (62 bp):
GGTGACACACTAAGTGCATGCAGACTTCTGGCATGACACACTAACTTGTTACAGTATTGTGG
Found at i:7777284 original size:81 final size:80
Alignment explanation
Indices: 7777187--7777416 Score: 307
Period size: 81 Copynumber: 2.9 Consensus size: 80
7777177 CATGAGTGAA
* * * * * * *
7777187 TGAAGGTCCCCTTCCCCTCCCACAAATGCGTTGATAACTGAATCAGCCTTAAGAACATGGACTCT
1 TGAAGGTCCCC-TCCCCTCTCGCAGATGCATCGATAACCGAATCAGCCTTAAGAACATGGACTCC
7777252 TTCAGCCACGAGTAAG
65 TTCAGCCACGAGTAAG
* * * *
7777268 TGAAGGTCCCTCTCCCCTTTCGCAGATGCATCGATAACCAAATTAGCCCTAAGAACATGGACTCC
1 TGAAGGTCCC-CTCCCCTCTCGCAGATGCATCGATAACCGAATCAGCCTTAAGAACATGGACTCC
* *
7777333 TTCAGCCACTAGTGAG
65 TTCAGCCACGAGTAAG
* *
7777349 TGAAGGTCCCCTCCCCTCTCGCAGATGCATCAATAACCGAATCAGCCTCAAGAACATGGACTCCT
1 TGAAGGTCCCCTCCCCTCTCGCAGATGCATCGATAACCGAATCAGCCTTAAGAACATGGACTCCT
7777414 TCA
66 TCA
7777417 ACATCATCTG
Statistics
Matches: 129, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 52 0.40
81 76 0.59
82 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (80 bp):
TGAAGGTCCCCTCCCCTCTCGCAGATGCATCGATAACCGAATCAGCCTTAAGAACATGGACTCCT
TCAGCCACGAGTAAG
Found at i:7778190 original size:151 final size:151
Alignment explanation
Indices: 7777994--7778320 Score: 496
Period size: 151 Copynumber: 2.2 Consensus size: 151
7777984 GCGATTGAGT
** *
7777994 AGGA-CTGATCGGTGGTTGAGGAGCTACCATTGCCTCCCTCAACTGCAATAACAGAAATTACTGT
1 AGGACCTG-TCGGTGGTTGAGGAGCTACCATCACCTCCATCAACTGCAATAACAGAAATTACTGT
* * **
7778058 GTTACTCGATAAACATATGCAGAAATGTTGAACACAAA-TCGTTACAACTGATCTTACAGATGGC
65 GTTACTCGATAAACATAAGCAGAAATGTTGAACACAAACT-GTTACAACCGATCTTACAGACAGC
7778122 TCGTTAGCACTATGCGTCTGAAG
129 TCGTTAGCACTATGCGTCTGAAG
* * *
7778145 AGGACCTGTCGGTGGTTGAGGAGCTATCATCACCTCCATCAACTGCAATGATAGAAATTACTGTG
1 AGGACCTGTCGGTGGTTGAGGAGCTACCATCACCTCCATCAACTGCAATAACAGAAATTACTGTG
* *
7778210 TTACTCGATAAACATAAGCAGAAATGTTGAACAGAAACTGTTACAACCGATCTTACCGACAGCTC
66 TTACTCGATAAACATAAGCAGAAATGTTGAACACAAACTGTTACAACCGATCTTACAGACAGCTC
7778275 GTTAGCACTATGCGTCTGAAG
131 GTTAGCACTATGCGTCTGAAG
* *
7778296 AGGACCTATCGATGGTTGAGGAGCT
1 AGGACCTGTCGGTGGTTGAGGAGCT
7778321 TTCGTCGCAT
Statistics
Matches: 160, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
151 156 0.98
152 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (151 bp):
AGGACCTGTCGGTGGTTGAGGAGCTACCATCACCTCCATCAACTGCAATAACAGAAATTACTGTG
TTACTCGATAAACATAAGCAGAAATGTTGAACACAAACTGTTACAACCGATCTTACAGACAGCTC
GTTAGCACTATGCGTCTGAAG
Found at i:7779875 original size:31 final size:31
Alignment explanation
Indices: 7779840--7779991 Score: 178
Period size: 31 Copynumber: 4.9 Consensus size: 31
7779830 AGAAAGAAAT
*
7779840 AAATGTTGTTACACGCCATGCATATCAAGTA
1 AAATGTTGTAACACGCCATGCATATCAAGTA
* *
7779871 AAATGTTGTAACACGCCATGCATACCAAGTC
1 AAATGTTGTAACACGCCATGCATATCAAGTA
* * *
7779902 AAATGTTGTGACACACCATGCACATCAAGTA
1 AAATGTTGTAACACGCCATGCATATCAAGTA
** * *
7779933 AAATGTTGTAACACATCATCCATATCAAGTC
1 AAATGTTGTAACACGCCATGCATATCAAGTA
** * *
7779964 AAATGTCATGACATGCCATGCATATCAA
1 AAATGTTGTAACACGCCATGCATATCAA
7779992 TGTTTTGACA
Statistics
Matches: 101, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (31 bp):
AAATGTTGTAACACGCCATGCATATCAAGTA
Found at i:7779922 original size:62 final size:62
Alignment explanation
Indices: 7779840--7779991 Score: 214
Period size: 62 Copynumber: 2.5 Consensus size: 62
7779830 AGAAAGAAAT
* * *
7779840 AAATGTTGTTACACGCCATGCATATCAAGTAAAATGTTGTAACACGCCATGCATACCAAGTC
1 AAATGTTGTGACACGCCATGCATATCAAGTAAAATGTTGTAACACACCATCCATACCAAGTC
* * * *
7779902 AAATGTTGTGACACACCATGCACATCAAGTAAAATGTTGTAACACATCATCCATATCAAGTC
1 AAATGTTGTGACACGCCATGCATATCAAGTAAAATGTTGTAACACACCATCCATACCAAGTC
** *
7779964 AAATGTCATGACATGCCATGCATATCAA
1 AAATGTTGTGACACGCCATGCATATCAA
7779992 TGTTTTGACA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 78 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (62 bp):
AAATGTTGTGACACGCCATGCATATCAAGTAAAATGTTGTAACACACCATCCATACCAAGTC
Found at i:7780171 original size:55 final size:55
Alignment explanation
Indices: 7780112--7780423 Score: 331
Period size: 55 Copynumber: 5.7 Consensus size: 55
7780102 CACCAAAAAC
* * * * *
7780112 CCAAAAAACCAAAAAACCAATTAACCCATAACATGCTAGGAACAGCCATGACACA
1 CCAAAAAACCAAAAAACCAGTTAACCCACAACACGCTAGGAACAGCCGTGACACG
* * * *
7780167 CCAAAAACCCAAAAAATCAGTTAACCCACAACACG-TCAGGAATAGTCGTGACACG
1 CCAAAAAACCAAAAAACCAGTTAACCCACAACACGCT-AGGAACAGCCGTGACACG
* * * * *
7780222 TCAAAAACCCAAAAAACCAGTTAACCCACAACACACCAGGAACAGCCGTAACACG
1 CCAAAAAACCAAAAAACCAGTTAACCCACAACACGCTAGGAACAGCCGTGACACG
** ** * ** *
7780277 CCAAAAACAAAAAAAAAATAGTTAACCCACAACACACTAGGAACAGCTATGACATG
1 CCAAAAA-ACCAAAAAACCAGTTAACCCACAACACGCTAGGAACAGCCGTGACACG
* *
7780333 CTAAAAAACCAAAAAACCAGTTAACCCATAACACG-TCAGGAACAGCCGTGACACG
1 CCAAAAAACCAAAAAACCAGTTAACCCACAACACGCT-AGGAACAGCCGTGACACG
* * * *
7780388 CTAAAAACCCAAAAAACTAGTTAACCCACAAGACGC
1 CCAAAAAACCAAAAAACCAGTTAACCCACAACACGC
7780424 CATATGTAGA
Statistics
Matches: 211, Mismatches: 41, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
54 2 0.01
55 165 0.78
56 44 0.21
ACGTcount: A:0.48, C:0.29, G:0.12, T:0.11
Consensus pattern (55 bp):
CCAAAAAACCAAAAAACCAGTTAACCCACAACACGCTAGGAACAGCCGTGACACG
Found at i:7780345 original size:111 final size:109
Alignment explanation
Indices: 7780113--7780418 Score: 366
Period size: 111 Copynumber: 2.8 Consensus size: 109
7780103 ACCAAAAACC
* * * * * *
7780113 CAAAAAACCAAAAAACCAATTAACCCATAACATGCTAGGAACAGCCATGACACACCAAAAACCCA
1 CAAAAAACCAAAAAACCAGTTAACCCATAACACGCCAGGAACAGCCGTGACACGCCAAAAACCAA
* * *
7780178 AAAAATCAGTTAACCCACAACACGTCAGGAATAGTCGTGACACGT
66 AAAAAT-AGTTAACCCACAACACCTCAGGAACAGTCATGACACGT
* * * * *
7780223 CAAAAACCCAAAAAACCAGTTAACCCACAACACACCAGGAACAGCCGTAACACGCCAAAAACAAA
1 CAAAAAACCAAAAAACCAGTTAACCCATAACACGCCAGGAACAGCCGTGACACGCCAAAAAC--C
*
7780288 AAAAAAATAGTTAACCCACAACACACT-AGGAACAG-CTATGACATG-
64 AAAAAAATAGTTAACCCACAACAC-CTCAGGAACAGTC-ATGACACGT
* *
7780333 CTAAAAAACCAAAAAACCAGTTAACCCATAACACGTCAGGAACAGCCGTGACACGCTAAAAACCC
1 C-AAAAAACCAAAAAACCAGTTAACCCATAACACGCCAGGAACAGCCGTGACACGCCAAAAA-CC
*
7780398 AAAAAACTAGTTAACCCACAA
64 AAAAAAATAGTTAACCCACAA
7780419 GACGCCATAT
Statistics
Matches: 167, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
110 75 0.45
111 83 0.50
112 9 0.05
ACGTcount: A:0.49, C:0.29, G:0.11, T:0.11
Consensus pattern (109 bp):
CAAAAAACCAAAAAACCAGTTAACCCATAACACGCCAGGAACAGCCGTGACACGCCAAAAACCAA
AAAAATAGTTAACCCACAACACCTCAGGAACAGTCATGACACGT
Found at i:7780358 original size:166 final size:170
Alignment explanation
Indices: 7780041--7780418 Score: 453
Period size: 166 Copynumber: 2.2 Consensus size: 170
7780031 ACCTAAAGCG
* * * * *** *
7780041 GTGACATGCTAAAAA-CAATAAAAAACAGTTAACTCACAACACGTTAGGAACAGCCGTGACACAC
1 GTGACACGCTAAAAACCCA-AAAAACCAGTTAACCCACAACACACCAGGAACAGCCGTAACACAC
* **
7780105 CAAAAACCCAAAAAACCAAAAAACCAATTAACCCATAACATGCTAGGAACAGCCATGACACACCA
65 CAAAAA-CC-AAAAA-CAAAAAACCAATTAACCCACAACACACTAGGAACAGCCATGACACACCA
* * * *
7780170 AAAACCCAAAAAATCAGTTAACCCACAACACGTCAGGAATAGTC
127 AAAAACCAAAAAACCAGTTAACCCACAACACGTCAGGAACAGCC
*
7780214 GTGACACG-TCAAAAACCCAAAAAACCAGTTAACCCACAACACACCAGGAACAGCCGTAACACGC
1 GTGACACGCT-AAAAACCCAAAAAACCAGTTAACCCACAACACACCAGGAACAGCCGTAACACAC
* * * ** *
7780278 CAAAAA-C-AAAA-AAAAAA-TAGTTAACCCACAACACACTAGGAACAGCTATGACATGCTAAAA
65 CAAAAACCAAAAACAAAAAACCAATTAACCCACAACACACTAGGAACAGCCATGACACACCAAAA
*
7780339 AACCAAAAAACCAGTTAACCCATAACACGTCAGGAACAGCC
130 AACCAAAAAACCAGTTAACCCACAACACGTCAGGAACAGCC
*
7780380 GTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAA
1 GTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAA
7780419 GACGCCATAT
Statistics
Matches: 178, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
166 107 0.60
167 7 0.04
169 4 0.02
171 1 0.01
172 1 0.01
173 56 0.31
174 2 0.01
ACGTcount: A:0.49, C:0.28, G:0.12, T:0.12
Consensus pattern (170 bp):
GTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACACCAGGAACAGCCGTAACACACC
AAAAACCAAAAACAAAAAACCAATTAACCCACAACACACTAGGAACAGCCATGACACACCAAAAA
ACCAAAAAACCAGTTAACCCACAACACGTCAGGAACAGCC
Found at i:7781088 original size:23 final size:23
Alignment explanation
Indices: 7781057--7781117 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 23
7781047 CGTGTCACAC
* * * *
7781057 CCATGTCACATATTCTCATCGTG
1 CCATCTCACACATTCTCACCCTG
* *
7781080 CCGTCTCACACATTATCACCCTG
1 CCATCTCACACATTCTCACCCTG
*
7781103 CCATCTCACAGATTC
1 CCATCTCACACATTC
7781118 CCTCCATGGT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.38, G:0.10, T:0.30
Consensus pattern (23 bp):
CCATCTCACACATTCTCACCCTG
Found at i:7781112 original size:104 final size:102
Alignment explanation
Indices: 7780982--7781306 Score: 395
Period size: 104 Copynumber: 3.2 Consensus size: 102
7780972 CGGTGTCATT
* **
7780982 TCACACATT-TGACCCTACCGTGTCACACGTTCTGACCATGGCGTGTCACACACTCTAAACATTA
1 TCACACATTATCACCCTACCGTGTCACA-GTTCTGACCATGGCGTGTCACACACTCTAAACCCTA
7781046 TCGTGTCACACCCATGTCACATATTCTCATCGTGCCGTC
65 TCGTGTCACACCCATGTCACA-ATTCTCATCGTGCCGTC
* * * *** * * *
7781085 TCACACATTATCACCCTGCCATCTCACAGATTCCCTCCATGGTGTGTCACACATTCTAAACCCTG
1 TCACACATTATCACCCTACCGTGTCACAG-TTCTGACCATGGCGTGTCACACACTCTAAACCCTA
* * *
7781150 TCGTGTCACACCCGTGTCACACATTATCATCGTGCCGTT
65 TCGTGTCACACCCATGTCACA-ATTCTCATCGTGCCGTC
* *
7781189 TCACACATTATAACCCTACTGTGTCACA-TGTCTGACCATGGCGTGTCACACACTCTAAACCCTA
1 TCACACATTATCACCCTACCGTGTCACAGT-TCTGACCATGGCGTGTCACACACTCTAAACCCTA
* * * *
7781253 TTGTGTCACACCCATGTCAC-ATTCTCACCCTGTCGTC
65 TCGTGTCACACCCATGTCACAATTCTCATCGTGCCGTC
7781290 TCACACATTATCACCCT
1 TCACACATTATCACCCT
7781307 GATGTGTCAC
Statistics
Matches: 184, Mismatches: 35, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
101 28 0.15
102 1 0.01
103 56 0.30
104 99 0.54
ACGTcount: A:0.23, C:0.35, G:0.13, T:0.29
Consensus pattern (102 bp):
TCACACATTATCACCCTACCGTGTCACAGTTCTGACCATGGCGTGTCACACACTCTAAACCCTAT
CGTGTCACACCCATGTCACAATTCTCATCGTGCCGTC
Found at i:7781112 original size:126 final size:126
Alignment explanation
Indices: 7780886--7781112 Score: 310
Period size: 126 Copynumber: 1.8 Consensus size: 126
7780876 GTGTCAAACA
* * * * **
7780886 TCTGGCCATGCCGTGTCACACACTTTAAACCCTGCCGTGTCACACCTGTCTCACATATTCTCACC
1 TCTGACCATGCCGTGTCACACACTCTAAACACTACCGTGTCACACCCATCTCACATATTCTCACC
** * *
7780951 GTGCAGTCTCACACATTATCACGGTGTCATTTCACACATTTGACCCTACCGTGTCACACGT
66 GTGCAGTCTCACACATTATCACCCTGCCATCTCACACATTTGACCCTACCGTGTCACACGT
* * * * *
7781012 TCTGACCATGGCGTGTCACACACTCTAAACATTATCGTGTCACACCCATGTCACATATTCTCATC
1 TCTGACCATGCCGTGTCACACACTCTAAACACTACCGTGTCACACCCATCTCACATATTCTCACC
*
7781077 GTGCCGTCTCACACATTATCACCCTGCCATCTCACA
66 GTGCAGTCTCACACATTATCACCCTGCCATCTCACA
7781113 GATTCCCTCC
Statistics
Matches: 85, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
126 85 1.00
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (126 bp):
TCTGACCATGCCGTGTCACACACTCTAAACACTACCGTGTCACACCCATCTCACATATTCTCACC
GTGCAGTCTCACACATTATCACCCTGCCATCTCACACATTTGACCCTACCGTGTCACACGT
Found at i:7781297 original size:23 final size:23
Alignment explanation
Indices: 7781270--7781433 Score: 157
Period size: 23 Copynumber: 7.1 Consensus size: 23
7781260 ACACCCATGT
* * *
7781270 CACATTCTCACCCTGTCGTCTCA
1 CACATTCTCACCATGACGTGTCA
* * *
7781293 CACATTATCACCCTGATGTGTCA
1 CACATTCTCACCATGACGTGTCA
* * * *
7781316 CACACTCTAAACCCTGTCGTGTCA
1 CACATTCT-CACCATGACGTGTCA
*
7781340 CATATTCTCACCATGACGTGTCA
1 CACATTCTCACCATGACGTGTCA
* * *
7781363 CATATTCTCACTATGACGTATCA
1 CACATTCTCACCATGACGTGTCA
*
7781386 CATATTCTCACCATGACGTGTCA
1 CACATTCTCACCATGACGTGTCA
* * *
7781409 CACATTCCCACCATGCCCTGTCA
1 CACATTCTCACCATGACGTGTCA
7781432 CA
1 CA
7781434 AACTCTATAC
Statistics
Matches: 118, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
23 100 0.85
24 18 0.15
ACGTcount: A:0.25, C:0.35, G:0.11, T:0.29
Consensus pattern (23 bp):
CACATTCTCACCATGACGTGTCA
Found at i:7781337 original size:103 final size:101
Alignment explanation
Indices: 7781016--7781341 Score: 323
Period size: 104 Copynumber: 3.2 Consensus size: 101
7781006 ACACGTTCTG
* **
7781016 ACCATGGCGTGTCACACACTCTAAACATTATCGTGTCACACCCATGTCACATATTCTCATCGTGC
1 ACCATGTCGTGTCACACACTCTAAACCCTATCGTGTCACACCCATGTCAC--ATTCTCATCGTGC
*** * * **
7781081 CGTCTCACACATTATCACCCTGCCATCTCACAGATTCCC
64 CGTCTCACACATTATCACCCTGATGTGTCACA-ACTCTA
* * * * *
7781120 TCCATGGT-GTGTCACACATTCTAAACCCTGTCGTGTCACACCCGTGTCACACATTATCATCGTG
1 ACCAT-GTCGTGTCACACACTCTAAACCCTATCGTGTCACACCCATGT--CACATTCTCATCGTG
* * ** *
7781184 CCGTTTCACACATTATAACCCT-ACTGTGTCACATGTCTG
63 CCGTCTCACACATTATCACCCTGA-TGTGTCACAACTCTA
* * * * *
7781223 ACCATGGCGTGTCACACACTCTAAACCCTATTGTGTCACACCCATGTCACATTCTCACCCTGTCG
1 ACCATGTCGTGTCACACACTCTAAACCCTATCGTGTCACACCCATGTCACATTCTCATCGTGCCG
7781288 TCTCACACATTATCACCCTGATGTGTCACACACTCTAA
66 TCTCACACATTATCACCCTGATGTGTCACA-ACTCT-A
*
7781326 ACCCTGTCGTGTCACA
1 ACCATGTCGTGTCACA
7781342 TATTCTCACC
Statistics
Matches: 179, Mismatches: 35, Indels: 17
0.77 0.15 0.07
Matches are distributed among these distances:
101 40 0.22
102 5 0.03
103 55 0.31
104 75 0.42
105 1 0.01
106 3 0.02
ACGTcount: A:0.24, C:0.35, G:0.13, T:0.28
Consensus pattern (101 bp):
ACCATGTCGTGTCACACACTCTAAACCCTATCGTGTCACACCCATGTCACATTCTCATCGTGCCG
TCTCACACATTATCACCCTGATGTGTCACAACTCTA
Found at i:7781490 original size:23 final size:23
Alignment explanation
Indices: 7781458--7781529 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
7781448 TCGTGTTACA
*
7781458 GCCGTGTCACATATTCTCAACAT
1 GCCGTGTCACATATTCCCAACAT
* *
7781481 GGCGTGTCACATATTCCCACCAT
1 GCCGTGTCACATATTCCCAACAT
* *
7781504 GCCGTGTCACACATTCCCACCAT
1 GCCGTGTCACATATTCCCAACAT
7781527 GCC
1 GCC
7781530 ATTTTACAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.22, C:0.38, G:0.15, T:0.25
Consensus pattern (23 bp):
GCCGTGTCACATATTCCCAACAT
Found at i:7781539 original size:104 final size:104
Alignment explanation
Indices: 7781356--7781550 Score: 302
Period size: 104 Copynumber: 1.9 Consensus size: 104
7781346 CTCACCATGA
*
7781356 CGTGTCACATATTCTCACTATGACGTATCACATATTCTCACCATGACGTGTCACACATTCCCACC
1 CGTGTCACATATTCTCACTATGACGTATCACATATTCCCACCATGACGTGTCACACATTCCCACC
* *
7781421 ATGCCCTGTCACAAACTCTATACCCTGTCGTGTTACAGC
66 ATGCCATGTCACAAACTCTAAACCCTGTCGTGTTACAGC
* * *
7781460 CGTGTCACATATTCTCAAC-ATGGCGTGTCACATATTCCCACCATGCCGTGTCACACATTCCCAC
1 CGTGTCACATATTCTC-ACTATGACGTATCACATATTCCCACCATGACGTGTCACACATTCCCAC
* *
7781524 CATGCCATTTTACAAACTCTAAACCCT
65 CATGCCATGTCACAAACTCTAAACCCT
7781551 ACCGTCACAC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
104 80 0.98
105 2 0.02
ACGTcount: A:0.26, C:0.34, G:0.12, T:0.28
Consensus pattern (104 bp):
CGTGTCACATATTCTCACTATGACGTATCACATATTCCCACCATGACGTGTCACACATTCCCACC
ATGCCATGTCACAAACTCTAAACCCTGTCGTGTTACAGC
Found at i:7781765 original size:22 final size:22
Alignment explanation
Indices: 7781717--7781765 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
7781707 GTTTAATAAC
* *
7781717 ACCATTCTCGAATTATCTGAAT
1 ACCATTCTCGAAATATCTGAAA
*
7781739 GCCATGTCT-GAAATATCTGAAA
1 ACCAT-TCTCGAAATATCTGAAA
7781761 ACCAT
1 ACCAT
7781766 CTCATGCAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (22 bp):
ACCATTCTCGAAATATCTGAAA
Found at i:7789893 original size:191 final size:191
Alignment explanation
Indices: 7789566--7789916 Score: 675
Period size: 191 Copynumber: 1.8 Consensus size: 191
7789556 TGGTGAAGAN
7789566 TAAATAACATGATGTTTAAACCATTAGAAAGCTAAGAGGCAAGGCTACAACTTTGATGTTTACCA
1 TAAATAACATGATGTTTAAACCATTAGAAAGCTAAGAGGCAAGGCTACAACTTTGATGTTTACCA
7789631 CTTTTCCCAGTTCTAGTGGGAAGATGGTCAAAATCTTTGTCGAAGTGAAAGGACTGTGCTAGAAA
66 CTTTTCCCAGTTCTAGTGGGAAGATGGTCAAAATCTTTGTCGAAGTGAAAGGACTGTGCTAGAAA
*
7789696 AATAGAAATTGGTAGAATGTTTAAGCGCCGTTTTTCAAGTATATATCCCACTAAAGAAGTT
131 AATAGAAATTGGCAGAATGTTTAAGCGCCGTTTTTCAAGTATATATCCCACTAAAGAAGTT
7789757 TAAATAACATGATGTTTAAACCATTAGAAAGCTAAGAGGCAAGGCTACAACTTTGATGTTTACCA
1 TAAATAACATGATGTTTAAACCATTAGAAAGCTAAGAGGCAAGGCTACAACTTTGATGTTTACCA
*
7789822 CTTTTCCCAGTTCTAGTGGGAAGATGGTCAAAATCTTTGTCGAAGTGAAAGGACTGTGCTAGAAG
66 CTTTTCCCAGTTCTAGTGGGAAGATGGTCAAAATCTTTGTCGAAGTGAAAGGACTGTGCTAGAAA
*
7789887 AATAGAAATTGGCAGAATGTTTAAGTGCCG
131 AATAGAAATTGGCAGAATGTTTAAGCGCCG
7789917 CGGCGCTAGA
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
191 157 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (191 bp):
TAAATAACATGATGTTTAAACCATTAGAAAGCTAAGAGGCAAGGCTACAACTTTGATGTTTACCA
CTTTTCCCAGTTCTAGTGGGAAGATGGTCAAAATCTTTGTCGAAGTGAAAGGACTGTGCTAGAAA
AATAGAAATTGGCAGAATGTTTAAGCGCCGTTTTTCAAGTATATATCCCACTAAAGAAGTT
Found at i:7793163 original size:19 final size:19
Alignment explanation
Indices: 7793139--7793176 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7793129 CCATTTAACT
*
7793139 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
7793158 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
7793177 GGTTTGGCAG
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:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:7794557 original size:13 final size:13
Alignment explanation
Indices: 7794539--7794563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7794529 GGAGAAATTG
7794539 TGATTTTATAAAA
1 TGATTTTATAAAA
7794552 TGATTTTATAAA
1 TGATTTTATAAA
7794564 TTTTCTAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:7794824 original size:15 final size:15
Alignment explanation
Indices: 7794804--7794832 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7794794 GCTACTGCAG
7794804 TGGTGGGGGGTTCCA
1 TGGTGGGGGGTTCCA
7794819 TGGTGGGGGGTTCC
1 TGGTGGGGGGTTCC
7794833 GTGGACCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.14, G:0.55, T:0.28
Consensus pattern (15 bp):
TGGTGGGGGGTTCCA
Found at i:7797572 original size:27 final size:29
Alignment explanation
Indices: 7797533--7797603 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 29
7797523 GTTTCTTTTT
7797533 GTTTTTTGTTTTTGCTTTTT-G-AT-TCTAA
1 GTTTTTT-TTTTTGCTTTTTAGAATCTCT-A
7797561 GTTTTTTTTTTTGCTTTTTAGGAATCTCTA
1 GTTTTTTTTTTTGCTTTTTA-GAATCTCTA
7797591 GTTTTTTTTTTTG
1 GTTTTTTTTTTTG
7797604 AAAATCGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
27 12 0.31
28 7 0.18
29 1 0.03
30 16 0.41
31 3 0.08
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (29 bp):
GTTTTTTTTTTTGCTTTTTAGAATCTCTA
Found at i:7798799 original size:16 final size:17
Alignment explanation
Indices: 7798778--7798822 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
7798768 ATTATAATAT
7798778 AATTAAAAAATATA-AA
1 AATTAAAAAATATATAA
*
7798794 AATTAAAAAAAATATAA
1 AATTAAAAAATATATAA
*
7798811 AAGTAAAAAATA
1 AATTAAAAAATA
7798823 ATTAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (17 bp):
AATTAAAAAATATATAA
Found at i:7798817 original size:17 final size:18
Alignment explanation
Indices: 7798782--7798820 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
7798772 TAATATAATT
*
7798782 AAAAAATATAAAAATTAA
1 AAAAAATATAAAAAGTAA
7798800 AAAAAATAT-AAAAGTAA
1 AAAAAATATAAAAAGTAA
7798817 AAAA
1 AAAA
7798821 TAATTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAAATATAAAAAGTAA
Found at i:7798819 original size:18 final size:18
Alignment explanation
Indices: 7798782--7798820 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7798772 TAATATAATT
*
7798782 AAAAAATATAAAAATTAA
1 AAAAAATATAAAAATAAA
*
7798800 AAAAAATATAAAAGTAAA
1 AAAAAATATAAAAATAAA
7798818 AAA
1 AAA
7798821 TAATTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAAATATAAAAATAAA
Found at i:7799682 original size:30 final size:30
Alignment explanation
Indices: 7799646--7799709 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
7799636 TAAGAAGTTA
* *
7799646 ATGAAGAGATTCAAAATGATCATAGAAATT
1 ATGAAGAGATTCAAAATGATCATAAAAATC
7799676 ATGAAGAGATTCAAAATGATCATAAAAATC
1 ATGAAGAGATTCAAAATGATCATAAAAATC
7799706 ATGA
1 ATGA
7799710 TGAAAAGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.25
Consensus pattern (30 bp):
ATGAAGAGATTCAAAATGATCATAAAAATC
Found at i:7808669 original size:30 final size:30
Alignment explanation
Indices: 7808635--7808697 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
7808625 ACGTTTAATC
* *
7808635 AAACTTTTTTACTGTTATTTTGAGTCAAAT
1 AAACTATTATACTGTTATTTTGAGTCAAAT
* *
7808665 AAACTATTATATTTTTATTTTGAGTCAAAT
1 AAACTATTATACTGTTATTTTGAGTCAAAT
7808695 AAA
1 AAA
7808698 TCCTAATAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.48
Consensus pattern (30 bp):
AAACTATTATACTGTTATTTTGAGTCAAAT
Found at i:7809881 original size:20 final size:20
Alignment explanation
Indices: 7809856--7809893 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7809846 GGAAGAAAAG
7809856 AGAAAAACCAAAGGAAAACT
1 AGAAAAACCAAAGGAAAACT
**
7809876 AGAAAATTCAAAGGAAAA
1 AGAAAAACCAAAGGAAAA
7809894 ATCACGTTTT
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:0.66, C:0.11, G:0.16, T:0.08
Consensus pattern (20 bp):
AGAAAAACCAAAGGAAAACT
Found at i:7810061 original size:51 final size:50
Alignment explanation
Indices: 7809985--7810087 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 50
7809975 TTCCATTTAG
*
7809985 CATGCTTGAGGAGAGAGATCAAAAAGTGATATCAAGGGGTGGACAAAATT
1 CATGCTTGAGGAGAGAGATCAAAAAGTGATATCAAGGGCTGGACAAAATT
*
7810035 NCATGCTTGAGGAGAGAGATCAAAAAGTGATATCAAGGGCTGGACGAAATT
1 -CATGCTTGAGGAGAGAGATCAAAAAGTGATATCAAGGGCTGGACAAAATT
7810086 CA
1 CA
7810088 AGGGGGAGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 2 0.04
51 48 0.96
ACGTcount: A:0.39, C:0.12, G:0.29, T:0.19
Consensus pattern (50 bp):
CATGCTTGAGGAGAGAGATCAAAAAGTGATATCAAGGGCTGGACAAAATT
Found at i:7813052 original size:15 final size:15
Alignment explanation
Indices: 7813032--7813068 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
7813022 CCTTACGGGG
7813032 CTGAGAAGCTCGCCA
1 CTGAGAAGCTCGCCA
7813047 CTGAGAAGCTCGCCA
1 CTGAGAAGCTCGCCA
7813062 CTGAGAA
1 CTGAGAA
7813069 TAGACGGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.27, T:0.14
Consensus pattern (15 bp):
CTGAGAAGCTCGCCA
Found at i:7822023 original size:37 final size:36
Alignment explanation
Indices: 7821981--7822060 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 36
7821971 ATTTTGGTTG
* * *
7821981 AGGTTATGCCTCATCTTGTGAAAAGGCATGTTGTGAA
1 AGGTTACGCCTAATCCTGTGAAAAGGCATGTTGT-AA
*
7822018 AGGTTACGCCTAATCCTGTTAAAAGGCATGTTGTAA
1 AGGTTACGCCTAATCCTGTGAAAAGGCATGTTGTAA
7822054 AGGTTAC
1 AGGTTAC
7822061 ATTTGACCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 9 0.23
37 30 0.77
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (36 bp):
AGGTTACGCCTAATCCTGTGAAAAGGCATGTTGTAA
Found at i:7822079 original size:37 final size:39
Alignment explanation
Indices: 7821995--7822087 Score: 106
Period size: 37 Copynumber: 2.5 Consensus size: 39
7821985 TATGCCTCAT
*
7821995 CTTG-TGAAAAGGCATGTTGTGAAAGGTTACGCCTAATC
1 CTTGTTGAAAAGGCATGTTGTGAAAGGTTACACCTAATC
** *
7822033 C-TGTT-AAAAGGCATGTTGT-AAAGGTTACATTTGA-C
1 CTTGTTGAAAAGGCATGTTGTGAAAGGTTACACCTAATC
*
7822068 CTTGTTGAAAAGGCAAGTTG
1 CTTGTTGAAAAGGCATGTTG
7822088 ATAGTGGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
35 2 0.04
36 15 0.32
37 28 0.60
38 2 0.04
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (39 bp):
CTTGTTGAAAAGGCATGTTGTGAAAGGTTACACCTAATC
Found at i:7841248 original size:54 final size:54
Alignment explanation
Indices: 7841186--7841392 Score: 261
Period size: 54 Copynumber: 3.8 Consensus size: 54
7841176 TCATCATGTG
* * * *
7841186 CATCTCACCCAGCTTATTTGCATCCCACCACATCGTGCAAATAGTTAGACATCC
1 CATCTCACCCAGCTTATGTGCATCCCACCACATCGTGCACATAGCTGGACATCC
* * * *
7841240 CATCTCACCCAGCTTATATGCATCTCAACATATCGTGCACATAGCTGGACATCC
1 CATCTCACCCAGCTTATGTGCATCCCACCACATCGTGCACATAGCTGGACATCC
* * *
7841294 CATCTCACCTAGCTCATGTGCATCCCACCACATCGTGCACATTGCTGGACATCC
1 CATCTCACCCAGCTTATGTGCATCCCACCACATCGTGCACATAGCTGGACATCC
* * * * * *
7841348 CATGTCACCTAACTTATGTACATCCCACCACTTTGTGCACATAGC
1 CATCTCACCCAGCTTATGTGCATCCCACCACATCGTGCACATAGC
7841393 CGGATAGTAT
Statistics
Matches: 132, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 132 1.00
ACGTcount: A:0.26, C:0.35, G:0.13, T:0.26
Consensus pattern (54 bp):
CATCTCACCCAGCTTATGTGCATCCCACCACATCGTGCACATAGCTGGACATCC
Found at i:7847062 original size:22 final size:22
Alignment explanation
Indices: 7847037--7847088 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
7847027 CTCGCTGCAG
*
7847037 TTTCGCTGCATCGAGAATGAGT
1 TTTCGCTGCATCGAGAATGAAT
*
7847059 TTTCGCTACATCGAGAATGAAT
1 TTTCGCTGCATCGAGAATGAAT
*
7847081 TTTTGCTG
1 TTTCGCTG
7847089 TAGCGAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (22 bp):
TTTCGCTGCATCGAGAATGAAT
Found at i:7847462 original size:2 final size:2
Alignment explanation
Indices: 7847455--7847537 Score: 109
Period size: 2 Copynumber: 42.5 Consensus size: 2
7847445 TATTACATAA
* *
7847455 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A- AT A- ACN
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
7847496 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7847537 A
1 A
7847538 AACACGAATA
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
1 3 0.04
2 68 0.94
3 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:7855245 original size:38 final size:40
Alignment explanation
Indices: 7855197--7855300 Score: 140
Period size: 38 Copynumber: 2.6 Consensus size: 40
7855187 GATAGTGCCC
* *
7855197 ATGTGCACGATGTGGGGGGATGTACACGATGGCA-CTGAT
1 ATGTGCACGATGTGGGGGGATGTACACAATGGCACCGGAT
* * * *
7855236 -TGTGTACGATGTGGGGGGATGCACACAATGGTACCGGCT
1 ATGTGCACGATGTGGGGGGATGTACACAATGGCACCGGAT
7855275 ATGTGCACGATGTGGGGGGATGTACA
1 ATGTGCACGATGTGGGGGGATGTACA
7855301 TGAGCCGGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 29 0.53
39 3 0.05
40 23 0.42
ACGTcount: A:0.22, C:0.15, G:0.39, T:0.23
Consensus pattern (40 bp):
ATGTGCACGATGTGGGGGGATGTACACAATGGCACCGGAT
Found at i:7860126 original size:43 final size:43
Alignment explanation
Indices: 7860078--7860187 Score: 157
Period size: 43 Copynumber: 2.6 Consensus size: 43
7860068 TCACCAGCTC
* ** *
7860078 ATGCGCACTCCCTACTCTCACATGGCTGGGTCATCATCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCATCGGCTT
* *
7860121 ATGCGCACTCCCTACTCGCACATAATTGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACTGGGTCATCATCGGCTT
*
7860164 ATGCGCATTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
7860188 GCCGAGTCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.19, C:0.35, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACTGGGTCATCATCGGCTT
Found at i:7866309 original size:63 final size:64
Alignment explanation
Indices: 7866210--7866370 Score: 211
Period size: 63 Copynumber: 2.5 Consensus size: 64
7866200 ATAATGGATG
* * *
7866210 TAACCATGCATGTGCGGAGTGGGTAGTGCACATGCCGGTTGAATGATAAGGTTTCGA-AAGTTA-
1 TAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTTGAATGATAAGGTTGCGATAA-TTAC
* * *
7866273 TAACCGTGCATGTGCGGAGTGGGCAATGCACATGCCGGTTGAATGATGATGTTGCGATAATTAC
1 TAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTTGAATGATAAGGTTGCGATAATTAC
* **
7866337 T-ACTGTGCATGTGCAAAGTGGGCAGTGCACATGC
1 TAACCGTGCATGTGCGGAGTGGGCAGTGCACATGC
7866371 TGGTAATGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
63 83 0.97
64 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (64 bp):
TAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTTGAATGATAAGGTTGCGATAATTAC
Found at i:7869939 original size:4 final size:4
Alignment explanation
Indices: 7869898--7869980 Score: 98
Period size: 4 Copynumber: 20.5 Consensus size: 4
7869888 GGTTGTGACA
*
7869898 CTTT CTTT CCTTT CCTTT CCTTT C-TC CTTT CTTT -TTT CTTT CTTT CTTT
1 CTTT CTTT -CTTT -CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
* *
7869947 CTTT CTTT CTTC CTTT CTTT CTTT CTTC CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
7869981 CTCCAAGCTG
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
3 5 0.07
4 51 0.73
5 14 0.20
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
CTTT
Found at i:7882677 original size:37 final size:37
Alignment explanation
Indices: 7882632--7882732 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
7882622 TACATCGTCA
*
7882632 TCATGTGTGCACTCCCTACTCACACACTCCATCATCG
1 TCATGTGTGCACTCCCTACTCGCACACTCCATCATCG
* *
7882669 TCATGTGTGCACTCCCTACTCGCACACTCTATCGTCG
1 TCATGTGTGCACTCCCTACTCGCACACTCCATCATCG
7882706 TCATGTGTGCACTCCCTACTCGCACAC
1 TCATGTGTGCACTCCCTACTCGCACAC
7882733 CTCAACATCA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.19, C:0.40, G:0.14, T:0.28
Consensus pattern (37 bp):
TCATGTGTGCACTCCCTACTCGCACACTCCATCATCG
Found at i:7884225 original size:20 final size:21
Alignment explanation
Indices: 7884202--7884247 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
7884192 ACATGTTGAC
7884202 TAGTTTAA-TTTAAGTTATTT
1 TAGTTTAATTTTAAGTTATTT
* *
7884222 TAGTATAATTTTATGTTATTT
1 TAGTTTAATTTTAAGTTATTT
7884243 T-GTTT
1 TAGTTT
7884248 TAAATTACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (21 bp):
TAGTTTAATTTTAAGTTATTT
Found at i:7907380 original size:19 final size:19
Alignment explanation
Indices: 7907340--7907381 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
7907330 AGGCCTAAGG
*
7907340 AATAAATGAATGAAGGTAA
1 AATAAATGAATGAAGATAA
7907359 AATAAATGAA-GAAGATATA
1 AATAAATGAATGAAGATA-A
7907378 AATA
1 AATA
7907382 CTGAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:7908115 original size:2 final size:2
Alignment explanation
Indices: 7908108--7908145 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7908098 TAAGATGCTG
7908108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7908146 GTTGTGTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7908291 original size:39 final size:39
Alignment explanation
Indices: 7908243--7908317 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
7908233 CCGATGTGGG
* *
7908243 GGATGCACACGATGACTCCAGCTATGTGCGCGATGTAAA
1 GGATACACACAATGACTCCAGCTATGTGCGCGATGTAAA
*
7908282 GGATACACACAATGACTCCAGCTATGTGCGTGATGT
1 GGATACACACAATGACTCCAGCTATGTGCGCGATGT
7908318 GGGGATTGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
GGATACACACAATGACTCCAGCTATGTGCGCGATGTAAA
Found at i:7912439 original size:38 final size:40
Alignment explanation
Indices: 7912353--7912455 Score: 111
Period size: 38 Copynumber: 2.6 Consensus size: 40
7912343 ACCCGACTCA
* * * *
7912353 TGTACATCCCCCCACAACTTGCACATAGCCGGCACCATCT
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCACCATCG
* * *
7912393 TGTGCATCCCCCCACATCGTGCACA-A-TCAGCGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCACCATCG
**
7912431 TGTACATCCCCTTACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
7912456 CGGGCACTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 30 0.57
39 1 0.02
40 22 0.42
ACGTcount: A:0.23, C:0.41, G:0.15, T:0.21
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGCCAGCACCATCG
Found at i:7919185 original size:36 final size:37
Alignment explanation
Indices: 7919045--7919178 Score: 128
Period size: 37 Copynumber: 3.4 Consensus size: 37
7919035 AGATTGCCTA
* *
7919045 TGTGCACAATGTGGGGGGAGCACATGACGGCATTAGT
1 TGTGCACGATGTGGGGGGAGCACATGATGGCATTAGT
*
7919082 TGTGCATGATGTGGGGGTGCA-CACGATGATGATG-ATATATGT
1 TGTGCACGATGTGGGGG-G-AGCAC-ATGATG--GCAT-TA-GT
* *
7919124 CATGTGCGCGATGTGGGGGAAGCACATGATGGCATTAGT
1 --TGTGCACGATGTGGGGGGAGCACATGATGGCATTAGT
7919163 TGTGCACGATGTGGGG
1 TGTGCACGATGTGGGG
7919179 TTGCACACGA
Statistics
Matches: 79, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
37 30 0.38
38 4 0.05
39 8 0.10
40 5 0.06
41 5 0.06
42 9 0.11
43 3 0.04
44 15 0.19
ACGTcount: A:0.22, C:0.13, G:0.39, T:0.25
Consensus pattern (37 bp):
TGTGCACGATGTGGGGGGAGCACATGATGGCATTAGT
Found at i:7926114 original size:81 final size:81
Alignment explanation
Indices: 7925968--7926131 Score: 249
Period size: 81 Copynumber: 2.0 Consensus size: 81
7925958 AGGGAATGTG
* * *
7925968 GATGATGAGATTGCCTATGTGCTCGATGTAGGGGGAGCACATGATGGCATTAGTCGTGCATGATG
1 GATGATGAGATTGCCTATGTGCGCGAAGTAGGGGGAGCACATGATGGCATTAGTCGTGCACGATG
7926033 TGGGGGTGCACACGAT
66 TGGGGGTGCACACGAT
* * **
7926049 GATGATGATATATGCC-ATGTGCGCGAAGTAGGGGGAGCACATGATGGCATTAGTTGTGTGCGAT
1 GATGATGAGAT-TGCCTATGTGCGCGAAGTAGGGGGAGCACATGATGGCATTAGTCGTGCACGAT
7926113 GTGGGGGTGCACACGAT
65 GTGGGGGTGCACACGAT
7926130 GA
1 GA
7926132 CTCCGGCTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
81 71 0.95
82 4 0.05
ACGTcount: A:0.23, C:0.14, G:0.38, T:0.25
Consensus pattern (81 bp):
GATGATGAGATTGCCTATGTGCGCGAAGTAGGGGGAGCACATGATGGCATTAGTCGTGCACGATG
TGGGGGTGCACACGAT
Found at i:7927334 original size:2 final size:2
Alignment explanation
Indices: 7927327--7927371 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
7927317 CATCTATTGC
7927327 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7927369 TA T
1 TA T
7927372 CTTAACAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7928115 original size:95 final size:94
Alignment explanation
Indices: 7927952--7928126 Score: 242
Period size: 95 Copynumber: 1.9 Consensus size: 94
7927942 AAATTTCTCA
*
7927952 CTGCAACGAGATTGCATTCTCACTACATTAAAAACCAAGGCTAGTGTAAACCCTCACCACCCGAG
1 CTGCAACGAGATTGCATTCTCACTACAGTAAAAACCAAGGCTAGTGTAAACCCTCACCACCCGAG
*
7928017 AGTTTCTCGTTGCAGCATGATTCATTCTTG
66 AG-TTCTCATTGCAGCATGATTCATTCTTG
* ** * * * * * *
7928047 CTGCAACGAGATTTCATTCTTGCTGCAGTGAAAACTAGGGCTGGTGTAAACCCTCACCACCTGAG
1 CTGCAACGAGATTGCATTCTCACTACAGTAAAAACCAAGGCTAGTGTAAACCCTCACCACCCGAG
7928112 AGTTCTCATTGCAGC
66 AGTTCTCATTGCAGC
7928127 GGAATGCATT
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 12 0.17
95 57 0.83
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (94 bp):
CTGCAACGAGATTGCATTCTCACTACAGTAAAAACCAAGGCTAGTGTAAACCCTCACCACCCGAG
AGTTCTCATTGCAGCATGATTCATTCTTG
Found at i:7928397 original size:38 final size:38
Alignment explanation
Indices: 7928372--7928462 Score: 146
Period size: 38 Copynumber: 2.4 Consensus size: 38
7928362 ATGCACAAGG
7928372 CAATATCATCATCATGTGCTATCCCTACTAGCACATTT
1 CAATATCATCATCATGTGCTATCCCTACTAGCACATTT
* * * *
7928410 CCATATCATCATCATGTGCTCTCCCTATTGGCACATTT
1 CAATATCATCATCATGTGCTATCCCTACTAGCACATTT
7928448 CAATATCATCATCAT
1 CAATATCATCATCAT
7928463 CATCATGTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.35
Consensus pattern (38 bp):
CAATATCATCATCATGTGCTATCCCTACTAGCACATTT
Found at i:7928464 original size:44 final size:43
Alignment explanation
Indices: 7928376--7928502 Score: 149
Period size: 44 Copynumber: 3.0 Consensus size: 43
7928366 ACAAGGCAAT
*
7928376 ATCATCATCATGTGCTATCCCTACTAGCACATTTC----CAT-
1 ATCATCATCATGTGCTCTCCCTACTAGCACATTTCAATTCATC
* *
7928414 ATCATCATCATGTGCTCTCCCTATTGGCACATTTCAATATCATC
1 ATCATCATCATGTGCTCTCCCTACTAGCACATTTCAAT-TCATC
*
7928458 ATCATCATCATGTG-TACTCCCTACTAACACATTTCAATCTCATC
1 ATCATCATCATGTGCT-CTCCCTACTAGCACATTTCAAT-TCATC
7928502 A
1 A
7928503 CACAATGATA
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
38 32 0.43
43 4 0.05
44 39 0.52
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.35
Consensus pattern (43 bp):
ATCATCATCATGTGCTCTCCCTACTAGCACATTTCAATTCATC
Found at i:7942086 original size:25 final size:25
Alignment explanation
Indices: 7942028--7942087 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
7942018 GTGGTCGCAA
* * *
7942028 CCACGTATATCAACTCGTGGCTTTG
1 CCACGTATAACAACCCGTGGCCTTG
*
7942053 CCATGTATAACAACCCGTGGCCTTG
1 CCACGTATAACAACCCGTGGCCTTG
*
7942078 CCACATATAA
1 CCACGTATAA
7942088 TCACAGACTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (25 bp):
CCACGTATAACAACCCGTGGCCTTG
Found at i:7944373 original size:81 final size:81
Alignment explanation
Indices: 7944282--7944472 Score: 310
Period size: 81 Copynumber: 2.4 Consensus size: 81
7944272 ATAGTCAGAG
* * *
7944282 TCATCGTGTGCACCCCAACATCGCACACAACTAATGCCATCATGTGCTCCCCCCACATAGTGCAC
1 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATAGTGAAC
*
7944347 ATGGCACATATCATCA
66 ATAGCACATATCATCA
** *
7944363 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCTTACATCGTGAAC
1 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATAGTGAAC
*
7944428 ATAGCATATATCATCA
66 ATAGCACATATCATCA
7944444 TCATCGTGTGCACCCCCACATCGCGCACA
1 TCATCGTGTGCACCCCCACATCGCGCACA
7944473 TAGGCAATCT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.27, C:0.37, G:0.14, T:0.22
Consensus pattern (81 bp):
TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATAGTGAAC
ATAGCACATATCATCA
Found at i:7944391 original size:44 final size:44
Alignment explanation
Indices: 7944331--7944489 Score: 131
Period size: 44 Copynumber: 3.8 Consensus size: 44
7944321 TCATGTGCTC
* *
7944331 CCCCCACATAGTGCACATGGCACATATCATCATCATCGTGTGCA
1 CCCCCACATCGCGCACATGGCACATATCATCATCATCGTGTGCA
* *
7944375 CCCCCACATCGCGCACA----AC-TA--ATGC--CATCATGTGCT
1 CCCCCACATCGCGCACATGGCACATATCAT-CATCATCGTGTGCA
* * * * *
7944411 CCCCTTACATCGTGAACATAGCATATATCATCATCATCGTGTGCA
1 CCCC-CACATCGCGCACATGGCACATATCATCATCATCGTGTGCA
*
7944456 CCCCCACATCGCGCACATAGGCA-ATCTCATCATC
1 CCCCCACATCGCGCACAT-GGCACATATCATCATC
7944490 CACACTCCCT
Statistics
Matches: 88, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
36 13 0.15
37 12 0.14
38 1 0.01
39 2 0.02
40 2 0.02
41 1 0.01
42 2 0.02
43 1 0.01
44 38 0.43
45 16 0.18
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (44 bp):
CCCCCACATCGCGCACATGGCACATATCATCATCATCGTGTGCA
Found at i:7946217 original size:18 final size:19
Alignment explanation
Indices: 7946178--7946220 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
7946168 TTAATGTTTT
7946178 AATATTATTTCATTAATAA
1 AATATTATTTCATTAATAA
* *
7946197 AATATTATTTTATT-CTAA
1 AATATTATTTCATTAATAA
7946215 AATATT
1 AATATT
7946221 CCACCAGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATTATTTCATTAATAA
Found at i:7947777 original size:43 final size:43
Alignment explanation
Indices: 7947720--7947838 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
7947710 GTAATTATAT
* *
7947720 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
7947763 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
7947806 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
7947839 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:7947848 original size:43 final size:43
Alignment explanation
Indices: 7947730--7947851 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
7947720 TGACTCGGCT
* **
7947730 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
7947773 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
7947816 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
7947852 TGATGATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:7949322 original size:18 final size:19
Alignment explanation
Indices: 7949287--7949322 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7949277 TGCAAAATTG
*
7949287 AAAAAAAGAGAAAGTGAAA
1 AAAAAAAGAGAAAATGAAA
7949306 AAAAAAAGA-AAAATGAA
1 AAAAAAAGAGAAAATGAA
7949323 GAAGGTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (19 bp):
AAAAAAAGAGAAAATGAAA
Found at i:7949795 original size:26 final size:27
Alignment explanation
Indices: 7949757--7949992 Score: 130
Period size: 26 Copynumber: 8.6 Consensus size: 27
7949747 CAACAAGATG
* *
7949757 TGTAGCAACCTTTTTTTTCAGCAT-GACA
1 TGTAACAA-CTTTTTTTTCAACATAG-CA
* *
7949785 T-TAACAGCTTTTTTTCCAACATAGCA
1 TGTAACAACTTTTTTTTCAACATAGCA
7949811 TGTAACAACTTTTTTTTTTTTGCAACATCA-CA
1 TGTAACAAC----TTTTTTTT-CAACAT-AGCA
* * *
7949843 TGTAACTAC---ATTTT-AAGCATGGCA
1 TGTAACAACTTTTTTTTCAA-CATAGCA
*
7949867 TGTAACAATAACATTTTTTTCAACATAGCA
1 TGTAAC---AACTTTTTTTTCAACATAGCA
* * * *
7949897 TATAACAA-TTTTTTTTCAATATGGCG
1 TGTAACAACTTTTTTTTCAACATAGCA
* * * *
7949923 TATAATAA-TTTTTTTTCAACATGGCG
1 TGTAACAACTTTTTTTTCAACATAGCA
* * *
7949949 TGTAATAACTATTTTTTCAACATAGCG
1 TGTAACAACTTTTTTTTCAACATAGCA
7949976 TGTAACAACTTTTTTTT
1 TGTAACAACTTTTTTTT
7949993 TTAACATGAG
Statistics
Matches: 166, Mismatches: 24, Indels: 37
0.73 0.11 0.16
Matches are distributed among these distances:
23 2 0.01
24 11 0.07
25 4 0.02
26 61 0.37
27 46 0.28
28 1 0.01
30 15 0.09
31 9 0.05
32 16 0.10
33 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (27 bp):
TGTAACAACTTTTTTTTCAACATAGCA
Found at i:7950124 original size:27 final size:27
Alignment explanation
Indices: 7949876--7950129 Score: 114
Period size: 26 Copynumber: 9.5 Consensus size: 27
7949866 ATGTAACAAT
* *
7949876 AACATTTTTTTCAACAT-AGCATATAAC
1 AACATTTTTTTCAACATGA-CGTGTAAC
* * * * *
7949903 AA-TTTTTTTTCAATATGGCGTATAAT
1 AACATTTTTTTCAACATGACGTGTAAC
* * *
7949929 AA-TTTTTTTTCAACATGGCGTGTAAT
1 AACATTTTTTTCAACATGACGTGTAAC
7949955 AAC-TATTTTTTCAACAT-AGCGTGTAAC
1 AACAT-TTTTTTCAACATGA-CGTGTAAC
* * *
7949982 AACTTTTTTTTTTAACATGA-GTTGTAAA
1 AAC-ATTTTTTTCAACATGACG-TGTAAC
* * ** *
7950010 AACA---TTTTGAATATGGTGTGTAAT
1 AACATTTTTTTCAACATGACGTGTAAC
* *
7950034 AACAATATTTTTTCAATATGACATGTAAC
1 AAC-AT-TTTTTTCAACATGACGTGTAAC
* * * * *
7950063 AAC-TTTTTTCCAGCATGACATGAAAT
1 AACATTTTTTTCAACATGACGTGTAAC
* *
7950089 AACTTTTTTTTTCAACATGATGTGTAAC
1 AAC-ATTTTTTTCAACATGACGTGTAAC
*
7950117 AACATTTTATTCA
1 AACATTTTTTTCA
7950130 TGTGTGCTTG
Statistics
Matches: 177, Mismatches: 34, Indels: 32
0.73 0.14 0.13
Matches are distributed among these distances:
24 17 0.10
25 2 0.01
26 65 0.37
27 34 0.19
28 39 0.22
29 20 0.11
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (27 bp):
AACATTTTTTTCAACATGACGTGTAAC
Found at i:7955149 original size:28 final size:28
Alignment explanation
Indices: 7955090--7955149 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
7955080 TTTCAGAGCA
** * *
7955090 TAGGGGCAAAATGGTAATTTTGCTACCT
1 TAGGGGCAAAACAGTAATTTTGCCACCC
7955118 TAGGGGCAAAACAGTAATTTT-CCACCAC
1 TAGGGGCAAAACAGTAATTTTGCCACC-C
7955146 TAGG
1 TAGG
7955150 ACATTTTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (28 bp):
TAGGGGCAAAACAGTAATTTTGCCACCC
Found at i:7955428 original size:30 final size:31
Alignment explanation
Indices: 7955394--7955452 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
7955384 CCCTAGAGAG
7955394 AGAAAATCAA-AGAAAAAGTGTGA-ATTTTCA
1 AGAAAATCAAGAGAAAAAG-GTGAGATTTTCA
* *
7955424 AGAAAATTAAGTGAAAAAGGTGAGATTTT
1 AGAAAATCAAGAGAAAAAGGTGAGATTTT
7955453 TTCTATTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.51, C:0.03, G:0.20, T:0.25
Consensus pattern (31 bp):
AGAAAATCAAGAGAAAAAGGTGAGATTTTCA
Found at i:7956332 original size:18 final size:18
Alignment explanation
Indices: 7956286--7956332 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
7956276 TTTATGAGAA
*
7956286 AAATATGAATTTATAAAAT
1 AAAT-TGAAATTATAAAAT
*
7956305 AAA-TGGAATTATAAAAT
1 AAATTGAAATTATAAAAT
7956322 AAATTGAAATT
1 AAATTGAAATT
7956333 TTTATAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 15 0.62
18 6 0.25
19 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
AAATTGAAATTATAAAAT
Found at i:7958242 original size:214 final size:214
Alignment explanation
Indices: 7957873--7958305 Score: 821
Period size: 214 Copynumber: 2.0 Consensus size: 214
7957863 CGCTAGTGTT
*
7957873 CATGTATTTTAACTAATGCCTACTGTATTCCTAAATATATATTCTAATTCATCAGCATGTTCCAG
1 CATGTATTTTAACTAATGCCTACTGTATTCCTAAATATAAATTCTAATTCATCAGCATGTTCCAG
7957938 CCCGTGATATCAAAATATAGCATATTTTAGATTGGCTTACACAAACATCACAAAGAAACAAACTT
66 CCCGTGATATCAAAATATAGCATATTTTAGATTGGCTTACACAAACATCACAAAGAAACAAACTT
7958003 TTTAACAACGTGCATATGTTAAATAATTTATAGTATCTAAAATATATAAAATTTAAAATACTTAC
131 TTTAACAACGTGCATATGTTAAATAATTTATAGTATCTAAAATATATAAAATTTAAAATACTTAC
7958068 TTTTATTTTAGCATCCCAC
196 TTTTATTTTAGCATCCCAC
*
7958087 CATGTATTTTAACTAATGCCTACTGTATTCCTAAATATAAATTCTAATTCATCAGTATGTTCCAG
1 CATGTATTTTAACTAATGCCTACTGTATTCCTAAATATAAATTCTAATTCATCAGCATGTTCCAG
7958152 CCCGTGATATCAAAATATAGCATATTTTAGATTGGCTTACACAAACATCACAAAGAAACAAACTT
66 CCCGTGATATCAAAATATAGCATATTTTAGATTGGCTTACACAAACATCACAAAGAAACAAACTT
*
7958217 TTTAACAACGTGCATATGTTAAATAATTTATAGTATCTAAAATATATAAAATTTAAAATACTTAT
131 TTTAACAACGTGCATATGTTAAATAATTTATAGTATCTAAAATATATAAAATTTAAAATACTTAC
* *
7958282 TTTTATTTTGGCTTCCCAC
196 TTTTATTTTAGCATCCCAC
7958301 CATGT
1 CATGT
7958306 GGCATCAACT
Statistics
Matches: 214, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
214 214 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (214 bp):
CATGTATTTTAACTAATGCCTACTGTATTCCTAAATATAAATTCTAATTCATCAGCATGTTCCAG
CCCGTGATATCAAAATATAGCATATTTTAGATTGGCTTACACAAACATCACAAAGAAACAAACTT
TTTAACAACGTGCATATGTTAAATAATTTATAGTATCTAAAATATATAAAATTTAAAATACTTAC
TTTTATTTTAGCATCCCAC
Found at i:7958752 original size:29 final size:29
Alignment explanation
Indices: 7958711--7958778 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
7958701 AGGATGGTCC
*
7958711 ATTACACCATTAGGAAAAAAAAGATTATT
1 ATTACTCCATTAGGAAAAAAAAGATTATT
* * *
7958740 ATTACTCCGTTAGGAAAACAATGATTATT
1 ATTACTCCATTAGGAAAAAAAAGATTATT
*
7958769 AATACTCCAT
1 ATTACTCCAT
7958779 GAAATATTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (29 bp):
ATTACTCCATTAGGAAAAAAAAGATTATT
Found at i:7960014 original size:35 final size:35
Alignment explanation
Indices: 7959943--7960016 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
7959933 CTCCAGCAGC
* *
7959943 TCATGTGCACTCCCACATCGCACATAGCTAGGTCA
1 TCATGTGCACTCCCACATCGCACATAGCAAGATCA
*
7959978 TCATGTGCACTCCCACA-CTGCACATTA-CAATATCA
1 TCATGTGCACTCCCACATC-GCACA-TAGCAAGATCA
7960013 TCAT
1 TCAT
7960017 TAGCATCATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 1 0.03
35 31 0.91
36 2 0.06
ACGTcount: A:0.28, C:0.34, G:0.12, T:0.26
Consensus pattern (35 bp):
TCATGTGCACTCCCACATCGCACATAGCAAGATCA
Found at i:7962544 original size:28 final size:28
Alignment explanation
Indices: 7962513--7962681 Score: 225
Period size: 28 Copynumber: 6.0 Consensus size: 28
7962503 AATATGTTAC
* * *
7962513 CTTGCCTAAATTGAGACAAATATGTTTT
1 CTTGTCTAAATTAAGACAAACATGTTTT
*
7962541 CTTGTCTAAATTAAGAC-AACATATTTTT
1 CTTGTCTAAATTAAGACAAACAT-GTTTT
* *
7962569 CTTGTCTCAAATTAAGTCAAACATATTTT
1 CTTGTCT-AAATTAAGACAAACATGTTTT
*
7962598 TTTGTCTAAATTCAA-ACCAAACATGTTTT
1 CTTGTCTAAATT-AAGA-CAAACATGTTTT
7962627 CTTGTCTAAATTAAGACAAACATGTTTT
1 CTTGTCTAAATTAAGACAAACATGTTTT
7962655 CTTGTCTAAATTAAGACAAACATGTTT
1 CTTGTCTAAATTAAGACAAACATGTTT
7962682 AAGTTGCCAT
Statistics
Matches: 125, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
27 4 0.03
28 72 0.58
29 44 0.35
30 5 0.04
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (28 bp):
CTTGTCTAAATTAAGACAAACATGTTTT
Found at i:7962581 original size:29 final size:29
Alignment explanation
Indices: 7962480--7962677 Score: 203
Period size: 28 Copynumber: 6.9 Consensus size: 29
7962470 TTTAAGACAA
* * *
7962480 TTCTTGTCTTTAATTGAGACAAAAATATGTT
1 TTCTTGTC-TAAATTAAGACAAACATAT-TT
** * *
7962511 ACCTTGCCTAAATTGAGAC-AA-ATATGTT
1 TTCTTGTCTAAATTAAGACAAACATAT-TT
7962539 TTCTTGTCTAAATTAAGAC-AACATATTT
1 TTCTTGTCTAAATTAAGACAAACATATTT
*
7962567 TTCTTGTCTCAAATTAAGTCAAACATATTT
1 TTCTTGTCT-AAATTAAGACAAACATATTT
*
7962597 TT-TTGTCTAAATTCAA-ACCAAACAT-GTT
1 TTCTTGTCTAAATT-AAGA-CAAACATATTT
*
7962625 TTCTTGTCTAAATTAAGACAAACAT-GTT
1 TTCTTGTCTAAATTAAGACAAACATATTT
7962653 TTCTTGTCTAAATTAAGACAAACAT
1 TTCTTGTCTAAATTAAGACAAACAT
7962678 GTTTAAGTTG
Statistics
Matches: 149, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
28 81 0.54
29 42 0.28
30 21 0.14
31 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (29 bp):
TTCTTGTCTAAATTAAGACAAACATATTT
Found at i:7962603 original size:57 final size:55
Alignment explanation
Indices: 7962513--7962681 Score: 196
Period size: 57 Copynumber: 3.0 Consensus size: 55
7962503 AATATGTTAC
* * * * * *
7962513 CTTGCCTAAATTGAGACAAATATGTTTTCTTGTCTAAATTAAGACAACATATTTTT
1 CTTGTCTAAATTAAGACAAACATATTTTTTTGTCTAAATTAAGACAACAT-GTTTT
*
7962569 CTTGTCTCAAATTAAGTCAAACATATTTTTTTGTCTAAATTCAA-ACCAAACATGTTTT
1 CTTGTCT-AAATTAAGACAAACATATTTTTTTGTCTAAATT-AAGA-C-AACATGTTTT
* *
7962627 CTTGTCTAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGACAAACATGTTT
1 CTTGTCTAAATTAAGACAAACATATTTTTTTGTCTAAATTAAGAC-AACATGTTT
7962682 AAGTTGCCAT
Statistics
Matches: 98, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
56 19 0.19
57 60 0.61
58 14 0.14
59 5 0.05
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (55 bp):
CTTGTCTAAATTAAGACAAACATATTTTTTTGTCTAAATTAAGACAACATGTTTT
Done.