Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 36 of 210
Found at i:12809978 original size:19 final size:17
Alignment explanation
Indices: 12809945--12809987 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
12809935 ACAGTTGATT
12809945 AAATTTTTTATATTTTTA
1 AAATTTTTTATA-TTTTA
12809963 AATATTTTTTGA-ATTTTA
1 AA-ATTTTTT-ATATTTTA
12809981 AAATTTT
1 AAATTTT
12809988 AAAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 9 0.39
19 8 0.35
20 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
AAATTTTTTATATTTTA
Found at i:12816549 original size:86 final size:86
Alignment explanation
Indices: 12816404--12816618 Score: 430
Period size: 86 Copynumber: 2.5 Consensus size: 86
12816394 GTCCTACTAC
12816404 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTCTTCCTTTTCCTGCATGTCATC
1 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTCTTCCTTTTCCTGCATGTCATC
12816469 CTAATTTCAGCAGATGAAAGA
66 CTAATTTCAGCAGATGAAAGA
12816490 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTCTTCCTTTTCCTGCATGTCATC
1 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTCTTCCTTTTCCTGCATGTCATC
12816555 CTAATTTCAGCAGATGAAAGA
66 CTAATTTCAGCAGATGAAAGA
12816576 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGT
1 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGT
12816619 GTTCTTAAAT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 129 1.00
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (86 bp):
ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTCTTCCTTTTCCTGCATGTCATC
CTAATTTCAGCAGATGAAAGA
Found at i:12820769 original size:301 final size:301
Alignment explanation
Indices: 12820227--12820826 Score: 1137
Period size: 301 Copynumber: 2.0 Consensus size: 301
12820217 GTTGCAGGAC
*
12820227 AAAGAAGCAGACAAATAAATCAGCAGGAACCAAGCATAAGTCGGGATATTAAAAACAGCCAAATG
1 AAAGAAGCAGACAAATAAATCAGCAGGAACCAAGCATAAGTCAGGATATTAAAAACAGCCAAATG
12820292 CTATTTTGCAACTTTTGCAAATTTGAAACACCTACCCTTTGATTATTTATCATACTATTTATGAA
66 CTATTTTGCAACTTTTGCAAATTTGAAACACCTACCCTTTGATTATTTATCATACTATTTATGAA
*
12820357 CTTGTACAAGTTCATAAATAGTATGATAAATAACCACAGTATGTACATTGTCAGGCACCAGTGTC
131 CTTGTACAAGTTCATAAATAGTATGATAAATAACCACAATATGTACATTGTCAGGCACCAGTGTC
12820422 GCCCACCAGAGAGTAGGATCAAGTCTTTTAATTATCCTACTTACCATAAGGCCTAGGCCATCATG
196 GCCCACCAGAGAGTAGGATCAAGTCTTTTAATTATCCTACTTACCATAAGGCCTAGGCCATCATG
*
12820487 TCGTCAAACTGAATATATACATTCATATACACATGGATATG
261 TCGTCAAACTGAATATATACATTCATATACACATAGATATG
12820528 AAAGAAGCAGACAAATAAATCAGCAGGAACCAAGCATAAGTCAGGATATTAAAAACAGCCAAATG
1 AAAGAAGCAGACAAATAAATCAGCAGGAACCAAGCATAAGTCAGGATATTAAAAACAGCCAAATG
12820593 CTATTTTGCAACTTTTGCAAATTTGAAACACCTACCCTTTGATTATTTATCATACTATTTATGAA
66 CTATTTTGCAACTTTTGCAAATTTGAAACACCTACCCTTTGATTATTTATCATACTATTTATGAA
* *
12820658 CTTGTACATGTTCATAAATAGTATGATAAATAACCACAATATGTACATTGTGAGGCACCAGTGTC
131 CTTGTACAAGTTCATAAATAGTATGATAAATAACCACAATATGTACATTGTCAGGCACCAGTGTC
* *
12820723 GCCCACCAGAGGGTAGGATCAAGTCTTTTAATTATCCTACTTACCATAAGGGCTAGGCCATCATG
196 GCCCACCAGAGAGTAGGATCAAGTCTTTTAATTATCCTACTTACCATAAGGCCTAGGCCATCATG
12820788 TCGTCAAACTGAATATATACATTCATATACACATAGATA
261 TCGTCAAACTGAATATATACATTCATATACACATAGATA
12820827 CATATAGAGA
Statistics
Matches: 292, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
301 292 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (301 bp):
AAAGAAGCAGACAAATAAATCAGCAGGAACCAAGCATAAGTCAGGATATTAAAAACAGCCAAATG
CTATTTTGCAACTTTTGCAAATTTGAAACACCTACCCTTTGATTATTTATCATACTATTTATGAA
CTTGTACAAGTTCATAAATAGTATGATAAATAACCACAATATGTACATTGTCAGGCACCAGTGTC
GCCCACCAGAGAGTAGGATCAAGTCTTTTAATTATCCTACTTACCATAAGGCCTAGGCCATCATG
TCGTCAAACTGAATATATACATTCATATACACATAGATATG
Found at i:12824376 original size:26 final size:26
Alignment explanation
Indices: 12824346--12824412 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
12824336 TTTTCATTCA
*
12824346 CTTTTATTCTTTTATT-TCTCTTTTTT
1 CTTTTATTCTTTTCTTCT-TCTTTTTT
* *
12824372 CTTTTTTTCTTTTCTTCTTTTTTTTT
1 CTTTTATTCTTTTCTTCTTCTTTTTT
*
12824398 CTTTT-TTTTTTTCTT
1 CTTTTATTCTTTTCTT
12824413 TTTGAGAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 9 0.25
26 26 0.72
27 1 0.03
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (26 bp):
CTTTTATTCTTTTCTTCTTCTTTTTT
Found at i:12824384 original size:13 final size:12
Alignment explanation
Indices: 12824366--12824415 Score: 82
Period size: 12 Copynumber: 4.0 Consensus size: 12
12824356 TTTATTTCTC
12824366 TTTTTTCTTTTT
1 TTTTTTCTTTTT
12824378 TTCTTTTCTTCTTT
1 TT-TTTTCTT-TTT
12824392 TTTTTTCTTTTT
1 TTTTTTCTTTTT
12824404 TTTTTTCTTTTT
1 TTTTTTCTTTTT
12824416 GAGAAGGCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 17 0.47
13 14 0.39
14 5 0.14
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:12824402 original size:8 final size:8
Alignment explanation
Indices: 12824346--12824415 Score: 81
Period size: 8 Copynumber: 8.8 Consensus size: 8
12824336 TTTTCATTCA
*
12824346 CTTTTATT
1 CTTTTTTT
12824354 CTTTTATTT
1 CTTTT-TTT
12824363 CTCTTTTTT
1 CT-TTTTTT
12824372 CTTTTTTT
1 CTTTTTTT
*
12824380 CTTTTCTT
1 CTTTTTTT
12824388 CTTTTTTT
1 CTTTTTTT
*
12824396 -TTCTTTT
1 CTTTTTTT
12824403 -TTTTTTT
1 CTTTTTTT
12824410 CTTTTT
1 CTTTTT
12824416 GAGAAGGCGG
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
7 12 0.22
8 30 0.56
9 9 0.17
10 3 0.06
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (8 bp):
CTTTTTTT
Found at i:12826002 original size:31 final size:32
Alignment explanation
Indices: 12825964--12826023 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
12825954 ATGATTAAAA
12825964 TATCATTATA-TT-AAATTGTTAAAATATTGTT
1 TATCATTATATTTAAAATT-TTAAAATATTGTT
12825995 TATCATTATATTTAAAATTTTAAAATATT
1 TATCATTATATTTAAAATTTTAAAATATT
12826024 TTGTTTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 10 0.37
32 12 0.44
33 5 0.19
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (32 bp):
TATCATTATATTTAAAATTTTAAAATATTGTT
Found at i:12827136 original size:27 final size:30
Alignment explanation
Indices: 12827060--12827138 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 30
12827050 ACAATTGGAC
** *
12827060 CTAAATTTTTAAATTTAAAAAGTAGAAGAA
1 CTAAATTCCTAAATATAAAAAGTAGAAGAA
* *
12827090 TTAAATTCCTAAAAAT-AAAAGTAG-AG-A
1 CTAAATTCCTAAATATAAAAAGTAGAAGAA
12827117 CTAAATTCC-AAATATAAAAAGT
1 CTAAATTCCTAAATATAAAAAGT
12827139 GTATAGAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
26 5 0.12
27 15 0.37
28 2 0.05
29 8 0.20
30 11 0.27
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (30 bp):
CTAAATTCCTAAATATAAAAAGTAGAAGAA
Found at i:12828198 original size:112 final size:109
Alignment explanation
Indices: 12828070--12828737 Score: 959
Period size: 110 Copynumber: 6.1 Consensus size: 109
12828060 AATAAAAACG
12828070 AAAAAAAA--ATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTTTAAAAAAAT
1 AAAAAAAATTATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA-TTTTAAAAAAAT
* *
12828133 TCCTTTTTTTTCGTGTCAGAATCATATATAAATATACGAAAAAAAG
65 T-CTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAAT
* * * *
12828179 AAAAAAAATTTATATTGGGTGTTGGCATGTCAATGGCCGGCACCCAGTACAAATTCTAGAAAAAA
1 AAAAAAAA-TTATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATT-T--TAAAAA
*
12828244 AATTTCTTTTTTTTTCGTGTCAGAATCAGAGATAAATATACG-AAAAAAT
62 AA-TTC-TTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAAT
* * *
12828293 AAAAAAAA-TATTTTGGGTGCTAGCCTATCAATAGCCGGCACCCAGTACAAATTTTAAAAAAATT
1 AAAAAAAATTATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAATT
12828357 CTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAAT
66 CTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAAT
* * * * *
12828401 AAACAAATTTATTTTGGATGCTGGTCTGCCAATGGCCGGCACCCAGTACAAA-TTTAATAAAAAT
1 AAAAAAAATTATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAA-AAAAA-
* * *
12828465 TTCTTTTTTTTCATGTCAGAATTAGATATAAATATACGAAAAAATT
64 TTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAAT
*
12828511 AAAAAAAATTATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAAATTTTAAAAAAATT
1 AAAAAAAATTATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAATT
*
12828576 CTGTTTTTTTAGTGTCAGAATCAGATATAAATATACGAAAAAAATT
66 CT-TTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAA-T
* * * *
12828622 AAAAAATATAATTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAT
1 AAAAAAAATTA-TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAAT
12828687 TCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAAT
65 TCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAAT
*
12828732 TAAAAA
1 AAAAAA
12828738 TATAGGCCGG
Statistics
Matches: 500, Mismatches: 43, Indels: 31
0.87 0.07 0.05
Matches are distributed among these distances:
107 34 0.07
108 21 0.04
109 61 0.12
110 137 0.27
111 58 0.12
112 132 0.26
114 22 0.04
115 35 0.07
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (109 bp):
AAAAAAAATTATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAATT
CTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAAT
Found at i:12828770 original size:86 final size:89
Alignment explanation
Indices: 12828656--12828825 Score: 247
Period size: 92 Copynumber: 1.9 Consensus size: 89
12828646 GCCTGTCAAT
* *
12828656 GGCCGGCACCCAGTACAAATTTAAAAAAAA-TTC-TTTTTTTTCGTGTCAGAATCAGATATAAAT
1 GGCCGGCACCCAGTACAAATTTAAAAAAAATTTCTTTTTTTTTCGTGTCAGAATCAAACATAAAT
12828719 ATACGAA-AAAAATTAAAAATATA
66 ATACGAACAAAAATTAAAAATATA
* *
12828742 GGCCGGCACCCAGTACAAATTTTAAAAAAATGTTTTTCTTTTTTTTTCGTGTCAGGATCAAACAT
1 GGCCGGCACCCAGTACAAA-TTTAAAAAAA---ATTTCTTTTTTTTTCGTGTCAGAATCAAACAT
12828807 AAATATACGAACAAAAATT
62 AAATATACGAACAAAAATT
12828826 TTTAAAAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
86 19 0.26
87 10 0.14
91 3 0.04
92 34 0.47
93 7 0.10
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (89 bp):
GGCCGGCACCCAGTACAAATTTAAAAAAAATTTCTTTTTTTTTCGTGTCAGAATCAAACATAAAT
ATACGAACAAAAATTAAAAATATA
Found at i:12829026 original size:104 final size:101
Alignment explanation
Indices: 12828787--12829081 Score: 339
Period size: 104 Copynumber: 2.9 Consensus size: 101
12828777 TTCTTTTTTT
* * ***
12828787 TTCGTGTCAGGATCAAACATAAATATACGAACAAAAATTTTTAAAAAA-AACTTTTTTGGGTGCT
1 TTCGTGTCAGAATCAAATATAAATATACGAA-AAAAATAAATAAAAAATAA---TTTT-GGTGCT
* *
12828851 GACCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAA
61 GGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAA
* * *
12828892 TTCGTTTCAGAATTAGATATAAATATACGAAAAAAATAAATAAATAAATAAATTTTGGTGCTGGC
1 TTCGTGTCAGAATCAAATATAAATATACGAAAAAAATAAATAAA-AAAT-AATTTTGGTGCTGGC
*
12828957 CTGTCAATGGTCGGCACCCAGTACAAATTTAAAAAAAAAA
64 CTGTCAATGGCCGGCACCCAGTACAAATTT--AAAAAAAA
* * *
12828997 TT-GTGTCAGAATCAAATATAAATATACGAAAAAAATGAA-AAAAAAT--TTTGGGTGCTAGCCT
1 TTCGTGTCAGAATCAAATATAAATATACGAAAAAAATAAATAAAAAATAATTTTGGTGCTGGCCT
*
12829058 GTCAATGGCCGACACCCAGTACAA
66 GTCAATGGCCGGCACCCAGTACAA
12829082 TCATATATAT
Statistics
Matches: 166, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
99 35 0.21
102 4 0.02
103 40 0.24
104 47 0.28
105 38 0.23
107 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (101 bp):
TTCGTGTCAGAATCAAATATAAATATACGAAAAAAATAAATAAAAAATAATTTTGGTGCTGGCCT
GTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAA
Found at i:12833661 original size:29 final size:29
Alignment explanation
Indices: 12833595--12833661 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
12833585 ACTTCGTAAT
*
12833595 ATTTAAAAATATAAGGACTAAATTCTTAA
1 ATTTAAAAATATAAGAACTAAATTCTTAA
**
12833624 AAATAAAAATATACA-AACTAAATTC-TAA
1 ATTTAAAAATATA-AGAACTAAATTCTTAA
12833652 ATTTACAAAA
1 ATTTA-AAAA
12833662 AAATATATGG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 6 0.19
29 24 0.77
30 1 0.03
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (29 bp):
ATTTAAAAATATAAGAACTAAATTCTTAA
Found at i:12833910 original size:98 final size:99
Alignment explanation
Indices: 12833806--12834000 Score: 329
Period size: 98 Copynumber: 2.0 Consensus size: 99
12833796 CAAAAAAAAG
* *
12833806 AATTTTTTTTAAAAATTTGTACTGGGTGCCAACCATTGACAGGCCAGCACCC-AAATTTTTTTTA
1 AATTTTTTTTAAAAATTCGTACTGGGTGCCAACCATTGACAGGCCAACACCCAAAATTTTTTTTA
12833870 TTTTTTTCGTATATTTATATCTGATTCTGACAAT
66 TTTTTTTCGTATATTTATATCTGATTCTGACAAT
*** *
12833904 AATTTTTTTTAAAAATTCGTACTGGGTGCTGGCCATTGACAGGGCAACACCCAAAATTTTTTTTA
1 AATTTTTTTTAAAAATTCGTACTGGGTGCCAACCATTGACAGGCCAACACCCAAAATTTTTTTTA
12833969 TTTTTTTCGTATATTTATATCTGATTCTGACA
66 TTTTTTTCGTATATTTATATCTGATTCTGACA
12834001 CGAAAAAAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 46 0.51
99 44 0.49
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (99 bp):
AATTTTTTTTAAAAATTCGTACTGGGTGCCAACCATTGACAGGCCAACACCCAAAATTTTTTTTA
TTTTTTTCGTATATTTATATCTGATTCTGACAAT
Found at i:12834274 original size:94 final size:98
Alignment explanation
Indices: 12834171--12834371 Score: 329
Period size: 96 Copynumber: 2.1 Consensus size: 98
12834161 TTTTTTTTTT
* *
12834171 AATTTTTTTCGTATATTTATATCTGATTTTGACATG-A-AAAAAAAGAATTTTTTTTAAATTTGT
1 AATTTTTTTCGTATATTTATATCTGATTCTGACACGAATAAAAAAAGAATTTTTTTTAAATTTGT
*
12834234 ACTGGGTGCCGGCCATTGACAGGACAGCA-CC-
66 ACTGGGTGCCGGCCATTGACAGGACAACACCCA
*
12834265 AATTTTTTTCGTATATTTATATCTGATTCTGACACGAATAAAAAAAGAATTTTTTTTTAATTTGT
1 AATTTTTTTCGTATATTTATATCTGATTCTGACACGAATAAAAAAAGAATTTTTTTTAAATTTGT
*
12834330 ACTGGGTGCCGGCCATTGACAGGCCAACACCCA
66 ACTGGGTGCCGGCCATTGACAGGACAACACCCA
12834363 AATTTTTTT
1 AATTTTTTT
12834372 TTCGTTTTTC
Statistics
Matches: 98, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
94 34 0.35
95 1 0.01
96 52 0.53
97 2 0.02
98 9 0.09
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (98 bp):
AATTTTTTTCGTATATTTATATCTGATTCTGACACGAATAAAAAAAGAATTTTTTTTAAATTTGT
ACTGGGTGCCGGCCATTGACAGGACAACACCCA
Found at i:12834311 original size:203 final size:203
Alignment explanation
Indices: 12833769--12834373 Score: 663
Period size: 203 Copynumber: 3.0 Consensus size: 203
12833759 AATATATGAC
* * **
12833769 TTCGTATATTTGTATCTGATTCTGACAC-AAAAAAAAGAATTTTT-TTTAAAAATTTGTACTGGG
1 TTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTATTT-AAATTTTGTACTAAG
* * * *
12833832 TG-CCAACCATTGACAGGCCAGCACCCAAATTTTTTTTATTTTTTTCGTATATTTATATCTGATT
65 TGTCC-GCCATTGACAGGACAGCA-CCAAA-------T-TTTTTTTCGTAAATTTATATATGATT
* * * *
12833896 CTGAC-------AA-TAATTTTTTTTAAAAATTCGTACTGGGTGCTGGCCATTGACAGGGCAACA
120 CTGACATAAAAAAAGAAATTTTTTTT---AATTTGTACTGGGTGCCGGCCATTGACAGGCCAACA
*
12833953 CCCAAA-ATTTTTTTTATTTTT
182 CCCAAATTTTTTTTTTATTTTT
*
12833974 TTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTATTTAAATTTTGTAGTAAGT
1 TTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTATTTAAATTTTGTACTAAGT
* *
12834039 GTCCGCCATTGACAGGCCAGCACCAAAATTTTTTTTCGTAAATTTATATATGATTCTGACATGAA
66 GTCCGCCATTGACAGGACAGCACC-AAATTTTTTTTCGTAAATTTATATATGATTCTGACATAAA
*
12834104 AAAAGAAGATTTTTTTT-ATTTGTACTGGGTGCCGGCCATTGACAGGCCACCA-CCAAATTTTTT
130 AAAAGAA-ATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAATTTTTT
12834167 TTTTAATTTTT
194 TTTT-ATTTTT
* * **
12834178 TTCGTATATTTATATCTGATTTTGACATGAAAAAAAAGAATTTTT-TTTAAA-TTTGTACTGGGT
1 TTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTATTTAAATTTTGTACTAAGT
* *
12834241 G-CCGGCCATTGACAGGACAGCACC-AA-TTTTTTTCGTATATTTATATCTGATTCTGACACGAA
66 GTCC-GCCATTGACAGGACAGCACCAAATTTTTTTTCGTAAATTTATATATGATTCTG--AC--A
*
12834303 TAAAAAAAGAATTTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAATTT
126 TAAAAAAAGAAATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAATTT
12834368 TTTTTT
191 TTTTTT
12834374 CGTTTTTCTT
Statistics
Matches: 353, Mismatches: 25, Indels: 45
0.83 0.06 0.11
Matches are distributed among these distances:
198 29 0.08
199 28 0.08
200 2 0.01
201 4 0.01
202 42 0.12
203 90 0.25
204 63 0.18
205 31 0.09
206 50 0.14
207 14 0.04
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (203 bp):
TTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTATTTAAATTTTGTACTAAGT
GTCCGCCATTGACAGGACAGCACCAAATTTTTTTTCGTAAATTTATATATGATTCTGACATAAAA
AAAGAAATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAATTTTTTTT
TTATTTTT
Found at i:12834398 original size:17 final size:16
Alignment explanation
Indices: 12834366--12834396 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12834356 ACACCCAAAT
12834366 TTTTTTTTCGTTTTTC
1 TTTTTTTTCGTTTTTC
12834382 TTTTTTTTCGTTTTT
1 TTTTTTTTCGTTTTT
12834397 TCGTATATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (16 bp):
TTTTTTTTCGTTTTTC
Found at i:12835237 original size:21 final size:22
Alignment explanation
Indices: 12835213--12835253 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
12835203 TTGTTGTTGG
12835213 ATATCATAAATG-ATCACATCA
1 ATATCATAAATGCATCACATCA
*
12835234 ATATCCTAAATGCATCACAT
1 ATATCATAAATGCATCACAT
12835254 TTACCACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATCATAAATGCATCACATCA
Found at i:12836948 original size:21 final size:21
Alignment explanation
Indices: 12836924--12836986 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
12836914 CGGGAACCCG
12836924 TAAGGGTTAAACAGAAGCTCA
1 TAAGGGTTAAACAGAAGCTCA
* * *
12836945 TAAGAGCTT-AACAGAAACCCA
1 TAAG-GGTTAAACAGAAGCTCA
*
12836966 TAAGGGTTAAACTGAAGCTCA
1 TAAGGGTTAAACAGAAGCTCA
12836987 AAAGTGCTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.09
21 27 0.82
22 3 0.09
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (21 bp):
TAAGGGTTAAACAGAAGCTCA
Found at i:12836964 original size:42 final size:42
Alignment explanation
Indices: 12836918--12837038 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
12836908 GCTAAACGGG
* *
12836918 AACCCGTAAGGGTTAAACAGAAGCTCATAAGAGCTTAACAGA
1 AACCCATAAGGGTTAAACTGAAGCTCATAAGAGCTTAACAGA
* * * **
12836960 AACCCATAAGGGTTAAACTGAAGCTCAAAAGTGCTGAATTGA
1 AACCCATAAGGGTTAAACTGAAGCTCATAAGAGCTTAACAGA
* * *
12837002 AACCTATAAGGGTTAAACTGAAACTCATATGAG-TTAA
1 AACCCATAAGGGTTAAACTGAAGCTCATAAGAGCTTAA
12837039 TTGAAGCTCA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
41 3 0.05
42 63 0.95
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (42 bp):
AACCCATAAGGGTTAAACTGAAGCTCATAAGAGCTTAACAGA
Found at i:12837025 original size:21 final size:22
Alignment explanation
Indices: 12836924--12837030 Score: 73
Period size: 21 Copynumber: 5.1 Consensus size: 22
12836914 CGGGAACCCG
* *
12836924 TAAGGGTTAAACAG-AAGCTCA
1 TAAGGGTTAAACTGAAACCTCA
* *
12836945 TAAGAGCTT-AACAGAAACC-CA
1 TAAG-GGTTAAACTGAAACCTCA
*
12836966 TAAGGGTTAAACTG-AAGCTCA
1 TAAGGGTTAAACTGAAACCTCA
* * * * *
12836987 AAAGTGCTGAATTGAAACCT-A
1 TAAGGGTTAAACTGAAACCTCA
12837008 TAAGGGTTAAACTGAAA-CTCA
1 TAAGGGTTAAACTGAAACCTCA
12837029 TA
1 TA
12837031 TGAGTTAATT
Statistics
Matches: 64, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
20 8 0.12
21 46 0.72
22 10 0.16
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (22 bp):
TAAGGGTTAAACTGAAACCTCA
Found at i:12861218 original size:19 final size:20
Alignment explanation
Indices: 12861176--12861218 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
12861166 TCATGCTTTC
*
12861176 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
12861196 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
12861214 TATTC
1 TATTC
12861219 TACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:12861418 original size:6 final size:6
Alignment explanation
Indices: 12861379--12861422 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
12861369 ATAGTACCTA
* * *
12861379 AACAGT AATCAGT AACGGT AGCAGT AACAAT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
12861423 TTCAACACAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:12861421 original size:18 final size:19
Alignment explanation
Indices: 12861379--12861427 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
12861369 ATAGTACCTA
* *
12861379 AACAGTAATCAGTAACGGT
1 AACAGTAATCAATAACAGT
*
12861398 AGCAGTAA-CAATAACAGT
1 AACAGTAATCAATAACAGT
*
12861416 AACAGTATTCAA
1 AACAGTAATCAA
12861428 CACACAAAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.20
Consensus pattern (19 bp):
AACAGTAATCAATAACAGT
Found at i:12861469 original size:45 final size:45
Alignment explanation
Indices: 12861402--12861596 Score: 291
Period size: 45 Copynumber: 4.3 Consensus size: 45
12861392 AACGGTAGCA
* * * *
12861402 GTAACAATAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
* * *
12861447 GTAACAGTAACGGTAATAGTATTCGACACACAAAGTGCCGAATTG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
* *
12861492 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCAAATCG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
* *
12861537 GTAACAGTAAGAGTAACAGTATTCGACACATAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
12861582 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
12861597 GTCGGAATAT
Statistics
Matches: 133, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 133 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
Found at i:12885937 original size:17 final size:17
Alignment explanation
Indices: 12885907--12885946 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12885897 TTTACAGAAT
* *
12885907 CAAATTTTCTAAGATTA
1 CAAATCTTCCAAGATTA
*
12885924 CAAATCTTCCAAGATTG
1 CAAATCTTCCAAGATTA
12885941 CAAATC
1 CAAATC
12885947 CTCTAAAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (17 bp):
CAAATCTTCCAAGATTA
Found at i:12895012 original size:16 final size:17
Alignment explanation
Indices: 12894991--12895022 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12894981 AATTTTCAGA
12894991 AAATTTTCCT-AATTTC
1 AAATTTTCCTCAATTTC
12895007 AAATTTTCCTCAATTT
1 AAATTTTCCTCAATTT
12895023 AGTCCCTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTTTCCTCAATTTC
Found at i:12895509 original size:3 final size:3
Alignment explanation
Indices: 12895490--12895539 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
12895480 AATTTATTCC
* * *
12895490 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATA ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12895536 ATA A
1 ATA A
12895540 AATGTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:12895518 original size:18 final size:18
Alignment explanation
Indices: 12895490--12895536 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
12895480 AATTTATTCC
12895490 ATAAT-ATAATAACAATA
1 ATAATAATAATAACAATA
*
12895507 ATATTAATAATAACAATA
1 ATAATAATAATAACAATA
12895525 ATAATAA-AATAA
1 ATAATAATAATAA
12895537 TAAAATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAACAATA
Found at i:12896442 original size:25 final size:25
Alignment explanation
Indices: 12896388--12896444 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
12896378 AAATAGAGTG
* *
12896388 AACAAAATAAAAACCACAAATTGTG
1 AACAAAATAAAAACCACAAACTGTA
* *
12896413 GACAAAAT-AAAATCACAAAACTGTA
1 AACAAAATAAAAACCAC-AAACTGTA
12896438 AACAAAA
1 AACAAAA
12896445 CCATAATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.63, C:0.16, G:0.07, T:0.14
Consensus pattern (25 bp):
AACAAAATAAAAACCACAAACTGTA
Found at i:12911546 original size:20 final size:19
Alignment explanation
Indices: 12911508--12911546 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
12911498 AAAAGTTCCT
* *
12911508 ATTTTTATTTATCTTAAAA
1 ATTTTGATTTATATTAAAA
12911527 ATTTTGATTTATAATTAAAA
1 ATTTTGATTTAT-ATTAAAA
12911547 GAAATGCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (19 bp):
ATTTTGATTTATATTAAAA
Found at i:12916611 original size:27 final size:27
Alignment explanation
Indices: 12916573--12916627 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
12916563 TAAATTTGTT
12916573 AATGTAATGTCTCTGAACGTTTTAAAC
1 AATGTAATGTCTCTGAACGTTTTAAAC
12916600 AATGTAATGTCTCTGAACGTTTTAAAC
1 AATGTAATGTCTCTGAACGTTTTAAAC
12916627 A
1 A
12916628 GTCACTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (27 bp):
AATGTAATGTCTCTGAACGTTTTAAAC
Found at i:12917492 original size:76 final size:75
Alignment explanation
Indices: 12917341--12917493 Score: 200
Period size: 76 Copynumber: 2.0 Consensus size: 75
12917331 GCCACACAAC
*
12917341 CTAGACTTCTTAGATCACCAAATCCAAGAATCCAAACCCCCAACTGGACTCTTTCCCTGCACATC
1 CTAGACTTCTTAGATCACCAAATCCAAGAATCCAAACCCCCAACTGGACTCTTTCCCTGCACACC
*
12917406 GTCTCTGGAA
66 GTCTCCGGAA
* * * ***
12917416 CTAGA-TTCCTTAGATCACCAAATTCAAGAGTCCAAAACCCCCCACTGGACTCTTTGTTTGCACA
1 CTAGACTT-CTTAGATCACCAAATCCAAGAATCC-AAACCCCCAACTGGACTCTTTCCCTGCACA
*
12917480 CCGTTTCCGGAA
64 CCGTCTCCGGAA
12917492 CT
1 CT
12917494 TGCGACTGCA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
74 2 0.03
75 28 0.42
76 37 0.55
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.25
Consensus pattern (75 bp):
CTAGACTTCTTAGATCACCAAATCCAAGAATCCAAACCCCCAACTGGACTCTTTCCCTGCACACC
GTCTCCGGAA
Found at i:12927276 original size:25 final size:24
Alignment explanation
Indices: 12927248--12927295 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
12927238 ATCCAGGTAA
12927248 TATAACGGGAAGCTCACAAAGAGCC
1 TATAACGGGAAGCTC-CAAAGAGCC
* *
12927273 TATAACGGGTAGCTCCGAAGAGC
1 TATAACGGGAAGCTCCAAAGAGC
12927296 AATTAATCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.35, C:0.23, G:0.27, T:0.15
Consensus pattern (24 bp):
TATAACGGGAAGCTCCAAAGAGCC
Found at i:12930060 original size:25 final size:25
Alignment explanation
Indices: 12930025--12930086 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
12930015 ACAGATGTGC
*
12930025 TAATCGAAGAGCACTAACGTGCTAA
1 TAATCAAAGAGCACTAACGTGCTAA
* * *
12930050 TAATCAGAGAGCACTGATGTGCTAA
1 TAATCAAAGAGCACTAACGTGCTAA
12930075 TAATCAAAGAGC
1 TAATCAAAGAGC
12930087 GCACTAAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (25 bp):
TAATCAAAGAGCACTAACGTGCTAA
Found at i:12930715 original size:47 final size:48
Alignment explanation
Indices: 12930632--12930739 Score: 137
Period size: 47 Copynumber: 2.2 Consensus size: 48
12930622 TGCGCATAAT
*
12930632 CACATATCACACACCAAAGCCATAACCCAGCCATGGTCTTACACGG-AAG
1 CACATAT--CACACCAAAGCCATAACCCAACCATGGTCTTACACGGAAAG
* * * * *
12930681 CACATATCACACCAATGCCATAGCCCAACTATGGTCTTATACGGAAAT
1 CACATATCACACCAAAGCCATAACCCAACCATGGTCTTACACGGAAAG
12930729 CACATATCACA
1 CACATATCACA
12930740 TATTGTCATG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
47 32 0.62
48 13 0.25
49 7 0.13
ACGTcount: A:0.37, C:0.32, G:0.12, T:0.19
Consensus pattern (48 bp):
CACATATCACACCAAAGCCATAACCCAACCATGGTCTTACACGGAAAG
Found at i:12930756 original size:47 final size:47
Alignment explanation
Indices: 12930632--12930765 Score: 135
Period size: 47 Copynumber: 2.8 Consensus size: 47
12930622 TGCGCATAAT
* * *
12930632 CACATATCACACACCAAAGCCATAACCCAGCCATGGTCTTACACGGAAG
1 CACATAT--CACACCAATGCCATAGCCCAACCATGGTCTTACACGGAAG
* * *
12930681 CACATATCACACCAATGCCATAGCCCAACTATGGTCTTATACGGAAAT
1 CACATATCACACCAATGCCATAGCCCAACCATGGTCTTACACGG-AAG
* * * * *
12930729 CACATATCACA-TATTGTCATGGTCCAACCATGGTCTT
1 CACATATCACACCAATGCCATAGCCCAACCATGGTCTT
12930766 TTCCGTCAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
47 52 0.72
48 13 0.18
49 7 0.10
ACGTcount: A:0.34, C:0.31, G:0.13, T:0.22
Consensus pattern (47 bp):
CACATATCACACCAATGCCATAGCCCAACCATGGTCTTACACGGAAG
Found at i:12931493 original size:14 final size:15
Alignment explanation
Indices: 12931469--12931497 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12931459 TTTTTCTGTG
12931469 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
12931484 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
12931498 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:12944585 original size:22 final size:21
Alignment explanation
Indices: 12944560--12944637 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 21
12944550 CCTAAATCCT
12944560 TTCTCTCAATTT-CTCTCCAATA
1 TTCTCTCAATTTCCTCT-CAA-A
*
12944582 TTCTCTCAAATTCCTCTCAAA
1 TTCTCTCAATTTCCTCTCAAA
*
12944603 TTCTTTTCAATTTCCTCTCAAA
1 TTC-TCTCAATTTCCTCTCAAA
*
12944625 TTCCTCTTAATTT
1 TT-CTCTCAATTT
12944638 TTTTTAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
21 4 0.08
22 39 0.81
23 5 0.10
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.47
Consensus pattern (21 bp):
TTCTCTCAATTTCCTCTCAAA
Found at i:12944598 original size:11 final size:11
Alignment explanation
Indices: 12944562--12944631 Score: 72
Period size: 11 Copynumber: 6.4 Consensus size: 11
12944552 TAAATCCTTT
*
12944562 CTCTC-AATTT
1 CTCTCAAATTC
12944572 CTCTCCAATATT-
1 CTCT-CAA-ATTC
12944584 CTCTCAAATTC
1 CTCTCAAATTC
12944595 CTCTCAAATTC
1 CTCTCAAATTC
* * *
12944606 TTTTCAATTTC
1 CTCTCAAATTC
12944617 CTCTCAAATTC
1 CTCTCAAATTC
12944628 CTCT
1 CTCT
12944632 TAATTTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
10 7 0.14
11 35 0.70
12 5 0.10
13 3 0.06
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:12944599 original size:33 final size:33
Alignment explanation
Indices: 12944562--12944637 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
12944552 TAAATCCTTT
12944562 CTCTCAATTTCTCTCCAATATT-CTCTCAAATTC
1 CTCTCAATTTCTCTCCAAT-TTCCTCTCAAATTC
* * *
12944595 CTCTCAAATTCTTTTCAATTTCCTCTCAAATTC
1 CTCTCAATTTCTCTCCAATTTCCTCTCAAATTC
*
12944628 CTCTTAATTT
1 CTCTCAATTT
12944638 TTTTTAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 2 0.05
33 35 0.95
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (33 bp):
CTCTCAATTTCTCTCCAATTTCCTCTCAAATTC
Found at i:12946375 original size:18 final size:18
Alignment explanation
Indices: 12946339--12946381 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
12946329 TGCCAGGTGC
* * *
12946339 GTATCCTAGCTCTTTTAT
1 GTATCCTAACCCTTATAT
12946357 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
12946375 GTTTCCT
1 GTATCCT
12946382 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:12946962 original size:116 final size:115
Alignment explanation
Indices: 12946858--12947068 Score: 305
Period size: 116 Copynumber: 1.8 Consensus size: 115
12946848 CATGTAATAA
* *
12946858 AATTGAAATTTACTTTTACATTTTTAATATAATAGAAATTATTTTAAATAACACAATATTTTGAA
1 AATTGAAATTTACTTTAACATTTTTAATAAAATAGAAATTATTTTAAATAACACAATATTTTGAA
* *
12946923 TATTTCTATATTATTTCATTTAATAAAATAAAAAGTTATTTTGAATAAAG
66 TATTTCCATATTATTTCATTTAAAAAAATAAAAAGTTATTTTGAATAAAG
* * ** * **
12946973 TAATTGTAATTTACTTTAATATTTTTAATAAAATAGATTTTCTTTTAAATAAGTCAATATTTTGA
1 -AATTGAAATTTACTTTAACATTTTTAATAAAATAGAAATTATTTTAAATAACACAATATTTTGA
*
12947038 ATATTTCCATATTATTTGATTTAAAAAAATA
65 ATATTTCCATATTATTTCATTTAAAAAAATA
12947069 TAAATAATAC
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
116 83 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (115 bp):
AATTGAAATTTACTTTAACATTTTTAATAAAATAGAAATTATTTTAAATAACACAATATTTTGAA
TATTTCCATATTATTTCATTTAAAAAAATAAAAAGTTATTTTGAATAAAG
Found at i:12950319 original size:126 final size:126
Alignment explanation
Indices: 12950081--12950366 Score: 423
Period size: 126 Copynumber: 2.3 Consensus size: 126
12950071 CAAACATGAT
** *
12950081 CTACTGTAGCAAAAGCGCGTCCACG-TGAGAGCTTCTTTCAGTACTTTTGCTGTTAAAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACGTTG-GAGCTTCTTTCAGTACTTTTGCTGACAAAACATCCT
* * *
12950145 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAATGTCTACTCGAAATTATTTTTTCAGGAG
65 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGAG
12950207 CTACTGTAGCAAAAGCGCGTCCACGTTGGAGCTTCTTTCAGTACTTTTGCTGACAAAACATCAC-
1 CTACTGTAGCAAAAGCGCGTCCACGTTGGAGCTTCTTTCAGTACTTTTGCTGACAAAACATC-CT
* *
12950271 GCTTAAAGTGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAG
65 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGAG
* * * * *
12950333 CTACTATAACAAAAGAGAGTCCACGTGGGAGCTT
1 CTACTGTAGCAAAAGCGCGTCCACGTTGGAGCTT
12950367 TTTTAAATTA
Statistics
Matches: 145, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
126 142 0.98
127 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGTTGGAGCTTCTTTCAGTACTTTTGCTGACAAAACATCCTG
CTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGAG
Found at i:12951765 original size:15 final size:14
Alignment explanation
Indices: 12951738--12951764 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12951728 CCCTCTCCCT
12951738 AAAAATCTATTTTA
1 AAAAATCTATTTTA
12951752 AAAAATCTATTTT
1 AAAAATCTATTTT
12951765 TTCGACATTT
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:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAATCTATTTTA
Found at i:12953768 original size:12 final size:12
Alignment explanation
Indices: 12953751--12953776 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12953741 CCTGATTTTT
12953751 CTTCAGCTTCTC
1 CTTCAGCTTCTC
12953763 CTTCAGCTTCTC
1 CTTCAGCTTCTC
12953775 CT
1 CT
12953777 GGTTCAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.42, G:0.08, T:0.42
Consensus pattern (12 bp):
CTTCAGCTTCTC
Found at i:12962397 original size:127 final size:128
Alignment explanation
Indices: 12962154--12962413 Score: 459
Period size: 127 Copynumber: 2.0 Consensus size: 128
12962144 CATACTTTAC
*
12962154 TGAACATGTTAGTATAAACAATGGACAAATTAGTTTCATGATTACTTTGGCTTTCTTTTTTTTTA
1 TGAACATGTTAGTATAAACAATGGACAAATTAGTTTCATGATTACTTTGGCATTC-TTTTTTTTA
12962219 GCTCTCTTTAATGTTTTGTTGGTATCTATTCTATCACAAGCTTTAACTTTAATGTCGAGGAAGA
65 GCTCTCTTTAATGTTTTGTTGGTATCTATTCTATCACAAGCTTTAACTTTAATGTCGAGGAAGA
* *
12962283 TGAACATGTTAGTATAAACAATGGATAGATTAGTTTCATGATTACTTTGGCATTC-TTTTTTTAG
1 TGAACATGTTAGTATAAACAATGGACAAATTAGTTTCATGATTACTTTGGCATTCTTTTTTTTAG
* *
12962347 CTCTCTTTAATGTTTTTTTGGTATCTATTCTATCACAAGCTTTAGCTTTAATGTCGAGGAAGA
66 CTCTCTTTAATGTTTTGTTGGTATCTATTCTATCACAAGCTTTAACTTTAATGTCGAGGAAGA
12962410 TGAA
1 TGAA
12962414 TGACAAAAGA
Statistics
Matches: 126, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
127 74 0.59
129 52 0.41
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (128 bp):
TGAACATGTTAGTATAAACAATGGACAAATTAGTTTCATGATTACTTTGGCATTCTTTTTTTTAG
CTCTCTTTAATGTTTTGTTGGTATCTATTCTATCACAAGCTTTAACTTTAATGTCGAGGAAGA
Found at i:12966557 original size:39 final size:40
Alignment explanation
Indices: 12966471--12966558 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
12966461 AATTCTTTAC
* *
12966471 TTCAGTAATTTCACAATTCAATGCATTATGCATAACAATA
1 TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
*
12966511 TTCAGTATTTTCACAATTCACT-CAGTAAT-CA-AGACAATA
1 TTCAGTATTTTCACAATTCAATGCA-TAATGCATA-ACAATA
12966550 TTCAGTATT
1 TTCAGTATT
12966559 CCATAATTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 19 0.44
40 23 0.53
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (40 bp):
TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
Found at i:12967293 original size:11 final size:11
Alignment explanation
Indices: 12967279--12967304 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12967269 CTTTTTCTTC
12967279 TTTCTCCCCTG
1 TTTCTCCCCTG
12967290 TTTCTCCCCTG
1 TTTCTCCCCTG
12967301 TTTC
1 TTTC
12967305 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:12968663 original size:29 final size:31
Alignment explanation
Indices: 12968599--12968663 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 31
12968589 TTTTCCATTT
* *
12968599 GGTACTTATACTTTCATAAAATGTCCAATGT
1 GGTACTTATACTTTCATAAAATATCCAATGC
* * *
12968630 AGTACTTGTAC-TTCA-AAAATATCTAATGC
1 GGTACTTATACTTTCATAAAATATCCAATGC
12968659 GGTAC
1 GGTAC
12968664 CTGAACTATC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
29 15 0.54
30 4 0.14
31 9 0.32
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (31 bp):
GGTACTTATACTTTCATAAAATATCCAATGC
Found at i:12968755 original size:92 final size:92
Alignment explanation
Indices: 12968596--12968764 Score: 214
Period size: 92 Copynumber: 1.8 Consensus size: 92
12968586 TAATTTTCCA
* * *
12968596 TTTGGTACTTATACTTTCATAAAATGTCCAATGTAGTACTTGTACTTCAAAAATATCTAATGCGG
1 TTTGGTACATATACTTTCATAAAATGTCCAATATAGTACTTCTACTTCAAAAATATCTAATGCGG
*
12968661 TACCTGAACTATCAATATTTATTTTAT
66 TACATGAACTATCAATATTTATTTTAT
* * * * ** * *
12968688 TTTGGTGCATATACTTTTATAAAATGTTCAATATGGTA-TCTCTACTTTGAAAATGTCTAATGTG
1 TTTGGTACATATACTTTCATAAAATGTCCAATATAGTACT-TCTACTTCAAAAATATCTAATGCG
12968752 GTACATGAACTAT
65 GTACATGAACTAT
12968765 TAAGATATGT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
91 1 0.02
92 63 0.98
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (92 bp):
TTTGGTACATATACTTTCATAAAATGTCCAATATAGTACTTCTACTTCAAAAATATCTAATGCGG
TACATGAACTATCAATATTTATTTTAT
Found at i:12968780 original size:92 final size:92
Alignment explanation
Indices: 12968596--12968787 Score: 206
Period size: 92 Copynumber: 2.1 Consensus size: 92
12968586 TAATTTTCCA
* * *
12968596 TTTGGTACTTATACTTTCATAAAATGTCCAATGTAGTACTTGTACTTCAAAAATATCTAATGCGG
1 TTTGGTACATATACTTTCATAAAATGTCCAATATAGTACTTCTACTTCAAAAATATCTAATGCGG
* * * *
12968661 TACCTGAACTATCAATATTTATTTTAT
66 TACATGAACTATCAAGATATATATTAT
* * * * ** * *
12968688 TTTGGTGCATATACTTTTATAAAATGTTCAATATGGTA-TCTCTACTTTGAAAATGTCTAATGTG
1 TTTGGTACATATACTTTCATAAAATGTCCAATATAGTACT-TCTACTTCAAAAATATCTAATGCG
* *
12968752 GTACATGAACTATTAAGATATGTATTAT
65 GTACATGAACTATCAAGATATATATTAT
*
12968780 TATGGTAC
1 TTTGGTAC
12968788 CTGGGTTTAA
Statistics
Matches: 80, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
91 1 0.01
92 79 0.99
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (92 bp):
TTTGGTACATATACTTTCATAAAATGTCCAATATAGTACTTCTACTTCAAAAATATCTAATGCGG
TACATGAACTATCAAGATATATATTAT
Found at i:12970631 original size:20 final size:21
Alignment explanation
Indices: 12970608--12970654 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
12970598 ATTAAATAAG
12970608 TTTTATTAATTTA-TAAATTT
1 TTTTATTAATTTATTAAATTT
* *
12970628 TTTTA-CAATTTATTAGATTT
1 TTTTATTAATTTATTAAATTT
12970648 TTTTATT
1 TTTTATT
12970655 TTTATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTATTAATTTATTAAATTT
Found at i:12970690 original size:19 final size:20
Alignment explanation
Indices: 12970668--12970708 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
12970658 ATAATACTTT
*
12970668 TAAGTTTTTATC-ATTTTAA
1 TAAGTTTATATCAATTTTAA
12970687 TAAGTTTATATCAATTTTAA
1 TAAGTTTATATCAATTTTAA
12970707 TA
1 TA
12970709 TTTTTAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
TAAGTTTATATCAATTTTAA
Found at i:12970714 original size:20 final size:19
Alignment explanation
Indices: 12970672--12970731 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
12970662 TACTTTTAAG
12970672 TTTT-TATCATTTTAATAA
1 TTTTATATCATTTTAATAA
* *
12970690 GTTTATATCAATTTTAATAT
1 TTTTATATC-ATTTTAATAA
12970710 TTTTAGTAT--TTTTAATAA
1 TTTTA-TATCATTTTAATAA
12970728 TTTT
1 TTTT
12970732 GTTGACACCA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 15 0.43
19 4 0.11
20 13 0.37
21 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATATCATTTTAATAA
Found at i:12974914 original size:61 final size:61
Alignment explanation
Indices: 12974839--12974958 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
12974829 TGAAAGGGCT
* *
12974839 TAATTAAAATTTTCTAAAAACTTCAAGAGAGAAAT-ATAAATTTC-CAAAAAATTTGGGAGTC
1 TAATTAAAACTTTCTAAAAAATTCAAGAGAGAAATCA-AAATTTCTC-AAAAATTTGGGAGTC
* *
12974900 TAATTAAAACTTTCTAAAAAATTCAAGGGAGAAATCAAAATTTCTCAAAATTTTGGGAG
1 TAATTAAAACTTTCTAAAAAATTCAAGAGAGAAATCAAAATTTCTCAAAAATTTGGGAG
12974959 ACCAAGTCCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
61 51 0.96
62 2 0.04
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (61 bp):
TAATTAAAACTTTCTAAAAAATTCAAGAGAGAAATCAAAATTTCTCAAAAATTTGGGAGTC
Found at i:12974944 original size:30 final size:30
Alignment explanation
Indices: 12974843--12974949 Score: 78
Period size: 30 Copynumber: 3.5 Consensus size: 30
12974833 AGGGCTTAAT
* * *
12974843 TAAAATTTTCTAAAAACTTCAAGAGAGAAA
1 TAAAACTTTCTAAAAAATTCAAGGGAGAAA
* * *
12974873 TATAAA-TTTCCAAAAAATT--TGGGAGTCTAAT
1 TA-AAACTTTCTAAAAAATTCAAGGGAG---AAA
12974904 TAAAACTTTCTAAAAAATTCAAGGGAGAAA
1 TAAAACTTTCTAAAAAATTCAAGGGAGAAA
*
12974934 TCAAAA-TTTCTCAAAA
1 T-AAAACTTTCTAAAAA
12974950 TTTTGGGAGA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
28 4 0.07
30 28 0.47
31 23 0.38
33 5 0.08
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (30 bp):
TAAAACTTTCTAAAAAATTCAAGGGAGAAA
Found at i:12976135 original size:2 final size:2
Alignment explanation
Indices: 12976128--12976156 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12976118 TCTTTTGTAT
12976128 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12976157 CAATTTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12981827 original size:92 final size:92
Alignment explanation
Indices: 12981656--12981834 Score: 250
Period size: 92 Copynumber: 1.9 Consensus size: 92
12981646 TGTACTTATT
* * *
12981656 CTTTTATAAAATGTCCAATGTAGTACTTGTACTTTGAAAATATCTAATGCGGTACCTGAACTATC
1 CTTTTATAAAATGTCCAATATAGTACTTCTACTTTGAAAATATCCAATGCGGTACCTGAACTATC
* * *
12981721 AATATTTATTTTATTTTGGTACACATA
66 AATATATATATTATTATGGTACACATA
* * * * *
12981748 CTTTTATAAAATGTTCAATATGGTATTTCTACTTTGAAAATGTCCAATGTGGTACCTGAACTATC
1 CTTTTATAAAATGTCCAATATAGTACTTCTACTTTGAAAATATCCAATGCGGTACCTGAACTATC
*
12981813 AATATATGTATTATTATGGTAC
66 AATATATATATTATTATGGTAC
12981835 TTGGTTTTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (92 bp):
CTTTTATAAAATGTCCAATATAGTACTTCTACTTTGAAAATATCCAATGCGGTACCTGAACTATC
AATATATATATTATTATGGTACACATA
Found at i:12985773 original size:18 final size:19
Alignment explanation
Indices: 12985739--12985775 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12985729 TTTCTCTAAC
*
12985739 CTTTAATTTTTTAATAATT
1 CTTTAATTTTATAATAATT
12985758 CTTTAATTTTAT-ATAATT
1 CTTTAATTTTATAATAATT
12985776 TTCATACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
CTTTAATTTTATAATAATT
Found at i:12986433 original size:20 final size:20
Alignment explanation
Indices: 12986408--12986467 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
12986398 TCAAACTATT
*
12986408 ATAAAAAATAATTAAAAATA
1 ATAAAAAATATTTAAAAATA
*
12986428 ATAAAAGAA-ATTTAAAAATT
1 ATAAAA-AATATTTAAAAATA
*
12986448 ATAAATAAT-TTTAAAAATA
1 ATAAAAAATATTTAAAAATA
12986467 A
1 A
12986468 AAGTTATACA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 12 0.35
20 20 0.59
21 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
ATAAAAAATATTTAAAAATA
Found at i:12990395 original size:47 final size:47
Alignment explanation
Indices: 12990321--12990415 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
12990311 ATAATAGACA
*
12990321 TGTTTTTCCTTTTACCCGAATTGTATGATTCCATTCATGAAATGGAT
1 TGTTTTTCCTTTTACCCGAATTATATGATTCCATTCATGAAATGGAT
*
12990368 TGTTTTTTCTTTTACCCGAATTATATGATTCCATTCATGAAATGGAT
1 TGTTTTTCCTTTTACCCGAATTATATGATTCCATTCATGAAATGGAT
12990415 T
1 T
12990416 AATGAATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (47 bp):
TGTTTTTCCTTTTACCCGAATTATATGATTCCATTCATGAAATGGAT
Found at i:12991517 original size:42 final size:42
Alignment explanation
Indices: 12991441--12991520 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
12991431 TTAGGCAAGA
*
12991441 TATTAGCTTATCACAGTACTCGCCTTCCTTCTTTACATCAGT
1 TATTAGCTTATCACAGTACTCGCCTTCCTCCTTTACATCAGT
* * * *
12991483 TATTGGCTTTTCATAGTACTCGTCTTCCTCCTTTACAT
1 TATTAGCTTATCACAGTACTCGCCTTCCTCCTTTACAT
12991521 TATCAAGCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.19, C:0.28, G:0.10, T:0.44
Consensus pattern (42 bp):
TATTAGCTTATCACAGTACTCGCCTTCCTCCTTTACATCAGT
Found at i:12992764 original size:24 final size:23
Alignment explanation
Indices: 12992713--12992756 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12992703 AGAAAAATAT
** *
12992713 ATAAATATTAATTTTTTTAACAA
1 ATAAATATTAAACTTTTGAACAA
12992736 ATAAATATTAAACTTTTGAAC
1 ATAAATATTAAACTTTTGAAC
12992757 CAAGTAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (23 bp):
ATAAATATTAAACTTTTGAACAA
Found at i:12996498 original size:30 final size:31
Alignment explanation
Indices: 12996462--12996524 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
12996452 GGCAAATGAC
12996462 AAGAGTAATTGAATCCTAA-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
12996492 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
12996523 AA
1 AA
12996525 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.30
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:13000091 original size:8 final size:7
Alignment explanation
Indices: 13000063--13000088 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13000053 AAAATATTTT
13000063 AAAAATA
1 AAAAATA
13000070 AAAAATA
1 AAAAATA
13000077 AAAAATA
1 AAAAATA
13000084 AAAAA
1 AAAAA
13000089 ATATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:13011573 original size:100 final size:99
Alignment explanation
Indices: 13011439--13011639 Score: 314
Period size: 100 Copynumber: 2.0 Consensus size: 99
13011429 ACAGTTTACA
* *
13011439 AGTAGGTTACGTCAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACTT
1 AGTAGGTTACATCAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACTG
* *
13011504 AAAAAAAGTTGTAAAGATTATCCTAGGTTCTCCACT
66 AAAAAAAGATGTAAAGATTATCCAAGGTT-TCC-CT
* *
13011540 AGTAGGTTACATTAAAG-AATTTCATTCTTGATTTATTTCATGAGTTAATGCATTATTGGTACTG
1 AGTAGGTTACATCAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACTG
*
13011604 AAAAATAGATGTAAAGATTATCCAAGGTTTCCCT
66 AAAAAAAGATGTAAAGATTATCCAAGGTTTCCCT
13011638 AG
1 AG
13011640 AAGACTGCCC
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
98 4 0.04
99 3 0.03
100 71 0.76
101 15 0.16
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (99 bp):
AGTAGGTTACATCAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACTG
AAAAAAAGATGTAAAGATTATCCAAGGTTTCCCT
Found at i:13016917 original size:4 final size:4
Alignment explanation
Indices: 13016910--13016934 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13016900 CCAATGATTT
13016910 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
13016935 ATAGGGTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:13019324 original size:17 final size:17
Alignment explanation
Indices: 13019287--13019324 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13019277 TTTAACCATT
*
13019287 TTTTATTTTTGTTATAT
1 TTTTATTTTTGTTATAA
13019304 TTTTATTTTTAGTT-TAA
1 TTTTATTTTT-GTTATAA
13019321 TTTT
1 TTTT
13019325 TGTTTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTGTTATAA
Found at i:13027252 original size:90 final size:91
Alignment explanation
Indices: 13027147--13027327 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 91
13027137 TGCTCATACA
13027147 TATTTGAGTTCAAGCTTGATTTAATAATTAAACTTAAGATTAATAATATATATTAACGGAAATAA
1 TATTTGAGTTCAAGCTTGATTTAATAATTAAACTTAAGATTAATAATATATATTAACGGAAATAA
13027212 TATAATTTAATAATA-AAAAATATTT
66 TATAATTTAATAATATAAAAATATTT
13027237 TATTTGAGTTCAAGCTTGATTTAATAATTAAACTTAAGATTAATAATATATATTAACGGAAATAA
1 TATTTGAGTTCAAGCTTGATTTAATAATTAAACTTAAGATTAATAATATATATTAACGGAAATAA
13027302 TATAATTTAATAATATAAAAATATTT
66 TATAATTTAATAATATAAAAATATTT
13027328 AAATATATAT
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 80 0.89
91 10 0.11
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (91 bp):
TATTTGAGTTCAAGCTTGATTTAATAATTAAACTTAAGATTAATAATATATATTAACGGAAATAA
TATAATTTAATAATATAAAAATATTT
Found at i:13027327 original size:18 final size:21
Alignment explanation
Indices: 13027306--13027344 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13027296 AAATAATATA
13027306 ATTT-AATA-ATA-TAAAAAT
1 ATTTAAATATATATTAAAAAT
13027324 ATTTAAATATATATTAAAAAT
1 ATTTAAATATATATTAAAAAT
13027345 GAAAAGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 3 0.17
21 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTAAATATATATTAAAAAT
Found at i:13030099 original size:788 final size:788
Alignment explanation
Indices: 13028583--13030160 Score: 3012
Period size: 788 Copynumber: 2.0 Consensus size: 788
13028573 GACACACAAG
13028583 TCATAAACATATCATTCAATCATAGTCACAAGCTAGTGCATTTAACTAAAGCCTTTTCCGAATTG
1 TCATAAACATATCATTCAATCATAGTCACAAGCTAGTGCATTTAACTAAAGCCTTTTCCGAATTG
*
13028648 ATCACATTATAAGTCATTTCATAAGAAATTGCATAATTTAAACCATACCACTTTTTCATGAACAC
66 ATCACATGATAAGTCATTTCATAAGAAATTGCATAATTTAAACCATACCACTTTTTCATGAACAC
13028713 TAGCATATTTTCCTTCAAATATTTATCAATTCAATGCTTCCATTAAATAATCATATTACTATTCA
131 TAGCATATTTTCCTTCAAATATTTATCAATTCAATGCTTCCATTAAATAATCATATTACTATTCA
* *
13028778 ACCAATAGCTTGGCACTTGCCTAAGCATCAAGCAACAACACTAGTTAATGTACTTGCACACATTA
196 ACCAATAGCTTGCCACTTGCCTAAGCATCAAGCAACAACACTAGTTAATGTACTAGCACACATTA
*
13028843 CATATAAACCCATCATGCATAATTTTCTTGTATCAACATATTAAAGATAATCATACATTTACATG
261 CATATAAACCCATCATGCATAATTATCTTGTATCAACATATTAAAGATAATCATACATTTACATG
*
13028908 TCATGATACATATCATTCTCTTATCATTTCTTCATAGGTATATATCATTCATTTCATTATTTCGA
326 TCATGATACATATCATTCTCTTATCATTTCTTCATAGGTATATATCATTCATTTCATTATTTCAA
13028973 TATTTCATGTACCATAATTTTCATGAATTTCGCGTACATACCGGTAATAGTTCATTTCAAACTCA
391 TATTTCATGTACCATAATTTTCATGAATTTCGCGTACATACCGGTAATAGTTCATTTCAAACTCA
13029038 TGTTATCTCACTTCAGAACTTTACCCGTTATATCATTTAAATATCAATGGTTACATTCATTTTAG
456 TGTTATCTCACTTCAGAACTTTACCCGTTATATCATTTAAATATCAATGGTTACATTCATTTTAG
13029103 ATCAATACCAATAATAATCTATAAATCTTTCAATTCAACCACATAAGTCTTTTACCGTTTCTTTC
521 ATCAATACCAATAATAATCTATAAATCTTTCAATTCAACCACATAAGTCTTTTACCGTTTCTTTC
13029168 TGTATCAAAGAACGACTTACGGATATGAGTACATCGTTTTCAGAAGTCCGAAGGCTGAACTTAAG
586 TGTATCAAAGAACGACTTACGGATATGAGTACATCGTTTTCAGAAGTCCGAAGGCTGAACTTAAG
13029233 CTCATGAGAGTTAAACATATTGTAAACACGAAATTCCACAACAAATGCTGAACCTCGGTTTACTT
651 CTCATGAGAGTTAAACATATTGTAAACACGAAATTCCACAACAAATGCTGAACCTCGGTTTACTT
*
13029298 GGGTAATTTGCCGTCAATTCATCCTTTATTTTTGTAATGCCATAACCCAGTTATTGTCTTATCCG
716 GGGTAATTTGCCGTCAATTCATCCTTTATTTTTGTAATGCCATAACCCAGTTATTGCCTTATCCG
13029363 TCAATTCA
781 TCAATTCA
13029371 TCATAAACATATCATTCAATCATAGTCACAAGCTAGTGCATTTAACTAAAGCCTTTTCCGAATTG
1 TCATAAACATATCATTCAATCATAGTCACAAGCTAGTGCATTTAACTAAAGCCTTTTCCGAATTG
13029436 ATCACATGATAAGTCATTTCATAAGAAATTGCATAATTTAAACCATACCACTTTTTCATGAACAC
66 ATCACATGATAAGTCATTTCATAAGAAATTGCATAATTTAAACCATACCACTTTTTCATGAACAC
13029501 TAGCATATTTTCCTTCAAATATTTATCAATTCAATGCTTCCATTAAATAATCATATTACTATTCA
131 TAGCATATTTTCCTTCAAATATTTATCAATTCAATGCTTCCATTAAATAATCATATTACTATTCA
* *
13029566 ACCAATAGCTTGCCACTTGCCTAAGCATCAAGCAACAACACTGGTTAGTGTACTAGCACACATTA
196 ACCAATAGCTTGCCACTTGCCTAAGCATCAAGCAACAACACTAGTTAATGTACTAGCACACATTA
*
13029631 CATATAAACTCATCATGCATAATTATCTTGTATCAACATATTAAAGATAATCATACATTTACATG
261 CATATAAACCCATCATGCATAATTATCTTGTATCAACATATTAAAGATAATCATACATTTACATG
* * *
13029696 TCATGATACATATCATTCTCTTATCGTTTCTTCATAGGTATATATCATTCATTTTATTATTTTAA
326 TCATGATACATATCATTCTCTTATCATTTCTTCATAGGTATATATCATTCATTTCATTATTTCAA
*
13029761 TATTTCATGTACCATCATTTTCATGAATTTCGCGTACATACCGGTAATAGTTCATTTCAAACTCA
391 TATTTCATGTACCATAATTTTCATGAATTTCGCGTACATACCGGTAATAGTTCATTTCAAACTCA
* * *
13029826 TGTTATCTCACTTCAGGACTTTACTCGTTATATCATTTAAATATCAATGGTTACATTTATTTTAG
456 TGTTATCTCACTTCAGAACTTTACCCGTTATATCATTTAAATATCAATGGTTACATTCATTTTAG
13029891 ATCAATACCAATAATAATCTATAAATCTTTCAATTCAACCACATAAGTCTTTTACCGTTTCTTTC
521 ATCAATACCAATAATAATCTATAAATCTTTCAATTCAACCACATAAGTCTTTTACCGTTTCTTTC
13029956 TGTATCAAAGAACGACTTACGGATATGAGTACATCGTTTTCAGAAGTCCGAAGGCTGAACTTAAG
586 TGTATCAAAGAACGACTTACGGATATGAGTACATCGTTTTCAGAAGTCCGAAGGCTGAACTTAAG
13030021 CTCATGAGAGTTAAACATATTGTAAACACGAAATTCCACAACAAATGCTGAACCTCGGTTTACTT
651 CTCATGAGAGTTAAACATATTGTAAACACGAAATTCCACAACAAATGCTGAACCTCGGTTTACTT
13030086 GGGTAATTTGCCGTCAATTCATCCTTTATTTTTGTAATGCCATAACCCAGTTATTGCCTTATCCG
716 GGGTAATTTGCCGTCAATTCATCCTTTATTTTTGTAATGCCATAACCCAGTTATTGCCTTATCCG
13030151 TCAATTCA
781 TCAATTCA
13030159 TC
1 TC
13030161 CTCTGGCACA
Statistics
Matches: 774, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
788 774 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.36
Consensus pattern (788 bp):
TCATAAACATATCATTCAATCATAGTCACAAGCTAGTGCATTTAACTAAAGCCTTTTCCGAATTG
ATCACATGATAAGTCATTTCATAAGAAATTGCATAATTTAAACCATACCACTTTTTCATGAACAC
TAGCATATTTTCCTTCAAATATTTATCAATTCAATGCTTCCATTAAATAATCATATTACTATTCA
ACCAATAGCTTGCCACTTGCCTAAGCATCAAGCAACAACACTAGTTAATGTACTAGCACACATTA
CATATAAACCCATCATGCATAATTATCTTGTATCAACATATTAAAGATAATCATACATTTACATG
TCATGATACATATCATTCTCTTATCATTTCTTCATAGGTATATATCATTCATTTCATTATTTCAA
TATTTCATGTACCATAATTTTCATGAATTTCGCGTACATACCGGTAATAGTTCATTTCAAACTCA
TGTTATCTCACTTCAGAACTTTACCCGTTATATCATTTAAATATCAATGGTTACATTCATTTTAG
ATCAATACCAATAATAATCTATAAATCTTTCAATTCAACCACATAAGTCTTTTACCGTTTCTTTC
TGTATCAAAGAACGACTTACGGATATGAGTACATCGTTTTCAGAAGTCCGAAGGCTGAACTTAAG
CTCATGAGAGTTAAACATATTGTAAACACGAAATTCCACAACAAATGCTGAACCTCGGTTTACTT
GGGTAATTTGCCGTCAATTCATCCTTTATTTTTGTAATGCCATAACCCAGTTATTGCCTTATCCG
TCAATTCA
Found at i:13033019 original size:46 final size:46
Alignment explanation
Indices: 13032953--13033094 Score: 196
Period size: 46 Copynumber: 3.1 Consensus size: 46
13032943 ATCCATGGCA
* *
13032953 AAGTT-TGAAACGTAGGTATGGTATTCCAGTGAAGAAAACCATACT
1 AAGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACT
* ** * *
13032998 AAGTTGTGAAAAGTATGTATGGTATTTTGGTAAAAAAAACCATACT
1 AAGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACT
*
13033044 GAGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACT
1 AAGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACT
*
13033090 GAGTT
1 AAGTT
13033095 ATAGCATTGT
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 5 0.06
46 78 0.94
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (46 bp):
AAGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACT
Found at i:13036819 original size:18 final size:19
Alignment explanation
Indices: 13036788--13036827 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
13036778 CCTCATATCC
* *
13036788 AATAATTCTTGAT-AAATG
1 AATAAGTCTCGATAAAATG
13036806 AATAAGTCTCGATAAAATG
1 AATAAGTCTCGATAAAATG
13036825 AAT
1 AAT
13036828 GAAGCTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (19 bp):
AATAAGTCTCGATAAAATG
Found at i:13037179 original size:24 final size:25
Alignment explanation
Indices: 13037141--13037188 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
13037131 TCCGGTGCTC
*
13037141 TCTGTTAAAGTGCTCTTTGGAGCTT
1 TCTGTTAAAGTGCTCTTCGGAGCTT
13037166 TCTGTT-AAGTGCTCTTCGGAGCT
1 TCTGTTAAAGTGCTCTTCGGAGCT
13037189 ACCCGATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.42
Consensus pattern (25 bp):
TCTGTTAAAGTGCTCTTCGGAGCTT
Found at i:13038986 original size:18 final size:17
Alignment explanation
Indices: 13038964--13039009 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
13038954 TATATAAATT
*
13038964 TAAAAATATATAATACA
1 TAAAAATATATAAAACA
*
13038981 TCAAAAATATAAAAAACA
1 T-AAAAATATATAAAACA
*
13038999 TTAAAATATAT
1 TAAAAATATAT
13039010 GTTTCATAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAAATATATAAAACA
Found at i:13039176 original size:22 final size:22
Alignment explanation
Indices: 13039151--13039192 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13039141 ATCTAAACAA
*
13039151 TAATAATAAAATAGTAGCAACG
1 TAATAATAAAATAATAGCAACG
* *
13039173 TAATAGTGAAATAATAGCAA
1 TAATAATAAAATAATAGCAA
13039193 AATAATGAAA
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:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (22 bp):
TAATAATAAAATAATAGCAACG
Found at i:13039198 original size:22 final size:22
Alignment explanation
Indices: 13039149--13039198 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
13039139 ATATCTAAAC
*
13039149 AATAATAATAAAATAGTAGCAA
1 AATAATAATAAAATAATAGCAA
** * *
13039171 CGTAATAGTGAAATAATAGCAA
1 AATAATAATAAAATAATAGCAA
13039193 AATAAT
1 AATAAT
13039199 GAAAACAACA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.24
Consensus pattern (22 bp):
AATAATAATAAAATAATAGCAA
Found at i:13044516 original size:167 final size:167
Alignment explanation
Indices: 13044235--13044720 Score: 947
Period size: 167 Copynumber: 2.9 Consensus size: 167
13044225 CATAAAATAT
*
13044235 ATAATGAATTATGAACAATCTAAGTTCATTTAAAAGTAATTTAAAAAAATGTTGCTATTTAAGGG
1 ATAACGAATTATGAACAATCTAAGTTCATTTAAAAGTAATTTAAAAAAATGTTGCTATTTAAGGG
13044300 ATCGAAATTTATTAATCAAATAAAAATATGGAAATTAAAAGGTTCCAAAATTCATAACGAGATGG
66 ATCGAAATTTATTAATCAAATAAAAATATGGAAATTAAAAGGTTCCAAAATTCATAACGAGATGG
13044365 GAGTTAGTCCATATCAATTTAAAA-GTTCCAAAATTTC
131 GAGTTAGTCCATATCAATTTAAAAGGTTCCAAAA-TTC
13044402 ATAACGAATTATGAACAATCTAAGTTCATTTAAAAGTAATTTAAAAAAATGTTGCTATTTAAGGG
1 ATAACGAATTATGAACAATCTAAGTTCATTTAAAAGTAATTTAAAAAAATGTTGCTATTTAAGGG
13044467 ATCGAAATTTATTAATCAAATAAAAATATGGAAATTAAAAGGTTCCAAAATTCATAACGAGATGG
66 ATCGAAATTTATTAATCAAATAAAAATATGGAAATTAAAAGGTTCCAAAATTCATAACGAGATGG
13044532 GAGTTAGTCCATATCAATTTAAAAGGTTCCAAAATTC
131 GAGTTAGTCCATATCAATTTAAAAGGTTCCAAAATTC
13044569 ATAACGAATTATGAACAATCTAAGTTCATTTAAAAGTAATTTAAAAAAATGTTGCTATTTAAGGG
1 ATAACGAATTATGAACAATCTAAGTTCATTTAAAAGTAATTTAAAAAAATGTTGCTATTTAAGGG
13044634 ATCGAAATTTATTAATCAAATAAAAATATGGAAATTAAAAGGTTCCAAAATTCATAACGAGATGG
66 ATCGAAATTTATTAATCAAATAAAAATATGGAAATTAAAAGGTTCCAAAATTCATAACGAGATGG
13044699 GAGTTAGTCCATATCAATTTAA
131 GAGTTAGTCCATATCAATTTAA
13044721 GTTAGGGGAC
Statistics
Matches: 317, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
167 308 0.97
168 9 0.03
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.32
Consensus pattern (167 bp):
ATAACGAATTATGAACAATCTAAGTTCATTTAAAAGTAATTTAAAAAAATGTTGCTATTTAAGGG
ATCGAAATTTATTAATCAAATAAAAATATGGAAATTAAAAGGTTCCAAAATTCATAACGAGATGG
GAGTTAGTCCATATCAATTTAAAAGGTTCCAAAATTC
Found at i:13053619 original size:30 final size:30
Alignment explanation
Indices: 13053585--13053641 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13053575 GTGGTGGGCT
*
13053585 GATGATA-GCTATGGTGAGGAGGGGAGGTTG
1 GATGATATGC-ATGATGAGGAGGGGAGGTTG
*
13053615 GATGATATGCATGATGAGGTGGGGAGG
1 GATGATATGCATGATGAGGAGGGGAGG
13053642 GGGAACTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.25, C:0.04, G:0.49, T:0.23
Consensus pattern (30 bp):
GATGATATGCATGATGAGGAGGGGAGGTTG
Found at i:13057985 original size:3 final size:3
Alignment explanation
Indices: 13057979--13058004 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13057969 AAAATAAAAA
13057979 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
13058005 AAGCAGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13061601 original size:40 final size:41
Alignment explanation
Indices: 13061528--13061607 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
13061518 ATATATGAGC
* * *
13061528 TTAAATTATTGATTTTTTTATTAATTTGTTGCATATAAATTA
1 TTAAATTATT-ATATTTTTATTAATTTGATGCATAAAAATTA
13061570 TTAAATTATT-TATTTTTATTAATTAT-ATGCATAAAAAT
1 TTAAATTATTATATTTTTATTAATT-TGATGCATAAAAAT
13061608 GGTTGAATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 23 0.68
41 1 0.03
42 10 0.29
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (41 bp):
TTAAATTATTATATTTTTATTAATTTGATGCATAAAAATTA
Found at i:13061808 original size:24 final size:24
Alignment explanation
Indices: 13061780--13061831 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
13061770 TTTCTAGAAG
* *
13061780 ATTTAATATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
* *
13061804 ATTTAGCATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
13061828 ATTT
1 ATTT
13061832 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:13062881 original size:19 final size:19
Alignment explanation
Indices: 13062857--13062905 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
13062847 ACAGAACAAT
*
13062857 ATCAAAAGGGAGGCTGTGA
1 ATCAAAAGGGAGGCTGCGA
*
13062876 ATCAAAAGGGAGGTTGCGA
1 ATCAAAAGGGAGGCTGCGA
13062895 ATCAAAAGGGA
1 ATCAAAAGGGA
13062906 AAACAACCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.41, C:0.10, G:0.35, T:0.14
Consensus pattern (19 bp):
ATCAAAAGGGAGGCTGCGA
Found at i:13070770 original size:18 final size:18
Alignment explanation
Indices: 13070735--13070774 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
13070725 GAAATATTTA
*
13070735 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
13070753 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
13070773 TT
1 TT
13070775 AAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:13072215 original size:30 final size:31
Alignment explanation
Indices: 13072148--13072216 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
13072138 ACTGTTAATC
*
13072148 AGTGACTGTTTTGTCACTTTCTTATAACGTT
1 AGTGACTGTTTTGTCACTTTCTTATAAAGTT
* *
13072179 AGTGACTGTTTTGTTA-TTTTTTA-AAAGTT
1 AGTGACTGTTTTGTCACTTTCTTATAAAGTT
13072208 GAGTGACTG
1 -AGTGACTG
13072217 AAATAAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
31 15 0.44
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTCTTATAAAGTT
Found at i:13073675 original size:8 final size:8
Alignment explanation
Indices: 13073667--13073695 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13073657 ATTATATTAT
13073667 TTTAAT-A
1 TTTAATAA
13073674 TTTAATAA
1 TTTAATAA
13073682 TTTAATAA
1 TTTAATAA
13073690 TTTAAT
1 TTTAAT
13073696 TTATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TTTAATAA
Found at i:13077044 original size:62 final size:62
Alignment explanation
Indices: 13076968--13077093 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
13076958 ATTGATCTCC
*
13076968 TTCAAGCAACCTGTTCAAATTAAAGCTTTAGCATACCTTTTTGTTGTGACAAGAATAAATCA
1 TTCAAGCAACCTGTTCAAATTAAAGCTTTAGCATACCCTTTTGTTGTGACAAGAATAAATCA
* *
13077030 TTCAAGCAACCTGTTTAAATTAAAGCTTTAGCATACCCTTTTGTTGTGACAAGAGTAAATCA
1 TTCAAGCAACCTGTTCAAATTAAAGCTTTAGCATACCCTTTTGTTGTGACAAGAATAAATCA
13077092 TT
1 TT
13077094 TTAGATACTC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.35
Consensus pattern (62 bp):
TTCAAGCAACCTGTTCAAATTAAAGCTTTAGCATACCCTTTTGTTGTGACAAGAATAAATCA
Found at i:13079428 original size:57 final size:57
Alignment explanation
Indices: 13079340--13079458 Score: 238
Period size: 57 Copynumber: 2.1 Consensus size: 57
13079330 TTTGGGTGAT
13079340 CCAACATGGGTCGGGCCGACCAGGTCCACCACCTGGCCCACCTCAGTTCTTAGGGAA
1 CCAACATGGGTCGGGCCGACCAGGTCCACCACCTGGCCCACCTCAGTTCTTAGGGAA
13079397 CCAACATGGGTCGGGCCGACCAGGTCCACCACCTGGCCCACCTCAGTTCTTAGGGAA
1 CCAACATGGGTCGGGCCGACCAGGTCCACCACCTGGCCCACCTCAGTTCTTAGGGAA
13079454 CCAAC
1 CCAAC
13079459 CTGGTTCCAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.22, C:0.38, G:0.25, T:0.15
Consensus pattern (57 bp):
CCAACATGGGTCGGGCCGACCAGGTCCACCACCTGGCCCACCTCAGTTCTTAGGGAA
Found at i:13092064 original size:21 final size:21
Alignment explanation
Indices: 13092016--13092071 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
13092006 AACAGTAGTG
* *
13092016 GCGGTGAGATTAGTTATTGTA
1 GCGGTGAGATTAGATACTGTA
** *
13092037 GTAGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
13092058 GCGGTGAAATTAGA
1 GCGGTGAGATTAGA
13092072 AACAACGGTG
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.05, G:0.34, T:0.32
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:13103385 original size:22 final size:22
Alignment explanation
Indices: 13103343--13103396 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 22
13103333 ACCGCTCTCC
* *
13103343 CATCCCTCTCCCTCTTCCCCAT
1 CATCCCTCTCCCCCTACCCCAT
*
13103365 CATCCCTC-CCCCCTACTCC--
1 CATCCCTCTCCCCCTACCCCAT
13103384 CA-CCCTCTCCCCC
1 CATCCCTCTCCCCC
13103397 ACCGTCCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.18
19 7 0.25
21 8 0.29
22 8 0.29
ACGTcount: A:0.09, C:0.67, G:0.00, T:0.24
Consensus pattern (22 bp):
CATCCCTCTCCCCCTACCCCAT
Found at i:13104069 original size:40 final size:40
Alignment explanation
Indices: 13104020--13104125 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 40
13104010 AGTTAGCAGA
**
13104020 GGGAAAGGGACGGTGGGGGAGAGGGAGAGGGTCAGAGTAG
1 GGGAAAGGGACGGTGGGGGAGAGGGAGAGAATCAGAGTAG
* *
13104060 GGGACAGGGACGGTGGGGGAGAGGGAGAGAATCGGAGTAG
1 GGGAAAGGGACGGTGGGGGAGAGGGAGAGAATCAGAGTAG
** * *
13104100 GGGGGAGGGATGGT-GGGAAGAGGGAG
1 GGGAAAGGGACGGTGGGGGAGAGGGAG
13104126 CGGTGGGGGA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 11 0.19
40 47 0.81
ACGTcount: A:0.26, C:0.05, G:0.61, T:0.08
Consensus pattern (40 bp):
GGGAAAGGGACGGTGGGGGAGAGGGAGAGAATCAGAGTAG
Found at i:13104130 original size:56 final size:57
Alignment explanation
Indices: 13104065--13104182 Score: 159
Period size: 56 Copynumber: 2.1 Consensus size: 57
13104055 AGTAGGGGAC
* ** *
13104065 AGGGA-CGGTGGGGGAGAGGGAGAGAATCGGAGTAGGGGGGAGGGATGGT-GGGAAG
1 AGGGAGCGGTGGGGGAGAGGGAGAGAATCAGAGTAGGGGACAGGGACGGTGGGGAAG
** *
13104120 AGGGAGCGGTGGGGGAGAGGGAGAGGGTCAGAGTAGGGGACAGGGACGGTGGGGGAG
1 AGGGAGCGGTGGGGGAGAGGGAGAGAATCAGAGTAGGGGACAGGGACGGTGGGGAAG
13104177 AGGGAG
1 AGGGAG
13104183 AGAATCGGAG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 5 0.09
56 38 0.70
57 11 0.20
ACGTcount: A:0.25, C:0.05, G:0.63, T:0.08
Consensus pattern (57 bp):
AGGGAGCGGTGGGGGAGAGGGAGAGAATCAGAGTAGGGGACAGGGACGGTGGGGAAG
Found at i:13104139 original size:96 final size:97
Alignment explanation
Indices: 13104020--13104222 Score: 385
Period size: 96 Copynumber: 2.1 Consensus size: 97
13104010 AGTTAGCAGA
13104020 GGGAA-AGGGA-CGGTGGGGGAGAGGGAGAGGGTCAGAGTAGGGGACAGGGACGGTGGGGGAGAG
1 GGGAAGAGGGAGCGGTGGGGGAGAGGGAGAGGGTCAGAGTAGGGGACAGGGACGGTGGGGGAGAG
13104083 GGAGAGAATCGGAGTAGGGGGGAGGGATGGT-
66 GGAGAGAATCGGAGTAGGGGGGAGGGATGGTG
13104114 GGGAAGAGGGAGCGGTGGGGGAGAGGGAGAGGGTCAGAGTAGGGGACAGGGACGGTGGGGGAGAG
1 GGGAAGAGGGAGCGGTGGGGGAGAGGGAGAGGGTCAGAGTAGGGGACAGGGACGGTGGGGGAGAG
13104179 GGAGAGAATCGGAGTAGGGGGGAGGGATGGTG
66 GGAGAGAATCGGAGTAGGGGGGAGGGATGGTG
13104211 GGGAAGAGGGAG
1 GGGAAGAGGGAG
13104223 AGGGATGGGA
Statistics
Matches: 106, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
94 5 0.05
95 5 0.05
96 84 0.79
97 12 0.11
ACGTcount: A:0.26, C:0.05, G:0.62, T:0.08
Consensus pattern (97 bp):
GGGAAGAGGGAGCGGTGGGGGAGAGGGAGAGGGTCAGAGTAGGGGACAGGGACGGTGGGGGAGAG
GGAGAGAATCGGAGTAGGGGGGAGGGATGGTG
Found at i:13104170 original size:40 final size:40
Alignment explanation
Indices: 13104120--13104226 Score: 142
Period size: 40 Copynumber: 2.6 Consensus size: 40
13104110 TGGTGGGAAG
13104120 AGGGAGCGGTGGGGGAGAGGGAGAGGGTCAGAGTAGGGGAC
1 AGGGA-CGGTGGGGGAGAGGGAGAGGGTCAGAGTAGGGGAC
** * **
13104161 AGGGACGGTGGGGGAGAGGGAGAGAATCGGAGTAGGGGGG
1 AGGGACGGTGGGGGAGAGGGAGAGGGTCAGAGTAGGGGAC
* *
13104201 AGGGATGGTGGGGAAGAGGGAGAGGG
1 AGGGACGGTGGGGGAGAGGGAGAGGG
13104227 ATGGGAGAGC
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
40 52 0.91
41 5 0.09
ACGTcount: A:0.25, C:0.05, G:0.63, T:0.07
Consensus pattern (40 bp):
AGGGACGGTGGGGGAGAGGGAGAGGGTCAGAGTAGGGGAC
Found at i:13111873 original size:60 final size:60
Alignment explanation
Indices: 13111805--13111925 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
13111795 TGGTGAAGTC
13111805 TGAAAGAGCTACTGCTTCCTGGTTCGCTGATTATCTTAAAGGCAATGACAAGGATGGCAA
1 TGAAAGAGCTACTGCTTCCTGGTTCGCTGATTATCTTAAAGGCAATGACAAGGATGGCAA
13111865 TGAAAGAGCTACTGCTTCCTGGTTCGCTGATTATCTTAAAGGCAATGACAAGGATGGCAA
1 TGAAAGAGCTACTGCTTCCTGGTTCGCTGATTATCTTAAAGGCAATGACAAGGATGGCAA
13111925 T
1 T
13111926 TCAGAAAAGC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (60 bp):
TGAAAGAGCTACTGCTTCCTGGTTCGCTGATTATCTTAAAGGCAATGACAAGGATGGCAA
Found at i:13111981 original size:15 final size:16
Alignment explanation
Indices: 13111961--13111994 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
13111951 AACATCAGGA
13111961 GCAAGGAAAGCTAT-T
1 GCAAGGAAAGCTATCT
13111976 GCAAGGAAAGCTATCT
1 GCAAGGAAAGCTATCT
13111992 GCA
1 GCA
13111995 GATCTAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (16 bp):
GCAAGGAAAGCTATCT
Found at i:13115401 original size:3 final size:3
Alignment explanation
Indices: 13115393--13115447 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
13115383 TGCATTATAT
13115393 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13115441 ATA ATA A
1 ATA ATA A
13115448 ACCATCATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13115711 original size:17 final size:17
Alignment explanation
Indices: 13115689--13115749 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
13115679 ATTGAATTAC
13115689 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
13115706 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
13115726 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
13115743 TACATAA
1 TACATAA
13115750 GACTTTAGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:13115728 original size:37 final size:37
Alignment explanation
Indices: 13115680--13115755 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
13115670 ATTAACCGAA
* *
13115680 TTGAATTACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGACT
13115717 TTGAATCACTACATAATTAAAAACATTACATAAGACT
1 TTGAATCACTACATAATTAAAAACATTACATAAGACT
13115754 TT
1 TT
13115756 AGTTTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.34
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGACT
Found at i:13118879 original size:21 final size:21
Alignment explanation
Indices: 13118818--13118879 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
13118808 TGGAAGTGTA
* **
13118818 TCCTCAATTTCCTCTACAACC
1 TCCTCAGTTTCCTCTACCTCC
13118839 TCCTCAGTTTCCTCTACCTCC
1 TCCTCAGTTTCCTCTACCTCC
*
13118860 TCCTCAGTTTCCTCTGCCTC
1 TCCTCAGTTTCCTCTACCTC
13118880 ATACCACAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.13, C:0.45, G:0.05, T:0.37
Consensus pattern (21 bp):
TCCTCAGTTTCCTCTACCTCC
Found at i:13128429 original size:8 final size:8
Alignment explanation
Indices: 13128416--13128440 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13128406 GAAGTGATTA
13128416 TTGAAAAT
1 TTGAAAAT
13128424 TTGAAAAT
1 TTGAAAAT
13128432 TTGAAAAT
1 TTGAAAAT
13128440 T
1 T
13128441 GAATCTCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (8 bp):
TTGAAAAT
Found at i:13128830 original size:19 final size:18
Alignment explanation
Indices: 13128790--13129242 Score: 98
Period size: 18 Copynumber: 23.8 Consensus size: 18
13128780 AAAATAATAA
13128790 TTTTTGAAAACACGA-AGA-
1 TTTTTG-AAACACGAGA-AT
13128808 TTTTTGAAACACGAGAAT
1 TTTTTGAAACACGAGAAT
13128826 TTTTTGAAAACACGAGAAT
1 TTTTTG-AAACACGAGAAT
* *
13128845 TTTTTGAAACCCGGAAAACATGAAA
1 TTTTTGAAACAC-G-----A-GAAT
* *
13128870 ATTTTGAAAACACGA-AAA
1 TTTTTG-AAACACGAGAAT
*
13128888 TTTTTGAAACACGAGTAT
1 TTTTTGAAACACGAGAAT
*
13128906 TTTTATG--ACACGA-AAA
1 TTTT-TGAAACACGAGAAT
*
13128922 ATTTTGAAAACACGA-AA-
1 TTTTTG-AAACACGAGAAT
* * * ***
13128939 ATTTCGAAAACATGTATTTT
1 TTTTTG-AAACACG-AGAAT
*
13128959 TTTTTAAAAACACGA-AATT
1 TTTTT-GAAACACGAGAA-T
*
13128978 TTTTTAAAAACACGAGAATTT
1 TTTTT-GAAACACGAGAA--T
*
13128999 TTTTTGAAAACACGAAAACATGAAA
1 TTTTTG-AAACACG-----A-GAAT
* *
13129024 ATTTTGAAAACACGA-AAA
1 TTTTTG-AAACACGAGAAT
13129042 TTTTTGAAACACGAGAAT
1 TTTTTGAAACACGAGAAT
*
13129060 TTTTATG--ACACGA-AAA
1 TTTT-TGAAACACGAGAAT
*
13129076 ATTTTGAAAACACGA-AA-
1 TTTTTG-AAACACGAGAAT
* *
13129093 ATTTCGAAA-AC-ATGAAT
1 TTTTTGAAACACGA-GAAT
* * *
13129110 TTTTTAAAACATGA-ATTT
1 TTTTTGAAACACGAGA-AT
*
13129128 TTTTTAAAACACGAGAATTT
1 TTTTTGAAACACGAGAA--T
*
13129148 TTTTTGAAAACACGAAAACATGAAA
1 TTTTTG-AAACACG-----A-GAAT
* *
13129173 ATTTTGAAAACACGA-AAA
1 TTTTTG-AAACACGAGAAT
* *
13129191 TATTTGAAACACGAAAAT
1 TTTTTGAAACACGAGAAT
13129209 TTTTTGAAAACACGAGAAT
1 TTTTTG-AAACACGAGAAT
13129228 TTTTTGAAAACACGA
1 TTTTTG-AAACACGA
13129243 AAACATTAAA
Statistics
Matches: 339, Mismatches: 43, Indels: 105
0.70 0.09 0.22
Matches are distributed among these distances:
14 1 0.00
15 6 0.02
16 14 0.04
17 69 0.20
18 91 0.27
19 68 0.20
20 20 0.06
21 21 0.06
24 1 0.00
25 35 0.10
26 7 0.02
27 6 0.02
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (18 bp):
TTTTTGAAACACGAGAAT
Found at i:13128980 original size:21 final size:20
Alignment explanation
Indices: 13128956--13129015 Score: 95
Period size: 19 Copynumber: 3.0 Consensus size: 20
13128946 AAACATGTAT
13128956 TTTTTTTTAAAAACACGAAA
1 TTTTTTTTAAAAACACGAAA
13128976 -TTTTTTTAAAAACACGAGAA
1 TTTTTTTTAAAAACACGA-AA
*
13128996 TTTTTTTTGAAAACACGAAA
1 TTTTTTTTAAAAACACGAAA
13129016 ACATGAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 17 0.46
20 4 0.11
21 16 0.43
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.38
Consensus pattern (20 bp):
TTTTTTTTAAAAACACGAAA
Found at i:13129040 original size:154 final size:150
Alignment explanation
Indices: 13128808--13129245 Score: 645
Period size: 154 Copynumber: 2.9 Consensus size: 150
13128798 AACACGAAGA
* * *
13128808 TTTTTGAAACACGAGAA-TTTTTTGAAAACACGAGAA--TTTTTTG-AAACCCGGAAAACATGAA
1 TTTTTAAAACACGA-AATTTTTTTAAAAACACGAGAATTTTTTTTGAAAACAC-GAAAACATGAA
*
13128869 AATTTTGAAAACACGAAAATTTTTGAAACACGAGTATTTTTATGACACGAAAAATTTTGAAAACA
64 AATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTATGACACGAAAAATTTTGAAAACA
*
13128934 CGAAAATTTCGAAAACATGTATTTT
129 CGAAAATTTCGAAAACATG-A--AT
13128959 TTTTTAAAAACACGAAATTTTTTTAAAAACACGAGAATTTTTTTTGAAAACACGAAAACATGAAA
1 TTTTT-AAAACACGAAATTTTTTTAAAAACACGAGAATTTTTTTTGAAAACACGAAAACATGAAA
13129024 ATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTATGACACGAAAAATTTTGAAAACAC
65 ATTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTATGACACGAAAAATTTTGAAAACAC
13129089 GAAAATTTCGAAAACATGAAT
130 GAAAATTTCGAAAACATGAAT
* *
13129110 TTTTTAAAACATG-AATTTTTTTTAAAACACGAGAATTTTTTTTGAAAACACGAAAACATGAAAA
1 TTTTTAAAACACGAAATTTTTTTAAAAACACGAGAATTTTTTTTGAAAACACGAAAACATGAAAA
* * **
13129174 TTTTGAAAACACGAAAATATTTGAAACACGAAAATTTTT-TGAAAACACGAGAATTTTTTGAAAA
66 TTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTATG---ACACGA-AAAATTTTGAAAA
13129238 CACGAAAA
127 CACGAAAA
13129246 CATTAAAATT
Statistics
Matches: 267, Mismatches: 11, Indels: 17
0.91 0.04 0.06
Matches are distributed among these distances:
148 2 0.01
149 87 0.33
150 7 0.03
151 19 0.07
152 45 0.17
153 1 0.00
154 101 0.38
155 5 0.02
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (150 bp):
TTTTTAAAACACGAAATTTTTTTAAAAACACGAGAATTTTTTTTGAAAACACGAAAACATGAAAA
TTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTATGACACGAAAAATTTTGAAAACACG
AAAATTTCGAAAACATGAAT
Found at i:13129128 original size:15 final size:16
Alignment explanation
Indices: 13129099--13129130 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13129089 GAAAATTTCG
13129099 AAAACATGAATTTTTT
1 AAAACATGAATTTTTT
13129115 AAAACATGAATTTTTT
1 AAAACATGAATTTTTT
13129131 TTAAAACACG
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:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
AAAACATGAATTTTTT
Found at i:13129277 original size:18 final size:18
Alignment explanation
Indices: 13128788--13129330 Score: 261
Period size: 17 Copynumber: 28.7 Consensus size: 18
13128778 ACAAAATAAT
13128788 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
13128806 GATTTTTG-AAACACGAGA
1 AATTTTTGAAAACACGA-A
*
13128824 ATTTTTTGAAAACACGAGA
1 AATTTTTGAAAACACGA-A
* *
13128843 ATTTTTTG-AAACCCGGAAA
1 AATTTTTGAAAACAC-G-AA
13128862 ACATGAAAATTTTGAAAACACGAA
1 A-AT-----TTTTGAAAACACGAA
*
13128886 AATTTTTG-AAACACGAG
1 AATTTTTGAAAACACGAA
* **
13128903 TATTTTT-ATGACACGAA
1 AATTTTTGAAAACACGAA
*
13128920 AAATTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
* * *
13128938 AA-TTTCGAAAACATGTATT
1 AATTTTTGAAAACACG-A-A
** *
13128957 TTTTTTTAAAAACACGAA
1 AATTTTTGAAAACACGAA
* *
13128975 ATTTTTTTAAAAACACGAGA
1 A-ATTTTTGAAAACACGA-A
*
13128995 ATTTTTTTTGAAAACACGAAA
1 A--ATTTTTGAAAACACG-AA
13129016 ACATGAAAATTTTGAAAACACGAA
1 A-AT-----TTTTGAAAACACGAA
*
13129040 AATTTTTG-AAACACGAG
1 AATTTTTGAAAACACGAA
**
13129057 AATTTTT-ATGACACGAA
1 AATTTTTGAAAACACGAA
*
13129074 AAATTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
* *
13129092 AA-TTTCGAAAACATG--
1 AATTTTTGAAAACACGAA
* *
13129107 AATTTTTTAAAACATGAA
1 AATTTTTGAAAACACGAA
** *
13129125 TTTTTTTTAAAACACGAGA
1 AATTTTTGAAAACACGA-A
*
13129144 ATTTTTTTTGAAAACACGAAA
1 A--ATTTTTGAAAACACG-AA
13129165 ACATGAAAATTTTGAAAACACGAA
1 A-AT-----TTTTGAAAACACGAA
*
13129189 AATATTTG-AAACACGAA
1 AATTTTTGAAAACACGAA
13129206 AATTTTTTGAAAACACGAGA
1 AA-TTTTTGAAAACACGA-A
*
13129226 ATTTTTTGAAAACACGAAA
1 AATTTTTGAAAACACG-AA
13129245 ACATTAAAATTTTGAAAACACGAA
1 A-A-T----TTTTGAAAACACGAA
13129269 AATTTTTG-AAACAC-AA
1 AATTTTTGAAAACACGAA
* *
13129285 AAATTTT-AAAACACTAA
1 AATTTTTGAAAACACGAA
* *
13129302 CATTTGTG-AAACACGAA
1 AATTTTTGAAAACACGAA
* *
13129319 AACTCTTGAAAA
1 AATTTTTGAAAA
13129331 TGTTAAAAGT
Statistics
Matches: 413, Mismatches: 59, Indels: 106
0.71 0.10 0.18
Matches are distributed among these distances:
15 2 0.00
16 25 0.06
17 117 0.28
18 81 0.20
19 63 0.15
20 19 0.05
21 34 0.08
22 3 0.01
23 7 0.02
24 12 0.03
25 45 0.11
26 5 0.01
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:13129296 original size:33 final size:34
Alignment explanation
Indices: 13129250--13129330 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 34
13129240 CGAAAACATT
*
13129250 AAAATTTTGAAAACACGAAAATTTTTGAAACACA
1 AAAATTTTGAAAACACGAAAATTTGTGAAACACA
* *
13129284 AAAATTTT-AAAACACTAACATTTGTGAAACACGA
1 AAAATTTTGAAAACACGAAAATTTGTGAAACAC-A
* *
13129318 AAACTCTTGAAAA
1 AAAATTTTGAAAA
13129331 TGTTAAAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
33 21 0.52
34 15 0.38
35 4 0.10
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.26
Consensus pattern (34 bp):
AAAATTTTGAAAACACGAAAATTTGTGAAACACA
Found at i:13129773 original size:21 final size:20
Alignment explanation
Indices: 13129744--13129802 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
13129734 AAAAACTATT
*
13129744 TAAA-AATACTAAATTTAAT
1 TAAATAATACTAAATTTAAA
13129763 TGAAATAATAC-AATATTTAAA
1 T-AAATAATACTAA-ATTTAAA
*
13129784 TAAATGA-ACTAAATTTAAA
1 TAAATAATACTAAATTTAAA
13129803 AATTTATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 10 0.29
20 12 0.35
21 12 0.35
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
TAAATAATACTAAATTTAAA
Found at i:13130026 original size:18 final size:18
Alignment explanation
Indices: 13130000--13130046 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
13129990 GGGCCTGCTT
*
13130000 TGTTCTTTTTTGCTATTC
1 TGTTTTTTTTTGCTATTC
* *
13130018 TGTTTTTTTTTTGCTGTTT
1 TG-TTTTTTTTTGCTATTC
13130037 TGTTTTTTTT
1 TGTTTTTTTT
13130047 GGGCGTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.02, C:0.09, G:0.13, T:0.77
Consensus pattern (18 bp):
TGTTTTTTTTTGCTATTC
Found at i:13130029 original size:19 final size:19
Alignment explanation
Indices: 13130005--13130046 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
13129995 TGCTTTGTTC
13130005 TTTTTTGCTATTCTGTTTT
1 TTTTTTGCTATTCTGTTTT
* *
13130024 TTTTTTGCTGTTTTGTTTT
1 TTTTTTGCTATTCTGTTTT
13130043 TTTT
1 TTTT
13130047 GGGCGTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.02, C:0.07, G:0.12, T:0.79
Consensus pattern (19 bp):
TTTTTTGCTATTCTGTTTT
Found at i:13130054 original size:18 final size:19
Alignment explanation
Indices: 13129987--13130067 Score: 78
Period size: 18 Copynumber: 4.3 Consensus size: 19
13129977 CTGGGCTTGG
*
13129987 TTTGGGCCTGCTTTGTTCTTT
1 TTTGGG-CTGTTTTGTT-TTT
* *
13130008 TTT--GCTATTCTGTTTTT
1 TTTGGGCTGTTTTGTTTTT
**
13130025 TTTTTGCTGTTTTGTTTTT
1 TTTGGGCTGTTTTGTTTTT
13130044 TTTGGGC-GTTTTGTTTTT
1 TTTGGGCTGTTTTGTTTTT
13130062 TTTGGG
1 TTTGGG
13130068 GGGCTGCTGG
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
17 6 0.12
18 24 0.47
19 18 0.35
21 3 0.06
ACGTcount: A:0.01, C:0.10, G:0.22, T:0.67
Consensus pattern (19 bp):
TTTGGGCTGTTTTGTTTTT
Found at i:13130192 original size:11 final size:11
Alignment explanation
Indices: 13130145--13130205 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
13130135 AAAAAATATA
13130145 TTTTTTCTT-T
1 TTTTTTCTTCT
*
13130155 TTTTTTCCTTCC
1 TTTTTT-CTTCT
*
13130167 TTTCTTC-TCT
1 TTTTTTCTTCT
*
13130177 CTTTTTCTTCT
1 TTTTTTCTTCT
*
13130188 TTTTTTCTTCC
1 TTTTTTCTTCT
13130199 TTTTTTC
1 TTTTTTC
13130206 CTTCCTCTTC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
10 13 0.32
11 23 0.56
12 5 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTTCTTCT
Found at i:13130878 original size:60 final size:60
Alignment explanation
Indices: 13130806--13130961 Score: 160
Period size: 59 Copynumber: 2.6 Consensus size: 60
13130796 AAATATGGGC
* *
13130806 CAAAATGTAATTTCTTGAG-AGTTTAGGGGTCAAAGTGT-AATTTTGAGAAAA-TCTAAGGGT
1 CAAAATGTAATTT-TTAAGAAGTTTAGGGGTCAAAATGTAAATTTT-AGAAAAGT-TAAGGGT
* **
13130866 CAAAATGTAA-TTTTAAGAAGTTTTGGGGTCAAAATGTAAATTTTAGAAAAGTTTGGGGT
1 CAAAATGTAATTTTTAAGAAGTTTAGGGGTCAAAATGTAAATTTTAGAAAAGTTAAGGGT
* ** *
13130925 CAAAATGTATATTTTGAA-AAGTACAGGGGTTAAAATG
1 CAAAATGTA-ATTTTTAAGAAGTTTAGGGGTCAAAATG
13130962 CAAAAAATAA
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
58 4 0.05
59 39 0.48
60 33 0.41
61 5 0.06
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (60 bp):
CAAAATGTAATTTTTAAGAAGTTTAGGGGTCAAAATGTAAATTTTAGAAAAGTTAAGGGT
Found at i:13130897 original size:59 final size:56
Alignment explanation
Indices: 13130765--13130939 Score: 165
Period size: 59 Copynumber: 3.0 Consensus size: 56
13130755 ATGGGATGCA
* * * *
13130765 AAGTTTCTGGGG-CAAAAGCGTAATTTTAGCAAAA-TATGGGCCAAAATGTAATTTCTTG
1 AAGTTT-TGGGGTC-AAAGTGTAATTTTAG-AAAATTAAGGGTCAAAATGTAATTT-TAG
*
13130823 AGAGTTTAGGGGTCAAAGTGTAATTTTGAGAAAATCTAAGGGTCAAAATGTAATTTTAAG
1 A-AGTTTTGGGGTCAAAGTGTAATTTT-AGAAAAT-TAAGGGTCAAAATGTAATTTT-AG
* **
13130883 AAGTTTTGGGGTCAAAATGTAAATTTTAGAAAAGTTTGGGGTCAAAATGTATATTTT
1 AAGTTTTGGGGTCAAAGTGT-AATTTTAGAAAA-TTAAGGGTCAAAATGTA-ATTTT
13130940 GAAAAGTACA
Statistics
Matches: 99, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
58 21 0.21
59 46 0.46
60 32 0.32
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (56 bp):
AAGTTTTGGGGTCAAAGTGTAATTTTAGAAAATTAAGGGTCAAAATGTAATTTTAG
Found at i:13130908 original size:30 final size:30
Alignment explanation
Indices: 13130825--13130946 Score: 128
Period size: 30 Copynumber: 4.1 Consensus size: 30
13130815 ATTTCTTGAG
*
13130825 AGTTTAGGGGTCAAAGTGT-AATTTTGAGAAA
1 AGTTT-GGGGTCAAAATGTAAATTTT-AGAAA
** *
13130856 A-TCTAAGGGTCAAAATGT-AATTTTA-AGA
1 AGT-TTGGGGTCAAAATGTAAATTTTAGAAA
13130884 AGTTTTGGGGTCAAAATGTAAATTTTAGAAA
1 AG-TTTGGGGTCAAAATGTAAATTTTAGAAA
*
13130915 AGTTTGGGGTCAAAATGTATATTTT-GAAA
1 AGTTTGGGGTCAAAATGTAAATTTTAGAAA
13130944 AGT
1 AGT
13130947 ACAGGGGTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
28 3 0.04
29 21 0.27
30 48 0.62
31 6 0.08
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (30 bp):
AGTTTGGGGTCAAAATGTAAATTTTAGAAA
Found at i:13130954 original size:30 final size:28
Alignment explanation
Indices: 13130830--13130961 Score: 113
Period size: 30 Copynumber: 4.5 Consensus size: 28
13130820 TTGAGAGTTT
* *
13130830 AGGGGTCAAAGTGTAATTTTGAGAAAATC
1 AGGGGTCAAAATGTAATTTTGA-AAAGTC
* *
13130859 TAAGGGTCAAAATGTAATTTT-AAGAAGTTT
1 -AGGGGTCAAAATGTAATTTTGAA-AAG-TC
* *
13130889 TGGGGTCAAAATGTAAATTTTAGAAAAGTT
1 AGGGGTCAAAATGT-AATTTT-GAAAAGTC
*
13130919 TGGGGTCAAAATGTATATTTTGAAAAGTAC
1 AGGGGTCAAAATGTA-ATTTTGAAAAGT-C
*
13130949 AGGGGTTAAAATG
1 AGGGGTCAAAATG
13130962 CAAAAAATAA
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.01
29 23 0.27
30 57 0.66
31 3 0.03
32 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.32
Consensus pattern (28 bp):
AGGGGTCAAAATGTAATTTTGAAAAGTC
Found at i:13131921 original size:78 final size:78
Alignment explanation
Indices: 13131232--13131913 Score: 1303
Period size: 78 Copynumber: 8.7 Consensus size: 78
13131222 CAAAAATCGA
* *
13131232 AAATACCTCGACATGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAA
1 AAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAA
13131297 ACATAAATTTAAAAG
64 ACATAAATTTAAAAG
13131312 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
13131377 ATAAATTTAAAAG
66 ATAAATTTAAAAG
13131390 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
13131455 ATAAATTTAAAAG
66 ATAAATTTAAAAG
13131468 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
13131533 ATAAATTTAAAAG
66 ATAAATTTAAAAG
13131546 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
13131611 ATAAATTTAAAAG
66 ATAAATTTAAAAG
13131624 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
13131689 ATAAATTTAAAAG
66 ATAAATTTAAAAG
13131702 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
13131767 ATAAATTTAAAAG
66 ATAAATTTAAAAG
13131780 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
13131845 ATAAATTTAAAAG
66 ATAAATTTAAAAG
* *
13131858 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTT
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
13131914 TGAAAAAAGC
Statistics
Matches: 598, Mismatches: 4, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
77 17 0.03
78 569 0.95
80 12 0.02
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (78 bp):
AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
ATAAATTTAAAAG
Found at i:13132206 original size:1 final size:1
Alignment explanation
Indices: 13132192--13132254 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
13132182 TTCATCTTGA
* * * * * * * *
13132192 TTTTTTCTTCTTTTTTTTTGTTTTTCTGTTTTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13132255 AAGCATAATA
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:13132215 original size:8 final size:8
Alignment explanation
Indices: 13132204--13132253 Score: 64
Period size: 8 Copynumber: 5.9 Consensus size: 8
13132194 TTTTCTTCTT
13132204 TTTTTTTG
1 TTTTTTTG
*
13132212 TTTTTCTG
1 TTTTTTTG
13132220 TTTTTTTTG
1 -TTTTTTTG
13132229 TTTTTTTTTG
1 --TTTTTTTG
13132239 TTTTTTTG
1 TTTTTTTG
13132247 TTTTTTT
1 TTTTTTT
13132254 TAAGCATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 22 0.58
9 7 0.18
10 9 0.24
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:13132217 original size:19 final size:18
Alignment explanation
Indices: 13132193--13132251 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 18
13132183 TCATCTTGAT
13132193 TTTTTCTTCTTTTTTTTTG
1 TTTTTCTT-TTTTTTTTTG
*
13132212 TTTTTC-TGTTTTTTTTG
1 TTTTTCTTTTTTTTTTTG
13132229 TTTTT-TTTTGTTTTTTTG
1 TTTTTCTTTT-TTTTTTTG
13132247 TTTTT
1 TTTTT
13132252 TTTAAGCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 16 0.44
18 14 0.39
19 6 0.17
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.86
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTTTG
Done.