Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 165 of 221
Found at i:49524581 original size:3 final size:3
Alignment explanation
Indices: 49524573--49524610 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
49524563 ACCATATACA
49524573 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
49524611 ACTGATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49525834 original size:3 final size:3
Alignment explanation
Indices: 49525826--49525851 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49525816 AACTTAACAA
49525826 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
49525852 CAAATTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:49526290 original size:19 final size:18
Alignment explanation
Indices: 49526249--49526291 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
49526239 CAAATTTTAT
**
49526249 ATTTTTTTATTTTTGGTA
1 ATTTTTTTATTTTTAATA
49526267 ATTTTTATTATTTTTAATA
1 ATTTTT-TTATTTTTAATA
*
49526286 GTTTTT
1 ATTTTT
49526292 GGTAATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (18 bp):
ATTTTTTTATTTTTAATA
Found at i:49528333 original size:18 final size:18
Alignment explanation
Indices: 49528294--49528342 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
49528284 TAAGAACAAT
* *
49528294 AAAAATAAATAAACAACG
1 AAAAATAAATAAATAAAG
49528312 -AAAATAAATAAATAAAG
1 AAAAATAAATAAATAAAG
*
49528329 AAAAATAAACAAAT
1 AAAAATAAATAAAT
49528343 TAATTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (18 bp):
AAAAATAAATAAATAAAG
Found at i:49529644 original size:37 final size:37
Alignment explanation
Indices: 49529594--49529722 Score: 231
Period size: 37 Copynumber: 3.5 Consensus size: 37
49529584 TACTTGTCCC
*
49529594 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
49529631 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
* *
49529668 TGATCAGATAAGTGCAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
49529705 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
49529723 TAAAGCTATC
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 88 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
Found at i:49529739 original size:46 final size:46
Alignment explanation
Indices: 49529686--49529888 Score: 289
Period size: 46 Copynumber: 4.3 Consensus size: 46
49529676 TAAGTGCAGC
* * **
49529686 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
49529732 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
49529778 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
49529830 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
49529876 TACTTATCACTTT
1 CACTTATCACTTT
49529889 CCCAAAATTT
Statistics
Matches: 145, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
46 99 0.68
49 2 0.01
52 44 0.30
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:49529805 original size:52 final size:52
Alignment explanation
Indices: 49529729--49529888 Score: 242
Period size: 52 Copynumber: 3.2 Consensus size: 52
49529719 TAGCTAAAGC
* *
49529729 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
49529782 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
49529834 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
49529880 TATCACTTT
1 TATCACTTT
49529889 CCCAAAATTT
Statistics
Matches: 103, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
46 41 0.40
47 2 0.02
50 1 0.01
51 3 0.03
52 44 0.43
53 12 0.12
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:49529851 original size:98 final size:99
Alignment explanation
Indices: 49529686--49529888 Score: 327
Period size: 98 Copynumber: 2.1 Consensus size: 99
49529676 TAAGTGCAGC
* * * * * *
49529686 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
49529751 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
49529785 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
1 CACTTTTCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
49529849 TGATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
49529883 CACTTT
1 CACTTT
49529889 CCCAAAATTT
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
98 87 0.91
99 9 0.09
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (99 bp):
CACTTTTCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:49531465 original size:49 final size:49
Alignment explanation
Indices: 49531410--49531510 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
49531400 TTCGTTTTCT
* *
49531410 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* * *
49531459 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
49531508 CGA
1 CGA
49531511 AAGTACTCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:49532760 original size:37 final size:37
Alignment explanation
Indices: 49532699--49532844 Score: 226
Period size: 37 Copynumber: 4.0 Consensus size: 37
49532689 TACGTATGAT
* *
49532699 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
49532734 CA-TCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACT-TATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
49532771 CACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
49532808 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
49532845 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
34 1 0.01
35 8 0.08
36 3 0.03
37 89 0.87
38 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:49532861 original size:46 final size:46
Alignment explanation
Indices: 49532808--49533010 Score: 289
Period size: 46 Copynumber: 4.3 Consensus size: 46
49532798 TAAGTGCAGC
* * **
49532808 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
49532854 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
49532900 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
49532952 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
49532998 TACTTATCACTTT
1 CACTTATCACTTT
49533011 CCCAAAATTT
Statistics
Matches: 145, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
46 99 0.68
49 2 0.01
52 44 0.30
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:49532927 original size:52 final size:52
Alignment explanation
Indices: 49532851--49533010 Score: 242
Period size: 52 Copynumber: 3.2 Consensus size: 52
49532841 TAGCTAAAGC
* *
49532851 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
49532904 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
49532956 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
49533002 TATCACTTT
1 TATCACTTT
49533011 CCCAAAATTT
Statistics
Matches: 103, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
46 41 0.40
47 2 0.02
50 1 0.01
51 3 0.03
52 44 0.43
53 12 0.12
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:49532973 original size:98 final size:99
Alignment explanation
Indices: 49532808--49533010 Score: 327
Period size: 98 Copynumber: 2.1 Consensus size: 99
49532798 TAAGTGCAGC
* * * * * *
49532808 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
49532873 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
49532907 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
1 CACTTTTCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
49532971 TGATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
49533005 CACTTT
1 CACTTT
49533011 CCCAAAATTT
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
98 87 0.91
99 9 0.09
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (99 bp):
CACTTTTCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:49536767 original size:99 final size:99
Alignment explanation
Indices: 49536620--49536821 Score: 395
Period size: 99 Copynumber: 2.0 Consensus size: 99
49536610 TTCGGGTTTA
*
49536620 GGCTTGGGTAATGTATTTTGGGTTTGGTTATTTAATTTCTGGTATGTAATTAGGTGGTGTATTGG
1 GGCTTGGGTAATGTATTTTAGGTTTGGTTATTTAATTTCTGGTATGTAATTAGGTGGTGTATTGG
49536685 GCTGACTAGGTTGAGTATTAGGAAATTTGGGTTG
66 GCTGACTAGGTTGAGTATTAGGAAATTTGGGTTG
49536719 GGCTTGGGTAATGTATTTTAGGTTTGGTTATTTAATTTCTGGTATGTAATTAGGTGGTGTATTGG
1 GGCTTGGGTAATGTATTTTAGGTTTGGTTATTTAATTTCTGGTATGTAATTAGGTGGTGTATTGG
49536784 GCTGACTAGGTTGAGTATTAGGAAATTTGGGTTG
66 GCTGACTAGGTTGAGTATTAGGAAATTTGGGTTG
49536818 GGCT
1 GGCT
49536822 ATTTTAGGCC
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 102 1.00
ACGTcount: A:0.19, C:0.04, G:0.33, T:0.43
Consensus pattern (99 bp):
GGCTTGGGTAATGTATTTTAGGTTTGGTTATTTAATTTCTGGTATGTAATTAGGTGGTGTATTGG
GCTGACTAGGTTGAGTATTAGGAAATTTGGGTTG
Found at i:49537329 original size:100 final size:100
Alignment explanation
Indices: 49537165--49537858 Score: 899
Period size: 100 Copynumber: 6.9 Consensus size: 100
49537155 AGATTCGTCA
* * *
49537165 TTGTAGCTTCAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTTGCCGTTGTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT
* * * * *
49537230 GTTCTACTGCATCGCCTAGGATGTAAGATTAGCCG
66 GTTCCACTGCACCGCCTGGGAAGTAAGATTAGCTG
* * * * * *
49537265 TTGTAGATTCAATCTTTTTAATTGCAATGTCGGGGAAGCATGATTCGCCATTGTGGCTTCAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT
* * *
49537330 GTTCCACTACACCACCTCGGAAGTAAGATTCA-CTG
66 GTTCCACTGCACCGCCTGGGAAGTAAGATT-AGCTG
* * *
49537365 TTGTAGCTTTAATATTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAGTCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT
* *
49537430 GTTCCACCGCACCGTCTGGGAAGTAAGATTCA-CTG
66 GTTCCACTGCACCGCCTGGGAAGTAAGATT-AGCTG
* * * *
49537465 TTGTAGCTTTAATCTTTTCAACTGCAATGTCGAGGAAGCAAGATTAGCCATTGTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT
* * * *
49537530 GTTCCATTACACCGCCTGGAAAGTAAGATTCGCTG
66 GTTCCACTGCACCGCCTGGGAAGTAAGATTAGCTG
* * * **
49537565 TTGTAGCTTTAATTTTTTTAACTGCAATGTCGGCGAAGTAAGATTCGCTATTGTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT
* * * *
49537630 ATTCCACTGCATCGCCTGGGAAGTAAGATTCGTTG
66 GTTCCACTGCACCGCCTGGGAAGTAAGATTAGCTG
* * *
49537665 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGCTGTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT
* * *
49537730 GTTCCACTACACCGCATGGGAAGTAAGATTCGCTG
66 GTTCCACTGCACCGCCTGGGAAGTAAGATTAGCTG
* *
49537765 TTGTAGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT
* *
49537830 ATTCCACTGCACCGTCTGGG-AGATAAGAT
66 GTTCCACTGCACCGCCTGGGAAG-TAAGAT
49537859 CTGTGATTTT
Statistics
Matches: 515, Mismatches: 76, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
99 2 0.00
100 512 0.99
101 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (100 bp):
TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT
GTTCCACTGCACCGCCTGGGAAGTAAGATTAGCTG
Found at i:49537858 original size:50 final size:50
Alignment explanation
Indices: 49537150--49537858 Score: 465
Period size: 50 Copynumber: 14.2 Consensus size: 50
49537140 AACTTTTGGA
* * * * * *
49537150 AAGTAAGATTCGTCATTGTAGCTTCAATCTTTTTAACTGCAATGT-TGGGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCT-GGG
* * * * * * *
49537200 AAGCAAGATTTGCCGTTGTGGCTTTAATCTGTTCTACTGCATCGCCTAGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGGG
* * * * * * * * *
49537250 ATGTAAGATTAGCCGTTGTAGATTCAATCTTTTTAATTGCAATGTCGGGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGGG
* * * * * * * * ** *
49537300 AAGCATGATTCGCCATTGTGGCTTCAATCTGTTCCACTACACCACCTCGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGGG
* * * * * * *
49537350 AAGTAAGATTCACTGTTGTAGCTTTAATATTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGGG
* * * * * * *
49537400 AAGCAAGATTCACCGTTGTGGCTTTAGTCTGTTCCACCGCACCGTCTGGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGGG
* * * *
49537450 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTCAACTGCAATGTC-GAGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTG-GG
* * * * * * * * * *
49537500 AAGCAAGATTAGCCATTGTGGCTTTAATCTGTTCCATTACACCGCCTGGA
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGGG
* * * * *
49537550 AAGTAAGATTCGCTGTTGTAGCTTTAATTTTTTTAACTGCAATGTC-GGCG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGG-G
** * * * *
49537600 AAGTAAGATTCGCTATTGTGGCTTTAATCTATTCCACTGCATCGCCTGGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGGG
** * * * *
49537650 AAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGGG
** * * * * * *
49537700 AAACAAGATTCACCGCTGTGGCTTTAATCTGTTCCACTACACCG-CATGGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTC-TGGG
* * * * * *
49537750 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACAATGTCGGGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGGG
* * * * *
49537800 AAGCAAGATTCGCCGTTGTGGCTTCAATCTATTCCACTGCACCGTCTGGG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGGG
49537850 -AGATAAGAT
1 AAG-TAAGAT
49537859 CTGTGATTTT
Statistics
Matches: 480, Mismatches: 171, Indels: 16
0.72 0.26 0.02
Matches are distributed among these distances:
49 6 0.01
50 469 0.98
51 5 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (50 bp):
AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGCAACGTCTGGG
Found at i:49538090 original size:44 final size:44
Alignment explanation
Indices: 49538042--49538166 Score: 178
Period size: 44 Copynumber: 2.8 Consensus size: 44
49538032 ATCTGTGATT
* *
49538042 TTCAATCTATTCCACTGCTGCCCAAGGAGATAGAATTCACCATC
1 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCACAATC
* * * * * *
49538086 TTCAACCTATTCCACTACTGACCAGGGAAATAGGACTCACAATC
1 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCACAATC
49538130 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
1 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
49538167 GGTATCTTCG
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (44 bp):
TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCACAATC
Found at i:49538103 original size:88 final size:88
Alignment explanation
Indices: 49537847--49538161 Score: 243
Period size: 88 Copynumber: 3.6 Consensus size: 88
49537837 TGCACCGTCT
* * * * *
49537847 GGGAGATAAGATCT-GTGATTTTTAACCTATTCCACTGCTGACC-AGAGAGATAAGATTCACAAT
1 GGGAGATAAGA-CTAGTGATCTTCAATCTATTCCACTGCTGCCCAAG-GAGATAAGATTCACCAT
*
49537910 CTTCAACCTATTCCACTGCTGACCA
64 CTTCAACCTATTCCACTACTGACCA
* * * * * *** * *
49537935 GGGAGATAGGACTAGTG-GCTTAAATCTGCTTCC-CTACT-CCTGGGGAAGATAAGATTCGCCGT
1 GGGAGATAAGACTAGTGATCTTCAATCT-ATTCCACTGCTGCCCAAGG-AGATAAGATTCACCAT
** * ** *
49537997 CTTTGATCTGCTCCACTACTG-CTTA
64 CTTCAACCTATTCCACTACTGAC-CA
*
49538022 GGGAGATAAGATCT-GTGATTTTCAATCTATTCCACTGCTGCCCAAGGAGAT-AGAATTCACCAT
1 GGGAGATAAGA-CTAGTGATCTTCAATCTATTCCACTGCTGCCCAAGGAGATAAG-ATTCACCAT
49538085 CTTCAACCTATTCCACTACTGACCA
64 CTTCAACCTATTCCACTACTGACCA
* * ** *
49538110 GGGAAATAGGACTCA-CAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATA
1 GGGAGATAAGACT-AGTGATCTTCAATCTATTCCACTGCTGCCCAAGGAGATA
49538162 GAATTGGTAT
Statistics
Matches: 170, Mismatches: 43, Indels: 27
0.71 0.18 0.11
Matches are distributed among these distances:
86 3 0.02
87 63 0.37
88 99 0.58
89 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (88 bp):
GGGAGATAAGACTAGTGATCTTCAATCTATTCCACTGCTGCCCAAGGAGATAAGATTCACCATCT
TCAACCTATTCCACTACTGACCA
Found at i:49538219 original size:88 final size:89
Alignment explanation
Indices: 49538127--49538661 Score: 194
Period size: 88 Copynumber: 6.1 Consensus size: 89
49538117 AGGACTCACA
* * ** * *
49538127 ATCTTCAATCTATTCCACTGCTGCCCAGGGAG-ATAGAATTGGTATCTTCGATCTGCTTCGCTGT
1 ATCTTCAACCTACTCCACTGCAACCCAGGGAGCATAGAACTGGTATCTTCGATCTGCTTCACTGT
49538191 CTATGAAGGAATGCAAGATCTGCT
66 CTATGAAGGAATGCAAGATCTGCT
* * ** * *
49538215 ATCTTTAACCTGCTCTGCTGCAACCCAGGGAGGCA-AG-GCTGGTGTCTTCGATCTGCTTCACTG
1 ATCTTCAACCTACTCCACTGCAACCCAGGGA-GCATAGAACTGGTATCTTCGATCTGCTTCACTG
* * *
49538278 TC-A-GTATAGAAAGGCAAGATCTACT
65 TCTATG-A-AGGAATGCAAGATCTGCT
* * * * * **
49538303 ATTTTCAACCTACTCTACTGCAAACCAGAGAGGCA-AG-GCTGAAATCTTCGATCTGCTTCACTA
1 ATCTTCAACCTACTCCACTGCAACCCAGGGA-GCATAGAACTGGTATCTTCGATCTGCTTCACT-
* *
49538366 CTGCT-T-AGGGAGAT--AAGATCTG-T
64 GT-CTATGAAGGA-ATGCAAGATCTGCT
* ** * * ** ** * *** * *
49538389 AATTTTCAATATATTCCATTGCTGCCCAGGGAGTTTAGAATTCACCATCTTC-AACAT-ATTCCA
1 -ATCTTCAACCTACTCCACTGCAACCCAGGGAGCATAGAACT-GGTATCTTCGATC-TGCTT-CA
** * * * *
49538452 CTG-CTGACCAGGGAAAT--AGGA-CTCACA
62 CTGTCT-ATGAAGG-AATGCAAGATCT-GCT
* * ** * * **
49538479 ATCTTCAATCTATTCCACTGCTGCCCAGGGAG-ATAAAATTGGTATCTTCGATCTGCTTTGCTGT
1 ATCTTCAACCTACTCCACTGCAACCCAGGGAGCATAGAACTGGTATCTTCGATCTGCTTCACTGT
* *
49538543 CAATGCAGGAATGCAAGATCTGCT
66 CTATGAAGGAATGCAAGATCTGCT
* * * * * * * *
49538567 ATCTTCAACCTGCTCCACTGCAACCAATGGAG-GTA-AGGCTGGTGTCCTCGATCTGCTTCGCTG
1 ATCTTCAACCTACTCCACTGCAACCCAGGGAGCATAGA-ACTGGTATCTTCGATCTGCTTCACTG
* * *
49538630 TCAATGTAGGAAGGCAAGATCTGCT
65 TCTATGAAGGAATGCAAGATCTGCT
49538655 ATCTTCA
1 ATCTTCA
49538662 CTGATCTGTT
Statistics
Matches: 332, Mismatches: 87, Indels: 56
0.70 0.18 0.12
Matches are distributed among these distances:
86 8 0.02
87 47 0.14
88 217 0.65
89 57 0.17
90 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (89 bp):
ATCTTCAACCTACTCCACTGCAACCCAGGGAGCATAGAACTGGTATCTTCGATCTGCTTCACTGT
CTATGAAGGAATGCAAGATCTGCT
Found at i:49538496 original size:44 final size:45
Alignment explanation
Indices: 49538393--49538511 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 45
49538383 ATCTGTAATT
* * ** * *
49538393 TTCAATATATTCCATTGCTGCCCAGGGAGTTTAGAATTCACCATC
1 TTCAATCTATTCCACTGCTGCCCAGGGAGAATAGAACTCACAATC
* *
49538438 TTCAA-CATATTCCACTGCTGACCAGGGA-AATAGGACTCACAATC
1 TTCAATC-TATTCCACTGCTGCCCAGGGAGAATAGAACTCACAATC
49538482 TTCAATCTATTCCACTGCTGCCCAGGGAGA
1 TTCAATCTATTCCACTGCTGCCCAGGGAGA
49538512 TAAAATTGGT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
44 36 0.58
45 26 0.42
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (45 bp):
TTCAATCTATTCCACTGCTGCCCAGGGAGAATAGAACTCACAATC
Found at i:49538502 original size:352 final size:351
Alignment explanation
Indices: 49537996--49538661 Score: 1089
Period size: 352 Copynumber: 1.9 Consensus size: 351
49537986 AGATTCGCCG
* * *
49537996 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATTTTCAATCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATATATTCCACTGCT
*
49538061 GCCCAAGGAGATAGAATTCACCATCTTCAACCTATTCCACTACTGACCAGGGAAATAGGACTCAC
66 GCCCAAGGAGATAGAATTCACCATCTTCAACATATTCCACTACTGACCAGGGAAATAGGACTCAC
*
49538126 AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTGGTATCTTCGATCTGCTTCGCTGT
131 AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAAAATTGGTATCTTCGATCTGCTTCGCTGT
* * ** *
49538191 CTATGAAGGAATGCAAGATCTGCTATCTTTAACCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTG
196 CAATGAAGGAATGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCAAGGGAGGCAAGGCTG
* * *
49538256 GTGTCTTCGATCTGCTTCACTGTCAGTATAGAAAGGCAAGATCTACTATTTTCAACCTACTCTAC
261 GTGTCCTCGATCTGCTTCACTGTCAATATAGAAAGGCAAGATCTACTATCTTCAACCTACTCTAC
49538321 TGCAAACCAGAGAGGCAAGGCTGAAA
326 TGCAAACCAGAGAGGCAAGGCTGAAA
* *
49538347 TCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATATATTCCATTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATATATTCCACTGCT
* * *
49538412 GCCCAGGGAGTTTAGAATTCACCATCTTCAACATATTCCACTGCTGACCAGGGAAATAGGACTCA
66 GCCCAAGGAG-ATAGAATTCACCATCTTCAACATATTCCACTACTGACCAGGGAAATAGGACTCA
*
49538477 CAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAAAATTGGTATCTTCGATCTGCTTTGCTG
130 CAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAAAATTGGTATCTTCGATCTGCTTCGCTG
* * *
49538542 TCAATGCAGGAATGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCAATGGAGGTAAGGCT
195 TCAATGAAGGAATGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCAAGGGAGGCAAGGCT
* * * *
49538607 GGTGTCCTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGCTATCTTCA
260 GGTGTCCTCGATCTGCTTCACTGTCAATATAGAAAGGCAAGATCTACTATCTTCA
49538662 CTGATCTGTT
Statistics
Matches: 288, Mismatches: 26, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
351 69 0.24
352 219 0.76
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (351 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATATATTCCACTGCT
GCCCAAGGAGATAGAATTCACCATCTTCAACATATTCCACTACTGACCAGGGAAATAGGACTCAC
AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAAAATTGGTATCTTCGATCTGCTTCGCTGT
CAATGAAGGAATGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCAAGGGAGGCAAGGCTG
GTGTCCTCGATCTGCTTCACTGTCAATATAGAAAGGCAAGATCTACTATCTTCAACCTACTCTAC
TGCAAACCAGAGAGGCAAGGCTGAAA
Found at i:49540658 original size:26 final size:26
Alignment explanation
Indices: 49540588--49540666 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
49540578 TTTTTTTTTA
*
49540588 TAATTATTTTAAAATTAATTTGTTAG
1 TAATTATTTTAAAATTAATTTATTAG
*
49540614 T-A--A-TTTAATATT-ATGTTA-TATG
1 TAATTATTTTAAAATTAAT-TTATTA-G
49540636 TAATTATTTTAAAATTAATTTATTAG
1 TAATTATTTTAAAATTAATTTATTAG
49540662 TAATT
1 TAATT
49540667 TAGGATTATC
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
21 4 0.10
22 12 0.29
23 2 0.05
25 2 0.05
26 18 0.43
27 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.54
Consensus pattern (26 bp):
TAATTATTTTAAAATTAATTTATTAG
Found at i:49540675 original size:48 final size:48
Alignment explanation
Indices: 49540588--49540681 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
49540578 TTTTTTTTTA
* * *
49540588 TAATTATTTTAAAATTAATTTGTTAGTAATTTAATATTATGTTATATG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTATCTTATATG
*
49540636 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATCTTATA
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTATCTTATA
49540682 AATTATTGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.53
Consensus pattern (48 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTATCTTATATG
Found at i:49558582 original size:21 final size:20
Alignment explanation
Indices: 49558551--49558603 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
49558541 TTTACAAGTC
*
49558551 AAAAA-ATATAAAAAAGTCT
1 AAAAATATATAAAAAAATCT
*
49558570 AAAGAATATATAAAAAAATTT
1 AAA-AATATATAAAAAAATCT
49558591 AAAAATATA-AAAA
1 AAAAATATATAAAA
49558604 CCCCTAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 7 0.23
20 8 0.27
21 15 0.50
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (20 bp):
AAAAATATATAAAAAAATCT
Found at i:49562266 original size:12 final size:13
Alignment explanation
Indices: 49562248--49562285 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
49562238 ATCGTTTTCT
49562248 TTTTTTCTTTTTG
1 TTTTTTCTTTTTG
*
49562261 -TTTTTCTGTTTG
1 TTTTTTCTTTTTG
49562273 TTGTTTTCTTTTT
1 TT-TTTTCTTTTT
49562286 ATTCTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.00, C:0.08, G:0.11, T:0.82
Consensus pattern (13 bp):
TTTTTTCTTTTTG
Found at i:49563404 original size:26 final size:26
Alignment explanation
Indices: 49563375--49563437 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
49563365 ACATATTACT
49563375 TATTTTTAAATT-TTTT-TCATACATA
1 TATTTTTAAATTGTTTTGT-ATACATA
* *
49563400 GTATTTTAAAATTGTTTTGTATATATA
1 -TATTTTTAAATTGTTTTGTATACATA
49563427 TATTTTTAAAT
1 TATTTTTAAAT
49563438 ATTTCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 21 0.66
27 10 0.31
28 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (26 bp):
TATTTTTAAATTGTTTTGTATACATA
Found at i:49563433 original size:27 final size:27
Alignment explanation
Indices: 49563375--49563446 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
49563365 ACATATTACT
49563375 TATTTTT-AAATTTTTTTCATACATAG
1 TATTTTTAAAATTTTTTTCATACATAG
*
49563401 TA-TTTTAAAATTGTTTTGT-ATATATA-
1 TATTTTTAAAATT-TTTT-TCATACATAG
49563427 TATTTTTAAATATTTCTTTT
1 TATTTTTAAA-ATTT-TTTT
49563447 TTCACATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
25 4 0.10
26 9 0.23
27 19 0.49
28 7 0.18
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (27 bp):
TATTTTTAAAATTTTTTTCATACATAG
Found at i:49568686 original size:25 final size:24
Alignment explanation
Indices: 49568658--49568715 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
49568648 TATTATCAAG
* *
49568658 AATTTTATGAAATTATATATTATTA
1 AATTATATGAAATAATA-ATTATTA
*
49568683 AATTATATGTAATAATAATTATTTTA
1 AATTATATGAAATAATAATTA--TTA
49568709 AATTATA
1 AATTATA
49568716 CAAATTCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
AATTATATGAAATAATAATTATTA
Found at i:49568782 original size:47 final size:49
Alignment explanation
Indices: 49568658--49568783 Score: 114
Period size: 47 Copynumber: 2.6 Consensus size: 49
49568648 TATTATCAAG
* *
49568658 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATAATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* * *** * *
49568709 AATTATA-CAAATTCATGTAAGATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
49568756 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
49568784 AAATATATTT
Statistics
Matches: 57, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
47 32 0.56
48 6 0.11
49 4 0.07
50 4 0.07
51 11 0.19
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:49568911 original size:16 final size:16
Alignment explanation
Indices: 49568890--49568931 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
49568880 TTATTAAATT
*
49568890 ATATATTTTAATTATA
1 ATATATTTTAATAATA
49568906 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
49568921 AT-TATGTTTAA
1 ATATAT-TTTAA
49568932 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:49568916 original size:15 final size:15
Alignment explanation
Indices: 49568881--49568922 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49568871 TTAAGAATTT
*
49568881 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49568895 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49568909 TATTTAATAATAAT
1 TATTTAATTATAAT
49568923 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49569168 original size:16 final size:16
Alignment explanation
Indices: 49569147--49569214 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
49569137 GATTTGCTAT
49569147 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49569163 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
49569179 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
49569195 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49569211 TACA
1 TACA
49569215 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:49572493 original size:17 final size:17
Alignment explanation
Indices: 49572443--49572494 Score: 62
Period size: 12 Copynumber: 3.4 Consensus size: 17
49572433 TTATCTATTC
49572443 AGTTTTT-ATTCAATTT
1 AGTTTTTCATTCAATTT
49572459 AGTTTTTCATT--A---
1 AGTTTTTCATTCAATTT
49572471 AGTTTTTCATTCAATTT
1 AGTTTTTCATTCAATTT
49572488 AGTTTTT
1 AGTTTTT
49572495 GTTTTATTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
12 11 0.37
14 1 0.03
15 1 0.03
16 7 0.23
17 10 0.33
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (17 bp):
AGTTTTTCATTCAATTT
Found at i:49575248 original size:32 final size:33
Alignment explanation
Indices: 49575091--49575250 Score: 121
Period size: 37 Copynumber: 4.7 Consensus size: 33
49575081 TTTTAATAGT
*
49575091 TTAATATTAAATTAATTTAATACTTATCTTA-A
1 TTAATATTAAATTAATTTAATATTTATCTTAGA
* * * **
49575123 -TAATATTTAA-TAATTTAATATTAAAGTGATTATC
1 TTAATATTAAATTAATTTAATATT-TA-T-CTTAGA
* *
49575157 TTAATATTAAATTTAATTTAATGTTTATCTACAAGA
1 TTAATATTAAA-TTAATTTAATATTTATCT--TAGA
*
49575193 TTTAATATTAAATTTAATCTAATATTTATCTTA-A
1 -TTAATATTAAA-TTAATTTAATATTTATCTTAGA
* *
49575227 TAAATATTATATTAATTTAATATT
1 TTAATATTAAATTAATTTAATATT
49575251 AAAGTGATTA
Statistics
Matches: 100, Mismatches: 18, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
30 11 0.11
31 10 0.10
32 13 0.13
33 12 0.12
34 2 0.02
35 11 0.11
36 2 0.02
37 39 0.39
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (33 bp):
TTAATATTAAATTAATTTAATATTTATCTTAGA
Found at i:49575901 original size:30 final size:30
Alignment explanation
Indices: 49575865--49575922 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
49575855 TTGGGTTTTC
*
49575865 CCACACGGGCTGGACATACGACCATGTGAG
1 CCACACGGGCTGGACACACGACCATGTGAG
*
49575895 CCACACGGGCTGGACACACGGCCATGTG
1 CCACACGGGCTGGACACACGACCATGTG
49575923 CCAGACCGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.33, G:0.31, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTGGACACACGACCATGTGAG
Found at i:49576969 original size:5 final size:5
Alignment explanation
Indices: 49576953--49576990 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
49576943 TTCCAACACA
*
49576953 CATAT CAAAT CATAT CATAT CATAT CATAT CATAT CAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CAT
49576991 TATATCAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (5 bp):
CATAT
Found at i:49578647 original size:43 final size:43
Alignment explanation
Indices: 49578423--49578774 Score: 333
Period size: 42 Copynumber: 8.3 Consensus size: 43
49578413 TTTTAGAAAT
* * * *
49578423 AAACGTCGCTATAGATCATGACCTTTAGCGACACTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCACAC
* * * *
49578466 AAAACGCCGCTATAGATTAGGATCTTTAGCGGCGCTTTT-ACAC
1 -AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCACAC
* *
49578509 AAACGTCGCTATAGATCAAAACCTTTAGC-AGCGCTTTT-ACAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGA-CGCTTTTCACAC
** * *
49578551 AAACGTGGCTATAGATC-AGAACCTTTAGCGGCTCTTTT-ACAC
1 AAACGCCGCTATAGATCAAG-ACCTTTAGCGACGCTTTTCACAC
* * *
49578593 AAACGCCGCTATAAATCAAGACCTTTAGCGACGCTTATCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCACAC
* * *
49578636 AAACGCCGCTATAGATCATGACTTTTAGCG--GCATTTTCCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGC-TTTT-CACAC
* * * * *
49578679 AAACGTCGTTATAGATCATGACTTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCACAC
** * *
49578722 AAACGCCATTATAGAAC-AGACCTTTAGCGACACTTTTCACAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCACAC
*
49578764 AAATGCCGCTA
1 AAACGCCGCTA
49578775 AAAACATATC
Statistics
Matches: 259, Mismatches: 40, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
41 3 0.01
42 131 0.51
43 87 0.34
44 36 0.14
45 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCACAC
Found at i:49578722 original size:86 final size:83
Alignment explanation
Indices: 49578423--49578766 Score: 377
Period size: 86 Copynumber: 4.0 Consensus size: 83
49578413 TTTTAGAAAT
* * *
49578423 AAACGTCGCTATAGATCATGACCTTTAGCGACACTTTTCCCACAAAACGCCGCTATAGATTAGGA
1 AAACGTCGCTATAGATCAAGACCTTTAGCGACGCTTTTCCCAC-AAACGCCGCTATAGATCA-GA
* *
49578488 TCTTTAGCGGCGCTTTTACAC
64 CCTTTAGCGGC-ATTTTACAC
* * **
49578509 AAACGTCGCTATAGATCAAAACCTTTAGC-AGCGCTTTT-ACACAAACGTGGCTATAGATCAGAA
1 AAACGTCGCTATAGATCAAGACCTTTAGCGA-CGCTTTTCCCACAAACGCCGCTATAGATCAG-A
*
49578572 CCTTTAGCGGCTCTTTTACAC
64 CCTTTAGCGGC-ATTTTACAC
* * *
49578593 AAACGCCGCTATAAATCAAGACCTTTAGCGACGCTTATCCCACAAACGCCGCTATAGATCATGAC
1 AAACGTCGCTATAGATCAAGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGATCA-GAC
* *
49578658 TTTTAGCGGCATTTTCCCCAC
65 CTTTAGCGGCATTTT--ACAC
* * * ** *
49578679 AAACGTCGTTATAGATCATGACTTTTAGCGACGCTTTTCCCACAAACGCCATTATAGAACAGACC
1 AAACGTCGCTATAGATCAAGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGATCAGACC
*
49578744 TTTAGCGACACTTTTCACAC
66 TTTAGCGGCA-TTTT-ACAC
49578764 AAA
1 AAA
49578767 TGCCGCTAAA
Statistics
Matches: 219, Mismatches: 31, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
83 1 0.00
84 71 0.32
85 54 0.25
86 93 0.42
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (83 bp):
AAACGTCGCTATAGATCAAGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGATCAGACC
TTTAGCGGCATTTTACAC
Found at i:49578911 original size:34 final size:33
Alignment explanation
Indices: 49578873--49578941 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
49578863 CTACGAAAAT
*
49578873 TTTAACTTTAAAACTAAATATAA-AAATTAATGAA
1 TTTAAATTTAAAACTAAA-ATAATAAATTAAT-AA
**
49578907 TTTAAATTTAAATTTAAAATAATAAATTAATAA
1 TTTAAATTTAAAACTAAAATAATAAATTAATAA
49578940 TT
1 TT
49578942 GTACAAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 8 0.26
34 23 0.74
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (33 bp):
TTTAAATTTAAAACTAAAATAATAAATTAATAA
Found at i:49581322 original size:253 final size:253
Alignment explanation
Indices: 49580869--49581438 Score: 919
Period size: 253 Copynumber: 2.2 Consensus size: 253
49580859 GTTCAAAGTG
* * *
49580869 TATGTTAAAAACGGCGTCGTTTTCTATTTTAACATTTGTGGCTCTTACAAAAAAATGCCACTAGT
1 TATGTTAAAAACGGCGTCGTTTTCTATTTTAACATTTGCGGCGCTTACAAAAAAACGCCACTAGT
* * *
49580934 TTCACAACTTTTGCGGCGTTTTGATAAAAAACGCTACTAACATTTAACTCGTCAACGAAGCGGTG
66 TTCACAACTTTTGCGGCATTTTGATAAAAAACGCCACTAACATTTAACTCATCAACGAAGCGGTG
*
49580999 CCGTTTTGTTTAATTTTTAATATGTTATTTGCGGCGTTTTAAGAACAAACACCGCTAGTATTTAG
131 CCGTTTTGTTTAATTTTTAATATGTTATTTCCGGCGTTTTAAGAACAAACACCGCTAGTATTTAG
49581064 ATTTTGTGGCGTTTTACATCGAAACGCCGCTACTGATTAACTTTCTATTAATATTATT
196 ATTTTGTGGCGTTTTACATCGAAACGCCGCTACTGATTAACTTTCTATTAATATTATT
* * *
49581122 TATGCTAAAAACGGCATCGTTTTCTATTTCAACATTTGCGGCGCTTACAAAAAAACGCCACTAGT
1 TATGTTAAAAACGGCGTCGTTTTCTATTTTAACATTTGCGGCGCTTACAAAAAAACGCCACTAGT
* *
49581187 TTCACAACTTTTGCGGCATTTTGATAAGAAACGCCACTAACATTTAACTCATCAATGAAGCGGTG
66 TTCACAACTTTTGCGGCATTTTGATAAAAAACGCCACTAACATTTAACTCATCAACGAAGCGGTG
* * *
49581252 TCGTTTTGTTTAATTTTTAATATGTTTTTTCCGGCGTTTTCCA-AACAAACACCGCTAGTATTTA
131 CCGTTTTGTTTAATTTTTAATATGTTATTTCCGGCGTTTT-AAGAACAAACACCGCTAGTATTTA
* *
49581316 GATTTTGTGGCGTTTTACATGGAAACGCCGCTACTGATTAACTTTTTATTAATATTATT
195 GATTTTGTGGCGTTTTACATCGAAACGCCGCTACTGATTAACTTTCTATTAATATTATT
* * *
49581375 TATGTTTAAAACGGCGTCATTTTCTATTTTAACATTTGCGGCGTTTTGAC-AAAAAACGCCACTA
1 TATGTTAAAAACGGCGTCGTTTTCTATTTTAACATTTGCGGCG-CTT-ACAAAAAAACGCCACTA
49581439 ATATTTAACT
Statistics
Matches: 291, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
253 272 0.93
254 17 0.06
255 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (253 bp):
TATGTTAAAAACGGCGTCGTTTTCTATTTTAACATTTGCGGCGCTTACAAAAAAACGCCACTAGT
TTCACAACTTTTGCGGCATTTTGATAAAAAACGCCACTAACATTTAACTCATCAACGAAGCGGTG
CCGTTTTGTTTAATTTTTAATATGTTATTTCCGGCGTTTTAAGAACAAACACCGCTAGTATTTAG
ATTTTGTGGCGTTTTACATCGAAACGCCGCTACTGATTAACTTTCTATTAATATTATT
Found at i:49581477 original size:213 final size:214
Alignment explanation
Indices: 49581196--49581591 Score: 668
Period size: 213 Copynumber: 1.9 Consensus size: 214
49581186 TTTCACAACT
* * *
49581196 TTTGCGGCATTTTGATAAGAAACGCCACTAACATTTAACTCATCAATGAAGCGGTGTCGTTTTGT
1 TTTGCGGCATTTTGACAAAAAACGCCACTAACATTTAACTCATCAATGAAGCGGTGCCGTTTTGT
*
49581261 TTAATTTTTAATATGTTTTTTCCGGCGTTTTCCAAACAAACACCGCTAGTATTTAGATTTTGTGG
66 TTAATTTTTAATATGTTTTTTCCGGCGTTTTCCAAACAAACACCGCTAATATTTAGATTTTGTGG
*
49581326 CG-TTTTACATGGAAACGCCGCTACTGATTAACTTTTTATTAATATTATTTATGTTTAAAACGGC
131 CGTTTTTACATGGAAACGCCGCTACTAATTAACTTTTTATTAATATTATTTATGTTTAAAACGGC
49581390 GTCATTTTCTATTTTAACA
196 GTCATTTTCTATTTTAACA
* * *
49581409 TTTGCGGCGTTTTGACAAAAAACGCCACTAATATTTAACTCGTCAATGAAGCGGTGCCGTTTTGT
1 TTTGCGGCATTTTGACAAAAAACGCCACTAACATTTAACTCATCAATGAAGCGGTGCCGTTTTGT
* * **
49581474 TTAATTTTTTATATGTTTTTTGCGGCGTTTTCTGAACAAACACCGCTAATATTTAGATTTTGTGG
66 TTAATTTTTAATATGTTTTTTCCGGCGTTTTCCAAACAAACACCGCTAATATTTAGATTTTGTGG
*
49581539 CGTTTTTACATGGAAACGTCGCTACTAATTAACTTTTTATTAATATTATTTAT
131 CGTTTTTACATGGAAACGCCGCTACTAATTAACTTTTTATTAATATTATTTAT
49581592 AAATTTTCAA
Statistics
Matches: 169, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
213 121 0.72
214 48 0.28
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (214 bp):
TTTGCGGCATTTTGACAAAAAACGCCACTAACATTTAACTCATCAATGAAGCGGTGCCGTTTTGT
TTAATTTTTAATATGTTTTTTCCGGCGTTTTCCAAACAAACACCGCTAATATTTAGATTTTGTGG
CGTTTTTACATGGAAACGCCGCTACTAATTAACTTTTTATTAATATTATTTATGTTTAAAACGGC
GTCATTTTCTATTTTAACA
Found at i:49581699 original size:12 final size:13
Alignment explanation
Indices: 49581671--49581703 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
49581661 TTAAAATGAC
*
49581671 ATTATTAATATAT
1 ATTATTTATATAT
49581684 ATTATTTATA-AT
1 ATTATTTATATAT
49581696 ATTATTTA
1 ATTATTTA
49581704 AAAATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTATTTATATAT
Found at i:49582134 original size:14 final size:14
Alignment explanation
Indices: 49582116--49582150 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
49582106 ACCTTAAATT
49582116 ATAAACAGTAAACC
1 ATAAACAGTAAACC
* *
49582130 GTAAACCGTAAACC
1 ATAAACAGTAAACC
49582144 ATAAACA
1 ATAAACA
49582151 TCAAGCCCTA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.54, C:0.23, G:0.09, T:0.14
Consensus pattern (14 bp):
ATAAACAGTAAACC
Found at i:49582267 original size:21 final size:21
Alignment explanation
Indices: 49582220--49582269 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
49582210 ACTAAACTGG
* *
49582220 CCTAAACCCCAAACCCTAAAT
1 CCTAAACCCCAAACCCAAAAA
*
49582241 CTTAAACCCCAAA-CCAAAAA
1 CCTAAACCCCAAACCCAAAAA
49582261 CACTAAACC
1 C-CTAAACC
49582270 TACATCATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (21 bp):
CCTAAACCCCAAACCCAAAAA
Found at i:49582424 original size:161 final size:158
Alignment explanation
Indices: 49582243--49582534 Score: 521
Period size: 161 Copynumber: 1.8 Consensus size: 158
49582233 CCCTAAATCT
49582243 TAAACCCCAAACCAAAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCCCAAA
1 TAAACCCCAAACCAAAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCCCAAA
*
49582308 ATAATAAACATTATATAATGATTAATCCTAAAACCCTAAACCATATACGATAAACTTTAAATTAT
66 ATAATAAACATTATATAATG---AACCCTAAAACCCTAAACCATATACGATAAACTTTAAATTAT
49582373 AATAATCACTAAATCTTAATCACCAAACTCC
128 AATAATCACTAAATCTTAATCACCAAACTCC
* *
49582404 TAAACCCTAAACCCAAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCCCAAA
1 TAAACCCCAAACCAAAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCCCAAA
*
49582469 ATAATAAACATTATATAATGAACCCTAAAACCCTAAACCATATATGATAAACTTTAAATTATAAT
66 ATAATAAACATTATATAATGAACCCTAAAACCCTAAACCATATACGATAAACTTTAAATTATAAT
49582534 A
131 A
49582535 CATTATAAAA
Statistics
Matches: 127, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
158 44 0.35
161 83 0.65
ACGTcount: A:0.50, C:0.25, G:0.01, T:0.24
Consensus pattern (158 bp):
TAAACCCCAAACCAAAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCCCAAA
ATAATAAACATTATATAATGAACCCTAAAACCCTAAACCATATACGATAAACTTTAAATTATAAT
AATCACTAAATCTTAATCACCAAACTCC
Found at i:49582512 original size:29 final size:29
Alignment explanation
Indices: 49582480--49582571 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
49582470 TAATAAACAT
49582480 TATATAATGAACCCTAAAACCCTAAACCA
1 TATATAATGAACCCTAAAACCCTAAACCA
* * * * ***
49582509 TATATGAT-AAACTTTAAATTATAATA-CA
1 TATATAATGAACCCTAAAACCCTAA-ACCA
*
49582537 TTATAAAATGAACCCTAAAACCCTAAACCA
1 -TATATAATGAACCCTAAAACCCTAAACCA
49582567 TATAT
1 TATAT
49582572 GATAAACTTT
Statistics
Matches: 43, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
28 12 0.28
29 19 0.44
30 12 0.28
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.28
Consensus pattern (29 bp):
TATATAATGAACCCTAAAACCCTAAACCA
Found at i:49582547 original size:58 final size:58
Alignment explanation
Indices: 49582467--49582592 Score: 227
Period size: 58 Copynumber: 2.2 Consensus size: 58
49582457 TCTAATCCCA
* *
49582467 AAATAATAA-ACATTATATAATGAACCCTAAAACCCTAAACCATATATGATAAACTTT
1 AAATTATAATACATTATAAAATGAACCCTAAAACCCTAAACCATATATGATAAACTTT
49582524 AAATTATAATACATTATAAAATGAACCCTAAAACCCTAAACCATATATGATAAACTTT
1 AAATTATAATACATTATAAAATGAACCCTAAAACCCTAAACCATATATGATAAACTTT
49582582 AAATTATAATA
1 AAATTATAATA
49582593 ACACCTAAAC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 8 0.12
58 58 0.88
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (58 bp):
AAATTATAATACATTATAAAATGAACCCTAAAACCCTAAACCATATATGATAAACTTT
Found at i:49582584 original size:29 final size:29
Alignment explanation
Indices: 49582494--49582584 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
49582484 TAATGAACCC
49582494 TAAAACCCTAAACCATATATGATAAACTT
1 TAAAACCCTAAACCATATATGATAAACTT
*** ** * **
49582523 T-AAATTATAATA-CATTATAAAATGAACCC
1 TAAAACCCTAA-ACCA-TATATGATAAACTT
49582552 TAAAACCCTAAACCATATATGATAAACTT
1 TAAAACCCTAAACCATATATGATAAACTT
49582581 TAAA
1 TAAA
49582585 TTATAATAAC
Statistics
Matches: 42, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
28 8 0.19
29 26 0.62
30 8 0.19
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.29
Consensus pattern (29 bp):
TAAAACCCTAAACCATATATGATAAACTT
Found at i:49582803 original size:41 final size:41
Alignment explanation
Indices: 49582737--49582919 Score: 215
Period size: 41 Copynumber: 4.5 Consensus size: 41
49582727 GTGATTTCTC
* *
49582737 AAAAATGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCCT
1 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCT
* * * * *
49582778 AAAAACGTCGCTAAATCCCTGAGCATTAGCAGTGC-TTACT
1 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCT
* * *
49582818 CAAAAACGCCGCTAAAGCCTTGAGAATTAGCGGCACTTTCCT
1 -AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCT
* * *
49582860 TAAAACGCCGCTAAAGCCCTGAGCATTAACGGCGCTTTCTT
1 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCT
* *
49582901 AAAAATGCTGCTAAAGCCC
1 AAAAACGCCGCTAAAGCCC
49582920 CGAAAGCTCA
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
40 4 0.03
41 108 0.93
42 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCT
Found at i:49582865 original size:82 final size:82
Alignment explanation
Indices: 49582734--49582919 Score: 237
Period size: 82 Copynumber: 2.3 Consensus size: 82
49582724 GCGGTGATTT
* * * * *
49582734 CTCAAAAATGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCCTAAAAACGTCGCTAAATCCCTG
1 CTCAAAAACGCCGCTAAAGCCCTAAGAATTAGCGGCACTTTCCTAAAAACGCCGCTAAAGCCCTG
49582799 AGCATTAGCAGTGCTTA
66 AGCATTAGCAGTGCTTA
* * *
49582816 CTCAAAAACGCCGCTAAAGCCTTGAGAATTAGCGGCACTTTCCTTAAAACGCCGCTAAAGCCCTG
1 CTCAAAAACGCCGCTAAAGCCCTAAGAATTAGCGGCACTTTCCTAAAAACGCCGCTAAAGCCCTG
* * * *
49582881 AGCATTAACGGCGCTTT
66 AGCATTAGCAGTGCTTA
* * *
49582898 CTTAAAAATGCTGCTAAAGCCC
1 CTCAAAAACGCCGCTAAAGCCC
49582920 CGAAAGCTCA
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
82 88 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (82 bp):
CTCAAAAACGCCGCTAAAGCCCTAAGAATTAGCGGCACTTTCCTAAAAACGCCGCTAAAGCCCTG
AGCATTAGCAGTGCTTA
Found at i:49592779 original size:10 final size:10
Alignment explanation
Indices: 49592761--49592808 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
49592751 TTTTTAGGAT
49592761 TTTAT-TTTA
1 TTTATCTTTA
49592770 TTTATCTTTA
1 TTTATCTTTA
*
49592780 TTTATCTTCA
1 TTTATCTTTA
* **
49592790 ATTAAATTTA
1 TTTATCTTTA
49592800 TTTATCTTT
1 TTTATCTTT
49592809 TAGGAATTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:49594233 original size:26 final size:26
Alignment explanation
Indices: 49594192--49594267 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 26
49594182 CCTCATCCCT
*
49594192 ATTTTATCCCC-AGTAAAATTTTGATG
1 ATTTTA-CCCCTAGTAAAATTTTGACG
* *
49594218 ATTTTACCCCTGGTAAATTTTTTTTGACG
1 ATTTTACCCCTAGTAAA---ATTTTGACG
*
49594247 ATTTTACCCCTAATAAAATTT
1 ATTTTACCCCTAGTAAAATTT
49594268 CGAGAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
25 4 0.10
26 14 0.35
29 22 0.55
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.45
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:49601975 original size:15 final size:15
Alignment explanation
Indices: 49601955--49601998 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49601945 AGCAATTTAA
*
49601955 TTCTTTTCTTTTATG
1 TTCTTTTCTTTTATC
*
49601970 TTCTTTTAATTTTATC
1 TTCTTTT-CTTTTATC
*
49601986 TTTTTTTCTTTTA
1 TTCTTTTCTTTTA
49601999 ATTTTCATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTTTTATC
Found at i:49602012 original size:21 final size:21
Alignment explanation
Indices: 49601970--49602012 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
49601960 TTCTTTTATG
*
49601970 TTCTTTTAATTTTATCTTTTT
1 TTCTTTTAATTTTATCTCTTT
49601991 TTCTTTTAATTTTCAT-TCTTT
1 TTCTTTTAATTTT-ATCTCTTT
49602012 T
1 T
49602013 CTACTTCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCTTTTAATTTTATCTCTTT
Found at i:49603372 original size:16 final size:16
Alignment explanation
Indices: 49603351--49603383 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49603341 AATTAGGATT
49603351 TAAATAAAAAATCTTA
1 TAAATAAAAAATCTTA
*
49603367 TAAATAAAAAATTTTA
1 TAAATAAAAAATCTTA
49603383 T
1 T
49603384 TTACGGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAATAAAAAATCTTA
Found at i:49610665 original size:41 final size:41
Alignment explanation
Indices: 49610570--49610789 Score: 273
Period size: 41 Copynumber: 5.4 Consensus size: 41
49610560 CCTTGTGGGT
* * **
49610570 CTTTAGCAGCGTTTTTCAAGAAGCGTCGCTAA-GCGTGGAC
1 CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
49610610 CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
1 CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
* * * *
49610651 CTTTAGCGGTGTTTTTCAGGAAGCGCCGCTAATGCACTGAC
1 CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
* * * * *
49610692 CTTTACCGGCGTTTGT-AAGGAATCGCCGCTAATGTGCAAAC
1 CTTTAGCGGCGTTTTTCAA-GAAGCGCCGCTAATGCGCAGAC
* * *
49610733 CTTTAGCGGCGTTTTTCATGAAGTGCCACTAATGCGCAGAC
1 CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
49610774 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
49610790 TGTAAAACGC
Statistics
Matches: 152, Mismatches: 25, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
40 31 0.20
41 120 0.79
42 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
Found at i:49611258 original size:39 final size:39
Alignment explanation
Indices: 49611215--49611346 Score: 165
Period size: 39 Copynumber: 3.3 Consensus size: 39
49611205 ATATAATAAA
* * *
49611215 TTTTTTTATTTTTTTATTTTTAAATTACTTTTAAAATAC
1 TTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATAC
*
49611254 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATAC
* * * **
49611293 ATTTTTAATTTTTTTAATTTTAAAATAATTTAAAACAATTT
1 TTTTTTAATTTTTTTAATTTTAAAATACTTT-TAA-AATAC
49611334 TTTTTTAATTTTT
1 TTTTTTAATTTTT
49611347 AAAATAAATT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 64 0.79
40 2 0.02
41 15 0.19
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (39 bp):
TTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATAC
Found at i:49612110 original size:21 final size:21
Alignment explanation
Indices: 49612076--49612135 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
49612066 ATTGGGGTAA
49612076 TTAGGG-TTATGAGTTTGAGA-
1 TTAGGGTTTA-GAGTTTGAGAT
*
49612096 TTAGAGGTTTAGAGTTAGAGAT
1 TTAG-GGTTTAGAGTTTGAGAT
49612118 TTAGGGTTTAGAGATTTG
1 TTAGGGTTTAGAG-TTTG
49612136 GGGTCGAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 4 0.12
21 20 0.59
22 10 0.29
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (21 bp):
TTAGGGTTTAGAGTTTGAGAT
Found at i:49612130 original size:15 final size:15
Alignment explanation
Indices: 49612096--49612139 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
49612086 GAGTTTGAGA
* *
49612096 TTAGAGGTTTAGAG-
1 TTAGAGATTTAGGGT
49612110 TTAGAGATTTAGGGT
1 TTAGAGATTTAGGGT
*
49612125 TTAGAGATTTGGGGT
1 TTAGAGATTTAGGGT
49612140 CGAGTTAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (15 bp):
TTAGAGATTTAGGGT
Found at i:49612917 original size:10 final size:10
Alignment explanation
Indices: 49612890--49612950 Score: 61
Period size: 10 Copynumber: 5.8 Consensus size: 10
49612880 GTGATTTAAA
49612890 ATTTTAAAATG
1 ATTTTAAAA-G
49612901 AATTTTAAAAG
1 -ATTTTAAAAG
49612912 ATTTTAAAA-
1 ATTTTAAAAG
*
49612921 ATTTTTAAAAA
1 A-TTTTAAAAG
*
49612932 ATTTAAAAAAG
1 ATTT-TAAAAG
49612943 ATTTTAAA
1 ATTTTAAA
49612951 CTTTTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
9 1 0.02
10 23 0.53
11 10 0.23
12 9 0.21
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (10 bp):
ATTTTAAAAG
Found at i:49613251 original size:20 final size:19
Alignment explanation
Indices: 49613206--49613255 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
49613196 ATATAAAAAT
*
49613206 TTTAAAATTTA-TCTAATTC
1 TTTAAAAATTACT-TAATTC
49613225 TTTAAAATATTACTTAATT-
1 TTTAAAA-ATTACTTAATTC
49613244 TTTCAAAAATTA
1 TTT-AAAAATTA
49613256 TTTATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 14 0.52
20 12 0.44
21 1 0.04
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAAAATTACTTAATTC
Found at i:49617897 original size:43 final size:44
Alignment explanation
Indices: 49617838--49618027 Score: 199
Period size: 43 Copynumber: 4.4 Consensus size: 44
49617828 GCGTTTTTAT
*
49617838 ATAAA-CGTCGCTAAAGATCATGTTCTTTAGTGGCGTTTGTGAG
1 ATAAAGCGTCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAG
* *
49617881 -TAAAGCGTCGCTAAAGATTATGTTCTTTAGCGGCGTTTGTGGG
1 ATAAAGCGTCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAG
* * * * *
49617924 AAAAAGCGCCACTAAAGCTCATGTTCTATAGCGGCGTTTGTG-G
1 ATAAAGCGTCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAG
* * * * * * *
49617967 TTAAAGAGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTAGAA
1 ATAAAGCGTCGCTAAAGATCATGTTCTTTAGCGGCGTTTGT-GAG
*
49618012 ATAAA-CGCCGCTAAAG
1 ATAAAGCGTCGCTAAAG
49618028 TTAGCGACGA
Statistics
Matches: 120, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
42 4 0.03
43 67 0.56
44 45 0.38
45 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (44 bp):
ATAAAGCGTCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAG
Found at i:49618026 original size:87 final size:86
Alignment explanation
Indices: 49617822--49618027 Score: 231
Period size: 87 Copynumber: 2.4 Consensus size: 86
49617812 TTTGTTAAAA
* * * * *
49617822 TTAGTGGCGTTTTT-ATATAAACGTCGCTAAAGATCATGTTCTTTAGTGGCGTTTGTGAGTAAAG
1 TTAGCGGCGTTTTTGAAATAAACGCCGCTAAAGATCATGTTCTATAGCGGCGTTTGTGAGTAAAG
* *
49617886 CGTCGCTAAAGATTATGTTCT
66 AGTCGCTAAAGATTATGGTCT
* * * *
49617907 TTAGCGGCGTTTGTGGGAAA-AAGCGCCACTAAAGCTCATGTTCTATAGCGGCGTTTGTG-GTTA
1 TTAGCGGCGTTT-T-TGAAATAAACGCCGCTAAAGATCATGTTCTATAGCGGCGTTTGTGAG-TA
*
49617970 AAGAGTCGCTAAAGGTCT-TGGTCT
63 AAGAGTCGCTAAAGAT-TATGGTCT
49617994 TTAGCGGCGTTTTTAGAAATAAACGCCGCTAAAG
1 TTAGCGGCGTTTTT-GAAATAAACGCCGCTAAAG
49618028 TTAGCGACGA
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
85 11 0.11
86 7 0.07
87 78 0.79
88 3 0.03
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (86 bp):
TTAGCGGCGTTTTTGAAATAAACGCCGCTAAAGATCATGTTCTATAGCGGCGTTTGTGAGTAAAG
AGTCGCTAAAGATTATGGTCT
Found at i:49618203 original size:10 final size:10
Alignment explanation
Indices: 49618188--49618229 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
49618178 CTGGGAGCAG
49618188 TTTGTTTCAT
1 TTTGTTTCAT
49618198 TTTGTTTC-T
1 TTTGTTTCAT
*
49618207 TTTGTTT-AC
1 TTTGTTTCAT
49618216 TTTG-TTCAT
1 TTTGTTTCAT
49618225 TTTGT
1 TTTGT
49618230 AATGTTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
8 2 0.07
9 17 0.63
10 8 0.30
ACGTcount: A:0.07, C:0.10, G:0.12, T:0.71
Consensus pattern (10 bp):
TTTGTTTCAT
Found at i:49627067 original size:20 final size:20
Alignment explanation
Indices: 49627042--49627091 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
49627032 TGGCTTAAAA
49627042 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
49627062 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
49627079 GTGGTAGTGGATT
1 TTGGTAGTGGATT
49627092 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:49631706 original size:20 final size:20
Alignment explanation
Indices: 49631681--49631730 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
49631671 TGGCTTAAAA
49631681 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
49631701 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
49631718 GTGGTAGTGGATT
1 TTGGTAGTGGATT
49631731 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:49635639 original size:18 final size:19
Alignment explanation
Indices: 49635616--49635659 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
49635606 CCCTTCCATC
49635616 GATTTCTGCTTC-TCTTAT
1 GATTTCTGCTTCTTCTTAT
49635634 GATTTCTGCTTCTTCTTAT
1 GATTTCTGCTTCTTCTTAT
49635653 GATTTCT
1 GATTTCT
49635660 ATTTTCTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.11, C:0.20, G:0.11, T:0.57
Consensus pattern (19 bp):
GATTTCTGCTTCTTCTTAT
Found at i:49636021 original size:19 final size:20
Alignment explanation
Indices: 49635999--49636042 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
49635989 TGATTTCTGC
*
49635999 TTCTTCTC-GTAGGTTTCTT
1 TTCTTCTCTGTACGTTTCTT
*
49636018 TTCTTCTCTTTACGTTTCTT
1 TTCTTCTCTGTACGTTTCTT
49636038 TTCTT
1 TTCTT
49636043 TTCTCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.05, C:0.23, G:0.09, T:0.64
Consensus pattern (20 bp):
TTCTTCTCTGTACGTTTCTT
Found at i:49636149 original size:16 final size:16
Alignment explanation
Indices: 49636128--49636158 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49636118 CGATTTCGTT
49636128 TTTCTTGAAATTTGTA
1 TTTCTTGAAATTTGTA
49636144 TTTCTTGAAATTTGT
1 TTTCTTGAAATTTGT
49636159 TGGAGTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (16 bp):
TTTCTTGAAATTTGTA
Found at i:49636191 original size:10 final size:10
Alignment explanation
Indices: 49636187--49636212 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49636177 CATTTCTTGG
49636187 AATTTGTTGA
1 AATTTGTTGA
49636197 AATTTGTTGA
1 AATTTGTTGA
49636207 AATTTG
1 AATTTG
49636213 CATTTCTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (10 bp):
AATTTGTTGA
Found at i:49639575 original size:129 final size:129
Alignment explanation
Indices: 49639430--49639697 Score: 482
Period size: 129 Copynumber: 2.1 Consensus size: 129
49639420 GCCTTTTAGA
* *
49639430 TTTTTTAAAATTTTAATTTAGTAAAGGTAAAATTACACTTTGGTGTCCTTAAAAATGATAAAAAT
1 TTTTTTAAAATTTTAATTTAGTAAAGGTAAAATTACAATTTGGTGCCCTTAAAAATGATAAAAAT
49639495 TTGATTTAATCATTTAAAAATTATAAAGATATAGGCTATTCAAATAGAGAAATTGTATTTTTAC
66 TTGATTTAATCATTTAAAAATTATAAAGATATAGGCTATTCAAATAGAGAAATTGTATTTTTAC
49639559 TTTTTTAAAATTTTAATTTAGTAAAGGTAAAATTACAATTTGGTGCCCTTAAAAATGATAAAAAT
1 TTTTTTAAAATTTTAATTTAGTAAAGGTAAAATTACAATTTGGTGCCCTTAAAAATGATAAAAAT
* *
49639624 TTGATTTAATCCTTTAAAAATTATAAAGATATAGGCTATTCAAATAGTGAAATTGTATTTTTAC
66 TTGATTTAATCATTTAAAAATTATAAAGATATAGGCTATTCAAATAGAGAAATTGTATTTTTAC
* *
49639688 TATTGTAAAA
1 TTTTTTAAAA
49639698 ATTAAAATTT
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 133 1.00
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (129 bp):
TTTTTTAAAATTTTAATTTAGTAAAGGTAAAATTACAATTTGGTGCCCTTAAAAATGATAAAAAT
TTGATTTAATCATTTAAAAATTATAAAGATATAGGCTATTCAAATAGAGAAATTGTATTTTTAC
Found at i:49639807 original size:17 final size:19
Alignment explanation
Indices: 49639779--49639813 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
49639769 GTTAATTAAT
49639779 TTTTTTATAAA-TATTTTA
1 TTTTTTATAAATTATTTTA
49639797 TTTTTTA-AAATTATTTT
1 TTTTTTATAAATTATTTT
49639814 TTAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTATAAATTATTTTA
Found at i:49639810 original size:13 final size:13
Alignment explanation
Indices: 49639794--49639818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49639784 TATAAATATT
49639794 TTATTTTTTAAAA
1 TTATTTTTTAAAA
49639807 TTATTTTTTAAA
1 TTATTTTTTAAA
49639819 TTTTAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTTTTAAAA
Found at i:49639815 original size:20 final size:21
Alignment explanation
Indices: 49639799--49639841 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
49639789 ATATTTTATT
49639799 TTTTAA-AATTATTTTTTAAA
1 TTTTAATAATTATTTTTTAAA
**
49639819 TTTTAATAATTATTAATTAAA
1 TTTTAATAATTATTTTTTAAA
49639840 TT
1 TT
49639842 GATTTGAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTAATAATTATTTTTTAAA
Found at i:49639822 original size:21 final size:22
Alignment explanation
Indices: 49639764--49639841 Score: 58
Period size: 21 Copynumber: 3.7 Consensus size: 22
49639754 TCAACGGTTG
* *
49639764 AATTAGTTAATTAATTTTTTTAT
1 AATTA-TTAATTAAATTTTTAAT
* *
49639787 AAATATT--TT-ATTTTTTAA-
1 AATTATTAATTAAATTTTTAAT
**
49639805 AATTATTTTTTAAA-TTTTAAT
1 AATTATTAATTAAATTTTTAAT
49639826 AATTATTAATTAAATT
1 AATTATTAATTAAATT
49639842 GATTTGAACG
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
18 6 0.14
19 8 0.18
20 10 0.23
21 13 0.30
22 3 0.07
23 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (22 bp):
AATTATTAATTAAATTTTTAAT
Found at i:49641789 original size:298 final size:299
Alignment explanation
Indices: 49641252--49642076 Score: 782
Period size: 298 Copynumber: 2.8 Consensus size: 299
49641242 CTCATTAGAG
* * * *
49641252 TATGCATAATACAATTAAAATGTAAATATTATATTAAATTAAAGTC-ATGGTTTAGTTGTAACAT
1 TATGCATAATACAATTAAAATGT-TATATTATATTAAAATAAA-TCTTTGG-TTAG-TGTAAAAT
* * * * * * * * * * *
49641316 TGTTTAATTATTGTCAATAACTTGAG-TTAAATCCAATCATATATAATTTTCTATTTGTTTTTCA
62 TGTTTTATTAATGTAAATAGCATGAGTTTAAATCTAATCACATAAAATTTTTTATTGGTTTTTTA
* * * * * * * *
49641380 GAAATAGAAAGACAAAAATACTCTCGAATTATATAACTAATTTTAATTATGGAATGATATTTTTG
127 GAAATAAAAAGACTAAAATACTCTCAAATAATATAACTTATTTTAATTACGGAATAACATTTTTG
* * *** * * *
49641445 AAATTTTCTTAGCTGGGTTGGTGTTCGATTGACTCGTAATACCAACTTAGTTAGGGGCTT-A-AA
192 AAATTTTCCTAACCAAGTTGGTGCTCGATTGACTCATAACACCAAC----TTAGGGGCTTAATAA
* * *
49641508 TACTA-AT-ATA-A-ATA-A-ATATATAATTGAGGGAGATTATAAAA
253 TACTATATAATAGAGATAGAGATATACAATTGAGAGAGATAATAAAA
49641549 TATGCATAATACAATTAAAATGTTGATATTATATTAAAATAAATCTTTGGTTCAGTGATAAAATT
1 TATGCATAATACAATTAAAATGTT-ATATTATATTAAAATAAATCTTTGGTT-AGTG-TAAAATT
* * *
49641614 GTTTTATTAATGTAAATAGCATAAGTTTAAATCTAATCACATACAATTTTTTATTGGTTTTTTAA
63 GTTTTATTAATGTAAATAGCATGAGTTTAAATCTAATCACATAAAATTTTTTATTGGTTTTTTAG
* * *
49641679 AAATAAAAAGACTAAAATA-TCCACAAATAATATAAGTTATTTTAATTACAGAATAACATTTTTG
128 AAATAAAAAGACTAAAATACT-CTCAAATAATATAACTTATTTTAATTACGGAATAACATTTTTG
* * * * *
49641743 AAATTTCCCTAACCAAGTTGGTGCCCGGTTGACTCATGACACCAACTTAGGGGCTTAAATAATAG
192 AAATTTTCCTAACCAAGTTGGTGCTCGATTGACTCATAACACCAACTTAGGGGCTT-AATAATAC
* *
49641808 TATATAGATAGAGATAGAGATATACAATTGATAGAGATAATAAAG
256 TATATA-ATAGAGATAGAGATATACAATTGAGAGAGATAATAAAA
* * * *
49641853 TATGTATAATATAGTTAAAAT-TTA-A--ATATTAAAATAAAGCTTTGGATTAGTGGTAAAATTG
1 TATGCATAATACAATTAAAATGTTATATTATATTAAAATAAATCTTTGG-TTAGT-GTAAAATTG
* * * * * * * *
49641914 TTTTATTAATATATATAGCACGGGTTCAAATCTAGTTACATATAAATTTTTTATTGATTTTTTAG
64 TTTTATTAATGTAAATAGCATGAGTTTAAATCTAATCACATA-AAATTTTTTATTGGTTTTTTAG
* * * * *
49641979 AAATAAAAATACTAAAATACTCTCAAATAATTTAACATATTTTAATTACGGAA-AGACATTTATA
128 AAATAAAAAGACTAAAATACTCTCAAATAATATAACTTATTTTAATTACGGAATA-ACATTTTTG
* *
49642043 AAATTTTGCTAACCAAATTGGTGCTCGATTGACT
192 AAATTTTCCTAACCAAGTTGGTGCTCGATTGACT
49642077 TGTGGCACTG
Statistics
Matches: 433, Mismatches: 74, Indels: 39
0.79 0.14 0.07
Matches are distributed among these distances:
294 10 0.02
296 7 0.02
297 77 0.18
298 119 0.27
299 65 0.15
300 106 0.24
301 3 0.01
302 4 0.01
303 3 0.01
304 39 0.09
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (299 bp):
TATGCATAATACAATTAAAATGTTATATTATATTAAAATAAATCTTTGGTTAGTGTAAAATTGTT
TTATTAATGTAAATAGCATGAGTTTAAATCTAATCACATAAAATTTTTTATTGGTTTTTTAGAAA
TAAAAAGACTAAAATACTCTCAAATAATATAACTTATTTTAATTACGGAATAACATTTTTGAAAT
TTTCCTAACCAAGTTGGTGCTCGATTGACTCATAACACCAACTTAGGGGCTTAATAATACTATAT
AATAGAGATAGAGATATACAATTGAGAGAGATAATAAAA
Found at i:49646683 original size:18 final size:18
Alignment explanation
Indices: 49646648--49646705 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
49646638 GTAATAAGAG
*
49646648 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
49646666 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
*
49646684 AC-TTTT-AAATATGAATC
1 ACGTTTTGAAA-ATGAATA
49646701 ACGTT
1 ACGTT
49646706 GAAATTGATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.12
17 10 0.29
18 19 0.56
19 1 0.03
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:49653467 original size:3 final size:3
Alignment explanation
Indices: 49653459--49653483 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
49653449 CTCTATGGGA
49653459 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
49653484 TGGGATCCTC
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:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:49654592 original size:19 final size:19
Alignment explanation
Indices: 49654568--49654609 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
49654558 CAAGGGTGTT
*
49654568 GGTGCGAGTAGCAAGGCGC
1 GGTGCGAATAGCAAGGCGC
49654587 GGTGCGAATAGCAAGGCGC
1 GGTGCGAATAGCAAGGCGC
49654606 GGTG
1 GGTG
49654610 TGAGCAGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.21, C:0.19, G:0.48, T:0.12
Consensus pattern (19 bp):
GGTGCGAATAGCAAGGCGC
Found at i:49655046 original size:16 final size:15
Alignment explanation
Indices: 49655021--49655054 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
49655011 AAAGTTGATA
*
49655021 ATAATTAATATATATT
1 ATAATAAATATA-ATT
49655037 ATAATAAATATAATT
1 ATAATAAATATAATT
49655052 ATA
1 ATA
49655055 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:49666061 original size:21 final size:21
Alignment explanation
Indices: 49666035--49666074 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
49666025 TCGTTCTAGT
49666035 TTGAAAGACTAGTATACAAGA
1 TTGAAAGACTAGTATACAAGA
49666056 TTGAAAGACTAGTATACAA
1 TTGAAAGACTAGTATACAA
49666075 ATTCATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.25
Consensus pattern (21 bp):
TTGAAAGACTAGTATACAAGA
Found at i:49671642 original size:27 final size:27
Alignment explanation
Indices: 49671611--49671663 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49671601 TCTATTTGAG
*
49671611 TAATTA-ATTAATTAATCAGTTATTTTA
1 TAATTATATGAATTAATCA-TTATTTTA
*
49671638 TAATTATATGAATTAATTATTATTTT
1 TAATTATATGAATTAATCATTATTTT
49671664 TTCTAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
TAATTATATGAATTAATCATTATTTTA
Found at i:49672134 original size:16 final size:16
Alignment explanation
Indices: 49672096--49672134 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
49672086 GTTTGGTTCG
* *
49672096 CTGTAACGGAATAGAG
1 CTGTAATGGAATAGAA
49672112 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
49672128 CTGTAAT
1 CTGTAAT
49672135 AGTAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (16 bp):
CTGTAATGGAATAGAA
Found at i:49672180 original size:45 final size:44
Alignment explanation
Indices: 49672116--49672208 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 44
49672106 ATAGAGCTGT
49672116 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTAAATGG
1 AATGGAATAGAACTGTAATAGT-ATT-AATGTGTTTGGTTAAATGG
** *
49672161 AATGGAATAGAACTGTAATAGTATTTTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTAATGTGTTTGGTTAAATGG
49672205 AATG
1 AATG
49672209 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 22 0.50
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTAATGTGTTTGGTTAAATGG
Found at i:49672433 original size:57 final size:56
Alignment explanation
Indices: 49672317--49672454 Score: 134
Period size: 57 Copynumber: 2.4 Consensus size: 56
49672307 AATAAGATTA
* * * * *
49672317 TTAATATAAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAAT
1 TTAATA-AAAAAATATATAATTTAATAAAATTTTAACAAAATTATTATT-AATATAAT
* *
49672375 TTAATAAAAAAATATATAATTTAATAAAATTCTTAATAAAATTATTCTT-ATATGAAT
1 TTAATAAAAAAATATATAATTTAATAAAATT-TTAACAAAATTATTATTAATAT-AAT
*
49672432 TTACTAAAATCATAATATATAAT
1 TTAATAAAA--A-AATATATAAT
49672455 AATATAAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
56 4 0.06
57 32 0.48
58 20 0.30
59 1 0.01
60 10 0.15
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (56 bp):
TTAATAAAAAAATATATAATTTAATAAAATTTTAACAAAATTATTATTAATATAAT
Found at i:49672458 original size:10 final size:10
Alignment explanation
Indices: 49672443--49672474 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
49672433 TACTAAAATC
49672443 ATAATATATA
1 ATAATATATA
*
49672453 ATAATATAAA
1 ATAATATATA
49672463 ATAATATATA
1 ATAATATATA
49672473 AT
1 AT
49672475 CTACTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATATATA
Found at i:49673801 original size:38 final size:38
Alignment explanation
Indices: 49673757--49673832 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
49673747 TTGAGAAAAG
* *
49673757 GGGAAAAAATAGCAATTACTTTACCAAAATGGATCCCA
1 GGGAAAAAAGAGCAACTACTTTACCAAAATGGATCCCA
49673795 GGGAAAAAAGAGCAACTACTTTACCAAAATGGATCCCA
1 GGGAAAAAAGAGCAACTACTTTACCAAAATGGATCCCA
49673833 ATACAAGAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (38 bp):
GGGAAAAAAGAGCAACTACTTTACCAAAATGGATCCCA
Found at i:49675180 original size:11 final size:11
Alignment explanation
Indices: 49675116--49675180 Score: 61
Period size: 12 Copynumber: 6.3 Consensus size: 11
49675106 AAAACAAAAA
49675116 TTTAAAAAGTAT
1 TTTAAAAA-TAT
49675128 TTTAAAAATAT
1 TTTAAAAATAT
49675139 TTT--AAA-A-
1 TTTAAAAATAT
*
49675146 -TTAAAAA-AA
1 TTTAAAAATAT
49675155 TTTAAAAAGTAT
1 TTTAAAAA-TAT
49675167 TTTAAAAATAT
1 TTTAAAAATAT
49675178 TTT
1 TTT
49675181 TAAATTAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
6 2 0.04
8 5 0.11
9 3 0.07
10 7 0.15
11 12 0.26
12 17 0.37
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:49675184 original size:12 final size:12
Alignment explanation
Indices: 49675116--49675145 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
49675106 AAAACAAAAA
49675116 TTTAAAAAGTAT
1 TTTAAAAAGTAT
49675128 TTTAAAAA-TAT
1 TTTAAAAAGTAT
49675139 TTTAAAA
1 TTTAAAA
49675146 TTAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (12 bp):
TTTAAAAAGTAT
Found at i:49675215 original size:11 final size:11
Alignment explanation
Indices: 49675201--49675226 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49675191 AAATTAAAAA
49675201 AAAAGTATTTT
1 AAAAGTATTTT
49675212 AAAAGTATTTT
1 AAAAGTATTTT
49675223 AAAA
1 AAAA
49675227 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:49676973 original size:41 final size:41
Alignment explanation
Indices: 49676916--49677070 Score: 229
Period size: 41 Copynumber: 3.8 Consensus size: 41
49676906 AGACCATTCG
49676916 GGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCT
1 GGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCT
* * *
49676957 GGGCTTTAGCGGCATTTTTTGTAAAGTGCCGCTAATGCTCT
1 GGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCT
* * * *
49676998 GGGCTTTAGCGGCGTTTTTTGTAAAGCTCCGCTAATGCTCT
1 GGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCT
* *
49677039 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 GGGCTTTAGCGGCATTTTTGGAAAAGCGCCGC
49677071 AAAAACATTT
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.32
Consensus pattern (41 bp):
GGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCT
Found at i:49677409 original size:14 final size:14
Alignment explanation
Indices: 49677398--49677435 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
49677388 AGGGTTTAAT
49677398 ATATATGGTTTAGG
1 ATATATGGTTTAGG
*
49677412 GTATATGGTTTAGG
1 ATATATGGTTTAGG
49677426 ATATATGGTT
1 ATATATGGTT
49677436 AATTTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (14 bp):
ATATATGGTTTAGG
Found at i:49677553 original size:14 final size:14
Alignment explanation
Indices: 49677522--49677586 Score: 78
Period size: 14 Copynumber: 4.6 Consensus size: 14
49677512 GGGTTCTAGT
*
49677522 TTAAGGGTT-GTGA
1 TTAAGGGTTAGGGA
49677535 TTTAAGGGTTAGGGA
1 -TTAAGGGTTAGGGA
*
49677550 TTAAGGGTTAGAGA
1 TTAAGGGTTAGGGA
*
49677564 TTAAGAGTTAGGGA
1 TTAAGGGTTAGGGA
*
49677578 TTTAGGGTT
1 TTAAGGGTT
49677587 TATGGATTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
14 41 0.93
15 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGA
Found at i:49677553 original size:28 final size:28
Alignment explanation
Indices: 49677522--49677586 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
49677512 GGGTTCTAGT
* *
49677522 TTAAGGGTT-GTGATTTAAGGGTTAGGGA
1 TTAAGGGTTAGAGA-TTAAGAGTTAGGGA
49677550 TTAAGGGTTAGAGATTAAGAGTTAGGGA
1 TTAAGGGTTAGAGATTAAGAGTTAGGGA
*
49677578 TTTAGGGTT
1 TTAAGGGTT
49677587 TATGGATTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 30 0.91
29 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (28 bp):
TTAAGGGTTAGAGATTAAGAGTTAGGGA
Found at i:49677683 original size:74 final size:77
Alignment explanation
Indices: 49677603--49677746 Score: 204
Period size: 74 Copynumber: 1.9 Consensus size: 77
49677593 TTTGATGTCA
* * *
49677603 GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTATTT-TAA-TT-TATATTAAATAAGGTTTAAGG
1 GGTTAGGATTTAAGGTTTAGATTAATTAGTATATTTCTAATTTATATATTAAATAAAGTTTAAGG
49677665 GTTAGGTATTCG
66 GTTAGGTATTCG
* * * *
49677677 GGTTAGGATTTAGGGTTTAGATTAATTAGTATTTTTCTAATTTATATATTTAATAAAGTTTAGGG
1 GGTTAGGATTTAAGGTTTAGATTAATTAGTATATTTCTAATTTATATATTAAATAAAGTTTAAGG
49677742 GTTAG
66 GTTAG
49677747 TAGTTAGGGG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
74 32 0.53
75 3 0.05
76 2 0.03
77 23 0.38
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (77 bp):
GGTTAGGATTTAAGGTTTAGATTAATTAGTATATTTCTAATTTATATATTAAATAAAGTTTAAGG
GTTAGGTATTCG
Found at i:49677759 original size:7 final size:7
Alignment explanation
Indices: 49677736--49677793 Score: 55
Period size: 7 Copynumber: 8.3 Consensus size: 7
49677726 TTAATAAAGT
49677736 TTAGGGG
1 TTAGGGG
**
49677743 TTAGTAG
1 TTAGGGG
49677750 TTAGGGG
1 TTAGGGG
**
49677757 TTAAAGG
1 TTAGGGG
*
49677764 TTTGGGG
1 TTAGGGG
49677771 TTAGGGG
1 TTAGGGG
49677778 TT-GGAGG
1 TTAGG-GG
49677785 TTAGGGG
1 TTAGGGG
49677792 TT
1 TT
49677794 TGTGGTTAGT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
6 2 0.05
7 35 0.90
8 2 0.05
ACGTcount: A:0.17, C:0.00, G:0.48, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:49677779 original size:14 final size:14
Alignment explanation
Indices: 49677734--49677802 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
49677724 ATTTAATAAA
**
49677734 GTTTAGGGGTTAGTA
1 GTTT-GGGGTTAGGG
* **
49677749 GTTAGGGGTTAAAG
1 GTTTGGGGTTAGGG
49677763 GTTTGGGGTTAGGG
1 GTTTGGGGTTAGGG
49677777 G-TTGGAGGTTAGGG
1 GTTTGG-GGTTAGGG
*
49677791 GTTTGTGGTTAG
1 GTTTGGGGTTAG
49677803 TGATTTAGGG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
13 4 0.09
14 34 0.77
15 6 0.14
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (14 bp):
GTTTGGGGTTAGGG
Found at i:49677800 original size:21 final size:21
Alignment explanation
Indices: 49677749--49677793 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
49677739 GGGGTTAGTA
** *
49677749 GTTAGGGGTTAAAGGTTTGGG
1 GTTAGGGGTTGGAGGTTAGGG
49677770 GTTAGGGGTTGGAGGTTAGGG
1 GTTAGGGGTTGGAGGTTAGGG
49677791 GTT
1 GTT
49677794 TGTGGTTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.33
Consensus pattern (21 bp):
GTTAGGGGTTGGAGGTTAGGG
Found at i:49681257 original size:28 final size:28
Alignment explanation
Indices: 49681215--49681275 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
49681205 ATTCTTTTCT
*
49681215 TTTGACAAAGAACTT-GAGGTTGAACTGA
1 TTTGACAAAGAACTTGGA-GTTGAACTAA
* *
49681243 TTTGACTAAGGACTTGGAGTTGAACTAA
1 TTTGACAAAGAACTTGGAGTTGAACTAA
49681271 TTTGA
1 TTTGA
49681276 TTCTTGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (28 bp):
TTTGACAAAGAACTTGGAGTTGAACTAA
Found at i:49681294 original size:5 final size:5
Alignment explanation
Indices: 49681284--49681310 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
49681274 GATTCTTGTT
49681284 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
49681311 GGCAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:49682161 original size:43 final size:43
Alignment explanation
Indices: 49682107--49682336 Score: 280
Period size: 43 Copynumber: 5.3 Consensus size: 43
49682097 AGTTTATGTT
** *
49682107 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTTGGGAGAAGCGCCGCTAAAGGTCTTGGTC
* * ** * * *
49682150 TATAGTGGCGTTTTTGATAAAAGCGTCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTTGGGAGAAGCGCCGCTAAAGGTCTTGGTC
* * * *
49682193 TTTAGCGGCATTTATGGGAAAAGTGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTTTGGGAGAAGCGCCGCTAAAGGTCTTGGTC
* *
49682236 TTTAGCGGCGTTTGTGGGAGAAGCGCCGTTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTTTGGGAGAAGCGCCGCTAAAGGTCTTGGTC
* * * *
49682279 TTTAGCAGTGTTTGTGGGAGAAGCGCTGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTTTGGGAGAAGCGCCGCTAAAGGTCTTGGTC
49682322 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
49682337 AGAAAAAAAA
Statistics
Matches: 161, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 161 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGGAGAAGCGCCGCTAAAGGTCTTGGTC
Found at i:49682428 original size:22 final size:22
Alignment explanation
Indices: 49682400--49682441 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
49682390 GGCGCTTTGC
*
49682400 AAAGCGCCGCTAAAGGCCTAAA
1 AAAGCGCCGCTAAAAGCCTAAA
49682422 AAAGCGCCGCTAAAAGCCTA
1 AAAGCGCCGCTAAAAGCCTA
49682442 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAGCGCCGCTAAAAGCCTAAA
Found at i:49684412 original size:19 final size:19
Alignment explanation
Indices: 49684388--49684432 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
49684378 TTTTTCTTTT
49684388 TGCATT-CATTCCATACATA
1 TGCATTACATTCCAT-CATA
*
49684407 TGCATTACATTGCATCATA
1 TGCATTACATTCCATCATA
49684426 TGCATTA
1 TGCATTA
49684433 GATTTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (19 bp):
TGCATTACATTCCATCATA
Found at i:49687230 original size:9 final size:9
Alignment explanation
Indices: 49687170--49687231 Score: 63
Period size: 9 Copynumber: 7.0 Consensus size: 9
49687160 GTGAAGGCAA
49687170 AAAAAAAAC
1 AAAAAAAAC
* *
49687179 CAAAAACAC
1 AAAAAAAAC
*
49687188 AAAAATAA-
1 AAAAAAAAC
*
49687196 AAAAAGAAC
1 AAAAAAAAC
* *
49687205 AAAAGAGAC
1 AAAAAAAAC
49687214 AAAAAAAAC
1 AAAAAAAAC
49687223 AAAAAAAAC
1 AAAAAAAAC
49687232 CTCTACTGGG
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
8 7 0.17
9 34 0.83
ACGTcount: A:0.81, C:0.13, G:0.05, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:49688722 original size:24 final size:24
Alignment explanation
Indices: 49688690--49688747 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
49688680 ATGTCCCTAA
49688690 ATTACAGTGGACTGAACCTTGAAG
1 ATTACAGTGGACTGAACCTTGAAG
* * *
49688714 ATTATAGTGGATTGAACTTTGAAG
1 ATTACAGTGGACTGAACCTTGAAG
49688738 ATTACAGTGG
1 ATTACAGTGG
49688748 GGCAGTCCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (24 bp):
ATTACAGTGGACTGAACCTTGAAG
Found at i:49689202 original size:100 final size:100
Alignment explanation
Indices: 49689050--49689842 Score: 1255
Period size: 100 Copynumber: 7.9 Consensus size: 100
49689040 GTAGTGGAGC
** * * *
49689050 AGATTGAAGCTACAACGGCAAATCTTACTTTCCA-GGTGATGCAGTGGGGCAGATTAAAGCTACA
1 AGATTGAAGCCGCAACGGCGAATCTTAC-TTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACA
* *
49689114 ACGACGAATCTTGCTTCCTCGACATTGCAATTTAAA
65 ACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
* *
49689150 AGATTGAGGCTGCAACGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAA
* *
49689215 CGGTGAATCTTGTTTCCCCGACATTGCAATTTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
*
49689250 AGATTGAAGCCGCAAAGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAA
* * *
49689315 CAGTGAATCTTGTTTCCCCGACATTGCAATTTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
* *
49689350 AGATTGAAGCCGCAAAGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTGAAGCTACAA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAA
*
49689415 CGGCGAATCTTGCTTCCTCGACATTGCAATTTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
*
49689450 AGATTGAGGCCGCAACGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAA
*
49689515 CGGCGAATCTTGCTTCCCTGACATTGCAATTTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
* * *
49689550 AGATTGAAGCCGCAAAGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTGAAGCTATAA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAA
*
49689615 CGGTGAATCTTGCTTCCCCGACATTGCAATTTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
* * *
49689650 AGATTGAAGCTGCAATGGCGAATCTTACTTCCATGGCGATGTAGTGGAGCAGATTAAAGCTACAA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAA
49689715 CGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
* * * * * *
49689750 AGATTGAACCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTTACAA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAA
**
49689815 CGGCGAATCTTATTTCCCCGACATTGCA
66 CGGCGAATCTTGCTTCCCCGACATTGCA
49689843 GTCAATTTGA
Statistics
Matches: 646, Mismatches: 46, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
99 5 0.01
100 641 0.99
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAA
CGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
Found at i:49689990 original size:82 final size:82
Alignment explanation
Indices: 49689898--49690347 Score: 544
Period size: 82 Copynumber: 5.5 Consensus size: 82
49689888 AGCGGATTAA
*
49689898 AACCAGAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAAGC
1 AACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAAGC
49689963 AGTAGTGGAGCAAACAG
66 AGTAGTGGAGCAAACAG
49689980 AACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAAGC
1 AACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAAGC
* *
49690045 AGTAGTGGAGTAGACAG
66 AGTAGTGGAGCAAACAG
*
49690062 AACCACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAAGC
1 AACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAAGC
*
49690127 AGTAGTGGAGCAGACAG
66 AGTAGTGGAGCAAACAG
* * * ** *
49690144 AACCATAAATCTTATCTCCCTAAGCAGTAGTGGAGCAAACATAACCACATA-TCTTATCTCCCTA
1 AACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGC--AGATCGCCTCA-AGTCTTATCTCCCTA
* *
49690208 AGCAGTAGTGGAGTAGATC-G
63 AGCAGTAGTGGAGCA-AACAG
* * * *
49690228 --CCTCA-AGTCTTATCTCCCTAAGCAGTAGTGGAGCA-AACAGAAC-CACAGATCTTATCTCTC
1 AACCACAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-G-CCTCA-AG-TCTTATCTCCC
* *
49690288 AAAGCAGTAGTGGAGCAGATC-G
61 TAAGCAGTAGTGGAGCA-AACAG
*
49690310 --CCTCA-AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 AACCACAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
49690348 GAAATAAACC
Statistics
Matches: 332, Mismatches: 26, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
79 1 0.00
80 4 0.01
81 2 0.01
82 287 0.86
83 1 0.00
84 35 0.11
85 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (82 bp):
AACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAAGC
AGTAGTGGAGCAAACAG
Found at i:49690259 original size:206 final size:204
Alignment explanation
Indices: 49689907--49690347 Score: 751
Period size: 206 Copynumber: 2.2 Consensus size: 204
49689897 AAACCAGAGA
*
49689907 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAATCTTATCTCCCTAAGCAGTAGTGGA
49689972 GCAAACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCT
66 GCAAACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCT
* * * *
49690037 CCCTAAGCAGTAGTGGAGTAGACAGAACCACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGAT
131 CCCTAAGCAGTAGTGGAGCAAACAGAACCACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGAT
49690102 CGCCTCAAG
196 CGCCTCAAG
49690111 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCAT-AAATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-G--CC-TCAAATCTTATCTCCCTAAGCAGTAG
* * *
49690174 TGGAGCAAACATAACCACATATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCCTCAAGTCTT
62 TGGAGCAAACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTT
*
49690239 ATCTCCCTAAGCAGTAGTGGAGCAAACAGAACCACAGATCTTATCTCTCAAAGCAGTAGTGGAGC
127 ATCTCCCTAAGCAGTAGTGGAGCAAACAGAACCACAGATCTTATCTCCCAAAGCAGTAGTGGAGC
49690304 AGATCGCCTCAAG
192 AGATCGCCTCAAG
49690317 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
49690348 GAAATAAACC
Statistics
Matches: 223, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
203 1 0.00
204 31 0.14
206 190 0.85
207 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (204 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAATCTTATCTCCCTAAGCAGTAGTGGA
GCAAACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCT
CCCTAAGCAGTAGTGGAGCAAACAGAACCACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGAT
CGCCTCAAG
Found at i:49690719 original size:19 final size:19
Alignment explanation
Indices: 49690679--49690719 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
49690669 CTTAGCCTAG
*
49690679 CAAAACCCAATATCCAAAA
1 CAAAACCCAATACCCAAAA
49690698 CAAAACCCAA-ACCCAAATA
1 CAAAACCCAATACCCAAA-A
49690717 CAA
1 CAA
49690720 CTAAACCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.59, C:0.34, G:0.00, T:0.07
Consensus pattern (19 bp):
CAAAACCCAATACCCAAAA
Found at i:49692368 original size:43 final size:43
Alignment explanation
Indices: 49692312--49692403 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
49692302 GCGTTTACAA
* * *
49692312 AAAAAAAAAGCCGCTAAAGACCATGTTCTTTTGCGGCGCTTTG
1 AAAAAAAAAGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* *
49692355 AAAAAAAACGCCGCTACAGAACATGTTCTTTAGCGGCGCTTAG
1 AAAAAAAAAGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
49692398 AAAAAA
1 AAAAAA
49692404 TGCCACTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (43 bp):
AAAAAAAAAGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
Found at i:49692758 original size:21 final size:21
Alignment explanation
Indices: 49692709--49692758 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
49692699 TTTTGGCCTG
*
49692709 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
49692730 TTCCGCTTCCCTCGCTGCCA-C
1 CTCTGCTTCCCTCGCTG-CAGC
49692751 CTCTGCTT
1 CTCTGCTT
49692759 TAAGTTGTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.04, C:0.46, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:49698297 original size:25 final size:25
Alignment explanation
Indices: 49698266--49698370 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
49698256 TAATATATAT
*
49698266 TTATGTATTAAGTAAATTATGTAGG
1 TTATGTATTAAGTAAATTATGTAAG
*
49698291 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAATTATGTAAG
* *
49698317 TTTTGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
49698342 TTGTGTATTATGTAACTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
49698367 TTAT
1 TTAT
49698371 CAAAGTAATG
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.02
24 2 0.03
25 42 0.65
26 17 0.26
27 2 0.03
28 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:49698316 original size:9 final size:9
Alignment explanation
Indices: 49698277--49698527 Score: 157
Period size: 9 Copynumber: 28.8 Consensus size: 9
49698267 TATGTATTAA
*
49698277 GTAAATTAT
1 GTAAGTTAT
*
49698286 GTAGGTTAT
1 GTAAGTTAT
*
49698295 GTACGTGTA-
1 GTAAGT-TAT
49698304 -TAAGTTAT
1 GTAAGTTAT
*
49698312 GTAAGTTTT
1 GTAAGTTAT
*
49698321 GT-A-TTAA
1 GTAAGTTAT
**
49698328 GTAAACTAT
1 GTAAGTTAT
*
49698337 GTAAGTTGT
1 GTAAGTTAT
49698346 GT-A-TTAT
1 GTAAGTTAT
*
49698353 GTAACTTAT
1 GTAAGTTAT
49698362 GTAAGTTAT
1 GTAAGTTAT
** *
49698371 CAAAGTAAT
1 GTAAGTTAT
*
49698380 GTATGTTAT
1 GTAAGTTAT
49698389 GTAAG-T-T
1 GTAAGTTAT
49698396 GTAAGTTAT
1 GTAAGTTAT
*
49698405 -TATGTATTAT
1 GTAAG--TTAT
* * *
49698415 ATAACTTCT
1 GTAAGTTAT
49698424 GTAAGTTAT
1 GTAAGTTAT
49698433 GTAAGTTAT
1 GTAAGTTAT
*
49698442 GTAAGTTGT
1 GTAAGTTAT
*
49698451 GTAAGCTAT
1 GTAAGTTAT
* *
49698460 TTTAGTTAT
1 GTAAGTTAT
49698469 GTAAGCTT-T
1 GTAAG-TTAT
49698478 GT-A-TTAT
1 GTAAGTTAT
49698485 GTAAGTTAT
1 GTAAGTTAT
* *
49698494 GTAGGTTAA
1 GTAAGTTAT
*
49698503 GTAAGTTGT
1 GTAAGTTAT
*
49698512 GTAAATTAT
1 GTAAGTTAT
49698521 GTAAGTT
1 GTAAGTT
49698528 CTTGTACATA
Statistics
Matches: 181, Mismatches: 45, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
6 2 0.01
7 20 0.11
8 15 0.08
9 134 0.74
10 8 0.04
11 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:49698730 original size:53 final size:53
Alignment explanation
Indices: 49698672--49698807 Score: 184
Period size: 53 Copynumber: 2.6 Consensus size: 53
49698662 TTTATAGCGG
*
49698672 GTAATGTATTCAAGTAACATATTTAAGTATAAAATTTAACCAAATTTTAGTAA
1 GTAATGTATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* * * *
49698725 TTAATGTA-ACTGAGTAACATATTTAAGTAAAAAATTTAACGAAATTTTAGTAA
1 GTAATGTATTC-AAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* **
49698778 GTAATGTATTTAAGTAATTTATTTAAGTAA
1 GTAATGTATTCAAGTAACATATTTAAGTAA
49698808 TATATTCAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.01
53 69 0.99
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (53 bp):
GTAATGTATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
Found at i:49698793 original size:13 final size:13
Alignment explanation
Indices: 49698775--49698826 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
49698765 GAAATTTTAG
*
49698775 TAAGTAATGTATT
1 TAAGTAATATATT
*
49698788 TAAGTAATTTATT
1 TAAGTAATATATT
49698801 TAAGTAATATATT
1 TAAGTAATATATT
*
49698814 CAAGTAATATATT
1 TAAGTAATATATT
49698827 AAGAGTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:49699009 original size:100 final size:100
Alignment explanation
Indices: 49698896--49699507 Score: 1091
Period size: 100 Copynumber: 6.1 Consensus size: 100
49698886 ATACTTAAAA
*
49698896 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
*
49698961 CAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* *
49698996 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATCTTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
49699061 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
49699096 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
49699161 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* *
49699196 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
49699261 TAATAAGTTAAATTAAATTGTAAAAATATTAACATAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAAC--AT
*
49699298 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
49699363 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
** *
49699398 ATATATATTCCCA-TAATGTAATATATAAATTTTAAAAAATTATATTTGAACAATATATGTATTA
1 ATATATATT-TAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTA
*
49699462 GTAATAAGTTAAATTAAATTTTAAAAATATTAACAT
65 GTAATAAGTTAAATTAAATTGTAAAAATATTAACAT
49699498 ATATATATTT
1 ATATATATTT
49699508 TTAATATTAA
Statistics
Matches: 492, Mismatches: 17, Indels: 7
0.95 0.03 0.01
Matches are distributed among these distances:
100 394 0.80
101 1 0.00
102 97 0.20
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (100 bp):
ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
Found at i:49699346 original size:202 final size:202
Alignment explanation
Indices: 49698896--49699511 Score: 1094
Period size: 202 Copynumber: 3.1 Consensus size: 202
49698886 ATACTTAAAA
*
49698896 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
* *
49698961 CAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTCATGTAATATATAAAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTAATGTAATATATAAAT
*
49699026 TTTAAAAAATTATCTTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATT
131 TTTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATT
49699091 AAC--AT
196 AACATAT
49699096 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
*
49699161 TAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTAATGTAACATATAAAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTAATGTAATATATAAAT
*
49699226 TTTGAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATT
131 TTTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATT
49699291 AACATAT
196 AACATAT
*
49699298 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
**
49699363 TAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTCCCA-TAATGTAATATATAAA
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATT-TAAGTAATGTAATATATAAA
* *
49699427 TTTTAAAAAATTATATTTGAACAATATATGTATTAGTAATAAGTTAAATTAAATTTTAAAAATAT
130 TTTTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATAT
49699492 TAACATAT
195 TAACATAT
*
49699500 ATATATTTTTAA
1 ATATATATTTAA
49699512 TATTAATAAG
Statistics
Matches: 399, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
200 192 0.48
202 206 0.52
203 1 0.00
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (202 bp):
ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
TAATAAGTTAAATTAAATTGTAAAAATATTAACATATATATATTTAAGTAATGTAATATATAAAT
TTTAAAAAATTATATTCGAACAATATATGTATTAGTAATAAGTTAAATTAAATTGTAAAAATATT
AACATAT
Found at i:49699933 original size:7 final size:7
Alignment explanation
Indices: 49699908--49699987 Score: 106
Period size: 7 Copynumber: 11.3 Consensus size: 7
49699898 CACTTCATTC
49699908 AACAGAA
1 AACAGAA
*
49699915 AATAGCAA
1 AACAG-AA
49699923 AACAGAA
1 AACAGAA
*
49699930 AACAAAA
1 AACAGAA
*
49699937 AATAGAA
1 AACAGAA
49699944 AACAGAA
1 AACAGAA
49699951 AACAGAA
1 AACAGAA
**
49699958 TGCAGAA
1 AACAGAA
49699965 AACAGAA
1 AACAGAA
49699972 AACAGAA
1 AACAGAA
49699979 AACAGAA
1 AACAGAA
49699986 AA
1 AA
49699988 TAAAGAAACA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
7 56 0.90
8 6 0.10
ACGTcount: A:0.70, C:0.12, G:0.14, T:0.04
Consensus pattern (7 bp):
AACAGAA
Found at i:49700033 original size:18 final size:19
Alignment explanation
Indices: 49699991--49700034 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
49699981 CAGAAAATAA
*
49699991 AGAAACATAAAAATGGTAC
1 AGAAACATAAAAATGCTAC
* *
49700010 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAC
49700028 AGAAACA
1 AGAAACA
49700035 GAAATTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAC
Found at i:49700804 original size:10 final size:10
Alignment explanation
Indices: 49700789--49700813 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
49700779 TTCGACATGG
49700789 TTTTGAACAA
1 TTTTGAACAA
49700799 TTTTGAACAA
1 TTTTGAACAA
49700809 TTTTG
1 TTTTG
49700814 CAATTTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (10 bp):
TTTTGAACAA
Done.