Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 32 of 66
Found at i:11028046 original size:13 final size:13
Alignment explanation
Indices: 11028028--11028052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11028018 GGAGAAATTG
11028028 TGATTTTATAAAA
1 TGATTTTATAAAA
11028041 TGATTTTATAAA
1 TGATTTTATAAA
11028053 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:11029305 original size:2 final size:2
Alignment explanation
Indices: 11029235--11029295 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
11029225 TATATGTGTT
11029235 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11029277 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
11029296 TTGCTATATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11039957 original size:21 final size:21
Alignment explanation
Indices: 11039915--11039957 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11039905 CTTGTACCGG
*
11039915 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
11039936 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
11039957 T
1 T
11039958 TGACCAGTCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:11040376 original size:22 final size:22
Alignment explanation
Indices: 11040348--11040410 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
11040338 TTTAAAACCA
*
11040348 CTTTAAAACCAAAAACTCTTAT
1 CTTTAAAACCAAAAGCTCTTAT
11040370 CTTTAAAACCAAAAGCTCTTAT
1 CTTTAAAACCAAAAGCTCTTAT
11040392 CTTTAAAACCAAAAGCTCT
1 CTTTAAAACCAAAAGCTCT
11040411 GATACCAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.43, C:0.24, G:0.03, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTTAT
Found at i:11057625 original size:20 final size:20
Alignment explanation
Indices: 11057600--11057645 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11057590 CTTCTAAACC
*
11057600 TCAAATCATACTCCAATAGG
1 TCAAATCATACTCCAATAAG
*
11057620 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
11057640 TCAAAT
1 TCAAAT
11057646 AGGGTCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:11063266 original size:19 final size:20
Alignment explanation
Indices: 11063239--11063284 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
11063229 AGGAGACAAG
*
11063239 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
11063258 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
11063277 ATAATATT
1 ATAATATT
11063285 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:11063711 original size:20 final size:20
Alignment explanation
Indices: 11063686--11063723 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
11063676 TTTTGGCCCC
11063686 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
11063706 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
11063724 GGACTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:11063731 original size:20 final size:20
Alignment explanation
Indices: 11063688--11063731 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
11063678 TTGGCCCCAT
* *
11063688 TTGACTTATTGGAGTATAAT
1 TTGACTTATTGGAGTAGAAC
*
11063708 TTGACTTATTGGAGTAGGAC
1 TTGACTTATTGGAGTAGAAC
11063728 TTGA
1 TTGA
11063732 GGTTTAGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.25, T:0.41
Consensus pattern (20 bp):
TTGACTTATTGGAGTAGAAC
Found at i:11066407 original size:15 final size:15
Alignment explanation
Indices: 11066389--11066424 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11066379 AAGATTTTTG
11066389 TTTTAAAGCTTTGGA
1 TTTTAAAGCTTTGGA
* *
11066404 TTTTAAAGTTTTTGA
1 TTTTAAAGCTTTGGA
11066419 TTTTAA
1 TTTTAA
11066425 GGTTGTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.56
Consensus pattern (15 bp):
TTTTAAAGCTTTGGA
Found at i:11070189 original size:19 final size:20
Alignment explanation
Indices: 11070162--11070207 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
11070152 AGGAGACAAG
*
11070162 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
11070181 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
11070200 ATAATATT
1 ATAATATT
11070208 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:11070636 original size:20 final size:20
Alignment explanation
Indices: 11070611--11070648 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
11070601 TTTTTGCCCC
11070611 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
11070631 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
11070649 GGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:11070654 original size:20 final size:20
Alignment explanation
Indices: 11070611--11070656 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11070601 TTTTTGCCCC
*
11070611 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTAGA
*
11070631 ATTTGACTTATTGGAGTAGG
1 ATTTGACTTATTGGAGTAGA
11070651 ATTTGA
1 ATTTGA
11070657 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTAGA
Found at i:11083544 original size:21 final size:21
Alignment explanation
Indices: 11083497--11083544 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
11083487 TCCTTCCACT
*
11083497 CTTTCCTCCAAAACCCAAATCC
1 CTTTCCTCCAAAA-CCAAACCC
11083519 C-TTCCTCCAAAA-CAAACCC
1 CTTTCCTCCAAAACCAAACCC
11083538 CATTTCC
1 C-TTTCC
11083545 CAGAATCTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 7 0.30
21 15 0.65
22 1 0.04
ACGTcount: A:0.31, C:0.46, G:0.00, T:0.23
Consensus pattern (21 bp):
CTTTCCTCCAAAACCAAACCC
Found at i:11089636 original size:31 final size:31
Alignment explanation
Indices: 11089589--11089790 Score: 323
Period size: 31 Copynumber: 6.5 Consensus size: 31
11089579 GTGTCAGCGT
*
11089589 TGGCGTGTTACCACATTTTATGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* **
11089620 TGACGTGTTATAACATTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
* *
11089651 TGGCATGTTACCACAATTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
*
11089682 TGGCGTGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
11089713 TGGCGTGTTACCACATTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
*
11089744 TGGCGTGTTACCACAGTTTACGTTATATGCA
1 TGGCGTGTTACCACATTTTACGTTATATGCA
*
11089775 TGGCGTGTTACAACAT
1 TGGCGTGTTACCACAT
11089791 GATTGACAAA
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 155 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (31 bp):
TGGCGTGTTACCACATTTTACGTTATATGCA
Found at i:11089823 original size:93 final size:90
Alignment explanation
Indices: 11089632--11089818 Score: 230
Period size: 93 Copynumber: 2.0 Consensus size: 90
11089622 ACGTGTTATA
11089632 ACATTTTACGTTATATGCATGGCATGTTACCACAATTTACGTTATATGCATGGCGTGTTACAACA
1 ACATTTTACGTTATATGCATGGCATGTTACCACAATTTACGTTATATGCATGGCGTGTTACAACA
* * * * *
11089697 TTTTACGTTATATGCATGGCGTGTT
66 TTTGACATTATAAGCACGGCATGTT
* *
11089722 ACCACATTTTACGTTATATGCATGGCGTGTTACCACAGTTTACGTTATATGCATGGCGTGTTACA
1 ---ACATTTTACGTTATATGCATGGCATGTTACCACAATTTACGTTATATGCATGGCGTGTTACA
*
11089787 ACATGATTGACAAATTCTAGAGCACGGCATGT
63 ACAT--TTGAC--ATTATA-AGCACGGCATGT
11089819 CATTTAATGT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
93 64 0.79
95 4 0.05
97 4 0.05
98 9 0.11
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (90 bp):
ACATTTTACGTTATATGCATGGCATGTTACCACAATTTACGTTATATGCATGGCGTGTTACAACA
TTTGACATTATAAGCACGGCATGTT
Found at i:11093821 original size:118 final size:118
Alignment explanation
Indices: 11093613--11093925 Score: 486
Period size: 118 Copynumber: 2.7 Consensus size: 118
11093603 ATGTCAATCA
* * *
11093613 CATCTTGTGGTGACACGCTGAGTGGAAAC-AGATAGTTGGTGTGACACGTTGAGTTCATGCAGAT
1 CATCTTGTGGTGACACGCTGAGTGG-AACTAGATAGTTGGCGTGACACGCTGAGTACATGCAGAT
*
11093677 TTCGATGGTGACATGCTAACTTCTTGCAGTATTGTGGGGTGACACGGCACGCCC
65 TTCGATGGTGACATGCTAACTTCTTGCAGTATTGTGGGGTGACACGACACGCCC
* * *
11093731 CATCTTGTGGTGACACACTGAGTGGAACTAGATACG-TGGCGTGACATGCTGAGTGCATGCAGAT
1 CATCTTGTGGTGACACGCTGAGTGGAACTAGATA-GTTGGCGTGACACGCTGAGTACATGCAGAT
* * *
11093795 TTCGGTGGTGACATGCTGACTTCTTGCAGTATTGTGGGGTGACACGACATGCCC
65 TTCGATGGTGACATGCTAACTTCTTGCAGTATTGTGGGGTGACACGACACGCCC
* *
11093849 CATCTTGTGGTGACACGTTGAGTGGAAGTAGATAGTTGGCGTGACACGCTGAGTACATGCAGATT
1 CATCTTGTGGTGACACGCTGAGTGGAACTAGATAGTTGGCGTGACACGCTGAGTACATGCAGATT
11093914 TCGATGGTGACA
66 TCGATGGTGACA
11093926 CNAGTTGGCG
Statistics
Matches: 177, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
117 4 0.02
118 172 0.97
119 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.27
Consensus pattern (118 bp):
CATCTTGTGGTGACACGCTGAGTGGAACTAGATAGTTGGCGTGACACGCTGAGTACATGCAGATT
TCGATGGTGACATGCTAACTTCTTGCAGTATTGTGGGGTGACACGACACGCCC
Found at i:11093836 original size:31 final size:30
Alignment explanation
Indices: 11093766--11093838 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
11093756 AACTAGATAC
* *
11093766 GTGGCGTGACATGCTGAGTGCATGCAGATT
1 GTGGGGTGACATGCTGACTGCATGCAGATT
* *
11093796 -TCGGTGGTGACATGCTGACTTCTTGCAGTATT
1 GT-GG-GGTGACATGCTGACTGCATGCAG-ATT
11093828 GTGGGGTGACA
1 GTGGGGTGACA
11093839 CGACATGCCC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
29 1 0.03
30 2 0.06
31 26 0.74
32 5 0.14
33 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (30 bp):
GTGGGGTGACATGCTGACTGCATGCAGATT
Found at i:11093949 original size:46 final size:45
Alignment explanation
Indices: 11093882--11093972 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 45
11093872 GGAAGTAGAT
11093882 AGTTGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACAC
1 AGTTGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACAC
11093927 NAGTTGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACAC
1 -AGTTGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACAC
11093973 GCTGACTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (45 bp):
AGTTGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACAC
Found at i:11094038 original size:164 final size:163
Alignment explanation
Indices: 11093767--11094090 Score: 504
Period size: 164 Copynumber: 2.0 Consensus size: 163
11093757 ACTAGATACG
* * * *
11093767 TGGCGTGACATGCTGAGTGCATGCAGATTTCGGTGGTGACATGCTGACTTCTTGCAGTATTGTGG
1 TGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTGTGG
* * * * ** *
11093832 GGTGACACGACATGCCCCATCTTGTGGTGACACGTTGAGTGGAAGTAGATAGTTGGCGTGACACG
66 AGTGACACGACACGCCCCATCTTGTGGTAACACGCTGAGTGGAACCAGATACTTGGCGTGACACG
11093897 CTGAGTACATGCAGATTTCGATGGTGACACNAGT
131 CTGAGTACATGCAGATTTCGATGGTGACAC-AGT
11093931 TGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTGTGG
1 TGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTGTGG
* *
11093996 AGTGACACGGCACGCCCCATCTTGTGGTAACATGCTGAGTGGAACCAGATACTTGGCGTGACACG
66 AGTGACACGACACGCCCCATCTTGTGGTAACACGCTGAGTGGAACCAGATACTTGGCGTGACACG
* *
11094061 CTGAGTGCATGCAGATTTTGATGGTGACAC
131 CTGAGTACATGCAGATTTCGATGGTGACAC
11094091 GCTGACTTCT
Statistics
Matches: 145, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
164 145 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (163 bp):
TGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTGTGG
AGTGACACGACACGCCCCATCTTGTGGTAACACGCTGAGTGGAACCAGATACTTGGCGTGACACG
CTGAGTACATGCAGATTTCGATGGTGACACAGT
Found at i:11094138 original size:118 final size:118
Alignment explanation
Indices: 11093930--11094295 Score: 576
Period size: 118 Copynumber: 3.1 Consensus size: 118
11093920 GTGACACNAG
*
11093930 TTGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTGTG
1 TTGGCGTGACACGCTGAGTGCATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTGTG
*
11093995 GAGTGACACGGCACGCCCCATCTTGTGGTAACATGCTGAGTGGAACCAGATAC
66 GAGTGACACGGCACGCCCCATCTTGTGGTAACACGCTGAGTGGAACCAGATAC
* *
11094048 TTGGCGTGACACGCTGAGTGCATGCAGATTTTGATGGTGACACGCTGACTTCTTGCAGTATTATG
1 TTGGCGTGACACGCTGAGTGCATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTGTG
* * *
11094113 GAGTGACACTGCACGCCCCATCTTGTGGTAACACACTGAGTGGAACCATATAC
66 GAGTGACACGGCACGCCCCATCTTGTGGTAACACGCTGAGTGGAACCAGATAC
* * * *
11094166 TTGGCGTGACACGCTTAGTGCATGCAGATTTCGGTGGTGACATGCTGACTTCTTGTAGTATTGT-
1 TTGGCGTGACACGCTGAGTGCATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTGTG
* *
11094230 GAGGTGACACGGCACGCCCCATCTTGTGGTGACACGCTGAGTGGAACCAG-CAC
66 GA-GTGACACGGCACGCCCCATCTTGTGGTAACACGCTGAGTGGAACCAGATAC
11094283 TTGAG-GTGACACG
1 TTG-GCGTGACACG
11094296 TTGACTTCTT
Statistics
Matches: 228, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
117 15 0.07
118 213 0.93
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (118 bp):
TTGGCGTGACACGCTGAGTGCATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTGTG
GAGTGACACGGCACGCCCCATCTTGTGGTAACACGCTGAGTGGAACCAGATAC
Found at i:11094157 original size:282 final size:281
Alignment explanation
Indices: 11093646--11094207 Score: 847
Period size: 282 Copynumber: 2.0 Consensus size: 281
11093636 GGAAACAGAT
* * * *
11093646 AGTTGGTGTGACACGTTGAGTTCATGCAGATTTCGATGGTGACATGCTAACTTCTTGCAGTATTG
1 AGTTGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACACGCTAACTTCTTGCAGTATTG
* * *
11093711 TGGGGTGACACGGCACGCCCCATCTTGTGGTGACACACTGAGTGGAACTAGATACGTGGCGTGAC
66 TGGAGTGACACGGCACGCCCCATCTTGTGGTAACACACTGAGTGGAACCAGATACGTGGCGTGAC
* * * * *
11093776 ATGCTGAGTGCATGCAGATTTCGGTGGTGACATGCTGACTTCTTGCAGTATTGTGGGGTGACACG
131 ACGCTGAGTGCATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTATGGAGTGACACG
* * ** ** *
11093841 ACATGCCCCATCTTGTGGTGACACGTTGAGTGGAAGTAGATAGTTGGCGTGACACGCTGAGTACA
196 ACACGCCCCATCTTGTGGTAACACACTGAGTGGAACCAGATACTTGGCGTGACACGCTGAGTACA
11093906 TGCAGATTTCGATGGTGACAC
261 TGCAGATTTCGATGGTGACAC
*
11093927 NAGTTGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATT
1 -AGTTGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACACGCTAACTTCTTGCAGTATT
** *
11093992 GTGGAGTGACACGGCACGCCCCATCTTGTGGTAACATGCTGAGTGGAACCAGATACTTGGCGTGA
65 GTGGAGTGACACGGCACGCCCCATCTTGTGGTAACACACTGAGTGGAACCAGATACGTGGCGTGA
*
11094057 CACGCTGAGTGCATGCAGATTTTGATGGTGACACGCTGACTTCTTGCAGTATTATGGAGTGACAC
130 CACGCTGAGTGCATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTATGGAGTGACAC
* * *
11094122 TG-CACGCCCCATCTTGTGGTAACACACTGAGTGGAACCATATACTTGGCGTGACACGCTTAGTG
195 -GACACGCCCCATCTTGTGGTAACACACTGAGTGGAACCAGATACTTGGCGTGACACGCTGAGTA
*
11094186 CATGCAGATTTCGGTGGTGACA
259 CATGCAGATTTCGATGGTGACA
11094208 TGCTGACTTC
Statistics
Matches: 251, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
282 250 1.00
283 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (281 bp):
AGTTGGCGTGACACGCTGAGTACATGCAGATTTCGATGGTGACACGCTAACTTCTTGCAGTATTG
TGGAGTGACACGGCACGCCCCATCTTGTGGTAACACACTGAGTGGAACCAGATACGTGGCGTGAC
ACGCTGAGTGCATGCAGATTTCGATGGTGACACGCTGACTTCTTGCAGTATTATGGAGTGACACG
ACACGCCCCATCTTGTGGTAACACACTGAGTGGAACCAGATACTTGGCGTGACACGCTGAGTACA
TGCAGATTTCGATGGTGACAC
Found at i:11099816 original size:145 final size:145
Alignment explanation
Indices: 11099631--11099979 Score: 376
Period size: 145 Copynumber: 2.4 Consensus size: 145
11099621 TAAATTACTG
* * * * * * *
11099631 TGTTACTCGATAAACATATGTGAAAATATTGAACACAAACCGTTAGAACTGAT-CTTACCAACTG
1 TGTTATTCGATAATCACATATGAAATTATTGAACACAAACCATTAGAACTG-TCCTTACCAACTC
* * * * * * * *
11099695 GTCGTTAGCATTGTCCGTTTGAGGAGGACCTCTCAATGGTTGAGGAATTATCATCGCATGGTCCA
65 ATCGTTAACATTGTCAGTCTGAAGAGGACCTCTCAATGGTTGAGAAACTATCATCGCATAGTCCA
* *
11099760 ACTATAAACACAGATA
130 ACTACAAACACAAATA
* * * *
11099776 TGTTATTCGATAATCACATATGGAATTGTTGAACACAAACCATTATAACTGTCCTTACCGACTCA
1 TGTTATTCGATAATCACATATGAAATTATTGAACACAAACCATTAGAACTGTCCTTACCAACTCA
* ** * * ** *
11099841 TCGTTAACATTGTGAGTCTGAAGAGGACCTCTCGGTGGTTGTGAAACTGTTGTCGCATAGTCTAA
66 TCGTTAACATTGTCAGTCTGAAGAGGACCTCTCAATGGTTGAGAAACTATCATCGCATAGTCCAA
*
11099906 CTGCAAACACAAATA
131 CTACAAACACAAATA
* * * *
11099921 TGTTATTCGATAATCACATATGAAATTATTGAAGACAAACTATTAGAACCGTCTTTACC
1 TGTTATTCGATAATCACATATGAAATTATTGAACACAAACCATTAGAACTGTCCTTACC
11099980 GGCTCTTCAC
Statistics
Matches: 166, Mismatches: 37, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
144 1 0.01
145 165 0.99
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (145 bp):
TGTTATTCGATAATCACATATGAAATTATTGAACACAAACCATTAGAACTGTCCTTACCAACTCA
TCGTTAACATTGTCAGTCTGAAGAGGACCTCTCAATGGTTGAGAAACTATCATCGCATAGTCCAA
CTACAAACACAAATA
Found at i:11101414 original size:31 final size:31
Alignment explanation
Indices: 11101376--11101619 Score: 274
Period size: 31 Copynumber: 7.5 Consensus size: 31
11101366 GTTAACCCAT
* *
11101376 AATGTGGTAATACGTCATGCATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* *
11101407 AATGTGGTAACATGCCATGCATATAACGAAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
11101438 AATGTGGTAACACGCCATGCATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
* *
11101469 ACTGTGGTTACACGCCATGCATAAAACGTAAACTGATGTAA
1 AATGTGGTAACACGCCATGCAT---A--T-AAC----GTAA
* *
11101510 ACTGTGGTAACATGCCATGCATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
11101541 AATGTGGTAACACGCCATGCATATAACGTAA
1 AATGTGGTAACACGCCATGCATATAACGTAA
** *
11101572 AATGTTATAACACGCCATGCATATCAA-GTCA
1 AATGTGGTAACACGCCATGCATAT-AACGTAA
*
11101603 AATGTTGTAACACGCCA
1 AATGTGGTAACACGCCA
11101620 ATCACTATAA
Statistics
Matches: 186, Mismatches: 16, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
31 150 0.81
32 2 0.01
34 1 0.01
35 3 0.02
36 2 0.01
37 3 0.02
38 1 0.01
41 24 0.13
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (31 bp):
AATGTGGTAACACGCCATGCATATAACGTAA
Found at i:11101612 original size:103 final size:103
Alignment explanation
Indices: 11101403--11101594 Score: 330
Period size: 103 Copynumber: 1.9 Consensus size: 103
11101393 TGCATATAAC
11101403 GTAAAATGTGGTAACATGCCATGCATATAACGAAAAATGTGGTAACACGCCATGCATATAACGTA
1 GTAAAATGTGGTAACATGCCATGCATATAACGAAAAATGTGGTAACACGCCATGCATATAACGTA
* * *
11101468 AACTGTGGTTACACGCCATGCATAAAACGTAAACTGAT
66 AAATGTGATAACACGCCATGCATAAAACGTAAACTGAT
* *
11101506 GTAAACTGTGGTAACATGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAACGTA
1 GTAAAATGTGGTAACATGCCATGCATATAACGAAAAATGTGGTAACACGCCATGCATATAACGTA
*
11101571 AAATGTTATAACACGCCATGCATA
66 AAATGTGATAACACGCCATGCATA
11101595 TCAAGTCAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 83 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (103 bp):
GTAAAATGTGGTAACATGCCATGCATATAACGAAAAATGTGGTAACACGCCATGCATATAACGTA
AAATGTGATAACACGCCATGCATAAAACGTAAACTGAT
Found at i:11102330 original size:47 final size:47
Alignment explanation
Indices: 11102278--11102441 Score: 213
Period size: 47 Copynumber: 3.5 Consensus size: 47
11102268 GAGTCTGACA
* * *
11102278 AACTCTAAACACTGACGTGTCACAGATTGCCTCCATGGCTTGTCACG
1 AACTCTAAACGCTGACGTGTCACAGATTCCCTCCATGGCGTGTCACG
* * * *
11102325 AACTCTGAACGTTGGCGTGTCACAGATTCCCTCCATGGCGTGTCATG
1 AACTCTAAACGCTGACGTGTCACAGATTCCCTCCATGGCGTGTCACG
* * * *
11102372 AACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGGCGTGTCACC
1 AACTCTAAACGCTGACGTGTCACAGATTCCCTCCATGGCGTGTCACG
11102419 AACTCTAAACGCT-AGCGTGTCAC
1 AACTCTAAACGCTGA-CGTGTCAC
11102442 CAACTCTGAA
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 102 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (47 bp):
AACTCTAAACGCTGACGTGTCACAGATTCCCTCCATGGCGTGTCACG
Found at i:11102365 original size:23 final size:23
Alignment explanation
Indices: 11102337--11102417 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
11102327 CTCTGAACGT
11102337 TGGCGTGTCACAGATTCCCTCCA
1 TGGCGTGTCACAGATTCCCTCCA
* * *
11102360 TGGCGTGTCA-TGA-ACTCTGAACGC-
1 TGGCGTGTCACAGATTCCCT---C-CA
*
11102384 TGGCATGTCACAGATTCCCTCCA
1 TGGCGTGTCACAGATTCCCTCCA
11102407 TGGCGTGTCAC
1 TGGCGTGTCAC
11102418 CAACTCTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
21 3 0.07
22 3 0.07
23 21 0.49
24 10 0.23
25 3 0.07
26 3 0.07
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.26
Consensus pattern (23 bp):
TGGCGTGTCACAGATTCCCTCCA
Found at i:11102439 original size:71 final size:71
Alignment explanation
Indices: 11102362--11102500 Score: 199
Period size: 71 Copynumber: 2.0 Consensus size: 71
11102352 TCCCTCCATG
** *
11102362 GCGTGTCATGAACTCTGAACGCTGGCATGTCACAGATTCCCTC-CATGGCGTGTCACCAACTCTA
1 GCGTGTCACCAACTCTGAAAGCTGGCATGTCACAGATTCCC-CACATGGCGTGTCACCAACTCTA
11102426 AACGCTA
65 AACGCTA
* * * *
11102433 GCGTGTCACCAACTCTGAAAGTTGGCGTGTCACAGATTCCCCACATGGCGTGTCACGAACTCTGA
1 GCGTGTCACCAACTCTGAAAGCTGGCATGTCACAGATTCCCCACATGGCGTGTCACCAACTCTAA
11102498 ACG
66 ACG
11102501 TTGGCATGTC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 1 0.02
71 59 0.98
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (71 bp):
GCGTGTCACCAACTCTGAAAGCTGGCATGTCACAGATTCCCCACATGGCGTGTCACCAACTCTAA
ACGCTA
Found at i:11102484 original size:47 final size:47
Alignment explanation
Indices: 11102433--11102561 Score: 197
Period size: 47 Copynumber: 2.7 Consensus size: 47
11102423 CTAAACGCTA
*
11102433 GCGTGTCACCAACTCTGAAAGTTGGCGTGTCACAGATTCCC-CACATG
1 GCGTGTCACCAACTCTGAACGTTGGCGTGTCACAGATTCCCTC-CATG
* *
11102480 GCGTGTCACGAACTCTGAACGTTGGCATGTCACAGATTCCCTCCATG
1 GCGTGTCACCAACTCTGAACGTTGGCGTGTCACAGATTCCCTCCATG
* *
11102527 GCATGTCACCAACTCTGAACTTTGGCGTGTCACAG
1 GCGTGTCACCAACTCTGAACGTTGGCGTGTCACAG
11102562 TCATGTCACA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
47 73 0.99
48 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.25
Consensus pattern (47 bp):
GCGTGTCACCAACTCTGAACGTTGGCGTGTCACAGATTCCCTCCATG
Found at i:11102526 original size:118 final size:118
Alignment explanation
Indices: 11102318--11102542 Score: 389
Period size: 118 Copynumber: 1.9 Consensus size: 118
11102308 CTCCATGGCT
* * *
11102318 TGTCACGAACTCTGAACGTTGGCGTGTCACAGATTCCCTCCATGGCGTGTCATGAACTCTGAACG
1 TGTCACCAACTCTGAAAGTTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACGAACTCTGAACG
*
11102383 CTGGCATGTCACAGATTCCCTCCATGGCGTGTCACCAACTCTAAACGCTAGCG
66 CTGGCATGTCACAGATTCCCTCCATGGCATGTCACCAACTCTAAACGCTAGCG
11102436 TGTCACCAACTCTGAAAGTTGGCGTGTCACAGATTCCC-CACATGGCGTGTCACGAACTCTGAAC
1 TGTCACCAACTCTGAAAGTTGGCGTGTCACAGATTCCCTC-CATGGCGTGTCACGAACTCTGAAC
*
11102500 GTTGGCATGTCACAGATTCCCTCCATGGCATGTCACCAACTCT
65 GCTGGCATGTCACAGATTCCCTCCATGGCATGTCACCAACTCT
11102543 GAACTTTGGC
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
117 1 0.01
118 100 0.99
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.25
Consensus pattern (118 bp):
TGTCACCAACTCTGAAAGTTGGCGTGTCACAGATTCCCTCCATGGCGTGTCACGAACTCTGAACG
CTGGCATGTCACAGATTCCCTCCATGGCATGTCACCAACTCTAAACGCTAGCG
Found at i:11102577 original size:58 final size:58
Alignment explanation
Indices: 11102505--11102652 Score: 179
Period size: 58 Copynumber: 2.6 Consensus size: 58
11102495 TGAACGTTGG
* * * * * * ** * *
11102505 CATGTCACAGATTCCCTCCATGGCATGTCACCAACTCTGAACTTTGGCGTGTCACAGT
1 CATGTCACACATTCCCACCATGTCGTGTCACAAACTCTAAACCCTGCCATGTCACAGT
* *
11102563 CATGTCACACATTCCAAACATGTCGTGTCACAAACTCTAAACCCTGCCATGTCACAGT
1 CATGTCACACATTCCCACCATGTCGTGTCACAAACTCTAAACCCTGCCATGTCACAGT
*
11102621 CGTGTCACACATTCCCACCATGTCGTGTCACA
1 CATGTCACACATTCCCACCATGTCGTGTCACA
11102653 CATTCCCAAC
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 75 1.00
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CATGTCACACATTCCCACCATGTCGTGTCACAAACTCTAAACCCTGCCATGTCACAGT
Found at i:11102649 original size:23 final size:23
Alignment explanation
Indices: 11102619--11102675 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
11102609 CCATGTCACA
*
11102619 GTCGTGTCACACATTCCCACCAT
1 GTCGTGTCACACATTCCCAACAT
11102642 GTCGTGTCACACATTCCCAACAT
1 GTCGTGTCACACATTCCCAACAT
* *
11102665 GCCGTTTCACA
1 GTCGTGTCACA
11102676 AACAATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.23, C:0.37, G:0.14, T:0.26
Consensus pattern (23 bp):
GTCGTGTCACACATTCCCAACAT
Found at i:11103546 original size:29 final size:29
Alignment explanation
Indices: 11103504--11103560 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
11103494 TTTATTATCT
* *
11103504 TTATTTGTTGTGAGTTGTAAGAAGTTTGG
1 TTATATGTTGTGAGTTGCAAGAAGTTTGG
11103533 TTATATGTTGTGAGTTGCAAGAAGTTTG
1 TTATATGTTGTGAGTTGCAAGAAGTTTG
11103561 ATTTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.46
Consensus pattern (29 bp):
TTATATGTTGTGAGTTGCAAGAAGTTTGG
Found at i:11103572 original size:29 final size:29
Alignment explanation
Indices: 11103511--11103572 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
11103501 TCTTTATTTG
* * **
11103511 TTGTGAGTTGTAAGAAGTTTGGTTATATG
1 TTGTGAGTTGCAAGAAGTTTGATTATAAA
*
11103540 TTGTGAGTTGCAAGAAGTTTGATTTTAAA
1 TTGTGAGTTGCAAGAAGTTTGATTATAAA
11103569 TTGT
1 TTGT
11103573 CACGCTTGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.02, G:0.27, T:0.45
Consensus pattern (29 bp):
TTGTGAGTTGCAAGAAGTTTGATTATAAA
Found at i:11103700 original size:9 final size:9
Alignment explanation
Indices: 11103688--11103757 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 9
11103678 TAATATTATA
11103688 AATAAAAAT
1 AATAAAAAT
* *
11103697 AATAATAGT
1 AATAAAAAT
11103706 AA-AAAAAT
1 AATAAAAAT
*
11103714 AATCAAAAT
1 AATAAAAAT
*
11103723 -TTAAAAAT
1 AATAAAAAT
11103731 ATTATAAATAAT
1 A--ATAAA-AAT
*
11103743 AGTAAAAAT
1 AATAAAAAT
11103752 AATAAA
1 AATAAA
11103758 TTAAATATAA
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
8 12 0.26
9 22 0.48
10 4 0.09
11 4 0.09
12 4 0.09
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (9 bp):
AATAAAAAT
Found at i:11103838 original size:93 final size:92
Alignment explanation
Indices: 11103726--11103921 Score: 349
Period size: 93 Copynumber: 2.1 Consensus size: 92
11103716 TCAAAATTTA
* *
11103726 AAAATATTATAAATAATAGTAAAAATAATAAATTAAATATAATTATTTTAAAATATCAAGATTTA
1 AAAATTTTTTAAATAATAGTAAAAATAATAAATTAAATATAATTATTTTAAAATATCAAGATTTA
11103791 AAAATATTTTCTCATGTCTTA-TCAAGC
66 AAAATATTTTCTCATGTCTTACT-AAGC
11103818 AAAATTTTTNTAAATAATAGTAAAAATAATAAATTAAATATAATTATTTTAAAATATCAAGATTT
1 AAAATTTTT-TAAATAATAGTAAAAATAATAAATTAAATATAATTATTTTAAAATATCAAGATTT
11103883 AAAAATATTTTCTCATGTCTTACTAAGC
65 AAAAATATTTTCTCATGTCTTACTAAGC
11103911 AAAATTTTTTA
1 AAAATTTTTTA
11103922 TTAAATAATT
Statistics
Matches: 100, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
92 9 0.09
93 90 0.90
94 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (92 bp):
AAAATTTTTTAAATAATAGTAAAAATAATAAATTAAATATAATTATTTTAAAATATCAAGATTTA
AAAATATTTTCTCATGTCTTACTAAGC
Found at i:11104348 original size:29 final size:30
Alignment explanation
Indices: 11104316--11104373 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
11104306 TTATTCAACT
*
11104316 AATTTTTTCATTTT-TATTATTAATAAAAA
1 AATTGTTTCATTTTATATTATTAATAAAAA
* * *
11104345 AATTGTTTCGTTTTATATTCTTATTAAAA
1 AATTGTTTCATTTTATATTATTAATAAAA
11104374 GTAATTTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
AATTGTTTCATTTTATATTATTAATAAAAA
Found at i:11107649 original size:46 final size:46
Alignment explanation
Indices: 11107582--11107674 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
11107572 TGAGTAGGTT
11107582 TCTGAATTGGTGGAGACTGATTCAGTAGTTATGGTTGGTCCCGGTC
1 TCTGAATTGGTGGAGACTGATTCAGTAGTTATGGTTGGTCCCGGTC
11107628 TCTGAATTGGTGGAGACTGATTCAGTAGTTATGGTTGGTCCCGGTC
1 TCTGAATTGGTGGAGACTGATTCAGTAGTTATGGTTGGTCCCGGTC
11107674 T
1 T
11107675 GCAAACAATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.35
Consensus pattern (46 bp):
TCTGAATTGGTGGAGACTGATTCAGTAGTTATGGTTGGTCCCGGTC
Found at i:11112012 original size:20 final size:20
Alignment explanation
Indices: 11111984--11112021 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11111974 ATCTATAATT
*
11111984 ATAAAAATAATTATAACAAA
1 ATAAAAATAATAATAACAAA
*
11112004 ATAACAATAATAATAACA
1 ATAAAAATAATAATAACA
11112022 TTAAATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (20 bp):
ATAAAAATAATAATAACAAA
Found at i:11112033 original size:15 final size:15
Alignment explanation
Indices: 11112013--11112053 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11112003 AATAACAATA
11112013 ATAATAACATTAAAT
1 ATAATAACATTAAAT
* *
11112028 ATAATAAAATTTAAT
1 ATAATAACATTAAAT
11112043 ATAAATAACAT
1 AT-AATAACAT
11112054 ACATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATAACATTAAAT
Found at i:11112198 original size:18 final size:18
Alignment explanation
Indices: 11112175--11112224 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
11112165 AACGTGTCAT
11112175 GTATACACGTTTAAACAC
1 GTATACACGTTTAAACAC
11112193 GTATACACGTTTAAACAC
1 GTATACACGTTTAAACAC
*
11112211 G-ATAACACGATTAA
1 GTAT-ACACGTTTAA
11112225 GTAAACGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 2 0.07
18 28 0.93
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (18 bp):
GTATACACGTTTAAACAC
Found at i:11112615 original size:22 final size:22
Alignment explanation
Indices: 11112574--11112615 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11112564 TTAATTTATA
* *
11112574 TTTATATTTTTATTTTTATTTG
1 TTTATATTTTTAGTTCTATTTG
*
11112596 TTTATTTTTTTAGTTCTATT
1 TTTATATTTTTAGTTCTATT
11112616 CTATTTGTTC
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:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTATATTTTTAGTTCTATTTG
Found at i:11119837 original size:2 final size:2
Alignment explanation
Indices: 11119830--11119868 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11119820 NNNNNNNNNN
11119830 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11119869 AGATTTATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11120666 original size:19 final size:19
Alignment explanation
Indices: 11120642--11120689 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
11120632 GTTGACTGTG
*
11120642 TGTTGATATGGCATGGTTA
1 TGTTGATATGGCATGGTCA
* *
11120661 TGTTGATGTGGTATGGTCA
1 TGTTGATATGGCATGGTCA
11120680 TGTTGATATG
1 TGTTGATATG
11120690 CCACAATGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.19, C:0.04, G:0.33, T:0.44
Consensus pattern (19 bp):
TGTTGATATGGCATGGTCA
Found at i:11129762 original size:14 final size:14
Alignment explanation
Indices: 11129743--11129782 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
11129733 GTCATAAATA
11129743 TATATATATATTAT
1 TATATATATATTAT
*
11129757 TATATATATATAAT
1 TATATATATATTAT
11129771 T-T-TATATATTAT
1 TATATATATATTAT
11129783 AATAACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 9 0.38
13 1 0.04
14 14 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATATATATTAT
Found at i:11129762 original size:16 final size:15
Alignment explanation
Indices: 11129741--11129783 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
11129731 AGGTCATAAA
11129741 TATATATATATATTAT
1 TATATATATATATT-T
11129757 TATATATATATAATTT
1 TATATATATAT-ATTT
11129773 TATATAT-TATA
1 TATATATATATA
11129784 ATAACAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 19 0.73
17 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATATATATATTT
Found at i:11129977 original size:22 final size:19
Alignment explanation
Indices: 11129952--11129998 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 19
11129942 GTATGCTGAC
11129952 GTGGCATTGACTATGAGTTGAT
1 GTGGCA-TGACTAT--GTTGAT
*
11129974 GTGGCATGATTATGTTGAT
1 GTGGCATGACTATGTTGAT
11129993 GTGGCA
1 GTGGCA
11129999 CAATGCTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 12 0.50
21 6 0.25
22 6 0.25
ACGTcount: A:0.21, C:0.09, G:0.34, T:0.36
Consensus pattern (19 bp):
GTGGCATGACTATGTTGAT
Found at i:11130015 original size:16 final size:16
Alignment explanation
Indices: 11129994--11130024 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11129984 TATGTTGATG
11129994 TGGCACAATGCTGACA
1 TGGCACAATGCTGACA
*
11130010 TGGCACAATGTTGAC
1 TGGCACAATGCTGAC
11130025 GTGTCCACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (16 bp):
TGGCACAATGCTGACA
Found at i:11131415 original size:4 final size:4
Alignment explanation
Indices: 11131406--11131446 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
11131396 ACAATAATAN
* * *
11131406 ATAT ATAT ATAT ATAT ATAT ATAT GTAT GTAT ATAT GTAT A
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT A
11131447 AAGAAGATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (4 bp):
ATAT
Found at i:11134752 original size:2 final size:2
Alignment explanation
Indices: 11134745--11134785 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
11134735 ATGTATGTAT
11134745 GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
11134786 TGAAGGGTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11140840 original size:21 final size:21
Alignment explanation
Indices: 11140799--11140840 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11140789 TTATTGAAAT
* *
11140799 CTTAGATCTAAATTAAGATTG
1 CTTAGAACTAAATTAAAATTG
11140820 CTTAGAACTAAA-TAACAATTG
1 CTTAGAACTAAATTAA-AATTG
11140841 ATTATCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (21 bp):
CTTAGAACTAAATTAAAATTG
Found at i:11149954 original size:28 final size:28
Alignment explanation
Indices: 11149922--11149977 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11149912 ACTTGGTCTA
11149922 TATGGTTGTTTTGAAATGAGATTATTTT
1 TATGGTTGTTTTGAAATGAGATTATTTT
11149950 TATGGTTGTTTTGAAATGAGATTATTTT
1 TATGGTTGTTTTGAAATGAGATTATTTT
11149978 CAAGGGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (28 bp):
TATGGTTGTTTTGAAATGAGATTATTTT
Found at i:11155660 original size:22 final size:23
Alignment explanation
Indices: 11155629--11155682 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
11155619 CTACTCATTT
*
11155629 TTATTCTTTTTCTTCTC-TTTTTG
1 TTATT-TTTTTCTTCTCATTGTTG
* *
11155652 TTTTTTTTTTCTTTTCATTGTTG
1 TTATTTTTTTCTTCTCATTGTTG
11155675 TTATTTTT
1 TTATTTTT
11155683 ATTATTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.78
Consensus pattern (23 bp):
TTATTTTTTTCTTCTCATTGTTG
Found at i:11157517 original size:97 final size:97
Alignment explanation
Indices: 11157398--11157591 Score: 318
Period size: 97 Copynumber: 2.0 Consensus size: 97
11157388 AATAATTAAC
* * * * *
11157398 ACTGTCATTCTTTTTTCTCAAAATTCTGAT-GAAAAAGTTACAAAATTCCATTGAAAAGAGGTAC
1 ACTGTCATTCATTTTTCTCAAAATTCTGATGGAAAAAGGTACAAAATTCCA-TAAAAAAAGCTAC
11157462 CATATTTTCAATTATTTTAATGTAAATTCGTCG
65 CATATTTTCAATTATTTTAATGTAAATTCGTCG
11157495 ACTGTCATTCATTTTTCTCAAAATTCTGATGGAAAAAGGTACAAAATTCCATAAAAAAAGCTACC
1 ACTGTCATTCATTTTTCTCAAAATTCTGATGGAAAAAGGTACAAAATTCCATAAAAAAAGCTACC
*
11157560 ATATTTTCAATTATTTTAATGTAAGTTCGTCG
66 ATATTTTCAATTATTTTAATGTAAATTCGTCG
11157592 GGAAAGACGA
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
97 71 0.79
98 19 0.21
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (97 bp):
ACTGTCATTCATTTTTCTCAAAATTCTGATGGAAAAAGGTACAAAATTCCATAAAAAAAGCTACC
ATATTTTCAATTATTTTAATGTAAATTCGTCG
Found at i:11160980 original size:11 final size:11
Alignment explanation
Indices: 11160961--11160991 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11160951 CACGAGAGAG
11160961 AAAAATAATTA
1 AAAAATAATTA
*
11160972 AATAATAATTA
1 AAAAATAATTA
11160983 AAAAATAAT
1 AAAAATAAT
11160992 ATCTTATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAATAATTA
Found at i:11171769 original size:38 final size:40
Alignment explanation
Indices: 11171718--11171820 Score: 147
Period size: 38 Copynumber: 2.6 Consensus size: 40
11171708 TAACCGTGTG
*
11171718 TGTGCACGATGTGGGGGGATGTACACGATGGT-ACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGACGGATA
* * * *
11171756 TGTGCACGTTGTGGGGGGATGCACACGATGGTGTCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGACGGATA
11171796 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
11171821 TGAGCCGGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 30 0.54
39 3 0.05
40 23 0.41
ACGTcount: A:0.18, C:0.15, G:0.42, T:0.25
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGACGGATA
Found at i:11172230 original size:39 final size:40
Alignment explanation
Indices: 11172163--11172259 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 40
11172153 CGAAAAAGGG
* * *
11172163 ATTTCGTTGCAGCGA-AAAACTCTCTGTTTCATTAGTGA-A
1 ATTTCGCTGCAGCGAGAAAACTCTATGTTTC-TGAGTGACA
* * *
11172202 ATTTCGCTGCAGCGAGAAACCT-TATGTTTCTGGGTTACA
1 ATTTCGCTGCAGCGAGAAAACTCTATGTTTCTGAGTGACA
11172241 ATTTCGCTGCAGCGAGAAA
1 ATTTCGCTGCAGCGAGAAA
11172260 GAATCTCACT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 4 0.08
39 41 0.82
40 5 0.10
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (40 bp):
ATTTCGCTGCAGCGAGAAAACTCTATGTTTCTGAGTGACA
Found at i:11173729 original size:22 final size:22
Alignment explanation
Indices: 11173686--11173734 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
11173676 AATATTATTG
**
11173686 ATAATTAAATTATTAATTTTAT
1 ATAATTAAATTATTAAAATTAT
11173708 ATAATTAAA-TATATAAAATTAT
1 ATAATTAAATTAT-TAAAATTAT
11173730 -TAATT
1 ATAATT
11173735 TTTTTGACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAATTAAATTATTAAAATTAT
Found at i:11180466 original size:15 final size:14
Alignment explanation
Indices: 11180446--11180479 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
11180436 ATTTTAAGAA
11180446 AATAAAATAACTAAT
1 AATAAAATAA-TAAT
11180461 AATAAAAATAATAAT
1 AAT-AAAATAATAAT
11180476 AATA
1 AATA
11180480 GTAAATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.06
15 10 0.56
16 7 0.39
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:11180770 original size:3 final size:3
Alignment explanation
Indices: 11180762--11180808 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
11180752 GTGTCGGCCA
11180762 AAG AAG AAG AAG AA- AAG AA- AAG AAG AAG AAG AA- AAG AA- AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
11180806 AAG
1 AAG
11180809 CTGGCTTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 8 0.20
3 32 0.80
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11180785 original size:19 final size:19
Alignment explanation
Indices: 11180761--11180808 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
11180751 AGTGTCGGCC
11180761 AAAGAAGAAGAAGAAAAGA
1 AAAGAAGAAGAAGAAAAGA
11180780 AAAGAAGAAGAAGAAAAGA
1 AAAGAAGAAGAAGAAAAGA
11180799 AAAGAAGAAG
1 AAAGAAGAAG
11180809 CTGGCTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAGAAGAAGAAAAGA
Found at i:11189947 original size:13 final size:13
Alignment explanation
Indices: 11189929--11189953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11189919 TTCCAAAAAA
11189929 TTTATAAAATCAT
1 TTTATAAAATCAT
11189942 TTTATAAAATCA
1 TTTATAAAATCA
11189954 CAATTTTCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:11192195 original size:2 final size:2
Alignment explanation
Indices: 11192188--11192242 Score: 67
Period size: 2 Copynumber: 28.0 Consensus size: 2
11192178 TGTATACAAT
* *
11192188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TG TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
11192229 TA TG CA TA TA TA TA
1 TA TA TA TA TA TA TA
11192243 GTTATTATGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11192306 original size:37 final size:35
Alignment explanation
Indices: 11192234--11192307 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
11192224 TATAATATGC
* ** *
11192234 ATATATATAGTTATTATGCTTAATACAAGTTTAAT
1 ATATATATAGTTAATATAATTAATACAAGTATAAT
*
11192269 ATATATATAGTTAATATAATTAATATAATGGTATAAT
1 ATATATATAGTTAATATAATTAATACAA--GTATAAT
11192306 AT
1 AT
11192308 GTTAATTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 24 0.75
37 8 0.25
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (35 bp):
ATATATATAGTTAATATAATTAATACAAGTATAAT
Found at i:11194360 original size:7 final size:7
Alignment explanation
Indices: 11194348--11194376 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11194338 GCACAATTGT
11194348 TAAAATA
1 TAAAATA
11194355 TAAAATA
1 TAAAATA
11194362 TAAAAT-
1 TAAAATA
11194368 TAAAATA
1 TAAAATA
11194375 TA
1 TA
11194377 TTTAATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAAAATA
Found at i:11194373 original size:13 final size:14
Alignment explanation
Indices: 11194348--11194376 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11194338 GCACAATTGT
11194348 TAAAATATAAAATA
1 TAAAATATAAAATA
11194362 TAAAAT-TAAAATA
1 TAAAATATAAAATA
11194375 TA
1 TA
11194377 TTTAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAATATAAAATA
Found at i:11212752 original size:63 final size:62
Alignment explanation
Indices: 11212533--11212756 Score: 249
Period size: 63 Copynumber: 3.6 Consensus size: 62
11212523 GTGCATCATT
* * * *
11212533 ACCGGCATGTGCACTGCCCACTCCGCACATGCACGATTGTAAATATCACGACA--G-CA-TCA
1 ACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGT-AGTGTCACAACATCGTCATTCA
* * * *
11212592 TACCGGCATGTGCACTGCCTACTCCGTACATGCACAGTTGTAAGTGTCACAACATCGTCATTCG
1 -ACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGT-AGTGTCACAACATCGTCATTCA
* * * *
11212656 ACCGGCATATGCGCTGCCCACTCCGCATATGCATGGTTGTAGTTGTCACAACATCGTCATTCA
1 ACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAG-TGTCACAACATCGTCATTCA
** *
11212719 ACCGGCATGTGCACTGCCCACTCTACACATGCATGGTT
1 ACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTT
11212757 ACATCAATTA
Statistics
Matches: 138, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
60 46 0.33
62 3 0.02
63 87 0.63
64 2 0.01
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (62 bp):
ACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAGTGTCACAACATCGTCATTCA
Found at i:11213383 original size:23 final size:23
Alignment explanation
Indices: 11213337--11213384 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11213327 TTTCTAAATA
* *
11213337 ATTTCCACCCAAATCCATCTTAT
1 ATTTCCACACAAATCCATCATAT
11213360 ATTTCCACACATAATCCA-CATAT
1 ATTTCCACACA-AATCCATCATAT
11213383 AT
1 AT
11213385 GGCAGCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.33
Consensus pattern (23 bp):
ATTTCCACACAAATCCATCATAT
Found at i:11216377 original size:43 final size:43
Alignment explanation
Indices: 11216323--11216447 Score: 164
Period size: 43 Copynumber: 2.9 Consensus size: 43
11216313 TCATTCATCA
*
11216323 TCATGTGCACTCCCTACTCGCACATAGCCGAGTCATCATC-GAC
1 TCATGCGCACTCCCTACTCGCACATAGCCGAGTCATCATCAG-C
* *
11216366 TTATGCGCACTCCCTACTCGCACATAGCCAAGTCATCATCAGC
1 TCATGCGCACTCCCTACTCGCACATAGCCGAGTCATCATCAGC
* * *
11216409 TCATGTGCACTCCC-ACATCGCACATAGCTGGGTCATCAT
1 TCATGCGCACTCCCTAC-TCGCACATAGCCGAGTCATCAT
11216448 TATCACACAA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
42 2 0.03
43 69 0.96
44 1 0.01
ACGTcount: A:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (43 bp):
TCATGCGCACTCCCTACTCGCACATAGCCGAGTCATCATCAGC
Found at i:11222396 original size:27 final size:27
Alignment explanation
Indices: 11222358--11222411 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
11222348 TGGTTGCCAT
11222358 ATTTATGACAGCATACATGATACTAAC
1 ATTTATGACAGCATACATGATACTAAC
11222385 ATTTATGACAGCATACATGATACTAAC
1 ATTTATGACAGCATACATGATACTAAC
11222412 TACAAACTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (27 bp):
ATTTATGACAGCATACATGATACTAAC
Found at i:11238530 original size:6 final size:6
Alignment explanation
Indices: 11238519--11238556 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
11238509 GCAAGGCAAG
11238519 GCTCAA GCTCAA GCTCAA GCTCAA GCTCAA GCTCAA GC
1 GCTCAA GCTCAA GCTCAA GCTCAA GCTCAA GCTCAA GC
11238557 AAGCTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (6 bp):
GCTCAA
Found at i:11244159 original size:22 final size:22
Alignment explanation
Indices: 11244115--11244161 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
11244105 TACTCCAACT
* *
11244115 AAACTAAAATAAAATTTAAAAG
1 AAACTAAAATAAAAATCAAAAG
11244137 AAAC-AAAATAAAAATCAATAAG
1 AAACTAAAATAAAAATCAA-AAG
11244159 AAA
1 AAA
11244162 GAAGAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.17
Consensus pattern (22 bp):
AAACTAAAATAAAAATCAAAAG
Found at i:11248211 original size:31 final size:31
Alignment explanation
Indices: 11248176--11248272 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 31
11248166 ATCATGAAAG
11248176 AATTTACTAAAAGTATGGATCACCTTGATTA
1 AATTTACTAAAAGTATGGATCACCTTGATTA
* * ** *
11248207 AATTT-TTAAATTATTATTTTATCA---TGA-AA
1 AATTTACTAAA--AGTA-TGGATCACCTTGATTA
11248236 GAATTTACTAAAAGTATGGATCACCTTGATTA
1 -AATTTACTAAAAGTATGGATCACCTTGATTA
11248268 AATTT
1 AATTT
11248273 TTAAATTATT
Statistics
Matches: 47, Mismatches: 10, Indels: 18
0.63 0.13 0.24
Matches are distributed among these distances:
28 5 0.11
29 4 0.09
30 12 0.26
31 17 0.36
32 4 0.09
33 5 0.11
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.41
Consensus pattern (31 bp):
AATTTACTAAAAGTATGGATCACCTTGATTA
Found at i:11248234 original size:61 final size:61
Alignment explanation
Indices: 11248140--11248302 Score: 310
Period size: 61 Copynumber: 2.7 Consensus size: 61
11248130 TAATTTTCCG
11248140 TTGATTAAA-TTTTAAATTATTATTTTATCATGAAAGAATTTACTAAAAGTATGGATCACC
1 TTGATTAAATTTTTAAATTATTATTTTATCATGAAAGAATTTACTAAAAGTATGGATCACC
11248200 TTGATTAAATTTTTAAATTATTATTTTATCATGAAAGAATTTACTAAAAGTATGGATCACC
1 TTGATTAAATTTTTAAATTATTATTTTATCATGAAAGAATTTACTAAAAGTATGGATCACC
*
11248261 TTGATTAAATTTTTAAATTATTATTTTATCATGAAAAAATTT
1 TTGATTAAATTTTTAAATTATTATTTTATCATGAAAGAATTT
11248303 GTTAATTATA
Statistics
Matches: 101, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
60 9 0.09
61 92 0.91
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.45
Consensus pattern (61 bp):
TTGATTAAATTTTTAAATTATTATTTTATCATGAAAGAATTTACTAAAAGTATGGATCACC
Found at i:11249372 original size:26 final size:26
Alignment explanation
Indices: 11249343--11249429 Score: 120
Period size: 26 Copynumber: 3.3 Consensus size: 26
11249333 TAATTCTAAG
* * *
11249343 GATAATTTTGCTACTAAAAGTGGATC
1 GATAATTTTGCTACCAGAAGTGGATA
*
11249369 GATAATTTTGATACCAGAAGTGGATA
1 GATAATTTTGCTACCAGAAGTGGATA
* *
11249395 GATAATTTTACTACCAGAAGTGGATG
1 GATAATTTTGCTACCAGAAGTGGATA
11249421 GATAATTTT
1 GATAATTTT
11249430 ATCATCAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (26 bp):
GATAATTTTGCTACCAGAAGTGGATA
Found at i:11249430 original size:26 final size:25
Alignment explanation
Indices: 11249342--11249450 Score: 119
Period size: 26 Copynumber: 4.2 Consensus size: 25
11249332 TTAATTCTAA
* *
11249342 GGATAATTTTGCTACTAAAAGTGGAT
1 GGATAATTTT-ATACCAAAAGTGGAT
* *
11249368 CGATAATTTTGATACCAGAAGTGGAT
1 GGATAATTTT-ATACCAAAAGTGGAT
* *
11249394 AGATAATTTTACTACCAGAAGTGGAT
1 GGATAATTTTA-TACCAAAAGTGGAT
*
11249420 GGATAATTTTATCATCAAAAGTGGAT
1 GGATAATTTTAT-ACCAAAAGTGGAT
11249446 GGATA
1 GGATA
11249451 CCTTAACCCA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
25 2 0.03
26 71 0.97
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (25 bp):
GGATAATTTTATACCAAAAGTGGAT
Found at i:11249442 original size:52 final size:52
Alignment explanation
Indices: 11249343--11249450 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
11249333 TAATTCTAAG
* * *
11249343 GATAATTTTGCTACTAAAAGTGGATCGATAATTTTGATACCAGAAGTGGATA
1 GATAATTTTACTACCAAAAGTGGATCGATAATTTTGATACCAAAAGTGGATA
* * * *
11249395 GATAATTTTACTACCAGAAGTGGATGGATAATTTT-ATCATCAAAAGTGGATG
1 GATAATTTTACTACCAAAAGTGGATCGATAATTTTGAT-ACCAAAAGTGGATA
11249447 GATA
1 GATA
11249451 CCTTAACCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.04
52 46 0.96
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.32
Consensus pattern (52 bp):
GATAATTTTACTACCAAAAGTGGATCGATAATTTTGATACCAAAAGTGGATA
Found at i:11249560 original size:28 final size:28
Alignment explanation
Indices: 11249499--11249560 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
11249489 AAGAAATGGG
*
11249499 TAAATACTTGTAACCTACCAAAAGTAGA
1 TAAATACTTGTAACCTACCAAAAGTAAA
* * *
11249527 TGAATACTTTTAACCTATCAAAAGTAAA
1 TAAATACTTGTAACCTACCAAAAGTAAA
11249555 TAAATA
1 TAAATA
11249561 ATGAAAAGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (28 bp):
TAAATACTTGTAACCTACCAAAAGTAAA
Found at i:11249850 original size:64 final size:64
Alignment explanation
Indices: 11249733--11249857 Score: 153
Period size: 64 Copynumber: 2.0 Consensus size: 64
11249723 AGTTGATATA
** *
11249733 TTGTTAATTTTCATATCCACCCTAAAAAGGGAATTGATCATATGTTTGATAATGGAAATATCCG
1 TTGTTAATTTTCATATCCACCCTAAAAAGGGAATTGATCATATAATTGATAATGAAAATATCCG
* * * * * *
11249797 TTGTTGATTTTCTTATCCACCCT-GAGAGAGGAATTGATCATTTAATTGGTAATGAAAATAT
1 TTGTTAATTTTCATATCCACCCTAAAAAG-GGAATTGATCATATAATTGATAATGAAAATAT
11249858 TAAGAATAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 3 0.06
64 48 0.94
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.38
Consensus pattern (64 bp):
TTGTTAATTTTCATATCCACCCTAAAAAGGGAATTGATCATATAATTGATAATGAAAATATCCG
Found at i:11251811 original size:27 final size:27
Alignment explanation
Indices: 11251743--11251803 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
11251733 ATTTAATCTA
11251743 AATAAAAGTATAAAAGTTTGATTGAGT
1 AATAAAAGTATAAAAGTTTGATTGAGT
* *
11251770 AATTACAGTATAAAAGTTTGATTGAGT
1 AATAAAAGTATAAAAGTTTGATTGAGT
11251797 AATAAAA
1 AATAAAA
11251804 AAATAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (27 bp):
AATAAAAGTATAAAAGTTTGATTGAGT
Found at i:11253778 original size:3 final size:3
Alignment explanation
Indices: 11253770--11253810 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
11253760 TATATGTACC
*
11253770 TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11253811 GAGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11257348 original size:25 final size:25
Alignment explanation
Indices: 11257319--11257366 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
11257309 GAATGCAAAT
*
11257319 GAGTTTGATTCATCTAATTCTAGAG
1 GAGTTTGATTCATCTAATCCTAGAG
11257344 GAGTTTGATTCATCTAATCCTAG
1 GAGTTTGATTCATCTAATCCTAG
11257367 TTCAGTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (25 bp):
GAGTTTGATTCATCTAATCCTAGAG
Found at i:11257702 original size:33 final size:33
Alignment explanation
Indices: 11257628--11257690 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
11257618 ATGTCAAATT
* *
11257628 AACATGTCATGTCATCATCAATTATGATATGCC
1 AACATGTCATATCATAATCAATTATGATATGCC
11257661 AACATGTCATATCATAATCAATTATGATAT
1 AACATGTCATATCATAATCAATTATGATAT
11257691 TTTAGCATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (33 bp):
AACATGTCATATCATAATCAATTATGATATGCC
Found at i:11259592 original size:15 final size:15
Alignment explanation
Indices: 11259569--11259616 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
11259559 ATTATAAAAC
*
11259569 TAAAATAAAACAACT
1 TAAATTAAAACAACT
11259584 TAAATTAAAACAACT
1 TAAATTAAAACAACT
*
11259599 TGAATTAAAACAACT
1 TAAATTAAAACAACT
11259614 TAA
1 TAA
11259617 CATGATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.25
Consensus pattern (15 bp):
TAAATTAAAACAACT
Found at i:11260624 original size:70 final size:69
Alignment explanation
Indices: 11260550--11260693 Score: 261
Period size: 70 Copynumber: 2.1 Consensus size: 69
11260540 AATCACCAAA
*
11260550 AAAAAAAAACCACTCTTTGATTCCTTTCCTTCTCCTATTTCCTTTTTCTTGAATGGGATCATATA
1 AAAAAAAAACCACTCTTTGATTCCTTTCCTTCTCCTATTTCCTTTTTCTTGAATGGCATCATATA
11260615 TTATT
66 TTA-T
*
11260620 AAAAAAAAACCACTCTTTGATTCCTTTCCTTCTCCTATTTCCTTTTTTTTGAATGGCATCATATA
1 AAAAAAAAACCACTCTTTGATTCCTTTCCTTCTCCTATTTCCTTTTTCTTGAATGGCATCATATA
11260685 TTAT
66 TTAT
11260689 AAAAA
1 AAAAA
11260694 TGACAGAGCC
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 6 0.08
70 66 0.92
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (69 bp):
AAAAAAAAACCACTCTTTGATTCCTTTCCTTCTCCTATTTCCTTTTTCTTGAATGGCATCATATA
TTAT
Found at i:11272253 original size:20 final size:21
Alignment explanation
Indices: 11272224--11272269 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11272214 ACTGCTAGTT
* *
11272224 CATTTTGG-AATGTATCGATA
1 CATTTGGGAAATGTATCCATA
11272244 CATTTGGGAAATGTATCCATA
1 CATTTGGGAAATGTATCCATA
11272265 CATTT
1 CATTT
11272270 TGGGCATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (21 bp):
CATTTGGGAAATGTATCCATA
Found at i:11272437 original size:21 final size:20
Alignment explanation
Indices: 11272412--11272470 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
11272402 GGCAAGAGAG
*
11272412 GTTTAAAAATAGTTTAAACAA
1 GTTTAAAAATA-TTCAAACAA
*
11272433 GTTTAAAATCTATTCAAACAA
1 GTTTAAAA-ATATTCAAACAA
*
11272454 GTTCAAAAATCATTCAA
1 GTTTAAAAAT-ATTCAA
11272471 GAAATTCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.91
22 2 0.06
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (20 bp):
GTTTAAAAATATTCAAACAA
Found at i:11272497 original size:21 final size:19
Alignment explanation
Indices: 11272437--11272497 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 19
11272427 AAACAAGTTT
*
11272437 AAAATCTATTCAAACAAGTTC
1 AAAATTTATTCAAA-AA-TTC
* *
11272458 AAAAATCATTCAAGAAATTCC
1 AAAATTTATTCAA-AAATT-C
11272479 AAAATTTATTCAAATAATT
1 AAAATTTATTCAAA-AATT
11272498 TTAAACCTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 3 0.09
21 28 0.88
22 1 0.03
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATTTATTCAAAAATTC
Found at i:11272573 original size:21 final size:22
Alignment explanation
Indices: 11272544--11272630 Score: 99
Period size: 21 Copynumber: 4.1 Consensus size: 22
11272534 AAGCTTAATT
* *
11272544 AAACTAGTTTAAAAACT-ATTC
1 AAACAAGTTAAAAAACTCATTC
11272565 AAACAAGTTAAAAAACTCATTC
1 AAACAAGTTAAAAAACTCATTC
* *
11272587 AAACAACTTCAAAAA-TCATTC
1 AAACAAGTTAAAAAACTCATTC
* *
11272608 AAACAAGTTCAAAGA-TCATTC
1 AAACAAGTTAAAAAACTCATTC
11272629 AA
1 AA
11272631 GTAATTTTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 42 0.71
22 17 0.29
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.25
Consensus pattern (22 bp):
AAACAAGTTAAAAAACTCATTC
Found at i:11272599 original size:139 final size:139
Alignment explanation
Indices: 11272412--11272664 Score: 338
Period size: 139 Copynumber: 1.8 Consensus size: 139
11272402 GGCAAGAGAG
* * * *
11272412 GTTTAAAAATAGTTTAAACAAGTTTAAAATCTATTCAAACAAGTTCAAAAATCATTCAAGA-AA-
1 GTTTAAAAATAGTTCAAACAAGTTAAAAAACTATTCAAACAACTTCAAAAATCATTCAA-ACAAG
*
11272475 TTCCAAA-ATTTATTCAAATAATTTT-A-AACCTCTTCACATGGAAACACTTAGGATCTTCAAAG
65 TT-CAAAGA-TCATTCAAATAATTTTGATAA-CTCTTCACATGGAAACACTTAGGATCTTCAAAG
11272537 CTTAATTAAACTA
127 CTTAATTAAACTA
11272550 GTTTAAAAACTA-TTCAAACAAGTTAAAAAACTCATTCAAACAACTTCAAAAATCATTCAAACAA
1 GTTTAAAAA-TAGTTCAAACAAGTTAAAAAACT-ATTCAAACAACTTCAAAAATCATTCAAACAA
* * *
11272614 GTTCAAAGATCATTCAAGTAATTTTGATAATTTTTCACATGGAAACACTTA
64 GTTCAAAGATCATTCAAATAATTTTGATAACTCTTCACATGGAAACACTTA
11272665 TGTACTTCAA
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
138 27 0.27
139 48 0.48
140 23 0.23
141 2 0.02
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (139 bp):
GTTTAAAAATAGTTCAAACAAGTTAAAAAACTATTCAAACAACTTCAAAAATCATTCAAACAAGT
TCAAAGATCATTCAAATAATTTTGATAACTCTTCACATGGAAACACTTAGGATCTTCAAAGCTTA
ATTAAACTA
Found at i:11272749 original size:21 final size:21
Alignment explanation
Indices: 11272725--11272790 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
11272715 TCAAAAACAT
* *
11272725 ATTCAAACAACTTCAAAAATC
1 ATTCAAACAAGTTCAAAGATC
* *
11272746 ATTCAACCAAGTTCAAGGATC
1 ATTCAAACAAGTTCAAAGATC
*
11272767 ACTCAAACAAGTTCAAAGATC
1 ATTCAAACAAGTTCAAAGATC
11272788 ATT
1 ATT
11272791 GGAGCAATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.24
Consensus pattern (21 bp):
ATTCAAACAAGTTCAAAGATC
Found at i:11277704 original size:13 final size:13
Alignment explanation
Indices: 11277686--11277710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11277676 GGAAAAATTG
11277686 TGATTTTATAAAA
1 TGATTTTATAAAA
11277699 TGATTTTATAAA
1 TGATTTTATAAA
11277711 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:11284707 original size:20 final size:20
Alignment explanation
Indices: 11284678--11284738 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
11284668 GTTCTGGATC
11284678 AAATGTATCGATACATTTTG
1 AAATGTATCGATACATTTTG
*
11284698 AAATGCATCGATACATTTTGG
1 AAATGTATCGATACATTTT-G
*
11284719 AAATGTATCCATACATTTTG
1 AAATGTATCGATACATTTTG
11284739 GGTAGAACCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 19 0.51
21 18 0.49
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (20 bp):
AAATGTATCGATACATTTTG
Found at i:11284723 original size:21 final size:21
Alignment explanation
Indices: 11284678--11284739 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
11284668 GTTCTGGATC
11284678 AAATGTATCGATACATTTT-G
1 AAATGTATCGATACATTTTGG
*
11284698 AAATGCATCGATACATTTTGG
1 AAATGTATCGATACATTTTGG
*
11284719 AAATGTATCCATACATTTTGG
1 AAATGTATCGATACATTTTGG
11284740 GTAGAACCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 18 0.47
21 20 0.53
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (21 bp):
AAATGTATCGATACATTTTGG
Found at i:11284918 original size:21 final size:21
Alignment explanation
Indices: 11284894--11284958 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
11284884 AAAATAATTT
11284894 AAACAAG-TCTAAAAACTATTC
1 AAACAAGTTC-AAAAACTATTC
*
11284915 AAACAAGTTCAAAAATTATTC
1 AAACAAGTTCAAAAACTATTC
* *
11284936 AAGCAA-TTCCAAAACTCATTC
1 AAACAAGTTCAAAAACT-ATTC
11284957 AA
1 AA
11284959 GCAATTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.21
21 28 0.74
22 2 0.05
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.25
Consensus pattern (21 bp):
AAACAAGTTCAAAAACTATTC
Found at i:11291650 original size:21 final size:21
Alignment explanation
Indices: 11291633--11291694 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
11291623 TAAAAAATAT
*
11291633 ATTCAAACAATTTCAAAAATC
1 ATTCAAACAAGTTCAAAAATC
**
11291654 ATTCAAACAAGTTCAAGGATC
1 ATTCAAACAAGTTCAAAAATC
* *
11291675 ACTCAAACAAATTCAAAAAT
1 ATTCAAACAAGTTCAAAAAT
11291695 TATTGAAGCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (21 bp):
ATTCAAACAAGTTCAAAAATC
Found at i:11294823 original size:27 final size:27
Alignment explanation
Indices: 11294723--11294816 Score: 188
Period size: 27 Copynumber: 3.5 Consensus size: 27
11294713 AAGTTGGGTT
11294723 AATAAAATAAAATAATTATTTTATTCA
1 AATAAAATAAAATAATTATTTTATTCA
11294750 AATAAAATAAAATAATTATTTTATTCA
1 AATAAAATAAAATAATTATTTTATTCA
11294777 AATAAAATAAAATAATTATTTTATTCA
1 AATAAAATAAAATAATTATTTTATTCA
11294804 AATAAAATAAAAT
1 AATAAAATAAAAT
11294817 GTTTATTAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAAAATAAAATAATTATTTTATTCA
Found at i:11296538 original size:16 final size:17
Alignment explanation
Indices: 11296507--11296541 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11296497 AATTATAAAT
11296507 AAAATATTAATATTTTA
1 AAAATATTAATATTTTA
*
11296524 AAAATGTTAAT-TTTTA
1 AAAATATTAATATTTTA
11296540 AA
1 AA
11296542 CTATAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
AAAATATTAATATTTTA
Found at i:11296685 original size:23 final size:23
Alignment explanation
Indices: 11296647--11296704 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
11296637 ATGGGTTAAT
11296647 ATTAAAAAAATAGAAAAAAGACAA
1 ATTAAAAAAATAGAAAAAAG-CAA
*
11296671 ANTAAAAAAAT-GAAAAAAGCAA
1 ATTAAAAAAATAGAAAAAAGCAA
11296693 ATTGAAAAAAAT
1 ATT-AAAAAAAT
11296705 TATATTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 5 0.16
23 16 0.52
24 10 0.32
ACGTcount: A:0.72, C:0.03, G:0.09, T:0.14
Consensus pattern (23 bp):
ATTAAAAAAATAGAAAAAAGCAA
Found at i:11297356 original size:16 final size:16
Alignment explanation
Indices: 11297325--11297377 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
11297315 GACAGATATG
11297325 AGAAAA-GAAAAAAAA
1 AGAAAATGAAAAAAAA
*
11297340 AGAAAATGAAGAAAAA
1 AGAAAATGAAAAAAAA
** *
11297356 AGAAAATTTAAAATAA
1 AGAAAATGAAAAAAAA
11297372 AGAAAA
1 AGAAAA
11297378 AATTAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 6 0.19
16 26 0.81
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.09
Consensus pattern (16 bp):
AGAAAATGAAAAAAAA
Found at i:11297361 original size:23 final size:23
Alignment explanation
Indices: 11297325--11297379 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
11297315 GACAGATATG
*
11297325 AGAAAAGAAAAAAAAAGAAAATGA
1 AGAAAA-AAAAAAAAAGAAAATAA
* ***
11297349 AGAAAAAAGAAAATTTAAAATAA
1 AGAAAAAAAAAAAAAGAAAATAA
11297372 AGAAAAAA
1 AGAAAAAA
11297380 TTAAAAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (23 bp):
AGAAAAAAAAAAAAAGAAAATAA
Found at i:11297900 original size:2 final size:2
Alignment explanation
Indices: 11297895--11297922 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11297885 AAAAAATCTT
11297895 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
11297923 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11299129 original size:25 final size:25
Alignment explanation
Indices: 11299101--11299151 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
11299091 TTTAAAAGAG
*
11299101 AAAT-AAATACTAGAGAAATAGAAAT
1 AAATCAAA-ACTAGAAAAATAGAAAT
* *
11299126 AAATCAAAATTTGAAAAATAGAAAT
1 AAATCAAAACTAGAAAAATAGAAAT
11299151 A
1 A
11299152 CTAAAGCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.65, C:0.04, G:0.10, T:0.22
Consensus pattern (25 bp):
AAATCAAAACTAGAAAAATAGAAAT
Found at i:11301311 original size:21 final size:19
Alignment explanation
Indices: 11301285--11301325 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
11301275 AATTTAAAAC
11301285 AAAATAACATAAAATTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
11301306 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
11301325 A
1 A
11301326 CTCAACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:11303302 original size:43 final size:42
Alignment explanation
Indices: 11303233--11303358 Score: 180
Period size: 43 Copynumber: 3.0 Consensus size: 42
11303223 GCCACACTAT
*
11303233 GCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCA
1 GCTCATGTGCACTCCC-ACACGCACATAGCTGGGTCATCATCA
* *
11303276 GCTCATGTGCATTCCCACACCACACATAGCTGGGTCATCATCA
1 GCTCATGTGCACTCCCACA-CGCACATAGCTGGGTCATCATCA
* * *
11303319 GCTCATATGCACTCCCACACGTACATGGCTGGGTCATCAT
1 GCTCATGTGCACTCCCACACGCACATAGCTGGGTCATCAT
11303359 TATCACACAA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 20 0.27
43 54 0.73
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (42 bp):
GCTCATGTGCACTCCCACACGCACATAGCTGGGTCATCATCA
Found at i:11308779 original size:15 final size:16
Alignment explanation
Indices: 11308749--11308783 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11308739 ATAAAATATT
11308749 ATGTTTTTCAATTAAA
1 ATGTTTTTCAATTAAA
* *
11308765 ATGTTTTTTAATAAAA
1 ATGTTTTTCAATTAAA
11308781 ATG
1 ATG
11308784 AGATTTATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (16 bp):
ATGTTTTTCAATTAAA
Found at i:11312282 original size:34 final size:34
Alignment explanation
Indices: 11312244--11312311 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
11312234 AGTTAATTAG
11312244 GATAGTTTATCATTTACTTTTCGTTATGATTGTT
1 GATAGTTTATCATTTACTTTTCGTTATGATTGTT
11312278 GATAGTTTATCATTTACTTTTCGTTATGATTGTT
1 GATAGTTTATCATTTACTTTTCGTTATGATTGTT
11312312 TGAAAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.56
Consensus pattern (34 bp):
GATAGTTTATCATTTACTTTTCGTTATGATTGTT
Found at i:11313718 original size:17 final size:16
Alignment explanation
Indices: 11313696--11313729 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11313686 TTTATTTTGC
*
11313696 TTTAAGTTTAGTTATTA
1 TTTAAGTTAAGTT-TTA
11313713 TTTAAGTTAAGTTTTA
1 TTTAAGTTAAGTTTTA
11313729 T
1 T
11313730 GTTTTCATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (16 bp):
TTTAAGTTAAGTTTTA
Found at i:11317593 original size:14 final size:15
Alignment explanation
Indices: 11317569--11317612 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
11317559 AATCAAGCTT
11317569 TTTCATTTTCTTTTCC
1 TTTC-TTTTCTTTTCC
*
11317585 -TTGTTTTCTTTTCC
1 TTTCTTTTCTTTTCC
11317599 TTTCTTTTCTTTTC
1 TTTCTTTTCTTTTC
11317613 TTACTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTCTTTTCTTTTCC
Found at i:11317596 original size:5 final size:5
Alignment explanation
Indices: 11317568--11317614 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
11317558 AAATCAAGCT
* * *
11317568 TTTTC ATTTTC TTTTC -CTTG TTTTC TTTTC CTTTC TTTTC TTTTC TT
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
11317615 ACTTCTTCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
4 2 0.06
5 27 0.79
6 5 0.15
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:11318525 original size:35 final size:36
Alignment explanation
Indices: 11318442--11318568 Score: 143
Period size: 35 Copynumber: 3.5 Consensus size: 36
11318432 GGTGGTGTGT
* *
11318442 TGTGGGAGTGCACACACTGATGATATATGCCATGTGTGG
1 TGTGGGAGTG--CACA-TGATGATATATGCCTTGTGCGG
11318481 TGTGGGAGTGCACATGATGATAT-TGCCTTGTGCGG
1 TGTGGGAGTGCACATGATGATATATGCCTTGTGCGG
* * *
11318516 TGTGGGAGTGCACATGATGAT-TCTAG-ATATGTGCAG
1 TGTGGGAGTGCACATGATGATATAT-GCCT-TGTGCGG
11318552 TGTGGGAGTGCACATGA
1 TGTGGGAGTGCACATGA
11318569 GCTGGTGGAA
Statistics
Matches: 81, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
34 1 0.01
35 33 0.41
36 33 0.41
37 4 0.05
39 10 0.12
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.29
Consensus pattern (36 bp):
TGTGGGAGTGCACATGATGATATATGCCTTGTGCGG
Found at i:11318556 original size:36 final size:35
Alignment explanation
Indices: 11318442--11318568 Score: 127
Period size: 36 Copynumber: 3.5 Consensus size: 35
11318432 GGTGGTGTGT
11318442 TGTGGGAGTGCACACACTGATGATATATGCCATGTGTG--G
1 TGTGGGAGTG--CACA-TGATGATAT-TG-CAT-TGTGCAG
* *
11318481 TGTGGGAGTGCACATGATGATATTGCCTTGTGCGG
1 TGTGGGAGTGCACATGATGATATTGCATTGTGCAG
11318516 TGTGGGAGTGCACATGATGAT-TCTAG-ATATGTGCAG
1 TGTGGGAGTGCACATGATGATAT-T-GCAT-TGTGCAG
11318552 TGTGGGAGTGCACATGA
1 TGTGGGAGTGCACATGA
11318569 GCTGGTGGAA
Statistics
Matches: 80, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
33 4 0.05
34 3 0.04
35 26 0.32
36 33 0.41
37 4 0.05
39 10 0.12
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.29
Consensus pattern (35 bp):
TGTGGGAGTGCACATGATGATATTGCATTGTGCAG
Found at i:11318772 original size:21 final size:21
Alignment explanation
Indices: 11318748--11318802 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
11318738 ATTGCCTTGT
* *
11318748 TTCTCGTTATAGCAAAATTCA
1 TTCTCGCTACAGCAAAATTCA
*
11318769 TTCTCGCTGCAGCAAAATTCA
1 TTCTCGCTACAGCAAAATTCA
* *
11318790 TTCTTGCTGCAGC
1 TTCTCGCTACAGC
11318803 GAGAAACTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (21 bp):
TTCTCGCTACAGCAAAATTCA
Found at i:11322610 original size:14 final size:15
Alignment explanation
Indices: 11322591--11322623 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11322581 CTTTGTAGTG
11322591 GAAAAA-AGATAAGT
1 GAAAAAGAGATAAGT
*
11322605 GAAAAAGAGCTAAGT
1 GAAAAAGAGATAAGT
11322620 GAAA
1 GAAA
11322624 CAAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.61, C:0.03, G:0.24, T:0.12
Consensus pattern (15 bp):
GAAAAAGAGATAAGT
Found at i:11326836 original size:14 final size:14
Alignment explanation
Indices: 11326812--11326851 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
11326802 AAGCTTTTTT
*
11326812 TTTCTTCCTTTCTC
1 TTTCTTTCTTTCTC
11326826 TCTT-TTTCTTTCTC
1 T-TTCTTTCTTTCTC
11326840 TTTCTTTCTTTC
1 TTTCTTTCTTTC
11326852 CTGTCTCCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 2 0.09
14 19 0.83
15 2 0.09
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTCTTTCTTTCTC
Found at i:11326846 original size:24 final size:22
Alignment explanation
Indices: 11326805--11326848 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
11326795 CAAAACCAAG
11326805 CTTTTTTTTTCTTCCTTTCTCT
1 CTTTTTTTTTCTTCCTTTCTCT
*
11326827 CTTTTTCTTTCTCTTTCTTTCT
1 CTTTTT-TTT-TCTTCCTTTCT
11326849 TTCCTGTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 3 0.16
24 10 0.53
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
CTTTTTTTTTCTTCCTTTCTCT
Found at i:11326862 original size:20 final size:21
Alignment explanation
Indices: 11326817--11326865 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
11326807 TTTTTTTTCT
* * *
11326817 TCCTTTCTCTCTTTTTCTTTC
1 TCCTTTCTTTCTTTTCCTGTC
11326838 T-CTTTCTTTC-TTTCCTGTC
1 TCCTTTCTTTCTTTTCCTGTC
11326857 TCCTTTCTT
1 TCCTTTCTT
11326866 CCAACTGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 8 0.33
20 15 0.62
21 1 0.04
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (21 bp):
TCCTTTCTTTCTTTTCCTGTC
Found at i:11328369 original size:19 final size:19
Alignment explanation
Indices: 11328345--11328386 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11328335 AAGTTTTCTC
* *
11328345 AATTAGCGTCTAGCTTTAA
1 AATTAGCATCAAGCTTTAA
*
11328364 AATTAGCATCAAGCTTTAT
1 AATTAGCATCAAGCTTTAA
11328383 AATT
1 AATT
11328387 GTCTCTTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
AATTAGCATCAAGCTTTAA
Found at i:11329562 original size:61 final size:61
Alignment explanation
Indices: 11329455--11329746 Score: 433
Period size: 61 Copynumber: 4.8 Consensus size: 61
11329445 AGCTCATGTA
* * * *
11329455 CATCATCACCGGCATGTGCACTGCCCACTCCACACATGTAAC-GTTGTAATTATCATGACAG
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATG-CACGGTTGTAATTATCACGACAG
* * * *
11329516 CATCATTACCGGCATGTGCACTGCCCATTCCGCAAATGCACGGTTGTAATTATCACAACAA
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCACGACAG
* * *
11329577 CATCATTATCGGCATGTGCACTACCCACTCCGCACATGCACTGTTGTAATTATCACGACAG
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCACGACAG
* * *
11329638 CATCATTATCGGCATGTGCACTGCCCAATCCGCACATGCACGGTTGTAATTATCACGACAT
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCACGACAG
*
11329699 CATCATTACCGACATGTGCACTGCCCACTCCGCACATGCACGGTTGTA
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTA
11329747 TTTGTCACAC
Statistics
Matches: 208, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
60 2 0.01
61 206 0.99
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (61 bp):
CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCACGACAG
Found at i:11330324 original size:39 final size:39
Alignment explanation
Indices: 11330270--11330386 Score: 225
Period size: 39 Copynumber: 3.0 Consensus size: 39
11330260 ACGAAATTCC
11330270 TTAGATTATATCACCGGTAACTTATTTATGATGTCACGT
1 TTAGATTATATCACCGGTAACTTATTTATGATGTCACGT
*
11330309 TTAGATTATATCACCGGCAACTTATTTATGATGTCACGT
1 TTAGATTATATCACCGGTAACTTATTTATGATGTCACGT
11330348 TTAGATTATATCACCGGTAACTTATTTATGATGTCACGT
1 TTAGATTATATCACCGGTAACTTATTTATGATGTCACGT
11330387 GCCTACTTCA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.40
Consensus pattern (39 bp):
TTAGATTATATCACCGGTAACTTATTTATGATGTCACGT
Found at i:11333562 original size:67 final size:67
Alignment explanation
Indices: 11333479--11333611 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
11333469 AAAAGTTTGT
*
11333479 TTTGGGTTTTGGTTGATCCC-GTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTT-TGAAAAG
1 TTTGGGTTTTGGTTGATCCCAGT-AAAAACCATTGTTAAAGGTTGTGGTTGAG-CTTACGAAAAG
11333542 CCAC
64 CCAC
11333546 TTTGGGTTTTGGTTGATCCCAGTAAAAACCATTGTTAAAGGTTGTGGTTGAGCTTACGAAAAGCC
1 TTTGGGTTTTGGTTGATCCCAGTAAAAACCATTGTTAAAGGTTGTGGTTGAGCTTACGAAAAGCC
11333611 A
66 A
11333612 TTGTAAAAGC
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
66 3 0.05
67 58 0.92
68 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (67 bp):
TTTGGGTTTTGGTTGATCCCAGTAAAAACCATTGTTAAAGGTTGTGGTTGAGCTTACGAAAAGCC
AC
Done.