Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 71 of 120
Found at i:20927817 original size:13 final size:13
Alignment explanation
Indices: 20927799--20927834 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
20927789 GTAATCTTAA
20927799 AGATTCTTTTTGT
1 AGATTCTTTTTGT
20927812 AGATTCTTTTTGT
1 AGATTCTTTTTGT
*
20927825 AGATACTTTT
1 AGATTCTTTT
20927835 CAATCTTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.19, C:0.08, G:0.14, T:0.58
Consensus pattern (13 bp):
AGATTCTTTTTGT
Found at i:20933195 original size:15 final size:15
Alignment explanation
Indices: 20933175--20933208 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
20933165 ACTAAAACCT
20933175 TATTTTGGACATAGC
1 TATTTTGGACATAGC
*
20933190 TATTTTGGACATAGT
1 TATTTTGGACATAGC
20933205 TATT
1 TATT
20933209 CTCGAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (15 bp):
TATTTTGGACATAGC
Found at i:20937865 original size:40 final size:40
Alignment explanation
Indices: 20937810--20937929 Score: 186
Period size: 40 Copynumber: 3.0 Consensus size: 40
20937800 GACATTAGAA
*
20937810 TAATTTCAAGCTACGACTTAGCAGGCTTTGAGTCGGTGTC
1 TAATTTCAAGCTACGACTTAGCAGGCTTTGAGCCGGTGTC
*
20937850 TAATTTCAAGCTACGACTTAGCAGGCCTTGAGCCGGTGTC
1 TAATTTCAAGCTACGACTTAGCAGGCTTTGAGCCGGTGTC
* * * *
20937890 TAAATTCAAGCTACGGCTTTGCAGGCTATGAGCCGGTGTC
1 TAATTTCAAGCTACGACTTAGCAGGCTTTGAGCCGGTGTC
20937930 AAAAGTCAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
TAATTTCAAGCTACGACTTAGCAGGCTTTGAGCCGGTGTC
Found at i:20937939 original size:40 final size:39
Alignment explanation
Indices: 20937814--20937942 Score: 177
Period size: 40 Copynumber: 3.2 Consensus size: 39
20937804 TTAGAATAAT
* *
20937814 TTCAAGCTACGACTTAGCAGGCTTTGAGTCGGTGTCTAAT
1 TTCAAGCTACGACTTAGCAGGC-TTGAGCCGGTGTCTAAA
20937854 TTCAAGCTACGACTTAGCAGGCCTTGAGCCGGTGTCTAAA
1 TTCAAGCTACGACTTAGCAGG-CTTGAGCCGGTGTCTAAA
* * *
20937894 TTCAAGCTACGGCTTTGCAGGCTATGAGCCGGTGTCAAAA
1 TTCAAGCTACGACTTAGCAGGCT-TGAGCCGGTGTCTAAA
*
20937934 GTCAAGCTA
1 TTCAAGCTA
20937943 GGTTATGGCT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.02
40 78 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (39 bp):
TTCAAGCTACGACTTAGCAGGCTTGAGCCGGTGTCTAAA
Found at i:20951082 original size:21 final size:21
Alignment explanation
Indices: 20951058--20951107 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
20951048 GGTTTGCTTT
*
20951058 GGTAGAAGAGTCATTTGTATC
1 GGTAGAAGAGTCACTTGTATC
**
20951079 GGTAGAACTGTCACTTGTATC
1 GGTAGAAGAGTCACTTGTATC
*
20951100 TGTAGAAG
1 GGTAGAAG
20951108 TCTACACTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (21 bp):
GGTAGAAGAGTCACTTGTATC
Found at i:20957139 original size:29 final size:29
Alignment explanation
Indices: 20957106--20957163 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
20957096 AGGGTGATTG
20957106 GGTGTCATGTTATAACCTTAAATGATATT
1 GGTGTCATGTTATAACCTTAAATGATATT
20957135 GGTGTCATGTTATAACCTTAAATGATATT
1 GGTGTCATGTTATAACCTTAAATGATATT
20957164 TACTCAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (29 bp):
GGTGTCATGTTATAACCTTAAATGATATT
Found at i:20957530 original size:2 final size:2
Alignment explanation
Indices: 20957523--20957623 Score: 67
Period size: 2 Copynumber: 50.5 Consensus size: 2
20957513 TATAAACATG
* * * * * * * *
20957523 TA TA TA TA TA TA TG TA TG TG TA TA CA TA TA TA TA TG CA CA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
20957565 TA TA TA TC TG TA TA TA TG TA TA TA TA TA TA TA AA CA 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
* *
20957607 CA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA T
20957624 GTTTGGGTTG
Statistics
Matches: 75, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.46
Consensus pattern (2 bp):
TA
Found at i:20957541 original size:18 final size:18
Alignment explanation
Indices: 20957520--20957623 Score: 77
Period size: 18 Copynumber: 5.9 Consensus size: 18
20957510 ATTTATAAAC
*
20957520 ATGTATATATATATATGT
1 ATGTATATATATATATAT
* *
20957538 ATGTGTATACATATATAT
1 ATGTATATATATATATAT
* *
20957556 ATGCACAT-T-TATATAT
1 ATGTATATATATATATAT
* *
20957572 CTGTATATATGTATATAT
1 ATGTATATATATATATAT
* * * *
20957590 ATATATAAACATATATAC
1 ATGTATATATATATATAT
* *
20957608 ATATATATATGTATAT
1 ATGTATATATATATAT
20957624 GTTTGGGTTG
Statistics
Matches: 65, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
16 12 0.18
17 1 0.02
18 52 0.80
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (18 bp):
ATGTATATATATATATAT
Found at i:20957958 original size:71 final size:71
Alignment explanation
Indices: 20957826--20957977 Score: 155
Period size: 71 Copynumber: 2.1 Consensus size: 71
20957816 ATTTTGGAGT
* * * ** **
20957826 AATATCGGTAATAGGAAGCTATGTATCGATAAAAATTCTCAGTCTAGTTAGTCTTGCTCACTATC
1 AATATCGGTAATAGGAAGCAATGTATCGATAAAAATTCTCAGGCTAGATAAACTTGCTCACTAGA
*
20957891 ATTTGA
66 ATTAGA
* * * *
20957897 AATATCGGTAATTA-GAATCAATGTATCGGTAGAAA-TCTTCAGGCTAGATAAACTTGTTCACTA
1 AATATCGGTAA-TAGGAAGCAATGTATCGATAAAAATTC-TCAGGCTAGATAAACTTGCTCACTA
20957960 GAATTAGA
64 GAATTAGA
*
20957968 AGTATCGGTA
1 AATATCGGTA
20957978 GAGTAATGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
70 2 0.03
71 62 0.94
72 2 0.03
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (71 bp):
AATATCGGTAATAGGAAGCAATGTATCGATAAAAATTCTCAGGCTAGATAAACTTGCTCACTAGA
ATTAGA
Found at i:20964946 original size:40 final size:40
Alignment explanation
Indices: 20964888--20965032 Score: 195
Period size: 40 Copynumber: 3.7 Consensus size: 40
20964878 GACGTTAGAA
*
20964888 TAATTTCAAGCTACGGCTTAGCAGGCTTTGAGTCGGTGTC
1 TAATTTCAAGCTACGACTTAGCAGGCTTTGAGTCGGTGTC
* * * *
20964928 TAATTTCAAGCTATGGCTTAGCAGGCTTTGAGCCGGTATC
1 TAATTTCAAGCTACGACTTAGCAGGCTTTGAGTCGGTGTC
* * * *
20964968 TAATTTCAAGCTACAAC--AGCAGACCTTGAGTCGATGTC
1 TAATTTCAAGCTACGACTTAGCAGGCTTTGAGTCGGTGTC
20965006 TAATTTCAAGCTACGACTTAGCAGGCT
1 TAATTTCAAGCTACGACTTAGCAGGCT
20965033 ATAAGCCGAT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
38 32 0.36
40 57 0.64
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (40 bp):
TAATTTCAAGCTACGACTTAGCAGGCTTTGAGTCGGTGTC
Found at i:20965040 original size:78 final size:79
Alignment explanation
Indices: 20964888--20965040 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 79
20964878 GACGTTAGAA
** * * * * *
20964888 TAATTTCAAGCTACGGCTTAGCAGGCTTTGAGTCGGTGTCTAATTTCAAGCTATGGCTTAGCAGG
1 TAATTTCAAGCTACAAC-TAGCAGACCTTGAGTCGATGTCTAATTTCAAGCTACGACTTAGCAGG
* *
20964953 CTTTGAGCCGGTATC
65 CTATAAGCCGGTATC
20964968 TAATTTCAAGCTACAAC-AGCAGACCTTGAGTCGATGTCTAATTTCAAGCTACGACTTAGCAGGC
1 TAATTTCAAGCTACAACTAGCAGACCTTGAGTCGATGTCTAATTTCAAGCTACGACTTAGCAGGC
20965032 TATAAGCCG
66 TATAAGCCG
20965041 ATGTTAAAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 49 0.77
80 15 0.23
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (79 bp):
TAATTTCAAGCTACAACTAGCAGACCTTGAGTCGATGTCTAATTTCAAGCTACGACTTAGCAGGC
TATAAGCCGGTATC
Found at i:20968825 original size:21 final size:22
Alignment explanation
Indices: 20968786--20968833 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
20968776 AGTCAAACTA
*
20968786 ATTATAAATGGGTTTAATTAAG
1 ATTAAAAATGGGTTTAATTAAG
20968808 ATTAAAAATGGG-TTAATTAAG
1 ATTAAAAATGGGTTTAATTAAG
*
20968829 CTTAA
1 ATTAA
20968834 TGATAAGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.38
Consensus pattern (22 bp):
ATTAAAAATGGGTTTAATTAAG
Found at i:20970692 original size:21 final size:21
Alignment explanation
Indices: 20970666--20970712 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
20970656 GGAGTTTTTA
20970666 GTATCGGTAAAAG-CATGACTT
1 GTATCGGTAAAAGTCAT-ACTT
* *
20970687 GTATCGGTAGAAGTTATACTT
1 GTATCGGTAAAAGTCATACTT
20970708 GTATC
1 GTATC
20970713 AATAGGACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (21 bp):
GTATCGGTAAAAGTCATACTT
Found at i:20976250 original size:2 final size:2
Alignment explanation
Indices: 20976245--20976309 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
20976235 AAATATATAA
20976245 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20976287 AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG A
20976310 AACCTGAGCA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20977301 original size:23 final size:23
Alignment explanation
Indices: 20977256--20977315 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
20977246 TCAATATGTT
* *
20977256 ATTTGAATTATTTGAATTATAAA
1 ATTTAAATTATTTAAATTATAAA
*
20977279 ATTTAATTTGATTTAAATT-TAAA
1 ATTTAAATT-ATTTAAATTATAAA
20977302 ATTTAAATTATTTA
1 ATTTAAATTATTTA
20977316 TTCGAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 5 0.16
23 19 0.59
24 8 0.25
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (23 bp):
ATTTAAATTATTTAAATTATAAA
Found at i:20977866 original size:17 final size:17
Alignment explanation
Indices: 20977833--20977866 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20977823 AATTAAGTTA
* *
20977833 ATTATTAAGTTGTTAAT
1 ATTATTAAATTGGTAAT
20977850 ATTATTAAATTGGTAAT
1 ATTATTAAATTGGTAAT
20977867 TTTTTTATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
ATTATTAAATTGGTAAT
Found at i:20978572 original size:60 final size:60
Alignment explanation
Indices: 20978454--20978574 Score: 154
Period size: 60 Copynumber: 2.0 Consensus size: 60
20978444 TTGGTCACGA
* * * * *
20978454 TAAAGAATGATTCTATGTTGCTCACACAAGCTTTAGAGAATTCGCAACATGTGCTGGATC
1 TAAAGAACGATTCGATGCTGCTCACACAAGCTTCAGAGAATTCGCAACACGTGCTGGATC
* * *
20978514 TAAAGAACGGTTCGATGCTGCTCACACAAGCTTCAGAGAA-TCTGTAACACGTGTTGGATC
1 TAAAGAACGATTCGATGCTGCTCACACAAGCTTCAGAGAATTC-GCAACACGTGCTGGATC
20978574 T
1 T
20978575 CAAGCCATCG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 2 0.04
60 50 0.96
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (60 bp):
TAAAGAACGATTCGATGCTGCTCACACAAGCTTCAGAGAATTCGCAACACGTGCTGGATC
Found at i:20984303 original size:23 final size:23
Alignment explanation
Indices: 20984277--20984325 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
20984267 TTTTTCTTCA
* *
20984277 TTCAATCCTATTCTCTCAATTTT
1 TTCAATCATATTCTCTCAATTCT
20984300 TTCAATCATATTCTCTCAATTCT
1 TTCAATCATATTCTCTCAATTCT
20984323 TTC
1 TTC
20984326 TACTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (23 bp):
TTCAATCATATTCTCTCAATTCT
Found at i:20984513 original size:20 final size:19
Alignment explanation
Indices: 20984490--20984545 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
20984480 ATGGTAAGAA
20984490 AATATTATTAATTTTTAATT
1 AATATTATTAATTTTT-ATT
* * *
20984510 AATATAATT-ATTAAGTTGTT
1 AATATTATTAATT--TTTATT
20984530 AATATTATTAATTTTT
1 AATATTATTAATTTTT
20984546 TAAGTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
19 5 0.18
20 18 0.64
21 5 0.18
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
AATATTATTAATTTTTATT
Found at i:20988394 original size:25 final size:24
Alignment explanation
Indices: 20988355--20988420 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
20988345 TATAAAGTAA
20988355 AAAATATA-TATATTTAAATGATACT
1 AAAATATATTA-ATTTAAATGATA-T
* *
20988380 TAAATATATTAATTT-TATGATAT
1 AAAATATATTAATTTAAATGATAT
* *
20988403 AAAATATATAAACTTAAA
1 AAAATATATTAATTTAAA
20988421 ATTATAATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
23 13 0.39
24 7 0.21
25 11 0.33
26 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (24 bp):
AAAATATATTAATTTAAATGATAT
Found at i:20988478 original size:23 final size:25
Alignment explanation
Indices: 20988434--20988483 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 25
20988424 ATAATGAAGG
20988434 TATTAAAAACAATCCATTAAGTAAT
1 TATTAAAAACAATCCATTAAGTAAT
*
20988459 TATTCAAAA-AAT-CATTAAGTAAT
1 TATTAAAAACAATCCATTAAGTAAT
20988482 TA
1 TA
20988484 ATGGGTCGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 13 0.54
24 3 0.12
25 8 0.33
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (25 bp):
TATTAAAAACAATCCATTAAGTAAT
Found at i:20991129 original size:3 final size:3
Alignment explanation
Indices: 20991117--20991148 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
20991107 AAAACAATCT
20991117 ACA A-A ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
20991149 TCTTTGGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:21001085 original size:59 final size:59
Alignment explanation
Indices: 21001017--21001134 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
21001007 ATATTTTAAC
* *
21001017 CCTCAAACTTTATAAAATTTCATTTTTGACCCCCAAACTTTATAAAATTTCATTTTTGA
1 CCTCAAACTTCATAAAATTTCATTTTTGACCCCCAAACATTATAAAATTTCATTTTTGA
* * * *
21001076 CCTCGAACTTCCTAAAATTTCATTTTTGATCCCCAAACATTCTAAAATTTCATTTTTGA
1 CCTCAAACTTCATAAAATTTCATTTTTGACCCCCAAACATTATAAAATTTCATTTTTGA
21001135 TTCTGAACTT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (59 bp):
CCTCAAACTTCATAAAATTTCATTTTTGACCCCCAAACATTATAAAATTTCATTTTTGA
Found at i:21001135 original size:30 final size:30
Alignment explanation
Indices: 21001020--21001135 Score: 162
Period size: 30 Copynumber: 3.9 Consensus size: 30
21001010 TTTTAACCCT
*
21001020 CAAACTTTATAAAATTTCATTTTTGACCCC
1 CAAACTTTATAAAATTTCATTTTTGATCCC
*
21001050 CAAACTTTATAAAATTTCATTTTTGA-CCT
1 CAAACTTTATAAAATTTCATTTTTGATCCC
* **
21001079 CGAACTTCCTAAAATTTCATTTTTGATCCC
1 CAAACTTTATAAAATTTCATTTTTGATCCC
* *
21001109 CAAACATTCTAAAATTTCATTTTTGAT
1 CAAACTTTATAAAATTTCATTTTTGAT
21001136 TCTGAACTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 25 0.32
30 52 0.68
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (30 bp):
CAAACTTTATAAAATTTCATTTTTGATCCC
Found at i:21001966 original size:12 final size:12
Alignment explanation
Indices: 21001949--21001983 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
21001939 TAAATGGTTG
21001949 AATATCTTATTA
1 AATATCTTATTA
21001961 AATATCTTATTA
1 AATATCTTATTA
*
21001973 AATGTCTTATT
1 AATATCTTATT
21001984 CATATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (12 bp):
AATATCTTATTA
Found at i:21013259 original size:49 final size:49
Alignment explanation
Indices: 21013125--21013650 Score: 255
Period size: 49 Copynumber: 10.8 Consensus size: 49
21013115 ATAGGTTTGG
* *
21013125 AGGGAACGGTTTAAGTCGCAACGACGAACCTTATACTTCA--AAAACATGA
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTTATAC--CATGAAGACATGA
* * * * *
21013174 AGGGAAAGATTTAAG-CTGCAAC-AGTGAATCTAATACCATGAAGATATGA
1 AGGGAAAGGTTTAAGTC-GCAACGA-CGAACCTTATACCATGAAGACATGA
* * * *
21013223 AGGGAAAGGTTTAAGTCACAACGAAGAACCTTATACCTTAGAA-ACACGA
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTTATACCAT-GAAGACATGA
* * * ** *
21013272 AGGGAAAGATTTAAGTCACAACGACGAATC-TAGTACCACAAAGATAT-A
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTTA-TACCATGAAGACATGA
* ** *
21013320 GAGCGAAAGGTTTAAGTCGCAACGGTGAACCTTAAACC-TCAGAA-ACATGA
1 -AGGGAAAGGTTTAAGTCGCAACGACGAACCTTATACCAT--GAAGACATGA
* * * ** * * *
21013370 AAGAAAAGATTTAAGTCGCAAAAATGAATCC--AGTACTATGAAGATAT-A
1 AGGGAAAGGTTTAAGTCGCAACGACGAA-CCTTA-TACCATGAAGACATGA
** * * *
21013418 GAGAAAAAGGTTTAAGTCGCAATGATGAACCTTGTACC-TCAGAA-ACATGA
1 -AGGGAAAGGTTTAAGTCGCAACGACGAACCTTATACCAT--GAAGACATGA
* * * * * * * *
21013468 AGGAAAAGATTTAAGCCGCAATGGCGAATC-TAGTACCACGAAGATATGGA
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTTA-TACCATGAAGACAT-GA
* * * *
21013518 A-GGAAAGGTTTAAGTTGCAACAATGAACCTTGTACC-TCAGAA-ACATGA
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTTATACCAT--GAAGACATGA
* * * * * * * *
21013566 AGGGAAAGATTTAAGCCGTAACGGCGAATCC-AATACCACGAAGATATGG
1 AGGGAAAGGTTTAAGTCGCAACGACGAA-CCTTATACCATGAAGACATGA
21013615 AGGGAAAGG-TTAAGTCGCAACGACGAACCTTATACC
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTTATACC
21013651 TCAGAAACAT
Statistics
Matches: 352, Mismatches: 89, Indels: 73
0.68 0.17 0.14
Matches are distributed among these distances:
47 4 0.01
48 45 0.13
49 277 0.79
50 26 0.07
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (49 bp):
AGGGAAAGGTTTAAGTCGCAACGACGAACCTTATACCATGAAGACATGA
Found at i:21013689 original size:196 final size:196
Alignment explanation
Indices: 21013122--21013694 Score: 711
Period size: 196 Copynumber: 2.9 Consensus size: 196
21013112 TCTATAGGTT
* * * * *
21013122 TGGAGGGAACGGTTTAAGTCGCAACGACGAACCTTATACTTCAAAAACATGAAGGGAAAGATTTA
1 TGGAAGGAAAGGTTTAAGTCGCAACGATGAACCTTATACCTCAGAAACATGAAGGGAAAGATTTA
* * * *
21013187 AGCTGCAACAGTGAATCTAATACCATGAAGATATGAAGGGAAAGGTTTAAGTCACAACGAAGAAC
66 AGCCGCAACAGTGAATCCAATACCATGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGAAGAAC
* * * * * *
21013252 CTTATACCTTAGAAACACGAAGGGAAAGATTTAAGTCACAACGACGAATCTAGTACCACAAAGAT
131 CTTATACCTCAGAAACATGAAAGGAAAGATTTAAGCCACAATGGCGAATCTAGTACCACAAAGAT
21013317 A
196 A
* * * * *
21013318 TAG-AGCGAAAGGTTTAAGTCGCAACGGTGAACCTTAAACCTCAGAAACATGAAAGAAAAGATTT
1 TGGAAG-GAAAGGTTTAAGTCGCAACGATGAACCTTATACCTCAGAAACATGAAGGGAAAGATTT
* * * * * * ** * *
21013382 AAGTCGCAAAAATGAATCCAGTACTATGAAGATATAGAGAAAAAGGTTTAAGTCGCAATGATGAA
65 AAGCCGCAACAGTGAATCCAATACCATGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGAAGAA
* * *
21013447 CCTTGTACCTCAGAAACATG-AAGGAAAAGATTTAAGCCGCAATGGCGAATCTAGTACCACGAAG
130 CCTTATACCTCAGAAACATGAAAGG-AAAGATTTAAGCCACAATGGCGAATCTAGTACCACAAAG
21013511 ATA
194 ATA
* * *
21013514 TGGAAGGAAAGGTTTAAGTTGCAACAATGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTA
1 TGGAAGGAAAGGTTTAAGTCGCAACGATGAACCTTATACCTCAGAAACATGAAGGGAAAGATTTA
* * * * *
21013579 AGCCGTAACGGCGAATCCAATACCACGAAGATATGGAGGGAAAGG-TTAAGTCGCAACGACGAAC
66 AGCCGCAACAGTGAATCCAATACCATGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGAAGAAC
**
21013643 CTTATACCTCAGAAACATGAAAGGAAAGATGGAAGCCACAAATGGCGAATCT
131 CTTATACCTCAGAAACATGAAAGGAAAGATTTAAGCCAC-AATGGCGAATCT
21013695 TATAGCCAAA
Statistics
Matches: 313, Mismatches: 59, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
195 51 0.16
196 260 0.83
197 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (196 bp):
TGGAAGGAAAGGTTTAAGTCGCAACGATGAACCTTATACCTCAGAAACATGAAGGGAAAGATTTA
AGCCGCAACAGTGAATCCAATACCATGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGAAGAAC
CTTATACCTCAGAAACATGAAAGGAAAGATTTAAGCCACAATGGCGAATCTAGTACCACAAAGAT
A
Found at i:21013690 original size:98 final size:99
Alignment explanation
Indices: 21013122--21013694 Score: 608
Period size: 98 Copynumber: 5.8 Consensus size: 99
21013112 TCTATAGGTT
* * * * *
21013122 TGGAGGGAACGGTTTAAGTCGCAACGACGAACCTTATACTTCAAAAACATGAAGGGAAAGATTTA
1 TGGAGGGAAAGGTTTAAGTCGCAACGATGAACCTTATACCTCAGAAACATGAAAGGAAAGATTTA
** * * *
21013187 AGCTGCAACA--GTGAATCTAATACCATGAAGATA
66 AGCCACAA-ATGGCGAATCTAGTACCACGAAGATA
* * * * * *
21013220 TGAAGGGAAAGGTTTAAGTCACAACGAAGAACCTTATACCTTAGAAACACGAAGGGAAAGATTTA
1 TGGAGGGAAAGGTTTAAGTCGCAACGATGAACCTTATACCTCAGAAACATGAAAGGAAAGATTTA
* * * *
21013285 AGTCAC-AACGACGAATCTAGTACCACAAAGATA
66 AGCCACAAATGGCGAATCTAGTACCACGAAGATA
* * * * *
21013318 TAGAGCGAAAGGTTTAAGTCGCAACGGTGAACCTTAAACCTCAGAAACATGAAAGAAAAGATTTA
1 TGGAGGGAAAGGTTTAAGTCGCAACGATGAACCTTATACCTCAGAAACATGAAAGGAAAGATTTA
* * * *
21013383 AGTCGCAAAAAT---GAATCCAGTACTATGAAGATA
66 AG-C-CACAAATGGCGAATCTAGTACCACGAAGATA
* ** * *
21013416 TAGAGAAAAAGGTTTAAGTCGCAATGATGAACCTTGTACCTCAGAAACATG-AAGGAAAAGATTT
1 TGGAGGGAAAGGTTTAAGTCGCAACGATGAACCTTATACCTCAGAAACATGAAAGG-AAAGATTT
*
21013480 AAGCCGC-AATGGCGAATCTAGTACCACGAAGATA
65 AAGCCACAAATGGCGAATCTAGTACCACGAAGATA
* * * * *
21013514 TGGAAGGAAAGGTTTAAGTTGCAACAATGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTA
1 TGGAGGGAAAGGTTTAAGTCGCAACGATGAACCTTATACCTCAGAAACATGAAAGGAAAGATTTA
** * * *
21013579 AGCC-GTAACGGCGAATCCAATACCACGAAGATA
66 AGCCACAAATGGCGAATCTAGTACCACGAAGATA
* **
21013612 TGGAGGGAAAGG-TTAAGTCGCAACGACGAACCTTATACCTCAGAAACATGAAAGGAAAGATGGA
1 TGGAGGGAAAGGTTTAAGTCGCAACGATGAACCTTATACCTCAGAAACATGAAAGGAAAGATTTA
21013676 AGCCACAAATGGCGAATCT
66 AGCCACAAATGGCGAATCT
21013695 TATAGCCAAA
Statistics
Matches: 393, Mismatches: 70, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
95 3 0.01
96 2 0.01
97 54 0.14
98 327 0.83
99 3 0.01
100 2 0.01
101 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (99 bp):
TGGAGGGAAAGGTTTAAGTCGCAACGATGAACCTTATACCTCAGAAACATGAAAGGAAAGATTTA
AGCCACAAATGGCGAATCTAGTACCACGAAGATA
Found at i:21015301 original size:29 final size:29
Alignment explanation
Indices: 21015268--21015389 Score: 108
Period size: 29 Copynumber: 4.2 Consensus size: 29
21015258 ATTTTGTTCA
* *
21015268 AAAATTATATTTTAACCCCCAAACTTTTT
1 AAAATTATATTTTGACCCCCAAACTTTAT
*
21015297 AAAATTTTATTTTTGACCCCCAAACTTTAT
1 AAAATTATA-TTTTGACCCCCAAACTTTAT
* **
21015327 AAAA-TATCATTTTGA-CCCTAAACTTCCT
1 AAAATTAT-ATTTTGACCCCCAAACTTTAT
* *
21015355 AAAATT-TCATTTTTGA-TCCCAAACTTTCT
1 AAAATTAT-A-TTTTGACCCCCAAACTTTAT
21015384 AAAATT
1 AAAATT
21015390 TCATTTTTGA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
28 17 0.22
29 39 0.49
30 23 0.29
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.41
Consensus pattern (29 bp):
AAAATTATATTTTGACCCCCAAACTTTAT
Found at i:21015318 original size:30 final size:29
Alignment explanation
Indices: 21015284--21015480 Score: 164
Period size: 29 Copynumber: 6.7 Consensus size: 29
21015274 ATATTTTAAC
* *
21015284 CCCCAAACTTTTTAAAATTTTATTTTTGA
1 CCCCAAACTTTCTAAAATTTCATTTTTGA
* *
21015313 CCCCCAAACTTTATAAAATATCA-TTTTGA
1 -CCCCAAACTTTCTAAAATTTCATTTTTGA
* *
21015342 CCCTAAACTTCCTAAAATTTCATTTTTGA
1 CCCCAAACTTTCTAAAATTTCATTTTTGA
*
21015371 TCCCAAACTTTCTAAAATTTCATTTTTGA
1 CCCCAAACTTTCTAAAATTTCATTTTTGA
** * * * *
21015400 TTCCGAACTTTTTGAAAGTTGCA-TTTTGA
1 CCCCAAACTTTCT-AAAATTTCATTTTTGA
* * *
21015429 TCCCAAACTTTCTAGAAGATTACATTTTAGA
1 CCCCAAACTTTCTA-AA-ATTTCATTTTTGA
* * *
21015460 CCTCTAAATTTTCCAAAATTT
1 CC-CCAAACTTTCTAAAATTT
21015481 TGATTTTACT
Statistics
Matches: 135, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
28 19 0.14
29 66 0.49
30 33 0.24
31 8 0.06
32 9 0.07
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (29 bp):
CCCCAAACTTTCTAAAATTTCATTTTTGA
Found at i:21015390 original size:29 final size:29
Alignment explanation
Indices: 21015285--21015456 Score: 170
Period size: 29 Copynumber: 5.9 Consensus size: 29
21015275 TATTTTAACC
* * *
21015285 CCCAAACTTTTTAAAATTTTATTTTTGACC
1 CCCAAACTTTCTAAAATTTCATTTTTGA-T
* *
21015315 CCCAAACTTTATAAAATATCA-TTTTGA-
1 CCCAAACTTTCTAAAATTTCATTTTTGAT
*
21015342 CCCTAAACTTCCTAAAATTTCATTTTTGAT
1 CCC-AAACTTTCTAAAATTTCATTTTTGAT
21015372 CCCAAACTTTCTAAAATTTCATTTTTGAT
1 CCCAAACTTTCTAAAATTTCATTTTTGAT
* * * * *
21015401 TCCGAACTTTTTGAAAGTTGCA-TTTTGAT
1 CCCAAACTTTCT-AAAATTTCATTTTTGAT
*
21015430 CCCAAACTTTCTAGAAGATTACATTTT
1 CCCAAACTTTCTA-AA-ATTTCATTTT
21015457 AGACCTCTAA
Statistics
Matches: 118, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.03
28 16 0.14
29 64 0.54
30 32 0.27
31 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.42
Consensus pattern (29 bp):
CCCAAACTTTCTAAAATTTCATTTTTGAT
Found at i:21024391 original size:4 final size:4
Alignment explanation
Indices: 21024382--21024411 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
21024372 TTTACTTAAA
*
21024382 TTAT TTAT TTAT TCAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
21024412 TCATGCATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:21024618 original size:19 final size:19
Alignment explanation
Indices: 21024572--21024620 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
21024562 TGCAATTTGG
*
21024572 TATCGATACTAATTTAAAAT
1 TATCGATACT-ATTTAAAAC
*
21024592 TATTGATACT-TTATAAAAC
1 TATCGATACTATT-TAAAAC
21024611 TATCGATACT
1 TATCGATACT
21024621 CGAGTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 14 0.56
20 9 0.36
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (19 bp):
TATCGATACTATTTAAAAC
Found at i:21031139 original size:72 final size:72
Alignment explanation
Indices: 21031030--21031284 Score: 431
Period size: 72 Copynumber: 3.6 Consensus size: 72
21031020 AGCAAATTTT
* * *
21031030 ATATCC-AAAATCAAATATAAAAAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
21031094 AAATTCA
66 AAATTCA
* *
21031101 ATATCCAAAAACTAAACATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
*
21031166 AAATTTA
66 AAATTCA
* *
21031173 ATATCCAAAAACCAAACATAAATAACTATTGATAAAACTAGATTACACATAAATAAGTCGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
21031238 AAATTCA
66 AAATTCA
21031245 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTA
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTA
21031285 ATTTAGCATT
Statistics
Matches: 171, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
71 6 0.04
72 165 0.96
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (72 bp):
ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
AAATTCA
Found at i:21031738 original size:18 final size:18
Alignment explanation
Indices: 21031709--21031760 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
21031699 CATTTCCATC
* *
21031709 AATGTTAACATCATTTGA
1 AATGTGAACATCATTTAA
*
21031727 AGTGTGAACATCATTTAA
1 AATGTGAACATCATTTAA
21031745 AATGTGAACATCATTT
1 AATGTGAACATCATTT
21031761 CCCGTGTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (18 bp):
AATGTGAACATCATTTAA
Found at i:21033909 original size:21 final size:21
Alignment explanation
Indices: 21033861--21033910 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
21033851 GGAGTTTTTA
* * *
21033861 GTATCGATAGAAGTAAGACTT
1 GTATCGGTAGAAGTAACACAT
* *
21033882 GTTTCGGTAGAAGTTACACAT
1 GTATCGGTAGAAGTAACACAT
21033903 GTATCGGT
1 GTATCGGT
21033911 GGAACTTTCC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (21 bp):
GTATCGGTAGAAGTAACACAT
Found at i:21040994 original size:21 final size:21
Alignment explanation
Indices: 21040965--21041018 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
21040955 GGAGTTTTTA
*
21040965 GTATCGGTAGAAGTAAGACTT
1 GTATCGGTAGAAGTAACACTT
* *
21040986 GTTTCGGTAGAAGTTACACTT
1 GTATCGGTAGAAGTAACACTT
21041007 GTATCGGTAGAA
1 GTATCGGTAGAA
21041019 CTTTCCCAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGTAACACTT
Found at i:21043245 original size:16 final size:17
Alignment explanation
Indices: 21043211--21043248 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
21043201 GAAAAAATGG
*
21043211 AGAAGAAACGTGAAAAA
1 AGAAGAAACGCGAAAAA
21043228 AGAAGAAACGCG-AAAA
1 AGAAGAAACGCGAAAAA
21043244 AGAAG
1 AGAAG
21043249 GATAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.63, C:0.08, G:0.26, T:0.03
Consensus pattern (17 bp):
AGAAGAAACGCGAAAAA
Found at i:21051106 original size:40 final size:40
Alignment explanation
Indices: 21050992--21051217 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
21050982 GGTTTTTCAT
* * * *
21050992 TGTCACGGCTAGTTTAGTAATAATGTTGCAGTGTTTACAG
1 TGTCACTGCCAGTTCAGTAATAATATTGCAGTGTTTACAG
* **
21051032 TGT-ACT-CTCAGTTCAGTAGTAATATCACAGTGTTTACAG
1 TGTCACTGC-CAGTTCAGTAATAATATTGCAGTGTTTACAG
*
21051071 TGTCACTGCCAGATT-AGTGATAATATTGCAGTGTTTACAG
1 TGTCACTGCCAG-TTCAGTAATAATATTGCAGTGTTTACAG
* *
21051111 TGTCACTGGCAGTTCAGTAATAATATTGCAGTATTTACAG
1 TGTCACTGCCAGTTCAGTAATAATATTGCAGTGTTTACAG
* * * *
21051151 TGTCATTGCCAGTTCAATAATAATATTGTAGTGTTTACTG
1 TGTCACTGCCAGTTCAGTAATAATATTGCAGTGTTTACAG
* *
21051191 TGTCACTACCAGTTTAGTAATAATATT
1 TGTCACTGCCAGTTCAGTAATAATATT
21051218 CCCAAGTGGT
Statistics
Matches: 157, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.20
40 121 0.77
41 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (40 bp):
TGTCACTGCCAGTTCAGTAATAATATTGCAGTGTTTACAG
Found at i:21051631 original size:51 final size:55
Alignment explanation
Indices: 21051550--21051674 Score: 134
Period size: 56 Copynumber: 2.3 Consensus size: 55
21051540 TGTGTGACAC
* *
21051550 AAACCAGTATACACACACGGTCTAGAACACG-CCCT-TG-T-GCCCATAAGTCAT
1 AAACCAGTATGCACACACAGTCTAGAACACGTCCCTGTGATAGCCCATAAGTCAT
* * ** *
21051601 AAACCAATATGCACACGCAGTCTA-ACACACGTCTGTGTGCATAGCCCGTAAGTCAT
1 AAACCAGTATGCACACACAGTCTAGA-ACACGTCCCTGTG-ATAGCCCATAAGTCAT
21051657 AAACCAGTATGCACACAC
1 AAACCAGTATGCACACAC
21051675 GACCTGGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
50 1 0.02
51 25 0.42
52 2 0.03
53 2 0.03
55 1 0.02
56 28 0.47
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.19
Consensus pattern (55 bp):
AAACCAGTATGCACACACAGTCTAGAACACGTCCCTGTGATAGCCCATAAGTCAT
Found at i:21053387 original size:17 final size:19
Alignment explanation
Indices: 21053356--21053395 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
21053346 TGCATGATTC
21053356 TTTTCTCTTTCTTGCAT-T
1 TTTTCTCTTTCTTGCATGT
21053374 TTTTCTCTTT-TTGCATGT
1 TTTTCTCTTTCTTGCATGT
21053392 TTTT
1 TTTT
21053396 ACGGAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTCTCTTTCTTGCATGT
Found at i:21068455 original size:29 final size:29
Alignment explanation
Indices: 21068413--21068469 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
21068403 AAGAAAGATG
*
21068413 CCAAACCAAGATTGATCAGATGGATCCTT
1 CCAAACCAAGATTGATCAAATGGATCCTT
21068442 CCAAACCAAGATTGATCAAATGGATCCT
1 CCAAACCAAGATTGATCAAATGGATCCT
21068470 ACTCTTACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (29 bp):
CCAAACCAAGATTGATCAAATGGATCCTT
Found at i:21069960 original size:14 final size:13
Alignment explanation
Indices: 21069941--21069973 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
21069931 TTTTACATTC
21069941 ACTTTTATCTTTTT
1 ACTTTTAT-TTTTT
21069955 ACTTTTATTTTTT
1 ACTTTTATTTTTT
21069968 -CTTTTA
1 ACTTTTA
21069974 AATCTTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 5 0.26
14 8 0.42
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (13 bp):
ACTTTTATTTTTT
Found at i:21072309 original size:17 final size:17
Alignment explanation
Indices: 21072284--21072336 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
21072274 ATGCATAGCA
*
21072284 TTTAGTTGTCATTACAT
1 TTTAGTTGTCAATACAT
* * *
21072301 TTTAATTGTCACTGCAT
1 TTTAGTTGTCAATACAT
*
21072318 TTTAGTTGTTAATACAT
1 TTTAGTTGTCAATACAT
21072335 TT
1 TT
21072337 GCATTATGGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.53
Consensus pattern (17 bp):
TTTAGTTGTCAATACAT
Found at i:21072953 original size:17 final size:17
Alignment explanation
Indices: 21072922--21072964 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
21072912 AAATCACAAA
21072922 AAGAGAGAAAAAG-AAAG
1 AAGA-AGAAAAAGAAAAG
21072939 AAGAAGAAAAGAGAAAAG
1 AAGAAGAAAA-AGAAAAG
21072957 AA-AAGAAA
1 AAGAAGAAA
21072965 TACATTGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.25
17 12 0.50
18 6 0.25
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAGAAAAG
Found at i:21080381 original size:19 final size:19
Alignment explanation
Indices: 21080344--21080406 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
21080334 CAAAATAATC
*
21080344 AAAATAATTTTCAAAAATTT
1 AAAATAATTTT-TAAAATTT
*
21080364 AAAATAATTTTTAAAATTA
1 AAAATAATTTTTAAAATTT
*
21080383 AAAAT-ATTTATAAAATTCT
1 AAAATAATTTTTAAAATT-T
21080402 AAAAT
1 AAAAT
21080407 TTGTATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 11 0.29
19 16 0.42
20 11 0.29
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATAATTTTTAAAATTT
Found at i:21080385 original size:18 final size:18
Alignment explanation
Indices: 21080344--21080399 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
21080334 CAAAATAATC
*
21080344 AAAATAATTTTCAAAAATTT
1 AAAATAATTTT-TAAAA-TT
21080364 AAAATAATTTTTAAAATT
1 AAAATAATTTTTAAAATT
*
21080382 AAAA-ATATTTATAAAATT
1 AAAATA-ATTTTTAAAATT
21080400 CTAAAATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 17 0.52
19 4 0.12
20 11 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATAATTTTTAAAATT
Found at i:21081316 original size:14 final size:14
Alignment explanation
Indices: 21081280--21081318 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
21081270 CAAAAAAAAT
* *
21081280 AAATCATTCTCCAG
1 AAATCATTTTCCAA
*
21081294 AAATCATTTTTCAA
1 AAATCATTTTCCAA
21081308 AAATCATTTTC
1 AAATCATTTTC
21081319 AATAAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:21086195 original size:75 final size:75
Alignment explanation
Indices: 21086076--21086234 Score: 291
Period size: 75 Copynumber: 2.1 Consensus size: 75
21086066 ACGCAACCGA
* *
21086076 TTATTTTTAAGTAAAAATGTTCATGGATCGTGTTAGATCGGATTTGATTTTGGTTAAGCATAATA
1 TTATGTTTAAGTAAAAATGTTCATGGATCGTGTCAGATCGGATTTGATTTTGGTTAAGCATAATA
21086141 TTAATATATT
66 TTAATATATT
*
21086151 TTATGTTTAAGTAAAAATGTTCATGGATCTTGTCAGATCGGATTTGATTTTGGTTAAGCATAATA
1 TTATGTTTAAGTAAAAATGTTCATGGATCGTGTCAGATCGGATTTGATTTTGGTTAAGCATAATA
21086216 TTAATATATT
66 TTAATATATT
21086226 TTATGTTTA
1 TTATGTTTA
21086235 TTTAAGTTCG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 81 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (75 bp):
TTATGTTTAAGTAAAAATGTTCATGGATCGTGTCAGATCGGATTTGATTTTGGTTAAGCATAATA
TTAATATATT
Found at i:21087666 original size:19 final size:19
Alignment explanation
Indices: 21087642--21087682 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
21087632 ATTGCTTCTC
21087642 AAAAACACTTTTGAGATAA
1 AAAAACACTTTTGAGATAA
21087661 AAAAACACTTTTGAGATAA
1 AAAAACACTTTTGAGATAA
21087680 AAA
1 AAA
21087683 TATTACTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (19 bp):
AAAAACACTTTTGAGATAA
Found at i:21089660 original size:24 final size:24
Alignment explanation
Indices: 21089628--21089675 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
21089618 TATGGAACTA
*
21089628 GTAGAAAATGAAGATCCAATTCCG
1 GTAGAAAATGAAGATCCAACTCCG
21089652 GTAGAAAATGAAGATCCAACTCCG
1 GTAGAAAATGAAGATCCAACTCCG
21089676 TGTATGGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (24 bp):
GTAGAAAATGAAGATCCAACTCCG
Found at i:21092071 original size:19 final size:15
Alignment explanation
Indices: 21092033--21092064 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
21092023 TATGTTCAAT
21092033 ATTTACTATTAATTA
1 ATTTACTATTAATTA
21092048 ATTTACTATTAATTA
1 ATTTACTATTAATTA
21092063 AT
1 AT
21092065 ATTTTTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTACTATTAATTA
Found at i:21092118 original size:15 final size:15
Alignment explanation
Indices: 21092100--21092154 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
21092090 AAGGTTTAGT
21092100 GTTTTAAATTTAAGG
1 GTTTTAAATTTAAGG
*
21092115 GTTTCAAATTTAAGG
1 GTTTTAAATTTAAGG
* *
21092130 GTTTTGAA-TTAAAG
1 GTTTTAAATTTAAGG
*
21092144 GTTTTCAATTT
1 GTTTTAAATTT
21092155 TTAAGGTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (15 bp):
GTTTTAAATTTAAGG
Found at i:21092134 original size:30 final size:29
Alignment explanation
Indices: 21092100--21092202 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 29
21092090 AAGGTTTAGT
21092100 GTTTTAAATTTAAGGGTTTCAAATTTAAGG
1 GTTTTAAATTTAAGGGTTTCAAATTTAA-G
* * * *
21092130 GTTTTGAATTAAAGGTTTTCAATTTTTAAG
1 GTTTTAAATTTAAGGGTTTCAA-ATTTAAG
** *
21092160 G-TTTAGTGTTTAA-GGTTTCAAATATAAG
1 GTTTTA-AATTTAAGGGTTTCAAATTTAAG
*
21092188 GTTTTGAATTTAAGG
1 GTTTTAAATTTAAGG
21092203 TTTTGAATTT
Statistics
Matches: 55, Mismatches: 14, Indels: 9
0.71 0.18 0.12
Matches are distributed among these distances:
28 11 0.20
29 14 0.25
30 25 0.45
31 5 0.09
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (29 bp):
GTTTTAAATTTAAGGGTTTCAAATTTAAG
Found at i:21092212 original size:14 final size:14
Alignment explanation
Indices: 21092100--21092212 Score: 91
Period size: 14 Copynumber: 7.8 Consensus size: 14
21092090 AAGGTTTAGT
*
21092100 GTTTTAAATTTAAGG
1 GTTTTGAATTTAA-G
**
21092115 GTTTCAAATTTAAGG
1 GTTTTGAATTTAA-G
*
21092130 GTTTTGAATTAAAG
1 GTTTTGAATTTAAG
*
21092144 GTTTTCAATTTTTAAG
1 GTTTTGAA--TTTAAG
* **
21092160 GTTTAGTGTTTAAG
1 GTTTTGAATTTAAG
** *
21092174 GTTTCAAATATAAG
1 GTTTTGAATTTAAG
21092188 GTTTTGAATTTAAG
1 GTTTTGAATTTAAG
21092202 GTTTTGAATTT
1 GTTTTGAATTT
21092213 TGATGTTTAG
Statistics
Matches: 78, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
14 45 0.58
15 24 0.31
16 9 0.12
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.48
Consensus pattern (14 bp):
GTTTTGAATTTAAG
Found at i:21092231 original size:58 final size:59
Alignment explanation
Indices: 21092108--21092227 Score: 163
Period size: 58 Copynumber: 2.1 Consensus size: 59
21092098 GTGTTTTAAA
* *
21092108 TTTAAGGGTTTCAAATTTAAGGGTTTTGAATTAAAGGTTTTCAATTTTTAAGGTTTAGTG
1 TTTAA-GGTTTCAAATATAAGGGTTTTGAATTAAAGGTTTTCAATTTTTAAGGTTTAGAG
* * * *
21092168 TTTAAGGTTTCAAATATAA-GGTTTTGAATTTAAGGTTTTGAA-TTTTGATGTTTAGAG
1 TTTAAGGTTTCAAATATAAGGGTTTTGAATTAAAGGTTTTCAATTTTTAAGGTTTAGAG
21092225 TTT
1 TTT
21092228 TAAGTTTAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
57 15 0.28
58 21 0.39
59 13 0.24
60 5 0.09
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (59 bp):
TTTAAGGTTTCAAATATAAGGGTTTTGAATTAAAGGTTTTCAATTTTTAAGGTTTAGAG
Found at i:21092248 original size:14 final size:14
Alignment explanation
Indices: 21092231--21092271 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
21092221 AGAGTTTTAA
*
21092231 GTTTAGTGTTTATG
1 GTTTAGGGTTTATG
*
21092245 GTTTAGGGTTTAAG
1 GTTTAGGGTTTATG
21092259 GTTTAGGGTTTAT
1 GTTTAGGGTTTAT
21092272 AAGTATGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:21094407 original size:79 final size:79
Alignment explanation
Indices: 21094314--21094563 Score: 201
Period size: 79 Copynumber: 3.2 Consensus size: 79
21094304 AAAAAAAATA
*
21094314 ATTAAATACCAAAATGATGGGTTATTTACTAAAATGGTACAAAATAAATATTTATATACCAAAAT
1 ATTAAATACGAAAATGATGGGTTATTTACTAAAATGGTACAAAATAAATATTTATATACCAAAAT
*
21094379 GGTATCCACACACC
66 AGTATCCACACACC
* * * ** ** * ** *
21094393 ATTAATTACGAAAATG-TGATGG--ATATACCAATTTAATATATAAATACTTATTT-TATACTAA
1 ATTAAATACGAAAATGATG--GGTTATTTACTAAAATGGTACA-AAATAAATATTTATATACCAA
* * * * * **
21094454 TATAATA-CAATAATAATA
63 AATAGTATCCA-CA-CACC
*
21094472 ATTAAATAC-CAAA--ATGGGTTATTTACTAAAATGGTACAAAATAAATATTTATATACCAAAAT
1 ATTAAATACGAAAATGATGGGTTATTTACTAAAATGGTACAAAATAAATATTTATATACCAAAAT
21094534 AGTATCCACACACC
66 AGTATCCACACACC
*
21094548 ATTAATTACGAAAATG
1 ATTAAATACGAAAATG
21094564 TGGTGAATAT
Statistics
Matches: 117, Mismatches: 41, Indels: 26
0.64 0.22 0.14
Matches are distributed among these distances:
75 2 0.02
76 19 0.16
77 31 0.26
78 30 0.26
79 33 0.28
80 2 0.02
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (79 bp):
ATTAAATACGAAAATGATGGGTTATTTACTAAAATGGTACAAAATAAATATTTATATACCAAAAT
AGTATCCACACACC
Found at i:21094574 original size:155 final size:157
Alignment explanation
Indices: 21094282--21094620 Score: 549
Period size: 155 Copynumber: 2.2 Consensus size: 157
21094272 ACAATTTTTA
*
21094282 TTATTTTTTACCAATATAATACAAAAAAAATAATTAAATACCAAAATGATGGGTTATTTACTAAA
1 TTATTTTATACCAATATAATACAAAAAAAATAATTAAATACCAAAA-GATGGGTTATTTACTAAA
*
21094347 ATGGTACAAAATAAATATTTATATACCAAAATGGTATCCACACACCATTAATTACGAAAATGTGA
65 ATGGTACAAAATAAATATTTATATACCAAAATAGTATCCACACACCATTAATTACGAAAATGTGA
*
21094412 TGGATATACCAATTTAATATATAAATAC
130 TGAATATACCAATTTAATATATAAATAC
* * *
21094440 TTATTTTATACTAATATAATACAATAATAATAATTAAATACC-AAA-ATGGGTTATTTACTAAAA
1 TTATTTTATACCAATATAATACAAAAAAAATAATTAAATACCAAAAGATGGGTTATTTACTAAAA
*
21094503 TGGTACAAAATAAATATTTATATACCAAAATAGTATCCACACACCATTAATTACGAAAATGTGGT
66 TGGTACAAAATAAATATTTATATACCAAAATAGTATCCACACACCATTAATTACGAAAATGTGAT
*
21094568 GAATATACCAATTTAATATATAAATAT
131 GAATATACCAATTTAATATATAAATAC
* * *
21094595 TTATTTTGTACCATTTTAATA-AAAAA
1 TTATTTTATACCAATATAATACAAAAA
21094621 CCCATTTTAA
Statistics
Matches: 168, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
154 4 0.02
155 123 0.73
157 3 0.02
158 38 0.23
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.34
Consensus pattern (157 bp):
TTATTTTATACCAATATAATACAAAAAAAATAATTAAATACCAAAAGATGGGTTATTTACTAAAA
TGGTACAAAATAAATATTTATATACCAAAATAGTATCCACACACCATTAATTACGAAAATGTGAT
GAATATACCAATTTAATATATAAATAC
Found at i:21094673 original size:4 final size:4
Alignment explanation
Indices: 21094656--21094688 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
21094646 TTAATTTATA
*
21094656 TTAC TTAG TTAC TTAC TTAC TTAC TTAC TTAC T
1 TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC T
21094689 ACTACTAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.24, C:0.21, G:0.03, T:0.52
Consensus pattern (4 bp):
TTAC
Found at i:21094749 original size:25 final size:25
Alignment explanation
Indices: 21094697--21094750 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
21094687 CTACTACTAA
*
21094697 CAAAATAAATAAAATTACTTTAATT
1 CAAAATAAATAAAATTAATTTAATT
* *
21094722 CAAATTAAATTAAATTAAATTTAA-T
1 CAAAATAAATAAAATT-AATTTAATT
21094747 CAAA
1 CAAA
21094751 GTTTCTGCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (25 bp):
CAAAATAAATAAAATTAATTTAATT
Found at i:21094899 original size:23 final size:23
Alignment explanation
Indices: 21094849--21094910 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
21094839 TCAACTAAAT
*
21094849 AAAAAATTAAA-T-AACAAATCA
1 AAAAAATTAAATTAAACAAAGCA
21094870 ATTAAAAATTAAATTAAACAAAGCA
1 A--AAAAATTAAATTAAACAAAGCA
21094895 AAAAAACTTAAATTAA
1 AAAAAA-TTAAATTAA
21094911 TAAATACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
21 1 0.03
23 15 0.43
24 10 0.29
25 9 0.26
ACGTcount: A:0.68, C:0.08, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAAAATTAAATTAAACAAAGCA
Found at i:21094900 original size:24 final size:25
Alignment explanation
Indices: 21094846--21094910 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
21094836 TATTCAACTA
*
21094846 AATAAAAAATTAAA-T-AACAAATC
1 AATAAAAAATTAAATTAAACAAAGC
*
21094869 AATTAAAAATTAAATTAAACAAAGC
1 AATAAAAAATTAAATTAAACAAAGC
*
21094894 AA-AAAAACTTAAATTAA
1 AATAAAAAATTAAATTAA
21094911 TAAATACTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 13 0.36
24 14 0.39
25 9 0.25
ACGTcount: A:0.68, C:0.08, G:0.02, T:0.23
Consensus pattern (25 bp):
AATAAAAAATTAAATTAAACAAAGC
Found at i:21095025 original size:18 final size:18
Alignment explanation
Indices: 21095002--21095050 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
21094992 CAACCTACTA
21095002 AACAAATAAAATTATAAT
1 AACAAATAAAATTATAAT
* *
21095020 AACAAAT-CAATTATATT
1 AACAAATAAAATTATAAT
21095037 AA-ACAATAAAATTA
1 AACA-AATAAAATTA
21095051 AAAGTACTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 13 0.50
18 12 0.46
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (18 bp):
AACAAATAAAATTATAAT
Found at i:21095154 original size:17 final size:17
Alignment explanation
Indices: 21095128--21095183 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 17
21095118 AATTACTACA
21095128 TTTC-TCTCCTTCTTTC
1 TTTCTTCTCCTTCTTTC
21095144 TTTCTTCTCCTTC-TTC
1 TTTCTTCTCCTTCTTTC
* *
21095160 CTTCTT-TCTTTCTTT-
1 TTTCTTCTCCTTCTTTC
21095175 TTT-TTCTCC
1 TTTCTTCTCC
21095184 CCCCTTCCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
14 2 0.06
15 9 0.27
16 14 0.42
17 8 0.24
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTCTTCTCCTTCTTTC
Found at i:21095181 original size:24 final size:25
Alignment explanation
Indices: 21095128--21095182 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
21095118 AATTACTACA
21095128 TTTCTCTCCTTCTTTCTTTCTTCTC
1 TTTCTCTCCTTCTTTCTTTCTTCTC
* * *
21095153 CTTCT-TCCTTCTTTCTTTCTTTTT
1 TTTCTCTCCTTCTTTCTTTCTTCTC
21095177 TTTCTC
1 TTTCTC
21095183 CCCCCTTCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTCTCTCCTTCTTTCTTTCTTCTC
Found at i:21104300 original size:27 final size:27
Alignment explanation
Indices: 21104273--21104428 Score: 179
Period size: 27 Copynumber: 5.8 Consensus size: 27
21104263 GACGATATTT
* *
21104273 TGATTCTGGCTCGGAAGAGCGTAATTT
1 TGATTCTGGCTCGTAAGAGCGTAATTC
*
21104300 TGATTCTAGCTCGTAAGAGCGTAATTC
1 TGATTCTGGCTCGTAAGAGCGTAATTC
* * * *
21104327 TAATTCTGGCTCATAAAAGTGTAATTC
1 TGATTCTGGCTCGTAAGAGCGTAATTC
* *
21104354 TAATTTTGGCT-GTTAAGAGCGTAATTC
1 TGATTCTGGCTCG-TAAGAGCGTAATTC
* * *
21104381 TGATTTTGGCTCGTAAGAGCATAATTT
1 TGATTCTGGCTCGTAAGAGCGTAATTC
*
21104408 TGATTTTGGCTCGTAAGAGCG
1 TGATTCTGGCTCGTAAGAGCG
21104429 ATATTCTATC
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 110 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (27 bp):
TGATTCTGGCTCGTAAGAGCGTAATTC
Found at i:21105166 original size:21 final size:21
Alignment explanation
Indices: 21105140--21105193 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
21105130 GGTGTTTTTA
* *
21105140 GTATCGATAGAAGTATGACTT
1 GTATCGGTAGAAGTATCACTT
* *
21105161 GTATCGGTAGATGTCTCACTT
1 GTATCGGTAGAAGTATCACTT
21105182 GTATCGGTAGAA
1 GTATCGGTAGAA
21105194 CTGTCATAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGTATCACTT
Found at i:21110846 original size:16 final size:17
Alignment explanation
Indices: 21110822--21110858 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
21110812 CATTTATTTC
21110822 AAAACTTAAT-TTTTTA
1 AAAACTTAATATTTTTA
*
21110838 AAAATTTAATATTTTTA
1 AAAACTTAATATTTTTA
21110855 AAAA
1 AAAA
21110859 ATTATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAACTTAATATTTTTA
Found at i:21110903 original size:18 final size:18
Alignment explanation
Indices: 21110836--21110904 Score: 52
Period size: 18 Copynumber: 3.7 Consensus size: 18
21110826 CTTAATTTTT
* *
21110836 TAAAAAT-TTAATATTTT
1 TAAAAATATTAAAATTTA
*
21110853 TAAAAAATTATAAAAATTTA
1 T-AAAAA-TATTAAAATTTA
*
21110873 -AAGACATTATTAAAATTTA
1 TAA-A-AATATTAAAATTTA
21110892 TAAAAATATTAAA
1 TAAAAATATTAAA
21110905 CAAAATTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
17 1 0.03
18 15 0.38
19 14 0.35
20 10 0.25
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (18 bp):
TAAAAATATTAAAATTTA
Found at i:21110927 original size:16 final size:16
Alignment explanation
Indices: 21110906--21110938 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21110896 AATATTAAAC
21110906 AAAATTGAA-AAAAATA
1 AAAATT-AATAAAAATA
21110922 AAAATTAATAAAAATA
1 AAAATTAATAAAAATA
21110938 A
1 A
21110939 TTTAAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAATTAATAAAAATA
Found at i:21113583 original size:6 final size:6
Alignment explanation
Indices: 21113572--21113610 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
21113562 TGATCAAAAT
* * *
21113572 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
21113611 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:21113814 original size:37 final size:38
Alignment explanation
Indices: 21113710--21113816 Score: 99
Period size: 37 Copynumber: 2.8 Consensus size: 38
21113700 CTTCGACCTT
*
21113710 GAGTCGATGAGACACTAGGTGTCATTATTTTACTTCGGATA
1 GAGTCGATGAGACACTAGGTGTC---ACTTTACTTCGGATA
* * ** * ** *
21113751 GATTCGATAAGGTACTGGGTACCACTTTACTTCGGCTA
1 GAGTCGATGAGACACTAGGTGTCACTTTACTTCGGATA
21113789 G-GTCGATGAGACACTAGGTGTCACTTTA
1 GAGTCGATGAGACACTAGGTGTCACTTTA
21113817 TTGCTTCGAA
Statistics
Matches: 50, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
37 20 0.40
38 14 0.28
41 16 0.32
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (38 bp):
GAGTCGATGAGACACTAGGTGTCACTTTACTTCGGATA
Found at i:21123845 original size:19 final size:17
Alignment explanation
Indices: 21123821--21123859 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
21123811 CTTTTTCTAT
21123821 TTCTCTTGCTTCCTCTCTC
1 TTCTCTT-CTTCCTC-CTC
21123840 TTCTCTTCTTCCTCCTC
1 TTCTCTTCTTCCTCCTC
21123857 TTC
1 TTC
21123860 CTCAGCACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 7 0.35
19 7 0.35
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.54
Consensus pattern (17 bp):
TTCTCTTCTTCCTCCTC
Found at i:21128467 original size:9 final size:9
Alignment explanation
Indices: 21128453--21128480 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
21128443 ATGATGAAAG
21128453 TTACAAAAA
1 TTACAAAAA
21128462 TTACAAAAA
1 TTACAAAAA
21128471 TTACAAAAA
1 TTACAAAAA
21128480 T
1 T
21128481 GCCATTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (9 bp):
TTACAAAAA
Found at i:21129328 original size:42 final size:42
Alignment explanation
Indices: 21129254--21129432 Score: 179
Period size: 42 Copynumber: 4.3 Consensus size: 42
21129244 TAATGTATAA
* * *
21129254 AAAGGAAGACTCATATCTCGGATTGAGCATGAGGACTCGT-A-T
1 AAAGGAAGACTCATGTCTCGGA-TGAGAATGAGGA-TCATGATT
*
21129296 AAAGGAAGACTCATGTCTCGGGATGAGAATGA-GATTATGATT
1 AAAGGAAGACTCATGTCTC-GGATGAGAATGAGGATCATGATT
* * *
21129338 AAAAGAAGACTCATGTCTCAAGATGAGAATGAGAAT-ATGATT
1 AAAGGAAGACTCATGTCTC-GGATGAGAATGAGGATCATGATT
* * * *
21129380 AAAGGAAGACTTATATCTCGAGATGATAATGAGAAT-ATGATT
1 AAAGGAAGACTCATGTCTCG-GATGAGAATGAGGATCATGATT
21129422 AAAGGAAGACT
1 AAAGGAAGACT
21129433 TATGACTCAT
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 109 0.92
43 5 0.04
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.25
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGGATGAGAATGAGGATCATGATT
Found at i:21129435 original size:42 final size:42
Alignment explanation
Indices: 21129295--21129432 Score: 213
Period size: 42 Copynumber: 3.3 Consensus size: 42
21129285 AGGACTCGTA
* *
21129295 TAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATGAT
1 TAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGAT
* *
21129337 TAAAAGAAGACTCATGTCTCAAGATGAGAATGAGAATATGAT
1 TAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGAT
* * *
21129379 TAAAGGAAGACTTATATCTCGAGATGATAATGAGAATATGAT
1 TAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGAT
21129421 TAAAGGAAGACT
1 TAAAGGAAGACT
21129433 TATGACTCAT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.25
Consensus pattern (42 bp):
TAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGAT
Found at i:21142282 original size:21 final size:22
Alignment explanation
Indices: 21142231--21142283 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
21142221 GGAGTTTTTG
**
21142231 GTATCGGTAG-ATGCATGACTT
1 GTATCGGTAGAAACCATGACTT
* *
21142252 GTACCAGTAGAAACCAT-ACTT
1 GTATCGGTAGAAACCATGACTT
21142273 GTATCGGTAGA
1 GTATCGGTAGA
21142284 TCTAGCATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (22 bp):
GTATCGGTAGAAACCATGACTT
Found at i:21144596 original size:42 final size:41
Alignment explanation
Indices: 21144542--21144729 Score: 227
Period size: 42 Copynumber: 4.5 Consensus size: 41
21144532 TAATGTATAA
*
21144542 AAAGGAAGACTCATGTCTCGGATTGAGCATGAGAATTTG-TAT
1 AAAGGAAGACTCATGTCTCGGA-TGAGAATGAGAATTTGAT-T
*
21144584 AAAGGAAGACTCATGTCTCGGGGTGAGAATGA-AATTATGATT
1 AAAGGAAGACTCATGTCTC-GGATGAGAATGAGAATT-TGATT
*
21144626 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGATT
1 AAAGGAAGACTCATGTCTCG-GATGAGAATGAGAATTTGATT
* * **
21144668 AAAGGAAGACTCATGTCCCAAGATGAGAATGAGAACATGATT
1 AAAGGAAGACTCATGTCTC-GGATGAGAATGAGAATTTGATT
* *
21144710 AAAGGAAGACTTATGACTCG
1 AAAGGAAGACTCATGTCTCG
21144730 TCAGAGCATA
Statistics
Matches: 129, Mismatches: 11, Indels: 13
0.84 0.07 0.08
Matches are distributed among these distances:
41 5 0.04
42 118 0.91
43 6 0.05
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (41 bp):
AAAGGAAGACTCATGTCTCGGATGAGAATGAGAATTTGATT
Found at i:21153097 original size:23 final size:24
Alignment explanation
Indices: 21153041--21153097 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
21153031 CTTAATTACT
*
21153041 TAAAATAATTATTTTTTTAAAATTA
1 TAAAATAA-TATTTTTTTAAAATCA
21153066 TAAAA-AATATTTTTTTATAAA-CA
1 TAAAATAATATTTTTTTA-AAATCA
21153089 -AAAATAATA
1 TAAAATAATA
21153098 GATAAATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 4 0.14
23 15 0.52
24 5 0.17
25 5 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAAATAATATTTTTTTAAAATCA
Found at i:21153299 original size:25 final size:25
Alignment explanation
Indices: 21153246--21153292 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21153236 TACAAGAAAA
* *
21153246 TGAAAGGTTTAAGGGAGATGAAAGG
1 TGAAAGGTTGAAGGAAGATGAAAGG
21153271 TGAAAGGTTGAA-GAAGATGAAA
1 TGAAAGGTTGAAGGAAGATGAAA
21153293 TGTTGAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.19
Consensus pattern (25 bp):
TGAAAGGTTGAAGGAAGATGAAAGG
Found at i:21159272 original size:30 final size:32
Alignment explanation
Indices: 21159217--21159301 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 32
21159207 TTTTATTATT
* *
21159217 TTAATAATTTATATCTTTATAATTTTT-AAAAAG
1 TTAA-AATTTA-ATTTTTATCATTTTTGAAAAAG
21159250 TT-AAATTTAATTTTTATCATTTTTGAAAAAG
1 TTAAAATTTAATTTTTATCATTTTTGAAAAAG
*
21159281 TTAAAATATAA-TTTTATCATT
1 TTAAAATTTAATTTTTATCATT
21159302 ACTAATTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 13 0.28
31 24 0.51
32 8 0.17
33 2 0.04
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (32 bp):
TTAAAATTTAATTTTTATCATTTTTGAAAAAG
Found at i:21159397 original size:15 final size:15
Alignment explanation
Indices: 21159377--21159427 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
21159367 AATATATATA
21159377 TATAAAAAGGAAAAC
1 TATAAAAAGGAAAAC
****
21159392 TATAAAAA-TCTTA-
1 TATAAAAAGGAAAAC
21159405 TATAAAAAGGAAAAC
1 TATAAAAAGGAAAAC
21159420 TATAAAAA
1 TATAAAAA
21159428 CCTTAAACTT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
13 8 0.31
14 2 0.08
15 16 0.62
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.22
Consensus pattern (15 bp):
TATAAAAAGGAAAAC
Found at i:21159406 original size:28 final size:28
Alignment explanation
Indices: 21159375--21159432 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
21159365 ATAATATATA
*
21159375 TATATAAAAAGGAAAACTATAAAAATCT
1 TATATAAAAAGGAAAACTATAAAAACCT
21159403 TATATAAAAAGGAAAACTATAAAAACCT
1 TATATAAAAAGGAAAACTATAAAAACCT
21159431 TA
1 TA
21159433 AACTTTTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (28 bp):
TATATAAAAAGGAAAACTATAAAAACCT
Found at i:21169236 original size:13 final size:12
Alignment explanation
Indices: 21169212--21169265 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 12
21169202 AGATTGAATC
21169212 TAAATA-TAAAA
1 TAAATACTAAAA
21169223 TAAATAACTAAAA
1 TAAAT-ACTAAAA
21169236 TTCAAATA--AAAA
1 -T-AAATACTAAAA
21169248 TAAATACTAGAAA
1 TAAATACTA-AAA
21169261 TAAAT
1 TAAAT
21169266 TGAGCGCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
10 5 0.14
11 6 0.17
12 6 0.17
13 13 0.36
14 2 0.06
15 4 0.11
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.26
Consensus pattern (12 bp):
TAAATACTAAAA
Found at i:21169256 original size:24 final size:27
Alignment explanation
Indices: 21169213--21169261 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
21169203 GATTGAATCT
21169213 AAATATAAAATAAATAACTA-AAATTC
1 AAATATAAAATAAATAACTAGAAATTC
21169239 AAATA-AAAATAAAT-ACTAGAAAT
1 AAATATAAAATAAATAACTAGAAAT
21169262 AAATTGAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 13 0.59
26 5 0.23
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.24
Consensus pattern (27 bp):
AAATATAAAATAAATAACTAGAAATTC
Found at i:21169914 original size:51 final size:51
Alignment explanation
Indices: 21169859--21169965 Score: 169
Period size: 51 Copynumber: 2.1 Consensus size: 51
21169849 ATTTTAATAC
* *
21169859 TGAATTAATTATTGACCTAAAACTAAAATAAATATTTAACTACTCATAATT
1 TGAATTAATTATCGACCTAAAACTAAAACAAATATTTAACTACTCATAATT
* *
21169910 TGAATTAATTATCGACCTAAAGCTAAAACAGATATTTAACTACTCATAATT
1 TGAATTAATTATCGACCTAAAACTAAAACAAATATTTAACTACTCATAATT
*
21169961 GGAAT
1 TGAAT
21169966 AAAAAACAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (51 bp):
TGAATTAATTATCGACCTAAAACTAAAACAAATATTTAACTACTCATAATT
Found at i:21174206 original size:21 final size:21
Alignment explanation
Indices: 21174182--21174241 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
21174172 TAGTTGCATG
21174182 ACTTGTATCGGTAGAAATTAC
1 ACTTGTATCGGTAGAAATTAC
* * *
21174203 ACTTGTATCGATAGAACTTGC
1 ACTTGTATCGGTAGAAATTAC
**
21174224 ACAGGTATCGGTAGAAAT
1 ACTTGTATCGGTAGAAAT
21174242 CTGCACAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (21 bp):
ACTTGTATCGGTAGAAATTAC
Found at i:21181240 original size:53 final size:53
Alignment explanation
Indices: 21181142--21181440 Score: 463
Period size: 53 Copynumber: 5.6 Consensus size: 53
21181132 GTAAATGCAA
* * * **
21181142 AAAGGTCTGATAACTTTGTGTCATTATGAGTTATATGAATCCTATTTCGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTTCGGATT
* * *
21181195 AATGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTATTTCAGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTTCGGATT
21181248 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTTCGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTTCGGATT
* *
21181301 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATAGGAATCCTATTTCAGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTTCGGATT
* * *
21181354 AAAGGTCTGATGACTCTGTGTCATTGTGAGTTATATGAATCCTATTACGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTTCGGATT
* *
21181407 AAAGGTCCAATGACTCTGTATCATCGTGAGTTAT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTAT
21181441 CAAATGTGAA
Statistics
Matches: 224, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 224 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (53 bp):
AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTTCGGATT
Found at i:21181645 original size:53 final size:53
Alignment explanation
Indices: 21181583--21181699 Score: 207
Period size: 53 Copynumber: 2.2 Consensus size: 53
21181573 TAAATTATCG
**
21181583 TTGTGAGTTATATGAATCCTATTACGGATTAAAGGTCTGATGACTCTGTGTCA
1 TTGTGAGTTATATGAATCCTATTACGGATTAAAGGTCCAATGACTCTGTGTCA
21181636 TTGTGAGTTATATGAATCCTATTACGGATTAAAGGTCCAATGACTCTGTGTCA
1 TTGTGAGTTATATGAATCCTATTACGGATTAAAGGTCCAATGACTCTGTGTCA
*
21181689 TCGTGAGTTAT
1 TTGTGAGTTAT
21181700 CAAATGTGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (53 bp):
TTGTGAGTTATATGAATCCTATTACGGATTAAAGGTCCAATGACTCTGTGTCA
Found at i:21181785 original size:259 final size:259
Alignment explanation
Indices: 21181326--21181845 Score: 968
Period size: 259 Copynumber: 2.0 Consensus size: 259
21181316 CTGTGTCATC
*
21181326 GTGAGTTATAGGAATCCTATTTCAGATTAAAGGTCTGATGACTCTGTGTCATTGTGAGTTATATG
1 GTGAGTTATAGGAATCCTATTACAGATTAAAGGTCTGATGACTCTGTGTCATTGTGAGTTATATG
21181391 AATCCTATTACGGATTAAAGGTCCAATGACTCTGTATCATCGTGAGTTATCAAATGTGAATTGAA
66 AATCCTATTACGGATTAAAGGTCCAATGACTCTGTATCATCGTGAGTTATCAAATGTGAATTGAA
21181456 ACCAACAACGGATGTATACAGCTTACTCGGTTGATTTGATTAGATCGTACAACTCTTGAAGTTTG
131 ACCAACAACGGATGTATACAGCTTACTCGGTTGATTTGATTAGATCGTACAACTCTTGAAGTTTG
* *
21181521 GCAAATCTGTTTAACTTTATGAACTTGCTAAGCTATGAAATGCTTACCTGTGTAAATTATCGTT
196 GCAAATCTGTTTAACTTTATGAACTTACTAAGCTATGAAATGCTTACCTGTGGAAATTATCGTT
* *
21181585 GTGAGTTATATGAATCCTATTACGGATTAAAGGTCTGATGACTCTGTGTCATTGTGAGTTATATG
1 GTGAGTTATAGGAATCCTATTACAGATTAAAGGTCTGATGACTCTGTGTCATTGTGAGTTATATG
*
21181650 AATCCTATTACGGATTAAAGGTCCAATGACTCTGTGTCATCGTGAGTTATCAAATGTGAATTGAA
66 AATCCTATTACGGATTAAAGGTCCAATGACTCTGTATCATCGTGAGTTATCAAATGTGAATTGAA
* *
21181715 ACCAACAATGGATGTATACAGCTTACTCGGTTGATTTGATTAGATTGTACAACTCTTGAAGTTTG
131 ACCAACAACGGATGTATACAGCTTACTCGGTTGATTTGATTAGATCGTACAACTCTTGAAGTTTG
21181780 GCAAATCTGTTTAACTTTATGAACTTACTAAGCTATGAAATGCTTACCTGTGGAAATTATCGTT
196 GCAAATCTGTTTAACTTTATGAACTTACTAAGCTATGAAATGCTTACCTGTGGAAATTATCGTT
21181844 GT
1 GT
21181846 TTTGTTGATT
Statistics
Matches: 253, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
259 253 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (259 bp):
GTGAGTTATAGGAATCCTATTACAGATTAAAGGTCTGATGACTCTGTGTCATTGTGAGTTATATG
AATCCTATTACGGATTAAAGGTCCAATGACTCTGTATCATCGTGAGTTATCAAATGTGAATTGAA
ACCAACAACGGATGTATACAGCTTACTCGGTTGATTTGATTAGATCGTACAACTCTTGAAGTTTG
GCAAATCTGTTTAACTTTATGAACTTACTAAGCTATGAAATGCTTACCTGTGGAAATTATCGTT
Found at i:21184227 original size:24 final size:26
Alignment explanation
Indices: 21184181--21184245 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
21184171 TTGTCTGCAA
*
21184181 CTTTTTTCTTTCTGTCTATAATTTTT
1 CTTTTTTCTTTCTGTCTACAATTTTT
*
21184207 CTTTTTTCTTTC-G-CTGCAATTTTT
1 CTTTTTTCTTTCTGTCTACAATTTTT
21184231 C-TTTTTCTTTCTGTC
1 CTTTTTTCTTTCTGTC
21184246 AGACTAGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 10 0.29
24 11 0.31
25 2 0.06
26 12 0.34
ACGTcount: A:0.08, C:0.20, G:0.06, T:0.66
Consensus pattern (26 bp):
CTTTTTTCTTTCTGTCTACAATTTTT
Found at i:21184430 original size:75 final size:76
Alignment explanation
Indices: 21184299--21184449 Score: 225
Period size: 77 Copynumber: 2.0 Consensus size: 76
21184289 TCATAAAACG
21184299 TAAACAATAAGTAACTTATTATAAGTTAAAAAAAAAGTAAAAAAAAATTAACTGAAAAAATAAAT
1 TAAACAATAAGTAACTTATTATAAGTTAAAAAAAAAGTAAAAAAAAATTAACTGAAAAAAT-AAT
21184364 TTTGTTAGGCCC
65 TTTGTTAGGCCC
* * **
21184376 TAAACAATAAGTAACTTATTATAAGTT-TAAAAAAAGT-GAAAAATTTTAACTGAAAAAATAATT
1 TAAACAATAAGTAACTTATTATAAGTTAAAAAAAAAGTAAAAAAAAATTAACTGAAAAAATAATT
* *
21184439 TTTTTGGGCCC
66 TTGTTAGGCCC
21184450 CCTTCTAATG
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
74 13 0.19
75 19 0.28
76 9 0.13
77 27 0.40
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (76 bp):
TAAACAATAAGTAACTTATTATAAGTTAAAAAAAAAGTAAAAAAAAATTAACTGAAAAAATAATT
TTGTTAGGCCC
Found at i:21185681 original size:21 final size:21
Alignment explanation
Indices: 21185657--21185697 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21185647 CTTGTTTCGG
*
21185657 TAGAAGAGTCTCTTGTATCAA
1 TAGAAGAGTCACTTGTATCAA
**
21185678 TAGAATTGTCACTTGTATCA
1 TAGAAGAGTCACTTGTATCA
21185698 GTAAAATTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (21 bp):
TAGAAGAGTCACTTGTATCAA
Found at i:21188121 original size:19 final size:18
Alignment explanation
Indices: 21188092--21188132 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
21188082 TTTTGTTTAG
21188092 ATTTCAATTTAGTCCTTTT
1 ATTTCAATTTAG-CCTTTT
21188111 CATTT-AATTTAGCCTTTT
1 -ATTTCAATTTAGCCTTTT
21188129 ATTT
1 ATTT
21188133 TCTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 6 0.29
19 7 0.33
20 4 0.19
ACGTcount: A:0.22, C:0.15, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTCAATTTAGCCTTTT
Found at i:21188619 original size:24 final size:25
Alignment explanation
Indices: 21188591--21188642 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
21188581 AGAAATAATC
*
21188591 TTTCAGTTAAACTCTATTTATTT-G
1 TTTCAATTAAACTCTATTTATTTAG
*
21188615 TTTCAATTAAACTCTGTTTATTTAG
1 TTTCAATTAAACTCTATTTATTTAG
21188640 TTT
1 TTT
21188643 TTATCTCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.56
Consensus pattern (25 bp):
TTTCAATTAAACTCTATTTATTTAG
Found at i:21190442 original size:28 final size:24
Alignment explanation
Indices: 21190386--21190435 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
21190376 GAAATAATCA
*
21190386 TTCAGTTAAACTCTATTTATTTGT
1 TTCAATTAAACTCTATTTATTTGT
*
21190410 TTCAATTAAACTCTGTTTATTTGT
1 TTCAATTAAACTCTATTTATTTGT
21190434 TT
1 TT
21190436 GAGTCAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (24 bp):
TTCAATTAAACTCTATTTATTTGT
Found at i:21193279 original size:35 final size:35
Alignment explanation
Indices: 21193227--21193297 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
21193217 TACAGGTGAA
*
21193227 GATACAAACAAAACCGGTGGTTGGCATTTAATGAT
1 GATACAAACAAAACCGGTGCTTGGCATTTAATGAT
* * **
21193262 GATACAAACGAAGCCGGTGCTTGGTGTTTAATGAT
1 GATACAAACAAAACCGGTGCTTGGCATTTAATGAT
21193297 G
1 G
21193298 TTCATGCCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (35 bp):
GATACAAACAAAACCGGTGCTTGGCATTTAATGAT
Found at i:21200813 original size:19 final size:19
Alignment explanation
Indices: 21200789--21200836 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
21200779 CCAATTTTTT
*
21200789 TATAAATTTTAAAATTATA
1 TATAAATTTTAAAATAATA
*
21200808 TATAAATTTTAATATAATA
1 TATAAATTTTAAAATAATA
21200827 TAT-AATTTTA
1 TATAAATTTTA
21200837 TACATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAAATTTTAAAATAATA
Found at i:21200824 original size:31 final size:31
Alignment explanation
Indices: 21200757--21200851 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 31
21200747 AGTTTTGGGC
* *
21200757 AATA-AAATTTTAAAATT-TGTATCCAATTTT
1 AATATAAATTTTAAAATTATATAT-AAATTTT
**
21200787 TTTATAAATTTTAAAATTATATATAAATTTT
1 AATATAAATTTTAAAATTATATATAAATTTT
* ** *
21200818 AATAT-AATATATAATTTTATACATAAATTTT
1 AATATAAAT-TTTAAAATTATATATAAATTTT
21200849 AAT
1 AAT
21200852 TTTATAAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
30 5 0.10
31 43 0.83
32 4 0.08
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (31 bp):
AATATAAATTTTAAAATTATATATAAATTTT
Found at i:21200838 original size:29 final size:27
Alignment explanation
Indices: 21200798--21200869 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 27
21200788 TTATAAATTT
*
21200798 TAAAATTATATATAAATTTTAATATAATA
1 TAAAATTTTATATAAATTTTAAT-T-ATA
* *
21200827 TATAATTTTATACATAAATTTTAATTTTA
1 TAAAATTTTAT--ATAAATTTTAATTATA
21200856 TAAAATTTTATATA
1 TAAAATTTTATATA
21200870 TAAAATTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
27 3 0.08
29 21 0.57
30 1 0.03
31 12 0.32
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (27 bp):
TAAAATTTTATATAAATTTTAATTATA
Found at i:21200843 original size:19 final size:19
Alignment explanation
Indices: 21200805--21200857 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
21200795 TTTTAAAATT
*
21200805 ATATATAAATTTTA-ATATA
1 ATATAT-AATTTTATACATA
21200824 ATATATAATTTTATACATA
1 ATATATAATTTTATACATA
*
21200843 A-ATTTTAATTTTATA
1 ATA-TATAATTTTATA
21200858 AAATTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.27
19 22 0.73
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATATAATTTTATACATA
Found at i:21200872 original size:29 final size:29
Alignment explanation
Indices: 21200803--21200883 Score: 99
Period size: 31 Copynumber: 2.7 Consensus size: 29
21200793 AATTTTAAAA
* *
21200803 TTATATATAAATTTTAATATAATATATAATT
1 TTATATATAAATTTTAAT-T-TTATAAAATT
*
21200834 TTATACATAAATTTTAATTTTATAAAATT
1 TTATATATAAATTTTAATTTTATAAAATT
*
21200863 TTATATATAAAATTTTGATTT
1 TTATATAT-AAATTTTAATTT
21200884 GATCTCATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 15 0.34
30 12 0.27
31 17 0.39
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
TTATATATAAATTTTAATTTTATAAAATT
Found at i:21200995 original size:25 final size:23
Alignment explanation
Indices: 21200937--21200999 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 23
21200927 TATTTTATAT
* *
21200937 TTATATATTAAATATACAAATAA
1 TTATATATTTAATATAAAAATAA
21200960 TTATATTTATTTAATATAAAAATAAA
1 TTATA--TATTTAATATAAAAAT-AA
21200986 TTGATATATTTAAT
1 TT-ATATATTTAAT
21201000 TTTTTTGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 5 0.15
25 22 0.65
26 4 0.12
27 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TTATATATTTAATATAAAAATAA
Found at i:21216658 original size:21 final size:23
Alignment explanation
Indices: 21216605--21216661 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
21216595 AAACTTACGT
* *
21216605 ACTACCGATACATCTGTACTATGA
1 ACTACCGATACA-CTGTAATATAA
*
21216629 ACTATCGATAC-CTGTAAT-TAA
1 ACTACCGATACACTGTAATATAA
21216650 ACTACCGATACA
1 ACTACCGATACA
21216662 ATACAAGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 12 0.43
22 6 0.21
24 10 0.36
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.28
Consensus pattern (23 bp):
ACTACCGATACACTGTAATATAA
Found at i:21218395 original size:20 final size:20
Alignment explanation
Indices: 21218353--21218396 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
21218343 ACTTTTATTA
* * *
21218353 TTAAGTTTAATTAATCATTT
1 TTAACTTTAATTAAACATAT
*
21218373 TTAACTTTAATTAAACCTAT
1 TTAACTTTAATTAAACATAT
21218393 TTAA
1 TTAA
21218397 AGGTAATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAACTTTAATTAAACATAT
Found at i:21225681 original size:46 final size:46
Alignment explanation
Indices: 21225626--21225718 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
21225616 AATACAAGTT
* * *
21225626 AGAAAATTCAAGAAATTTAGTAGTAATTAGTTTGAA-TATTTTACCA
1 AGAAAATTCAAGAAATCTAGTAATAATTAG-TTAAAGTATTTTACCA
*
21225672 AGAACATTCAAGAAATCTAGTAATAATTAGTTAAAGTATTTTACCA
1 AGAAAATTCAAGAAATCTAGTAATAATTAGTTAAAGTATTTTACCA
21225718 A
1 A
21225719 TTATGATCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 4 0.10
46 38 0.90
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (46 bp):
AGAAAATTCAAGAAATCTAGTAATAATTAGTTAAAGTATTTTACCA
Found at i:21226161 original size:14 final size:14
Alignment explanation
Indices: 21226142--21226180 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
21226132 TTGTTTCACT
21226142 AAAAATGATTTCTG
1 AAAAATGATTTCTG
* *
21226156 AAAAATAATTTTTG
1 AAAAATGATTTCTG
*
21226170 GAAAATGATTT
1 AAAAATGATTT
21226181 ACTTTTTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.38
Consensus pattern (14 bp):
AAAAATGATTTCTG
Found at i:21226664 original size:15 final size:15
Alignment explanation
Indices: 21226644--21226702 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 15
21226634 ATACTACAAA
21226644 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
21226659 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
21226676 AAATATTTATTATTAAT
1 --ATATTTATTATTAAT
21226693 ATATTATATT
1 ATATT-TATT
21226703 GAATATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 14 0.38
16 5 0.14
17 8 0.22
18 1 0.03
19 9 0.24
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:21226707 original size:14 final size:13
Alignment explanation
Indices: 21226643--21226720 Score: 53
Period size: 13 Copynumber: 6.4 Consensus size: 13
21226633 TATACTACAA
21226643 AATATTTATTATT
1 AATATTTATTATT
*
21226656 AATATAT-TTA-T
1 AATATTTATTATT
* *
21226667 AAT-TGTA--ATA
1 AATATTTATTATT
21226677 AATATTTATTATT
1 AATATTTATTATT
21226690 AATATATTA-TATT
1 AATAT-TTATTATT
*
21226703 GAATATTT-TTAAT
1 -AATATTTATTATT
21226716 AATAT
1 AATAT
21226721 GTGAAGAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
9 1 0.02
10 5 0.10
11 7 0.14
12 8 0.16
13 22 0.43
14 8 0.16
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
AATATTTATTATT
Found at i:21226893 original size:13 final size:14
Alignment explanation
Indices: 21226873--21226904 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
21226863 AATATTGAAA
21226873 AATA-TAATATTTT
1 AATATTAATATTTT
21226886 -ATATTAATATTTT
1 AATATTAATATTTT
21226899 AATATT
1 AATATT
21226905 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:21250974 original size:22 final size:21
Alignment explanation
Indices: 21250910--21250974 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
21250900 TTTCTTTATC
21250910 TAAATAATAATTTTCATTCAAT
1 TAAATAATAATTTT-ATTCAAT
* * *
21250932 T-AAT-ACAATTTCA-TCACT
1 TAAATAATAATTTTATTCAAT
21250950 TAAATAATAAGTTTTATTCAAT
1 TAAATAATAA-TTTTATTCAAT
21250972 TAA
1 TAA
21250975 GTCCTTCCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 5 0.15
19 4 0.12
20 9 0.27
21 7 0.21
22 8 0.24
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAATAATAATTTTATTCAAT
Found at i:21252604 original size:64 final size:66
Alignment explanation
Indices: 21252478--21252632 Score: 235
Period size: 67 Copynumber: 2.3 Consensus size: 66
21252468 TTATTTATTT
21252478 ATAATAATAAATAAATAATAAAACAAAATTAATATTATTTTACATTTATTTATTTATATTCAT-A
1 ATAATAATAAATAAATAATAAAACAAAATTAATATTATTTTA-ATTTATTTATTTATATTCATAA
21252542 AA
65 AA
* * *
21252544 ATAATAAATAAATAAATAATAAAATAAAATTAATTTTATTTT-A-TTATTTATTTATGTTCATAA
1 ATAAT-AATAAATAAATAATAAAACAAAATTAATATTATTTTAATTTATTTATTTATATTCATAA
21252607 AA
65 AA
21252609 ATAATAATAAATAAATAAATAAAA
1 ATAATAATAAATAAAT-AATAAAA
21252633 ATAATAAGAA
Statistics
Matches: 83, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
64 28 0.34
65 16 0.19
66 5 0.06
67 34 0.41
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (66 bp):
ATAATAATAAATAAATAATAAAACAAAATTAATATTATTTTAATTTATTTATTTATATTCATAAA
A
Found at i:21252646 original size:18 final size:18
Alignment explanation
Indices: 21252605--21252646 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
21252595 TTATGTTCAT
*
21252605 AAAAATAATAATAAATAA
1 AAAAATAAAAATAAATAA
*
21252623 ATAAATAAAAAT-AATAA
1 AAAAATAAAAATAAATAA
21252640 GAAAAAT
1 -AAAAAT
21252647 GGAATTGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAATAAATAA
Found at i:21253339 original size:80 final size:80
Alignment explanation
Indices: 21253165--21254695 Score: 2588
Period size: 80 Copynumber: 19.2 Consensus size: 80
21253155 ATAACTTTAG
* * * * *
21253165 GGGTAAAAGATTAGATTGT-TTCAA-CTTGCCCCATGGTCGAGGTAAGAGATCTGATGGTCTTCA
1 GGGTAAAAGATTGGATT-TCTTCAATC-TGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCA
*
21253228 AT-TTGCCCTTTGGTTA
64 ATCTTGCCCTCTGGTTA
* * *
21253244 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGCAAAAAATCAGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
21253309 CTTGCCCTCTAGTTA
66 CTTGCCCTCTGGTTA
*
21253324 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTTTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
21253389 CTTGCCCTCTGGTTA
66 CTTGCCCTCTGGTTA
* * *
21253404 GGGTAAAAGATTGGATTTCTTCAATCTACCCCATGATCGGGGTAAAAGGTCGGATGGTCCTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
21253469 CTTGCCCTCTAGTTA
66 CTTGCCCTCTGGTTA
* *
21253484 GGGTAAAAAATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCACT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
21253549 CTT-CCCTCTGGTTA
66 CTTGCCCTCTGGTTA
21253563 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
21253628 CTTGCCCTCTGGTTA
66 CTTGCCCTCTGGTTA
* *
21253643 GGGTAAAAGATTGGATTTCTTCAATTTGCCCCATGATCGGGGTAGAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
21253708 CTT-CCCTCTGGTTA
66 CTTGCCCTCTGGTTA
* *
21253722 GGGTAAAAGATTGAATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCTAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
21253787 CTTGCCCTCTGGTTA
66 CTTGCCCTCTGGTTA
*
21253802 GGGTAAAAGATTGGATTTCTTCAATCTACCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
* *
21253867 CTTGCCCTTTTGTTA
66 CTTGCCCTCTGGTTA
*
21253882 GGGTAAAAGATTGGATTTCTTCAATCTGCCTCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
21253947 CTTGCCCTCTAGTTA
66 CTTGCCCTCTGGTTA
21253962 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
21254027 CTTGCCCTCTGGTTA
66 CTTGCCCTCTGGTTA
* *
21254042 GGGTAAATGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGATCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
21254107 CTTGCCCTCTGGTTA
66 CTTGCCCTCTGGTTA
*
21254122 GGGTAAAAGATTGGATTTTTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
21254187 CTTGCCCTTTGGTTA
66 CTTGCCCTCTGGTTA
*
21254202 GGGTAAAAGATTGAATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
21254267 CTTGCCCTCTAGTTA
66 CTTGCCCTCTGGTTA
* * *
21254282 GGGTAAAAGATTGGCTTTCTTTAATCTGCCCCATGATCGGGGTAAAAGATCGGATAGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
21254347 CTTGCCCTCTAGTTA
66 CTTGCCCTCTGGTTA
* *
21254362 GGGTAAAAGATTGGATTTCTTCAATCTACCCCATGATC-GGGTAAAAGATCGGATGGTATTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
21254426 CTTGCCCTCTGTTTA
66 CTTGCCCTCTGGTTA
21254441 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
21254506 CTTGCCCTCTTGTTA
66 CTTGCCCTCTGGTTA
21254521 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
21254586 CTTGCCCTCTGGTTA
66 CTTGCCCTCTGGTTA
* * ** *
21254601 GGGTAAAATATTGGATTTCTTCAATTTGCCCCATGATCGGGGTAAAAGATCTAATGGTTTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
21254666 CTTGCCCTCTGGTGA
66 CTTGCCCTCTGGTTA
21254681 GGGTAAAAGATTGGA
1 GGGTAAAAGATTGGA
21254696 GGTTGTAATT
Statistics
Matches: 1369, Mismatches: 77, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
78 1 0.00
79 279 0.20
80 1089 0.80
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (80 bp):
GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
CTTGCCCTCTGGTTA
Found at i:21253884 original size:319 final size:320
Alignment explanation
Indices: 21253165--21254695 Score: 2608
Period size: 319 Copynumber: 4.8 Consensus size: 320
21253155 ATAACTTTAG
* * * * *
21253165 GGGTAAAAGATTAGATTGT-TTCAA-CTTGCCCCATGGTCGAGGTAAGAGATCTGATGGTCTTCA
1 GGGTAAAAGATTGGATT-TCTTCAATC-TGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCA
* *
21253228 AT-TTGCCCTTTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGCAAAAA
64 ATCTTGCCCTTTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAG
*
21253292 ATCAGATGGTCTTCAATCTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCA
129 ATCGGATGGTCTTCAATCTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCA
*
21253357 TGATCGGGGTAAAAGATCGGATGGTTTTCAATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTT
194 TGATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTT
* * *
21253422 CTTCAATCTACCCCATGATCGGGGTAAAAGGTCGGATGGTCCTCAATCTTGCCCTCTAGTTA
259 CTTCAATCTACCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTA
* *
21253484 GGGTAAAAAATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCACT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
21253549 CTT-CCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGAT
66 CTTGCCCTTTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGAT
* *
21253613 CGGATGGTCTTCAATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATTTGCCCCATG
131 CGGATGGTCTTCAATCTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATG
* *
21253678 ATCGGGGTAGAAGATCGGATGGTCTTCAATCTT-CCCTCTGGTTAGGGTAAAAGATTGAATTTCT
196 ATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCT
* *
21253742 TCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCTATCTTGCCCTCTGGTTA
261 TCAATCTACCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTA
*
21253802 GGGTAAAAGATTGGATTTCTTCAATCTACCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
* *
21253867 CTTGCCCTTTTGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCTCATGATCGGGGTAAAAGAT
66 CTTGCCCTTTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGAT
21253932 CGGATGGTCTTCAATCTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATG
131 CGGATGGTCTTCAATCTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATG
*
21253997 ATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTAGGGTAAATGATTGGATTTCT
196 ATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCT
* *
21254062 TCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGATCTTCAATCTTGCCCTCTGGTTA
261 TCAATCTACCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTA
*
21254122 GGGTAAAAGATTGGATTTTTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
21254187 CTTGCCCTTTGGTTAGGGTAAAAGATTGAATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGAT
66 CTTGCCCTTTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGAT
* *
21254252 CGGATGGTCTTCAATCTTGCCCTCTAGTTAGGGTAAAAGATTGGCTTTCTTTAATCTGCCCCATG
131 CGGATGGTCTTCAATCTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATG
* *
21254317 ATCGGGGTAAAAGATCGGATAGTCTTCAATCTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCT
196 ATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCT
* *
21254382 TCAATCTACCCCATGATC-GGGTAAAAGATCGGATGGTATTCAATCTTGCCCTCTGTTTA
261 TCAATCTACCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTA
21254441 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
21254506 CTTGCCCTCTT-GTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGA
66 CTTGCCCT-TTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGA
* * *
21254570 TCGGATGGTCTTCAATCTTGCCCTCTGGTTAGGGTAAAATATTGGATTTCTTCAATTTGCCCCAT
130 TCGGATGGTCTTCAATCTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCAT
** * *
21254635 GATCGGGGTAAAAGATCTAATGGTTTTCAATCTTGCCCTCTGGTGAGGGTAAAAGATTGGA
195 GATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTAGGGTAAAAGATTGGA
21254696 GGTTGTAATT
Statistics
Matches: 1145, Mismatches: 61, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
318 151 0.13
319 635 0.55
320 359 0.31
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (320 bp):
GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
CTTGCCCTTTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGAT
CGGATGGTCTTCAATCTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGCCCCATG
ATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCT
TCAATCTACCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATCTTGCCCTCTGGTTA
Found at i:21254835 original size:50 final size:50
Alignment explanation
Indices: 21254781--21254926 Score: 163
Period size: 50 Copynumber: 2.9 Consensus size: 50
21254771 TTTAAATGAC
* * * * *
21254781 TGAGATTTGCCATTACAGCTTCATTCTGCCCCTCTACAGCTTTAGGTGTA
1 TGAGATTTGCCATTGCAGTTTCAATCTGCACCTCCACAGCTTTAGGTGTA
* * * *
21254831 TGAGATTTGACATTGC-GTTTTCAATCTACACGTCCACAGCTTTAGTTGTA
1 TGAGATTTGCCATTGCAG-TTTCAATCTGCACCTCCACAGCTTTAGGTGTA
21254881 TGAGA-TTGACCATTGCAGTTTCAATCTGCACCTCCATC-GCTTTAGG
1 TGAGATTTG-CCATTGCAGTTTCAATCTGCACCTCCA-CAGCTTTAGG
21254927 GGTAAAAGAT
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
49 4 0.05
50 73 0.92
51 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (50 bp):
TGAGATTTGCCATTGCAGTTTCAATCTGCACCTCCACAGCTTTAGGTGTA
Found at i:21255858 original size:6 final size:6
Alignment explanation
Indices: 21255849--21255907 Score: 55
Period size: 6 Copynumber: 9.0 Consensus size: 6
21255839 TCGACCTCCC
* *
21255849 CTTTTT CTTTTT CTTTTCTT CTTTTT CCTTTT CTTTGTCT TTTTTT CTTTTTT
1 CTTTTT CTTTTT C-TTT-TT CTTTTT CTTTTT CTTT-T-T CTTTTT C-TTTTT
21255902 CTTTTT
1 CTTTTT
21255908 TTAATTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
6 23 0.52
7 14 0.32
8 7 0.16
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:21255872 original size:8 final size:7
Alignment explanation
Indices: 21255850--21255908 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
21255840 CGACCTCCCC
21255850 TTTTTC-
1 TTTTTCT
21255856 TTTTTCT
1 TTTTTCT
21255863 TTTCTTC-
1 TTT-TTCT
21255870 TTTTTC-
1 TTTTTCT
*
21255876 CTTTTC-
1 TTTTTCT
*
21255882 TTTGTCTT
1 TTTTTC-T
21255890 TTTTTCT
1 TTTTTCT
21255897 TTTTTCT
1 TTTTTCT
21255904 TTTTT
1 TTTTT
21255909 TAATTTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
6 18 0.40
7 19 0.42
8 8 0.18
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:21255872 original size:20 final size:20
Alignment explanation
Indices: 21255849--21255906 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
21255839 TCGACCTCCC
21255849 CTTTTTCTTTTTCTTTTCTT
1 CTTTTTCTTTTTCTTTTCTT
*
21255869 CTTTTTCCTTTTCTTTGTCTT
1 CTTTTTCTTTTTCTTT-TCTT
21255890 -TTTTTCTTTTTTCTTTT
1 CTTTTTC-TTTTTCTTTT
21255907 TTTAATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 22 0.65
21 12 0.35
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (20 bp):
CTTTTTCTTTTTCTTTTCTT
Done.