Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 127 of 410
Found at i:38256134 original size:32 final size:32
Alignment explanation
Indices: 38256072--38256134 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
38256062 TACCGTCGCT
*
38256072 GATGGTTATGTGCCAAACATAATATAGTTACA
1 GATGGTTATGTGCCAAACATAATACAGTTACA
** *
38256104 GATGGATT-TGTGCCAATTATAATACCGTTAC
1 GATGG-TTATGTGCCAAACATAATACAGTTAC
38256135 TGAAGGCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (32 bp):
GATGGTTATGTGCCAAACATAATACAGTTACA
Found at i:38256384 original size:31 final size:33
Alignment explanation
Indices: 38256340--38256404 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
38256330 TGTCACTGTA
* *
38256340 TTGGGCTTAGGCCCACTTG-TTCTATTATTGGT
1 TTGGGCTTAGGCCCAATTGATTCTATTATGGGT
*
38256372 TTGGGC-TAGGCCCAATTGATTCTTTTATGGGT
1 TTGGGCTTAGGCCCAATTGATTCTATTATGGGT
38256404 T
1 T
38256405 GTGACCCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.14, C:0.17, G:0.26, T:0.43
Consensus pattern (33 bp):
TTGGGCTTAGGCCCAATTGATTCTATTATGGGT
Found at i:38257446 original size:17 final size:18
Alignment explanation
Indices: 38257426--38257462 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
38257416 TTCAAAAAAT
*
38257426 AATTATTAG-GTTGAATA
1 AATTATAAGTGTTGAATA
38257443 AATTATAAGTGTTGAATA
1 AATTATAAGTGTTGAATA
38257461 AA
1 AA
38257463 AATGTGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (18 bp):
AATTATAAGTGTTGAATA
Found at i:38259752 original size:29 final size:29
Alignment explanation
Indices: 38259686--38259773 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 29
38259676 AAATTCACAT
* * *
38259686 ACCTGTATTTGGCCCATTAAGCCC-AATC
1 ACCTGTATATAGCCCATTAGGCCCAAATC
**
38259714 ATAT-TCATATAGCCCATTAGGCCCAAATC
1 ACCTGT-ATATAGCCCATTAGGCCCAAATC
38259743 ACCTGTATATAGCCCATTAGGCCCAAATC
1 ACCTGTATATAGCCCATTAGGCCCAAATC
38259772 AC
1 AC
38259774 ATTTATTTGG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.02
28 17 0.34
29 31 0.62
30 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
ACCTGTATATAGCCCATTAGGCCCAAATC
Found at i:38259786 original size:29 final size:29
Alignment explanation
Indices: 38259697--38259794 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
38259687 CCTGTATTTG
* * *
38259697 GCCCATTAAGCCC-AATCATATTCATATA
1 GCCCATTAGGCCCAAATCACATTTATATA
* *
38259725 GCCCATTAGGCCCAAATCACCTGTATATA
1 GCCCATTAGGCCCAAATCACATTTATATA
* *
38259754 GCCCATTAGGCCCAAATCACATTTATTTG
1 GCCCATTAGGCCCAAATCACATTTATATA
*
38259783 GCCCGTTAGGCC
1 GCCCATTAGGCC
38259795 TAGTCACATT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 12 0.20
29 47 0.80
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATTTATATA
Found at i:38260885 original size:30 final size:30
Alignment explanation
Indices: 38260851--38260911 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
38260841 TTCTCGAGCC
38260851 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
38260881 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
38260911 T
1 T
38260912 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:38261726 original size:64 final size:64
Alignment explanation
Indices: 38261577--38261828 Score: 199
Period size: 68 Copynumber: 3.8 Consensus size: 64
38261567 TACAGATAGT
* ** * * *
38261577 ATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACAAG--A
*
38261640 TTATG
62 -TA-A
* ** *
38261645 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
* * * * *
38261709 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACTATGTAGACAAGAGAGCTACAAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACAAGAT
38261774 AA
63 AA
* * *
38261776 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
38261829 CAAACTATAT
Statistics
Matches: 150, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 26 0.17
65 2 0.01
66 23 0.15
67 32 0.21
68 47 0.31
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
Found at i:38261767 original size:67 final size:64
Alignment explanation
Indices: 38261645--38261768 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
38261635 AGACATTATG
* * *
38261645 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAGACAAGAGAGCTACGGGATAT
* * *
38261709 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACTATGTAGACAAGAGAGCTAC
1 ATGTAGCTAGGTCGCATGCGTGATACTA--TG-AGGACACCATGTAGACAAGAGAGCTAC
38261769 AAGATAAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 25 0.49
66 2 0.04
67 24 0.47
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAGACAAGAGAGCTACGGGATAT
Found at i:38267868 original size:28 final size:29
Alignment explanation
Indices: 38267826--38267938 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 29
38267816 TACCTGTATC
* * *
38267826 TGGCACATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
38267854 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
38267883 TGGCCCATTAGGCCCAAATCACATTTATT
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
38267912 TGGCCCGTTAGGCCC-AGTCACATTCAT
1 TGGCCCATTAGGCCCAAATCACATTCAT
38267939 TTTCATTCTC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.33
29 48 0.66
30 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:38267926 original size:58 final size:57
Alignment explanation
Indices: 38267817--38267927 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
38267807 AAATTCACAT
* *
38267817 ACCTGTATCTGGCACATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCACATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * * *
38267874 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATTTGGCCCGTTAGGCCCA
1 ACCTGTATATGGCACATTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
38267928 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (57 bp):
ACCTGTATATGGCACATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:38277511 original size:40 final size:39
Alignment explanation
Indices: 38277447--38277634 Score: 214
Period size: 39 Copynumber: 4.8 Consensus size: 39
38277437 GCTACTCGTT
* * * ** * *
38277447 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCACA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
38277487 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
38277527 CAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * * * *
38277566 CAATTGCCTTCGGGCTTAGCCCGGATGTCACAATTTGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
38277605 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
38277635 CTCGAACATT
Statistics
Matches: 131, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 87 0.66
40 44 0.34
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:38277562 original size:39 final size:39
Alignment explanation
Indices: 38277485--38277635 Score: 239
Period size: 39 Copynumber: 3.8 Consensus size: 39
38277475 TGGTAACCCA
* *
38277485 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCG
1 CACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCG
*
38277525 CACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
* * *
38277564 CACAATTGCCTTCGGGCTTAGCCCGGATGTCACAATTTG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
38277603 CACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCAC
38277636 TCGAACATTT
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (39 bp):
CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
Found at i:38277611 original size:78 final size:79
Alignment explanation
Indices: 38277452--38277634 Score: 251
Period size: 78 Copynumber: 2.3 Consensus size: 79
38277442 TCGTTCAAAC
* * **
38277452 GCCTTCGGGACATAGCCCGGTTATGGTAACCCACACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCACACAAATGCCTTCGGGACTTAACCCGGATATC
38277517 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * * * *
38277532 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATGTCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCACACAAATGCCTTCGGGACTTAACCCGGATATCA
* *
38277596 CAATTTGCACAATT
66 CAACTCGCACAATT
38277610 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
38277635 CTCGAACATT
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 51 0.55
79 32 0.35
80 9 0.10
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCACACAAATGCCTTCGGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:38280463 original size:40 final size:40
Alignment explanation
Indices: 38280408--38280544 Score: 220
Period size: 40 Copynumber: 3.4 Consensus size: 40
38280398 TGTGCATAGT
* * *
38280408 ATTCGTGCGGGTTATTGTAACCGAGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCAAAGGC
*
38280448 ATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCAAAGGC
*
38280488 ATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCAAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCAAAGGC
*
38280528 ATTCGTGCTGGTTATTA
1 ATTCGTGCGGGTTATTA
38280545 CATCCGAGCC
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCAAAGGC
Found at i:38283261 original size:13 final size:13
Alignment explanation
Indices: 38283235--38283268 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38283225 AATTAAGCAC
38283235 TTTTCACATAAAA
1 TTTTCACATAAAA
* *
38283248 TTTTCTCATGAAA
1 TTTTCACATAAAA
38283261 TTTTCACA
1 TTTTCACA
38283269 CAAGCATAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.44
Consensus pattern (13 bp):
TTTTCACATAAAA
Found at i:38288602 original size:63 final size:64
Alignment explanation
Indices: 38288452--38288612 Score: 182
Period size: 63 Copynumber: 2.5 Consensus size: 64
38288442 AATCGGTCAC
* * * *
38288452 CTAGCTTGTGCTACAAGTGTGGTGAAGGAGGGCACTTTGCACATGAATGCACTACTGGTACTGCA
1 CTAGCTTATGCTACAAGTGT-G-G-AGGAGGACACTTTGCACATCAATGCACCACTGG-A-TGCA
*
38288517 TCAT
61 GCAT
* *
38288521 CTAGTTTATACTACAAGTGTGGAGGAGGACACTTTGCACGA-CAATGCACCACTGG-TGCAGCAT
1 CTAGCTTATGCTACAAGTGTGGAGGAGGACACTTTGCAC-ATCAATGCACCACTGGATGCAGCAT
*
38288584 CTAGCTTATGCTACAAGTGTGGAGAAGGA
1 CTAGCTTATGCTACAAGTGTGGAGGAGGA
38288613 GAACACTCTA
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
63 33 0.41
66 28 0.35
67 2 0.02
68 1 0.01
69 17 0.21
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (64 bp):
CTAGCTTATGCTACAAGTGTGGAGGAGGACACTTTGCACATCAATGCACCACTGGATGCAGCAT
Found at i:38288613 original size:66 final size:66
Alignment explanation
Indices: 38288452--38288619 Score: 191
Period size: 66 Copynumber: 2.5 Consensus size: 66
38288442 AATCGGTCAC
* * * *
38288452 CTAGCTTGTGCTACAAGTGTGGTGAAGGAGGGCACTTTGCACATGAATGCACTACTGGTACTGCA
1 CTAGCTTATGCTACAAGTGTGG-GAAGGAGGACACTTTGCACATCAATGCACCACTGG-A-TGCA
*
38288517 TCAT
63 GCAT
* *
38288521 CTAGTTTATACTACAAGTGT-GG-AGGAGGACACTTTGCACGA-CAATGCACCACTGG-TGCAGC
1 CTAGCTTATGCTACAAGTGTGGGAAGGAGGACACTTTGCAC-ATCAATGCACCACTGGATGCAGC
38288582 AT
65 AT
*
38288584 CTAGCTTATGCTACAAGTGTGGAGAAGGAGAACACT
1 CTAGCTTATGCTACAAGTGTGG-GAAGGAGGACACT
38288620 CTATTCATGA
Statistics
Matches: 85, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
63 25 0.29
64 1 0.01
65 1 0.01
66 38 0.45
67 2 0.02
68 1 0.01
69 17 0.20
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (66 bp):
CTAGCTTATGCTACAAGTGTGGGAAGGAGGACACTTTGCACATCAATGCACCACTGGATGCAGCA
T
Found at i:38294753 original size:14 final size:14
Alignment explanation
Indices: 38294732--38294772 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
38294722 CTTACCTAAT
38294732 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* *
38294746 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTGA
38294760 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
38294773 CAAGTTGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:38294774 original size:9 final size:9
Alignment explanation
Indices: 38294731--38294811 Score: 51
Period size: 9 Copynumber: 10.3 Consensus size: 9
38294721 ACTTACCTAA
38294731 TTGTGCAAG
1 TTGTGCAAG
38294740 TTGTG--A-
1 TTGTGCAAG
38294746 TT-TGCAAG
1 TTGTGCAAG
38294754 TTGT--AA-
1 TTGTGCAAG
38294760 -TGTGCAAG
1 TTGTGCAAG
38294768 TTGTGCAAG
1 TTGTGCAAG
*
38294777 TTGTG-AAA
1 TTGTGCAAG
*
38294785 AT-TGCAA-
1 TTGTGCAAG
38294792 -TGTGCAAG
1 TTGTGCAAG
*
38294800 TTGTGAAAG
1 TTGTGCAAG
38294809 TTG
1 TTG
38294812 CAATGAAGCC
Statistics
Matches: 57, Mismatches: 3, Indels: 24
0.68 0.04 0.29
Matches are distributed among these distances:
5 5 0.09
6 3 0.05
7 13 0.23
8 7 0.12
9 29 0.51
ACGTcount: A:0.27, C:0.07, G:0.30, T:0.36
Consensus pattern (9 bp):
TTGTGCAAG
Found at i:38294795 original size:23 final size:23
Alignment explanation
Indices: 38294769--38294816 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
38294759 ATGTGCAAGT
38294769 TGTGCAAGTTGTGAAAATTGCAA
1 TGTGCAAGTTGTGAAAATTGCAA
*
38294792 TGTGCAAGTTGTGAAAGTTGCAA
1 TGTGCAAGTTGTGAAAATTGCAA
38294815 TG
1 TG
38294817 AAGCCTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.31
Consensus pattern (23 bp):
TGTGCAAGTTGTGAAAATTGCAA
Found at i:38300930 original size:3 final size:3
Alignment explanation
Indices: 38300922--38300986 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
38300912 TATTTAACAT
38300922 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38300970 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
38300987 TATTTTACTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:38308240 original size:15 final size:15
Alignment explanation
Indices: 38308220--38308249 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38308210 AGAAGAGAGA
38308220 CGGTTCACTGAGGCT
1 CGGTTCACTGAGGCT
*
38308235 CGGTTCATTGAGGCT
1 CGGTTCACTGAGGCT
38308250 ATGTATAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.33, T:0.30
Consensus pattern (15 bp):
CGGTTCACTGAGGCT
Found at i:38312759 original size:55 final size:53
Alignment explanation
Indices: 38312651--38312847 Score: 164
Period size: 55 Copynumber: 3.6 Consensus size: 53
38312641 ATTAGGGTTT
* * * * * *
38312651 AAGGATACCATGTAAGACCATGCCGAGGCATGGCAACTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGAC-ATTGATAA-G-TTCATAAGGC
* *
38312706 AAGGATATCATGTAAGAGCATGTCAAGACATGACATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTT-C-ATAAGGC
* * * * * *
38312761 AAAGG-TCCCTTGTAAGACCATGCCAAGGCATGACATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTCATAAGGC
**
38312814 AAGGATACCCCATGTAAGACCATGTTGAGACATG
1 AAGGATA--CCATGTAAGACCATGTCAAGACATG
38312848 GAAATGGTAA
Statistics
Matches: 113, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
52 6 0.05
53 10 0.09
54 7 0.06
55 86 0.76
56 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTCATAAGGC
Found at i:38312859 original size:110 final size:110
Alignment explanation
Indices: 38312661--38312860 Score: 246
Period size: 110 Copynumber: 1.8 Consensus size: 110
38312651 AAGGATACCA
* * * *
38312661 TGTAAGACCATGCCGAGGCATGGCAACTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGAGCA
1 TGTAAGACCATGCCAAGGCATGACAACTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
*
38312726 TGTCAAGACATGACATTGATAAGTTACTATAAGGCAAAGGTCCCT
66 TGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTCCCT
* *
38312771 TGTAAGACCATGCCAAGGCATGAC-ATTGGTGA-G-TTCATAAGGCAAGGATACCCCATGTAAGA
1 TGTAAGACCATGCCAAGGCATGACAACTGGTAAGGTTTC-TAAGGCAAGGATA--CCATGTAAGA
** *
38312833 CCATGTTGAGACATGGA-AATGGTAAGTT
63 CCATGTCAAGACAT-GACAATGATAAGTT
38312861 TCAAAAGGAT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
107 3 0.04
108 14 0.18
109 6 0.08
110 51 0.67
111 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGACAACTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTCCCT
Found at i:38316674 original size:46 final size:47
Alignment explanation
Indices: 38316607--38316734 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 47
38316597 TAGCCTGCCA
*
38316607 ATAAGTGAACTCAGACTCAACTCAACGAGCTCGG-G-C-GTTCACATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCCAGTT-ACAT-C
*
38316653 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-GCC-AGTTACATC
* *
38316702 -TCA-CGAACTCGGACTCAACTCAACGAGCTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
38316735 ACTCAAATAT
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
46 32 0.44
47 28 0.39
48 3 0.04
49 2 0.03
50 4 0.06
51 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (47 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCCAGTTACATC
Found at i:38322910 original size:45 final size:45
Alignment explanation
Indices: 38322808--38322918 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 45
38322798 AACGGTAGCA
* ** *
38322808 GTAACAATAACAACAATAGTATTCAACACACAAAGTGCTGAATTG
1 GTAACAGTAACAGTAATAGTATTCAACACACAAAGTGCTGAATCG
* **
38322853 GTAACGGTAACAGTAATAGTATTTGACACACAAAGTG-TCGAATCG
1 GTAACAGTAACAGTAATAGTATTCAACACACAAAGTGCT-GAATCG
*
38322898 GTAACAGTAACAGTAACAGTA
1 GTAACAGTAACAGTAATAGTA
38322919 GTCGGCACAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 1 0.02
45 55 0.98
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACAGTAATAGTATTCAACACACAAAGTGCTGAATCG
Found at i:38323181 original size:40 final size:40
Alignment explanation
Indices: 38323121--38323204 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
38323111 ATTCGTTTCA
* **
38323121 TCAGAAATTTTACAATTCAATGCAGTATACGTAACAATAT
1 TCAGAAATTTCACAATTCAATGCAGTATACAAAACAATAT
* * * * *
38323161 TCAGTAATTTCACAGTTCAATTCGGTATTCAAAACAATAT
1 TCAGAAATTTCACAATTCAATGCAGTATACAAAACAATAT
38323201 TCAG
1 TCAG
38323205 CATCCCATAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (40 bp):
TCAGAAATTTCACAATTCAATGCAGTATACAAAACAATAT
Found at i:38324143 original size:3 final size:3
Alignment explanation
Indices: 38324135--38324190 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
38324125 TATTTAACAT
38324135 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38324183 TAA TAA TA
1 TAA TAA TA
38324191 TCTTCTACTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:38324430 original size:27 final size:27
Alignment explanation
Indices: 38324399--38324454 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
38324389 ATTAAACTAA
38324399 ATTCACTTAATCAAATTTTAATTACAC
1 ATTCACTTAATCAAATTTTAATTACAC
38324426 ATTCACTTAATCAAATTTTAATTACAC
1 ATTCACTTAATCAAATTTTAATTACAC
38324453 AT
1 AT
38324455 ACCACTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTCACTTAATCAAATTTTAATTACAC
Found at i:38325773 original size:72 final size:67
Alignment explanation
Indices: 38325687--38325816 Score: 179
Period size: 67 Copynumber: 1.9 Consensus size: 67
38325677 TCAACTTAAT
* *
38325687 CACTTTAACATTAAATTAATAGAATATTTATCTACAAGATAAAAATTAAATTAAATTAAATATTA
1 CACTTTAACATTAAATTAATA-AATA-CTAT-T--AAGATAAAAATTAAATTAAATAAAATATTA
38325752 AGATAAC
61 AGATAAC
* *
38325759 CACTTTAATATTAAATTAATAAATACTATTAAGATAAATATTAAATTAAATAAAATAT
1 CACTTTAACATTAAATTAATAAATACTATTAAGATAAAAATTAAATTAAATAAAATAT
38325817 CAAATCTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
67 26 0.48
69 1 0.02
70 3 0.06
71 4 0.07
72 20 0.37
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (67 bp):
CACTTTAACATTAAATTAATAAATACTATTAAGATAAAAATTAAATTAAATAAAATATTAAGATA
AC
Found at i:38327120 original size:62 final size:62
Alignment explanation
Indices: 38327011--38327430 Score: 588
Period size: 62 Copynumber: 7.0 Consensus size: 62
38327001 TTATTTTCTT
38327011 TTTAACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTT-GTTTATTATTTTTAGTATTTAA
1 TTTAACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAA
*
38327072 TTTGACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAA
1 TTTAACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAA
* * * *
38327134 TTTAACTCATTTTTTAGTTCGCTTTTCTTTCCTTTATTTTCGTTTATTA---TTA--A-CTCA
1 TTTAACTCATTTTTTATTTCTCTTTTCTTTCCTTT-TTTTCGTTTATTATTTTTAGTATTTAA
* *
38327191 TTT---T--TTGTTTCTCTTT-TCTTTCCTTT--TTTTTTT-GTTTATTATTTTTAGTATTTAA
1 TTTAACTCATT-TTT-TATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAA
* *
38327246 TTTAATTCATTTTTGATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAA
1 TTTAACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAA
*
38327308 TTTAACTCATTTTTTATTTCTCTTTTCTTTCC-TTTTTTCGTTTATTATTTTTAGTATTCAA
1 TTTAACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAA
38327369 TTTAACTCA-TTTTTATTTCTCTTTTCTTTCCTTTTTTTTCGTTTATTATTTTTAGTATTTAA
1 TTTAACTCATTTTTTATTTCTCTTTTCTTTCC-TTTTTTTCGTTTATTATTTTTAGTATTTAA
38327431 AATCCTATTT
Statistics
Matches: 319, Mismatches: 19, Indels: 41
0.84 0.05 0.11
Matches are distributed among these distances:
49 8 0.03
50 4 0.01
51 3 0.01
52 5 0.02
53 11 0.03
54 5 0.02
55 5 0.02
57 5 0.02
58 5 0.02
59 12 0.04
60 27 0.08
61 82 0.26
62 134 0.42
63 13 0.04
ACGTcount: A:0.15, C:0.13, G:0.04, T:0.67
Consensus pattern (62 bp):
TTTAACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAA
Found at i:38327189 original size:48 final size:49
Alignment explanation
Indices: 38327135--38327233 Score: 148
Period size: 48 Copynumber: 2.0 Consensus size: 49
38327125 AGTATTTAAT
38327135 TTAACTCATTTTTTAG-TTCGCTTTTCTTTCC-TTTATTTTCGTTTATTA
1 TTAACTCATTTTTT-GTTTCGCTTTTCTTTCCTTTTATTTTCGTTTATTA
* * *
38327183 TTAACTCATTTTTTGTTTCTCTTTTCTTTCCTTTTTTTTTTGTTTATTA
1 TTAACTCATTTTTTGTTTCGCTTTTCTTTCCTTTTATTTTCGTTTATTA
38327232 TT
1 TT
38327234 TTTAGTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.02
48 28 0.61
49 17 0.37
ACGTcount: A:0.12, C:0.15, G:0.05, T:0.68
Consensus pattern (49 bp):
TTAACTCATTTTTTGTTTCGCTTTTCTTTCCTTTTATTTTCGTTTATTA
Found at i:38327243 original size:112 final size:109
Alignment explanation
Indices: 38327076--38327418 Score: 420
Period size: 112 Copynumber: 3.0 Consensus size: 109
38327066 ATTTAATTTG
38327076 ACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAATTTAACT
1 ACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAATTTAACT
* *
38327141 CATTTTTTAGTTCGCTTTTCTTTCCTTTATTTTCGTTTATTATTA
66 CATTTTTTATTTCTCTTTTCTTTCCTTT-TTTTCGTTTATTATTA
* *
38327186 ACTCATTTTTTGTTTCTCTTTTCTTTCCTTTTTTTTTTGTTTATTATTTTTAGTATTTAATTTAA
1 ACTCATTTTTTATTTCTCTTTTCTTTCC--TTTTTTTCGTTTATTATTTTTAGTATTTAATTTAA
* *
38327251 TTCATTTTTGATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTA
64 CTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTA---TTA
* *
38327300 GTATTTAATTTAACTCATTTTTTATTTCTCTTTTCTTTCC-TTTTTTCGTTTATTATTTTTAGTA
1 --A-CTCA--T---T--TTTT--ATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTA
*
38327364 TTCAATTTAACTCA-TTTTTATTTCTCTTTTCTTTCCTTTTTTTTCGTTTATTATT
54 TTTAATTTAACTCATTTTTTATTTCTCTTTTCTTTCC-TTTTTTTCGTTTATTATT
38327419 TTTAGTATTT
Statistics
Matches: 202, Mismatches: 13, Indels: 26
0.84 0.05 0.11
Matches are distributed among these distances:
110 27 0.13
111 13 0.06
112 60 0.30
114 3 0.01
116 1 0.00
117 2 0.01
119 1 0.00
120 2 0.01
122 22 0.11
123 51 0.25
124 4 0.02
126 16 0.08
ACGTcount: A:0.15, C:0.14, G:0.04, T:0.67
Consensus pattern (109 bp):
ACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAATTTAACT
CATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTA
Found at i:38327299 original size:174 final size:169
Alignment explanation
Indices: 38327012--38327356 Score: 591
Period size: 174 Copynumber: 2.0 Consensus size: 169
38327002 TATTTTCTTT
*
38327012 TTAACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTGTTTATTATTTTTAGTATTTAATTTGA
1 TTAACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTGTTTATTATTTTTAGTATTTAATTTAA
*
38327077 CTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAATTTAACTC
66 CTCATTTTTGATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAATTTAACTC
38327142 ATTTTTTAGTTCGCTTTTCTTTCCTTTATTTTCGTTTATTA
131 ATTTTTTAGTTCGCTTTTCTTTCC-TT-TTTTCGTTTATTA
*
38327183 TTAACTCATTTTTTGTTTCTCTTTTCTTTCCTTTTTTTTTTGTTTATTATTTTTAGTATTTAATT
1 TTAACTCATTTTTTATTTCTCTTTTCTTTCC---TTTTTTTGTTTATTATTTTTAGTATTTAATT
*
38327248 TAATTCATTTTTGATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAATTTAA
63 TAACTCATTTTTGATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAATTTAA
* *
38327313 CTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTCGTTTATTA
128 CTCATTTTTTAGTTCGCTTTTCTTTCCTTTTTTCGTTTATTA
38327355 TT
1 TT
38327357 TTTAGTATTC
Statistics
Matches: 165, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
171 30 0.18
172 15 0.09
173 2 0.01
174 118 0.72
ACGTcount: A:0.15, C:0.13, G:0.04, T:0.68
Consensus pattern (169 bp):
TTAACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTTGTTTATTATTTTTAGTATTTAATTTAA
CTCATTTTTGATTTCTCTTTTCTTTCCTTTTTTTCGTTTATTATTTTTAGTATTTAATTTAACTC
ATTTTTTAGTTCGCTTTTCTTTCCTTTTTTCGTTTATTA
Found at i:38327475 original size:123 final size:123
Alignment explanation
Indices: 38327225--38327475 Score: 294
Period size: 123 Copynumber: 2.0 Consensus size: 123
38327215 TTTTTTTTTG
* *
38327225 TTTATTATTTTTAGTATTTAATTTAATTCATTTTTGATTTCTCTTTTCTTTCCTTTTTTTCGTTT
1 TTTATTATTTTTAGTATTCAATTTAACTCATTTTTGATTTCTCTTTTCTTTCCTTTTTTTCGTTT
** ** * * * * *** *
38327290 ATTATTTTTAGTATTTAATTTAACTCATTTTTTATTTCTCTTTTCTTTCCTTTTTTCG
66 ATTATTTTTAGTATTTAAAATAACTCATTTTCAATGTCACTTTTCTGTCATTTAACCA
38327348 TTTATTATTTTTAGTATTCAATTTAACTCATTTTT-ATTTCTCTTTTCTTTCCTTTTTTTTCGTT
1 TTTATTATTTTTAGTATTCAATTTAACTCATTTTTGATTTCTCTTTTCTTTCC-TTTTTTTCGTT
* *
38327412 TATTATTTTTAGTATTTAAAAT-CCT-ATTTTCAATGTCACTTTAATC-GTGATTTAAACCA
65 TATTATTTTTAGTATTTAAAATAACTCATTTTCAATGTCACTTT--TCTGTCATTT-AACCA
38327471 TTTAT
1 TTTAT
38327476 GTCTTTGCAC
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
121 13 0.12
122 23 0.21
123 72 0.67
ACGTcount: A:0.20, C:0.13, G:0.04, T:0.63
Consensus pattern (123 bp):
TTTATTATTTTTAGTATTCAATTTAACTCATTTTTGATTTCTCTTTTCTTTCCTTTTTTTCGTTT
ATTATTTTTAGTATTTAAAATAACTCATTTTCAATGTCACTTTTCTGTCATTTAACCA
Found at i:38334350 original size:42 final size:42
Alignment explanation
Indices: 38334245--38334399 Score: 197
Period size: 42 Copynumber: 3.7 Consensus size: 42
38334235 TACCATACCA
* * * *
38334245 ATGCTATATCCCAGATATGGTCTTATATGTAA-TCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATTG
* *
38334287 ATGCCAATAACCCAGCA-ATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAG-ATATGGTCTTACACGAAGTCTCATATTG
*
38334330 ATGTCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
*
38334372 ATGCCATATCCCAAATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
38334400 TGTAACACCC
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.01
42 65 0.66
43 31 0.32
44 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
Found at i:38335255 original size:37 final size:37
Alignment explanation
Indices: 38335202--38335304 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
38335192 CGAATAGTCC
*
38335202 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
38335239 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
38335276 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
38335305 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:38343807 original size:28 final size:28
Alignment explanation
Indices: 38343738--38343838 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
38343728 GACAAGATTG
* * * *
38343738 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
38343768 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38343796 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
38343825 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38343839 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:38345648 original size:20 final size:20
Alignment explanation
Indices: 38345615--38345669 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
38345605 TCTCATAGCA
* *
38345615 AAGTACTGACACCTCTTACC
1 AAGTTCTGATACCTCTTACC
*
38345635 AGGTTCTGATACCTCTTACC
1 AAGTTCTGATACCTCTTACC
*
38345655 AAGTTTTGATACCTC
1 AAGTTCTGATACCTC
38345670 ATCACCAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (20 bp):
AAGTTCTGATACCTCTTACC
Found at i:38347868 original size:48 final size:48
Alignment explanation
Indices: 38347816--38348146 Score: 342
Period size: 48 Copynumber: 6.9 Consensus size: 48
38347806 ATGTGAGTAT
* * * *
38347816 TGAGATCCCGTATAAGACCATATCTGGGATATGACATTGGAATCGAAA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* *
38347864 TGAGATCCCCGTGTAAGACGATATCTGGGATATGGCATCGGCATCGAGA
1 TGAGAT-CCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* * *
38347913 TGAGATCCCGTGTAAGATCATATCTGGGATATGGCATCAGCATCGAGA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* *
38347961 TGAGATCCCGTGTAAGATCATATCTGGGATATGACATCGGCATCGATAA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGA-AA
* * * ** * ** * *
38348010 -GAGATCCTGTATAAGGCCACGTCTGGGACATGGCATCGAAAT-TAGTA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGA-AA
* * * *
38348057 TGAGATCCCATGTAACACCATATCTGGGATATGGCATTGGCATCGATA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* * * * * *
38348105 TGAGGTCCCGTATAAGACCATTTTTAGGACATGGCATCGGCA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCA
38348147 CCATTATGGG
Statistics
Matches: 233, Mismatches: 46, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
47 2 0.01
48 187 0.80
49 44 0.19
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
Found at i:38348090 original size:144 final size:145
Alignment explanation
Indices: 38347816--38348125 Score: 392
Period size: 144 Copynumber: 2.1 Consensus size: 145
38347806 ATGTGAGTAT
* *
38347816 TGAGATCCCGTATAAGACCATATCTGGGATATGACATTGGAATCGAAATGAGATCCCCGTGTAAG
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGAATCGAAATGAGATCCCCGTATAAG
* * * ** * * *
38347881 ACGATATCTGGGATATGGCATCGGCATCGAGATGAGATCCCGTGTAAGATCATATCTGGGATATG
66 ACCACATCTGGGACATGGCATCGAAATCGAGATGAGATCCCATGTAACACCATATCTGGGATATG
38347946 GCATCAGCATCGAGA
131 GCATCAGCATCGAGA
* * * *
38347961 TGAGATCCCGTGTAAGATCATATCTGGGATATGACATCGGCATCGATAA-GAGAT-CCTGTATAA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGAATCGA-AATGAGATCCCCGTATAA
* * *
38348024 GGCCACGTCTGGGACATGGCATCGAAAT-TAGTATGAGATCCCATGTAACACCATATCTGGGATA
65 GACCACATCTGGGACATGGCATCGAAATCGAG-ATGAGATCCCATGTAACACCATATCTGGGATA
** *
38348088 TGGCATTGGCATCGATA
129 TGGCATCAGCATCGAGA
*
38348105 TGAGGTCCCGTATAAGACCAT
1 TGAGATCCCGTATAAGACCAT
38348126 TTTTAGGACA
Statistics
Matches: 140, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
143 2 0.01
144 89 0.64
145 47 0.34
146 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (145 bp):
TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGAATCGAAATGAGATCCCCGTATAAG
ACCACATCTGGGACATGGCATCGAAATCGAGATGAGATCCCATGTAACACCATATCTGGGATATG
GCATCAGCATCGAGA
Found at i:38349995 original size:18 final size:19
Alignment explanation
Indices: 38349959--38349995 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38349949 TTGAAGACAT
38349959 GGGCGTGTCTGAGCCACAC
1 GGGCGTGTCTGAGCCACAC
*
38349978 GGGCGTGTGTGA-CCACAC
1 GGGCGTGTCTGAGCCACAC
38349996 AGCCTACCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.30, G:0.38, T:0.16
Consensus pattern (19 bp):
GGGCGTGTCTGAGCCACAC
Found at i:38353481 original size:40 final size:40
Alignment explanation
Indices: 38353426--38353649 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
38353416 TATTCGAATG
38353426 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
38353466 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
38353509 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
38353549 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
38353589 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
38353629 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
38353650 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:38353569 original size:83 final size:80
Alignment explanation
Indices: 38353430--38353649 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
38353420 CGAATGATAT
* **
38353430 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
38353495 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
38353513 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
38353578 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
38353593 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
38353650 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:38358130 original size:39 final size:39
Alignment explanation
Indices: 38358083--38358265 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
38358073 AATGTTCGAG
38358083 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
38358122 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
38358161 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
38358200 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
38358240 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
38358266 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:38364375 original size:30 final size:30
Alignment explanation
Indices: 38364341--38364403 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
38364331 AGGATGTGGG
*
38364341 ACACGTCCGTATGGACCACACGGCCTGGAC
1 ACACGACCGTATGGACCACACGGCCTGGAC
* * * *
38364371 ACACGACCTTGTGGACCATATGGCCTGGAC
1 ACACGACCGTATGGACCACACGGCCTGGAC
38364401 ACA
1 ACA
38364404 GGACAGTGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.16
Consensus pattern (30 bp):
ACACGACCGTATGGACCACACGGCCTGGAC
Found at i:38365146 original size:29 final size:29
Alignment explanation
Indices: 38365084--38365147 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
38365074 AATTTATTTC
*
38365084 CTTATTTTATTTATTAATATTATTAGTAT
1 CTTATTTTATTCATTAATATTATTAGTAT
* * *
38365113 ATTATTTTATTCCATTATTATTATT-GTTT
1 CTTATTTTATT-CATTAATATTATTAGTAT
38365142 CTTATT
1 CTTATT
38365148 ATTTCTTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (29 bp):
CTTATTTTATTCATTAATATTATTAGTAT
Found at i:38365467 original size:3 final size:3
Alignment explanation
Indices: 38365459--38365497 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
38365449 TCCTTATTCA
38365459 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38365498 TTCTATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:38366794 original size:10 final size:9
Alignment explanation
Indices: 38366772--38366802 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
38366762 TATCTTTATG
38366772 TTTATTTTT
1 TTTATTTTT
38366781 TTTATTTTT
1 TTTATTTTT
38366790 CTTTATTTTT
1 -TTTATTTTT
38366800 TTT
1 TTT
38366803 TCCTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTATTTTT
Found at i:38373690 original size:31 final size:31
Alignment explanation
Indices: 38373652--38373713 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
38373642 TCATTCTGTA
*
38373652 GACCTTAAAGAAATAATAAAATAGATATTTT
1 GACCTTAAAGAAATAATAAAATAAATATTTT
38373683 GACCTTAAAGAAATAATAAAATAAATATTTT
1 GACCTTAAAGAAATAATAAAATAAATATTTT
38373714 TACTTCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.32
Consensus pattern (31 bp):
GACCTTAAAGAAATAATAAAATAAATATTTT
Found at i:38380680 original size:46 final size:47
Alignment explanation
Indices: 38380558--38380692 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 47
38380548 TGTAACCCGC
*
38380558 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCG-T-CAT
* * *
38380608 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGTCAT
38380651 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
38380693 AACCATCCTA
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 36 0.48
47 30 0.40
48 2 0.03
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGTCAT
Found at i:38390013 original size:68 final size:68
Alignment explanation
Indices: 38389967--38390195 Score: 291
Period size: 68 Copynumber: 3.3 Consensus size: 68
38389957 ACACCCTGTA
* *
38389967 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGTGAAAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGAGAAACATA
38390032 AAT
66 AAT
* *
38390035 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGTGAAAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGAGAAACATA
38390100 AAT
66 AAT
* * * * *
38390103 GTAGCTAGGTCGCATGTGTGATTCCA-AGTGAAGGACACCATGTAGACAAGAGAGCTAC-ATGAA
1 GTAGCTAGGTCACATGTGTGATACGAGA-TGTA--TC-CCATGTAGACAAGAGAGCTACGA-GAA
*
38390166 AGATAAAT
61 ACATAAAT
* *
38390174 GTAGCTAGGTCGCATGCGTGAT
1 GTAGCTAGGTCACATGTGTGAT
38390196 TCCAAGTGAA
Statistics
Matches: 149, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
67 1 0.01
68 94 0.63
70 1 0.01
71 53 0.36
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGAGAAACATA
AAT
Found at i:38390181 original size:71 final size:71
Alignment explanation
Indices: 38390001--38390225 Score: 350
Period size: 71 Copynumber: 3.2 Consensus size: 71
38389991 GAGATGTATC
* * *
38390001 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGTGTGA-TACGAGATG
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAG-TG
* *
38390065 TA--TC-
65 AAGGACA
38390069 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGA
38390134 AGGACA
66 AGGACA
* *
38390140 CCATGTAGACAAGAGAGCTACATGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGA
38390205 AGGACA
66 AGGACA
38390211 CCATGTAGACAAGAG
1 CCATGTAGACAAGAG
38390226 CTACGAGACA
Statistics
Matches: 146, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
68 57 0.39
69 4 0.03
70 1 0.01
71 84 0.58
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGA
AGGACA
Found at i:38390267 original size:64 final size:68
Alignment explanation
Indices: 38390001--38390257 Score: 226
Period size: 71 Copynumber: 3.8 Consensus size: 68
38389991 GAGATGTATC
* * * * * *
38390001 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGTGTGA-TACGAGATG
1 CCATGTAGACAAGAGAGCTAC-AG-AAGACAAATG-AGCTAGGTCGCATGAGTGATTCCAAG-TG
* *
38390065 TA--TC-
62 AAGGACA
* * *
38390069 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC-AG-AAGACAAATG-AGCTAGGTCGCATGAGTGATTCCAAGTGA
38390134 AGGACA
63 AGGACA
* *
38390140 CCATGTAGACAAGAGAGCTACATGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACA-G-AAGACAAATG-AGCTAGGTCGCATGAGTGATTCCAAGTGA
38390205 AGGACA
63 AGGACA
*
38390211 CCATGTAGAC-A-AGAGCTAC-G-AGACAAATCG-GTTAGGTCGCATGAGTG
1 CCATGTAGACAAGAGAGCTACAGAAGACAAAT-GAGCTAGGTCGCATGAGTG
38390258 GTACTAAGTG
Statistics
Matches: 173, Mismatches: 10, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
64 15 0.09
65 7 0.04
66 1 0.01
67 1 0.01
68 57 0.33
69 12 0.07
70 2 0.01
71 78 0.45
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACAGAAGACAAATGAGCTAGGTCGCATGAGTGATTCCAAGTGAAGG
ACA
Found at i:38392476 original size:29 final size:29
Alignment explanation
Indices: 38392434--38392646 Score: 216
Period size: 29 Copynumber: 7.4 Consensus size: 29
38392424 TCAACGACCA
* * *
38392434 ATGAAAAGGGATAGCTTTGGCTATCAAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* *
38392463 ATGAAAAGGGATAGCCTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* *
38392492 ATGGAAAGGGATAGCCTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* * * * *
38392521 ATGAAAAGGGATAG-TGACGACCATCAACT
1 ATGAAAAGGGATAGCT-TCGGCTATCGATT
* * * * *
38392550 ATG-AAAGGGAT-GGTACGACCATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
*
38392577 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
*
38392606 ATGAAAAGGGATAGCTTCGGCTATCAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
*
38392635 ATGAAAAAGGAT
1 ATGAAAAGGGAT
38392647 GGTGACGACC
Statistics
Matches: 155, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
27 15 0.10
28 17 0.11
29 123 0.79
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATT
Found at i:38392609 original size:85 final size:87
Alignment explanation
Indices: 38392491--38392675 Score: 252
Period size: 85 Copynumber: 2.1 Consensus size: 87
38392481 GGCTATTGAT
*
38392491 TATGGAAAGGGATAGCCTCGGCTATCGATTATGAAAAGGGATAG-TGACGACCATCAACTATG-A
1 TATGAAAAGGGATAGCCTCGGCTATCGATTATGAAAAGGGATAGCT-ACGACCATCAACTATGAA
*
38392554 AAGGGATGGT-ACGACCATCGAA-
65 AAAGGATGGTGACGACCATC-AAC
* * * * * *
38392576 TATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATAGCTTCGGCTATCAATTATGAAA
1 TATGAAAAGGGATAGCCTCGGCTATCGATTATGAAAAGGGATAGCTACGACCATCAACTATGAAA
38392641 AAGGATGGTGACGACCATCAAC
66 AAGGATGGTGACGACCATCAAC
38392663 TATGAAAAGGGAT
1 TATGAAAAGGGAT
38392676 GGTAATGACC
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
85 53 0.60
86 13 0.15
87 22 0.25
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (87 bp):
TATGAAAAGGGATAGCCTCGGCTATCGATTATGAAAAGGGATAGCTACGACCATCAACTATGAAA
AAGGATGGTGACGACCATCAAC
Found at i:38392660 original size:29 final size:28
Alignment explanation
Indices: 38392518--38392718 Score: 154
Period size: 29 Copynumber: 7.0 Consensus size: 28
38392508 TCGGCTATCG
*
38392518 ATTATGAAAAGGGATAGTGACGACCATCA
1 ATTATGAAAAGGGATGGT-ACGACCATCA
*
38392547 ACTATG-AAAGGGATGGTACGACCATCGA
1 ATTATGAAAAGGGATGGTACGACCATC-A
* ** * * *
38392575 A-TATGAAAAGGGATAGCTTTGGCTATCG
1 ATTATGAAAAGGGAT-GGTACGACCATCA
* * * *
38392603 ATTATGAAAAGGGATAGCTTCGGCTATCA
1 ATTATGAAAAGGGAT-GGTACGACCATCA
*
38392632 ATTATGAAAAAGGATGGTGACGACCATCA
1 ATTATGAAAAGGGATGGT-ACGACCATCA
* * *
38392661 ACTATGAAAAGGGATGGTAATGACCATCG
1 ATTATGAAAAGGGATGGT-ACGACCATCA
* *
38392690 ATTAATGAAAAGGGACGGTTATGACCATC
1 ATT-ATGAAAAGGGATGG-TACGACCATC
38392719 TTTTAGCACA
Statistics
Matches: 143, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
27 13 0.09
28 23 0.16
29 84 0.59
30 22 0.15
31 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (28 bp):
ATTATGAAAAGGGATGGTACGACCATCA
Found at i:38392660 original size:114 final size:116
Alignment explanation
Indices: 38392460--38392704 Score: 377
Period size: 114 Copynumber: 2.1 Consensus size: 116
38392450 TTGGCTATCA
* * *
38392460 AATATGAAAAGGGATAGCCTCGGCTATTGATTATGGAAAGGGATAGCCTCGGCTATCGATTATGA
1 AATATGAAAAGGGATAGCCTCGGCTATCGATTATGAAAAGGGATAGCCTCGGCTATCAATTATGA
*
38392525 AAAGGGATAGTGACGACCATCAACTATG-AAAGGGATGGT-ACGACCATCG
66 AAAAGGATAGTGACGACCATCAACTATGAAAAGGGATGGTAACGACCATCG
* * *
38392574 AATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATAGCTTCGGCTATCAATTATGA
1 AATATGAAAAGGGATAGCCTCGGCTATCGATTATGAAAAGGGATAGCCTCGGCTATCAATTATGA
* *
38392639 AAAAGGATGGTGACGACCATCAACTATGAAAAGGGATGGTAATGACCATCG
66 AAAAGGATAGTGACGACCATCAACTATGAAAAGGGATGGTAACGACCATCG
*
38392690 ATTAATGAAAAGGGA
1 AAT-ATGAAAAGGGA
38392705 CGGTTATGAC
Statistics
Matches: 118, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
114 85 0.72
115 11 0.09
116 11 0.09
117 11 0.09
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (116 bp):
AATATGAAAAGGGATAGCCTCGGCTATCGATTATGAAAAGGGATAGCCTCGGCTATCAATTATGA
AAAAGGATAGTGACGACCATCAACTATGAAAAGGGATGGTAACGACCATCG
Found at i:38392701 original size:58 final size:57
Alignment explanation
Indices: 38392514--38392718 Score: 182
Period size: 58 Copynumber: 3.6 Consensus size: 57
38392504 AGCCTCGGCT
* *
38392514 ATCGATTATGAAAAGGGATAGTGACGACCATCAACTATG-AAAGGGATGGTACGACC
1 ATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTATGACC
* * ** * * * * * * *
38392570 ATCGAATATGAAAAGGGATAGCT-TTGGCTATCGATTATGAAAAGGGATAGCT-TCGGCT
1 ATCGATTATGAAAAGGGAT-GGTGACGACCATCAACTATGAAAAGGGAT-GGTAT-GACC
* *
38392628 ATCAATTATGAAAAAGGATGGTGACGACCATCAACTATGAAAAGGGATGGTAATGACC
1 ATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGT-ATGACC
* * *
38392686 ATCGATTAATGAAAAGGGACGGTTATGACCATC
1 ATCGATT-ATGAAAAGGGATGGTGACGACCATC
38392719 TTTTAGCACA
Statistics
Matches: 110, Mismatches: 31, Indels: 13
0.71 0.20 0.08
Matches are distributed among these distances:
56 28 0.25
57 13 0.12
58 47 0.43
59 22 0.20
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (57 bp):
ATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTATGACC
Found at i:38396973 original size:93 final size:93
Alignment explanation
Indices: 38396861--38397032 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38396851 GCCCATAAGT
* *
38396861 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38396926 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
38396954 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38397019 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
38397033 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38397028 original size:46 final size:46
Alignment explanation
Indices: 38396853--38397028 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
38396843 TGTAACCCGC
* * *
38396853 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
38396899 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
38396949 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
38396992 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38397029 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:38399427 original size:29 final size:29
Alignment explanation
Indices: 38399388--38399475 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
38399378 CAAAGATAAC
*
38399388 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
38399417 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
38399446 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
38399476 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:38399446 original size:15 final size:15
Alignment explanation
Indices: 38399388--38399466 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
38399378 CAAAGATAAC
*
38399388 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
38399402 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
38399417 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
38399431 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
38399446 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
38399461 AAGAAA
1 AAGAAA
38399467 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:38399475 original size:15 final size:15
Alignment explanation
Indices: 38399399--38399475 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
38399389 AGAAAACCGA
38399399 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
38399414 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
38399428 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
38399442 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
38399458 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
38399473 ATA
1 ATA
38399476 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:38402541 original size:93 final size:93
Alignment explanation
Indices: 38402429--38402599 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
38402419 GCCCATAAGT
* *
38402429 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38402494 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
38402522 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38402587 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38402600 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38402615 original size:46 final size:46
Alignment explanation
Indices: 38402421--38402601 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
38402411 TGTAACCCGC
* * *
38402421 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
38402467 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
38402517 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
38402560 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
38402602 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:38405802 original size:13 final size:14
Alignment explanation
Indices: 38405786--38405814 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38405776 TTATAAATAT
38405786 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
38405799 TTATAATGGTTTAA
1 TTATAATGGTTTAA
38405813 TT
1 TT
38405815 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:38406584 original size:31 final size:30
Alignment explanation
Indices: 38406560--38406629 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
38406550 TTTGTTGTTT
38406560 TTTTATGCTAAATTTGCTGATTTTGGTTGCA
1 TTTTATGCTAAATTTGCTGATTTT-GTTGCA
* * *
38406591 TTTTATGCTATATTTGCTGTTTTTGGTTGGA
1 TTTTATGCTAAATTTGCTGATTTT-GTTGCA
*
38406622 TTTAATGC
1 TTTTATGC
38406630 AGGAAGGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.17, C:0.09, G:0.20, T:0.54
Consensus pattern (30 bp):
TTTTATGCTAAATTTGCTGATTTTGTTGCA
Found at i:38406727 original size:18 final size:17
Alignment explanation
Indices: 38406690--38406723 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38406680 AGCGGCGTTT
*
38406690 GCTTTTCCCACAAATGC
1 GCTTTTCCCACAAACGC
*
38406707 GCTTTTTCCACAAACGC
1 GCTTTTCCCACAAACGC
38406724 CGCTAAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.35, G:0.12, T:0.29
Consensus pattern (17 bp):
GCTTTTCCCACAAACGC
Found at i:38406808 original size:43 final size:43
Alignment explanation
Indices: 38406704--38406789 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
38406694 TTCCCACAAA
* *
38406704 TGCGCTTTTTCCACAAACGCCGCTAAAAACCATGACTTTTAGC
1 TGCGCTTTTTCCACAAATGGCGCTAAAAACCATGACTTTTAGC
*
38406747 TGCGCTTTTTCCACAAATGGCGCTAAAAGCCATGACTTTTAGC
1 TGCGCTTTTTCCACAAATGGCGCTAAAAACCATGACTTTTAGC
38406790 GACGTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (43 bp):
TGCGCTTTTTCCACAAATGGCGCTAAAAACCATGACTTTTAGC
Found at i:38412903 original size:27 final size:27
Alignment explanation
Indices: 38412778--38413038 Score: 165
Period size: 27 Copynumber: 9.7 Consensus size: 27
38412768 CCCCCAGTTG
* *
38412778 TAAAATTACCAAAGTACCC-CCAGTTTA
1 TAAAATTACCAAAATACCCTCGA-TTTA
* * *
38412805 TAAAACTACCCAAATATCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* **** *
38412832 TAGAATTACCGTTTTACCCTCAATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * ****
38412859 CAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
** * *
38412886 TAAAATTACTGAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
38412913 CAAAATTACCAAAATACCCTCGA-TCA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
38412939 GTAAAATTACCAAAACACCCT-TAGTTTG
1 -TAAAATTACCAAAATACCCTCGA-TTTA
* * *
38412967 TAAAATTACTAAAATACCC-CTGGTTTG
1 TAAAATTACCAAAATACCCTC-GATTTA
*
38412994 TAAAATTACCAAAATACCC-CTGATTTG
1 TAAAATTACCAAAATACCCTC-GATTTA
38413021 TAAAA-TACCAAAATACCC
1 TAAAATTACCAAAATACCC
38413039 CTATAGGGTA
Statistics
Matches: 188, Mismatches: 40, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
26 16 0.09
27 169 0.90
28 3 0.02
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:38412931 original size:54 final size:54
Alignment explanation
Indices: 38412873--38413038 Score: 185
Period size: 54 Copynumber: 3.1 Consensus size: 54
38412863 ATTACCGTTT
** **
38412873 TACCCTCGATTTATAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * *
38412927 TACCCTCGA-TCAGTAAAATTACCAAAACACCCTTAGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * *
38412981 TACCC-CTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAA-TACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
38413034 TACCC
1 TACCC
38413039 CTATAGGGTA
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
53 15 0.16
54 77 0.83
55 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:38412947 original size:81 final size:81
Alignment explanation
Indices: 38412874--38413038 Score: 210
Period size: 81 Copynumber: 2.0 Consensus size: 81
38412864 TTACCGTTTT
* *
38412874 ACCCTCGA-TTTATAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATC
1 ACCCT-GAGTTTATAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATC
38412938 AGTAAAATTACCAAAAC
65 AGTAAAATTACCAAAAC
* * ** *
38412955 ACCCTTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTGATT
1 ACCCTGAGTTTATAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTC-GATC
* *
38413019 TGTAAAA-TACCAAAAT
65 AGTAAAATTACCAAAAC
38413035 ACCC
1 ACCC
38413039 CTATAGGGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 14 0.19
81 59 0.81
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (81 bp):
ACCCTGAGTTTATAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATCA
GTAAAATTACCAAAAC
Found at i:38413072 original size:27 final size:27
Alignment explanation
Indices: 38413031--38413270 Score: 302
Period size: 27 Copynumber: 8.9 Consensus size: 27
38413021 TAAAATACCA
* *
38413031 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
38413058 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
38413085 AAATACCCCTATAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
38413112 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
38413139 AAATACCCCTGTAGGGTAGAATTTCTG
1 AAATACCCCTGTAGGGTAGAATTACTG
38413166 AAATACCCCTGTAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
* * *
38413193 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
38413220 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * *
38413247 AGATACCCATGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
38413271 TCATTTTGCC
Statistics
Matches: 184, Mismatches: 27, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 183 0.99
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:38413264 original size:54 final size:54
Alignment explanation
Indices: 38413026--38413270 Score: 337
Period size: 54 Copynumber: 4.5 Consensus size: 54
38413016 ATTTGTAAAA
* * * * *
38413026 TACCAAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
* * *
38413080 TACCGAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
*
38413134 TACCGAAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
* * * *
38413188 TATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
* * * *
38413242 TACCGAGATACCCATGTGGGGTAAAATTA
1 TACCGAAATACCCCTGTAGGGTAGAATTA
38413271 TCATTTTGCC
Statistics
Matches: 170, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 170 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
Found at i:38413512 original size:25 final size:25
Alignment explanation
Indices: 38413476--38413545 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
38413466 AGGAAGTGCT
*
38413476 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
38413501 AAAAGGGCTTTGCCCCAGTGTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
38413526 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38413546 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:38416042 original size:27 final size:27
Alignment explanation
Indices: 38415986--38416084 Score: 146
Period size: 27 Copynumber: 3.7 Consensus size: 27
38415976 ACCCAAATAT
*
38415986 CCTCGATTTATAGAATTA-CGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
38416012 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* * *
38416039 CCTCAATTTATATAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
38416066 CCTCGATTTACAAAATTAC
1 CCTCGATTTACAGAATTAC
38416085 TAATATACCC
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 17 0.26
27 48 0.74
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACCGTTTTAC
Found at i:38416093 original size:27 final size:27
Alignment explanation
Indices: 38416009--38416126 Score: 110
Period size: 27 Copynumber: 4.4 Consensus size: 27
38415999 AATTACGTTT
* ** *
38416009 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAATA
* * * ** *
38416036 TACCCTCAATTTATATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAATA
*
38416063 TACCCTCGATTTACAAAATTACTAATA
1 TACCCTCGATTTACAAAATTACCAATA
* * *
38416090 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAATA
38416117 TACCCTCGAT
1 TACCCTCGAT
38416127 CATTAAAATT
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAATA
Found at i:38416094 original size:54 final size:53
Alignment explanation
Indices: 38415978--38416095 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 53
38415968 ATAAAACTAC
* * *
38415978 CCAA-ATATCCTCGATTTATAGAATTACGTTTTACCCTCGATTTACAGAATTA
1 CCAATATACCCTCAATTTATAGAATTACGTTTTACCCTCGATTTACAAAATTA
** * *
38416030 CCGTTTTACCCTCAATTTATATAATTACCGTTTTACCCTCGATTTACAAAATTA
1 CCAATATACCCTCAATTTATAGAATTA-CGTTTTACCCTCGATTTACAAAATTA
*
38416084 CTAATATACCCT
1 CCAATATACCCT
38416096 TGGTTTACAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
52 2 0.04
53 18 0.34
54 33 0.62
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (53 bp):
CCAATATACCCTCAATTTATAGAATTACGTTTTACCCTCGATTTACAAAATTA
Found at i:38416110 original size:54 final size:54
Alignment explanation
Indices: 38415999--38416112 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
38415989 CGATTTATAG
* ** * * *
38415999 AATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAT
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCAATATACCCTCAATTTACAA
* ***
38416052 AATTACCGTTTTACCCTCGATTTACAAAATTACTAATATACCCTTGGTTTACAA
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCAATATACCCTCAATTTACAA
38416106 AATTACC
1 AATTACC
38416113 AAAATACCCT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 5 0.10
54 45 0.90
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTACAAAATTACCAATATACCCTCAATTTACAA
Found at i:38416121 original size:54 final size:53
Alignment explanation
Indices: 38416063--38416175 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 53
38416053 ATTACCGTTT
* *
38416063 TACCCTCGAT-TTACAAAATTA-CTAATATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATATT--AAAATTATC-AAAATACACTTGGTTTACAAAATTACCAAAA
** *
38416117 TACCCTCGATCATTAAAATTATCAAAATACACTTGGTTTGTAAAATTACTAAAA
1 TACCCTCGAT-ATTAAAATTATCAAAATACACTTGGTTTACAAAATTACCAAAA
38416171 TACCC
1 TACCC
38416176 CTGGTTGGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 48 0.94
55 1 0.02
56 2 0.04
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (53 bp):
TACCCTCGATATTAAAATTATCAAAATACACTTGGTTTACAAAATTACCAAAA
Found at i:38416224 original size:27 final size:27
Alignment explanation
Indices: 38416077--38416224 Score: 113
Period size: 27 Copynumber: 5.5 Consensus size: 27
38416067 CTCGATTTAC
* * * * **
38416077 AAAATTACTAATATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
*
38416104 AAAATTACCAAAATA-CCCTCGATCAT-T
1 AAAATTACCAAAATACCCCT-GAT-TTGT
* * * *
38416131 AAAATTATCAAAATACACTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
38416158 AAAATTACTAAAATACCCCTGGTTGGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
38416185 AAAATTACCAAAATACTCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
38416212 AAAA-TACCGAAAA
1 AAAATTACC-AAAA
38416225 CCCTTGTAGG
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
26 8 0.08
27 85 0.89
28 3 0.03
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:38416259 original size:27 final size:27
Alignment explanation
Indices: 38416216--38416405 Score: 247
Period size: 27 Copynumber: 7.1 Consensus size: 27
38416206 ATTTGTAAAA
*
38416216 TACCGAAA-ACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
38416242 TACTGAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
38416269 TACCGAAATACCCATGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
38416296 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
** * *
38416323 TACCGAAATACCTTTGTAGGCTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
38416350 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
38416377 TACCGAGATACCCATGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
38416404 TA
1 TA
38416406 TCATTTTGCC
Statistics
Matches: 140, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 7 0.05
27 133 0.95
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:38416270 original size:79 final size:81
Alignment explanation
Indices: 38416160--38416405 Score: 218
Period size: 81 Copynumber: 3.1 Consensus size: 81
38416150 TGGTTTGTAA
* * **
38416160 AATTACTAAAATACCCCTGGTTGGTAAAATTACCAAAATACTCC-TG-ATTTGTA-AAATACCGA
1 AATTACTGAAATACCCCTGGTAGGTAAAATTACCAAAATAC-CCATGTA-GGGTAGAAATACCGA
*
38416222 AA-ACCCTTGTAGGGTAG
64 AATACCCCTGTAGGGTAG
* * * *
38416239 AATTACTGAAATACCCCT-GTAAGGTAGAATTACCGAAATACCCATGTAGGGTAGAATTACTGAA
1 AATTACTGAAATACCCCTGGT-AGGTAAAATTACCAAAATACCCATGTAGGGTAGAAATACCGAA
38416303 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
* * * ** * *
38416320 AATTACCGAAATA-CCTTTGTAGGCTAGAAA-TACTGAAATACCCCTGTAGGGTAGAATTACCGA
1 AATTACTGAAATACCCCTGGTAGG-TA-AAATTACCAAAATACCCATGTAGGGTAGAAATACCGA
* * * *
38416383 GATACCCATGTGGGGTAA
64 AATACCCCTGTAGGGTAG
38416401 AATTA
1 AATTA
38416406 TCATTTTGCC
Statistics
Matches: 140, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.03
79 39 0.28
80 16 0.11
81 79 0.56
82 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (81 bp):
AATTACTGAAATACCCCTGGTAGGTAAAATTACCAAAATACCCATGTAGGGTAGAAATACCGAAA
TACCCCTGTAGGGTAG
Found at i:38416294 original size:54 final size:54
Alignment explanation
Indices: 38416216--38416405 Score: 292
Period size: 54 Copynumber: 3.5 Consensus size: 54
38416206 ATTTGTAAAA
* *
38416216 TACCGAAA-ACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
38416269 TACCGAAATACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
** * *
38416323 TACCGAAATACCTTTGTAGGCTAGAAATACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
* * *
38416377 TACCGAGATACCCATGTGGGGTAAAATTA
1 TACCGAAATACCCATGTAGGGTAGAATTA
38416406 TCATTTTGCC
Statistics
Matches: 123, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 8 0.07
54 115 0.93
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (54 bp):
TACCGAAATACCCATGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
Found at i:38416645 original size:25 final size:25
Alignment explanation
Indices: 38416611--38416680 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
38416601 AGGAAGTGCT
*
38416611 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
38416636 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
38416661 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38416681 ATTAAAAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:38416688 original size:25 final size:24
Alignment explanation
Indices: 38416611--38416688 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 24
38416601 AGGAAGTGCT
*
38416611 AAAAGGGCTTTGCCCCAG-TTTACCG
1 AAAAGGGCTTTGCCCCAGTTTTA--A
*
38416636 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTT-TAA
38416661 AAAAGGGCTTTGCCCCAGTTATTAA
1 AAAAGGGCTTTGCCCCAGTT-TTAA
38416686 AAA
1 AAA
38416689 CAGCTAGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
25 43 0.91
26 3 0.06
27 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTTAA
Found at i:38421212 original size:43 final size:42
Alignment explanation
Indices: 38421073--38421234 Score: 218
Period size: 42 Copynumber: 3.8 Consensus size: 42
38421063 AGGGTTACTA
* *
38421073 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAGTATG
1 AGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATATG
* *
38421115 AGACTTCGTATAAGACCATATCTGGGATATGGCATCGATATG
1 AGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATATG
* * *
38421157 AGACTTTGTGTAAGACCATAGCTGGGCTATTGGCATCAATATG
1 AGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCAATATG
* *
38421200 AGA-TTACATGTAAGACCATATCTGAGATATGGCAT
1 AGACTT-CGTGTAAGACCATATCTGGGATATGGCAT
38421235 TGGAAAAGTA
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 71 0.68
43 33 0.32
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
AGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATATG
Found at i:38421217 original size:85 final size:84
Alignment explanation
Indices: 38421080--38421234 Score: 231
Period size: 85 Copynumber: 1.8 Consensus size: 84
38421070 CTAAGACTAC
* * * *
38421080 GTGTAAGACCATATCTGGGATATGGCATCAGTATGAGACTTCGTATAAGACCATATCTGGGATAT
1 GTGTAAGACCATAGCTGGGATATGGCATCAATATGAGACTTCATATAAGACCATATCTGAGATAT
38421145 GGCATCGATATGAGACTTT
66 GGCATCGATATGAGACTTT
* *
38421164 GTGTAAGACCATAGCTGGGCTATTGGCATCAATATGAGA-TTACATGTAAGACCATATCTGAGAT
1 GTGTAAGACCATAGCTGGGATA-TGGCATCAATATGAGACTT-CATATAAGACCATATCTGAGAT
38421228 ATGGCAT
64 ATGGCAT
38421235 TGGAAAAGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
84 22 0.35
85 41 0.65
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATATGGCATCAATATGAGACTTCATATAAGACCATATCTGAGATAT
GGCATCGATATGAGACTTT
Found at i:38427679 original size:51 final size:51
Alignment explanation
Indices: 38427624--38427771 Score: 235
Period size: 51 Copynumber: 2.9 Consensus size: 51
38427614 TGAACCTTAG
* *
38427624 GAATAAAAAAGTTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
38427675 GAATATAATAGCTTTGGACACAAGTATGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
38427726 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
38427772 CGTGTATCCG
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 1 0.01
51 88 0.99
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:38431674 original size:40 final size:40
Alignment explanation
Indices: 38431619--38431822 Score: 327
Period size: 40 Copynumber: 5.1 Consensus size: 40
38431609 TGAATGATAC
*
38431619 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
38431659 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
38431699 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
38431739 CCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
38431779 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
38431819 CCGG
1 CCGG
38431823 ATAAATTCCG
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 152 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:38447440 original size:48 final size:48
Alignment explanation
Indices: 38447379--38447562 Score: 296
Period size: 48 Copynumber: 3.8 Consensus size: 48
38447369 ATATATGTGC
38447379 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
* *
38447427 GTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
**
38447475 GTGGTAAAGCCGAATGGCTAATGCAAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
* * * *
38447523 GTGTTAAAGCTGAATGGCTAGTGTGAAATATGTAGGAGAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
38447563 GTGTGTATAT
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 124 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
Found at i:38447753 original size:37 final size:37
Alignment explanation
Indices: 38447703--38447808 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
38447693 GGAAATATAT
* *
38447703 TCCGGGTAAGACCCGATGACCACGTGTGTAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
38447740 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
38447777 TCCGGGTAAGACCCGATAACTACGTGTGGAGA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA
38447809 CTATTCGAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:38451101 original size:50 final size:48
Alignment explanation
Indices: 38451004--38451177 Score: 170
Period size: 50 Copynumber: 3.5 Consensus size: 48
38450994 GACCAATAGT
* *** ***
38451004 CTGCACTTAGTACTACACACGTGACCTCACCGTCTAATACACGTAGTAGC
1 CTGCACTTAGTACTACACACGTGACC-AATTATCGGGTACA-GTAGTAGC
* *
38451054 CTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTAGCA-TAGTAGC
1 CTGCACTTAGTACTACACACGTGA-C-CAATTATCGGGTA-CAGTAGTAGC
* * *
38451104 CTGCACTTAGTACTACACATGCGACCAATTATCTGGTACATGTAGTAGC
1 CTGCACTTAGTACTACACACGTGACCAATTATCGGGTACA-GTAGTAGC
*
38451153 CTGCACTTAGTACAACACACGTGAC
1 CTGCACTTAGTACTACACACGTGAC
38451178 GTCACAATAG
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
47 2 0.02
48 10 0.10
49 30 0.29
50 53 0.51
51 5 0.05
52 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (48 bp):
CTGCACTTAGTACTACACACGTGACCAATTATCGGGTACAGTAGTAGC
Found at i:38454195 original size:35 final size:35
Alignment explanation
Indices: 38454149--38454220 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
38454139 ACGACTACAT
38454149 ACCCCATTTGTCAGTTATACCAACCAGTGCTGGGC
1 ACCCCATTTGTCAGTTATACCAACCAGTGCTGGGC
38454184 ACCCCATTTGTCAGTTATACCAACCAGTGCTGGGC
1 ACCCCATTTGTCAGTTATACCAACCAGTGCTGGGC
38454219 AC
1 AC
38454221 ATCTATTCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (35 bp):
ACCCCATTTGTCAGTTATACCAACCAGTGCTGGGC
Found at i:38455208 original size:25 final size:25
Alignment explanation
Indices: 38455179--38455230 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
38455169 GGCTTTTAAA
38455179 AATAAATTTTACCATTTCTAAAATC
1 AATAAATTTTACCATTTCTAAAATC
38455204 AATAAATTTTACCATTTCTAAAATC
1 AATAAATTTTACCATTTCTAAAATC
38455229 AA
1 AA
38455231 GTATCAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (25 bp):
AATAAATTTTACCATTTCTAAAATC
Found at i:38457960 original size:20 final size:19
Alignment explanation
Indices: 38457935--38457972 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
38457925 TTGGGCCGTT
38457935 ATGGGCCACGTGGAGCCAAA
1 ATGGGCCACGTGG-GCCAAA
*
38457955 ATGGGCCATGTGGGCCAA
1 ATGGGCCACGTGGGCCAA
38457973 TGACCTCGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.26, C:0.24, G:0.37, T:0.13
Consensus pattern (19 bp):
ATGGGCCACGTGGGCCAAA
Found at i:38463124 original size:45 final size:44
Alignment explanation
Indices: 38463034--38463164 Score: 183
Period size: 45 Copynumber: 3.0 Consensus size: 44
38463024 CCGAATTTAT
* * *
38463034 TCACCGGCATT-TTGCCTGCTAGGCTCGAGGCCCGAAAAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
* *
38463077 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAATATC
*
38463122 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAATA
1 TCACCGGCATTATAGCCTGCTAGGCT-CAAGGCCCGAATAATA
38463165 CTGTACAACA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
43 10 0.13
44 14 0.18
45 52 0.68
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
Found at i:38466232 original size:47 final size:47
Alignment explanation
Indices: 38466163--38466365 Score: 282
Period size: 47 Copynumber: 4.3 Consensus size: 47
38466153 CCCTTCGGGA
* * * *
38466163 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
38466210 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
* *
38466257 CTTATCACATATATACACTTTCACA-CTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATC-CATCACATCGGCCATTAGGC
* * * *
38466304 CTTATCACACATATGCACTTTCACATTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
38466351 CTTATCACACATATA
1 CTTATCACATATATA
38466366 TGTATATCAT
Statistics
Matches: 139, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 139 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
Found at i:38466324 original size:94 final size:94
Alignment explanation
Indices: 38466163--38466365 Score: 336
Period size: 94 Copynumber: 2.2 Consensus size: 94
38466153 CCCTTCGGGA
* *
38466163 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACACATATACAC
38466228 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
38466257 CTTATCACATATATACACTTTCACA-CTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
1 CTTATCACATATATACACTTTCACATC-CATCACATTGGCCACTCGGCCTTATCACACATATACA
*
38466321 CTTTCACATTCGTCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
*
38466351 CTTATCACACATATA
1 CTTATCACATATATA
38466366 TGTATATCAT
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
93 1 0.01
94 101 0.99
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:38477463 original size:27 final size:27
Alignment explanation
Indices: 38477394--38477466 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
38477384 TACTGATGGT
* * *
38477394 TTTGCCACATATTCTATTATTGGTGGC
1 TTTGCCACATATACTGTTATTAGTGGC
*
38477421 TTTGCCACATGTACTGTTATTAGTGGC
1 TTTGCCACATATACTGTTATTAGTGGC
38477448 TTTGCCACATATACTGTTA
1 TTTGCCACATATACTGTTA
38477467 CTGGCATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (27 bp):
TTTGCCACATATACTGTTATTAGTGGC
Found at i:38477477 original size:27 final size:26
Alignment explanation
Indices: 38477419--38477505 Score: 84
Period size: 27 Copynumber: 3.3 Consensus size: 26
38477409 ATTATTGGTG
* * **
38477419 GCTTTGCCACATGTACTGTTATTAGTG
1 GCTTTGCCACAT-TACTGTTACTGGCA
38477446 GCTTTGCCACATATACTGTTACTGGCA
1 GCTTTGCCACAT-TACTGTTACTGGCA
* ***
38477473 TCTTTGTTGCATTACTGTTACTGGCA
1 GCTTTGCCACATTACTGTTACTGGCA
38477499 GCTTTGC
1 GCTTTGC
38477506 TGTGATAGTG
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 19 0.39
27 30 0.61
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (26 bp):
GCTTTGCCACATTACTGTTACTGGCA
Found at i:38482895 original size:30 final size:30
Alignment explanation
Indices: 38482861--38482921 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38482851 TCCTTAACTC
38482861 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
38482891 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
38482921 A
1 A
38482922 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:38486403 original size:20 final size:17
Alignment explanation
Indices: 38486393--38486427 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
38486383 CTTTTCAAGT
38486393 CTAGCTTATTCTTGTTAA
1 CTAGCTTATTCTT-TTAA
38486411 CTAGCTTATTTCTTTTA
1 CTAGCTTA-TTCTTTTA
38486428 TCTTCTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (17 bp):
CTAGCTTATTCTTTTAA
Found at i:38489001 original size:13 final size:13
Alignment explanation
Indices: 38488983--38489009 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38488973 TTGGATCTTT
38488983 TGGAGTTCAACTA
1 TGGAGTTCAACTA
38488996 TGGAGTTCAACTA
1 TGGAGTTCAACTA
38489009 T
1 T
38489010 AAATAAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (13 bp):
TGGAGTTCAACTA
Found at i:38492066 original size:13 final size:13
Alignment explanation
Indices: 38492048--38492072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38492038 GGTTAACTTG
38492048 TATATATATGATA
1 TATATATATGATA
38492061 TATATATATGAT
1 TATATATATGAT
38492073 TTGAAATGAA
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):
TATATATATGATA
Found at i:38504617 original size:31 final size:31
Alignment explanation
Indices: 38504581--38504639 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
38504571 GAAAAGTCAG
38504581 TTTAATTGGTATTTATTTGGTAATGCATCGT
1 TTTAATTGGTATTTATTTGGTAATGCATCGT
38504612 TTTAATTGGTATTTATTTGGTAATGCAT
1 TTTAATTGGTATTTATTTGGTAATGCAT
38504640 TGTAACCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.05, G:0.19, T:0.53
Consensus pattern (31 bp):
TTTAATTGGTATTTATTTGGTAATGCATCGT
Found at i:38508997 original size:137 final size:138
Alignment explanation
Indices: 38508745--38508997 Score: 350
Period size: 137 Copynumber: 1.8 Consensus size: 138
38508735 CTATAAAATG
*** * *
38508745 GGTCTGCTCACACAAGCTAACGGTTGGAATGTAAGCTACACGATGCTGCTCACACAAGCTGATGA
1 GGTCTGCTCACACAAGCTAACGGTCAAAATGTAAGCTACACAATGCTGCTCACACAAGCTAATGA
* * * *
38508810 GTATCCACAACTAATACTGGACCTCAGCCATCGGTAGGACATTCAGGACCAGCACTTGAAACATG
66 GTATCCACAACAAATACTAGACCTCAGCCATCGATAGGACATTCAAGACCAGCACTTGAAACATG
38508875 GTAACCTA
131 GTAACCTA
*
38508883 GGTCTGCTCACACAAGCTGACGGTCAAAATGT-AGCTACACAATG-TCGCTCACACAAGCTAATG
1 GGTCTGCTCACACAAGCTAACGGTCAAAATGTAAGCTACACAATGCT-GCTCACACAAGCTAATG
** *
38508946 AGTATCTGCAACAAAT-GTCAGACCTCAGCCATCGATAGGACATTCAAGACCA
65 AGTATCCACAACAAATACT-AGACCTCAGCCATCGATAGGACATTCAAGACCA
38508998 TCATCCAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
136 2 0.02
137 70 0.70
138 28 0.28
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (138 bp):
GGTCTGCTCACACAAGCTAACGGTCAAAATGTAAGCTACACAATGCTGCTCACACAAGCTAATGA
GTATCCACAACAAATACTAGACCTCAGCCATCGATAGGACATTCAAGACCAGCACTTGAAACATG
GTAACCTA
Found at i:38513414 original size:39 final size:39
Alignment explanation
Indices: 38513367--38513548 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
38513357 AATGTTCGAG
38513367 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
38513406 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGC-AGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
38513444 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
38513483 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
38513523 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
38513549 GTTTGAACGA
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 37 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:38521293 original size:39 final size:39
Alignment explanation
Indices: 38521246--38521428 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
38521236 AATGTTCGAG
38521246 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
38521285 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
38521324 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
38521363 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
38521403 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
38521429 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:38526587 original size:30 final size:30
Alignment explanation
Indices: 38526553--38526609 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
38526543 AAGACTAAGT
38526553 ATATAATATATATCATAAAACGAAAAAAGA
1 ATATAATATATATCATAAAACGAAAAAAGA
*
38526583 ATATAATATATATCATAAAACTAAAAA
1 ATATAATATATATCATAAAACGAAAAA
38526610 GATAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (30 bp):
ATATAATATATATCATAAAACGAAAAAAGA
Found at i:38529175 original size:32 final size:31
Alignment explanation
Indices: 38529135--38529197 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 31
38529125 ATCCTAACAG
38529135 AAAACACAATTGACATCAATGGAAAAGACAA
1 AAAACACAATTGACATCAATGGAAAAGACAA
38529166 AAAACCACAATTGACATCAATGGAAAAGACAA
1 AAAA-CACAATTGACATCAATGGAAAAGACAA
38529198 TAATTAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.57, C:0.17, G:0.13, T:0.13
Consensus pattern (31 bp):
AAAACACAATTGACATCAATGGAAAAGACAA
Found at i:38533027 original size:26 final size:25
Alignment explanation
Indices: 38532991--38533050 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
38532981 AATAAATTTT
*
38532991 TATTTTATTTTTAAAAATTATTAAAA
1 TATTATATTTTT-AAAATTATTAAAA
*
38533017 TATTATATTTTTAATATTATTAAAA
1 TATTATATTTTTAAAATTATTAAAA
*
38533042 -AATATATTT
1 TATTATATTT
38533051 AATTATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 8 0.26
25 12 0.39
26 11 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTATATTTTTAAAATTATTAAAA
Found at i:38533291 original size:19 final size:20
Alignment explanation
Indices: 38533251--38533292 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
38533241 TCGTTTTATT
*
38533251 TTATTAATATAATTTTATAA
1 TTATTAATATAATTTTAAAA
*
38533271 TTATTAA-ATTATTTTAAAA
1 TTATTAATATAATTTTAAAA
38533290 TTA
1 TTA
38533293 ATTCTTAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATTAATATAATTTTAAAA
Found at i:38534823 original size:23 final size:20
Alignment explanation
Indices: 38534773--38534823 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 20
38534763 TGGAATAGAG
*
38534773 TAATATTTATTATTTAAAAA
1 TAATATTTACTATTTAAAAA
38534793 T-ATCATTTACTATTTAACAAAGA
1 TAAT-ATTTACTATTT-A-AAA-A
38534816 TAATATTT
1 TAATATTT
38534824 TTTAACTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.08
20 11 0.44
21 1 0.04
22 3 0.12
23 6 0.24
24 2 0.08
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (20 bp):
TAATATTTACTATTTAAAAA
Found at i:38539787 original size:58 final size:59
Alignment explanation
Indices: 38539665--38539830 Score: 205
Period size: 58 Copynumber: 2.9 Consensus size: 59
38539655 TACGGTGACG
*
38539665 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
*
38539722 ATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
* * * ** * **
38539780 GGGTATGGCACTATGTGTGCGGGCT-TAAATCGCATGGCACTAAGTGTGCGA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAT-ATATGGCACTAAGTGTGCGA
38539831 AATCGAGTAT
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
57 7 0.07
58 87 0.92
59 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (59 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
Found at i:38539792 original size:29 final size:29
Alignment explanation
Indices: 38539669--38539770 Score: 204
Period size: 29 Copynumber: 3.5 Consensus size: 29
38539659 GTGACGAGAT
38539669 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
38539698 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
38539727 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
38539756 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
38539771 GAGCTCGAAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:38539884 original size:2 final size:2
Alignment explanation
Indices: 38539879--38539909 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38539869 TCTCTCTCTC
38539879 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38539910 CTCCGATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38544592 original size:23 final size:23
Alignment explanation
Indices: 38544510--38544596 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
38544500 CCTGATCAGT
*
38544510 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
38544532 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
38544552 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
38544575 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
38544597 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:38544992 original size:15 final size:15
Alignment explanation
Indices: 38544967--38545024 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
38544957 TCATGTATAT
38544967 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
*
38544983 TATAAATTCATTCAA
1 TATAAATTCAATCAA
* *
38544998 AATAATTTCAATCAA
1 TATAAATTCAATCAA
38545013 TATAAATTCAAT
1 TATAAATTCAAT
38545025 AAATTCATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Done.