Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 88 of 129
Found at i:14146979 original size:3 final size:3
Alignment explanation
Indices: 14146973--14147121 Score: 139
Period size: 3 Copynumber: 51.0 Consensus size: 3
14146963 TTGCTATTGC
* * * * *
14146973 TAT TAT TCT TTT TGT TAT TAG TAT TAG TAT TAT T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
14147020 TAT TAC TAG TA- TAG TA- TAG TAT GAT ATAT TA- TAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
14147061 TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
14147107 TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT TAT
14147122 CATCTTTGTT
Statistics
Matches: 123, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
2 12 0.10
3 106 0.86
4 5 0.04
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:14147942 original size:13 final size:14
Alignment explanation
Indices: 14147924--14147989 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 14
14147914 TATGTTTTCT
14147924 TTTTTTCATTTT-A
1 TTTTTTCATTTTAA
* *
14147937 TTTTTTGATTTTGA
1 TTTTTTCATTTTAA
*
14147951 TTTTAT-ATTTTAA
1 TTTTTTCATTTTAA
14147964 GTTCTTTTCATTTT-A
1 -TT-TTTTCATTTTAA
*
14147979 TTTTTTTATTT
1 TTTTTTCATTT
14147990 CTTGTTGCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
13 25 0.57
14 10 0.23
15 4 0.09
16 5 0.11
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (14 bp):
TTTTTTCATTTTAA
Found at i:14149244 original size:84 final size:84
Alignment explanation
Indices: 14149142--14149335 Score: 325
Period size: 84 Copynumber: 2.3 Consensus size: 84
14149132 AAATATAGGC
* *
14149142 TTGTAAATAATTTAATTTATATAGATCTTATCCTAGCTAGCTAAAGTTATAACCTAGCATCGCTT
1 TTGTAAATAATTTAATTTATATAGATCTTATCCTAGCTAGCTAAAGCTATAACCTAACATCGCTT
* *
14149207 TTTTCCTTCGTCCTATTTA
66 TTCTCCTTCGTCCTAGTTA
* *
14149226 TTGTAAATAATTTAATTTATATAGATCTTATCTTGGCTAGCTAAAGCTATAACCTAACATCGCTT
1 TTGTAAATAATTTAATTTATATAGATCTTATCCTAGCTAGCTAAAGCTATAACCTAACATCGCTT
*
14149291 TTCTCCTTTGTCCTAGTTA
66 TTCTCCTTCGTCCTAGTTA
14149310 TTGTAAATAATTTAATTTATATAGAT
1 TTGTAAATAATTTAATTTATATAGAT
14149336 AAAGTTATAA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 103 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.44
Consensus pattern (84 bp):
TTGTAAATAATTTAATTTATATAGATCTTATCCTAGCTAGCTAAAGCTATAACCTAACATCGCTT
TTCTCCTTCGTCCTAGTTA
Found at i:14149379 original size:68 final size:68
Alignment explanation
Indices: 14149267--14149403 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
14149257 CTTGGCTAGC
*
14149267 TAAAGCTATAACCTAACATCGCTTTTCTCCTTTGTCCTAGTTATTGTAAATAATTTAATTTATAT
1 TAAAGCTATAACCTAACATCGCTTTTCTCCTTCGTCCTAGTTATTGTAAATAATTTAATTTATAT
14149332 AGA
66 AGA
* *
14149335 TAAAGTTATAACCTAACATCGCTTTTCTCCTTCGTCCTATTTATTGTAAATAATTTAATTTATAT
1 TAAAGCTATAACCTAACATCGCTTTTCTCCTTCGTCCTAGTTATTGTAAATAATTTAATTTATAT
14149400 AGA
66 AGA
14149403 T
1 T
14149404 CTTATCTTGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (68 bp):
TAAAGCTATAACCTAACATCGCTTTTCTCCTTCGTCCTAGTTATTGTAAATAATTTAATTTATAT
AGA
Found at i:14149466 original size:152 final size:152
Alignment explanation
Indices: 14149183--14149487 Score: 511
Period size: 152 Copynumber: 2.0 Consensus size: 152
14149173 CCTAGCTAGC
* *
14149183 TAAAGTTATAACCTAGCATCGCTTTTTTCCTTCGTCCTATTTATTGTAAATAATTTAATTTATAT
1 TAAAGTTATAACCTAACATCGCTTTTCTCCTTCGTCCTATTTATTGTAAATAATTTAATTTATAT
*
14149248 AGATCTTATCTTGGCTAGCTAAAGCTATAACCTAACATCGCTTTTCTCCTTTGTCCTAGTTATTG
66 AGATCTTATCTTGGCTAGCTAAAGCTATAACCTAACATCGCTTTTCTCCATTGTCCTAGTTATTG
14149313 TAAATAATTTAATTTATATAGA
131 TAAATAATTTAATTTATATAGA
14149335 TAAAGTTATAACCTAACATCGCTTTTCTCCTTCGTCCTATTTATTGTAAATAATTTAATTTATAT
1 TAAAGTTATAACCTAACATCGCTTTTCTCCTTCGTCCTATTTATTGTAAATAATTTAATTTATAT
* * * * * *
14149400 AGATCTTATCTTGGCTAGCTAAAGTTATAACCTAACATTGTTTTTCTCCATTGTTCTATTTGTTG
66 AGATCTTATCTTGGCTAGCTAAAGCTATAACCTAACATCGCTTTTCTCCATTGTCCTAGTTATTG
* *
14149465 TAAATAATTTATTTTATGTAGA
131 TAAATAATTTAATTTATATAGA
14149487 T
1 T
14149488 CTTACCGTAG
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
152 142 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (152 bp):
TAAAGTTATAACCTAACATCGCTTTTCTCCTTCGTCCTATTTATTGTAAATAATTTAATTTATAT
AGATCTTATCTTGGCTAGCTAAAGCTATAACCTAACATCGCTTTTCTCCATTGTCCTAGTTATTG
TAAATAATTTAATTTATATAGA
Found at i:14149481 original size:84 final size:83
Alignment explanation
Indices: 14149335--14149547 Score: 300
Period size: 84 Copynumber: 2.5 Consensus size: 83
14149325 TTTATATAGA
* * * *
14149335 TAAAGTTATAACCTAACATCGCTTTTCTCCTTCGTCCTATTTATTGTAAATAATTTAATTTATAT
1 TAAAGTTATAACCTAACATAGTTTTTCTCCTT-GTTCTATTTGTTGTAAATAATTTAATTTATAT
* * *
14149400 AGATCTTATCTTGGCTAGC
65 AGATCTTACCGTAGCTAGC
* * *
14149419 TAAAGTTATAACCTAACATTGTTTTTCTCCATTGTTCTATTTGTTGTAAATAATTTATTTTATGT
1 TAAAGTTATAACCTAACATAGTTTTTCTCC-TTGTTCTATTTGTTGTAAATAATTTAATTTATAT
14149484 AGATCTTACCGTAGCTAGC
65 AGATCTTACCGTAGCTAGC
*
14149503 TAAAGTTATAACCTAGCATAGTTTTTCTCCTTTGTTCTATTTGTT
1 TAAAGTTATAACCTAACATAGTTTTTCTCC-TTGTTCTATTTGTT
14149548 TATTATCTTT
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 114 0.98
85 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (83 bp):
TAAAGTTATAACCTAACATAGTTTTTCTCCTTGTTCTATTTGTTGTAAATAATTTAATTTATATA
GATCTTACCGTAGCTAGC
Found at i:14150095 original size:17 final size:18
Alignment explanation
Indices: 14150070--14150117 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
14150060 CACCCAAATA
*
14150070 TTTTCTCTTTCTTT-TTT
1 TTTTTTCTTTCTTTCTTT
14150087 TTTTTTCTTTCTTTCTTT
1 TTTTTTCTTTCTTTCTTT
*
14150105 TTGTTTTCCTTCT
1 TT-TTTTCTTTCT
14150118 CAAATAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 13 0.48
18 5 0.19
19 9 0.33
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTTTCTTTCTTTCTTT
Found at i:14151796 original size:3 final size:3
Alignment explanation
Indices: 14151788--14151824 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14151778 GTTTTAATTT
14151788 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14151825 TAAAAATAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14153355 original size:16 final size:16
Alignment explanation
Indices: 14153327--14153491 Score: 113
Period size: 16 Copynumber: 10.2 Consensus size: 16
14153317 GTTTTTAAAC
14153327 CCCCTAAAAATCCAAAA
1 CCCCT-AAAATCCAAAA
* *
14153344 TCCCTTAAATCC-AAA
1 CCCCTAAAATCCAAAA
14153359 CTCCCTAAAATCCAAAA
1 C-CCCTAAAATCCAAAA
*
14153376 CCCCCCAAAATCCAAAA
1 -CCCCTAAAATCCAAAA
* * ***
14153393 TCCC-AAACTTTTAAA
1 CCCCTAAAATCCAAAA
* * * *
14153408 -CTCTTAAATCTAAAC
1 CCCCTAAAATCCAAAA
14153423 CCCCTAAAAATCCAAAA
1 CCCCT-AAAATCCAAAA
* * *
14153440 TCCTTTAAATCC-AAA
1 CCCCTAAAATCCAAAA
*
14153455 CCCCATAAAATCCGAAA
1 CCCC-TAAAATCCAAAA
14153472 CCCCTAAAATCCAAAA
1 CCCCTAAAATCCAAAA
14153488 CCCC
1 CCCC
14153492 CCAAAATCTA
Statistics
Matches: 113, Mismatches: 27, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
14 2 0.02
15 21 0.19
16 50 0.44
17 39 0.35
18 1 0.01
ACGTcount: A:0.45, C:0.36, G:0.01, T:0.19
Consensus pattern (16 bp):
CCCCTAAAATCCAAAA
Found at i:14153365 original size:33 final size:32
Alignment explanation
Indices: 14153327--14153533 Score: 136
Period size: 33 Copynumber: 6.4 Consensus size: 32
14153317 GTTTTTAAAC
14153327 CCCCTAAAAATCCAAAATCCCTTAAATCCAAA
1 CCCCTAAAAATCCAAAATCCCTTAAATCCAAA
* **
14153359 CTCCCT-AAAATCCAAAACCCCCCAAAATCCAAAA
1 C-CCCTAAAAATCCAAAA-TCCCTTAAATCC-AAA
* * *** * *
14153393 TCCC--AAACTTTTAAA-CTCTTAAATCTAAA
1 CCCCTAAAAATCCAAAATCCCTTAAATCCAAA
*
14153422 CCCCCTAAAAATCCAAAATCCTTTAAATCCAAA
1 -CCCCTAAAAATCCAAAATCCCTTAAATCCAAA
* * *
14153455 CCCC-ATAAAATCCGAAACCCCTAAAATCCAAAA
1 CCCCTA-AAAATCCAAAATCCCTTAAATCC-AAA
** * * * *
14153488 CCCCCCAAAATCTAAAATCCCTTTACTCAAAA
1 CCCCTAAAAATCCAAAATCCCTTAAATCCAAA
14153520 CCTCCTAAAAATCC
1 CC-CCTAAAAATCC
14153534 TAAGGACACG
Statistics
Matches: 129, Mismatches: 35, Indels: 21
0.70 0.19 0.11
Matches are distributed among these distances:
29 3 0.02
30 10 0.08
31 1 0.01
32 54 0.42
33 58 0.45
34 3 0.02
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.20
Consensus pattern (32 bp):
CCCCTAAAAATCCAAAATCCCTTAAATCCAAA
Found at i:14159931 original size:19 final size:19
Alignment explanation
Indices: 14159907--14159944 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14159897 CTATGAGGGC
14159907 ATAAAAAAAAACAAAAAAA
1 ATAAAAAAAAACAAAAAAA
* *
14159926 ATAAAAAAAGAGAAAAAAA
1 ATAAAAAAAAACAAAAAAA
14159945 GAAAAATTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.87, C:0.03, G:0.05, T:0.05
Consensus pattern (19 bp):
ATAAAAAAAAACAAAAAAA
Found at i:14161289 original size:33 final size:33
Alignment explanation
Indices: 14161247--14161914 Score: 627
Period size: 33 Copynumber: 20.5 Consensus size: 33
14161237 AAAAAAAAAA
* * *
14161247 CTTTAAGCCCAGTTTATTTGATCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
* *
14161280 CTTTAAGCCCAGTTTATCTGGCCATCAATGAGG
1 CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
* *
14161313 CTTTAAACCTAGTTTATCTGACC-TCAAATGAAG
1 CTTTAAGCCCAGTTTATCTGACCATC-AATGAAG
* *
14161346 CTTTAAGTCCAGTTTATCTGACCATCAATGAAA
1 CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
** *
14161379 CTTTAAGTACGGTTTATCT-AGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGA-CCATCAATGAAG
*
14161412 CTTTAAGCCCAGTTTATCTGACCATCAATGAGG
1 CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
* * *
14161445 CTTTAAACCTAGTTTATCTGGCC-TCAAATGAAG
1 CTTTAAGCCCAGTTTATCTGACCATC-AATGAAG
* * *
14161478 ATTTAAGCCCAGTTTATCTGACCCTCAATGAAA
1 CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
* *
14161511 CTTTAAGCCCAGTTTATCTGGCCAACAAT-AA-
1 CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
*
14161542 CTTTAAGCCCAGTTTATCTGGCCAAT-AAT-AA-
1 CTTTAAGCCCAGTTTATCTGACC-ATCAATGAAG
* * *
14161573 CTTTAAGCTCAGTTTATCTGGCCAACAAT-AA-
1 CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
* *
14161604 CTTTAAGCTCAGTTTATCTGGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
* * * *
14161637 CTTTAAGCTCAGTTTATCTGGCCATCCATGAGG
1 CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
* * *
14161670 CTTTAAGCCCAGTTTATCT-AGCCTTAAATGAAT
1 CTTTAAGCCCAGTTTATCTGA-CCATCAATGAAG
* * *
14161703 ATTTAAGCTCAGTTTATCT-AGCCAACAATG-A-
1 CTTTAAGCCCAGTTTATCTGA-CCATCAATGAAG
* *
14161734 CTTTTAAGCCCAGTTTATCTGGCCAACAATG-A-
1 C-TTTAAGCCCAGTTTATCTGACCATCAATGAAG
* * * *
14161766 CTTTTAAGCCCAGTTTATTTCG-CCCTTAATGAAA
1 C-TTTAAGCCCAGTTTATCT-GACCATCAATGAAG
14161800 CTTTAAGCCCAGTTTATCT-AGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGA-CCATCAATGAAG
* * * * *
14161833 TTTTAAGCCCAGTTTATCTGGCCTTAAATGAGG
1 CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
* * * * *
14161866 TTTTAAGCCCAGTTTAGCTGGCCTTCAAT-AAA
1 CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
*
14161898 ATTTAAGCCCAGTTTAT
1 CTTTAAGCCCAGTTTAT
14161915 TTAGCCCCAA
Statistics
Matches: 543, Mismatches: 73, Indels: 39
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.00
31 83 0.15
32 79 0.15
33 374 0.69
34 6 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (33 bp):
CTTTAAGCCCAGTTTATCTGACCATCAATGAAG
Found at i:14162772 original size:121 final size:121
Alignment explanation
Indices: 14162454--14162773 Score: 516
Period size: 122 Copynumber: 2.6 Consensus size: 121
14162444 TTAAAATTTA
*
14162454 AAATTTTTAAAGTTTCATTGCCTTTGATTATGAAGAACATTCAAAGATTTTGAGATTTGTAAGAC
1 AAATTTTTAAAGTTTCATTGCCTCTGATTATG-AGAACATTCAAAGATTTTGAGATTTGTAAGAC
*
14162519 CTCCGAGCATAATTTCCAAAAGCCTCTGCACACGACTTTCAAGATTAAAAGATTTTC
65 CTCCGAGCATAATCTCCAAAAGCCTCTGCACACGACTTTCAAGATTAAAAGATTTTC
* *
14162576 AAATTTTTAAAGTTTCATTGTCTCTGATTATGAGAAACATTCAAAGATTTTGAGATTTATAAGAC
1 AAATTTTTAAAGTTTCATTGCCTCTGATTATGAG-AACATTCAAAGATTTTGAGATTTGTAAGAC
* * *
14162641 CTCCAAGCATAATCTCTAAAAGCCTCTGCGCACGACTTTCAAGATTAAAAGATTTTC
65 CTCCGAGCATAATCTCCAAAAGCCTCTGCACACGACTTTCAAGATTAAAAGATTTTC
* *
14162698 AAA-TTTTAAAGTTTCATCGCCTCTGATTATGATGAGCATTCAAAGATTTTGAGATTTGTAAGAC
1 AAATTTTTAAAGTTTCATTGCCTCTGATTATGA-GAACATTCAAAGATTTTGAGATTTGTAAGAC
*
14162762 CTCCGGGCATAA
65 CTCCGAGCATAA
14162774 ATTCGATTCA
Statistics
Matches: 183, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
121 67 0.37
122 116 0.63
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (121 bp):
AAATTTTTAAAGTTTCATTGCCTCTGATTATGAGAACATTCAAAGATTTTGAGATTTGTAAGACC
TCCGAGCATAATCTCCAAAAGCCTCTGCACACGACTTTCAAGATTAAAAGATTTTC
Found at i:14162951 original size:111 final size:111
Alignment explanation
Indices: 14162750--14162971 Score: 340
Period size: 111 Copynumber: 2.0 Consensus size: 111
14162740 AAGATTTTGA
*
14162750 GATTTGTAAGACCTCCGGGCATAAATTCGATTCACGATTTTATCCCGATCGATTTCTTTATCTTT
1 GATTTGTAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCCCGATCGATTTCTTTATCTTT
*
14162815 TGACTTGTGGTGTTATCCTAGTCGATTCTATAAGACCTCCGAGCAT
66 TGACTTGTGGTGTTATCCTAATCGATTCTATAAGACCTCCGAGCAT
* * * *
14162861 GATTTGTAAGACCTCTGGGCATAAATTTGATTCGCGGTGTTATCCCGATCGA-TTCTTTTATCTT
1 GATTTGTAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCCCGATCGATTTC-TTTATCTT
* *
14162925 TTGACTTGTGGTGTTAT-TTCAATCGATTCTGTAAGACCTCCGAGCAT
65 TTGACTTGTGGTGTTATCCT-AATCGATTCTATAAGACCTCCGAGCAT
14162972 AAATTTGATT
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
110 4 0.04
111 97 0.96
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (111 bp):
GATTTGTAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCCCGATCGATTTCTTTATCTTT
TGACTTGTGGTGTTATCCTAATCGATTCTATAAGACCTCCGAGCAT
Found at i:14163057 original size:88 final size:88
Alignment explanation
Indices: 14162861--14163142 Score: 413
Period size: 88 Copynumber: 3.2 Consensus size: 88
14162851 CTCCGAGCAT
* *
14162861 GATT-TGTAAGACCTCTGGGCATAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTTATCTT
1 GATTCTGTAAGACCTCCGAGCATAAATTTGATTCGCGGTGTTATCCCGATCGATTC-TTTATCTT
*
14162925 TTGACTTGTGGTGTTATTTCAATC
65 TTGACTTGTGGTGTTATTCCAATC
*
14162949 GATTCTGTAAGACCTCCGAGCATAAATTTGATTCACGGTGTTATCCCGATCGATTCTTTATCTTT
1 GATTCTGTAAGACCTCCGAGCATAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTT
*
14163014 TGACTTGTGATGTTATTCCAATC
66 TGACTTGTGGTGTTATTCCAATC
* * * * * * * *
14163037 GATTTTTTAAGACCTTCGAGCATAAATTCGATTCGCGGTGTCAACCCAATCGACTCTTTATCTTT
1 GATTCTGTAAGACCTCCGAGCATAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTT
* *
14163102 TGACTTGTGGTGTTATCCCAGTC
66 TGACTTGTGGTGTTATTCCAATC
14163125 GATTCTGTAAGACCTCCG
1 GATTCTGTAAGACCTCCG
14163143 GACATGATTT
Statistics
Matches: 173, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
88 125 0.72
89 48 0.28
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (88 bp):
GATTCTGTAAGACCTCCGAGCATAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTT
TGACTTGTGGTGTTATTCCAATC
Found at i:14163156 original size:23 final size:23
Alignment explanation
Indices: 14163125--14163188 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
14163115 TATCCCAGTC
*
14163125 GATTCTGTAAGACCTCCGGACAT
1 GATTTTGTAAGACCTCCGGACAT
* * **
14163148 GATTTTGTAATACCTTCAAACAT
1 GATTTTGTAAGACCTCCGGACAT
* *
14163171 -AATTTCTAAGACCTCCGG
1 GATTTTGTAAGACCTCCGG
14163189 GCATAAATTC
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (23 bp):
GATTTTGTAAGACCTCCGGACAT
Found at i:14163209 original size:133 final size:132
Alignment explanation
Indices: 14163044--14163285 Score: 306
Period size: 133 Copynumber: 1.8 Consensus size: 132
14163034 ATCGATTTTT
* * * *
14163044 TAAGACCTTCGAGCATAAATTCGATTCGCGGTGTCAACCCAATCGACTCTTTATCTTTTGACTTG
1 TAAGACCTCCGAGCATAAATTCGATTCACGGTGTCAACCCAATCGACTCTTTAT-TTTTCAATT-
* *
14163109 T-GGTGTTATCCCAGTCGATTCTGTAAGACCTCCGGACATGATTTTGTAATACCTTCAAACATAA
64 TACGTGTTATCCCAATCGATTCTGTAAGACCTCCGGACATGATTTTGTAATACCTTCAAACATAA
14163173 TTTC
129 TTTC
* * * * * * *
14163177 TAAGACCTCCGGGCATAAATTCGATTCACGGTGTTATCTCGATCGATTTTTTATTTTTCAATTTA
1 TAAGACCTCCGAGCATAAATTCGATTCACGGTGTCAACCCAATCGACTCTTTATTTTTCAATTTA
* **
14163242 CCGTGTTATCTCAATCGATTCTGTAAGACCTCCGGGTATGATTT
66 -CGTGTTATCCCAATCGATTCTGTAAGACCTCCGGACATGATTT
14163286 ATAAGATCTC
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
131 1 0.01
132 7 0.08
133 83 0.91
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (132 bp):
TAAGACCTCCGAGCATAAATTCGATTCACGGTGTCAACCCAATCGACTCTTTATTTTTCAATTTA
CGTGTTATCCCAATCGATTCTGTAAGACCTCCGGACATGATTTTGTAATACCTTCAAACATAATT
TC
Found at i:14163553 original size:19 final size:20
Alignment explanation
Indices: 14163524--14163577 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
14163514 TTTAATTTTA
*
14163524 ATAATAATAATAATAATATT
1 ATAAAAATAATAATAATATT
* *
14163544 -TAAAAATAATTATTAATTTT
1 ATAAAAATAA-TAATAATATT
14163564 ATAAAAATATATAA
1 ATAAAAATA-ATAA
14163578 AAAAATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 10 0.37
22 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAAAATAATAATAATATT
Found at i:14165125 original size:17 final size:16
Alignment explanation
Indices: 14165044--14165242 Score: 159
Period size: 16 Copynumber: 12.3 Consensus size: 16
14165034 GTTTTTAAAC
*
14165044 CCCCTAAAAATCTAAAA
1 CCCCT-AAAATCCAAAA
* * *
14165061 TCCCTTAAATCCAAAC
1 CCCCTAAAATCCAAAA
*
14165077 CCCCTAAAATCCGAAA
1 CCCCTAAAATCCAAAA
*
14165093 CCCCTAAAATCTAAAA
1 CCCCTAAAATCCAAAA
14165109 CCCCTCAAAATCCAAAA
1 CCCCT-AAAATCCAAAA
* * ***
14165126 TCCC-AAACTTTTAAA
1 CCCCTAAAATCCAAAA
* * *
14165141 -CTCTTAAATCCAAAC
1 CCCCTAAAATCCAAAA
14165156 CCCCTAAAAATCCAAAA
1 CCCCT-AAAATCCAAAA
* * *
14165173 TCCCTTAAATCCAAAT
1 CCCCTAAAATCCAAAA
* *
14165189 CTCATAAAATCCAAAA
1 CCCCTAAAATCCAAAA
*
14165205 CCCTTAAAATCCAAAA
1 CCCCTAAAATCCAAAA
14165221 CCCCTAAAAATCCAAAA
1 CCCCT-AAAATCCAAAA
*
14165238 TCCCT
1 CCCCT
14165243 TTACTCAAAA
Statistics
Matches: 139, Mismatches: 38, Indels: 10
0.74 0.20 0.05
Matches are distributed among these distances:
14 2 0.01
15 12 0.09
16 80 0.58
17 45 0.32
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.20
Consensus pattern (16 bp):
CCCCTAAAATCCAAAA
Found at i:14165237 original size:112 final size:112
Alignment explanation
Indices: 14165040--14165241 Score: 332
Period size: 112 Copynumber: 1.8 Consensus size: 112
14165030 CTAAGTTTTT
* * * *
14165040 AAACCCCCTAAAAATCTAAAATCCCTTAAATCCAAACCCCCTAAAATCCGAAACCCCTAAAATCT
1 AAACCCCCTAAAAATCCAAAATCCCTTAAATCCAAACCCCATAAAATCCAAAACCCCTAAAATCC
*
14165105 AAAACCCCTCAAAATCCAAAATCCCAAACTTTTAAACTCTTAAATCC
66 AAAACCCCTAAAAATCCAAAATCCCAAACTTTTAAACTCTTAAATCC
* * *
14165152 AAACCCCCTAAAAATCCAAAATCCCTTAAATCCAAATCTCATAAAATCCAAAACCCTTAAAATCC
1 AAACCCCCTAAAAATCCAAAATCCCTTAAATCCAAACCCCATAAAATCCAAAACCCCTAAAATCC
14165217 AAAACCCCTAAAAATCCAAAATCCC
66 AAAACCCCTAAAAATCCAAAATCCC
14165242 TTTACTCAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
112 82 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (112 bp):
AAACCCCCTAAAAATCCAAAATCCCTTAAATCCAAACCCCATAAAATCCAAAACCCCTAAAATCC
AAAACCCCTAAAAATCCAAAATCCCAAACTTTTAAACTCTTAAATCC
Found at i:14165252 original size:32 final size:32
Alignment explanation
Indices: 14165143--14165266 Score: 126
Period size: 33 Copynumber: 3.8 Consensus size: 32
14165133 CTTTTAAACT
*
14165143 CTTAAATCCAAACCCCCTAAAAATCCAAAATCC
1 CTTAAAT-CAAAACCCCTAAAAATCCAAAATCC
* * *
14165176 CTTAAATCCAAATCTC-ATAAAATCCAAAA-CC
1 CTTAAATCAAAACCCCTA-AAAATCCAAAATCC
14165207 CTTAAAATCCAAAACCCCTAAAAATCCAAAATCC
1 CTT-AAAT-CAAAACCCCTAAAAATCCAAAATCC
* * *
14165241 CTTTACTCAAAACCTCATAAAAATCC
1 CTTAAATCAAAACC-CCTAAAAATCC
14165267 TAAGGACACG
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
31 6 0.08
32 27 0.36
33 36 0.48
34 6 0.08
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (32 bp):
CTTAAATCAAAACCCCTAAAAATCCAAAATCC
Found at i:14170056 original size:25 final size:25
Alignment explanation
Indices: 14169999--14170062 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
14169989 AATTGAAATT
* *
14169999 ATTAATAAAAATTACTATAATCATG
1 ATTAAAAAAAATTACTATAATCACG
* *
14170024 ATTGAAAAAAAATTATTATAATTACG
1 ATT-AAAAAAAATTACTATAATCACG
*
14170050 ATTAAAATAAATT
1 ATTAAAAAAAATT
14170063 TAATAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 12 0.36
26 21 0.64
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (25 bp):
ATTAAAAAAAATTACTATAATCACG
Found at i:14170150 original size:21 final size:18
Alignment explanation
Indices: 14170108--14170150 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 18
14170098 ATTAATATTT
*
14170108 AAATTTAACTAATATAAT
1 AAATTTAACTAATATAAA
14170126 AAATTTAATCTATCATATAAA
1 AAATTTAA-CTA--ATATAAA
14170147 AAAT
1 AAAT
14170151 GCAATGAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
21 10 0.48
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTAACTAATATAAA
Found at i:14171933 original size:2 final size:2
Alignment explanation
Indices: 14171928--14171957 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14171918 ATATTTCTTT
*
14171928 TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14171958 ATTAGGGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:14172637 original size:4 final size:4
Alignment explanation
Indices: 14172630--14172660 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
14172620 AACTAACTAA
14172630 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
14172661 TATATTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:14179039 original size:1 final size:1
Alignment explanation
Indices: 14179035--14179078 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
14179025 ATGGGGGCAT
* * * *
14179035 AAAAAAAAACAAAAAAAATAAAAAAAAGAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14179079 TTGGTTATGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.02, G:0.05, T:0.02
Consensus pattern (1 bp):
A
Found at i:14179057 original size:19 final size:20
Alignment explanation
Indices: 14179033--14179078 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
14179023 CTATGGGGGC
*
14179033 ATAAAAAAAA-ACAAAAAAA
1 ATAAAAAAAAGAAAAAAAAA
14179052 ATAAAAAAAAGAAAAAAAAA
1 ATAAAAAAAAGAAAAAAAAA
*
14179072 AGAAAAA
1 ATAAAAA
14179079 TTGGTTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.89, C:0.02, G:0.04, T:0.04
Consensus pattern (20 bp):
ATAAAAAAAAGAAAAAAAAA
Found at i:14179059 original size:18 final size:18
Alignment explanation
Indices: 14179036--14179070 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14179026 TGGGGGCATA
14179036 AAAAAAAACAAAAAAAAT
1 AAAAAAAACAAAAAAAAT
*
14179054 AAAAAAAAGAAAAAAAA
1 AAAAAAAACAAAAAAAA
14179071 AAGAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.91, C:0.03, G:0.03, T:0.03
Consensus pattern (18 bp):
AAAAAAAACAAAAAAAAT
Found at i:14180414 original size:33 final size:33
Alignment explanation
Indices: 14180372--14180976 Score: 701
Period size: 33 Copynumber: 18.5 Consensus size: 33
14180362 AAAAAAAAAA
* *
14180372 CTTTAAGCCCAGTTTATTTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
14180405 CTTTAAGCCCAGTTTATCTGGCCATCAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
14180438 CTTTAAACCCAGTTTATCTGACC-TCAAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATC-AATGAAG
* * *
14180471 CTTTAAGTCCAGTTTATCTGACCATCAATGAAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
14180504 CTTTAAGCACAGTTTATCTAGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
14180537 CTTTAAGCCCAGTTTATCTGGCCATCAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
14180570 CTTTAAACCTAGTTTATCTGGCC-TCAAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATC-AATGAAG
* * * *
14180603 ATTTAAGCCCAGTTTATCTGACCTTCAATGAAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
14180636 CTTTAAGCCCAGTTTATCTGGCCAAT-AAT-AA-
1 CTTTAAGCCCAGTTTATCTGGCC-ATCAATGAAG
* * *
14180667 CTTTAAGCTCAGTTTATTTGGCCAACAAT-AA-
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
14180698 CTTTAAGCTCAGTTTATCTGGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
14180731 CTTTAAGCTCAGTTTATCTAGCCATCAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * *
14180764 CTTTAAGCCCAGTTTATCTAGCCTTAAATGAAT
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
14180797 ATTTAAGCCCAGTTTATCTAGCCAACAATG-A-
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
14180828 CTTTTAAGCCCAGTTTATCTGGCCAACAATG-A-
1 C-TTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * * *
14180860 CTTTTAAGCCCAGTTTATTTCGCCCTTAATGAAA
1 C-TTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
14180894 CTTTAAGCCCAGTTTATCTAGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * *
14180927 TTTTAAGCCCAGTTTATCTGGCCTTAAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
14180960 TTTTAAGCCCAGTTTAT
1 CTTTAAGCCCAGTTTAT
14180977 TTAGCCCCAA
Statistics
Matches: 500, Mismatches: 61, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
30 1 0.00
31 53 0.11
32 64 0.13
33 376 0.75
34 6 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (33 bp):
CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
Found at i:14181823 original size:121 final size:120
Alignment explanation
Indices: 14181514--14181840 Score: 503
Period size: 122 Copynumber: 2.7 Consensus size: 120
14181504 TTAAAATTTA
* *
14181514 AAATTTTTAAAGTTTCATTGCCTTTGATTATGAAGAACATTCAAAGATTTTGAGATTTGTAAAAC
1 AAATTTTTAAAGTTTCATTGCCTCTGATTATG-AGAACATTCAAAGATTTTGAGATTTGTAAGAC
* * *
14181579 CTTCGAGCATAATCTCCAAAAGCCTCTGCACACGACTTTCAAGATTAAAAGATTTTC
65 CTCCG-GCATAATCTCTAAAAGCATCTGCACACGACTTTCAAGATTAAAAGATTTTC
* *
14181636 AAATTTTTAAAGTTTCATTGTCTCTGATTATGAGAAACATTCAAAGATTTTGAGATTTATAAGAC
1 AAATTTTTAAAGTTTCATTGCCTCTGATTATGAG-AACATTCAAAGATTTTGAGATTTGTAAGAC
*
14181701 CTCCAGGCATAATCTCTAAAAGCATCTGCGCACGACTTTCAAGATTAAAAGATTTTC
65 CTCC-GGCATAATCTCTAAAAGCATCTGCACACGACTTTCAAGATTAAAAGATTTTC
* *
14181758 AAA-TTTTAAAGTTTCATCGCCTCTGATTATGATGAGCATTCAAAGATTTTGAGATTTGTAAGAC
1 AAATTTTTAAAGTTTCATTGCCTCTGATTATGA-GAACATTCAAAGATTTTGAGATTTGTAAGAC
14181822 CTCCGGGCATAATCTCTAA
65 CTCC-GGCATAATCTCTAA
14181841 GATCTCCGGG
Statistics
Matches: 189, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
121 75 0.40
122 113 0.60
123 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (120 bp):
AAATTTTTAAAGTTTCATTGCCTCTGATTATGAGAACATTCAAAGATTTTGAGATTTGTAAGACC
TCCGGCATAATCTCTAAAAGCATCTGCACACGACTTTCAAGATTAAAAGATTTTC
Found at i:14181847 original size:22 final size:22
Alignment explanation
Indices: 14181816--14181877 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
14181806 TTGAGATTTG
14181816 TAAGACCTCCGGGCATAA-TCTC
1 TAAGACCTCCGGGCATAACT-TC
* *
14181838 TAAGATCTCCGGGCATAACTTT
1 TAAGACCTCCGGGCATAACTTC
14181860 TAAGACCTCCGGGCATAA
1 TAAGACCTCCGGGCATAA
14181878 ATTCGATTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (22 bp):
TAAGACCTCCGGGCATAACTTC
Found at i:14182032 original size:111 final size:111
Alignment explanation
Indices: 14181838--14182077 Score: 333
Period size: 111 Copynumber: 2.2 Consensus size: 111
14181828 GCATAATCTC
* * * *
14181838 TAAGATCTCCGGGCATAACTTTTAAGACCTCCGGGCATAAATTCGATTCGCGATTTTATCCCGAT
1 TAAGACCTCCGAGCATAACTTTTAAGACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAAT
*
14181903 CGATTTCTTTATCTTTTGACTTGTGGTGTTATC-CTAGTCGATTCTA
66 CGATTTCTTTATCTTTTGACTTGTGGTGTTATCTC-AATCGATTCTA
* * * *
14181949 TAAGACCTCCGAGCATGA-TTTGTAAGACCTCTGGGCATAAATTTGATTCGCGGTGTTATCCCAA
1 TAAGACCTCCGAGCATAACTTT-TAAGACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAA
* *
14182013 TCGA-TTCTTTTATCTTTTGACTTGTGGTGTTATTTCAATCGATTCTG
65 TCGATTTC-TTTATCTTTTGACTTGTGGTGTTATCTCAATCGATTCTA
14182060 TAAGACCTCCGAGCATAA
1 TAAGACCTCCGAGCATAA
14182078 ATTTGATTCA
Statistics
Matches: 114, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
110 6 0.05
111 107 0.94
112 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (111 bp):
TAAGACCTCCGAGCATAACTTTTAAGACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAAT
CGATTTCTTTATCTTTTGACTTGTGGTGTTATCTCAATCGATTCTA
Found at i:14182161 original size:88 final size:88
Alignment explanation
Indices: 14181965--14182243 Score: 409
Period size: 88 Copynumber: 3.2 Consensus size: 88
14181955 CTCCGAGCAT
*
14181965 GATT-TGTAAGACC-TCTGGGCATAAATTTGATTCGCGGTGTTATCCCAATCGATTCTTTTATCT
1 GATTCTGTAAGACCTTC-GAGCATAAATTTGATTCGCGGTGTTATCCCAATCGATTC-TTTATCT
*
14182028 TTTGACTTGTGGTGTTATTTCAATC
64 TTTGACTTGTGGTGTTATTCCAATC
* * *
14182053 GATTCTGTAAGACCTCCGAGCATAAATTTGATTCACGGTGTTATCCCGATCGATTCTTTATCTTT
1 GATTCTGTAAGACCTTCGAGCATAAATTTGATTCGCGGTGTTATCCCAATCGATTCTTTATCTTT
*
14182118 TGACTTGTGATGTTATTCCAATC
66 TGACTTGTGGTGTTATTCCAATC
* * * * *
14182141 GATTTTGTAAGACCTTCGAGCATAAATTCGATTCGCGGTGTCAACCCAATCGACTCTTTATCTTT
1 GATTCTGTAAGACCTTCGAGCATAAATTTGATTCGCGGTGTTATCCCAATCGATTCTTTATCTTT
* *
14182206 TGACTTGTGGTGTTATCCCAGTC
66 TGACTTGTGGTGTTATTCCAATC
14182229 GATTCTGTAAGACCT
1 GATTCTGTAAGACCT
14182244 CCGGACATGA
Statistics
Matches: 171, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
88 125 0.73
89 45 0.26
90 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (88 bp):
GATTCTGTAAGACCTTCGAGCATAAATTTGATTCGCGGTGTTATCCCAATCGATTCTTTATCTTT
TGACTTGTGGTGTTATTCCAATC
Found at i:14182652 original size:19 final size:18
Alignment explanation
Indices: 14182620--14182670 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
14182610 TCTACTGTTT
*
14182620 TAATTTTAATAATAATAA
1 TAATTTTAAAAATAATAA
*
14182638 TAATATTTAAAAATAATTAT
1 TAAT-TTTAAAAATAA-TAA
14182658 TAATTTTATAAAA
1 TAATTTTA-AAAA
14182671 ATATATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.14
19 14 0.50
20 10 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATTTTAAAAATAATAA
Found at i:14184101 original size:33 final size:32
Alignment explanation
Indices: 14184064--14184274 Score: 140
Period size: 32 Copynumber: 6.8 Consensus size: 32
14184054 CTAAGTTTTT
*
14184064 AAACCCCCTAAAAATCTAAAATCCCTTAAATCC
1 AAACCCCCT-AAAATCCAAAATCCCTTAAATCC
* * * *
14184097 AAACCCCCTAAAATCCGAAACCCCTAAAATCT
1 AAACCCCCTAAAATCCAAAATCCCTTAAATCC
* *
14184129 AAAACCCCTCAAAATCCAAAAT-CC-AAAATCCC
1 AAACCCCCT-AAAATCCAAAATCCCTTAAAT-CC
** *
14184161 AAA----CT----T-TTAAA-CTCTTAAATCC
1 AAACCCCCTAAAATCCAAAATCCCTTAAATCC
14184183 AAACCCCCTAAAAATCCAAAATCCCTTAAATCC
1 AAACCCCCT-AAAATCCAAAATCCCTTAAATCC
* * * * * *
14184216 AAATCTCATAAAATCCAAAACCCCTAAAATCAA
1 AAACCCCCTAAAATCCAAAATCCCTTAAATC-C
*
14184249 AAACCCCCAAAAATCCAAAATCCCTT
1 AAACCCCCTAAAATCCAAAATCCCTT
14184275 TACTCAAAAC
Statistics
Matches: 134, Mismatches: 28, Indels: 32
0.69 0.14 0.16
Matches are distributed among these distances:
22 9 0.07
23 5 0.04
26 2 0.01
28 2 0.01
31 6 0.04
32 55 0.41
33 55 0.41
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (32 bp):
AAACCCCCTAAAATCCAAAATCCCTTAAATCC
Found at i:14184105 original size:16 final size:15
Alignment explanation
Indices: 14184086--14184267 Score: 78
Period size: 16 Copynumber: 10.9 Consensus size: 15
14184076 AATCTAAAAT
*
14184086 CCCTTAAATCCAAACC
1 CCCTAAAATCCAAA-C
14184102 CCCTAAAATCCGAAAC
1 CCCTAAAATCC-AAAC
*
14184118 CCCTAAAATCTAAAAC
1 CCCTAAAATC-CAAAC
*
14184134 CCCTCAAAATCCAAAA
1 CCCT-AAAATCCAAAC
*
14184150 TCC-AAAATCCCAAAC
1 CCCTAAAAT-CCAAAC
* *
14184165 TTTTAAACTCTTAAATCCAAACC
1 -------CCCTAAAATCCAAA-C
*
14184188 CCCTAAAAATCCAAAAT
1 CCCT-AAAATCC-AAAC
*
14184205 CCCTTAAATCCAAATC
1 CCCTAAAATCCAAA-C
* *
14184221 TCATAAAATCCAAAAC
1 CCCTAAAATCC-AAAC
*
14184237 CCCTAAAATCAAAAACC
1 CCCTAAAATC-CAAA-C
*
14184254 CCCAAAAATCCAAA
1 CCCTAAAATCCAAA
14184268 ATCCCTTTAC
Statistics
Matches: 125, Mismatches: 22, Indels: 38
0.68 0.12 0.21
Matches are distributed among these distances:
14 5 0.04
15 8 0.06
16 66 0.53
17 32 0.26
18 3 0.02
22 6 0.05
23 5 0.04
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (15 bp):
CCCTAAAATCCAAAC
Found at i:14184294 original size:33 final size:33
Alignment explanation
Indices: 14184174--14184297 Score: 126
Period size: 33 Copynumber: 3.8 Consensus size: 33
14184164 CTTTTAAACT
* * *
14184174 CTTAAATCCAAACCCCCTAAAAATCCAAAATCC
1 CTTAAATCAAAACCTCATAAAAATCCAAAATCC
* * *
14184207 CTTAAATCCAAATCTCAT-AAAATCCAAAACCC
1 CTTAAATCAAAACCTCATAAAAATCCAAAATCC
* **
14184239 CTAAAATCAAAAACC-CCCAAAAATCCAAAATCC
1 CTTAAATC-AAAACCTCATAAAAATCCAAAATCC
* *
14184272 CTTTACTCAAAACCTCATAAAAATCC
1 CTTAAATCAAAACCTCATAAAAATCC
14184298 TAAGGACACG
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
32 27 0.37
33 46 0.63
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (33 bp):
CTTAAATCAAAACCTCATAAAAATCCAAAATCC
Found at i:14189082 original size:25 final size:24
Alignment explanation
Indices: 14189025--14189088 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
14189015 AATTGAAATT
*
14189025 ATTAATAAAAATTACTATAATCATG
1 ATTAA-AAAAATTACTATAATCACG
* *
14189050 ATTGAAAAAAATATATTATAATTACG
1 ATT-AAAAAAAT-TACTATAATCACG
14189076 ATTAAAATAAATT
1 ATTAAAA-AAATT
14189089 TAATAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 14 0.42
26 19 0.58
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (24 bp):
ATTAAAAAAATTACTATAATCACG
Found at i:14189176 original size:21 final size:18
Alignment explanation
Indices: 14189134--14189176 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 18
14189124 ATTAATATTT
*
14189134 AAATTTAACTAATATAAT
1 AAATTTAACTAATATAAA
14189152 AAATTTAATCTATCATATAAA
1 AAATTTAA-CTA--ATATAAA
14189173 AAAT
1 AAAT
14189177 GCAATGAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
21 10 0.48
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTAACTAATATAAA
Found at i:14189862 original size:96 final size:94
Alignment explanation
Indices: 14189743--14189925 Score: 267
Period size: 94 Copynumber: 1.9 Consensus size: 94
14189733 GAAATGAAGA
* * *
14189743 GTTTGATTGCGATGAAAGAGTCTATTACTTTAAACTTTTTAATGTCATGTAATCATTAACATCAT
1 GTTTGATGGCGATGAAAGAGTCTATTACTCTAAAC-GTTT-ATGTCATGTAATCATTAACATCAT
*
14189808 ATATGATGTATCTCGTCAATATTTTGTTAAG
64 ATATGATATATCTCGTCAATATTTTGTTAAG
* * *
14189839 GTTTGATGGCGATGAATGAGTCTATTACTCTAAACGTTTATGTCATGTAATCATTGACATTATAT
1 GTTTGATGGCGATGAAAGAGTCTATTACTCTAAACGTTTATGTCATGTAATCATTAACATCATAT
* *
14189904 GTGATATGTCTCGTCAATATTT
66 ATGATATATCTCGTCAATATTT
14189926 ATTAAACCTT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 43 0.55
95 3 0.04
96 32 0.41
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (94 bp):
GTTTGATGGCGATGAAAGAGTCTATTACTCTAAACGTTTATGTCATGTAATCATTAACATCATAT
ATGATATATCTCGTCAATATTTTGTTAAG
Found at i:14190095 original size:2 final size:2
Alignment explanation
Indices: 14190088--14190114 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14190078 GCTTATTAGC
14190088 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14190115 ACATCAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14191094 original size:25 final size:23
Alignment explanation
Indices: 14191060--14191107 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
14191050 AAAATTTTAA
14191060 AAAAAAATTTGTTTTGAATACCTTT
1 AAAAAAA-TT-TTTTGAATACCTTT
*
14191085 AAAAAAATTTTTTGGATACCTTT
1 AAAAAAATTTTTTGAATACCTTT
14191108 TCTTTTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.59
24 2 0.09
25 7 0.32
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (23 bp):
AAAAAAATTTTTTGAATACCTTT
Found at i:14191669 original size:4 final size:4
Alignment explanation
Indices: 14191662--14191688 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
14191652 AACTAACTAA
14191662 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
14191689 TATATTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:14193251 original size:2 final size:2
Alignment explanation
Indices: 14193244--14193278 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
14193234 CTCTAAATTC
* *
14193244 AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14193279 CACAATCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14199706 original size:18 final size:17
Alignment explanation
Indices: 14199685--14199719 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14199675 TGTTAAATTA
14199685 ATAAAGATATTTAAAAAT
1 ATAAAGAT-TTTAAAAAT
*
14199703 ATAAATATTTTAAAAAT
1 ATAAAGATTTTAAAAAT
14199720 TCATTCCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
ATAAAGATTTTAAAAAT
Found at i:14199853 original size:19 final size:20
Alignment explanation
Indices: 14199816--14199861 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
14199806 GAAAATATAT
14199816 ATTTAAATTATATAAAATAA
1 ATTTAAATTATATAAAATAA
14199836 ATTTAAATTATA-AAAATAA
1 ATTTAAATTATATAAAATAA
14199855 ATTTAAA
1 ATTTAAA
14199862 ACTCAAACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTTAAATTATATAAAATAA
Found at i:14201429 original size:27 final size:28
Alignment explanation
Indices: 14201389--14201446 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
14201379 ATTTTTTAAT
14201389 AATTTAATTCAAATT-ATATTTGA-GATTA
1 AATTTAATTCAAATTGA-ATTT-ATGATTA
*
14201417 AATTTTATT-AAATTGAATTTATGATTA
1 AATTTAATTCAAATTGAATTTATGATTA
14201444 AAT
1 AAT
14201447 AGTTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 1 0.04
27 17 0.63
28 9 0.33
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (28 bp):
AATTTAATTCAAATTGAATTTATGATTA
Found at i:14205573 original size:15 final size:15
Alignment explanation
Indices: 14205553--14205602 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
14205543 ATCGTGGGTC
14205553 ATTTTAAATATAATA
1 ATTTTAAATATAATA
14205568 ATTTTAATTAGATATAATA
1 ATTTT-A--A-ATATAATA
*
14205587 ATTTTAAATATTATA
1 ATTTTAAATATAATA
14205602 A
1 A
14205603 ATTGATGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
18 2 0.07
19 13 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
ATTTTAAATATAATA
Found at i:14206840 original size:17 final size:18
Alignment explanation
Indices: 14206812--14206845 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14206802 TTATATTCGT
14206812 ATTTAAGTTATTCATATC
1 ATTTAAGTTATTCATATC
14206830 ATTTAAG-TATTCATAT
1 ATTTAAGTTATTCATAT
14206846 TATATTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTTAAGTTATTCATATC
Found at i:14207154 original size:2 final size:2
Alignment explanation
Indices: 14207147--14207177 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14207137 ATTCAAATGT
*
14207147 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14207178 GTCACATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:14207926 original size:19 final size:18
Alignment explanation
Indices: 14207878--14207948 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
14207868 AAATATATTT
14207878 TTAATAAATATTTT-AAA
1 TTAATAAATATTTTAAAA
* *
14207895 TTATTTTAAAT-TTATAAAA
1 TTA--ATAAATATTTTAAAA
14207914 TTAATAAATATTTTAAAAA
1 TTAATAAATATTTT-AAAA
*
14207933 TTATTAAATTATTTTA
1 TTAATAAA-TATTTTA
14207949 TATCAAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
17 8 0.19
18 6 0.14
19 23 0.53
20 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATAAATATTTTAAAA
Found at i:14207936 original size:27 final size:27
Alignment explanation
Indices: 14207891--14207943 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
14207881 ATAAATATTT
*
14207891 TAAATTATTTTAAATTTATAAAATTAA
1 TAAATTATTTTAAAATTATAAAATTAA
*
14207918 TAAA-TATTTTAAAAATTATTAAATTA
1 TAAATTATTTT-AAAATTATAAAATTA
14207944 TTTTATATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TAAATTATTTTAAAATTATAAAATTAA
Found at i:14207941 original size:8 final size:8
Alignment explanation
Indices: 14207930--14208037 Score: 53
Period size: 8 Copynumber: 13.5 Consensus size: 8
14207920 AATATTTTAA
14207930 AAATTATT
1 AAATTATT
14207938 AAATTATT
1 AAATTATT
** *
14207946 TTA-TATC
1 AAATTATT
*
14207953 AAATAATT
1 AAATTATT
14207961 AAATTATT
1 AAATTATT
*
14207969 AGATTATT
1 AAATTATT
* * *
14207977 AAGTAATA
1 AAATTATT
14207985 AAATTGATT
1 AAATT-ATT
*
14207994 --ATGTAAT
1 AAAT-TATT
*
14208001 AAAAT-TT
1 AAATTATT
14208008 ATAATTATT
1 A-AATTATT
14208017 AAATTATT
1 AAATTATT
*
14208025 AAGTTATTT
1 AAATTA-TT
14208034 AAAT
1 AAAT
14208038 AACAAATCAA
Statistics
Matches: 70, Mismatches: 22, Indels: 15
0.65 0.21 0.14
Matches are distributed among these distances:
7 10 0.14
8 49 0.70
9 11 0.16
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (8 bp):
AAATTATT
Found at i:14207999 original size:17 final size:17
Alignment explanation
Indices: 14207974--14208006 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14207964 TTATTAGATT
14207974 ATTAAGTAATAAAATTG
1 ATTAAGTAATAAAATTG
*
14207991 ATTATGTAATAAAATT
1 ATTAAGTAATAAAATT
14208007 TATAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
ATTAAGTAATAAAATTG
Found at i:14211392 original size:27 final size:27
Alignment explanation
Indices: 14211362--14211416 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
14211352 GATAACATCA
* *
14211362 TTTTAACAATCATGTCGTATCCAAAAT
1 TTTTAACAATCAAGCCGTATCCAAAAT
*
14211389 TTTTAACAATCAAGCCGTATTCAAAAT
1 TTTTAACAATCAAGCCGTATCCAAAAT
14211416 T
1 T
14211417 ATAAGGTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.36
Consensus pattern (27 bp):
TTTTAACAATCAAGCCGTATCCAAAAT
Found at i:14212606 original size:25 final size:25
Alignment explanation
Indices: 14212577--14212627 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
14212567 GAACAAAATA
14212577 TTCGACGAACAATTCATAAATAGCT
1 TTCGACGAACAATTCATAAATAGCT
*
14212602 TTCGACGAACAATTCGTAAATAGCT
1 TTCGACGAACAATTCATAAATAGCT
14212627 T
1 T
14212628 CAGTTTCCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (25 bp):
TTCGACGAACAATTCATAAATAGCT
Found at i:14219450 original size:11 final size:11
Alignment explanation
Indices: 14219434--14219458 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14219424 GAACTTCTCT
14219434 TCTCCAATTCC
1 TCTCCAATTCC
14219445 TCTCCAATTCC
1 TCTCCAATTCC
14219456 TCT
1 TCT
14219459 GATAGACGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.44, G:0.00, T:0.40
Consensus pattern (11 bp):
TCTCCAATTCC
Found at i:14219817 original size:52 final size:52
Alignment explanation
Indices: 14219750--14219852 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 52
14219740 GGATAAGAAG
* * *
14219750 ACTTGCAGAATAAGAATTCTAAGAGAAAATAGATTTTTAATAGGCAAATTTA
1 ACTTGCAGAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGGCAAATTTA
*
14219802 ACTTGCAGAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATGGGCAAATTT
1 ACTTGCAGAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGGCAAATTT
14219853 GTATATTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (52 bp):
ACTTGCAGAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGGCAAATTTA
Found at i:14222163 original size:18 final size:19
Alignment explanation
Indices: 14222134--14222169 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14222124 TATTCAAAGA
*
14222134 TAAAATTATTTTTTAAAAT
1 TAAAATTATTTTTGAAAAT
14222153 TAAAA-TATTTTTGAAAA
1 TAAAATTATTTTTGAAAA
14222170 AATTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TAAAATTATTTTTGAAAAT
Found at i:14222278 original size:22 final size:22
Alignment explanation
Indices: 14222248--14222289 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14222238 CGTAACGAAA
*
14222248 AGAAAAAGAAAGACAAAAAAGG
1 AGAAAAAGAAAGAAAAAAAAGG
* *
14222270 AGAATAAGAATGAAAAAAAA
1 AGAAAAAGAAAGAAAAAAAA
14222290 AAAAAGGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (22 bp):
AGAAAAAGAAAGAAAAAAAAGG
Found at i:14229962 original size:21 final size:21
Alignment explanation
Indices: 14229938--14229985 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
14229928 AATTTATTTT
14229938 TATTAATTT-TTTAATTATATA
1 TATTAATTTATTTAA-TATATA
* * *
14229959 TATTTATTTATTTTATATTTA
1 TATTAATTTATTTAATATATA
14229980 TATTAA
1 TATTAA
14229986 AAAAATATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTAATTTATTTAATATATA
Found at i:14230017 original size:19 final size:18
Alignment explanation
Indices: 14229972--14230021 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 18
14229962 TTATTTATTT
14229972 TATATTTATATTAAAAAAA
1 TATATTT-TATTAAAAAAA
*
14229991 TAT-TTTTATTTAAAAAA
1 TATATTTTATTAAAAAAA
14230008 TAATATTTTATTAA
1 T-ATATTTTATTAA
14230022 TTTTAAATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 11 0.41
18 5 0.19
19 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATATTTTATTAAAAAAA
Found at i:14230021 original size:18 final size:17
Alignment explanation
Indices: 14229973--14230021 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 17
14229963 TATTTATTTT
14229973 ATATTTATATT-AAAAAA
1 ATATTT-TATTAAAAAAA
14229990 ATATTTTTATTTAAAAAATA
1 ATA-TTTTA-TTAAAAAA-A
14230010 ATATTTTATTAA
1 ATATTTTATTAA
14230022 TTTTAAATCG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.18
18 9 0.32
19 10 0.36
20 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTTTATTAAAAAAA
Found at i:14230127 original size:14 final size:14
Alignment explanation
Indices: 14230108--14230134 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14230098 ATTGGATCAT
14230108 GCTAAAGTATTGTA
1 GCTAAAGTATTGTA
14230122 GCTAAAGTATTGT
1 GCTAAAGTATTGT
14230135 GGGTATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (14 bp):
GCTAAAGTATTGTA
Found at i:14233706 original size:12 final size:12
Alignment explanation
Indices: 14233689--14233713 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14233679 CAATTTATCA
14233689 ATTTATCAATTT
1 ATTTATCAATTT
14233701 ATTTATCAATTT
1 ATTTATCAATTT
14233713 A
1 A
14233714 AAAAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTATCAATTT
Found at i:14233713 original size:8 final size:8
Alignment explanation
Indices: 14233673--14233702 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
14233663 ATTTGATTCG
14233673 ATTTATCA
1 ATTTATCA
14233681 ATTTATCA
1 ATTTATCA
14233689 ATTTATCA
1 ATTTATCA
14233697 ATTTAT
1 ATTTAT
14233703 TTATCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (8 bp):
ATTTATCA
Found at i:14233737 original size:18 final size:18
Alignment explanation
Indices: 14233714--14233749 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14233704 TATCAATTTA
14233714 AAAAATATATAAATTAAT
1 AAAAATATATAAATTAAT
*
14233732 AAAAATATATAATTTAAT
1 AAAAATATATAAATTAAT
14233750 CCGATTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATATATAAATTAAT
Found at i:14239407 original size:17 final size:17
Alignment explanation
Indices: 14239385--14239445 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
14239375 TCTTTATATA
14239385 TATATAATTGATTTATT
1 TATATAATTGATTTATT
*
14239402 TATATATTTGATTTATAT
1 TATATAATTGATTTAT-T
*
14239420 ATATACATAATTGATTTATA
1 -TAT--ATAATTGATTTATT
14239440 TATATA
1 TATATA
14239446 TAAGTTAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 18 0.49
18 1 0.03
19 6 0.16
21 12 0.32
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (17 bp):
TATATAATTGATTTATT
Found at i:14239407 original size:21 final size:21
Alignment explanation
Indices: 14239379--14239447 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
14239369 TCTCTCTCTT
14239379 TATATATATATAATTGATTTA
1 TATATATATATAATTGATTTA
14239400 T-T-TATATAT--TTGATTTA
1 TATATATATATAATTGATTTA
*
14239417 TATATATACATAATTGATTTA
1 TATATATATATAATTGATTTA
14239438 TATATATATA
1 TATATATATA
14239448 AGTTAATCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.21
18 1 0.02
19 13 0.31
20 1 0.02
21 18 0.43
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (21 bp):
TATATATATATAATTGATTTA
Found at i:14242066 original size:14 final size:15
Alignment explanation
Indices: 14242049--14242078 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14242039 TATATATAAG
14242049 TTAATATTTA-AATT
1 TTAATATTTATAATT
14242063 TTAATATTTATAATT
1 TTAATATTTATAATT
14242078 T
1 T
14242079 CTATCGTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATATTTATAATT
Found at i:14242132 original size:2 final size:2
Alignment explanation
Indices: 14242127--14242160 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14242117 TGTGCGCGTG
14242127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14242161 AGATTTGTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14242133 original size:106 final size:106
Alignment explanation
Indices: 14241934--14242152 Score: 280
Period size: 106 Copynumber: 2.1 Consensus size: 106
14241924 AATATTCAAC
* * *
14241934 ATATATAAATTAATATTCAAATTTCAATATTTATAATTTTTATTGTGTCTCAAGCTGCTCTCTCT
1 ATATATAAATTAATATTCAAATTTCAATATTTATAATTTCTATCGTATCTCAAGCTGCTCTCTCT
* * *
14241999 CTCTCTCTCATGCATGTGTGTATGTATATATATATATATAT
66 CTCTATCTCATGCATGTGCGTATATATATATATATATATAT
* * * * *
14242040 ATATATAAGTTAATATTTAAATTTTAATATTTATAATTTCTATCGTATCTTAAGTTGCTCTCTCT
1 ATATATAAATTAATATTCAAATTTCAATATTTATAATTTCTATCGTATCTCAAGCTGCTCTCTCT
** *
14242105 CT-TATC-CATGTGTGTGCGCGTGTATATATATATATATATAT
66 CTCTATCTCATGCATGT--GCGTATATATATATATATATATAT
14242146 ATATATA
1 ATATATA
14242153 TATATATAAG
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
104 7 0.07
105 3 0.03
106 87 0.90
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.47
Consensus pattern (106 bp):
ATATATAAATTAATATTCAAATTTCAATATTTATAATTTCTATCGTATCTCAAGCTGCTCTCTCT
CTCTATCTCATGCATGTGCGTATATATATATATATATATAT
Found at i:14242739 original size:24 final size:24
Alignment explanation
Indices: 14242682--14242739 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 24
14242672 TTTAAATTTT
* *
14242682 AAATTATATAT-ATTATTTTAACA
1 AAATTATATATAAATATTTAAACA
*
14242705 AAATT-T-T-TAAATATTTAAATA
1 AAATTATATATAAATATTTAAACA
14242726 AAATTATATATAAA
1 AAATTATATATAAA
14242740 ATAATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 1 0.04
21 15 0.54
22 2 0.07
23 6 0.21
24 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATTATATATAAATATTTAAACA
Found at i:14242870 original size:13 final size:13
Alignment explanation
Indices: 14242850--14242884 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
14242840 AATTCGATTC
14242850 AAATTTAATATAT
1 AAATTTAATATAT
* *
14242863 ACATTTAATATTT
1 AAATTTAATATAT
14242876 AAATTTAAT
1 AAATTTAAT
14242885 CTGAACTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
AAATTTAATATAT
Found at i:14243895 original size:27 final size:26
Alignment explanation
Indices: 14243865--14243922 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
14243855 ATAATATGAC
*
14243865 ATTATTTAAT-TTAATCTCATTTATAAT
1 ATTATTTAATCTT-ATCT-AATTATAAT
*
14243892 ATTATTTTATCTTATCTAATTATAAT
1 ATTATTTAATCTTATCTAATTATAAT
14243918 ATTAT
1 ATTAT
14243923 ATATCAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 13 0.46
27 13 0.46
28 2 0.07
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTATTTAATCTTATCTAATTATAAT
Found at i:14245488 original size:396 final size:398
Alignment explanation
Indices: 14244716--14245517 Score: 1098
Period size: 396 Copynumber: 2.0 Consensus size: 398
14244706 AAATTTTCAC
14244716 TTTTTACTTTTTCTCTTCTCTCATCCCTATTCTTTTTTCCTTCTTTATATTTTCTCTCTCTAAAA
1 TTTTTACTTTTTCTCTTCTCTCAT--CTATTCTTTTTTCCTTCTTTATATTTTCTCTCTCTAAAA
* *
14244781 TACAGCCACAATTATTGAAAAACTTAAGAAACCTAATTTTTTATTCACATCTACTATATCGATTG
64 TACAGCCACAATTATCGAAAAACTTAAGAAACCTAATTTTTTATTCACATCTACTATATCGAATG
* * * * * * *
14244846 CTGTTCGTCGACATAAAAAATGCCCCAAAAGACTTTTCTTAATTCTTTTTTTCTTTCTTTTTTCA
129 CTGTACGTCGACACAAAAAATGCCCCAAAAGACATTTCCTAATTCATTTTTCCTTTCTCTTTTCA
* *
14244911 CTCTTTCAATTAATTTTTTTTAAATCTTTAAAAAGCCTAGATTTAGGATTTAGTCCTACAATTTC
194 CTCTTTCAATT-ATTTTTTTAAAATCCTTAAAAAGCCTAGATTTAGGATTTAGTCCTACAATTTC
* *
14244976 AAACCTAAAATGTACATCTTTATCACTCCAAATTGAATCACATCTTAATTTGTTTCTCTTCTACC
258 AAACCTAAAATGTACACCTTCATCACTCCAAATTGAATCACATCTTAATTTGTTTCTCTTCTACC
* *
14245041 TTTGACCTTCTTTTATCCTAATTTTTAAGTCCCAAAATCCTCTAAAACAAGCCAAATCCAAAAAC
323 TTTAACCTTCTTTTACCCTAATTTTTAAGTCCCAAAATCCTCTAAAACAAGCCAAA-CCAAAAAC
14245106 -CCTATCATTCT
387 TCCTATCATTCT
* *
14245117 TTTTTACTTTTTCTCTTCTCTCCAT-T-TTC-TTTTTCCTTTTTTTATATTTTCTCTTTCTAAAA
1 TTTTTACTTTTTCTCTTCTCT-CATCTATTCTTTTTTCC-TTCTTTATATTTTCTCTCTCTAAAA
* *
14245179 TACAGCCACAATTATCGAAAAACTTAATAAACCTAATTTTTTATTCACATCTACTATGTCGACCA
64 TACAGCCACAATTATCGAAAAACTTAAGAAACCTAATTTTTTATTCACATCTACTATATCGA--A
* * * *
14245244 T-C-GTACGTCGATACCAAAAATGGCCCAAAAGTCATTTCCTAATTCATTTTTCCTTT-TCTTTT
127 TGCTGTACGTCGACACAAAAAATGCCCCAAAAGACATTTCCTAATTCATTTTTCCTTTCTCTTTT
* * ***
14245306 CACTCTTTTAATT-TTTTTTTAAAAATCCTTAAAAAGCCTAGATTTAGGATTTAGTCTTGTGATT
192 CACTCTTTCAATTATTTTTTT-AAAATCCTTAAAAAGCCTAGATTTAGGATTTAGTCCTACAATT
* * * *
14245370 TCAAATCTAAAATGTACACCTTCGTCACTCTAAATTGAATCACATCTTAATTTGTTTCTTTTCTA
256 TCAAACCTAAAATGTACACCTTCATCACTCCAAATTGAATCACATCTTAATTTGTTTCTCTTCTA
** * * * * *
14245435 CCTTTAATGTTCTTTTACCCTAATTTTTAAGTCTCAAAATCTTTTAGAACAAGCCAAACCCAAAA
321 CCTTTAACCTTCTTTTACCCTAATTTTTAAGTCCCAAAATCCTCTAAAACAAGCCAAACCAAAAA
* *
14245500 CTCCTCTCTTTCT
386 CTCCTATCATTCT
14245513 TTTTT
1 TTTTT
14245518 CATTTTTTTT
Statistics
Matches: 354, Mismatches: 41, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
395 14 0.04
396 160 0.45
397 24 0.07
398 129 0.36
399 2 0.01
400 1 0.00
401 21 0.06
402 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (398 bp):
TTTTTACTTTTTCTCTTCTCTCATCTATTCTTTTTTCCTTCTTTATATTTTCTCTCTCTAAAATA
CAGCCACAATTATCGAAAAACTTAAGAAACCTAATTTTTTATTCACATCTACTATATCGAATGCT
GTACGTCGACACAAAAAATGCCCCAAAAGACATTTCCTAATTCATTTTTCCTTTCTCTTTTCACT
CTTTCAATTATTTTTTTAAAATCCTTAAAAAGCCTAGATTTAGGATTTAGTCCTACAATTTCAAA
CCTAAAATGTACACCTTCATCACTCCAAATTGAATCACATCTTAATTTGTTTCTCTTCTACCTTT
AACCTTCTTTTACCCTAATTTTTAAGTCCCAAAATCCTCTAAAACAAGCCAAACCAAAAACTCCT
ATCATTCT
Found at i:14245923 original size:18 final size:19
Alignment explanation
Indices: 14245900--14245941 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
14245890 TTGAGCTAAA
* *
14245900 TTATATGTATTTT-AGTTT
1 TTATATATATTTTAAATTT
14245918 TTATATATATTTTAAATTT
1 TTATATATATTTTAAATTT
14245937 TTATA
1 TTATA
14245942 AAATAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TTATATATATTTTAAATTT
Found at i:14253764 original size:3 final size:3
Alignment explanation
Indices: 14253756--14253786 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
14253746 AGAGGTACAT
*
14253756 GTG GTG GTG GTG GTG GTG GTG GTT GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
14253787 GACCATGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
GTG
Found at i:14254446 original size:2 final size:2
Alignment explanation
Indices: 14254441--14254467 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14254431 TTGATTTTCT
14254441 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
14254468 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14256382 original size:2 final size:2
Alignment explanation
Indices: 14256375--14256399 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14256365 CCAGAGAAAA
14256375 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
14256400 AAGAAATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14256865 original size:20 final size:20
Alignment explanation
Indices: 14256837--14256879 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
14256827 TAGTATTAGA
14256837 TTAGATAATAATATCTTATC
1 TTAGATAATAATATCTTATC
* *
14256857 TTAGTTAATAATATTTTATC
1 TTAGATAATAATATCTTATC
14256877 TTA
1 TTA
14256880 TATTTGGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (20 bp):
TTAGATAATAATATCTTATC
Found at i:14257343 original size:24 final size:24
Alignment explanation
Indices: 14257303--14257348 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
14257293 GGTTTTTCCC
* *
14257303 AAAAAAATAGTTGAAATTTTTTGA
1 AAAAAAATAGTTAAAATATTTTGA
14257327 AAAAAAATTA-TTAAAATATTTT
1 AAAAAAA-TAGTTAAAATATTTT
14257349 ATTTATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
AAAAAAATAGTTAAAATATTTTGA
Found at i:14257424 original size:12 final size:12
Alignment explanation
Indices: 14257407--14257436 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14257397 CTTCTTTGGC
14257407 AAAAAGAAAAAA
1 AAAAAGAAAAAA
*
14257419 AAAAAGAAAACA
1 AAAAAGAAAAAA
14257431 AAAAAG
1 AAAAAG
14257437 GAATAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:14257516 original size:16 final size:17
Alignment explanation
Indices: 14257497--14257528 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14257487 AATCCATTGA
14257497 TTAAAA-AATTTTTAAT
1 TTAAAATAATTTTTAAT
14257513 TTAAAATAATTTTTAA
1 TTAAAATAATTTTTAA
14257529 GTTACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAATAATTTTTAAT
Found at i:14258404 original size:14 final size:14
Alignment explanation
Indices: 14258387--14258416 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14258377 TTTTTTAATT
14258387 TTTTATTAATTCAA
1 TTTTATTAATTCAA
*
14258401 TTTTATTAATTTAA
1 TTTTATTAATTCAA
14258415 TT
1 TT
14258417 AATTCTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTATTAATTCAA
Found at i:14259764 original size:2 final size:2
Alignment explanation
Indices: 14259757--14259784 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14259747 ATATGTTATT
14259757 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14259785 AACATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14261342 original size:11 final size:11
Alignment explanation
Indices: 14261326--14261350 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14261316 AATACCTCTC
14261326 AATGAGCACAT
1 AATGAGCACAT
14261337 AATGAGCACAT
1 AATGAGCACAT
14261348 AAT
1 AAT
14261351 CTAACACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (11 bp):
AATGAGCACAT
Found at i:14261893 original size:41 final size:41
Alignment explanation
Indices: 14261848--14261947 Score: 175
Period size: 41 Copynumber: 2.4 Consensus size: 41
14261838 AATTTCATTA
14261848 AAACAAAATTAAAAAAGGAGAC-AAAAAACAAAAAAAAAAAG
1 AAACAAAATTAAAAAAGGAGACAAAAAAAC-AAAAAAAAAAG
14261889 AAACAAAATTAAAAAAGGAGACAAAAAAACAAAAAAAAAAG
1 AAACAAAATTAAAAAAGGAGACAAAAAAACAAAAAAAAAAG
*
14261930 AAATAAAATTAAAAAAGG
1 AAACAAAATTAAAAAAGG
14261948 CTAAATCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
41 50 0.88
42 7 0.12
ACGTcount: A:0.77, C:0.06, G:0.10, T:0.07
Consensus pattern (41 bp):
AAACAAAATTAAAAAAGGAGACAAAAAAACAAAAAAAAAAG
Found at i:14261922 original size:18 final size:16
Alignment explanation
Indices: 14261873--14261922 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
14261863 AGGAGACAAA
14261873 AAACAAAAAAAAAAAG
1 AAACAAAAAAAAAAAG
*
14261889 AAACAAAATTAAAAAAGG
1 AAACAAAA--AAAAAAAG
*
14261907 AGACAAAAAAACAAAA
1 AAACAAAAAAA-AAAA
14261923 AAAAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 11 0.39
17 3 0.11
18 14 0.50
ACGTcount: A:0.80, C:0.08, G:0.08, T:0.04
Consensus pattern (16 bp):
AAACAAAAAAAAAAAG
Found at i:14261943 original size:20 final size:20
Alignment explanation
Indices: 14261847--14261945 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 20
14261837 AAATTTCATT
**
14261847 AAAACAAAATTAAAAAAGGAG
1 AAAA-AAAATTAAAAAAAAAG
*
14261868 ACAAAAAACA-AAAAAAAAAAG
1 A-AAAAAA-ATTAAAAAAAAAG
* **
14261889 AAACAAAATTAAAAAAGGAG
1 AAAAAAAATTAAAAAAAAAG
**
14261909 ACAAAAAAACAAAAAAAAAAG
1 A-AAAAAAATTAAAAAAAAAG
*
14261930 AAATAAAATTAAAAAA
1 AAAAAAAATTAAAAAA
14261946 GGCTAAATCA
Statistics
Matches: 59, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
19 1 0.02
20 26 0.44
21 28 0.47
22 4 0.07
ACGTcount: A:0.79, C:0.06, G:0.08, T:0.07
Consensus pattern (20 bp):
AAAAAAAATTAAAAAAAAAG
Found at i:14263018 original size:21 final size:21
Alignment explanation
Indices: 14262992--14263039 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
14262982 AATTATTTTT
14262992 AAAAAAAAATG-GTTTTTCCAA
1 AAAAAAAAATGAGTTTTT-CAA
**
14263013 AAAAAAAGTTGAGTTTTTCAA
1 AAAAAAAAATGAGTTTTTCAA
14263034 AAAAAA
1 AAAAAA
14263040 TTATCAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.27
Consensus pattern (21 bp):
AAAAAAAAATGAGTTTTTCAA
Found at i:14263740 original size:210 final size:205
Alignment explanation
Indices: 14263349--14263924 Score: 450
Period size: 210 Copynumber: 2.8 Consensus size: 205
14263339 GGGATAAGGA
* * * * **
14263349 GAGAGAAAAATTCGGATTTATTTATTCATTTATTTTGTAATTTTTCTTTATGAATATGATGTGAT
1 GAGAGAAAAATTAGGATTTATTTATTCATTTATTTTGCAATTTTTCCTTATAAATATGACATGAT
* ** *
14263414 AAAAGGTGCAATACATTAAGAAAGGAAAATGAATAAAGATAAAGATAAGTTATTTTGATTTTTTT
66 AAAAGATAAAATACATTAAGAAAGGAAAATGAATAAAGATAAAGATAAGTTATTTTGA----TAT
* * *
14263479 TTTTTTACAGTTGATGTAGAATAAACATGAAATGAATATGAGTTAAAAAAAAAAAAAAAGAAAGA
127 TTTTTTACAGTTGATATAGAATAAACATGAAATGAAAATGAGGTAAAAAAAAAAAAAAAGAAAGA
14263544 AAGAAAAACGAGGG
192 AAGAAAAACGAGGG
* * *
14263558 GAGAGAAAAATTAGGGTTTGATTT-TTTATTTTTTTTTGCAATTTTTCCTTATAAATATGACATG
1 GAGAGAAAAATTAGGATTT-ATTTATTCA-TTTATTTTGCAATTTTTCCTTATAAATATGACATG
**
14263622 ATAAAAGATAAAATACATTAAGAAAAGG-AAATGAATGGAG-TGAAAGATAAAGTTATTTTGA-A
64 ATAAAAGATAAAATACATTAAG-AAAGGAAAATGAATAAAGAT-AAAGAT-AAGTTATTTTGATA
* * * ***
14263684 TTTTTTTATAGTTGATATAGAATAGACATGAAAAT-AAAAT---G---AAAAGAGTGAAAA-AAA
126 TTTTTTTACAGTTGATATAGAATAAACATG-AAATGAAAATGAGGTAAAAAAAAAAAAAAAGAAA
* *
14263741 G---GAAAAATGAGAG
190 GAAAGAAAAACGAGGG
* ** * ** * *
14263754 GA-ATGAAAAATTA-GAGTTTAATTTTTTTTGTTTATTTTTTTGTAATTTTTATTTATGAATTTG
1 GAGA-GAAAAATTAGGA-TTT-A-TTTATTCATTTA---TTTTGCAATTTTTCCTTATAAATATG
** * ** * * * * *
14263817 ATGTGATAAAAGGTGTAATTCATTAAGAAAGGGAAATGAATAAAGAGAAAGACAAGTTCTTTTGA
59 ACATGATAAAAGATAAAATACATTAAGAAAGGAAAATGAATAAAGATAAAGATAAGTTATTTTGA
* * *
14263882 T-TTTTTTTATAGTTGATATAAAATAGACATGAAATGAAAATGA
124 TATTTTTTTACAGTTGATATAGAATAAACATGAAATGAAAATGA
14263925 AAATGAAAAT
Statistics
Matches: 301, Mismatches: 47, Indels: 46
0.76 0.12 0.12
Matches are distributed among these distances:
195 2 0.01
196 25 0.08
197 6 0.02
198 7 0.02
199 54 0.18
200 66 0.22
206 31 0.10
207 4 0.01
209 21 0.07
210 68 0.23
211 17 0.06
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.36
Consensus pattern (205 bp):
GAGAGAAAAATTAGGATTTATTTATTCATTTATTTTGCAATTTTTCCTTATAAATATGACATGAT
AAAAGATAAAATACATTAAGAAAGGAAAATGAATAAAGATAAAGATAAGTTATTTTGATATTTTT
TTACAGTTGATATAGAATAAACATGAAATGAAAATGAGGTAAAAAAAAAAAAAAAGAAAGAAAGA
AAAACGAGGG
Found at i:14264541 original size:24 final size:24
Alignment explanation
Indices: 14264514--14264569 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
14264504 TCAAAAAGAG
*
14264514 AAAAGAGAGAAATTA-GAAAAAAAT
1 AAAA-AGAGAAATAATGAAAAAAAT
14264538 AAAAAG-G-AATAATGAAAAAAAT
1 AAAAAGAGAAATAATGAAAAAAAT
14264560 AAAAA-AGAAA
1 AAAAAGAGAAA
14264570 ATATATGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.14
22 16 0.57
23 4 0.14
24 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (24 bp):
AAAAAGAGAAATAATGAAAAAAAT
Found at i:14264781 original size:24 final size:24
Alignment explanation
Indices: 14264728--14264800 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
14264718 TTATTTATTT
14264728 GAAAAAATAAAGAAAGATGAAAAAA
1 GAAAAAATAAAGAAAGA-GAAAAAA
**
14264753 GAAAAAATAAAGAAAGAG-AAGTA
1 GAAAAAATAAAGAAAGAGAAAAAA
14264776 GAAAAAA-AAAGAAAAAGAGAAAAAA
1 GAAAAAATAAAG--AAAGAGAAAAAA
14264801 ACAAAATGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 4 0.10
23 10 0.24
24 7 0.17
25 20 0.49
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (24 bp):
GAAAAAATAAAGAAAGAGAAAAAA
Found at i:14264798 original size:16 final size:16
Alignment explanation
Indices: 14264747--14264806 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
14264737 AAGAAAGATG
14264747 AAAAAAGAAAAA-ATAA
1 AAAAAAGAAAAAGA-AA
* **
14264763 AGAAAGAGAAGTAGAAA
1 A-AAAAAGAAAAAGAAA
*
14264780 AAAAAAGAAAAAGAGA
1 AAAAAAGAAAAAGAAA
*
14264796 AAAAAACAAAA
1 AAAAAAGAAAA
14264807 TGGGGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
16 22 0.65
17 11 0.32
18 1 0.03
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAAAGAAA
Found at i:14264801 original size:18 final size:18
Alignment explanation
Indices: 14264746--14264801 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 18
14264736 AAAGAAAGAT
14264746 GAAAAA-AGAAAAAATAAA
1 GAAAAAGAGAAAAAA-AAA
14264764 GAAAGAGAAGTAGAAAAAAAAA
1 G-AA-A-AAG-AGAAAAAAAAA
14264786 GAAAAAGAGAAAAAAA
1 GAAAAAGAGAAAAAAA
14264802 CAAAATGGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
18 10 0.30
19 5 0.15
20 2 0.06
21 4 0.12
22 4 0.12
23 8 0.24
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (18 bp):
GAAAAAGAGAAAAAAAAA
Found at i:14265799 original size:21 final size:21
Alignment explanation
Indices: 14265773--14265820 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
14265763 AAATGTTGAC
*
14265773 ATAATTTT-TTATTATAATTAA
1 ATAATTTTAATATTATAA-TAA
14265794 ATAATTTTAATATTATAATAA
1 ATAATTTTAATATTATAATAA
*
14265815 AAAATT
1 ATAATT
14265821 ATACGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATTTTAATATTATAATAA
Found at i:14266775 original size:184 final size:181
Alignment explanation
Indices: 14266537--14267108 Score: 519
Period size: 184 Copynumber: 3.0 Consensus size: 181
14266527 TACAATAAGA
* * *
14266537 AAAGGAAATGGATAGAGTGAAAAATAAAGTTATTTTGATTTTTTTGTA-GTTGATGTAGAATAGA
1 AAAGGAAATGAATAGAGAGAAAGAT-AAGTTATTTTGATTTTTTT-TACGTTGATGTAGAATAGA
14266601 -GATGAAATGAAAATACAAAGAGTCAAAAAAGGAAAAATGAGGGGAGAGAAAATTAGGGTTTTTT
64 TGATGAAATGAAAATA-AAAGAGTCAAAAAA-GAAAAATGAGGGGAGAGAAAATTAGGGTTTTTT
*
14266665 TTTTTTTTTTTGCAATTTTTCTTTATGAATATGATGTGATAAAAGGCTAATACATT
127 TTTTTTTTTTTGCAATTTTTCTTTATAAATATGATGTGATAAAAGG-TAATACATT
* *
14266721 AAAGGAAAATGAAT-GAGAGAAAGATAAGTTATTTTGACTTTTTTTACGGTTGATGTAGAATACA
1 AAAGG-AAATGAATAGAGAGAAAGATAAGTTATTTTGATTTTTTTTAC-GTTGATGTAGAATAGA
* * ** ***
14266785 TG-TGAAATGAAAGTGAAAAGAGTCAAAAAAAAAAAAAAAAAAGAGAGAAAATTAGGG---TTTT
64 TGATGAAATGAAAAT-AAAAGAGTCAAAAAAGAAAAATGAGGGGAGAGAAAATTAGGGTTTTTTT
* * * * * *
14266846 TTTGTTTTTTGCAAATTTTCTTTATTAGTATGATGTGATAAAAGGTTTTATATATT
128 TTTTTTTTTTGCAATTTTTCTTTATAAATATGATGTGATAAAAGG--TAATACATT
* * *
14266902 AACAAAGGGAAATGAATAAAGAGAAAGATAAATTATTTTGATTTTTTTTTTACAGTTGATGTAAA
1 ---AAA-GGAAATGAATAGAGAGAAAGATAAGTTATTTTGA--TTTTTTTTAC-GTTGATGTAGA
* ***
14266967 ATAGACATGAAATGACAATGAAAATAGTAAAAAAAAAAAAAAAAAGAAAAATGAGGGGAGAGAAA
59 ATAG--ATG--ATGA-AATG-AAA-A-T--AAAAGAGTCAAAAAAGAAAAATGAGGGGAGAG-AA
* * * *
14267032 AATTATGGTTTAATTTTTTTTTTTTTTGTAATTTTTCTTTTATAAAAAATGATGTGAAAAAAGGT
113 AATTAGGGTTT--TTTTTTTTTTTTTTGCAATTTTTC-TTTAT-AAATATGATGTGATAAAAGGT
14267097 GCAATACATT
174 --AATACATT
14267107 AA
1 AA
14267109 GAGTGTGTTT
Statistics
Matches: 308, Mismatches: 47, Indels: 48
0.76 0.12 0.12
Matches are distributed among these distances:
180 45 0.15
181 7 0.02
182 2 0.01
183 39 0.13
184 65 0.21
185 32 0.10
187 22 0.07
189 3 0.01
192 3 0.01
193 4 0.01
194 3 0.01
196 1 0.00
197 22 0.07
198 9 0.03
202 2 0.01
203 22 0.07
204 5 0.02
205 22 0.07
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (181 bp):
AAAGGAAATGAATAGAGAGAAAGATAAGTTATTTTGATTTTTTTTACGTTGATGTAGAATAGATG
ATGAAATGAAAATAAAAGAGTCAAAAAAGAAAAATGAGGGGAGAGAAAATTAGGGTTTTTTTTTT
TTTTTTTGCAATTTTTCTTTATAAATATGATGTGATAAAAGGTAATACATT
Found at i:14267852 original size:25 final size:24
Alignment explanation
Indices: 14267813--14267894 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
14267803 TTTATTTATT
14267813 TAAAAAAAAAGGAAAGATGAAAAAA
1 TAAAAAAAAAGGAAAGA-GAAAAAA
*
14267838 TAAAAAATAAA-GAAAGAGAAATAA
1 TAAAAAA-AAAGGAAAGAGAAAAAA
* * *
14267862 GAAAAAAGAA--AAAGAAAATAAAA
1 TAAAAAAAAAGGAAAGAGAA-AAAA
*
14267885 TAAAATAAAA
1 TAAAAAAAAA
14267895 TGGGGAAAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
22 7 0.15
23 12 0.26
24 12 0.26
25 13 0.28
26 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (24 bp):
TAAAAAAAAAGGAAAGAGAAAAAA
Found at i:14267871 original size:20 final size:21
Alignment explanation
Indices: 14267835--14267888 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
14267825 AAAGATGAAA
*
14267835 AAATAAAAAATAAAGAAAGAG
1 AAATAAAAAATAAAGAAAAAG
*
14267856 AAATAAGAAA-AAAGAAAAAG
1 AAATAAAAAATAAAGAAAAAG
*
14267876 AAA-ATAAAATAAA
1 AAATAAAAAATAAA
14267889 ATAAAATGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.14
20 15 0.54
21 9 0.32
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (21 bp):
AAATAAAAAATAAAGAAAAAG
Found at i:14267889 original size:21 final size:20
Alignment explanation
Indices: 14267834--14267894 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
14267824 GAAAGATGAA
*
14267834 AAAATAAAAAATAA-AGAAAG
1 AAAATAAAAAA-AAGAAAAAG
14267854 AGAAATAAGAAAAAAGAAAAAG
1 A-AAATAA-AAAAAAGAAAAAG
*
14267876 AAAATAAAATAAAATAAAA
1 AAAATAAAA-AAAAGAAAA
14267895 TGGGGAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 3 0.09
21 22 0.63
22 10 0.29
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAATAAAAAAAAGAAAAAG
Found at i:14268390 original size:21 final size:22
Alignment explanation
Indices: 14268366--14268410 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14268356 AGTTTTTTGT
14268366 AAGTAATTAAA-T-AAAAATTAA
1 AAGTAA-TAAATTAAAAAATTAA
*
14268387 AAGTGATAAATTAAAAAATTAA
1 AAGTAATAAATTAAAAAATTAA
14268409 AA
1 AA
14268411 CATAGATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 11 0.52
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (22 bp):
AAGTAATAAATTAAAAAATTAA
Found at i:14268873 original size:21 final size:21
Alignment explanation
Indices: 14268847--14268894 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
14268837 GAATATTTAC
*
14268847 ATAATTTT-TTATTATAATTAA
1 ATAATTTTAATATTATAA-TAA
14268868 ATAATTTTAATATTATAATAA
1 ATAATTTTAATATTATAATAA
*
14268889 AAAATT
1 ATAATT
14268895 ATAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATTTTAATATTATAATAA
Found at i:14268901 original size:22 final size:22
Alignment explanation
Indices: 14268856--14268901 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14268846 CATAATTTTT
* *
14268856 TATTATAATTAAATAATTTTAA
1 TATTATAATTAAAAAATTTAAA
14268878 TATTATAA-TAAAAAATTATAAA
1 TATTATAATTAAAAAATT-TAAA
14268900 TA
1 TA
14268902 AAATATTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TATTATAATTAAAAAATTTAAA
Found at i:14270002 original size:202 final size:190
Alignment explanation
Indices: 14269569--14270081 Score: 586
Period size: 202 Copynumber: 2.7 Consensus size: 190
14269559 CATTAATTTG
* * * * *
14269569 TATGAATATGATGTGATCATAGATATAATACATTAAGAAAAGGAAATGGATAGAGTGAAAGATAA
1 TATGAATATGATGTGATAAAAGGTATAATACATTAAGAAAGGGAAATGGATAGAGAGAAAGAT-A
* * * * * *
14269634 AGTTAGTTTGA----TGTTTATGAAGTTGATGTAGAATAGACATGAAATGAAAATGAAAAGAGCC
65 AGTTATTTTGATTTTTTTTTTTTAAGTTGATGTAGAATAGACATGAAATGAAAATGAAAAAAGCA
** **
14269695 AAAAAAGGAAAAATGAAGGGAGAGAAAAATTAGGATTTTTTTTTTTTTGGCAAATTTTCTT
130 AAAAAAGGAAAAATGAAAAGAGAGAAAAACAAGGATTTTTTTTTTTTTGGCAAATTTTCTT
* * * *
14269756 TATGGATATGATGTGATAAAATGTGTAACACATTAAGAAAGGGAAATGGATAGAGAGAAAGATAA
1 TATGAATATGATGTGATAAAAGGTATAATACATTAAGAAAGGGAAATGGATAGAGAGAAAGATAA
*** *
14269821 GTTATTTTGACTTTTTTTTTTTTTTAAGTTGATGTAGAATATTTATTAAATGAAAATGAAAAAAG
66 GTTATTTTGA---TTTTTTTTTTTTAAGTTGATGTAGAATAGACATGAAATGAAAATGAAAAAAG
*
14269886 TCAAAAAAAGGAAAAA-GAAAAGAGAGAAAAACAAGGGTTTATTATTATTATTATTATTTTGCAA
128 -CAAAAAAAGGAAAAATGAAAAGAGAGAAAAACAA-GG---ATT-TT-TT-TT-TT-TTTGGCAA
14269950 ATTTTCTT
183 ATTTTCTT
* * ** *
14269958 TATGAATATGATGTGATAAAAGGTTTTATACATTAAGAAAGGGAAATTAATAAAGAGAAAGATAA
1 TATGAATATGATGTGATAAAAGGTATAATACATTAAGAAAGGGAAATGGATAGAGAGAAAGATAA
* *
14270023 GTTATTTTGATTTTTTTTTTGTCAGTTGATGTAGAATAGACATGAAATGAAAATGAAAA
66 GTTATTTTGATTTTTTTTTTTTAAGTTGATGTAGAATAGACATGAAATGAAAATGAAAA
14270082 TGAAAATAGT
Statistics
Matches: 271, Mismatches: 38, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
186 11 0.04
187 54 0.20
193 54 0.20
194 16 0.06
197 3 0.01
198 2 0.01
199 45 0.17
200 2 0.01
201 2 0.01
202 82 0.30
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.33
Consensus pattern (190 bp):
TATGAATATGATGTGATAAAAGGTATAATACATTAAGAAAGGGAAATGGATAGAGAGAAAGATAA
GTTATTTTGATTTTTTTTTTTTAAGTTGATGTAGAATAGACATGAAATGAAAATGAAAAAAGCAA
AAAAAGGAAAAATGAAAAGAGAGAAAAACAAGGATTTTTTTTTTTTTGGCAAATTTTCTT
Found at i:14272077 original size:16 final size:16
Alignment explanation
Indices: 14272050--14272086 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
14272040 CATCTTTATC
14272050 ATAAATTATATAT-A-
1 ATAAATTATATATAAG
14272064 ATAAATTATATATAAG
1 ATAAATTATATATAAG
14272080 ATAAATT
1 ATAAATT
14272087 TAGCATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.62
15 1 0.05
16 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
ATAAATTATATATAAG
Found at i:14272374 original size:25 final size:25
Alignment explanation
Indices: 14272336--14272386 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
14272326 AAAGATTTAC
*
14272336 GGGACTTTCAAAGTATTCCTTATTG
1 GGGACTTTCAAAGTATTCCATATTG
* *
14272361 GGGATTTTCTAAGTATTCCATATTG
1 GGGACTTTCAAAGTATTCCATATTG
14272386 G
1 G
14272387 ATTCCTGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (25 bp):
GGGACTTTCAAAGTATTCCATATTG
Found at i:14272792 original size:9 final size:9
Alignment explanation
Indices: 14272780--14272821 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
14272770 GAATTAAAAT
14272780 AATTTAATA
1 AATTTAATA
14272789 AATTT-ATA
1 AATTTAATA
14272797 AATTTAATTA
1 AATTTAA-TA
*
14272807 AATTTAAAA
1 AATTTAATA
14272816 AATTTA
1 AATTTA
14272822 TTTAAATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 8 0.27
9 13 0.43
10 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AATTTAATA
Found at i:14272820 original size:19 final size:19
Alignment explanation
Indices: 14272773--14272829 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
14272763 TTAAGCCGAA
14272773 TTAAAATAATTTAA-TAAAT
1 TTAAAA-AATTTAATTAAAT
*
14272792 TT-ATAAATTTAATTAAAT
1 TTAAAAAATTTAATTAAAT
*
14272810 TTAAAAAATTTATTTAAAT
1 TTAAAAAATTTAATTAAAT
14272829 T
1 T
14272830 ATGAGTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 7 0.21
18 9 0.27
19 17 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAAAAATTTAATTAAAT
Found at i:14272828 original size:37 final size:36
Alignment explanation
Indices: 14272773--14272855 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 36
14272763 TTAAGCCGAA
*
14272773 TTAAAATAATTTAATAAATTTATAAATTTAA-TTAAAT
1 TTAAAA-AATTTAATAAA-TTATAAATTAAATTTAAAT
* * *
14272810 TTAAAAAATTTATTTAAATTATGAGTTAAATTTAAAT
1 TTAAAAAATTTA-ATAAATTATAAATTAAATTTAAAT
*
14272847 ATAAAAAAT
1 TTAAAAAAT
14272856 AAAATTTAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
36 15 0.38
37 24 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (36 bp):
TTAAAAAATTTAATAAATTATAAATTAAATTTAAAT
Found at i:14273730 original size:167 final size:175
Alignment explanation
Indices: 14273545--14273903 Score: 506
Period size: 180 Copynumber: 2.1 Consensus size: 175
14273535 TTTTTTTTTT
* *
14273545 TCAT-TCATTATACTTTGTTATAATAGTAAATCTCAAATCAAATTAAATAATTCATGTATTTATA
1 TCATATCATTATTCTTTGTTATAATAGTAAATCTCAAATCAAATTAAATAATTCATATATTTATA
* *
14273609 T-TA-TT-TTTTATGTTAA-TACGTTAAATAT-AAA-A-A-A-A-TTTTATTAAATTTATATATA
66 TATATTTATTTTATATTAATTA--TAAAATATAAAATATATATATTTTTATTAAATTTATATATA
* *
14273664 ATTTTTATAAAAATTTTAAAATATGTAATTTTTTTATATTTTTTAAA
129 ATTTTTATAAAAATTTTAAAATATATAATTTTTTTACATTTTTTAAA
*
14273711 TCATATCATTATTCTTTGTTATAATAGTAAATCTCAAATCAAATTAAATAATTTATATATTTATA
1 TCATATCATTATTCTTTGTTATAATAGTAAATCTCAAATCAAATTAAATAATTCATATATTTATA
14273776 TCATATTTATTTTATATTAATTATAAAATATAAAATATATATTTTTATTTTTATTAAATTTATAT
66 T-ATATTTATTTTATATTAATTATAAAATATAAAATATATA----TATTTTTATTAAATTTATAT
14273841 ATAATTTTTATAAAAATTTTAAAATATATAATTTTTTTACATTTTTTAAA
126 ATAATTTTTATAAAAATTTTAAAATATATAATTTTTTTACATTTTTTAAA
*
14273891 TCATATCAATATT
1 TCATATCATTATT
14273904 TAAATCGTAT
Statistics
Matches: 169, Mismatches: 8, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
166 4 0.02
167 58 0.34
169 2 0.01
170 9 0.05
171 13 0.08
172 3 0.02
173 1 0.01
174 1 0.01
179 1 0.01
180 77 0.46
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (175 bp):
TCATATCATTATTCTTTGTTATAATAGTAAATCTCAAATCAAATTAAATAATTCATATATTTATA
TATATTTATTTTATATTAATTATAAAATATAAAATATATATATTTTTATTAAATTTATATATAAT
TTTTATAAAAATTTTAAAATATATAATTTTTTTACATTTTTTAAA
Found at i:14273907 original size:17 final size:17
Alignment explanation
Indices: 14273885--14273921 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14273875 TTTTACATTT
14273885 TTTAAATCATATCAATA
1 TTTAAATCATATCAATA
* *
14273902 TTTAAATCGTATTAATA
1 TTTAAATCATATCAATA
14273919 TTT
1 TTT
14273922 TTTATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAATCATATCAATA
Found at i:14276971 original size:28 final size:29
Alignment explanation
Indices: 14276914--14276971 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 29
14276904 ATATCATAGA
* *
14276914 TTTATATATTTTTTATTTTAATTTACTTT
1 TTTATATATTTTTTATCTTAATATACTTT
*
14276943 TTTAT-TATTTTTTATACTTACTATA-TTT
1 TTTATATATTTTTTAT-CTTAATATACTTT
14276971 T
1 T
14276972 GGTTATATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (29 bp):
TTTATATATTTTTTATCTTAATATACTTT
Found at i:14278638 original size:30 final size:28
Alignment explanation
Indices: 14278579--14278659 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 28
14278569 TAATTCGCGT
14278579 TATCATATTATATAAAATATTATATTTA
1 TATCATATTATATAAAATATTATATTTA
*
14278607 TATCATATTTTATATAAAA-ATTATGTATTA
1 TATCATA--TTATATAAAATATTATAT-TTA
*
14278637 TAATTTATATTAATATAAAATAT
1 T-A-TCATATT-ATATAAAATAT
14278660 AAAAATATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
28 7 0.16
29 6 0.14
30 16 0.36
31 9 0.20
32 6 0.14
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (28 bp):
TATCATATTATATAAAATATTATATTTA
Found at i:14278658 original size:7 final size:7
Alignment explanation
Indices: 14278648--14278683 Score: 63
Period size: 7 Copynumber: 5.0 Consensus size: 7
14278638 AATTTATATT
14278648 AATATAA
1 AATATAA
14278655 AATATAAA
1 AATAT-AA
14278663 AATATAA
1 AATATAA
14278670 AATATAA
1 AATATAA
14278677 AATATAA
1 AATATAA
14278684 TTTTTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATATAA
Found at i:14278660 original size:15 final size:15
Alignment explanation
Indices: 14278648--14278683 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
14278638 AATTTATATT
14278648 AATATAAAATATAAA
1 AATATAAAATATAAA
14278663 AATATAAAATAT-AA
1 AATATAAAATATAAA
14278677 AATATAA
1 AATATAA
14278684 TTTTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATAAAATATAAA
Found at i:14279266 original size:14 final size:13
Alignment explanation
Indices: 14279242--14279296 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
14279232 TTCTTTATTT
*
14279242 TTTTATTTTTTTA
1 TTTTAATTTTTTA
14279255 TTTTAATATTTTTA
1 TTTTAAT-TTTTTA
*
14279269 TTTTTATTTTTTA
1 TTTTAATTTTTTA
* *
14279282 -ATTAATTGTTTA
1 TTTTAATTTTTTA
14279294 TTT
1 TTT
14279297 ATTTTTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 9 0.26
13 13 0.38
14 12 0.35
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTAATTTTTTA
Found at i:14279269 original size:22 final size:24
Alignment explanation
Indices: 14279241--14279306 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 24
14279231 TTTCTTTATT
14279241 TTTTTATTTTTTTATTTTAA-T-A
1 TTTTTATTTTTTTATTTTAATTAA
14279263 TTTTTATTTTTATT-TTTTAATTAA
1 TTTTTATTTTT-TTATTTTAATTAA
14279287 TTGTTTATTTATTTTTATTT
1 TT-TTTA-TT-TTTTTATTT
14279307 ACATACATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
22 17 0.46
23 3 0.08
24 3 0.08
25 4 0.11
26 4 0.11
27 6 0.16
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTATTTTTTTATTTTAATTAA
Found at i:14280035 original size:14 final size:15
Alignment explanation
Indices: 14280000--14280035 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
14279990 TTTATTATCT
14280000 ATAATAA-A-ATAAA
1 ATAATAATACATAAA
14280013 ATAATAATACATAAA
1 ATAATAATACATAAA
14280028 AT-ATAATA
1 ATAATAATA
14280036 TATATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
14 7 0.33
15 7 0.33
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAATACATAAA
Found at i:14281402 original size:13 final size:13
Alignment explanation
Indices: 14281384--14281408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14281374 ACTAAAATAA
14281384 TAATATATATTTT
1 TAATATATATTTT
14281397 TAATATATATTT
1 TAATATATATTT
14281409 AAAAAATAAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAATATATATTTT
Done.