Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 156 of 170
Found at i:46346426 original size:51 final size:51
Alignment explanation
Indices: 46346347--46346449 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
46346337 CTAATTAGTA
46346347 ACAAGTGAAAAGTAGTAGCTTCAACTACACTTATCTAATCAGTGACAAGTG
1 ACAAGTGAAAAGTAGTAGCTTCAACTACACTTATCTAATCAGTGACAAGTG
* * * *
46346398 ACAAGTGATAAA-TGGTAGCTTTAGCTACACTTATCTTATCAGTGACAAGTG
1 ACAAGTGA-AAAGTAGTAGCTTCAACTACACTTATCTAATCAGTGACAAGTG
46346449 A
1 A
46346450 TAAATATGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
51 44 0.94
52 3 0.06
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (51 bp):
ACAAGTGAAAAGTAGTAGCTTCAACTACACTTATCTAATCAGTGACAAGTG
Found at i:46349640 original size:14 final size:14
Alignment explanation
Indices: 46349621--46349654 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46349611 TAAGACAGAG
46349621 ACCAATCCAAACCA
1 ACCAATCCAAACCA
**
46349635 ACCAATCCAATTCA
1 ACCAATCCAAACCA
46349649 ACCAAT
1 ACCAAT
46349655 TTGATACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (14 bp):
ACCAATCCAAACCA
Found at i:46350290 original size:7 final size:7
Alignment explanation
Indices: 46350278--46350314 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
46350268 CTAAAGCTAC
46350278 CACTTGT
1 CACTTGT
46350285 CACTTGT
1 CACTTGT
46350292 CACTTGT
1 CACTTGT
*
46350299 CATTTGT
1 CACTTGT
46350306 CACTTGT
1 CACTTGT
46350313 CA
1 CA
46350315 TTGATCAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.16, C:0.27, G:0.14, T:0.43
Consensus pattern (7 bp):
CACTTGT
Found at i:46350353 original size:33 final size:33
Alignment explanation
Indices: 46350305--46350367 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
46350295 TTGTCATTTG
* *
46350305 TCACTTGTCATTGATCAGATAAGTGTAGCTAAA
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAA
46350338 TCACTTATCACTGATCAGATAAGTGTAGCT
1 TCACTTATCACTGATCAGATAAGTGTAGCT
46350368 GAAGCTACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (33 bp):
TCACTTATCACTGATCAGATAAGTGTAGCTAAA
Found at i:46355912 original size:15 final size:15
Alignment explanation
Indices: 46355892--46355920 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46355882 TCGCAGCGGC
46355892 AGCAGCCTTCTTCTG
1 AGCAGCCTTCTTCTG
46355907 AGCAGCCTTCTTCT
1 AGCAGCCTTCTTCT
46355921 TGCTCGCGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.34, G:0.17, T:0.34
Consensus pattern (15 bp):
AGCAGCCTTCTTCTG
Found at i:46357996 original size:25 final size:26
Alignment explanation
Indices: 46357966--46358034 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
46357956 ATTTTGAACT
46357966 TATATTATTTATTTTAAATTGTTCTA
1 TATATTATTTATTTTAAATTGTTCTA
* * * *
46357992 T-TATTATTTACTTTAAGTTTTTTTA
1 TATATTATTTATTTTAAATTGTTCTA
**
46358017 TATATTATGCATTTTAAA
1 TATATTATTTATTTTAAA
46358035 CTATATTAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
25 21 0.62
26 13 0.38
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TATATTATTTATTTTAAATTGTTCTA
Found at i:46364109 original size:15 final size:15
Alignment explanation
Indices: 46364089--46364117 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46364079 TTGCAGCGGC
46364089 AGCAGCCTTCTTCTG
1 AGCAGCCTTCTTCTG
46364104 AGCAGCCTTCTTCT
1 AGCAGCCTTCTTCT
46364118 TGCTTGCGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.34, G:0.17, T:0.34
Consensus pattern (15 bp):
AGCAGCCTTCTTCTG
Found at i:46365006 original size:34 final size:33
Alignment explanation
Indices: 46364934--46365003 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
46364924 ATATGTATAC
* * *
46364934 TAAATAACACTAAAATAAATACAACTTAACAAG
1 TAAATATCTCTAAAATAAATACAAATTAACAAG
46364967 TAAATATCTCTAAAAT-AATAACAAAATTAACAA-
1 TAAATATCTCTAAAATAAAT-AC-AAATTAACAAG
46365000 TAAA
1 TAAA
46365004 ATAAATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 3 0.09
33 20 0.62
34 9 0.28
ACGTcount: A:0.61, C:0.13, G:0.01, T:0.24
Consensus pattern (33 bp):
TAAATATCTCTAAAATAAATACAAATTAACAAG
Found at i:46365034 original size:14 final size:14
Alignment explanation
Indices: 46365024--46365058 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
46365014 TACAATATCC
46365024 AAATAATAATAACA
1 AAATAATAATAACA
*
46365038 AAATAATAATTACA
1 AAATAATAATAACA
*
46365052 TAATAAT
1 AAATAAT
46365059 TAAATAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATAATAATAACA
Found at i:46367815 original size:1000 final size:1000
Alignment explanation
Indices: 46365878--46369673 Score: 6956
Period size: 1000 Copynumber: 3.8 Consensus size: 1000
46365868 CGGCAAACAA
* * * *
46365878 CGGTATTTTATTTTTTTGACCGTTGGGTACTATTCACGCGCGGGCCGAAATCGCGGCCTCGTCAG
1 CGGTATTTTATTTTTTTGACCGTTTGGTAGTGTTCACGCGCGGGCCGAAATCGCGGCCACGTCAG
* * *
46365943 CGCGCTTTGCTGACGTGGCCGCGATTTCCTGGCGCATACCCTGATATTACGCTGACATGGACGCG
66 CGCGCTTTGCTGACGTGGCCGCGATTTCCTAGCGCGTACCCTGATATTACGCTGACGTGGACGCG
* *
46366008 ATTTCGCAAAAAATGGACCATTCCGGTAAATAATTAAATAATGGGCCCATTTCGGTAATTTTTGA
131 ATTTCGCAAAAAATGGACCATTCCAGTAAATAATTAAATAATGGGCCCATTTCGATAATTTTTG-
* * * *
46366073 AAAAAAAAGGCTTTTATT-GTTAATTGCCC--TTTTTTGCTCTATTAACCCCTAAAAGCCGAACA
195 AAAAAAAGGGCTTTTATTGGTAAATTGCCCATTTTTTTGCTATATTAACCCCTGAAAGCCGAACA
* * * * *
46366135 TCCCTTTCCCTTTTCCTTTACCTGTTCACTGGCAAAGTTTTATCAGCTATTTCCATCAGCTTCCC
260 TCCCTTTCCCTTTTCCTTTACCTGTTCGCCGGCAAAGTTTTATCAGCTATTTCCACCAACTTTCC
* *
46366200 GTTTCCATTGCTAATCCTACGCCACTAGATCCACCATCTCTTCTGTCGTGGTAATCATCCTCCTC
325 GTTTCCACTGCTAATCCTACGCCACTAGATCCACCATCTCTTCCGTCGTGGTAATCATCCTCCTC
*
46366265 CATCGGGAACATTGGTACTCATGGCCCAGTTTGTCTTCTGTCTCTCTCCACCTCCCTCATAACAA
390 CATCGCGAACATTGGTACTCATGGCCCAGTTTGTCTTCTGTCTCTCTCCACCTCCCTCATAACAA
*
46366330 ATCCCGGCACCTCATCCATAAGGTAAATCATTTCCCCGCTTTTTAGTCCCTCTGTAGCTATAATG
455 ATCCCGGCACCTCATCCATAAGGTAAATCGTTTCCCCGCTTTTTAGTCCCTCTGTAGCTATAATG
46366395 TGTGACGATTAATTTCCCCCTTTAGCAGTGTATAGAAACTTGCAGCTATGGAAACCCTCCCTTAA
520 TGTGACGATTAATTTCCCCCTTTAGCAGTGTATAGAAACTTGCAGCTATGGAAACCCTCCCTTAA
46366460 CTTCTGTATATCCTTGATAATAGCCCCAATAACCGAATCATCTTCCCGATTGCTGCACAACTTTT
585 CTTCTGTATATCCTTGATAATAGCCCCAATAACCGAATCATCTTCCCGATTGCTGCACAACTTTT
46366525 TCACTACTTTTTCACAGCTTTTTAAAACATCGTGTTTAAGTTATTAATACGATTTGTACAAACAT
650 TCACTACTTTTTCACAGCTTTTTAAAACATCGTGTTTAAGTTATTAATACGATTTGTACAAACAT
46366590 GTTTACAAATTGATATATATATGTTTTTAAATATTTTCACGATAAATCCAAGTTATACTTAAACT
715 GTTTACAAATTGATATATATATGTTTTTAAATATTTTCACGATAAATCCAAGTTATACTTAAACT
46366655 AACAAGGTTAAAAAAATATGATTAATTCACGCGTAGATCTCGAAAAGTTAATCGAAATAAAAAAA
780 AACAAGGTTAAAAAAATATGATTAATTCACGCGTAGATCTCGAAAAGTTAATCGAAATAAAAAAA
46366720 ATCGCCTCAATCGGACAACCGAGCGAAAAGTTATGGTCTTTCAAGGTTTTCCAAGCTAAAAAACA
845 ATCGCCTCAATCGGACAACCGAGCGAAAAGTTATGGTCTTTCAAGGTTTTCCAAGCTAAAAAACA
46366785 TAAACTGTTCATGAATTATTACTTCAAAATGCTTTTTTTGGAGGGAAAATACCAAAAAGCCCTAT
910 TAAACTGTTCATGAATTATTACTTCAAAATGCTTTTTTTGGAGGGAAAATACCAAAAAGCCCTAT
46366850 ATTTTTAAAATTTATCGAAATGGGCC
975 ATTTTTAAAATTTATCGAAATGGGCC
46366876 CGGTATTTTATTTTTTTGACCGTTTGGTAGTGTTCACGCGCGGGCCGAAATCGCGGCCACGTCAG
1 CGGTATTTTATTTTTTTGACCGTTTGGTAGTGTTCACGCGCGGGCCGAAATCGCGGCCACGTCAG
*
46366941 CGCGCTTTGCTGACGTGGCCGCGATTTCCTAGCGCGTACCTTGATATTACGCTGACGTGGACGCG
66 CGCGCTTTGCTGACGTGGCCGCGATTTCCTAGCGCGTACCCTGATATTACGCTGACGTGGACGCG
46367006 ATTTCGCAAAAAATGGACCATTCCAGTAAATAATTAAATAATGGGCCCATTTCGATAATTTTTGA
131 ATTTCGCAAAAAATGGACCATTCCAGTAAATAATTAAATAATGGGCCCATTTCGATAATTTTTGA
46367071 AAAAAAGGGCTTTTATTGGTAAATTGCCCATTTTTTTGCTATATTAACCCCTGAAAGCCGAACAT
196 AAAAAAGGGCTTTTATTGGTAAATTGCCCATTTTTTTGCTATATTAACCCCTGAAAGCCGAACAT
* *
46367136 CCCTTTCCCTTTTCCTTTACCTGTTCGCCGGTAAAGTTTTATCAGCTATTTCCACCAACTTTTCG
261 CCCTTTCCCTTTTCCTTTACCTGTTCGCCGGCAAAGTTTTATCAGCTATTTCCACCAACTTTCCG
*
46367201 TTTCCACTGCTAATCCTACGGCACTAGATCCACCATCTCTTCCGTCGTGGTAATCATCCTCCTCC
326 TTTCCACTGCTAATCCTACGCCACTAGATCCACCATCTCTTCCGTCGTGGTAATCATCCTCCTCC
46367266 ATCGCGAACATTGGTACTCATGGCCCAGTTTGTCTTCTGTCTCTCTCCACCTCCCTCATAACAAA
391 ATCGCGAACATTGGTACTCATGGCCCAGTTTGTCTTCTGTCTCTCTCCACCTCCCTCATAACAAA
46367331 TCCCGGCACCTCATCCATAAGGTAAATCGTTTCCCCGCTTTTTAGTCCCTCTGTAGCTATAATGT
456 TCCCGGCACCTCATCCATAAGGTAAATCGTTTCCCCGCTTTTTAGTCCCTCTGTAGCTATAATGT
46367396 GTGACGATTAATTTCCCCCTTTAGCAGTGTATAGAAACTTGCAGCTATGGAAACCCTCCCTTAAC
521 GTGACGATTAATTTCCCCCTTTAGCAGTGTATAGAAACTTGCAGCTATGGAAACCCTCCCTTAAC
*
46367461 TTTTGTATATCCTTGATAATAGCCCCAATAACCGAATCATCTTCCCGATTGCTGCACAACTTTTT
586 TTCTGTATATCCTTGATAATAGCCCCAATAACCGAATCATCTTCCCGATTGCTGCACAACTTTTT
46367526 CACTACTTTTTCACAGCTTTTTAAAACATCGTGTTTAAGTTATTAATACGATTTGTACAAACATG
651 CACTACTTTTTCACAGCTTTTTAAAACATCGTGTTTAAGTTATTAATACGATTTGTACAAACATG
46367591 TTTACAAATTGATATATATATGTTTTTAAATATTTTCACGATAAATCCAAGTTATACTTAAACTA
716 TTTACAAATTGATATATATATGTTTTTAAATATTTTCACGATAAATCCAAGTTATACTTAAACTA
46367656 ACAAGGTTAAAAAAATATGATTAATTCACGCGTAGATCTCGAAAAGTTAATCGAAATAAAAAAAA
781 ACAAGGTTAAAAAAATATGATTAATTCACGCGTAGATCTCGAAAAGTTAATCGAAATAAAAAAAA
46367721 TCGCCTCAATCGGACAACCGAGCGAAAAGTTATGGTCTTTCAAGGTTTTCCAAGCTAAAAAACAT
846 TCGCCTCAATCGGACAACCGAGCGAAAAGTTATGGTCTTTCAAGGTTTTCCAAGCTAAAAAACAT
46367786 AAACTGTTCATGAATTATTACTTCAAAATGCTTTTTTTGGAGGGAAAATACCAAAAAGCCCTATA
911 AAACTGTTCATGAATTATTACTTCAAAATGCTTTTTTTGGAGGGAAAATACCAAAAAGCCCTATA
46367851 TTTTTAAAATTTATCGAAATGGGCC
976 TTTTTAAAATTTATCGAAATGGGCC
*
46367876 CGGTATTTTATTTTTTTGACCGTTTGGTAGTGTTCACGAGCGGGCCGAAATCGCGGCCACGTCAG
1 CGGTATTTTATTTTTTTGACCGTTTGGTAGTGTTCACGCGCGGGCCGAAATCGCGGCCACGTCAG
*
46367941 CGTGCTTTGCTGACGTGGCCGCGATTTCCTAGCGCGTACCCTGATATTACGCTGACGTGGACGCG
66 CGCGCTTTGCTGACGTGGCCGCGATTTCCTAGCGCGTACCCTGATATTACGCTGACGTGGACGCG
*
46368006 ATTTCGCAAAAACTGGACCATTCCAGTAAATAATTAAATAATGGGCCCATTTCGATAATTTTTGA
131 ATTTCGCAAAAAATGGACCATTCCAGTAAATAATTAAATAATGGGCCCATTTCGATAATTTTTGA
46368071 AAAAAAGGGCTTTTATTGGTAAATTGCCCATTTTTTTGCTATATTAACCCCTGAAAGCCGAACAT
196 AAAAAAGGGCTTTTATTGGTAAATTGCCCATTTTTTTGCTATATTAACCCCTGAAAGCCGAACAT
* *
46368136 CCCTTTCCCTTTTCCTTTACCTGTTCGCCGGTAAAGTTTTATCAGCTATTTCCACCAACTTTTCG
261 CCCTTTCCCTTTTCCTTTACCTGTTCGCCGGCAAAGTTTTATCAGCTATTTCCACCAACTTTCCG
*
46368201 TTTCCACTGCTAATCCTACGGCACTAGATCCACCATCTCTTCCGTCGTGGTAATCATCCTCCTCC
326 TTTCCACTGCTAATCCTACGCCACTAGATCCACCATCTCTTCCGTCGTGGTAATCATCCTCCTCC
46368266 ATCGCGAACATTGGTACTCATGGCCCAGTTTGTCTTCTGTCTCTCTCCACCTCCCTCATAACAAA
391 ATCGCGAACATTGGTACTCATGGCCCAGTTTGTCTTCTGTCTCTCTCCACCTCCCTCATAACAAA
46368331 TCCCGGCACCTCATCCATAAGGTAAATCGTTTCCCCGCTTTTTAGTCCCTCTGTAGCTATAATGT
456 TCCCGGCACCTCATCCATAAGGTAAATCGTTTCCCCGCTTTTTAGTCCCTCTGTAGCTATAATGT
46368396 GTGACGATTAATTTCCCCCTTTAGCAGTGTATAGAAACTTGCAGCTATGGAAACCCTCCCTTAAC
521 GTGACGATTAATTTCCCCCTTTAGCAGTGTATAGAAACTTGCAGCTATGGAAACCCTCCCTTAAC
46368461 TTCTGTATATCCTTGATAATAGCCCCAATAACCGAATCATCTTCCCGATTGCTGCACAACTTTTT
586 TTCTGTATATCCTTGATAATAGCCCCAATAACCGAATCATCTTCCCGATTGCTGCACAACTTTTT
46368526 CACTACTTTTTCACAGCTTTTTAAAACATCGTGTTTAAGTTATTAATACGATTTGTACAAACATG
651 CACTACTTTTTCACAGCTTTTTAAAACATCGTGTTTAAGTTATTAATACGATTTGTACAAACATG
46368591 TTTACAAATTGATATATATATGTTTTTAAATATTTTCACGATAAATCCAAGTTATACTTAAACTA
716 TTTACAAATTGATATATATATGTTTTTAAATATTTTCACGATAAATCCAAGTTATACTTAAACTA
46368656 ACAAGGTTAAAAAAATATGATTAATTCACGCGTAGATCTCGAAAAGTTAATCGAAATAAAAAAAA
781 ACAAGGTTAAAAAAATATGATTAATTCACGCGTAGATCTCGAAAAGTTAATCGAAATAAAAAAAA
*
46368721 TCGCCTCAATCGGACAACCGAGCTAAAAGTTATGGTCTTTCAAGGTTTTCCAAGCTAAAAAACAT
846 TCGCCTCAATCGGACAACCGAGCGAAAAGTTATGGTCTTTCAAGGTTTTCCAAGCTAAAAAACAT
46368786 AAACTGTTCATGAATTATTACTTCAAAATGCTTTTTTTGGAGGGAAAATACCAAAAAGCCCTATA
911 AAACTGTTCATGAATTATTACTTCAAAATGCTTTTTTTGGAGGGAAAATACCAAAAAGCCCTATA
46368851 TTTTTAAAATTTATCGAAATGGGCC
976 TTTTTAAAATTTATCGAAATGGGCC
46368876 CGGTATTTTATTTTTTTGACCGTTTGGTAGTGTTCACGCGCGGGCCGAAATCGCGGCCACGTCAG
1 CGGTATTTTATTTTTTTGACCGTTTGGTAGTGTTCACGCGCGGGCCGAAATCGCGGCCACGTCAG
46368941 CGCGCTTTGCTGACGTGGCCGCGATTTCCTAGCGCGTACCCTGATATTACGCTGACGTGGACGCG
66 CGCGCTTTGCTGACGTGGCCGCGATTTCCTAGCGCGTACCCTGATATTACGCTGACGTGGACGCG
46369006 ATTTCGCAAAAAATGGACCATTCCAGTAAATAATTAAATAATGGGCCCATTTCGATAATTTTTGA
131 ATTTCGCAAAAAATGGACCATTCCAGTAAATAATTAAATAATGGGCCCATTTCGATAATTTTTGA
* * * * *
46369071 AAAAAAGGGTTTTTAGTGGTAAATTGCTCGTTTTTTTGCTCTATTAACCCCTGAAAGCCGAACAT
196 AAAAAAGGGCTTTTATTGGTAAATTGCCCATTTTTTTGCTATATTAACCCCTGAAAGCCGAACAT
* *
46369136 CCCTTTCCCTTTTCCTTTACCTGTTCGCCGGCAAAGTTTTATCAGCTATTTCCATCAGCTTTCCG
261 CCCTTTCCCTTTTCCTTTACCTGTTCGCCGGCAAAGTTTTATCAGCTATTTCCACCAACTTTCCG
* *
46369201 TTTCCACTGCTAATCCTACGCCACTAGATCCACCATCTCTTCTGTTGTGGTAATCATCCTCCTCC
326 TTTCCACTGCTAATCCTACGCCACTAGATCCACCATCTCTTCCGTCGTGGTAATCATCCTCCTCC
* * * *
46369266 ATCGGGAACATTGATACTCATGACCCAGTTTGTGTTCTGTCTCTCTCCACCTCCCTCATAACAAA
391 ATCGCGAACATTGGTACTCATGGCCCAGTTTGTCTTCTGTCTCTCTCCACCTCCCTCATAACAAA
*
46369331 TCCCGGCACCTCATCCATAAGGTAAATCGTTTCCCCGCTTTTTAGTCCCTCTGTAGCCATAATGT
456 TCCCGGCACCTCATCCATAAGGTAAATCGTTTCCCCGCTTTTTAGTCCCTCTGTAGCTATAATGT
* * *
46369396 GTGACGATTCATTTCCCCCCTTAGCAGTGTATATAAACTTGCAGCTATGGAAACCCTCCCTTAAC
521 GTGACGATTAATTTCCCCCTTTAGCAGTGTATAGAAACTTGCAGCTATGGAAACCCTCCCTTAAC
*
46369461 CTCTGTATATCCTTGATAATAGCCCCAATAACCGAATCATCTTCCCGATTGCTG--C-A------
586 TTCTGTATATCCTTGATAATAGCCCCAATAACCGAATCATCTTCCCGATTGCTGCACAACTTTTT
46369517 CA--AC-TTTTCACAGCTTTTTAAAACATCGTGTTTAAGTTATTAATACGATTTGTACAAACATG
651 CACTACTTTTTCACAGCTTTTTAAAACATCGTGTTTAAGTTATTAATACGATTTGTACAAACATG
* *
46369579 TTTACAAATTTATATATATATGTTTTTACATATTTTCACGATAAATCCAAGTTATACTTAAACTA
716 TTTACAAATTGATATATATATGTTTTTAAATATTTTCACGATAAATCCAAGTTATACTTAAACTA
* *
46369644 ACAAGATTAAAAGAAAATCTGATTAATTCA
781 ACAAGGTT-AAA-AAAATATGATTAATTCA
46369674 TTGTTGATAT
Statistics
Matches: 2732, Mismatches: 61, Indels: 18
0.97 0.02 0.01
Matches are distributed among these distances:
988 128 0.05
989 5 0.00
990 16 0.01
991 2 0.00
997 18 0.01
998 195 0.07
1000 2368 0.87
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (1000 bp):
CGGTATTTTATTTTTTTGACCGTTTGGTAGTGTTCACGCGCGGGCCGAAATCGCGGCCACGTCAG
CGCGCTTTGCTGACGTGGCCGCGATTTCCTAGCGCGTACCCTGATATTACGCTGACGTGGACGCG
ATTTCGCAAAAAATGGACCATTCCAGTAAATAATTAAATAATGGGCCCATTTCGATAATTTTTGA
AAAAAAGGGCTTTTATTGGTAAATTGCCCATTTTTTTGCTATATTAACCCCTGAAAGCCGAACAT
CCCTTTCCCTTTTCCTTTACCTGTTCGCCGGCAAAGTTTTATCAGCTATTTCCACCAACTTTCCG
TTTCCACTGCTAATCCTACGCCACTAGATCCACCATCTCTTCCGTCGTGGTAATCATCCTCCTCC
ATCGCGAACATTGGTACTCATGGCCCAGTTTGTCTTCTGTCTCTCTCCACCTCCCTCATAACAAA
TCCCGGCACCTCATCCATAAGGTAAATCGTTTCCCCGCTTTTTAGTCCCTCTGTAGCTATAATGT
GTGACGATTAATTTCCCCCTTTAGCAGTGTATAGAAACTTGCAGCTATGGAAACCCTCCCTTAAC
TTCTGTATATCCTTGATAATAGCCCCAATAACCGAATCATCTTCCCGATTGCTGCACAACTTTTT
CACTACTTTTTCACAGCTTTTTAAAACATCGTGTTTAAGTTATTAATACGATTTGTACAAACATG
TTTACAAATTGATATATATATGTTTTTAAATATTTTCACGATAAATCCAAGTTATACTTAAACTA
ACAAGGTTAAAAAAATATGATTAATTCACGCGTAGATCTCGAAAAGTTAATCGAAATAAAAAAAA
TCGCCTCAATCGGACAACCGAGCGAAAAGTTATGGTCTTTCAAGGTTTTCCAAGCTAAAAAACAT
AAACTGTTCATGAATTATTACTTCAAAATGCTTTTTTTGGAGGGAAAATACCAAAAAGCCCTATA
TTTTTAAAATTTATCGAAATGGGCC
Found at i:46376598 original size:15 final size:16
Alignment explanation
Indices: 46376578--46376614 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
46376568 TAATTCCATA
46376578 TTAAAA-CATATAAAT
1 TTAAAATCATATAAAT
*
46376593 TTAAAATCATATATAT
1 TTAAAATCATATAAAT
46376609 TTAAAA
1 TTAAAA
46376615 ACTTTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAAATCATATAAAT
Found at i:46392481 original size:52 final size:49
Alignment explanation
Indices: 46392396--46392762 Score: 449
Period size: 46 Copynumber: 7.6 Consensus size: 49
46392386 TTTGAGTACT
* ** *
46392396 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
46392442 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
46392494 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
46392540 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
46392592 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
46392638 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
46392690 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
46392736 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
46392763 GCTGCACTTA
Statistics
Matches: 291, Mismatches: 12, Indels: 36
0.86 0.04 0.11
Matches are distributed among these distances:
46 154 0.53
48 2 0.01
49 5 0.02
50 3 0.01
52 127 0.44
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:46392516 original size:98 final size:98
Alignment explanation
Indices: 46392396--46392751 Score: 604
Period size: 98 Copynumber: 3.6 Consensus size: 98
46392386 TTTGAGTACT
* *
46392396 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
46392461 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
46392494 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
46392559 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
46392592 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
46392657 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * * *
46392690 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
46392752 AGTGATAAGT
Statistics
Matches: 246, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 246 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:46392774 original size:37 final size:37
Alignment explanation
Indices: 46392726--46392833 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
46392716 GATAGCTTTA
46392726 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
46392763 GCTGCACTTATCTGATCAAGAAACAAAGTGAT-AGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
46392799 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
46392834 ATCATACGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
34 7 0.11
35 8 0.12
36 20 0.31
37 30 0.46
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:46401876 original size:18 final size:17
Alignment explanation
Indices: 46401852--46401898 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 17
46401842 GAACTTGATC
46401852 TATATTTTAAATAAACT
1 TATATTTTAAATAAACT
**
46401869 TAATATTTTTATCTAAACT
1 T-ATA-TTTTAAATAAACT
46401888 TAT-TTTTAAAT
1 TATATTTTAAAT
46401899 TTAATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
16 6 0.25
17 1 0.04
18 5 0.21
19 12 0.50
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTTTAAATAAACT
Found at i:46404852 original size:45 final size:45
Alignment explanation
Indices: 46404784--46405044 Score: 459
Period size: 45 Copynumber: 5.8 Consensus size: 45
46404774 AAGAGGTGGA
** * * *
46404784 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
46404829 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
46404874 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
46404919 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
46404964 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
46405009 CAACATCATGCATAATTCATGGAAGAATTTAAGGAA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAA
46405045 AGAAGCCAAA
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 208 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:46405117 original size:45 final size:45
Alignment explanation
Indices: 46405066--46405419 Score: 582
Period size: 45 Copynumber: 7.9 Consensus size: 45
46405056 TCGGCCATGG
* * * *
46405066 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* *
46405111 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
46405156 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
46405201 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGGCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
46405246 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
46405291 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
46405336 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* * * **
46405381 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
46405420 TCCACCTCTT
Statistics
Matches: 293, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 293 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
Found at i:46405554 original size:16 final size:16
Alignment explanation
Indices: 46405533--46405564 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
46405523 CATTCTGCAT
46405533 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
46405549 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
46405565 AAACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (16 bp):
TTAAACAACAGCAGCA
Found at i:46406462 original size:68 final size:68
Alignment explanation
Indices: 46406350--46406495 Score: 265
Period size: 68 Copynumber: 2.1 Consensus size: 68
46406340 TCCAGACTCT
*
46406350 TTTTTTTTATACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGTAAATTTTTTTTT
1 TTTTTTTT-TACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAATTTTTTTTT
46406415 TTGA
65 TTGA
*
46406419 TTTTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGTCTAGACCGTAGGCAAATTTTTTTTTT
1 TTTTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAATTTTTTTTTT
46406484 TGA
66 TGA
46406487 TTTTTTTTT
1 TTTTTTTTT
46406496 TTACAAAACC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
68 67 0.89
69 8 0.11
ACGTcount: A:0.14, C:0.18, G:0.15, T:0.53
Consensus pattern (68 bp):
TTTTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAATTTTTTTTTT
TGA
Found at i:46406491 original size:13 final size:13
Alignment explanation
Indices: 46406473--46406497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46406463 CCGTAGGCAA
46406473 ATTTTTTTTTTTG
1 ATTTTTTTTTTTG
46406486 ATTTTTTTTTTT
1 ATTTTTTTTTTT
46406498 ACAAAACCAT
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:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
ATTTTTTTTTTTG
Found at i:46411683 original size:21 final size:21
Alignment explanation
Indices: 46411659--46411706 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
46411649 TGAGCTTCTA
46411659 TTTAACTCATATGAGTTTCCG
1 TTTAACTCATATGAGTTTCCG
* * * **
46411680 TTTAGCTCTTTTGAGTTTTTG
1 TTTAACTCATATGAGTTTCCG
46411701 TTTAAC
1 TTTAAC
46411707 CCTTATGGGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.52
Consensus pattern (21 bp):
TTTAACTCATATGAGTTTCCG
Found at i:46411732 original size:21 final size:21
Alignment explanation
Indices: 46411708--46411774 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
46411698 TTGTTTAACC
46411708 CTTATGGGTTTTCGTTCAGCT
1 CTTATGGGTTTTCGTTCAGCT
* * * *
46411729 CTTACGAGCTTCTT--TTCAACC
1 CTTATG-GGTT-TTCGTTCAGCT
46411750 CTTATGGGTTTTCGTTCAGCT
1 CTTATGGGTTTTCGTTCAGCT
46411771 CTTA
1 CTTA
46411775 CGAGCTTCTG
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 24 0.71
22 3 0.09
23 2 0.06
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (21 bp):
CTTATGGGTTTTCGTTCAGCT
Found at i:46411787 original size:21 final size:21
Alignment explanation
Indices: 46411721--46411847 Score: 82
Period size: 21 Copynumber: 6.1 Consensus size: 21
46411711 ATGGGTTTTC
46411721 GTTCAGCTCTTACGAGCTTCT
1 GTTCAGCTCTTACGAGCTTCT
* * * * * *
46411742 TTTCAACCCTTATG-GGTTTT
1 GTTCAGCTCTTACGAGCTTCT
46411762 CGTTCAGCTCTTACGAGCTTCT
1 -GTTCAGCTCTTACGAGCTTCT
* * * *
46411784 GTTCAACCCTTA-TAGGTTTCT
1 GTTCAGCTCTTACGA-GCTTCT
* * * *
46411805 ATTTAGCTCTCATGAGCTTCT
1 GTTCAGCTCTTACGAGCTTCT
46411826 GTTCAGCT-TT-CGAGCTTCT
1 GTTCAGCTCTTACGAGCTTCT
46411845 GTT
1 GTT
46411848 AACGATGTAC
Statistics
Matches: 75, Mismatches: 27, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
19 11 0.15
20 6 0.08
21 53 0.71
22 5 0.07
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (21 bp):
GTTCAGCTCTTACGAGCTTCT
Found at i:46411813 original size:42 final size:42
Alignment explanation
Indices: 46411632--46411830 Score: 202
Period size: 42 Copynumber: 4.7 Consensus size: 42
46411622 CATGTTTTAC
** * * * * *
46411632 TTTTCGTTCAGCTCTTTTGAGCTTCTATTTAACTCATATGAG
1 TTTTCGTTCAGCTCTTACGAGCTTCTGTTCAACCCTTATGGG
* * ** * * *
46411674 TTTCCGTTTAGCTCTTTTGAGTTTTTGTTTAACCCTTATGGG
1 TTTTCGTTCAGCTCTTACGAGCTTCTGTTCAACCCTTATGGG
*
46411716 TTTTCGTTCAGCTCTTACGAGCTTCTTTTCAACCCTTATGGG
1 TTTTCGTTCAGCTCTTACGAGCTTCTGTTCAACCCTTATGGG
*
46411758 TTTTCGTTCAGCTCTTACGAGCTTCTGTTCAACCCTTATAGG
1 TTTTCGTTCAGCTCTTACGAGCTTCTGTTCAACCCTTATGGG
* * * *
46411800 -TTTCTATTTAGCTCTCATGAGCTTCTGTTCA
1 TTTTC-GTTCAGCTCTTACGAGCTTCTGTTCA
46411831 GCTTTCGAGC
Statistics
Matches: 134, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
41 4 0.03
42 130 0.97
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (42 bp):
TTTTCGTTCAGCTCTTACGAGCTTCTGTTCAACCCTTATGGG
Found at i:46418018 original size:39 final size:40
Alignment explanation
Indices: 46417975--46418079 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
46417965 TTCCATTATG
46417975 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
46418014 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
46418059 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
46418080 ACACCTCTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:46418073 original size:45 final size:44
Alignment explanation
Indices: 46417973--46418082 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
46417963 TTTTCCATTA
46417973 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
46418012 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
46418057 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
46418083 CCTCTTATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:46418082 original size:16 final size:16
Alignment explanation
Indices: 46418063--46418114 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
46418053 GATTTGCTAT
*
46418063 TACACCTCTATTCCAT
1 TACACCTCTATTCCAA
46418079 TACACCTCT-TATCCAA
1 TACACCTCTAT-TCCAA
*
46418095 TACACCTCTAATCCAA
1 TACACCTCTATTCCAA
46418111 TACA
1 TACA
46418115 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 1 0.03
16 31 0.97
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTATTCCAA
Found at i:46422728 original size:34 final size:33
Alignment explanation
Indices: 46422687--46422765 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 33
46422677 AGGTAAAAAG
46422687 TTATATTTATATATTTATTTTAACATAAATAAT
1 TTATATTTATATATTTATTTTAACATAAATAAT
* * * *
46422720 TATATATTTATCTGTTTATTTTAATATAACTAAT
1 T-TATATTTATATATTTATTTTAACATAAATAAT
46422754 TT-TATTTATATA
1 TTATATTTATATA
46422766 AACTAATACT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
32 8 0.21
33 2 0.05
34 29 0.74
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (33 bp):
TTATATTTATATATTTATTTTAACATAAATAAT
Found at i:46422757 original size:20 final size:19
Alignment explanation
Indices: 46422734--46422772 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
46422724 TATTTATCTG
46422734 TTTATTT-TAATATAACTAAT
1 TTTATTTAT-ATA-AACTAAT
46422754 TTTATTTATATAAACTAAT
1 TTTATTTATATAAACTAAT
46422773 ACTTTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 10 0.56
21 1 0.06
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATTTATATAAACTAAT
Found at i:46422769 original size:19 final size:20
Alignment explanation
Indices: 46422734--46422772 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
46422724 TATTTATCTG
46422734 TTTATTTTAATATAACTAAT
1 TTTATTTTAATATAACTAAT
46422754 TTTA-TTT-ATATAAACTAAT
1 TTTATTTTAATAT-AACTAAT
46422773 ACTTTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATTTTAATATAACTAAT
Found at i:46423739 original size:42 final size:43
Alignment explanation
Indices: 46423679--46423763 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 43
46423669 GCAGCATTTA
46423679 CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
46423722 CAAAAA-AAATGCCGCTAAAGATTATGTTCTTTAGCGGCGCTT
1 CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
46423764 GTTTGCGGCG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 34 0.85
43 6 0.15
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (43 bp):
CAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:46423940 original size:85 final size:85
Alignment explanation
Indices: 46423841--46424021 Score: 229
Period size: 85 Copynumber: 2.1 Consensus size: 85
46423831 TTACAAAAAT
* ** * * *
46423841 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTGTGAAAAAGACGCCGCTGAAGATCATGTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACACTT-CAAAAAAAACGCCACTAAAGATCATGTT
46423906 CTTTAACGACGCTTTA-TAAA
65 CTTTAACGACGCTTTATTAAA
* * *
46423926 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTCAAAAAAAACGCCACTAAAGATCATGTTC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGACACTTCAAAAAAAACGCCACTAAAGATCATGTTC
* * * *
46423991 TTTAGCGGCGCTTTATTCAC
66 TTTAACGACGCTTTATTAAA
46424011 AAACGCCGCTA
1 AAACGCCGCTA
46424022 TTTTTGGAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 37 0.45
85 45 0.55
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGACACTTCAAAAAAAACGCCACTAAAGATCATGTTC
TTTAACGACGCTTTATTAAA
Found at i:46423945 original size:42 final size:42
Alignment explanation
Indices: 46423841--46424021 Score: 211
Period size: 42 Copynumber: 4.3 Consensus size: 42
46423831 TTACAAAAAT
* *
46423841 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTGTGA-AAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTT-T-ATAAA
* * *
46423884 AGACGCCGCTGAAGATCATGTTCTTTAACGACGCTTTATAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTATAAA
* * * *
46423926 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTCAAAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTATAAA
* * * *
46423968 AAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTTATTCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTA-TAAA
46424011 AAACGCCGCTA
1 AAACGCCGCTA
46424022 TTTTTGGAAT
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
41 1 0.01
42 74 0.63
43 42 0.36
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTATAAA
Found at i:46424349 original size:21 final size:21
Alignment explanation
Indices: 46424323--46424390 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
46424313 TTTTGCTTTG
* *
46424323 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTCGC
*
46424344 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGTCGC
*
46424365 CGCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
46424386 CTCTG
1 CTCTG
46424391 TTTTAAGTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.01, C:0.46, G:0.21, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:46429818 original size:9 final size:9
Alignment explanation
Indices: 46429804--46430040 Score: 222
Period size: 9 Copynumber: 26.9 Consensus size: 9
46429794 TTTTTATGTA
46429804 TTATGTAAG
1 TTATGTAAG
46429813 TTATGTACTAAG
1 TTATG---TAAG
46429825 TTATGT-A-
1 TTATGTAAG
46429832 TTATGTAAG
1 TTATGTAAG
46429841 TTATGTAAG
1 TTATGTAAG
*
46429850 TTGTGT-A-
1 TTATGTAAG
*
46429857 TTATGTGAG
1 TTATGTAAG
46429866 TTATGTAAG
1 TTATGTAAG
* *
46429875 TTATGGAAT
1 TTATGTAAG
* * *
46429884 TTGTTTAAT
1 TTATGTAAG
46429893 TTATGTAAG
1 TTATGTAAG
46429902 TTATGTAAG
1 TTATGTAAG
*
46429911 TTATGTAGG
1 TTATGTAAG
*
46429920 CTATGT-A-
1 TTATGTAAG
* *
46429927 TTATCTAAA
1 TTATGTAAG
*
46429936 TAATGTAAG
1 TTATGTAAG
*
46429945 TTA-GGAAGG
1 TTATGTAA-G
46429954 TTATGT-A-
1 TTATGTAAG
46429961 TTATGTAAG
1 TTATGTAAG
*
46429970 TTATTTAAG
1 TTATGTAAG
46429979 TTATGTAAG
1 TTATGTAAG
* *
46429988 TTATTTAAT
1 TTATGTAAG
46429997 TTATGTAAG
1 TTATGTAAG
46430006 TTATGTAAG
1 TTATGTAAG
*
46430015 TTATGTAAT
1 TTATGTAAG
46430024 TTATGTAAG
1 TTATGTAAG
46430033 TTATGTAA
1 TTATGTAA
46430041 TTAGAAATTT
Statistics
Matches: 185, Mismatches: 30, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
7 21 0.11
8 9 0.05
9 145 0.78
10 1 0.01
12 9 0.05
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:46429962 original size:104 final size:104
Alignment explanation
Indices: 46429834--46430021 Score: 297
Period size: 104 Copynumber: 1.8 Consensus size: 104
46429824 GTTATGTATT
* * * * *
46429834 ATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAATTTGTTTAATTTATGT
1 ATGTAAGTTATGGAAGTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATGT
46429899 AAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATA
66 AAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATA
* *
46429938 ATGTAAGTTA-GGAAGGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATG
1 ATGTAAGTTATGGAA-GTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATG
46430002 TAAGTTATGTAAGTTATGTA
65 TAAGTTATGTAAGTTATGTA
46430022 ATTTATGTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
103 3 0.04
104 73 0.96
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (104 bp):
ATGTAAGTTATGGAAGTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATTTAATTTATGT
AAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATA
Found at i:46430120 original size:57 final size:57
Alignment explanation
Indices: 46430052--46430226 Score: 287
Period size: 57 Copynumber: 3.1 Consensus size: 57
46430042 TAGAAATTTT
* **
46430052 ATCTTAATATTAAACGAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
* *
46430109 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
* *
46430166 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTT
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
46430223 ATCT
1 ATCT
46430227 AAAATGAGAA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 109 1.00
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.46
Consensus pattern (57 bp):
ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTA
Found at i:46430226 original size:20 final size:20
Alignment explanation
Indices: 46430087--46430226 Score: 116
Period size: 20 Copynumber: 7.3 Consensus size: 20
46430077 ATTCAAAATT
46430087 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
*
46430107 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* ** *
46430127 TTAT-GT-A-ATTCGA-AAT
1 TTATCTTAATATTATATAAG
46430143 TTGATCTTAATATTATATAAG
1 TT-ATCTTAATATTATATAAG
*
46430164 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* * *
46430184 TTAT-GTAAT-TCA-A-AATT
1 TTATCTTAATATTATATAA-G
*
46430201 TTATCTTAATATTGTATAAG
1 TTATCTTAATATTATATAAG
46430221 TTATCT
1 TTATCT
46430227 AAAATGAGAA
Statistics
Matches: 91, Mismatches: 19, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
16 6 0.07
17 11 0.12
18 8 0.09
19 7 0.08
20 54 0.59
21 5 0.05
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:46430257 original size:114 final size:114
Alignment explanation
Indices: 46430052--46430271 Score: 268
Period size: 114 Copynumber: 1.9 Consensus size: 114
46430042 TAGAAATTTT
* *
46430052 ATCTTAATATTAAACGAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAT
1 ATCTTAATATTAAACAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAA
* * * **
46430117 ATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
66 ATGAGATAAGTTATGTAATTCGAAATTAGAAATTAATATTATATAAGTA
* * * *
46430166 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATC-TAAA
1 ATCTTAATATTAAACAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAA
*
46430230 ATGAGA-AA-TTGATGTGTACTTAC-AAATTAGAAATTAATATTA
66 ATGAGATAAGTT-A--TGTAATT-CGAAATTAGAAATTAATATTA
46430272 AACGAGTTAT
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
111 2 0.02
112 3 0.03
113 7 0.08
114 77 0.86
115 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.44
Consensus pattern (114 bp):
ATCTTAATATTAAACAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTTAAA
ATGAGATAAGTTATGTAATTCGAAATTAGAAATTAATATTATATAAGTA
Found at i:46430281 original size:208 final size:208
Alignment explanation
Indices: 46430055--46430649 Score: 1039
Period size: 208 Copynumber: 2.9 Consensus size: 208
46430045 AAATTTTATC
46430055 TTAATATTAAACGAGTTATGTAATTCA-AAATTTTATCTTAATATTATATAAGTAATCTTAATAT
1 TTAATATTAAACGAGTTATGTAATT-AGAAATTTTATCTTAATATTATATAAGTAATCTTAATAT
* * *
46430119 TATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAG
65 TAAATGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAG
* *
46430184 TTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATCTAAAATGAGAAATTGATGTGTAC
130 TTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAAAATAAGAAATTGATGTGTAC
46430249 TTACAAATTAGAAA
195 TTACAAATTAGAAA
46430263 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATT
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATT
* * * *
46430328 AAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCATAATATTATATATGT
66 AAATGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGT
46430393 TATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAAAATAAGAAATTGATGTGTACT
131 TATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAAAATAAGAAATTGATGTGTACT
46430458 TACAAATTAGAAA
196 TACAAATTAGAAA
* *
46430471 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATCATATAAGTTATCTTAATATT
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATT
46430536 AAATGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGT
66 AAATGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGT
* * *
46430601 TATGTAATTCGATATTTTATCTTAATATTATATAAGTTATGTAATAATA
131 TATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAA-AATA
46430650 TATAAGTTAT
Statistics
Matches: 367, Mismatches: 18, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
207 1 0.00
208 362 0.99
209 4 0.01
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (208 bp):
TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATT
AAATGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTATATAAGT
TATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAAAATAAGAAATTGATGTGTACT
TACAAATTAGAAA
Found at i:46430320 original size:20 final size:20
Alignment explanation
Indices: 46430297--46430389 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 20
46430287 TAGAAATTTT
46430297 ATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTA
* ** *
46430317 ATCTTAATATTAAACGAGTT
1 ATCTTAATATTATATAAGTA
* * * *
46430337 AT-GT-A-ATTAGA-AATTTT
1 ATCTTAATATTATATAA-GTA
46430354 ATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTA
*
46430374 ATCATAATATTATATA
1 ATCTTAATATTATATA
46430390 TGTTATGTAA
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
16 1 0.02
17 9 0.16
18 2 0.04
19 2 0.04
20 39 0.71
21 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (20 bp):
ATCTTAATATTATATAAGTA
Found at i:46430324 original size:57 final size:57
Alignment explanation
Indices: 46430263--46430434 Score: 274
Period size: 57 Copynumber: 3.0 Consensus size: 57
46430253 AAATTAGAAA
46430263 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
46430320 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
* * * * * *
46430377 ATAATATTATA-TATGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATC
1 TTAATATTAAACGA-GTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
46430434 T
1 T
46430435 AAAATAAGAA
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
56 1 0.01
57 106 0.99
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (57 bp):
TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
Found at i:46430361 original size:94 final size:94
Alignment explanation
Indices: 46430166--46430365 Score: 206
Period size: 94 Copynumber: 2.1 Consensus size: 94
46430156 TATATAAGTA
* * * *
46430166 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATCTAAAA
1 ATCTTAATATTAAACAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTAAAA
** * *
46430231 TGAGAAATTGATGTGTACTTACAAATTAG
66 TGAGAAAGAGATATGTAATTACAAATTAG
** *
46430260 AAATTAATATTAAACGAGTTATGTAATT-AGAAATTTTATCTTAATATTATATAAGTAATCTTAA
1 ATCTTAATATTAAACAAGTTATGTAATTCA-AAATTTTATCTTAATATTATATAAGTAATC-TAA
* * * * * **
46430324 TATTA-AACGAGTTATGTAATTAGAAATTTT
64 AATGAGAAAGAGATATGTAATTACAAATTAG
46430354 ATCTTAATATTA
1 ATCTTAATATTA
46430366 TATAAGTAAT
Statistics
Matches: 84, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
93 1 0.01
94 77 0.92
95 6 0.07
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.43
Consensus pattern (94 bp):
ATCTTAATATTAAACAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTAATCTAAAA
TGAGAAAGAGATATGTAATTACAAATTAG
Found at i:46430408 original size:151 final size:150
Alignment explanation
Indices: 46430031--46430573 Score: 478
Period size: 151 Copynumber: 3.6 Consensus size: 150
46430021 AATTTATGTA
* ** * * * *
46430031 AGTTATGTAATTAGAAATTTTATCTTAATATTAAACGAGTTATGTAAT-TCAAA-ATTTTATCTT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTAATATTAAATATGTTAT-GT
* ** * * * *
46430094 AATAT-TATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTA
65 AAT-TCGA-A-ATTTGATCTTAATATTAAACAAGTTATGTAATTAGAAATTTGATCTTAATATTA
* **
46430158 TATAAGTAATCTTAATATTATATA
127 TATAAGTAATCTTAATATTAAACG
* * * * *
46430182 AGTTATGTAATTCA-AAATTTTATCTTAATATTGTATAAGTTATCTAAAATGAGAA-ATTGATGT
1 AGTTATGTAATT-AGAAATTTTATCTTAATATTATATAAGTTATCTAATATTA-AATA-TGTTAT
* * ** * *
46430245 GTACTTAC-AAATTAGAAATTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTA
63 GTAATT-CGAAATTTGATCTTAATATTAAACAAGTTATGTAATTAGAAATTTGATCTTAATATTA
46430309 TATAAGTAATCTTAATATTAAACG
127 TATAAGTAATCTTAATATTAAACG
* *
46430333 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCATAATATTATATATGTTATGT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC-TAATATTAAATATGTTATGT
* ** * * * * *
46430398 AATTCGAAATTTTATCTTAATATTGTATAAGTTATCTAAAATAAGAAA-TTGATGTGT-A-CTTA
65 AATTCGAAATTTGATCTTAATATTAAACAAGTTATGT--AATTAGAAATTTGATCT-TAATATTA
* * **
46430460 CA-AATTAGAAATTAATATTAAACG
127 TATAAGTA-ATCTTAATATTAAACG
*
46430484 AGTTATGTAATTAGAAATTTTATCTTAATATCATATAAGTTATCTTAATATTAAATGA-GTTATG
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC-TAATATTAAAT-ATGTTATG
*
46430548 TAATTAGAAATTTGATCTTAATATTA
64 TAATTCGAAATTTGATCTTAATATTA
46430574 TATAAGTAAT
Statistics
Matches: 319, Mismatches: 58, Indels: 30
0.78 0.14 0.07
Matches are distributed among these distances:
150 6 0.02
151 275 0.86
152 19 0.06
153 16 0.05
154 3 0.01
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (150 bp):
AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTAATATTAAATATGTTATGTA
ATTCGAAATTTGATCTTAATATTAAACAAGTTATGTAATTAGAAATTTGATCTTAATATTATATA
AGTAATCTTAATATTAAACG
Found at i:46430465 original size:57 final size:57
Alignment explanation
Indices: 46430279--46430465 Score: 202
Period size: 57 Copynumber: 3.3 Consensus size: 57
46430269 TTAAACGAGT
* *
46430279 TATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCT-TAATATTAAA-CGA
1 TATGTAATTACAAATTTTATCTTAATATTATATAAGTAATCTATAATATTAAATTGA
* * *
46430334 GTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC-ATAATATTATATATGT
1 --TATGTAATTACAAATTTTATCTTAATATTATATAAGTAATCTATAATATTAAAT-TGA
* * * **
46430393 TATGTAATT-CGAAATTTTATCTTAATATTGTATAAGTTATCTAAAATAAGAAATTGA
1 TATGTAATTAC-AAATTTTATCTTAATATTATATAAGTAATCTATAATATTAAATTGA
* *
46430450 TGTGTACTTACAAATT
1 TATGTAATTACAAATT
46430466 AGAAATTAAT
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
57 101 0.91
58 9 0.08
59 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.44
Consensus pattern (57 bp):
TATGTAATTACAAATTTTATCTTAATATTATATAAGTAATCTATAATATTAAATTGA
Found at i:46430532 original size:57 final size:57
Alignment explanation
Indices: 46430471--46430696 Score: 328
Period size: 57 Copynumber: 4.0 Consensus size: 57
46430461 AAATTAGAAA
** *
46430471 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATCATATAAGTTATC
1 TTAATATTAAATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* * *
46430528 TTAATATTAAATGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATC
1 TTAATATTAAATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* * *
46430585 TTAATATTATATAAGTTATGTAATTCGATATTTTATCTTAATATTATATAAGTTAT-
1 TTAATATTAAATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
* * * *
46430641 GTAATAATATATAAGTTATATAATTAGAAATTTTATCTTAATATTATATAAGTTAT
1 TTAATATTAAATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTAT
46430697 GAAGTGTCCT
Statistics
Matches: 154, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
56 51 0.33
57 103 0.67
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.46
Consensus pattern (57 bp):
TTAATATTAAATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
Found at i:46430651 original size:19 final size:19
Alignment explanation
Indices: 46430509--46430664 Score: 90
Period size: 20 Copynumber: 8.2 Consensus size: 19
46430499 AATTTTATCT
* *
46430509 TAATATCATATAAGTTATCT
1 TAATATTATATAAGTTAT-G
* *
46430529 TAATATTAAATGAGTTATG
1 TAATATTATATAAGTTATG
* * *
46430548 T-A-ATTAGA-AATTTGATCT
1 TAATATTATATAAGTT-AT-G
* *
46430566 TAATATTATATAAGTAATCT
1 TAATATTATATAAGTTAT-G
46430586 TAATATTATATAAGTTATG
1 TAATATTATATAAGTTATG
* * *
46430605 TAAT-TCGATAT--TTTATCT
1 TAATAT-TATATAAGTTAT-G
46430623 TAATATTATATAAGTTATG
1 TAATATTATATAAGTTATG
* *
46430642 TAATAATATATAAGTTATA
1 TAATATTATATAAGTTATG
46430661 TAAT
1 TAAT
46430665 TAGAAATTTT
Statistics
Matches: 105, Mismatches: 21, Indels: 21
0.71 0.14 0.14
Matches are distributed among these distances:
16 3 0.03
17 11 0.10
18 11 0.10
19 32 0.30
20 45 0.43
21 3 0.03
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (19 bp):
TAATATTATATAAGTTATG
Found at i:46433818 original size:22 final size:23
Alignment explanation
Indices: 46433790--46433834 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
46433780 GGGAGAATGA
46433790 GTTTT-GGGGATAACTGATGGAG
1 GTTTTGGGGGATAACTGATGGAG
46433812 GTTTTGGGGGATAACTGATGGAG
1 GTTTTGGGGGATAACTGATGGAG
46433835 AAATATCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.22, C:0.04, G:0.42, T:0.31
Consensus pattern (23 bp):
GTTTTGGGGGATAACTGATGGAG
Found at i:46434236 original size:147 final size:146
Alignment explanation
Indices: 46433908--46434243 Score: 390
Period size: 146 Copynumber: 2.3 Consensus size: 146
46433898 AAATTAACCA
* * * *
46433908 TTTGCGGCGTTTATAAAT-AAGCGCCACTAACTATAAGTCGAAACGCAGTCGTTTCATCAACAAA
1 TTTGCGGCGTTT-TAAGTAAAGCGCCACTAACTATAAATCAAAACGCAGTCGCTTCATCAACAAA
* * * * * * **
46433972 TAGCTCACACCTGTGGCATTTTTGAATAAACGCCACTAATAATACAGCAAAACGGCCTCGTATCG
65 TACCTCAAACCCGTGGCATTTTCGAATAAACACCACTAATAATACAGAAAAACGGCAGCGTATCG
*
46434037 ATAAATGTTAAAACATT
130 ATAAATGTTAAAACAAT
* **
46434054 TTTGCGGCGTTTTAAGCAAAGCGCCACTAACTATAAATCAAAACGCAGTCGCTTCATCAACACTT
1 TTTGCGGCGTTTTAAGTAAAGCGCCACTAACTATAAATCAAAACGCAGTCGCTTCATCAACAAAT
* ** *
46434119 ACCTCAAACCCGTGGCGTTTTCGAA-AAATCACCACTAATAACATTTA-AAAAACGGCAGCGTTT
66 ACCTCAAACCCGTGGCATTTTCGAATAAA-CACCACTAAT-A-ATACAGAAAAACGGCAGCGTAT
* *
46434182 CTATAAATGTTAGAACAAT
128 CGATAAATGTTAAAACAAT
* *
46434201 TTTGCGGTGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAA
1 TTTGCGGCGTTTTAAGTAAAGCGCCACTAACTATAA-ATCAAA
46434244 TGAAGTCGTT
Statistics
Matches: 160, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
145 6 0.04
146 83 0.52
147 62 0.39
148 9 0.06
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (146 bp):
TTTGCGGCGTTTTAAGTAAAGCGCCACTAACTATAAATCAAAACGCAGTCGCTTCATCAACAAAT
ACCTCAAACCCGTGGCATTTTCGAATAAACACCACTAATAATACAGAAAAACGGCAGCGTATCGA
TAAATGTTAAAACAAT
Found at i:46434251 original size:147 final size:147
Alignment explanation
Indices: 46434037--46434377 Score: 362
Period size: 147 Copynumber: 2.3 Consensus size: 147
46434027 CCTCGTATCG
* * * *
46434037 ATAAATGTTAAAACATTTTTGCGGCGTTTTAAGCAAAGCGCCACTAACTATAAATCAAAACGCAG
1 ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAATCAAAACGAAG
* * * * * **
46434102 TCGCTTCATCAACACTTACCTCAAACCCGTGGCGTTTTCGAAAAATCACCACTAATAACATTTAA
66 TCGCTTCACCAACACTTAACTCAAACCCGTGGCGTTTCCAAAAAAACACCACTAATAACATACAA
* * * *
46434167 AAAACGGCAGCGTTTCT
131 AAAACGACAACATTTCA
* * *
46434184 ATAAATGTTAGAACAATTTTGCGGTGTTTTAAGTAAAGCGCCACTAAATATAAGATC-AAATGAA
1 ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAA-ATCAAAACGAA
* * * * ** * *
46434248 GTCGTTTCCCCAACAGTTAACTCAAGCTTGTGGCGTTTCCAAAAAAACGCCACTAATACCATACA
65 GTCGCTTCACCAACACTTAACTCAAACCCGTGGCGTTTCCAAAAAAACACCACTAATAACATACA
*
46434313 CAAAACGACAACATTTCA
130 AAAAACGACAACATTTCA
** * * *
46434331 ATAAA-CATAATTACAATTTTGCGGCGTTTCATGTAAAGCGCCACTAA
1 ATAAATGTTAA-AACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAA
46434378 TAGCAACGTA
Statistics
Matches: 158, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
146 2 0.01
147 153 0.97
148 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (147 bp):
ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAATCAAAACGAAG
TCGCTTCACCAACACTTAACTCAAACCCGTGGCGTTTCCAAAAAAACACCACTAATAACATACAA
AAAACGACAACATTTCA
Found at i:46435914 original size:166 final size:166
Alignment explanation
Indices: 46435636--46435941 Score: 373
Period size: 166 Copynumber: 1.8 Consensus size: 166
46435626 CGGCGCTTGT
* * *
46435636 TCAAAAACGCTGCTAAATCCCCCAATGCTCAGTAAAATGACATCGTCGGGCCTAGGTTTTTTACG
1 TCAAAAACGCCGCTAAATCACCCAATGCTCAGTAAAACGACATCGTCGGGCCTAGGTTTTTTACG
* * * * *
46435701 GCGCTTTCCCAAAAACGTCGCTAAAACCCTGAGCATTAGCAGCGCTTC-TCCATAAACGCCGCTA
66 GCGCATTCCCAAAAACGCCGCTAAAACCCTGAGCATTAGCAGCGCTTCAT-AAAAAACACCGCTA
46435765 AATCCCCGAATACTCCCTGAACATTGGCGGCGCTACC
130 AATCCCCGAATACTCCCTGAACATTGGCGGCGCTACC
* * * * * * *
46435802 TCAAAAACGCCGCTAAGTCACCGAATGCTCAG-AAAACGGCGTCGTTGGGCTTAGGTTTCTTTGC
1 TCAAAAACGCCGCTAAATCACCCAATGCTCAGTAAAACGACATCGTCGGGCCTAGGTTT-TTTAC
** * * * * * *
46435866 GGCGCATTCTTAAAAATGCCGTTAAATCCCTGAGCTTTAGCGGCGCTTCATAAAAAACACTGCTA
65 GGCGCATTCCCAAAAACGCCGCTAAAACCCTGAGCATTAGCAGCGCTTCATAAAAAACACCGCTA
46435931 AATCCCCGAAT
130 AATCCCCGAAT
46435942 GCGCCGAAAA
Statistics
Matches: 115, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
165 21 0.18
166 93 0.81
167 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (166 bp):
TCAAAAACGCCGCTAAATCACCCAATGCTCAGTAAAACGACATCGTCGGGCCTAGGTTTTTTACG
GCGCATTCCCAAAAACGCCGCTAAAACCCTGAGCATTAGCAGCGCTTCATAAAAAACACCGCTAA
ATCCCCGAATACTCCCTGAACATTGGCGGCGCTACC
Found at i:46437725 original size:47 final size:47
Alignment explanation
Indices: 46437625--46437725 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 47
46437615 TAGAAGATTT
* *
46437625 ACTGCAATTATAGTGGTTCGACCACACATATCTGTTTTGGCATGTTA
1 ACTGCAATTATAATGGTTCGACCACACATATCTGTTATGGCATGTTA
* * *
46437672 GCTGCAA-TATAATGGCTT-GACCACATATATCT-TATATGGCATTTTTA
1 ACTGCAATTATAATGG-TTCGACCACACATATCTGT-TATGGCA-TGTTA
46437719 ACTGCAA
1 ACTGCAA
46437726 CCCTAGTGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
45 1 0.02
46 26 0.58
47 18 0.40
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (47 bp):
ACTGCAATTATAATGGTTCGACCACACATATCTGTTATGGCATGTTA
Found at i:46438712 original size:18 final size:17
Alignment explanation
Indices: 46438691--46438736 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
46438681 TTACTTTTGT
46438691 TTTCTTTAAATATTTTA
1 TTTCTTTAAATATTTTA
*
46438708 GTTTCTTTAATATGTTTTA
1 -TTTCTTTAA-ATATTTTA
46438727 TTTCTTTAAA
1 TTTCTTTAAA
46438737 AAGATTGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 18 0.69
19 7 0.27
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (17 bp):
TTTCTTTAAATATTTTA
Found at i:46454394 original size:34 final size:34
Alignment explanation
Indices: 46454355--46454419 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
46454345 TAAATTTATA
46454355 TTTAATACAAT-AAA-ATGCTTATTATATTTATTTT
1 TTTAATACAATGAAACATGC--ATTATATTTATTTT
46454389 TTTAATACAATGAAACATGCATTATATTTAT
1 TTTAATACAATGAAACATGCATTATATTTAT
46454420 AGTGTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 22 0.76
35 3 0.10
36 4 0.14
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.48
Consensus pattern (34 bp):
TTTAATACAATGAAACATGCATTATATTTATTTT
Found at i:46454522 original size:17 final size:17
Alignment explanation
Indices: 46454502--46454537 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
46454492 TATTTTTTAA
*
46454502 AAAAATTAATTTAAAAT
1 AAAAATTAATCTAAAAT
46454519 AAAAATTAATCTAAAAT
1 AAAAATTAATCTAAAAT
46454536 AA
1 AA
46454538 GCACATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATTAATCTAAAAT
Found at i:46480792 original size:44 final size:44
Alignment explanation
Indices: 46480711--46480801 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
46480701 AGATTCATTT
* * * *
46480711 TTTTCATGAAGCTAACTAACTATAAAGCTTTCCCCTTTTTTTTC
1 TTTTCATGAACCTAACTAACTATAAAGCTTTCACCTTTCTTTAC
*
46480755 TTTTCATGAACCTAACCTAACTATAAAG-TTTTACCTTTCTTTAC
1 TTTTCATGAACCTAA-CTAACTATAAAGCTTTCACCTTTCTTTAC
46480799 TTT
1 TTT
46480802 ACTTTTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 29 0.71
45 12 0.29
ACGTcount: A:0.26, C:0.22, G:0.05, T:0.46
Consensus pattern (44 bp):
TTTTCATGAACCTAACTAACTATAAAGCTTTCACCTTTCTTTAC
Found at i:46480832 original size:15 final size:15
Alignment explanation
Indices: 46480803--46480831 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46480793 CTTTACTTTA
46480803 CTTTTTTTTCTTTTT
1 CTTTTTTTTCTTTTT
46480818 CTTTTTTTT-TTTTT
1 CTTTTTTTTCTTTTT
46480832 TTTGGCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
CTTTTTTTTCTTTTT
Found at i:46486221 original size:17 final size:17
Alignment explanation
Indices: 46486181--46486234 Score: 57
Period size: 13 Copynumber: 3.5 Consensus size: 17
46486171 TAACTTTTTT
46486181 TATTTTT-ATTTTAAAA
1 TATTTTTAATTTTAAAA
*
46486197 TA-CTTT--TTTT-AAA
1 TATTTTTAATTTTAAAA
46486210 T-TTTTTAATTTTAAAA
1 TATTTTTAATTTTAAAA
46486226 TATTTTTAA
1 TATTTTTAA
46486235 AATACATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 7 0.23
14 4 0.13
15 7 0.23
16 6 0.19
17 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTTAATTTTAAAA
Found at i:46486222 original size:40 final size:40
Alignment explanation
Indices: 46486189--46486272 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
46486179 TTTATTTTTA
*
46486189 TTTTAAAATACTTTTTTTAA-ATTTTTTAATTTTAAAATAT
1 TTTTAAAATAC-ATTTTTAATATTTTTTAATTTTAAAATAT
*
46486229 TTTTAAAATACATTTTTAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACATTTTTAATATTTTTTAATTTTAAAATAT
46486269 TTTT
1 TTTT
46486273 TTAATTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 7 0.17
40 34 0.83
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTTAAAATACATTTTTAATATTTTTTAATTTTAAAATAT
Found at i:46486244 original size:29 final size:28
Alignment explanation
Indices: 46486181--46486238 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
46486171 TAACTTTTTT
* *
46486181 TATTTTTATTTTAAAATACTTTTTTTAAA
1 TATTTTAATTTTAAAATAC-TTTTTAAAA
*
46486210 TTTTTTAATTTTAAAATA-TTTTTAAAA
1 TATTTTAATTTTAAAATACTTTTTAAAA
46486237 TA
1 TA
46486239 CATTTTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 9 0.36
29 16 0.64
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TATTTTAATTTTAAAATACTTTTTAAAA
Found at i:46486251 original size:19 final size:20
Alignment explanation
Indices: 46486251--46486294 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
46486241 TTTTTAATTT
**
46486251 TTTTTAA-TTTTAAAATATT
1 TTTTTAATTTTTAAAATAAA
46486270 TTTTTAATTTTTAAAATAAA
1 TTTTTAATTTTTAAAATAAA
46486290 TTTTT
1 TTTTT
46486295 GGTATTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTAATTTTTAAAATAAA
Found at i:46486294 original size:40 final size:40
Alignment explanation
Indices: 46486206--46486294 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 40
46486196 ATACTTTTTT
46486206 TAAATTTTTTAATTTTAAAATATTTTTAAAATACATTTTTAA
1 TAAATTTTTTAATTTTAAAATATTTTT--AATACATTTTTAA
* *
46486248 T--TTTTTTTAATTTTAAAATATTTTT-TTA-ATTTTTAAAA
1 TAAATTTTTTAATTTTAAAATATTTTTAATACATTTTT--AA
46486286 TAAATTTTT
1 TAAATTTTT
46486295 GGTATTTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
36 6 0.15
37 2 0.05
38 3 0.08
40 28 0.70
42 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (40 bp):
TAAATTTTTTAATTTTAAAATATTTTTAATACATTTTTAA
Found at i:46487219 original size:16 final size:16
Alignment explanation
Indices: 46487192--46487232 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
46487182 CCCAAACCTC
46487192 TAACAT-AACCCAAGT
1 TAACATGAACCCAAGT
* *
46487207 TGACATGAACCCACGT
1 TAACATGAACCCAAGT
46487223 TAACATGAAC
1 TAACATGAAC
46487233 TTGAACTCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.20
Consensus pattern (16 bp):
TAACATGAACCCAAGT
Found at i:46487461 original size:16 final size:16
Alignment explanation
Indices: 46487440--46487480 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
46487430 TCCCAAAGCC
46487440 GAAATTGACTTCAACA
1 GAAATTGACTTCAACA
*
46487456 GAAATTGGCTTCAACA
1 GAAATTGACTTCAACA
46487472 GAAA-TGACT
1 GAAATTGACT
46487481 CAAGAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (16 bp):
GAAATTGACTTCAACA
Found at i:46491476 original size:2 final size:2
Alignment explanation
Indices: 46491469--46491494 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46491459 GAATTAATTT
46491469 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
46491495 CAGATTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46491844 original size:3 final size:3
Alignment explanation
Indices: 46491838--46491867 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
46491828 TCGCATCATC
46491838 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
46491868 TTAATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:46491895 original size:8 final size:8
Alignment explanation
Indices: 46491866--46491916 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
46491856 ATTATTATTA
46491866 TTTTAATAT
1 TTTTAA-AT
*
46491875 TTTAATAAT
1 TTTTA-AAT
* *
46491884 TTTTTAAG
1 TTTTAAAT
46491892 TTTTAAAT
1 TTTTAAAT
46491900 TTTTAAAT
1 TTTTAAAT
46491908 TTTTAAAT
1 TTTTAAAT
46491916 T
1 T
46491917 ATATCTTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
8 25 0.71
9 9 0.26
10 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (8 bp):
TTTTAAAT
Found at i:46497202 original size:12 final size:11
Alignment explanation
Indices: 46497159--46497208 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
46497149 AATATATTTT
*
46497159 TATTTTTTAAA
1 TATTTTTAAAA
46497170 -A-TTTTAAAA
1 TATTTTTAAAA
46497179 TATTTTTAAAA
1 TATTTTTAAAA
*
46497190 TACTTTTTTAAA
1 TA-TTTTTAAAA
46497202 T-TTTTTA
1 TATTTTTA
46497209 TTTTTAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 7 0.21
10 7 0.21
11 10 0.30
12 9 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:46497880 original size:21 final size:20
Alignment explanation
Indices: 46497841--46497882 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
46497831 TTGATAATTT
*
46497841 TTTAAACCTAAATCTTAAAC
1 TTTAAACCTAAACCTTAAAC
*
46497861 TTTAAATCCTGAACCTTAAAC
1 TTTAAA-CCTAAACCTTAAAC
46497882 T
1 T
46497883 CTGAACCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.36
Consensus pattern (20 bp):
TTTAAACCTAAACCTTAAAC
Found at i:46499022 original size:23 final size:22
Alignment explanation
Indices: 46498982--46499024 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46498972 AATTTTAAAA
*
46498982 TATTTTAAAAATACTTTTTTAT
1 TATTTTAAAAATAATTTTTTAT
*
46499004 TATTTTTAAAATAAATTTTTT
1 TATTTTAAAAAT-AATTTTTT
46499025 GTGTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTAAAAATAATTTTTTAT
Found at i:46499622 original size:23 final size:26
Alignment explanation
Indices: 46499575--46499623 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 26
46499565 ATTTTTAAAA
*
46499575 AATTCAATTAAAACTCCAATTTTTTT
1 AATTCAATTAAAACTCCAATATTTTT
46499601 AATT-AATT-AAAC-CCAATATTTTT
1 AATTCAATTAAAACTCCAATATTTTT
46499624 GTAAAATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
24 4 0.18
25 4 0.18
26 4 0.18
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTCAATTAAAACTCCAATATTTTT
Found at i:46515766 original size:14 final size:15
Alignment explanation
Indices: 46515742--46515776 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
46515732 TATATATATT
46515742 ACCATATAAATACTA
1 ACCATATAAATACTA
46515757 ACCATA-AAATACTA
1 ACCATATAAATACTA
46515771 ATCCAT
1 A-CCAT
46515777 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:46516475 original size:41 final size:41
Alignment explanation
Indices: 46516444--46516766 Score: 452
Period size: 41 Copynumber: 7.9 Consensus size: 41
46516434 CTATATAAAA
* ** * * *
46516444 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAAT-AATT
* * * * *
46516485 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATTAAGCCTGAAATAATT
* * * *
46516526 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
46516567 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
*
46516608 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
*
46516649 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
*
46516690 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
46516731 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
46516767 ATCTCATATA
Statistics
Matches: 265, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
41 261 0.98
42 4 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
Found at i:46516999 original size:64 final size:63
Alignment explanation
Indices: 46516881--46517061 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
46516871 GCAAACAAAC
*
46516881 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
46516942 T
63 T
46516943 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
46517007 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
46517062 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:46520496 original size:13 final size:13
Alignment explanation
Indices: 46520478--46520503 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46520468 GGGCCACCCC
46520478 CAAAACCCAATAA
1 CAAAACCCAATAA
46520491 CAAAACCCAATAA
1 CAAAACCCAATAA
46520504 ACCAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
CAAAACCCAATAA
Found at i:46521203 original size:17 final size:17
Alignment explanation
Indices: 46521181--46521215 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46521171 AACATAAAAG
46521181 AAAATACAAAAAA-ATAA
1 AAAATA-AAAAAATATAA
46521198 AAAATAAAAAAATATAA
1 AAAATAAAAAAATATAA
46521215 A
1 A
46521216 TTTTTACCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAATAAAAAAATATAA
Found at i:46521324 original size:11 final size:11
Alignment explanation
Indices: 46521298--46521342 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
46521288 GACCGGATTC
*
46521298 CCCTTCCTCCCT
1 CCCTT-CTCTCT
46521310 CCCTTCTCTCT
1 CCCTTCTCTCT
46521321 CCCTTCTCTCTT
1 CCCTTCTCTC-T
46521333 CCC-TCTCTCT
1 CCCTTCTCTCT
46521343 TCTTTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 1 0.03
11 21 0.68
12 9 0.29
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (11 bp):
CCCTTCTCTCT
Found at i:46521830 original size:3 final size:3
Alignment explanation
Indices: 46521822--46521855 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
46521812 TGTATTTCAA
46521822 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
46521856 GTACATTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:46522075 original size:131 final size:129
Alignment explanation
Indices: 46521792--46522079 Score: 304
Period size: 131 Copynumber: 2.2 Consensus size: 129
46521782 TTTTTGTTTC
* *
46521792 TTTATTAAATATTACATTTTTGTATTTCAATATTATTATTATTATTATTATTATTATTATTATTG
1 TTTATTATAT-TTAC-TTTTTGTATTTCAATATTATTATTATTATTATTATTATTATCATTA---
* * * *
46521857 TACATTAGTGTATATCTTCATGTATGTATATATATGTAGTAATGTTTTTATTACTTTATTTTAAT
61 TACATTACTATATATCTTCATGTATGTATATATATATAGTAATGTTTTTATGACTTTATTTTAAT
*
46521922 ATTT
126 ATAT
*
46521926 TTTATTATA-ATAGC-TTTTGTATTTCAATATTATTATTA-T-TT-TTATTATTATCATTA-ACA
1 TTTATTATATTTA-CTTTTTGTATTTCAATATTATTATTATTATTATTATTATTATCATTATACA
* *
46521985 TTACTATATATTCTT-AT-TAGATGTATATATACATATATTACTGTTTTTAATGACTTTATTTTA
65 TTACTATATA-TCTTCATGT--ATGTATATAT--ATATAGTAATGTTTTT-ATGACTTTATTTTA
46522048 ATATCAT
124 ATAT-AT
46522055 TTTATTATATTTACTTTTTTGTATT
1 TTTATTATATTTAC-TTTTTGTATT
46522080 GTATTACATG
Statistics
Matches: 132, Mismatches: 11, Indels: 25
0.79 0.07 0.15
Matches are distributed among these distances:
123 1 0.01
124 13 0.10
125 14 0.11
127 13 0.10
128 31 0.23
129 13 0.10
130 3 0.02
131 33 0.25
132 2 0.02
133 1 0.01
134 8 0.06
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (129 bp):
TTTATTATATTTACTTTTTGTATTTCAATATTATTATTATTATTATTATTATTATCATTATACAT
TACTATATATCTTCATGTATGTATATATATATAGTAATGTTTTTATGACTTTATTTTAATATAT
Found at i:46525515 original size:11 final size:10
Alignment explanation
Indices: 46525501--46525542 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
46525491 AGGGTCGTAG
46525501 AAAATAAACAA
1 AAAATAAA-AA
46525512 AAAATAAAAA
1 AAAATAAAAA
46525522 AACAAT-AAAA
1 AA-AATAAAAA
*
46525532 TAAATAAAAA
1 AAAATAAAAA
46525542 A
1 A
46525543 CACAAGAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 3 0.11
10 13 0.48
11 11 0.41
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:46527625 original size:17 final size:17
Alignment explanation
Indices: 46527596--46527633 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
46527586 TAATAATATT
*
46527596 ATTAAAATAAAAACTAA
1 ATTAAAATAAAAAATAA
46527613 ATTATAAAT-AAAAATAA
1 ATTA-AAATAAAAAATAA
46527630 ATTA
1 ATTA
46527634 CATAGACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAATAAAAAATAA
Found at i:46545641 original size:24 final size:25
Alignment explanation
Indices: 46545608--46545658 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
46545598 TAATCCTTTA
*
46545608 AAAATTATAAAA-AAATAGTCTATT
1 AAAATGATAAAATAAATAGTCTATT
*
46545632 AAAATGATAAAATTATATAGTCTATT
1 AAAATGATAAAA-TAAATAGTCTATT
46545658 A
1 A
46545659 TAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
26 12 0.52
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
AAAATGATAAAATAAATAGTCTATT
Found at i:46545700 original size:16 final size:16
Alignment explanation
Indices: 46545672--46545720 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
46545662 AAATATAGAC
46545672 TATAAAAAT-ATAATT
1 TATAAAAATAATAATT
*
46545687 TTTAAAAATAATAA-T
1 TATAAAAATAATAATT
*
46545702 CATAAAAATATATAATT
1 TATAAAAATA-ATAATT
46545719 TA
1 TA
46545721 ATTATGACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 17 0.63
16 8 0.30
17 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TATAAAAATAATAATT
Found at i:46547414 original size:5 final size:6
Alignment explanation
Indices: 46547369--46547421 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
46547359 TTAGTTCATC
** * *
46547369 TTTATT TTTCCT TTTATT TCTATT TGTAGTGT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT TTTATT
46547419 TTT
1 TTT
46547422 TTAATTTCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 32 0.84
7 2 0.05
8 4 0.11
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:46547456 original size:3 final size:3
Alignment explanation
Indices: 46547448--46547493 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
46547438 TTTTTAATCC
46547448 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
46547494 TCTCCTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:46549561 original size:11 final size:11
Alignment explanation
Indices: 46549545--46549575 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
46549535 CCTTCAAAAA
46549545 TTCTCTTAAGT
1 TTCTCTTAAGT
46549556 TTCTCTTAAGT
1 TTCTCTTAAGT
46549567 TTCTCTTAA
1 TTCTCTTAA
46549576 CTTCCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (11 bp):
TTCTCTTAAGT
Found at i:46550737 original size:7 final size:7
Alignment explanation
Indices: 46550725--46550749 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46550715 AGTCGATTGA
46550725 TATTTAG
1 TATTTAG
46550732 TATTTAG
1 TATTTAG
46550739 TATTTAG
1 TATTTAG
46550746 TATT
1 TATT
46550750 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:46551611 original size:24 final size:24
Alignment explanation
Indices: 46551596--46551644 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
46551586 AACACCGTCG
46551596 CCGGTCGTGATGCAAACACCTCCA
1 CCGGTCGTGATGCAAACACCTCCA
46551620 CCGGTCGTGATGCAAACACCTCCA
1 CCGGTCGTGATGCAAACACCTCCA
46551644 C
1 C
46551645 ATACACTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.39, G:0.20, T:0.16
Consensus pattern (24 bp):
CCGGTCGTGATGCAAACACCTCCA
Found at i:46551951 original size:23 final size:23
Alignment explanation
Indices: 46551921--46552518 Score: 413
Period size: 23 Copynumber: 26.1 Consensus size: 23
46551911 AATACCCTTA
46551921 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
46551944 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * ***
46551966 ACTTAAAAACCTTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
46551988 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
*
46552012 AATTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
* *
46552035 AATTAAAAATCCTAACCTAATGT
1 AATTAAAAACCCTAACCTAATTT
*
46552058 AATTAAAAACTCTAAACCTTAA---
1 AATTAAAAACCCT-AACC-TAATTT
* *
46552080 ACTTAAAAACCCTAGCCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
46552103 AATTAAAAACTACAAACCCTAA---
1 AATTAAAAAC-CCTAA-CCTAATTT
* * * *
46552125 ACTTAAAAATCATAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
46552148 AATTAAAAACCCTAACCTAA-TT
1 AATTAAAAACCCTAACCTAATTT
* *
46552170 AACTTAAAAACCCTAACGTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
46552194 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
46552217 AATTAAAAACCTTAAATCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
46552239 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
46552262 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
46552284 ACTTAAAAACTCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
46552307 AATTAAAAACCCTAAACCCTAAACCCTA
1 AATTAAAAACCCT-AA-CCT-AA--TTT
* *
46552335 AACTTAAAAACCATAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
**
46552359 AATTAAAAATTCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* ** *
46552381 ACTTAAAAACCCTAACC-CCTTA
1 AATTAAAAACCCTAACCTAATTT
*
46552403 AATTAAAAACCATAACCTAA-TT
1 AATTAAAAACCCTAACCTAATTT
46552425 AACTT-AAAACCCTAAACCCTAA---
1 AA-TTAAAAACCCT-AA-CCTAATTT
* **
46552447 ACTTAAAAACCCTAACCCCA-TT
1 AATTAAAAACCCTAACCTAATTT
46552469 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
* * *
46552493 AATTAAAAATCCTAAACTAAATT
1 AATTAAAAACCCTAACCTAATTT
46552516 AAT
1 AAT
46552519 AATTTTACTT
Statistics
Matches: 454, Mismatches: 72, Indels: 98
0.73 0.12 0.16
Matches are distributed among these distances:
20 25 0.06
21 17 0.04
22 101 0.22
23 222 0.49
24 36 0.08
25 31 0.07
26 4 0.01
27 3 0.01
28 5 0.01
29 10 0.02
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.27
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:46551963 original size:45 final size:45
Alignment explanation
Indices: 46551914--46552509 Score: 358
Period size: 45 Copynumber: 13.0 Consensus size: 45
46551904 AACCATTAAT
*
46551914 ACCCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAA
1 ACCCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* ***
46551959 ACCC-TAAACTTAAAAACCTTAACC-CCCTTAACTTAAAAACCCT-A
1 ACCCTTAAA-TTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAA
* * * *
46552003 ACCTAATTTAATTAAAAACCCTAACCTAATTAAATTAAAAATCCT-A
1 ACC--CTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * *
46552049 A-CCTAATGTAATTAAAAACTCTAAACCTTAA---ACTTAAAAACCCT-A
1 ACCCT--T-AAATTAAAAACCCT-AACC-TAATTTAATTAAAAACCCTAA
* * * * * * * *
46552094 GCCTAATTTAATTAAAAACTACAAACCCTAA---ACTTAAAAATCAT-A
1 ACC--CTTAAATTAAAAAC-CCTAA-CCTAATTTAATTAAAAACCCTAA
*
46552139 ACCTAATTAAATTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-A
1 ACC--CTTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAA
** *
46552185 ACGTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAA
1 AC--CCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* *
46552232 ATCC-TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAA
1 ACCCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
*
46552277 ACCC-TAAACTTAAAAACTCTAACCTAATTTAATTAAAAACCCTAA
1 ACCCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * **
46552322 ACCCTAAACCCTAAACTTAAAAACCATAACCTAATTAAATTAAAAATTCTAA
1 ACCCT------TAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
** * *
46552374 ACCC-TAAACTTAAAAACCCTAACC-CCTTAAATTAAAAACCAT-A
1 ACCCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * *
46552417 ACCTAATTAACTT-AAAACCCTAAACCCTAA---ACTTAAAAACCCTAA
1 ACC--CTTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTAA
* * *
46552462 CCCCATTAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAA
1 ACCC-TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
46552508 AC
1 AC
46552510 TAAATTAATA
Statistics
Matches: 448, Mismatches: 60, Indels: 85
0.76 0.10 0.14
Matches are distributed among these distances:
43 15 0.03
44 60 0.13
45 204 0.46
46 109 0.24
47 16 0.04
48 4 0.01
52 40 0.09
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (45 bp):
ACCCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
Found at i:46552212 original size:159 final size:155
Alignment explanation
Indices: 46551916--46552517 Score: 705
Period size: 159 Copynumber: 3.8 Consensus size: 155
46551906 CCATTAATAC
*
46551916 CCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCTTAA
1 CCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTCAAACCCTAAACTTAAAAACC-TAA
** * *
46551981 CCCCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTAAATTAAAAATC
65 CCCAATTAAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAATTAAATTAAAAATC
46552046 CTAACCTAATGTAATTAAAAACTCTAAA
130 CTAACCTAAT-TAATTAAAAAC-CTAAA
* *
46552074 CCTTAAACTTAAAAACCCTAGCCTAATTTAATTAAAAA-CTACAAACCCTAAACTTAAAAATCAT
1 CCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCT-CAAACCCTAAACTTAAAAA-CCT
* *
46552138 AACCTAATTAAATTAAAAACCCTAACCTAA-TTAACTTAAAAACCCTAACGTAATTAAATTAAAA
63 AACCCAATTAAATTAAAAACCCTAACCTAACTTAA-TTAAAAACCCTAACCTAATTAAATTAAAA
*
46552202 ACCCTAACCTAATTTAATTAAAAACCTTAAA
127 ATCCTAACCTAA-TTAATTAAAAACC-TAAA
*
46552233 TCC-TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACTCT
1 -CCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCTCAAACCCTAAACTTAAAAAC-CT
* * * *
46552297 AACCTAATTTAATTAAAAACCCTAAACCCTAAACCCTAAACTTAAAAACCATAACCTAATTAAAT
63 AACCCAATTAAATTAAAAACCCT-AA-CCT-AA--CTTAA-TTAAAAACCCTAACCTAATTAAAT
* * *
46552362 TAAAAATTCTAAACCCTAA--ACTTAAAAACCCTAACC
122 TAAAAATCCT-AA-CCTAATTAATTAAAAA-CCTAA-A
* *
46552398 CCTTAAATTAAAAACCATAACCTAA-TTAACTTAAAACCCT-AAACCCTAAACTTAAAAACCCTA
1 CCTTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCTCAAACCCTAAACTTAAAAA-CCTA
* * * * *
46552461 ACCCCATTAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAAACTAAATTAA
64 ACCCAATTAAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCT-AATTAA
46552518 TAATTTTACT
Statistics
Matches: 390, Mismatches: 31, Indels: 46
0.84 0.07 0.10
Matches are distributed among these distances:
157 13 0.03
158 24 0.06
159 203 0.52
160 10 0.03
161 6 0.02
162 4 0.01
163 43 0.11
164 40 0.10
165 40 0.10
166 2 0.01
167 5 0.01
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (155 bp):
CCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTCAAACCCTAAACTTAAAAACCTAAC
CCAATTAAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAATTAAATTAAAAATCC
TAACCTAATTAATTAAAAACCTAAA
Found at i:46552324 original size:52 final size:52
Alignment explanation
Indices: 46552268--46552382 Score: 178
Period size: 52 Copynumber: 2.2 Consensus size: 52
46552258 ATTTAATTAA
* *
46552268 AAACCTTAAACCCTAAACTTAAAAACTC-TAACCTAATTTAATTAAAAACCCT
1 AAACCCTAAACCCTAAACTTAAAAAC-CATAACCTAATTAAATTAAAAACCCT
**
46552320 AAACCCTAAACCCTAAACTTAAAAACCATAACCTAATTAAATTAAAAATTCT
1 AAACCCTAAACCCTAAACTTAAAAACCATAACCTAATTAAATTAAAAACCCT
46552372 AAACCCTAAAC
1 AAACCCTAAAC
46552383 TTAAAAACCC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 1 0.02
52 57 0.98
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.24
Consensus pattern (52 bp):
AAACCCTAAACCCTAAACTTAAAAACCATAACCTAATTAAATTAAAAACCCT
Found at i:46552325 original size:7 final size:7
Alignment explanation
Indices: 46552313--46552337 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46552303 ATTTAATTAA
46552313 AAACCCT
1 AAACCCT
46552320 AAACCCT
1 AAACCCT
46552327 AAACCCT
1 AAACCCT
46552334 AAAC
1 AAAC
46552338 TTAAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:46552391 original size:67 final size:68
Alignment explanation
Indices: 46552320--46552509 Score: 287
Period size: 67 Copynumber: 2.8 Consensus size: 68
46552310 TAAAAACCCT
* *
46552320 AAACCCTAAACCC-TAAACTTAAAAACCATAACCTAATTAAATTAAAAATTCTAAACCCTAAACT
1 AAACCCTAACCCCATAAACTTAAAAACCATAACCTAATTAAATTAAAAATCCTAAACCCTAAACT
46552384 TAA
66 TAA
* * *
46552387 AAACCCTAACCCCTTAAA-TTAAAAACCATAACCTAATTAACTT-AAAACCCTAAACCCTAAACT
1 AAACCCTAACCCCATAAACTTAAAAACCATAACCTAATTAAATTAAAAATCCTAAACCCTAAACT
46552450 TAA
66 TAA
* * *
46552453 AAACCCTAACCCCATTAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAAAC
1 AAACCCTAACCCCATAAACTTAAAAACCATAACCTAATTAAATTAAAAATCCTAAAC
46552510 TAAATTAATA
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
66 37 0.34
67 58 0.53
68 15 0.14
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (68 bp):
AAACCCTAACCCCATAAACTTAAAAACCATAACCTAATTAAATTAAAAATCCTAAACCCTAAACT
TAA
Found at i:46552659 original size:116 final size:116
Alignment explanation
Indices: 46552512--46552755 Score: 409
Period size: 116 Copynumber: 2.1 Consensus size: 116
46552502 TCCTAAACTA
* **
46552512 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCCAGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACCAGTACTAACAAT
* *
46552577 TAATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
* *
46552628 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTAGTATTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACCAGTACTAACAATT
46552693 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
46552744 AATTAATAATTT
1 AATTAATAATTT
46552756 CACAAACTTA
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
115 39 0.32
116 81 0.68
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACCAGTACTAACAATT
AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
Found at i:46555425 original size:125 final size:125
Alignment explanation
Indices: 46555181--46555549 Score: 569
Period size: 125 Copynumber: 3.0 Consensus size: 125
46555171 CAAACATGCT
*
46555181 ACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTTCACAAATTCTTCTCAAATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTT-ACAAATTCTTCTCAAATAGCATCCTGCT
* * *
46555246 AGAAACGAATTTATACTATTTGCTCAGAAACATC-AAAAAAAATTATTTCTTCCATGACCG
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCG
* * *
46555306 ACTGTAGCAAAAGCGCGTCCACGAGAGCGCAATTTTACAAATTCTTCTCAAATAACATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
*
46555371 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCT
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCG
* * * *
46555431 ACTGTAGCAAAAACGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTACTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
* ****
46555496 GAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCA
46555550 AGACTTAAAA
Statistics
Matches: 223, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
124 58 0.26
125 165 0.74
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCG
Found at i:46561987 original size:207 final size:207
Alignment explanation
Indices: 46561632--46562254 Score: 1174
Period size: 207 Copynumber: 3.0 Consensus size: 207
46561622 AAAAATAAAT
46561632 GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCATGGACATTGGCAGACAGG
1 GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCATGGACATTGGCAGACAGG
46561697 ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
66 ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
*
46561762 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACACGTATAGGAATGGTGCTTTGACCATCA
131 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
46561827 GATTGGAATAAG
196 GATTGGAATAAG
* *
46561839 GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCTTGGACATCGGCAGACAGG
1 GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCATGGACATTGGCAGACAGG
*
46561904 ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGAGTTGCAAGTGCCCTGATCAAGA
66 ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
46561969 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
131 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
46562034 GATTGGAATAAG
196 GATTGGAATAAG
* *
46562046 GGATCCTTGAAGAATAAAAGTGCACACCACAAAATCCCTACACGCCATGGACATTGGCAGACAGG
1 GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCATGGACATTGGCAGACAGG
*
46562111 ATAAATGGAGAACGTGGAGTAAAAACTGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
66 ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
46562176 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
131 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
*
46562241 GATTGGAAAAAG
196 GATTGGAATAAG
46562253 GG
1 GG
46562255 CACAAATATC
Statistics
Matches: 405, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
207 405 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (207 bp):
GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCATGGACATTGGCAGACAGG
ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
GATTGGAATAAG
Found at i:46569567 original size:12 final size:12
Alignment explanation
Indices: 46569522--46569568 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
46569512 TAAGAAAATT
46569522 ATTATTAAATATA
1 ATTATT-AATATA
*
46569535 A-T-TTAATAAA
1 ATTATTAATATA
*
46569545 ATTCTTAATATA
1 ATTATTAATATA
46569557 ATTATTAATATA
1 ATTATTAATATA
46569569 TGAATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
10 6 0.21
11 3 0.10
12 19 0.66
13 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTATTAATATA
Found at i:46572350 original size:13 final size:15
Alignment explanation
Indices: 46572318--46572354 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
46572308 TTAATAGGAC
46572318 TAAAT-TTAAGAAAA
1 TAAATATTAAGAAAA
46572332 TAAATATTAA-AAAA
1 TAAATATTAAGAAAA
46572346 T-AATATTAA
1 TAAATATTAA
46572355 TTTCATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 10 0.45
15 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
TAAATATTAAGAAAA
Found at i:46573176 original size:10 final size:10
Alignment explanation
Indices: 46573163--46573243 Score: 59
Period size: 10 Copynumber: 8.3 Consensus size: 10
46573153 TTTATATTTG
46573163 AAATTATTAA
1 AAATTATTAA
46573173 AAATTAATT-A
1 AAATT-ATTAA
46573183 AAATTA-TAA
1 AAATTATTAA
46573192 AAATTCA-T-A
1 AAATT-ATTAA
*
46573201 CAA-TATATAA
1 AAATTAT-TAA
46573211 AAATTATTAAA
1 AAATTATT-AA
46573222 AACATT-TTAA
1 AA-ATTATTAA
46573232 AAATTA-TAA
1 AAATTATTAA
46573241 AAA
1 AAA
46573244 AATATAAGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 21
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.02
8 2 0.03
9 20 0.34
10 21 0.36
11 12 0.20
12 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATTATTAA
Found at i:46573194 original size:19 final size:18
Alignment explanation
Indices: 46573163--46573222 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
46573153 TTTATATTTG
46573163 AAATTATTAAAAATTAATTA
1 AAATTA-TAAAAATT-ATTA
46573183 AAATTATAAAAATTCA-TA
1 AAATTATAAAAATT-ATTA
*
46573201 CAATATATAAAAATTATTA
1 AAAT-TATAAAAATTATTA
46573220 AAA
1 AAA
46573223 ACATTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 6 0.17
19 23 0.66
20 6 0.17
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTATAAAAATTATTA
Found at i:46573196 original size:9 final size:9
Alignment explanation
Indices: 46573163--46573243 Score: 65
Period size: 9 Copynumber: 8.3 Consensus size: 9
46573153 TTTATATTTG
46573163 AAATTATTAA
1 AAATTA-TAA
*
46573173 AAATTAATTA
1 AAATT-ATAA
46573183 AAATTATAA
1 AAATTATAA
46573192 AAATTCAT-A
1 AAATT-ATAA
*
46573201 CAATATATAA
1 AAAT-TATAA
46573211 AAATTATTAAA
1 AAATTA-T-AA
*
46573222 AACATTTTAA
1 AA-ATTATAA
46573232 AAATTATAA
1 AAATTATAA
46573241 AAA
1 AAA
46573244 AATATAAGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
9 25 0.43
10 24 0.41
11 6 0.10
12 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTATAA
Found at i:46573244 original size:10 final size:10
Alignment explanation
Indices: 46573163--46573255 Score: 52
Period size: 10 Copynumber: 9.3 Consensus size: 10
46573153 TTTATATTTG
*
46573163 AAATTATTAA
1 AAATTATAAA
*
46573173 AAATTA-ATTA
1 AAATTATA-AA
46573183 AAATTAT-AA
1 AAATTATAAA
*
46573192 AAATTCATACA
1 AAATT-ATAAA
*
46573203 ATA-TAT-AA
1 AAATTATAAA
46573211 AAATTATTAAA
1 AAATTA-TAAA
*
46573222 AACATT-TTAA
1 AA-ATTATAAA
46573232 AAATTATAAA
1 AAATTATAAA
*
46573242 AAAATATAAGA
1 AAATTATAA-A
46573253 AAA
1 AAA
46573256 AATAAAGTGC
Statistics
Matches: 63, Mismatches: 10, Indels: 19
0.68 0.11 0.21
Matches are distributed among these distances:
8 3 0.05
9 13 0.21
10 33 0.52
11 11 0.17
12 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (10 bp):
AAATTATAAA
Found at i:46573419 original size:19 final size:19
Alignment explanation
Indices: 46573361--46573433 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
46573351 ATTAACATGA
46573361 TAAAAATAT--AAAA-TAT
1 TAAAAATATAGAAAATTAT
* * *
46573377 AAAAATATATATGAAAAATGT
1 TAAAA-ATATA-GAAAATTAT
46573398 TAAAAATATAGAAAATTAT
1 TAAAAATATAGAAAATTAT
**
46573417 TAAATGTATAGAAAATT
1 TAAAAATATAGAAAATT
46573434 GTAAAAGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.09
17 4 0.09
19 22 0.49
20 9 0.20
21 6 0.13
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
TAAAAATATAGAAAATTAT
Found at i:46573563 original size:18 final size:18
Alignment explanation
Indices: 46573540--46573577 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46573530 ATGAAATTGC
*
46573540 AATAAAATATTAGAATAT
1 AATAAAATATTAAAATAT
*
46573558 AATAAAGTATTAAAATAT
1 AATAAAATATTAAAATAT
46573576 AA
1 AA
46573578 AACATGTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
AATAAAATATTAAAATAT
Found at i:46573966 original size:16 final size:16
Alignment explanation
Indices: 46573947--46573993 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
46573937 AAATCATAAT
46573947 TTTTACAAATTTTATA
1 TTTTACAAATTTTATA
* *
46573963 TTTTACAAGTTATGTATT
1 TTTTACAAATT-T-TATA
46573981 TTTTA-AAATTTTA
1 TTTTACAAATTTTA
46573994 ATATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 11 0.42
17 5 0.19
18 8 0.31
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (16 bp):
TTTTACAAATTTTATA
Found at i:46574005 original size:21 final size:21
Alignment explanation
Indices: 46573979--46574024 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
46573969 AAGTTATGTA
46573979 TTTTTT-AAAATTTTAATATAT
1 TTTTTTGAAAATTTTAAT-TAT
* *
46574000 TTTTTTGCAATTTTTAATTAT
1 TTTTTTGAAAATTTTAATTAT
46574021 TTTT
1 TTTT
46574025 AAGAACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTTGAAAATTTTAATTAT
Found at i:46576172 original size:16 final size:17
Alignment explanation
Indices: 46576153--46576185 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
46576143 AAATTTATTT
*
46576153 TTATATAAAAA-TAATA
1 TTATAAAAAAATTAATA
46576169 TTATAAAAAAATTAATA
1 TTATAAAAAAATTAATA
46576186 CGAGGACCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTATAAAAAAATTAATA
Found at i:46584279 original size:18 final size:18
Alignment explanation
Indices: 46584244--46584278 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46584234 TTCGACCGAT
*
46584244 GTAAATAAATTATTAAAA
1 GTAAATAAAATATTAAAA
46584262 GTAAA-AAAATATTAAAA
1 GTAAATAAAATATTAAAA
46584279 ATCAGTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
GTAAATAAAATATTAAAA
Found at i:46584508 original size:24 final size:24
Alignment explanation
Indices: 46584472--46584518 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
46584462 AAGAAATTAT
46584472 AATTTTTTAAAAATGAAAAAAATAA
1 AATTTTTTAAAAAT-AAAAAAATAA
46584497 AATTTTTTAAAAATAAAAAAAT
1 AATTTTTTAAAAATAAAAAAAT
46584519 TTGTAACTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (24 bp):
AATTTTTTAAAAATAAAAAAATAA
Found at i:46584784 original size:28 final size:29
Alignment explanation
Indices: 46584753--46584812 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
46584743 TTTAATTGTT
*
46584753 TATATTTAATAATATAATAAATTATT-AA
1 TATAATTAATAATATAATAAATTATTCAA
* * *
46584781 TATAATTAATATTTTGATAAATTATTCAA
1 TATAATTAATAATATAATAAATTATTCAA
46584810 TAT
1 TAT
46584813 TACAAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
TATAATTAATAATATAATAAATTATTCAA
Found at i:46585221 original size:25 final size:23
Alignment explanation
Indices: 46585190--46585241 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
46585180 AACTTATGAC
46585190 ATATTTTAACATAATATAAAAATAA
1 ATATTTT-A-ATAATATAAAAATAA
* *
46585215 ATATTTTAATTATATAAATATAA
1 ATATTTTAATAATATAAAAATAA
46585238 ATAT
1 ATAT
46585242 CTGTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 17 0.68
24 1 0.04
25 7 0.28
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATTTTAATAATATAAAAATAA
Found at i:46588053 original size:4 final size:4
Alignment explanation
Indices: 46588044--46588081 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
46588034 TATATCACCA
*
46588044 AATC AATC AATT AATC AATC AATC AATC AATC AATC AA
1 AATC AATC AATC AATC AATC AATC AATC AATC AATC AA
46588082 ACCAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
AATC
Found at i:46589542 original size:18 final size:17
Alignment explanation
Indices: 46589516--46589549 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
46589506 ATTTAACAAA
46589516 GATTAATTATTTATTTG
1 GATTAATTATTTATTTG
46589533 GATTATATTATTTATTT
1 GATTA-ATTATTTATTT
46589550 TCAAACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
GATTAATTATTTATTTG
Found at i:46590376 original size:150 final size:150
Alignment explanation
Indices: 46590214--46590881 Score: 923
Period size: 151 Copynumber: 4.5 Consensus size: 150
46590204 TATTTTGACA
* * * *
46590214 CTTTATTCGTATTTTTTTCTCAAATTTTATTACTTTTAAAAAATATACTATTTTATAATTTT-TT
1 CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATT
* *
46590278 ATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATT
66 ATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATT
*
46590343 AAAAAAATCTTTATTTCAGCC
131 AAAAAAA-CTTTATTTCGGCC
* * * *
46590364 ATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCGT-ATTTT
1 CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTT-TA-AAAAATATACTATTTTC-TAATTTT
* *
46590428 ATTATTTTACATTATTTTAGTACATCATGTTTGAAATGTATTAATTTA--GT-TTTTTAAAATAA
63 ATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAA
46590490 ATTAAAAAAACTTTTATTTCGGCC
128 ATTAAAAAAAC-TTTATTTCGGCC
*
46590514 CTTTGTTCGTA-TTTTTTCCCAGAGTTTATTAC--TT-AAAAA-A-ACTATTTTCTAATTTTATT
1 CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATT
46590573 ATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATT
66 ATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAA-T
46590638 TAAAAAAAACTCTTATTTCGGCC
130 T-AAAAAAACT-TTATTTCGGCC
*
46590661 CTTTGTTCGTATTTTTTTCCCCAGAGTTTATTAC--TTAAAAAA-ATACTATTTTCTAATTTTAT
1 CTTTGTTCGTATTTTTTT-CCCAGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTAT
* *
46590723 TATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTTAGATAAAT
65 TATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAAT
* *
46590788 TTAAAAAACCTTATTTCGGCC
130 TAAAAAAACTTTATTTCGGCC
* * ** *
46590809 CTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATTTTTTTTTCTAATTTTA
1 CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTT-TA-AAAAATATACTATTTTCTAATTTTA
46590874 TTATTTTA
64 TTATTTTA
46590882 AATTTCCCTG
Statistics
Matches: 468, Mismatches: 29, Indels: 40
0.87 0.05 0.07
Matches are distributed among these distances:
141 1 0.00
142 59 0.13
143 1 0.00
144 7 0.01
145 13 0.03
146 3 0.01
147 44 0.09
148 35 0.07
149 45 0.10
150 82 0.18
151 88 0.19
152 44 0.09
153 46 0.10
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (150 bp):
CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATT
ATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATT
AAAAAAACTTTATTTCGGCC
Found at i:46590587 original size:295 final size:297
Alignment explanation
Indices: 46590214--46590843 Score: 911
Period size: 295 Copynumber: 2.1 Consensus size: 297
46590204 TATTTTGACA
* * *
46590214 CTTTATTCGTATTTTTTTCTCAAATTTTATTACTTTTAAAAAATATACTATTTTATAATTTTTTA
1 CTTTGTTCGTATTTTTTTCCCAGATTTTATTAC--TTAAAAAATATACTATTTTATAATTTTTTA
* *
46590279 TTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA-TT
64 TTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATTT
* * *
46590343 AAAAAAATCT-TTATTTCAGCCATTTGTTCGTATTTTTTT-CCCGGATTTTATTACTTTCAATAA
129 AAAAAAAACTCTTATTTCAGCCATTTGTTCGTATTTTTTTCCCCAGAGTTTATTAC-TT--A-AA
* *
46590406 AAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATCATGTTTGAAATGTATT
190 AAA-ATACTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATCATATTTGAAATGTATT
*
46590470 AATTTA-GT-TTTTTAAAATAAATTAAAAAAACTTTTATTTCGGCC
253 AATTTACGTGTTTTTAAAATAAATTAAAAAAAC-CTTATTTCGGCC
* *
46590514 CTTTGTTCGTA-TTTTTTCCCAGAGTTTATTACTT-AAAAA-A-ACTATTTTCTAATTTTATTAT
1 CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTAAAAAATATACTATTTTATAATTTT-TTAT
46590575 TTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATTTA
65 TTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATTTA
* *
46590640 AAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGAGTTTATTACTTAAAAAAAT
130 AAAAAAACTCTTATTTCAGCCATTTGTTCGTATTTTTTTCCCCAGAGTTTATTACTTAAAAAAAT
*
46590705 ACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAC
195 ACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATCATATTTGAAATGTATTAATTTAC
* * *
46590770 TGTGTTTTTTAGATAAATTTAAAAAACCTTATTTCGGCC
260 -GTGTTTTTAAAATAAATTAAAAAAACCTTATTTCGGCC
*
46590809 CTTTGTTCGTATTTTTTTCCCGGATTTTATTACTT
1 CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTT
46590844 TCAATAAAAA
Statistics
Matches: 300, Mismatches: 21, Indels: 22
0.87 0.06 0.06
Matches are distributed among these distances:
292 1 0.00
293 61 0.20
294 20 0.07
295 89 0.30
296 57 0.19
297 31 0.10
298 13 0.04
299 18 0.06
300 10 0.03
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.51
Consensus pattern (297 bp):
CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTAAAAAATATACTATTTTATAATTTTTTATT
TTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATTTAA
AAAAAACTCTTATTTCAGCCATTTGTTCGTATTTTTTTCCCCAGAGTTTATTACTTAAAAAAATA
CTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATCATATTTGAAATGTATTAATTTACG
TGTTTTTAAAATAAATTAAAAAAACCTTATTTCGGCC
Found at i:46590745 original size:151 final size:149
Alignment explanation
Indices: 46590214--46590881 Score: 928
Period size: 150 Copynumber: 4.5 Consensus size: 149
46590204 TATTTTGACA
* * * *
46590214 CTTTATTCGTATTTTTTTCTCAAATTTTATTACTTTTAAAAAATATACTATTTTATAATTTT-TT
1 CTTTGTTCGTATTTTTTTCCCAGATTTTATTAC-TTTAAAAAA-ATACTATTTTCTAATTTTATT
* *
46590278 ATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATT
64 ATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATT
*
46590343 AAAAAAA-TCTTTATTTCAGCC
129 AAAAAAACTC-TTATTTCGGCC
* * *
46590364 ATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCGT-ATTTT
1 CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTT--A-AAAAA-ATACTATTTTC-TAATTTT
* *
46590428 ATTATTTTACATTATTTTAGTACATCATGTTTGAAATGTATTAATTTA--GT-TTTTTAAAATAA
61 ATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAA
*
46590490 ATTAAAAAAACTTTTATTTCGGCC
126 ATTAAAAAAACTCTTATTTCGGCC
*
46590514 CTTTGTTCGTA-TTTTTTCCCAGAGTTTATTAC-TT-AAAAAA-ACTATTTTCTAATTTTATTAT
1 CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTAAAAAAATACTATTTTCTAATTTTATTAT
46590575 TTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATTTA
66 TTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAA-TT-
46590640 AAAAAAACTCTTATTTCGGCC
129 AAAAAAACTCTTATTTCGGCC
*
46590661 CTTTGTTCGTATTTTTTTCCCCAGAGTTTATTAC-TTAAAAAAATACTATTTTCTAATTTTATTA
1 CTTTGTTCGTATTTTTTT-CCCAGATTTTATTACTTTAAAAAAATACTATTTTCTAATTTTATTA
* * *
46590725 TTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTTAGATAAATTT
65 TTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATTA
46590790 AAAAAAC-CTTATTTCGGCC
130 AAAAAACTCTTATTTCGGCC
* * *
46590809 CTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATTTTTTTTTCTAATTTTA
1 CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTT-AA-AAAAATA--CTATTTTCTAATTTTA
46590874 TTATTTTA
62 TTATTTTA
46590882 AATTTCCCTG
Statistics
Matches: 471, Mismatches: 26, Indels: 40
0.88 0.05 0.07
Matches are distributed among these distances:
141 1 0.00
142 59 0.13
143 1 0.00
144 7 0.01
145 13 0.03
146 2 0.00
147 44 0.09
148 40 0.08
149 48 0.10
150 84 0.18
151 84 0.18
152 42 0.09
153 46 0.10
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (149 bp):
CTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTAAAAAAATACTATTTTCTAATTTTATTAT
TTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATTAA
AAAAACTCTTATTTCGGCC
Found at i:46590989 original size:44 final size:44
Alignment explanation
Indices: 46590922--46591005 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
46590912 AAAGAATTTC
* * * *
46590922 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTCATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCCAG
46590966 AGATCTCATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
1 AGATCTCATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
46591006 ACACTATCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (44 bp):
AGATCTCATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCCAG
Found at i:46591032 original size:43 final size:43
Alignment explanation
Indices: 46590922--46591033 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 43
46590912 AAAGAATTTC
* * * *
46590922 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATC-TATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
46590966 AGATCTCATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCT-ATCTCCCTGAAG-TTACAGCGGAGCAGATCGAAGACAG
**
46591009 CTATCCTATCTCCCTGAAGTTACAG
1 AGAT-CTATCTCCCTGAAGTTACAG
46591034 TGGAATGGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
43 19 0.33
44 39 0.67
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (43 bp):
AGATCTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
Found at i:46592673 original size:3 final size:3
Alignment explanation
Indices: 46592667--46592716 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
46592657 TTTAGCCACT
*
46592667 TTA TTA TT- TTG TTTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46592711 CTTA TT
1 -TTA TT
46592717 TGTTTATGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
2 4 0.10
3 33 0.79
4 5 0.12
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Done.