Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 139 of 276
Found at i:45258972 original size:24 final size:24
Alignment explanation
Indices: 45258939--45259020 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 24
45258929 CTGGAGGCCT
*
45258939 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTTATAAACTGGGGCAA
45258963 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCCTTTTT-ATAAACTGGGGCAA
* *
45258988 AGCCCTTTTCTGTAAACTGGGGCAT
1 AGCCCTTTT-TATAAACTGGGGCAA
45259013 AGCCCTTT
1 AGCCCTTT
45259021 CAGCATTTCC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 5 0.10
24 6 0.12
25 40 0.77
26 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTTATAAACTGGGGCAA
Found at i:45258980 original size:25 final size:25
Alignment explanation
Indices: 45258952--45259020 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
45258942 CTCTTTTAAT
45258952 AACTGGGGCAAAGCCCTTTT-TGATA
1 AACTGGGGCAAAGCCCTTTTCTG-TA
45258977 AACTGGGGCAAAGCCCTTTTCTGTA
1 AACTGGGGCAAAGCCCTTTTCTGTA
*
45259002 AACTGGGGCATAGCCCTTT
1 AACTGGGGCAAAGCCCTTT
45259021 CAGCATTTCC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 40 0.95
26 2 0.05
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCTGTA
Found at i:45259868 original size:27 final size:27
Alignment explanation
Indices: 45259806--45259883 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
45259796 GGTCATATTC
45259806 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
45259833 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
45259860 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
45259884 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:45259922 original size:54 final size:54
Alignment explanation
Indices: 45259872--45260000 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
45259862 CTTTTTACCT
* **
45259872 ATTAGGGGTATTTTAGTCATTTCATCCTA-CAG-GGATATTTTGGTAATTTTACAA
1 ATTAGGGGTATTTTAGTAATTTCA-CAAATCAGTGG-TATTTTGGTAATTTTACAA
* *
45259926 ATT-GAGGGTATTTCAGTAATTTCACAAATGAGTGGTATTTTGGTAATTTTACAA
1 ATTAG-GGGTATTTTAGTAATTTCACAAATCAGTGGTATTTTGGTAATTTTACAA
* *
45259980 ACTAGGGGTATTTTGGTAATT
1 ATTAGGGGTATTTTAGTAATT
45260001 CTACCTTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
53 3 0.05
54 57 0.90
55 3 0.05
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (54 bp):
ATTAGGGGTATTTTAGTAATTTCACAAATCAGTGGTATTTTGGTAATTTTACAA
Found at i:45259937 original size:27 final size:27
Alignment explanation
Indices: 45259902--45260126 Score: 152
Period size: 27 Copynumber: 8.3 Consensus size: 27
45259892 TTCATCCTAC
*
45259902 AGGGATATTTTGGTAATTTTACAAATTG
1 AGGG-TATTTTGGTAATTTTACAAATCG
** *
45259930 AGGGTATTTCAGTAATTTCACAAAT-G
1 AGGGTATTTTGGTAATTTTACAAATCG
*
45259956 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTACAAATCG
* ** *
45259983 AGGGGTATTTTGGTAATTCTACCTTATAG
1 A-GGGTATTTTGGTAATTTTA-CAAATCG
* *
45260012 -GGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
**** **
45260037 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
*** * * *
45260064 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
45260091 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
*
45260118 AGGGCATTT
1 AGGGTATTT
45260127 CTATAATTGG
Statistics
Matches: 152, Mismatches: 38, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
25 3 0.02
26 16 0.11
27 126 0.83
28 7 0.05
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:45262301 original size:30 final size:31
Alignment explanation
Indices: 45262225--45262307 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
45262215 TCAGTCTCGA
45262225 CATATC-CTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
45262255 CATATCATTGGGCCGAAGCCTTTTGATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
45262286 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
45262308 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 19 0.39
31 30 0.61
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:45262555 original size:25 final size:25
Alignment explanation
Indices: 45262527--45262596 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
45262517 CTCTTTTAAT
* *
45262527 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCGCTA
45262552 AACTGGGGCAAAGCCCTTTTCGCTA
1 AACTGGGGCAAAGCCCTTTTCGCTA
*
45262577 AACTGGGGCAAAACCCTTTT
1 AACTGGGGCAAAGCCCTTTT
45262597 AGCACTTTCT
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:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGCTA
Found at i:45262981 original size:25 final size:25
Alignment explanation
Indices: 45262953--45263023 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
45262943 CCTCTTTTAA
*
45262953 TAACTGGGGCAAAGCCCTTTTTGAT
1 TAACTGGGGCAAAGCCCTTTTCGAT
*
45262978 TAACTGGGGCAAAGCCCTTTTCGGT
1 TAACTGGGGCAAAGCCCTTTTCGAT
* *
45263003 AAACTGGGGCATAGCCCTTTT
1 TAACTGGGGCAAAGCCCTTTT
45263024 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCTTTTCGAT
Found at i:45263263 original size:425 final size:426
Alignment explanation
Indices: 45262471--45263321 Score: 1551
Period size: 425 Copynumber: 2.0 Consensus size: 426
45262461 CAACCAAACT
* *
45262471 CTCCACTGGTAGCATAGCTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGC
1 CTCCACTGGCAGCACAGCTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGC
*
45262536 AAAGCCCTTTTTGGTAAACTGGGGCAAAGCCCTTTTCGCTAAACTGGGGCAAAACCCTTTTAGCA
66 AAAGCCCTTTTTGATAAACTGGGGCAAAGCCCTTTTCGCTAAACTGGGGCAAAACCCTTTTAGCA
*
45262601 CTTTCTCCATTTTTATAAAACCCAACCCATGCAACATGTCATGTATGCAGAATGTCATGCCCATA
131 CTTCCTCCA-TTTTATAAAACCCAACCCATGCAACATGTCATGTATGCAGAATGTCATGCCCATA
45262666 TTTGAATCAAACAATCACAGCCAAGTCATTCATATCACCAACATATATTCACAATCAAATCCATC
195 TTTGAATCAAACAATCACAGCCAAGTCATTCATATCACCAACATATATTCACAATCAAATCCATC
45262731 AACCACACAGTCCAAGTCAGTCACTTGCCCACAAGGGCAAAACAGTCATTTTTCATATTATAAGG
260 AACCACACAGTCCAAGTCAGTCACTTGCCCACAAGGGCAAAACAGTCATTTTTCATATTATAAGG
* * *
45262796 GTAATTTCATAATTTTACCAAATATCAGGGTTTTTCATGTTCATTGACAATTATCAATATTTCTG
325 GTAATTTCATAATTTTACCAAATATCAGGGTTTTCCATGTTCATTAACAATTATCAATATTTCCG
45262861 AGTGTTTAAACAATGATCTTTAACCCACTTTATCAAG
390 AGTGTTTAAACAATGATCTTTAACCCACTTTATCAAG
45262898 CTCCACTGGCAGCACAGCTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGC
1 CTCCACTGGCAGCACAGCTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGC
* * * *
45262963 AAAGCCCTTTTTGATTAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAGCCCTTTTAGCA
66 AAAGCCCTTTTTGATAAACTGGGGCAAAGCCCTTTTCGCTAAACTGGGGCAAAACCCTTTTAGCA
45263028 CTTCCTCCA-TTTATAAAACCCAACCCATGCAACATGTCATGTATGCAGAATGTCATGCCCATAT
131 CTTCCTCCATTTTATAAAACCCAACCCATGCAACATGTCATGTATGCAGAATGTCATGCCCATAT
* *
45263092 TTGAATCAAACAATCACAGTCAAGTCATTCATATCACCAACATATATTCACAATCAAATCCGTCA
196 TTGAATCAAACAATCACAGCCAAGTCATTCATATCACCAACATATATTCACAATCAAATCCATCA
45263157 ACCACACAGTCCAAGTCAGTCACTTGCCCACAAGGGCAAAACAGTCATTTTTCATATTATAAGGG
261 ACCACACAGTCCAAGTCAGTCACTTGCCCACAAGGGCAAAACAGTCATTTTTCATATTATAAGGG
**
45263222 TAATTTTGTAATTTTACCAAATATCAGGGTTTTCCATGTTCATTAACAATTATCAATATTTCCGA
326 TAATTTCATAATTTTACCAAATATCAGGGTTTTCCATGTTCATTAACAATTATCAATATTTCCGA
45263287 GTGTTTAAACAATGATCTTTAACCCACTTTATCAA
391 GTGTTTAAACAATGATCTTTAACCCACTTTATCAA
45263322 ATTCGGGCTT
Statistics
Matches: 409, Mismatches: 15, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
425 278 0.68
427 131 0.32
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (426 bp):
CTCCACTGGCAGCACAGCTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGC
AAAGCCCTTTTTGATAAACTGGGGCAAAGCCCTTTTCGCTAAACTGGGGCAAAACCCTTTTAGCA
CTTCCTCCATTTTATAAAACCCAACCCATGCAACATGTCATGTATGCAGAATGTCATGCCCATAT
TTGAATCAAACAATCACAGCCAAGTCATTCATATCACCAACATATATTCACAATCAAATCCATCA
ACCACACAGTCCAAGTCAGTCACTTGCCCACAAGGGCAAAACAGTCATTTTTCATATTATAAGGG
TAATTTCATAATTTTACCAAATATCAGGGTTTTCCATGTTCATTAACAATTATCAATATTTCCGA
GTGTTTAAACAATGATCTTTAACCCACTTTATCAAG
Found at i:45263986 original size:27 final size:27
Alignment explanation
Indices: 45263956--45264041 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
45263946 GTAAATCTAC
45263956 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
45263983 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
45264009 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
45264039 AAA
1 AAA
45264042 TTAGGGGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 7 0.14
29 18 0.37
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:45264059 original size:27 final size:27
Alignment explanation
Indices: 45264019--45264142 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
45264009 AGAAAGTCAA
** *
45264019 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
45264046 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * *
45264072 AGGATATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
45264100 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
45264127 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
45264143 CTATCCTACA
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.04
27 76 0.95
28 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:45264256 original size:27 final size:27
Alignment explanation
Indices: 45264178--45264265 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
45264168 TTTCACAATC
* *
45264178 GAGGGTAAAACGATAATTTTGTAAACT
1 GAGGGTAAAATGATAATTTTGTAAATT
*
45264205 GAGGGTAAAATGGTAATTTTGTAAATT
1 GAGGGTAAAATGATAATTTTGTAAATT
* * *
45264232 GAGGGTAAAATGATAATTCTATAAATC
1 GAGGGTAAAATGATAATTTTGTAAATT
45264259 GAGGGTA
1 GAGGGTA
45264266 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.31
Consensus pattern (27 bp):
GAGGGTAAAATGATAATTTTGTAAATT
Found at i:45264290 original size:54 final size:53
Alignment explanation
Indices: 45264164--45264290 Score: 132
Period size: 54 Copynumber: 2.4 Consensus size: 53
45264154 GGGTATTTCA
* * *
45264164 GTAATTTCACAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATG
1 GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
* * ***
45264217 GTAATTTTGTA-AATTGAGGGTAAAATGATAATTCTATAAA-TCGAGGGTACTTTG
1 GTAA-TTT-TACAATCGAGGGTAAAACGATAATTCTATAAACT-GAGGGTAAAATG
45264271 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAA-TCGAGGG
45264291 CATTTCAATA
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
52 2 0.03
53 10 0.17
54 47 0.78
55 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (53 bp):
GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
Found at i:45273431 original size:996 final size:996
Alignment explanation
Indices: 45271499--45273490 Score: 3984
Period size: 996 Copynumber: 2.0 Consensus size: 996
45271489 TGACATGTCA
45271499 ATAGGGTCATTATGTGTTACGTGATTATGTGATTCAGGTGCTGGTCTTGAACGTCCTACCAGTGG
1 ATAGGGTCATTATGTGTTACGTGATTATGTGATTCAGGTGCTGGTCTTGAACGTCCTACCAGTGG
45271564 TTCATGGGTCTGTCAAAAATGAGAATATGTGTAAGTTCATTTCGAGATGGTTTAGATATGTGTGT
66 TTCATGGGTCTGTCAAAAATGAGAATATGTGTAAGTTCATTTCGAGATGGTTTAGATATGTGTGT
45271629 AAAGCTCATGTTTATTAAATGCTTGAAATGATGAAAATAAGGTAAGTTTGGTGATGGAATGAATT
131 AAAGCTCATGTTTATTAAATGCTTGAAATGATGAAAATAAGGTAAGTTTGGTGATGGAATGAATT
45271694 ATGATACTATAGTAAATTTACATTTAATTATGTTATAATATTTAAATGTTATATGCTTGGTAAGG
196 ATGATACTATAGTAAATTTACATTTAATTATGTTATAATATTTAAATGTTATATGCTTGGTAAGG
45271759 TTGCTTATTTCTTGCGTACGAGCTTACTAAGCTATATAGCTTACTCTGTTTATCTTCTATGTTTT
261 TTGCTTATTTCTTGCGTACGAGCTTACTAAGCTATATAGCTTACTCTGTTTATCTTCTATGTTTT
45271824 ATAGTGTCGCCAAGCTAGCTCGAAATCAGGGATCATCGGATATTCGAATCACACTATCAGACTCT
326 ATAGTGTCGCCAAGCTAGCTCGAAATCAGGGATCATCGGATATTCGAATCACACTATCAGACTCT
45271889 CATTTCTGGGTATTGATGATCTTATTATTTTGAAAGTATGGCATGTATAGGGACTTGGTCATTTT
391 CATTTCTGGGTATTGATGATCTTATTATTTTGAAAGTATGGCATGTATAGGGACTTGGTCATTTT
45271954 GTTATATGTGCCATTTGATTTGGCCAAATGTATTGGCTTGTAATTGTCAAAGGCTTGTTTTGATA
456 GTTATATGTGCCATTTGATTTGGCCAAATGTATTGGCTTGTAATTGTCAAAGGCTTGTTTTGATA
45272019 TTTGGCCATGTAAATTGTCTTATTTTGGCTAATGTAACACCCCAAACTCGGCCTAGACGTTATGG
521 TTTGGCCATGTAAATTGTCTTATTTTGGCTAATGTAACACCCCAAACTCGGCCTAGACGTTATGG
45272084 CCGAATCTGGTGCGTCACATCAAACCATTTTCAAATTTGATCTTTCTGGTGAAAATCCATTACTG
586 CCGAATCTGGTGCGTCACATCAAACCATTTTCAAATTTGATCTTTCTGGTGAAAATCCATTACTG
45272149 AATCTAAATTCCTTTATTATTATTAAACTAAAGTTCTCATCAAAATGTTTAGCAATTTGTTTGCC
651 AATCTAAATTCCTTTATTATTATTAAACTAAAGTTCTCATCAAAATGTTTAGCAATTTGTTTGCC
45272214 TTTGGTATATTACCTCATTTAAAATCACGGAAGCATTTTGAAAACTTTGTTGTTGGAAGCTCGTG
716 TTTGGTATATTACCTCATTTAAAATCACGGAAGCATTTTGAAAACTTTGTTGTTGGAAGCTCGTG
45272279 TTCCTTAGAAAAATCATGCCATTTTGAAATCTTGAGTTTTCCTAGACTAGCTGTTTAGTATAAGA
781 TTCCTTAGAAAAATCATGCCATTTTGAAATCTTGAGTTTTCCTAGACTAGCTGTTTAGTATAAGA
45272344 AATCACAATCCAAATTAAAACTTAAAACCCACCTACGGCCTTATTACATAATTTAAAAGCCCAAA
846 AATCACAATCCAAATTAAAACTTAAAACCCACCTACGGCCTTATTACATAATTTAAAAGCCCAAA
45272409 ATGAGATCTAATTGTAATTAAAAGAAACAGAAACAGTAGTGTGGCCATTTCCGAGTCCCTCGCAG
911 ATGAGATCTAATTGTAATTAAAAGAAACAGAAACAGTAGTGTGGCCATTTCCGAGTCCCTCGCAG
45272474 CTCCAAACCATCTAAGCTTAG
976 CTCCAAACCATCTAAGCTTAG
45272495 ATAGGGTCATTATGTGTTACGTGATTATGTGATTCAGGTGCTGGTCTTGAACGTCCTACCAGTGG
1 ATAGGGTCATTATGTGTTACGTGATTATGTGATTCAGGTGCTGGTCTTGAACGTCCTACCAGTGG
45272560 TTCATGGGTCTGTCAAAAATGAGAATATGTGTAAGTTCATTTCGAGATGGTTTAGATATGTGTGT
66 TTCATGGGTCTGTCAAAAATGAGAATATGTGTAAGTTCATTTCGAGATGGTTTAGATATGTGTGT
45272625 AAAGCTCATGTTTATTAAATGCTTGAAATGATGAAAATAAGGTAAGTTTGGTGATGGAATGAATT
131 AAAGCTCATGTTTATTAAATGCTTGAAATGATGAAAATAAGGTAAGTTTGGTGATGGAATGAATT
45272690 ATGATACTATAGTAAATTTACATTTAATTATGTTATAATATTTAAATGTTATATGCTTGGTAAGG
196 ATGATACTATAGTAAATTTACATTTAATTATGTTATAATATTTAAATGTTATATGCTTGGTAAGG
45272755 TTGCTTATTTCTTGCGTACGAGCTTACTAAGCTATATAGCTTACTCTGTTTATCTTCTATGTTTT
261 TTGCTTATTTCTTGCGTACGAGCTTACTAAGCTATATAGCTTACTCTGTTTATCTTCTATGTTTT
45272820 ATAGTGTCGCCAAGCTAGCTCGAAATCAGGGATCATCGGATATTCGAATCACACTATCAGACTCT
326 ATAGTGTCGCCAAGCTAGCTCGAAATCAGGGATCATCGGATATTCGAATCACACTATCAGACTCT
45272885 CATTTCTGGGTATTGATGATCTTATTATTTTGAAAGTATGGCATGTATAGGGACTTGGTCATTTT
391 CATTTCTGGGTATTGATGATCTTATTATTTTGAAAGTATGGCATGTATAGGGACTTGGTCATTTT
45272950 GTTATATGTGCCATTTGATTTGGCCAAATGTATTGGCTTGTAATTGTCAAAGGCTTGTTTTGATA
456 GTTATATGTGCCATTTGATTTGGCCAAATGTATTGGCTTGTAATTGTCAAAGGCTTGTTTTGATA
45273015 TTTGGCCATGTAAATTGTCTTATTTTGGCTAATGTAACACCCCAAACTCGGCCTAGACGTTATGG
521 TTTGGCCATGTAAATTGTCTTATTTTGGCTAATGTAACACCCCAAACTCGGCCTAGACGTTATGG
45273080 CCGAATCTGGTGCGTCACATCAAACCATTTTCAAATTTGATCTTTCTGGTGAAAATCCATTACTG
586 CCGAATCTGGTGCGTCACATCAAACCATTTTCAAATTTGATCTTTCTGGTGAAAATCCATTACTG
45273145 AATCTAAATTCCTTTATTATTATTAAACTAAAGTTCTCATCAAAATGTTTAGCAATTTGTTTGCC
651 AATCTAAATTCCTTTATTATTATTAAACTAAAGTTCTCATCAAAATGTTTAGCAATTTGTTTGCC
45273210 TTTGGTATATTACCTCATTTAAAATCACGGAAGCATTTTGAAAACTTTGTTGTTGGAAGCTCGTG
716 TTTGGTATATTACCTCATTTAAAATCACGGAAGCATTTTGAAAACTTTGTTGTTGGAAGCTCGTG
45273275 TTCCTTAGAAAAATCATGCCATTTTGAAATCTTGAGTTTTCCTAGACTAGCTGTTTAGTATAAGA
781 TTCCTTAGAAAAATCATGCCATTTTGAAATCTTGAGTTTTCCTAGACTAGCTGTTTAGTATAAGA
45273340 AATCACAATCCAAATTAAAACTTAAAACCCACCTACGGCCTTATTACATAATTTAAAAGCCCAAA
846 AATCACAATCCAAATTAAAACTTAAAACCCACCTACGGCCTTATTACATAATTTAAAAGCCCAAA
45273405 ATGAGATCTAATTGTAATTAAAAGAAACAGAAACAGTAGTGTGGCCATTTCCGAGTCCCTCGCAG
911 ATGAGATCTAATTGTAATTAAAAGAAACAGAAACAGTAGTGTGGCCATTTCCGAGTCCCTCGCAG
45273470 CTCCAAACCATCTAAGCTTAG
976 CTCCAAACCATCTAAGCTTAG
45273491 GAATTACCTG
Statistics
Matches: 996, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
996 996 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (996 bp):
ATAGGGTCATTATGTGTTACGTGATTATGTGATTCAGGTGCTGGTCTTGAACGTCCTACCAGTGG
TTCATGGGTCTGTCAAAAATGAGAATATGTGTAAGTTCATTTCGAGATGGTTTAGATATGTGTGT
AAAGCTCATGTTTATTAAATGCTTGAAATGATGAAAATAAGGTAAGTTTGGTGATGGAATGAATT
ATGATACTATAGTAAATTTACATTTAATTATGTTATAATATTTAAATGTTATATGCTTGGTAAGG
TTGCTTATTTCTTGCGTACGAGCTTACTAAGCTATATAGCTTACTCTGTTTATCTTCTATGTTTT
ATAGTGTCGCCAAGCTAGCTCGAAATCAGGGATCATCGGATATTCGAATCACACTATCAGACTCT
CATTTCTGGGTATTGATGATCTTATTATTTTGAAAGTATGGCATGTATAGGGACTTGGTCATTTT
GTTATATGTGCCATTTGATTTGGCCAAATGTATTGGCTTGTAATTGTCAAAGGCTTGTTTTGATA
TTTGGCCATGTAAATTGTCTTATTTTGGCTAATGTAACACCCCAAACTCGGCCTAGACGTTATGG
CCGAATCTGGTGCGTCACATCAAACCATTTTCAAATTTGATCTTTCTGGTGAAAATCCATTACTG
AATCTAAATTCCTTTATTATTATTAAACTAAAGTTCTCATCAAAATGTTTAGCAATTTGTTTGCC
TTTGGTATATTACCTCATTTAAAATCACGGAAGCATTTTGAAAACTTTGTTGTTGGAAGCTCGTG
TTCCTTAGAAAAATCATGCCATTTTGAAATCTTGAGTTTTCCTAGACTAGCTGTTTAGTATAAGA
AATCACAATCCAAATTAAAACTTAAAACCCACCTACGGCCTTATTACATAATTTAAAAGCCCAAA
ATGAGATCTAATTGTAATTAAAAGAAACAGAAACAGTAGTGTGGCCATTTCCGAGTCCCTCGCAG
CTCCAAACCATCTAAGCTTAG
Found at i:45274165 original size:27 final size:27
Alignment explanation
Indices: 45274135--45274330 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
45274125 GGGGCAAAAT
* * *
45274135 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
45274162 GGTAATTCTACCCTA-TAGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
45274189 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
45274216 GATAATTCTACCCTA-TAGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * * *
45274243 AGTAATTCTAACCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
45274270 AGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
45274297 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
45274324 AGTAATT
1 GGTAATT
45274331 TTGTAAATTG
Statistics
Matches: 143, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.05
27 129 0.90
28 7 0.05
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:45274321 original size:54 final size:54
Alignment explanation
Indices: 45274135--45274330 Score: 270
Period size: 54 Copynumber: 3.6 Consensus size: 54
45274125 GGGGCAAAAT
* * * *
45274135 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAG-GGATATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGAGG-TATTTC
*
45274189 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTATAGAGGTATTTC
* * * * *
45274243 AGTAATTCTAACCTACAGGGGTATTTTAGTAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGAGGTATTTC
45274297 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
45274331 TTGTAAATTG
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.01
54 121 0.97
55 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGAGGTATTTC
Found at i:45274347 original size:54 final size:53
Alignment explanation
Indices: 45274135--45274357 Score: 188
Period size: 54 Copynumber: 4.1 Consensus size: 53
45274125 GGGGCAAAAT
* * * * *
45274135 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATA-G-GGATATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTA--CTAAATGAGG-TATTTC
* *
45274189 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTATA-GAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTA--CTAAATGAGGTATTTC
* * * * *
45274243 AGTAATTCTAACCTACAGGGGTATTTTAGTAATTCTACCCTACA-GAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTA--CTAAATGAGGTATTTC
**
45274297 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT-TTGTAAATTGAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACTAAA-TGA-GGTATTTC
45274351 GGTAATT
1 GGTAATT
45274358 TTAGTAAACT
Statistics
Matches: 146, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
51 3 0.02
53 4 0.03
54 136 0.93
55 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACTAAATGAGGTATTTC
Found at i:45274356 original size:81 final size:80
Alignment explanation
Indices: 45274137--45274357 Score: 207
Period size: 81 Copynumber: 2.7 Consensus size: 80
45274127 GGCAAAATGG
* * * * * * * *
45274137 TAATTTTACCCCACAAG-GGTATCTCGGTAATTCTACCCTATAGGGATATTTCGGTATTTCTACC
1 TAATTCTACCCTA-AAGAGGTATTTCAGTAATTCTAACATACAGGG-TATTTCGGTAATTCTACC
45274201 CTACAAGGGTATTTCGA
64 CTACAAGGGTATTTCGA
* * **
45274218 TAATTCTACCCTATAGAGGTATTTCAGTAATTCTAACCTACAGGGGTATTTTAGTAATTCTACCC
1 TAATTCTACCCTAAAGAGGTATTTCAGTAATTCTAACATACA-GGGTATTTCGGTAATTCTACCC
*
45274283 TAC-AGAGGTATTTCGG
65 TACAAG-GGTATTTCGA
* **
45274299 TAATTCTACCCTACAAG-GGTATTTCAGTAATTTTGTAA-ATTGAGGGTATTTCGGTAATT
1 TAATTCTACCCTA-AAGAGGTATTTCAGTAA--TTCTAACATACAGGGTATTTCGGTAATT
45274358 TTAGTAAACT
Statistics
Matches: 116, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
80 4 0.03
81 100 0.86
82 7 0.06
83 5 0.04
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (80 bp):
TAATTCTACCCTAAAGAGGTATTTCAGTAATTCTAACATACAGGGTATTTCGGTAATTCTACCCT
ACAAGGGTATTTCGA
Found at i:45274374 original size:27 final size:27
Alignment explanation
Indices: 45274317--45274375 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
45274307 CCCTACAAGG
* **
45274317 GTATTTCAGTAATTTTGTAAATTGAGG
1 GTATTTCAGTAATTTTGTAAACTGAAA
*
45274344 GTATTTCGGTAATTTTAGTAAACT-AAA
1 GTATTTCAGTAATTTT-GTAAACTGAAA
45274371 GTATT
1 GTATT
45274376 CTAAATAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (27 bp):
GTATTTCAGTAATTTTGTAAACTGAAA
Found at i:45277738 original size:79 final size:82
Alignment explanation
Indices: 45277627--45277811 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
45277617 GCTACTCGTT
* *
45277627 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
45277690 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
45277707 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
45277770 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
45277787 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45277812 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:45277811 original size:40 final size:40
Alignment explanation
Indices: 45277608--45277811 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
45277598 CGGAATTTAA
** *
45277608 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45277648 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
45277688 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45277727 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
45277767 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
45277807 CCGGA
1 CCGGA
45277812 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45280587 original size:16 final size:16
Alignment explanation
Indices: 45280566--45280599 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45280556 CAATTATGCC
45280566 AGATCTAATCTTAAAT
1 AGATCTAATCTTAAAT
*
45280582 AGATCTACTCTTAAAT
1 AGATCTAATCTTAAAT
45280598 AG
1 AG
45280600 GGACGTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (16 bp):
AGATCTAATCTTAAAT
Found at i:45281088 original size:30 final size:30
Alignment explanation
Indices: 45281052--45281109 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
45281042 TGGTACATGG
*
45281052 GCATGTGGCCAGACC-GTGTGGCTCACACGA
1 GCATGTGCCCA-ACCAGTGTGGCTCACACGA
*
45281082 GCATGTGCCCAACCAGTGTGGTTCACAC
1 GCATGTGCCCAACCAGTGTGGCTCACAC
45281110 AGGCGTGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (30 bp):
GCATGTGCCCAACCAGTGTGGCTCACACGA
Found at i:45281131 original size:30 final size:30
Alignment explanation
Indices: 45281052--45281132 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
45281042 TGGTACATGG
*
45281052 GCATGTGGCCAGA-CCGTGTGGCTCACACGA
1 GCATGTGCCCA-ACCCGTGTGGCTCACACGA
* *
45281082 GCATGTGCCCAACCAGTGTGGTTCACAC-A
1 GCATGTGCCCAACCCGTGTGGCTCACACGA
* * *
45281111 GGCGTGTGCCTAGCCCGTGTGG
1 -GCATGTGCCCAACCCGTGTGG
45281133 AAGTGCCCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 2 0.05
30 40 0.95
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (30 bp):
GCATGTGCCCAACCCGTGTGGCTCACACGA
Found at i:45282973 original size:6 final size:5
Alignment explanation
Indices: 45282966--45283022 Score: 60
Period size: 5 Copynumber: 10.2 Consensus size: 5
45282956 AATCTAAGAC
45282966 AATAA CAATAA ACATAAA AATAA ATATAAA AATAA AATAA AATAA AATAAA
1 AATAA -AATAA A-AT-AA AATAA A-AT-AA AATAA AATAA AATAA AAT-AA
45283017 AATAA A
1 AATAA A
45283023 TGGACTCAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
5 22 0.48
6 18 0.39
7 6 0.13
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:45283023 original size:10 final size:11
Alignment explanation
Indices: 45282966--45283022 Score: 80
Period size: 12 Copynumber: 5.1 Consensus size: 11
45282956 AATCTAAGAC
*
45282966 AATAACAATAA
1 AATAAAAATAA
45282977 ACATAAAAATAA
1 A-ATAAAAATAA
45282989 ATATAAAAATAA
1 A-ATAAAAATAA
45283001 AAT-AAAATAA
1 AATAAAAATAA
45283011 AATAAAAATAA
1 AATAAAAATAA
45283022 A
1 A
45283023 TGGACTCAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.24
11 11 0.26
12 21 0.50
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:45284638 original size:12 final size:13
Alignment explanation
Indices: 45284611--45284645 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
45284601 TAATAAGGTG
*
45284611 AAATAAAAAAATA
1 AAATAAAATAATA
45284624 AAATAAAATAA-A
1 AAATAAAATAATA
45284636 AAATAAAATA
1 AAATAAAATA
45284646 GGAAAAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:45284638 original size:17 final size:18
Alignment explanation
Indices: 45284611--45284645 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
45284601 TAATAAGGTG
45284611 AAATAAAAAAATAAAATA
1 AAATAAAAAAATAAAATA
45284629 AAAT-AAAAAATAAAATA
1 AAATAAAAAAATAAAATA
45284646 GGAAAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATAAAAAAATAAAATA
Found at i:45297595 original size:48 final size:47
Alignment explanation
Indices: 45297540--45297692 Score: 189
Period size: 48 Copynumber: 3.2 Consensus size: 47
45297530 CACATGGTAG
* * *
45297540 GATGCCAATGCCATATCCCGGATATGGTCTTACATGGGATCACAAACT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAA-T
* * *** *
45297588 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGAGATTGTAGATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA-AAT
*
45297636 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAAT
45297683 CGATGCCAAT
1 -GATGCCAAT
45297693 AGGCCAGTTA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 1 0.01
48 85 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (47 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAAT
Found at i:45307383 original size:20 final size:20
Alignment explanation
Indices: 45307333--45307387 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
45307323 TCAAAACAGG
* *
45307333 GGGACACACCCATGTGGCTT
1 GGGACACGCCCGTGTGGCTT
*
45307353 GGGACACGCCCGTGTGGTTT
1 GGGACACGCCCGTGTGGCTT
*
45307373 GGGACATGCCCGTGT
1 GGGACACGCCCGTGT
45307388 AGGTAGGCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.15, C:0.27, G:0.36, T:0.22
Consensus pattern (20 bp):
GGGACACGCCCGTGTGGCTT
Found at i:45309463 original size:48 final size:48
Alignment explanation
Indices: 45309376--45309508 Score: 212
Period size: 48 Copynumber: 2.8 Consensus size: 48
45309366 AATACCCATT
* * *
45309376 CCATATCCCAGATATTGTCTTACATGGGATCTCATATCGATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGATCTCATATCGATGCCAATG
* * *
45309424 CCATGTCCTAGACATGGTCTTACATGGGATCTCATATCGATGTCAATT
1 CCATGTCCCAGACATGGTCTTACATGGGATCTCATATCGATGCCAATG
45309472 CCATGTCCCAGACATGGTCTTACATGGGATCTCATAT
1 CCATGTCCCAGACATGGTCTTACATGGGATCTCATAT
45309509 AACCTTAATG
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACATGGGATCTCATATCGATGCCAATG
Found at i:45314758 original size:50 final size:50
Alignment explanation
Indices: 45314649--45314764 Score: 126
Period size: 50 Copynumber: 2.3 Consensus size: 50
45314639 GTTAAATGAC
* * * * *
45314649 CTTGCATATTCGGCCACATAGGTATGTACTTATGTGATGTTATGTTGGAA
1 CTTGCATATTCAGCCACATAGATATGTACATATGTGATCTTATCTTGGAA
* ** *
45314699 CTTGTATATTCAGCCTTATAGATATGTACATATGTGATCTTATACTT-GAT
1 CTTGCATATTCAGCCACATAGATATGTACATATGTGATCTTAT-CTTGGAA
*
45314749 CTTGCATATTCGGCCA
1 CTTGCATATTCAGCCA
45314765 AATGAGTGGT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
50 51 0.96
51 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (50 bp):
CTTGCATATTCAGCCACATAGATATGTACATATGTGATCTTATCTTGGAA
Found at i:45316380 original size:2 final size:2
Alignment explanation
Indices: 45316373--45316441 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
45316363 TTTCAGCTAT
45316373 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
45316415 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
45316442 TATATATATA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:45319920 original size:27 final size:27
Alignment explanation
Indices: 45319889--45320066 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45319879 TAAATTGTAC
45319889 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
45319916 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45319942 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
45319970 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
45319998 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45320025 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
45320052 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45320067 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:45320003 original size:82 final size:81
Alignment explanation
Indices: 45319890--45320045 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45319880 AAATTGTACA
* *
45319890 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45319954 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45319971 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45320036 TGCGAGTTGA
65 TGCGAATTGA
45320046 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45320057 original size:82 final size:81
Alignment explanation
Indices: 45319886--45320066 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
45319876 GATTAAATTG
* *
45319886 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45319951 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
45319967 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45320031 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
45320049 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45320067 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45327983 original size:27 final size:27
Alignment explanation
Indices: 45327952--45328129 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45327942 TAAATTGTAC
45327952 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
45327979 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45328005 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
45328033 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
45328061 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45328088 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
45328115 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45328130 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:45328066 original size:82 final size:81
Alignment explanation
Indices: 45327953--45328108 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45327943 AAATTGTACA
* *
45327953 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45328017 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45328034 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45328099 TGCGAGTTGA
65 TGCGAATTGA
45328109 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45328120 original size:82 final size:81
Alignment explanation
Indices: 45327949--45328129 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
45327939 GATTAAATTG
* *
45327949 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45328014 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
45328030 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45328094 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
45328112 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45328130 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45338509 original size:36 final size:36
Alignment explanation
Indices: 45338462--45338535 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
45338452 GACATGTCAC
45338462 TTGTATCCTAATCTATTCATAAGGTTCAAACGGGAT
1 TTGTATCCTAATCTATTCATAAGGTTCAAACGGGAT
*
45338498 TTGTATCCTAATTTATTCATAAGGTTCAAACGGGAT
1 TTGTATCCTAATCTATTCATAAGGTTCAAACGGGAT
45338534 TT
1 TT
45338536 CTTACTTGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (36 bp):
TTGTATCCTAATCTATTCATAAGGTTCAAACGGGAT
Found at i:45341861 original size:5 final size:5
Alignment explanation
Indices: 45341851--45341883 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
45341841 TTGTGCGTTC
*
45341851 TTTAT TTTAT TTTAT TGTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
45341884 TCACAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:45349010 original size:173 final size:173
Alignment explanation
Indices: 45348721--45349066 Score: 692
Period size: 173 Copynumber: 2.0 Consensus size: 173
45348711 TATTAACTCT
45348721 TTTTTTTATTATCTAGCCTAAAAATAAACGGGTTTGTTTTATCTAAACTAATTACTAAACTAAGA
1 TTTTTTTATTATCTAGCCTAAAAATAAACGGGTTTGTTTTATCTAAACTAATTACTAAACTAAGA
45348786 ATGCACAGAAAGTAAATTGGGGAAATACTTTTGGGAAAAACTGATTGATTTGGATCCACCTAGAC
66 ATGCACAGAAAGTAAATTGGGGAAATACTTTTGGGAAAAACTGATTGATTTGGATCCACCTAGAC
45348851 TTCACTTGTTATTTGACTCTGAATCAGATGATTTATTCATTTG
131 TTCACTTGTTATTTGACTCTGAATCAGATGATTTATTCATTTG
45348894 TTTTTTTATTATCTAGCCTAAAAATAAACGGGTTTGTTTTATCTAAACTAATTACTAAACTAAGA
1 TTTTTTTATTATCTAGCCTAAAAATAAACGGGTTTGTTTTATCTAAACTAATTACTAAACTAAGA
45348959 ATGCACAGAAAGTAAATTGGGGAAATACTTTTGGGAAAAACTGATTGATTTGGATCCACCTAGAC
66 ATGCACAGAAAGTAAATTGGGGAAATACTTTTGGGAAAAACTGATTGATTTGGATCCACCTAGAC
45349024 TTCACTTGTTATTTGACTCTGAATCAGATGATTTATTCATTTG
131 TTCACTTGTTATTTGACTCTGAATCAGATGATTTATTCATTTG
45349067 ACTTGATCTG
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 173 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.38
Consensus pattern (173 bp):
TTTTTTTATTATCTAGCCTAAAAATAAACGGGTTTGTTTTATCTAAACTAATTACTAAACTAAGA
ATGCACAGAAAGTAAATTGGGGAAATACTTTTGGGAAAAACTGATTGATTTGGATCCACCTAGAC
TTCACTTGTTATTTGACTCTGAATCAGATGATTTATTCATTTG
Found at i:45352782 original size:37 final size:37
Alignment explanation
Indices: 45352727--45352801 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
45352717 CCGATGCTGG
* *
45352727 TCCGTGTGAAACTTTGAGATTGTAAGATTTAAATGTT
1 TCCGTGTGAAACTCTGAGACTGTAAGATTTAAATGTT
45352764 TCCGTGTGAAACTCTGAGACTGTAAGATTTAAATGTT
1 TCCGTGTGAAACTCTGAGACTGTAAGATTTAAATGTT
45352801 T
1 T
45352802 ATCTTTGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (37 bp):
TCCGTGTGAAACTCTGAGACTGTAAGATTTAAATGTT
Found at i:45360505 original size:51 final size:51
Alignment explanation
Indices: 45360445--45360545 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
45360435 TATATATATG
45360445 AGAAAAGGAAGATGAAGATGCACGCAACCCACCATTTTCCCATGCACCAAA
1 AGAAAAGGAAGATGAAGATGCACGCAACCCACCATTTTCCCATGCACCAAA
* *
45360496 AGAAAAGGAAGATGAAGATGCATGCAACCCACCATTTTTCCATGCACCAA
1 AGAAAAGGAAGATGAAGATGCACGCAACCCACCATTTTCCCATGCACCAA
45360546 CGTGAGAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.16
Consensus pattern (51 bp):
AGAAAAGGAAGATGAAGATGCACGCAACCCACCATTTTCCCATGCACCAAA
Found at i:45363019 original size:50 final size:50
Alignment explanation
Indices: 45362960--45363343 Score: 564
Period size: 50 Copynumber: 7.7 Consensus size: 50
45362950 AATATGTGAG
* *
45362960 CCATGTAAGACCATGTCTGGGACATAG-AGTTGGCTCCGAGATGAGA-GGTC
1 CCATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCGAGATGA-ATGGTC
45363010 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAATGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAATGGTC
45363060 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAATGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAATGGTC
45363110 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAATGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAATGGTC
45363160 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAATGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAATGGTC
* * **
45363210 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGA-AATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-ATGGTC
* * * ***
45363260 CCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACA-GAAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG-AATGGTC
*
45363309 CCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45363344 TGTTATTATC
Statistics
Matches: 314, Mismatches: 14, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
48 3 0.01
49 39 0.12
50 270 0.86
51 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAATGGTC
Found at i:45372577 original size:44 final size:46
Alignment explanation
Indices: 45372512--45372640 Score: 147
Period size: 49 Copynumber: 2.7 Consensus size: 46
45372502 ATGCACTAAT
* * *
45372512 GAACAGAGAGCACTAAAGTGCTATA-CAGAGAGCA-CAGATGTGCTA
1 GAACAGAGAGCACTAATGTGCTAAATCAGAGAGCACCA-ACGTGCTA
45372557 -AACAGAGAGCACTAATGTGCTAAAATCAGAGAGCACCAACGTGCTA
1 GAACAGAGAGCACTAATGTGCT-AAATCAGAGAGCACCAACGTGCTA
*
45372603 GTAGTCAGAGAGCACTAATGTGCTAATAATCAGAGAGC
1 G-A-ACAGAGAGCACTAATGTGCT-A-AATCAGAGAGC
45372641 GCGCTAAAGT
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
44 20 0.27
45 2 0.03
46 16 0.22
47 2 0.03
48 1 0.01
49 21 0.29
50 11 0.15
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.17
Consensus pattern (46 bp):
GAACAGAGAGCACTAATGTGCTAAATCAGAGAGCACCAACGTGCTA
Found at i:45372616 original size:25 final size:24
Alignment explanation
Indices: 45372515--45372640 Score: 145
Period size: 22 Copynumber: 5.3 Consensus size: 24
45372505 CACTAATGAA
*
45372515 CAGAGAGCACTAAAGTGCTAT-A-
1 CAGAGAGCACTAATGTGCTATAAT
45372537 CAGAGAGCAC-AGATGTGCTA-AA-
1 CAGAGAGCACTA-ATGTGCTATAAT
*
45372559 CAGAGAGCACTAATGTGCTAAAAT
1 CAGAGAGCACTAATGTGCTATAAT
* * *
45372583 CAGAGAGCACCAACGTGCTAGTAGT
1 CAGAGAGCACTAATGTGCTA-TAAT
45372608 CAGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACTAATGTGCT-ATAAT
45372633 CAGAGAGC
1 CAGAGAGC
45372641 GCGCTAAAGT
Statistics
Matches: 89, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
21 1 0.01
22 36 0.40
23 3 0.03
24 18 0.20
25 30 0.34
26 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (24 bp):
CAGAGAGCACTAATGTGCTATAAT
Found at i:45379797 original size:24 final size:24
Alignment explanation
Indices: 45379726--45379851 Score: 120
Period size: 22 Copynumber: 5.3 Consensus size: 24
45379716 CACTAATGAA
* *
45379726 CAGAGAGCACTAAAGTGCT-ATA-
1 CAGAGAGCACTAACGTGCTAAAAT
*
45379748 CAGAGAGCAC-AGATGTGCT-AAA-
1 CAGAGAGCACTA-ACGTGCTAAAAT
45379770 CAGAGAGCACTAACGTGCTAAAAT
1 CAGAGAGCACTAACGTGCTAAAAT
* * *
45379794 CAGAGAGCACCAACGTGCTAGTAGT
1 CAGAGAGCACTAACGTGCTA-AAAT
45379819 CAGAGAGCACTGAA-GTGCTAATAAT
1 CAGAGAGCACT-AACGTGCTAA-AAT
45379844 CAGAGAGC
1 CAGAGAGC
45379852 GCGCTAAAGT
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.01
22 34 0.39
23 4 0.05
24 19 0.22
25 28 0.32
26 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTAAAAT
Found at i:45379861 original size:27 final size:26
Alignment explanation
Indices: 45379770--45379861 Score: 75
Period size: 25 Copynumber: 3.7 Consensus size: 26
45379760 ATGTGCTAAA
* *
45379770 CAGAGAGC-ACTAACGTGCTAA-AAT
1 CAGAGAGCGCCTAAAGTGCTAATAAT
* * * *
45379794 CAGAGAGCACC-AACGTGCTAGTAGT
1 CAGAGAGCGCCTAAAGTGCTAATAAT
* *
45379819 CAGAGAGC-ACTGAAGTGCTAATAAT
1 CAGAGAGCGCCTAAAGTGCTAATAAT
45379844 CAGAGAGCGCGCTAAAGT
1 CAGAGAGCGC-CTAAAGT
45379862 TCCTTAATGG
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
24 18 0.34
25 29 0.55
27 6 0.11
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (26 bp):
CAGAGAGCGCCTAAAGTGCTAATAAT
Found at i:45384375 original size:23 final size:24
Alignment explanation
Indices: 45384338--45384382 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
45384328 AAGAAATTGA
*
45384338 TAATTTTTCTTCTTTTCTTGTATT
1 TAATTTTTCTACTTTTCTTGTATT
*
45384362 TAATTTTT-TACTTTTTTTGTA
1 TAATTTTTCTACTTTTCTTGTA
45384383 CAAACTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.71
Consensus pattern (24 bp):
TAATTTTTCTACTTTTCTTGTATT
Found at i:45387328 original size:25 final size:25
Alignment explanation
Indices: 45387297--45387517 Score: 114
Period size: 25 Copynumber: 8.6 Consensus size: 25
45387287 TAGATAACAC
45387297 GCCACAAAGGCTTTTCAGAAGATCA
1 GCCACAAAGGCTTTTCAGAAGATCA
* *
45387322 GTCACAAAAAAGCTTTTCTAGATA-A-CA
1 G-C-CACAAAGGCTTTTC-AGA-AGATCA
* * *
45387349 CACCACAAAGGCTTTTCACAAGATTA
1 -GCCACAAAGGCTTTTCAGAAGATCA
* *
45387375 GCCACAAAGGCTTTTCCA-AAAAACA
1 GCCACAAAGGCTTTT-CAGAAGATCA
* *
45387400 TGCCACAAAGGC-TTTCACAAGATTA
1 -GCCACAAAGGCTTTTCAGAAGATCA
* * *
45387425 GCCATAAAGGTTTTTCCATATA-A-CA
1 GCCACAAAGGCTTTT-CAGA-AGATCA
*
45387450 TGCCACAAAGGC-TTTCACAAGATAACA
1 -GCCACAAAGGCTTTTCAGAAGAT--CA
* * * *
45387477 TACCACAAAGTCTTTTCACAAGATTA
1 -GCCACAAAGGCTTTTCAGAAGATCA
*
45387503 GCTACAAAGGCTTTT
1 GCCACAAAGGCTTTT
45387518 TCACGTAAGC
Statistics
Matches: 150, Mismatches: 27, Indels: 38
0.70 0.13 0.18
Matches are distributed among these distances:
23 1 0.01
24 16 0.11
25 48 0.32
26 41 0.27
27 28 0.19
28 15 0.10
29 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (25 bp):
GCCACAAAGGCTTTTCAGAAGATCA
Found at i:45387411 original size:26 final size:26
Alignment explanation
Indices: 45387375--45387493 Score: 93
Period size: 26 Copynumber: 4.6 Consensus size: 26
45387365 CACAAGATTA
45387375 GCCACAAAGGCTTTTCCAAAAAACAT
1 GCCACAAAGGCTTTTCCAAAAAACAT
* * *
45387401 GCCACAAAGGC-TTT-CACAAGA-TT
1 GCCACAAAGGCTTTTCCAAAAAACAT
* * * *
45387424 AGCCATAAAGGTTTTTCCATATAACAT
1 -GCCACAAAGGCTTTTCCAAAAAACAT
*
45387451 GCCACAAAGGC-TTTCACAAGATAACAT
1 GCCACAAAGGCTTTTC-CAA-AAAACAT
* *
45387478 ACCACAAAGTCTTTTC
1 GCCACAAAGGCTTTTC
45387494 ACAAGATTAG
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
23 1 0.01
24 14 0.19
25 10 0.14
26 26 0.36
27 17 0.24
28 4 0.06
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (26 bp):
GCCACAAAGGCTTTTCCAAAAAACAT
Found at i:45387434 original size:50 final size:51
Alignment explanation
Indices: 45387290--45387472 Score: 217
Period size: 50 Copynumber: 3.6 Consensus size: 51
45387280 GATTTTCTAG
* * * * *
45387290 ATAACACGCCACAAAGGCTTTTCAGAAGATCAGTCACAAAAAAGCTTTTCTAG
1 ATAACACGCCACAAAGGCTTTTCACAAGATTAG-C-CAAAAAGGCTTTTCCAA
* *
45387343 ATAACACACCACAAAGGCTTTTCACAAGATTAGCCACAAAGGCTTTTCCAA
1 ATAACACGCCACAAAGGCTTTTCACAAGATTAGCCAAAAAGGCTTTTCCAA
* * * * *
45387394 AAAACATGCCACAAAGGC-TTTCACAAGATTAGCCATAAAGGTTTTTCCAT
1 ATAACACGCCACAAAGGCTTTTCACAAGATTAGCCAAAAAGGCTTTTCCAA
*
45387444 ATAACATGCCACAAAGGC-TTTCACAAGAT
1 ATAACACGCCACAAAGGCTTTTCACAAGAT
45387473 AACATACCAC
Statistics
Matches: 116, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 57 0.49
51 28 0.24
52 1 0.01
53 30 0.26
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (51 bp):
ATAACACGCCACAAAGGCTTTTCACAAGATTAGCCAAAAAGGCTTTTCCAA
Found at i:45387503 original size:78 final size:77
Alignment explanation
Indices: 45387375--45387519 Score: 204
Period size: 78 Copynumber: 1.9 Consensus size: 77
45387365 CACAAGATTA
* *
45387375 GCCACAAAGGCTTTTCCAAAAAACATGCCACAAAGGCTTTCACAAGATTAGCCATAAAGG-TTTT
1 GCCACAAAGGCTTTTCCAAAAAACATACCACAAAGGCTTTCACAAGATTAGCCACAAAGGCTTTT
45387439 TCCATATAACAT
66 TCCATATAACAT
* * *
45387451 GCCACAAAGGC-TTTCACAAGATAACATACCACAAAGTCTTTTCACAAGATTAGCTACAAAGGCT
1 GCCACAAAGGCTTTTC-CAA-AAAACATACCACAAAGGC-TTTCACAAGATTAGCCACAAAGGCT
45387515 TTTTC
63 TTTTC
45387520 ACGTAAGCTG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
75 4 0.07
76 14 0.23
77 15 0.25
78 21 0.35
79 6 0.10
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (77 bp):
GCCACAAAGGCTTTTCCAAAAAACATACCACAAAGGCTTTCACAAGATTAGCCACAAAGGCTTTT
TCCATATAACAT
Found at i:45393091 original size:6 final size:6
Alignment explanation
Indices: 45393075--45393109 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
45393065 TTAAATATAC
45393075 AAAACT AAAAACT AAAACT AAAACT AAAACT AAAA
1 AAAACT -AAAACT AAAACT AAAACT AAAACT AAAA
45393110 GCTCCCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAACT
Found at i:45396140 original size:21 final size:21
Alignment explanation
Indices: 45396114--45396160 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
45396104 ATAAAATCTC
*
45396114 CTAATACTTATCCTAATAAAA
1 CTAATACATATCCTAATAAAA
* *
45396135 CTAATACATCTTCTAATAAAA
1 CTAATACATATCCTAATAAAA
45396156 -TAATA
1 CTAATA
45396161 ACTAATGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (21 bp):
CTAATACATATCCTAATAAAA
Found at i:45398009 original size:23 final size:24
Alignment explanation
Indices: 45397964--45398009 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
45397954 GTTGTCTGTA
45397964 CACAACGCTATTGAGTGGCTTTGC
1 CACAACGCTATTGAGTGGCTTTGC
45397988 CACAACG-TATTTGAGTGG-TTTG
1 CACAACGCTA-TTGAGTGGCTTTG
45398010 ACCATAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (24 bp):
CACAACGCTATTGAGTGGCTTTGC
Found at i:45400996 original size:39 final size:39
Alignment explanation
Indices: 45400953--45401070 Score: 175
Period size: 39 Copynumber: 3.0 Consensus size: 39
45400943 TGTTTGTACA
* *
45400953 TACGTGCCCCTGTTATACTTCGGTACCCCTGATCGCACT
1 TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
45400992 TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
1 TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
* * *
45401031 TACGTGCCCTTGTTGTACTTCTA-TACCCCTAATAGCACT
1 TACGTGCCCCTGTTGTACTTC-AGTACCCCTGATCGCACT
45401070 T
1 T
45401071 TCATCTCGTG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 72 0.99
40 1 0.01
ACGTcount: A:0.17, C:0.34, G:0.16, T:0.33
Consensus pattern (39 bp):
TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
Found at i:45401001 original size:20 final size:20
Alignment explanation
Indices: 45400978--45401039 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
45400968 TACTTCGGTA
45400978 CCCCTGATCGCACTTACGTG
1 CCCCTGATCGCACTTACGTG
* * *
45400998 CCCCTG-TTGTACTT-CAGTA
1 CCCCTGATCGCACTTAC-GTG
45401017 CCCCTGATCGCACTTACGTG
1 CCCCTGATCGCACTTACGTG
45401037 CCC
1 CCC
45401040 TTGTTGTACT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 1 0.03
19 14 0.42
20 17 0.52
21 1 0.03
ACGTcount: A:0.15, C:0.40, G:0.18, T:0.27
Consensus pattern (20 bp):
CCCCTGATCGCACTTACGTG
Found at i:45401020 original size:19 final size:20
Alignment explanation
Indices: 45400936--45401050 Score: 78
Period size: 19 Copynumber: 5.9 Consensus size: 20
45400926 GTATATAATT
* *
45400936 GTACCCCTGTTTGTACATAC
1 GTACCCCTGATTGTACTTAC
* *
45400956 GTGCCCCTG-TTATACTT-C
1 GTACCCCTGATTGTACTTAC
* *
45400974 GGTACCCCTGATCGCACTTAC
1 -GTACCCCTGATTGTACTTAC
*
45400995 GTGCCCCTG-TTGTACTT-C
1 GTACCCCTGATTGTACTTAC
* *
45401013 AGTACCCCTGATCGCACTTAC
1 -GTACCCCTGATTGTACTTAC
* *
45401034 GTGCCCTTG-TTGTACTT
1 GTACCCCTGATTGTACTT
45401051 CTATACCCCT
Statistics
Matches: 72, Mismatches: 17, Indels: 13
0.71 0.17 0.13
Matches are distributed among these distances:
18 2 0.03
19 34 0.47
20 34 0.47
21 2 0.03
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.34
Consensus pattern (20 bp):
GTACCCCTGATTGTACTTAC
Found at i:45403108 original size:10 final size:10
Alignment explanation
Indices: 45403093--45403141 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
45403083 ATTAACATAT
45403093 TTAATTTTAA
1 TTAATTTTAA
45403103 TTAATTTTATAA
1 TTAA-TTT-TAA
*
45403115 TTAATTTTGA
1 TTAATTTTAA
*
45403125 TTAATTTTGA
1 TTAATTTTAA
45403135 TT-ATTTT
1 TTAATTTT
45403142 CGACAGATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 5 0.14
10 18 0.50
11 6 0.17
12 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:45411329 original size:17 final size:18
Alignment explanation
Indices: 45411307--45411340 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45411297 AATATGTGCA
45411307 ACAAAA-TAAAAAAAATC
1 ACAAAAGTAAAAAAAATC
*
45411324 ACAAAAGTAAGAAAAAT
1 ACAAAAGTAAAAAAAAT
45411341 GAGTAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.12
Consensus pattern (18 bp):
ACAAAAGTAAAAAAAATC
Found at i:45422517 original size:63 final size:63
Alignment explanation
Indices: 45422445--45422574 Score: 251
Period size: 63 Copynumber: 2.1 Consensus size: 63
45422435 TAATGATTTG
*
45422445 ACAAGTGACAGGAATCAAAGGAATTTAGGTTTCCAAAGAAAATTGAATGGAAGAGTTGGGAGA
1 ACAAGTGACAAGAATCAAAGGAATTTAGGTTTCCAAAGAAAATTGAATGGAAGAGTTGGGAGA
45422508 ACAAGTGACAAGAATCAAAGGAATTTAGGTTTCCAAAGAAAATTGAATGGAAGAGTTGGGAGA
1 ACAAGTGACAAGAATCAAAGGAATTTAGGTTTCCAAAGAAAATTGAATGGAAGAGTTGGGAGA
45422571 ACAA
1 ACAA
45422575 AGGGATGGCA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.45, C:0.08, G:0.27, T:0.20
Consensus pattern (63 bp):
ACAAGTGACAAGAATCAAAGGAATTTAGGTTTCCAAAGAAAATTGAATGGAAGAGTTGGGAGA
Found at i:45423969 original size:29 final size:29
Alignment explanation
Indices: 45423876--45423999 Score: 72
Period size: 29 Copynumber: 4.2 Consensus size: 29
45423866 GAAAGGAATG
* * *
45423876 CCTTTATGGGAAAACTCTAGACAGGAAAG
1 CCTTTATGGAAAAACTCTAAACAGGAAAT
* ** *
45423905 CCTTTGTGGAGAGTACTGGATATAA-AGG-AAT
1 CCTTTATGGA-AAAACT--CTA-AACAGGAAAT
45423936 ACCTTTATGGAAAAACTCTAAACAGGAAAT
1 -CCTTTATGGAAAAACTCTAAACAGGAAAT
* * * * * *
45423966 CCTTTGTAGCACAACTCTAGAGAGGAAAT
1 CCTTTATGGAAAAACTCTAAACAGGAAAT
45423995 CCTTT
1 CCTTT
45424000 GCGATGAGTA
Statistics
Matches: 71, Mismatches: 17, Indels: 14
0.70 0.17 0.14
Matches are distributed among these distances:
28 2 0.03
29 41 0.58
30 7 0.10
31 6 0.08
32 14 0.20
33 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (29 bp):
CCTTTATGGAAAAACTCTAAACAGGAAAT
Found at i:45424024 original size:61 final size:60
Alignment explanation
Indices: 45423959--45424100 Score: 169
Period size: 61 Copynumber: 2.4 Consensus size: 60
45423949 AACTCTAAAC
* * *
45423959 AGGAAATCCTTTGTAGCACAACTCTAGAGAGGAAATCCTTTGCGATGAGTACTGGATATAA
1 AGGAAATCCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTG-GACGAGTACTGGATATAA
* * * *
45424020 AGG-AATACCTTTGTTGCACAAATCTAGATAGGAAAACCTTTGTACGAGTACTTGATATAA
1 AGGAAAT-CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGGACGAGTACTGGATATAA
** *
45424080 AGGAACGCCTTTGTGGCACAA
1 AGGAAATCCTTTGTAGCACAA
45424101 GGAAAAATCA
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
60 34 0.49
61 35 0.51
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (60 bp):
AGGAAATCCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGGACGAGTACTGGATATAA
Found at i:45424053 original size:90 final size:90
Alignment explanation
Indices: 45423888--45424063 Score: 239
Period size: 90 Copynumber: 2.0 Consensus size: 90
45423878 TTTATGGGAA
* *
45423888 AACTCTAGACAGGAAAGCCTTTGTGGAGAGTACTGGATATAAAGGAATACCTTTATGGAAAAACT
1 AACTCTAGACAGGAAAGCCTTTGTCGAGAGTACTGGATATAAAGGAATACCTTTATGCAAAAACT
*
45423953 CTAAACAGGAAATCCTTTGTAGCAC
66 CTAAACAGGAAAACCTTTGTAGCAC
* * * *
45423978 AACTCTAGAGAGGAAATCCTTTG-CGATGAGTACTGGATATAAAGGAATACCTTTGTTGCACAAA
1 AACTCTAGACAGGAAAGCCTTTGTCGA-GAGTACTGGATATAAAGGAATACCTTT-ATGCAAAAA
* *
45424042 -TCTAGATAGGAAAACCTTTGTA
64 CTCTAAACAGGAAAACCTTTGTA
45424064 CGAGTACTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
89 2 0.03
90 67 0.89
91 6 0.08
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (90 bp):
AACTCTAGACAGGAAAGCCTTTGTCGAGAGTACTGGATATAAAGGAATACCTTTATGCAAAAACT
CTAAACAGGAAAACCTTTGTAGCAC
Found at i:45424099 original size:60 final size:61
Alignment explanation
Indices: 45423966--45424100 Score: 173
Period size: 60 Copynumber: 2.2 Consensus size: 61
45423956 AACAGGAAAT
* * * *
45423966 CCTTTGTAGCACAACTCTAGAGAGGAAATCCTTTGCGATGAGTACTGGATATAAAGGAATA
1 CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGCGACGAGTACTGGATATAAAGGAACA
* * * * *
45424027 CCTTTGTTGCACAAATCTAGATAGGAAAACCTTTG-TACGAGTACTTGATATAAAGGAACG
1 CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGCGACGAGTACTGGATATAAAGGAACA
*
45424087 CCTTTGTGGCACAA
1 CCTTTGTAGCACAA
45424101 GGAAAAATCA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
60 33 0.52
61 31 0.48
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (61 bp):
CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGCGACGAGTACTGGATATAAAGGAACA
Found at i:45433490 original size:12 final size:12
Alignment explanation
Indices: 45433475--45433504 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45433465 AGCCACAAGC
45433475 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
45433487 CCGTGTGCTAGG
1 CCGTGTGCCAGG
45433499 CCGTGT
1 CCGTGT
45433505 AACTGCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:45436464 original size:23 final size:23
Alignment explanation
Indices: 45436438--45436485 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
45436428 TTCCCCTTGT
45436438 TAAGGTAAGATCTACATCTTACA
1 TAAGGTAAGATCTACATCTTACA
45436461 TAAGGTAAGATCTACATCTTACA
1 TAAGGTAAGATCTACATCTTACA
45436484 TA
1 TA
45436486 CTAAGCTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (23 bp):
TAAGGTAAGATCTACATCTTACA
Found at i:45439065 original size:50 final size:50
Alignment explanation
Indices: 45438961--45439153 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 50
45438951 GGTCATGAGA
* * * *
45438961 TCCCATGTAAGACCATGTTTGGGACATGGAATTGGCATCATTGAGACTACGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA-C--CGAGA-T--GAGAGG
* * *
45439017 TCTCATGTAAGGCCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
45439067 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGG
*
45439117 TCCCATGTAAGACCATGTCTAGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
45439154 GTACAGGAAA
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
50 78 0.68
52 1 0.01
53 4 0.03
55 1 0.01
56 31 0.27
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:45439454 original size:20 final size:20
Alignment explanation
Indices: 45439416--45439454 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45439406 TAAGCAAGCA
*
45439416 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
45439436 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
45439455 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:45445306 original size:15 final size:15
Alignment explanation
Indices: 45445286--45445314 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45445276 ATTAAATAAG
45445286 CTAAATTTTCTATTT
1 CTAAATTTTCTATTT
45445301 CTAAATTTTCTATT
1 CTAAATTTTCTATT
45445315 ATAGATCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (15 bp):
CTAAATTTTCTATTT
Found at i:45445704 original size:50 final size:50
Alignment explanation
Indices: 45445602--45445792 Score: 204
Period size: 50 Copynumber: 3.7 Consensus size: 50
45445592 GGTCATGAGA
*
45445602 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* *
45445658 TCTCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAG-GG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * **
45445707 CTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
45445758 TCCCATGTAAGACCATATCTGGGATAAGGCATTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
45445793 AAGTACAAGA
Statistics
Matches: 116, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.02
50 75 0.65
53 3 0.03
55 1 0.01
56 35 0.30
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:45446095 original size:20 final size:20
Alignment explanation
Indices: 45446057--45446095 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45446047 TAAGCAAGCA
*
45446057 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
45446077 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
45446096 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:45449409 original size:27 final size:27
Alignment explanation
Indices: 45449379--45449556 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
45449369 ATATCGAGTC
* * * *
45449379 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
45449406 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45449433 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45449461 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45449488 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45449515 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45449542 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45449557 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45449518 original size:82 final size:81
Alignment explanation
Indices: 45449400--45449555 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
45449390 TGCTATATAA
*
45449400 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45449465 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45449482 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45449546 CACTTAGTGC
65 CACTTAGTGC
45449556 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45457586 original size:27 final size:27
Alignment explanation
Indices: 45457556--45457733 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
45457546 ATATCGAGTC
* * * *
45457556 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
45457583 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45457610 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45457638 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45457665 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45457692 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45457719 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45457734 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45457695 original size:82 final size:81
Alignment explanation
Indices: 45457577--45457732 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
45457567 TGCTATATAA
*
45457577 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45457642 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45457659 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45457723 CACTTAGTGC
65 CACTTAGTGC
45457733 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45464240 original size:22 final size:23
Alignment explanation
Indices: 45464214--45464256 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
45464204 TATTTGGCCA
*
45464214 TGTGA-TATGACTTGGTTTTGGT
1 TGTGATTATGACTTGATTTTGGT
*
45464236 TGTGATTATGATTTGATTTTG
1 TGTGATTATGACTTGATTTTG
45464257 ACATACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.53
Consensus pattern (23 bp):
TGTGATTATGACTTGATTTTGGT
Found at i:45468376 original size:3 final size:3
Alignment explanation
Indices: 45468368--45468392 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45468358 GCTGAGCCGC
45468368 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
45468393 AATTGCCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:45469607 original size:21 final size:20
Alignment explanation
Indices: 45469583--45469651 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 20
45469573 TTTTTAGAGT
45469583 TTTATATGATATATTAAATTA
1 TTTATAT-ATATATTAAATTA
* *
45469604 TTTAAATAT-TATTTATCATTATA
1 TTTATATATATA-TTA--AAT-TA
45469627 TTTAATATATATATTAAATTA
1 TTT-ATATATATATTAAATTA
45469648 TTTA
1 TTTA
45469652 CATTTCATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
19 2 0.05
20 6 0.16
21 11 0.29
22 4 0.11
23 5 0.13
24 8 0.21
25 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (20 bp):
TTTATATATATATTAAATTA
Found at i:45469612 original size:23 final size:22
Alignment explanation
Indices: 45469586--45469651 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
45469576 TTAGAGTTTT
45469586 ATATGATATATTAAATTATTTAA
1 ATAT-ATATATTAAATTATTTAA
* *
45469609 ATAT-TAT-TTATCATTATATTTA
1 ATATATATATTA-AATTAT-TTAA
45469631 ATATATATATTAAATTATTTA
1 ATATATATATTAAATTATTTA
45469652 CATTTCATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
20 3 0.09
21 8 0.23
22 9 0.26
23 12 0.34
24 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATATATATTAAATTATTTAA
Found at i:45472803 original size:30 final size:29
Alignment explanation
Indices: 45472753--45472813 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
45472743 AAAACTTTTT
45472753 ATTTTCCCCAAAAATTTTAC-TCCCTCCC
1 ATTTTCCCCAAAAATTTTACTTCCCTCCC
*
45472781 ATTTTCCCCTTAAAACTTTTACTTCCCTCCC
1 ATTTTCCCC--AAAAATTTTACTTCCCTCCC
45472812 AT
1 AT
45472814 CCCACCCCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 9 0.31
30 10 0.34
31 10 0.34
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.39
Consensus pattern (29 bp):
ATTTTCCCCAAAAATTTTACTTCCCTCCC
Found at i:45474567 original size:43 final size:42
Alignment explanation
Indices: 45474431--45474579 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 42
45474421 TGTGATATCG
* * *
45474431 TGTAAGACCACGTTTGGGAC-GTTGGCATCGACTTTTGTTTTACA
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGA-TTTTG-ATTACA
* * * *
45474475 TGTAAGACCATGTCTGGGACA-TCGGTATCG-TATCTGATTTCG
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGAT-TTTGATTACA
* *
45474517 TATAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGAT-TTTGATTACA
45474560 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
45474580 GTTGACATTG
Statistics
Matches: 84, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
42 29 0.35
43 31 0.37
44 24 0.29
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATTTTGATTACA
Found at i:45474577 original size:85 final size:86
Alignment explanation
Indices: 45474423--45474579 Score: 223
Period size: 86 Copynumber: 1.8 Consensus size: 86
45474413 TTCCGATATG
* * *
45474423 TGATATCGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTTTGTTTTACATGTAAGACCATGT
1 TGATATCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
45474488 CTGGGACATCGGTATCGTATC
66 CTGGGACATCGGTATCGTATC
*
45474509 TGATTTCGTATAAGACC-CTGTCTGGGACAG-TGGCATCGA-TGTTTG-ATTACATGTAAGACCA
1 TGATATCGTATAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TTTGTATTACATGTAAGACCA
45474570 TGTCTGGGAC
63 TGTCTGGGAC
45474580 GTTGACATTG
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
85 27 0.42
86 36 0.56
87 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (86 bp):
TGATATCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
CTGGGACATCGGTATCGTATC
Found at i:45474602 original size:86 final size:86
Alignment explanation
Indices: 45474423--45474595 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 86
45474413 TTCCGATATG
* * * *
45474423 TGATATCGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTTTGTTTTACATGTAAGACCATGT
1 TGATTTCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
** *
45474488 CTGGGACATCGGTATCGTATC
66 CTGGGACATCGACATCGTATA
45474509 TGATTTCGTATAAGACC-CTGTCTGGGACAG-TGGCATCGA-TGTTTG-ATTACATGTAAGACCA
1 TGATTTCGTATAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TTTGTATTACATGTAAGACCA
* * *
45474570 TGTCTGGGACGTTGACATTGTATA
63 TGTCTGGGACATCGACATCGTATA
45474594 TG
1 TG
45474596 CTTTTCGAGC
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
85 37 0.50
86 36 0.49
87 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (86 bp):
TGATTTCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
CTGGGACATCGACATCGTATA
Found at i:45475142 original size:25 final size:24
Alignment explanation
Indices: 45475102--45475148 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
45475092 TTCTTTCCAC
45475102 TTTCTTTCTATTTCTTTATTATGT
1 TTTCTTTCTATTTCTTTATTATGT
*
45475126 TTTCATTT-TATTATCTTTGTTAT
1 TTTC-TTTCTATT-TCTTTATTAT
45475149 TATTATCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTCTTTCTATTTCTTTATTATGT
Found at i:45479710 original size:30 final size:30
Alignment explanation
Indices: 45479667--45479739 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
45479657 TCACAAATGA
* * * *
45479667 CACACGGCCGTGTTGCTAGGCTGTGTGTCT
1 CACACGACCGTGTTGCCAAGCTGTATGTCT
* *
45479697 CACACGACTGTGTTGCCAAGTTGTATGTCT
1 CACACGACCGTGTTGCCAAGCTGTATGTCT
*
45479727 CACACGGCCGTGT
1 CACACGACCGTGT
45479740 GACAGCTTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (30 bp):
CACACGACCGTGTTGCCAAGCTGTATGTCT
Found at i:45481672 original size:29 final size:29
Alignment explanation
Indices: 45481640--45481697 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
45481630 CTTTACTTAA
45481640 TTTTCTTTTAATTGTTTATTTATCATTTT
1 TTTTCTTTTAATTGTTTATTTATCATTTT
45481669 TTTTCTTTTAATTGTTTATTTATCATTTT
1 TTTTCTTTTAATTGTTTATTTATCATTTT
45481698 AACCTTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (29 bp):
TTTTCTTTTAATTGTTTATTTATCATTTT
Found at i:45483365 original size:43 final size:43
Alignment explanation
Indices: 45483304--45483390 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
45483294 AAGAGTAGAT
* *
45483304 CTTGCATAATTGAATGGAGT-TACCTGTAATCCTAGAAATAGGA
1 CTTGCATAATTGAATGGAGTCT-CATGAAATCCTAGAAATAGGA
*
45483347 CTTGCGTAATTGAATGGAGTCTCATGAAATCCTAGAAATAGGA
1 CTTGCATAATTGAATGGAGTCTCATGAAATCCTAGAAATAGGA
45483390 C
1 C
45483391 GACATAAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 39 0.98
44 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (43 bp):
CTTGCATAATTGAATGGAGTCTCATGAAATCCTAGAAATAGGA
Found at i:45501998 original size:19 final size:20
Alignment explanation
Indices: 45501961--45502017 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
45501951 ATTTTTAAAA
*
45501961 AAAATATATTTTTAA-TTTT-
1 AAAAT-TATTTTGAATTTTTG
45501980 AAAATTATTTTGAATTTTTG
1 AAAATTATTTTGAATTTTTG
45502000 AAAATTATTTTG-ATTTTT
1 AAAATTATTTTGAATTTTT
45502018 TTTTGTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 8 0.23
19 15 0.43
20 12 0.34
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
AAAATTATTTTGAATTTTTG
Found at i:45502438 original size:23 final size:23
Alignment explanation
Indices: 45502410--45502467 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
45502400 AAGAGGTTTG
*
45502410 AAAAAAT-TAAAAGAAT-ATTTAA
1 AAAAAATATAAAA-AATCATTCAA
45502432 AATAAAATATAAAAAATCATTCAA
1 AA-AAAATATAAAAAATCATTCAA
*
45502456 AAAAAATCTAAA
1 AAAAAATATAAA
45502468 TCCAAATGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 2 0.06
23 17 0.55
24 12 0.39
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAAAATATAAAAAATCATTCAA
Found at i:45507092 original size:20 final size:19
Alignment explanation
Indices: 45507028--45507094 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
45507018 TTGCAACTAA
* *
45507028 AATGAGCTAAAATAAGTTG
1 AATGAGCTAAAATGAGCTG
45507047 AATGAGCTAGAAATGAGCTTG
1 AATGAGCTA-AAATGAGC-TG
*
45507068 -TTGAGCTAAAACTGAGCTG
1 AATGAGCTAAAA-TGAGCTG
45507087 AATGAGCT
1 AATGAGCT
45507095 TGAAGGCAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 14 0.35
20 24 0.60
21 2 0.05
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.25
Consensus pattern (19 bp):
AATGAGCTAAAATGAGCTG
Found at i:45510945 original size:27 final size:27
Alignment explanation
Indices: 45510915--45511092 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45510905 ATATTGAGTC
* * * *
45510915 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45510942 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45510969 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45510997 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45511024 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45511051 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45511078 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45511093 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45511054 original size:82 final size:81
Alignment explanation
Indices: 45510936--45511091 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45510926 TGCTATATAA
* *
45510936 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45511001 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45511018 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45511082 CACTTAGTGC
65 CACTTAGTGC
45511092 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45525040 original size:16 final size:16
Alignment explanation
Indices: 45524996--45525034 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
45524986 AAGACGGTCC
45524996 AATTTATAA-AT-ATT
1 AATTTATAATATAATT
45525010 AATTTATAATATAATT
1 AATTTATAATATAATT
45525026 AATTT-TAAT
1 AATTTATAAT
45525035 TTTAATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.39
15 6 0.26
16 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTATAATATAATT
Found at i:45528633 original size:56 final size:53
Alignment explanation
Indices: 45528567--45528809 Score: 182
Period size: 50 Copynumber: 4.7 Consensus size: 53
45528557 AGGAATGAGA
* **
45528567 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGTTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATTACCGAG---ATGAGAGG
* *
45528623 TCCCACGTAAGACCACGTCTGGGACATGGCACTGGC---ACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATTACCGAGATGAGAGG
* * * **
45528673 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATT---GATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATTACCGAGATGAGAGG
** * * * * * * **
45528723 TCTTATGTAAGACCATATCTGGGATATGGCATTGGTAGTA-C-AG--GAAACA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATTACCGAGATGAGAGG
* * *
45528772 TCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCAT
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAT
45528810 GTTATTATCA
Statistics
Matches: 149, Mismatches: 33, Indels: 17
0.75 0.17 0.09
Matches are distributed among these distances:
49 33 0.22
50 78 0.52
51 1 0.01
53 4 0.03
56 33 0.22
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (53 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATTACCGAGATGAGAGG
Found at i:45529320 original size:22 final size:24
Alignment explanation
Indices: 45529277--45529324 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
45529267 CATGTATAGG
45529277 GACTTAGTCATTTTGTGTGTGTGT
1 GACTTAGTCATTTTGTGTGTGTGT
45529301 GACTTAGTCATTTTGTGTGTGTGT
1 GACTTAGTCATTTTGTGTGTGTGT
45529325 CTTATGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.08, G:0.29, T:0.50
Consensus pattern (24 bp):
GACTTAGTCATTTTGTGTGTGTGT
Found at i:45537612 original size:2 final size:2
Alignment explanation
Indices: 45537605--45537633 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45537595 CGAACATTGT
45537605 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 T
45537634 TAAACAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45547518 original size:2 final size:2
Alignment explanation
Indices: 45547511--45547554 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
45547501 GAAACTTGAT
* *
45547511 TC TC TC TC TC AC TC TC TC TC TC TC TC TC TC TC TC TA TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
45547553 TC
1 TC
45547555 ACACACACAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.05, C:0.48, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:45552772 original size:6 final size:6
Alignment explanation
Indices: 45552763--45552839 Score: 82
Period size: 6 Copynumber: 12.8 Consensus size: 6
45552753 TAAAAAGAAC
* ** * * *
45552763 TAAAAA TAAAAA TGAACT TAAAAA TAAAAA TACAAA TACAAA TACAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
* *
45552811 TACAAA TACAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
45552840 GGAAAACAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.73, C:0.08, G:0.01, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:45552786 original size:18 final size:17
Alignment explanation
Indices: 45552751--45552793 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 17
45552741 AGAAAATAAC
45552751 AATAAAAA-GAACTAAA
1 AATAAAAATGAACTAAA
45552767 AATAAAAATGAACTTAAA
1 AATAAAAATGAAC-TAAA
45552785 AATAAAAAT
1 AATAAAAAT
45552794 ACAAATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 8 0.32
17 4 0.16
18 13 0.52
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (17 bp):
AATAAAAATGAACTAAA
Found at i:45554582 original size:5 final size:5
Alignment explanation
Indices: 45554534--45554600 Score: 66
Period size: 5 Copynumber: 13.0 Consensus size: 5
45554524 CTAGAGAAAG
* *
45554534 AAAAT AATAAT AACAA- AGAAT AATAAT AACAT ACAAAT -AAAT AAAAT
1 AAAAT AA-AAT AA-AAT AAAAT AA-AAT AAAAT A-AAAT AAAAT AAAAT
45554581 AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT
45554601 CAAGCAAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
4 6 0.12
5 31 0.60
6 15 0.29
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:45560883 original size:12 final size:12
Alignment explanation
Indices: 45560866--45560895 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
45560856 GCTGGGCTTG
45560866 TCTTAAGGTGTT
1 TCTTAAGGTGTT
45560878 TCTTAAGGTGTT
1 TCTTAAGGTGTT
45560890 TCTTAA
1 TCTTAA
45560896 ATCTGTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (12 bp):
TCTTAAGGTGTT
Found at i:45566259 original size:43 final size:43
Alignment explanation
Indices: 45566019--45566314 Score: 296
Period size: 43 Copynumber: 6.9 Consensus size: 43
45566009 GTTTATAGAA
* * * *
45566019 ACAAACGTCGCTAAAGATCAAGACCTTTAGCGACACTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * * * *
45566062 ACAAACGACGCTAAAGACCATGAACTTTAGCAGCACTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * * **
45566105 ACAAACGCCGCAAAAGACCAAGATCATTAGCGGCGCTTTTCTA
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* *
45566148 ACAAACGCCGCTAAAGACCAAGAACATTAGCGGCGC-TTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
*
45566190 ACAAACGCCGCTAAAGA-CAATGACCTTTAGCGGCGCTTTCCCC
1 ACAAACGCCGCTAAAGACCAA-GACCTTTAGCGGCGCTTTTCCC
* * **
45566233 ACAAACGCCGCTAAAGACTATA-ACCTTTAGTGGC-CTTTTTTTGTC
1 ACAAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGC---TTTTCCC
* * *
45566278 ACAAACGCCGCTATAGATCAA-ACCTTTAGCGACGCTT
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT
45566315 CTCGCAAAAA
Statistics
Matches: 213, Mismatches: 32, Indels: 17
0.81 0.12 0.06
Matches are distributed among these distances:
41 3 0.01
42 37 0.17
43 138 0.65
44 12 0.06
45 23 0.11
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
Found at i:45566702 original size:43 final size:42
Alignment explanation
Indices: 45566637--45566726 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 42
45566627 CATATGCAAG
* *
45566637 GTAATAAAACATACAATGCATTT-TCTTAATCAAGTAAATCTT
1 GTAATAAAACATACAATACATTTAT-TTAATCAAGGAAATCTT
* *
45566679 GATAATAAAAGATATAATACATTTATTTAATCAAGGAAATCTT
1 G-TAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
45566722 GTAAT
1 GTAAT
45566727 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 5 0.12
43 36 0.86
44 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.36
Consensus pattern (42 bp):
GTAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
Found at i:45567771 original size:25 final size:26
Alignment explanation
Indices: 45567743--45567797 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
45567733 CCAACAGTTG
45567743 ATAAAACCAATA-ATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
* **
45567768 AT-AACCCCTTACATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
45567793 ATAAA
1 ATAAA
45567798 TCAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.24
25 17 0.68
26 2 0.08
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (26 bp):
ATAAAACCAATACATATGATCAAATT
Found at i:45571233 original size:34 final size:34
Alignment explanation
Indices: 45571193--45571260 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
45571183 TTTTAAAGTA
45571193 AAATTATTTTTTGTGGTGTTTTTTATAAAAACGC
1 AAATTATTTTTTGTGGTGTTTTTTATAAAAACGC
45571227 AAATTATTTTTTGTGGTGTTTTTTATAAAAACGC
1 AAATTATTTTTTGTGGTGTTTTTTATAAAAACGC
45571261 CGCTATTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (34 bp):
AAATTATTTTTTGTGGTGTTTTTTATAAAAACGC
Found at i:45572138 original size:14 final size:15
Alignment explanation
Indices: 45572119--45572147 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45572109 ATCACTAATT
45572119 CTTAACCCC-AAACC
1 CTTAACCCCTAAACC
45572133 CTTAACCCCTAAACC
1 CTTAACCCCTAAACC
45572148 TTATTTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.17
Consensus pattern (15 bp):
CTTAACCCCTAAACC
Found at i:45572261 original size:33 final size:33
Alignment explanation
Indices: 45572190--45572261 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
45572180 AATCTAAATT
* *
45572190 CTAAACCCTAAACCGACCCAGAATCCTTAATCC
1 CTAAACCCTAAACCGACCCAGAATCCCTAACCC
* * *
45572223 TTAAACCCTAACCCGACCCAGAATCCCTAGCCC
1 CTAAACCCTAAACCGACCCAGAATCCCTAACCC
45572256 CTAAAC
1 CTAAAC
45572262 ATTATTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.42, G:0.07, T:0.17
Consensus pattern (33 bp):
CTAAACCCTAAACCGACCCAGAATCCCTAACCC
Found at i:45572921 original size:22 final size:22
Alignment explanation
Indices: 45572893--45572936 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
45572883 TAAAGTAGTT
45572893 TAAATAAACTGTGATTGAAAAA
1 TAAATAAACTGTGATTGAAAAA
45572915 TAAATAAACTGTGATTGAAAAA
1 TAAATAAACTGTGATTGAAAAA
45572937 CAATAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.27
Consensus pattern (22 bp):
TAAATAAACTGTGATTGAAAAA
Found at i:45573263 original size:41 final size:41
Alignment explanation
Indices: 45573154--45573515 Score: 424
Period size: 41 Copynumber: 8.9 Consensus size: 41
45573144 TTTTTTATTT
* ** *
45573154 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGG-TAGAGTA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCA
* ** ***
45573194 TTAGCGACGCTT-TTGGAAAACGCCGCTAAAGATTCGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCA
* *** *
45573234 TTAGCGGCGCTTCTTCAAAAACGCTGCTAAAGATTCAAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCA
*
45573275 TTAGCAGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA-CAA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC-A
* *
45573316 TTAGCGGTGCTTCTTCAAAAACGTCGCTAAAGGCCCGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCA
* * *
45573357 CTAGCGGTGCTTCTTCGAAAACGCCGCTAAAGGCCCGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCA
* **
45573398 TTAGCGGCGCTTATTTGAAAACGCCGCTAAAGGCCCGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCA
* * * *
45573439 TTAGCGGCACTTTTTTAAAAACGCCGCTAAAGGCCAGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCA
* *
45573480 TTAGCGGCGCTTCTTCAAAAACGCTGCTAAATGCCC
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
45573516 CAAAAACTCA
Statistics
Matches: 281, Mismatches: 37, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
39 17 0.06
40 28 0.10
41 235 0.84
42 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCA
Found at i:45573641 original size:40 final size:39
Alignment explanation
Indices: 45573551--45573645 Score: 122
Period size: 39 Copynumber: 2.4 Consensus size: 39
45573541 GGGCTTAGGC
* *
45573551 TTTTT-GCGGCGCTTTTCA-AAAAACGCCGCTAATGCTTA
1 TTTTTAGCGGCG-TTTTTATAAAAACGCCGCTAATGCTGA
*
45573589 TTTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTATAAAAACGCCGCTAATGCT-GA
*
45573629 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
45573646 TGTCCAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 10 0.20
39 23 0.46
40 17 0.34
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTATAAAAACGCCGCTAATGCTGA
Found at i:45585602 original size:50 final size:49
Alignment explanation
Indices: 45585542--45585652 Score: 152
Period size: 50 Copynumber: 2.2 Consensus size: 49
45585532 ATCATAGATG
**
45585542 TGGTCTTACATGGGAGTTCTCATATCGATGCCCATAC-CATGTCCTAGACA
1 TGGTCTTACATGGGACCTCTCATATCGATG-CCA-ACGCATGTCCTAGACA
* *
45585592 TGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGTCATGTCCTAGACA
1 TGGTCTTACATGGGACCTCTCATATCGATGCCAACG-CATGTCCTAGACA
45585642 TGGTCTTACAT
1 TGGTCTTACAT
45585653 CCCAGACATG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
48 2 0.04
49 3 0.05
50 50 0.91
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (49 bp):
TGGTCTTACATGGGACCTCTCATATCGATGCCAACGCATGTCCTAGACA
Found at i:45585764 original size:50 final size:50
Alignment explanation
Indices: 45585688--45586063 Score: 523
Period size: 50 Copynumber: 7.7 Consensus size: 50
45585678 TTTCTTGTAC
* * * * ** *
45585688 TGCCAATGCCATATCACAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** * *
45585738 TGCCCATGCCATGTCCCAGGCATGGTCTTACGGGGGACCTCTCATCCCCG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
45585788 TGCTAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
45585838 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
45585888 TGCCAACGTCATGTTCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
45585938 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
45585988 TGCCAACGCCA------A-ACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
45586031 TGCCAACGCCATGTCCCAGACATGGTCTTACAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAT
45586064 TAGCTCACAT
Statistics
Matches: 290, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
43 42 0.14
44 1 0.00
49 1 0.00
50 246 0.85
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:45585768 original size:168 final size:168
Alignment explanation
Indices: 45585484--45585820 Score: 521
Period size: 168 Copynumber: 2.0 Consensus size: 168
45585474 CAAAGTCATG
* * *
45585484 TCCCAAACATGGTCTTACATGAGATTTTTCCTGTACTACCAATGCCATATCATAGATGTGGTCTT
1 TCCCAAACATGGTCTTACATGAGATGTTTCCTGTACTACCAATGCCATATCACAGATATGGTCTT
* *
45585549 ACATGGGAGTTCTCATATCGATGCCCATACCATGTCCTAGACATGGTCTTACATGGGACCTCTCA
66 ACATGGGAGTTCTCATATCGATGCCCATACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCA
* * * *
45585614 TCTCGGTGCCAACGTCATGTCCTAGACATGGTCTTACA
131 TCCCCGTGCCAACGCCATGTCCCAGACATGGTCTTACA
* * *
45585652 TCCCAGACATGGTCTTACATGAGATGTTTCTTGTACTGCCAATGCCATATCACAGATATGGTCTT
1 TCCCAAACATGGTCTTACATGAGATGTTTCCTGTACTACCAATGCCATATCACAGATATGGTCTT
* * * *
45585717 ACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGGCATGGTCTTACGGGGGACCTCTCA
66 ACATGGGAGTTCTCATATCGATGCCCATACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCA
*
45585782 TCCCCGTGCTAACGCCATGTCCCAGACATGGTCTTACA
131 TCCCCGTGCCAACGCCATGTCCCAGACATGGTCTTACA
45585820 T
1 T
45585821 GAGACCTCTC
Statistics
Matches: 152, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
168 152 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (168 bp):
TCCCAAACATGGTCTTACATGAGATGTTTCCTGTACTACCAATGCCATATCACAGATATGGTCTT
ACATGGGAGTTCTCATATCGATGCCCATACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCA
TCCCCGTGCCAACGCCATGTCCCAGACATGGTCTTACA
Found at i:45586018 original size:43 final size:43
Alignment explanation
Indices: 45585957--45586041 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
45585947 CATGTCCCAG
45585957 ACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCAA
1 ACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCAA
45586000 ACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCA
1 ACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCA
45586042 TGTCCCAGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.24
Consensus pattern (43 bp):
ACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCAA
Found at i:45597561 original size:23 final size:22
Alignment explanation
Indices: 45597535--45597578 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
45597525 TGAAATATAT
*
45597535 AATAAAAAAATAAAAGAAGAAGA
1 AATAAAAAAACAAAAG-AGAAGA
* *
45597558 AATAGAAGAACAAAAGAGAAG
1 AATAAAAAAACAAAAGAGAAG
45597579 GCATTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (22 bp):
AATAAAAAAACAAAAGAGAAGA
Found at i:45600838 original size:51 final size:51
Alignment explanation
Indices: 45600775--45600883 Score: 209
Period size: 51 Copynumber: 2.1 Consensus size: 51
45600765 AATCAGCAGT
45600775 ATCCTATAAAACTCGATAGTATGGTAGAAAAAAAATATGAATCTTTCTACC
1 ATCCTATAAAACTCGATAGTATGGTAGAAAAAAAATATGAATCTTTCTACC
45600826 ATCCTATAAAACTCGATAGTATGGTAGAAAAAAAATATGAATCTTTCTACC
1 ATCCTATAAAACTCGATAGTATGGTAGAAAAAAAATATGAATCTTTCTACC
*
45600877 ATACTAT
1 ATCCTAT
45600884 CTATATCTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (51 bp):
ATCCTATAAAACTCGATAGTATGGTAGAAAAAAAATATGAATCTTTCTACC
Found at i:45605879 original size:34 final size:34
Alignment explanation
Indices: 45605807--45605879 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
45605797 CATACTGCAC
* *
45605807 TGAAATGGGCTAAGGCCCAGACTGCCTCTATTAC
1 TGAAATGGGCTAAGGCCCAGACTGCATCTATTAA
* * *
45605841 TGAAATGGGCTCAGGCCTAGACTG-ATACTGTTAA
1 TGAAATGGGCTAAGGCCCAGACTGCAT-CTATTAA
45605875 TGAAA
1 TGAAA
45605880 AGGGGTTATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (34 bp):
TGAAATGGGCTAAGGCCCAGACTGCATCTATTAA
Done.