Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3884024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 18
Found at i:2117875 original size:3 final size:3
Alignment explanation
Indices: 2117867--2117906 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2117857 TCTTGACACC
2117867 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2117907 GGTCTGCCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:2118272 original size:24 final size:23
Alignment explanation
Indices: 2118223--2118272 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
2118213 CTTAGTCCTA
*
2118223 TTTGCATGTTGTTTTATTTCATTT
1 TTTGCATGTTGTTTTATTT-AGTT
2118247 TTTGCATGTTGCTTTTATGTT-GTT
1 TTTGCATGTTG-TTTTAT-TTAGTT
2118271 TT
1 TT
2118273 ATTTAGTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 15 0.65
25 6 0.26
26 2 0.09
ACGTcount: A:0.10, C:0.08, G:0.16, T:0.66
Consensus pattern (23 bp):
TTTGCATGTTGTTTTATTTAGTT
Found at i:2118966 original size:131 final size:131
Alignment explanation
Indices: 2118724--2119092 Score: 535
Period size: 131 Copynumber: 2.8 Consensus size: 131
2118714 TCAATATTGA
* *
2118724 AAATAGTAATATCTTTTCATTTCTG-TTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCA
1 AAATAGTGATATCTCTTCATTTC-GATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCA
* * * *
2118788 TTTATTATCGATTGGAAATAATTAGATATTATTGTTTTCTCTTGAATCAATATTGATTTTTAAGA
65 TTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGAATTTTAAGA
2118853 CG
130 CG
* *
2118855 AAATAGTGATATCTCTTGATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGCGAGGTCAT
1 AAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCAT
* * *
2118920 TTATTCTTGATTGAAAATCATTAGATATTATCGTTTTCAT-TCGAATCAATATTGAATTTTAAGA
66 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTC-TCTCGAATCAATATTGAATTTTAAGA
*
2118984 TG
130 CG
* * * * ***
2118986 AAATAGTGACATCTCTTTATTTTGATCGGAGTAATAAATGACAACTTTAAGGCATGAGAGGTCAT
1 AAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCAT
2119051 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTC
66 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTC
2119093 TTAGAATTAT
Statistics
Matches: 212, Mismatches: 23, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
130 2 0.01
131 209 0.99
132 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (131 bp):
AAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCAT
TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGAATTTTAAGAC
G
Found at i:2119475 original size:19 final size:19
Alignment explanation
Indices: 2119434--2119475 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
2119424 AAAATTTTTG
*
2119434 TTTTAATTAAAATTAATA-
1 TTTTAATTAAAATTAAAAC
*
2119452 TTTTTATTAAAATTACAAAC
1 TTTTAATTAAAATTA-AAAC
2119472 TTTT
1 TTTT
2119476 GGGTGCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 14 0.70
19 2 0.10
20 4 0.20
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTAATTAAAATTAAAAC
Found at i:2122106 original size:16 final size:15
Alignment explanation
Indices: 2122061--2122107 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
2122051 CATACCAATG
2122061 AATGGTCCAAGCTCA
1 AATGGTCCAAGCTCA
2122076 AATGGTCCAAGCTCA
1 AATGGTCCAAGCTCA
*
2122091 AATGGTCACTAGCTCA
1 AATGGTC-CAAGCTCA
2122107 A
1 A
2122108 GTAAATTGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 22 0.73
16 8 0.27
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (15 bp):
AATGGTCCAAGCTCA
Found at i:2122685 original size:17 final size:17
Alignment explanation
Indices: 2122663--2122695 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2122653 TTCGAATTAG
2122663 CACATTGCATTGTATTT
1 CACATTGCATTGTATTT
*
2122680 CACATTGCATTTTATT
1 CACATTGCATTGTATT
2122696 CATTAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (17 bp):
CACATTGCATTGTATTT
Found at i:2129333 original size:13 final size:13
Alignment explanation
Indices: 2129317--2129440 Score: 65
Period size: 13 Copynumber: 9.8 Consensus size: 13
2129307 GAAGAAAGAA
2129317 AAAAATGAAAAAG
1 AAAAATGAAAAAG
*
2129330 AAAAAAGAAAAAG
1 AAAAATGAAAAAG
*
2129343 AAAAAATG----AC
1 -AAAAATGAAAAAG
2129353 AAAAATGAAAATA-
1 AAAAATGAAAA-AG
2129366 AAAAATG-AAAA-
1 AAAAATGAAAAAG
*
2129377 AAAGA-GAAAAGAG
1 AAAAATGAAAA-AG
2129390 AAAAATGAAGAAA-
1 AAAAATGAA-AAAG
2129403 AAGAAA-GAAAAAAG
1 AA-AAATG-AAAAAG
2129417 AAAAA-GAAAATAG
1 AAAAATGAAAA-AG
2129430 AATAAAT-AAAA
1 AA-AAATGAAAA
2129441 GGGGGTTCAA
Statistics
Matches: 89, Mismatches: 5, Indels: 33
0.70 0.04 0.26
Matches are distributed among these distances:
9 7 0.08
10 2 0.02
11 8 0.09
12 8 0.09
13 37 0.42
14 25 0.28
15 2 0.02
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (13 bp):
AAAAATGAAAAAG
Found at i:2129334 original size:7 final size:7
Alignment explanation
Indices: 2129311--2129431 Score: 81
Period size: 7 Copynumber: 16.9 Consensus size: 7
2129301 TCGCCTGAAG
2129311 AAAGAAA
1 AAAGAAA
2129318 AAA-ATGAA
1 AAAGA--AA
2129326 AAAGAAA
1 AAAGAAA
2129333 AAAG-AA
1 AAAGAAA
2129339 AAAGAAA
1 AAAGAAA
2129346 AAATGACAA
1 AAA-GA-AA
2129355 AAATGAAA
1 AAA-GAAA
*
2129363 ATA-AAA
1 AAAGAAA
*
2129369 AATGAAAA
1 AAAG-AAA
2129377 AAAGAGAA
1 AAAGA-AA
2129385 AAGAGAAA
1 AA-AGAAA
* *
2129393 AATGAAG
1 AAAGAAA
*
2129400 AAA-AAG
1 AAAGAAA
2129406 AAAGAAA
1 AAAGAAA
2129413 AAAG-AA
1 AAAGAAA
2129419 AAAGAAA
1 AAAGAAA
*
2129426 ATAGAA
1 AAAGAA
2129432 TAAATAAAAG
Statistics
Matches: 93, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
6 23 0.25
7 33 0.35
8 25 0.27
9 12 0.13
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.06
Consensus pattern (7 bp):
AAAGAAA
Found at i:2129357 original size:36 final size:35
Alignment explanation
Indices: 2129311--2129421 Score: 116
Period size: 36 Copynumber: 3.0 Consensus size: 35
2129301 TCGCCTGAAG
*
2129311 AAAGAAAAAAATGAAAAAGAAAAAAGAAAAAGAAAA
1 AAAGACAAAAATGAAAAA-AAAAAAGAAAAAGAAAA
* *
2129347 AATGACAAAAATGAAAATAAAAAATGAAAAA-AAGAGA
1 AAAGACAAAAATGAAAA-AAAAAAAGAAAAAGAA-A-A
* *
2129384 AAAGAGAAAAATGAAGAAAAAGAAAGAAAAAAGAAAA
1 AAAGACAAAAATGAA-AAAAAAAAAG-AAAAAGAAAA
2129421 A
1 A
2129422 GAAAATAGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
35 2 0.03
36 27 0.44
37 23 0.37
38 8 0.13
39 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.05
Consensus pattern (35 bp):
AAAGACAAAAATGAAAAAAAAAAAGAAAAAGAAAA
Found at i:2129401 original size:10 final size:9
Alignment explanation
Indices: 2129311--2129424 Score: 55
Period size: 9 Copynumber: 12.7 Consensus size: 9
2129301 TCGCCTGAAG
2129311 AAAGAA-AA
1 AAAGAAGAA
*
2129319 AAATGAAAAA
1 AAA-GAAGAA
*
2129329 GAAAAAAGAA
1 -AAAGAAGAA
2129339 AAAGAA-AA
1 AAAGAAGAA
*
2129347 AATGACA-AA
1 AAAGA-AGAA
*
2129356 AATGAA-AA
1 AAAGAAGAA
*
2129364 TAAAAAATGAA
1 -AAAGAA-GAA
2129375 AAA-AAGAGA
1 AAAGAAGA-A
2129384 AAAG-AGAA
1 AAAGAAGAA
2129392 AAATGAAGAA
1 AAA-GAAGAA
2129402 AAAGAA-AGA
1 AAAGAAGA-A
2129411 AAA-AAGAA
1 AAAGAAGAA
2129419 AAAGAA
1 AAAGAA
2129425 AATAGAATAA
Statistics
Matches: 86, Mismatches: 6, Indels: 27
0.72 0.05 0.23
Matches are distributed among these distances:
8 25 0.29
9 40 0.47
10 16 0.19
11 5 0.06
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.05
Consensus pattern (9 bp):
AAAGAAGAA
Found at i:2129415 original size:46 final size:44
Alignment explanation
Indices: 2129318--2129421 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 44
2129308 AAGAAAGAAA
* *
2129318 AAAATGAAAAA-G-AAAAAAGAAAAAGAAAAAATGACAAAAATG
1 AAAATAAAAAATGAAAAAAAGAAAAAGAAAAAATGACAAAAAAG
2129360 AAAATAAAAAATGAAAAAAAGAGAAAAGAGAAAAATGA-AGAAAAAG
1 AAAATAAAAAATGAAAAAAAGA-AAAAGA-AAAAATGACA-AAAAAG
*
2129406 -AAAGAAAAAA-GAAAAA
1 AAAATAAAAAATGAAAAA
2129422 GAAAATAGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
42 10 0.19
43 1 0.02
44 14 0.26
45 16 0.30
46 13 0.24
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (44 bp):
AAAATAAAAAATGAAAAAAAGAAAAAGAAAAAATGACAAAAAAG
Found at i:2131104 original size:133 final size:132
Alignment explanation
Indices: 2130628--2131107 Score: 480
Period size: 133 Copynumber: 3.6 Consensus size: 132
2130618 GAAGACAAGA
* * *
2130628 GGAACAAATCTACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAATGCTTCCAGATC
1 GGAACAAGTCTACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACGTTTCCAGATC
* * * * *
2130693 T-ATTTTCCCTGAATAAATAGCAGAACAGATCCCCTCTTCCAAGTTTGATCTT-CTCTTAGTAGC
66 TGATTTTCCCTGAAGAAGTAGCGGAACAGATCCCCTCTTTCTAGTTTGATCTTCCT-TTAGTAGC
2130756 AGT
130 AGT
* * * * * * *
2130759 GGAATAAGTCTACCTTGATTCAGTCTTACCTAAAGAACAGTGGGATGAATCAACGATTCCATATC
1 GGAACAAGTCTACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACGTTTCCAGATC
* ** * * * * * * * * *
2130824 AGATTTTCATTGCAGAAGCAGTGGAACATATCCTCTCTTTCTCGGTTTGATCTTCCATAAGCAGC
66 TGATTTTCCCTGAAGAAGTAGCGGAACAGATCCCCTCTTTCT-AGTTTGATCTTCCTTTAGTAGC
2130889 AGT
130 AGT
** * * ** * * * *
2130892 GGAACAAG-CTTGTCTCGATTCAATCGTCCCTGAAGAACAGTGGGTTGAATAAATGTCTCTAGAT
1 GGAACAAGTC-TACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACGTTTCCAGAT
* * ** *
2130956 CTAATTTTCCTTGAAGAAGTAGCGGAATGGATCCCCTTTTTCTAGATTTGATCTTCCTTTAGTAG
65 CTGATTTTCCCTGAAGAAGTAGCGGAACAGATCCCCTCTTTCTAG-TTTGATCTTCCTTTAGTAG
2131021 CAGT
129 CAGT
* * *
2131025 GGAACAAGTCTGCCTCGATTCAATCCTCCCTGAAGAACAGTGGAATGAATCAACGTTTCCAGATC
1 GGAACAAGTCTACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACGTTTCCAGATC
* *
2131090 TGATCTACCCTGAAGAAG
66 TGATTTTCCCTGAAGAAG
2131108 CAGCCAAGCA
Statistics
Matches: 275, Mismatches: 68, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
131 56 0.20
132 30 0.11
133 187 0.68
134 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (132 bp):
GGAACAAGTCTACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACGTTTCCAGATC
TGATTTTCCCTGAAGAAGTAGCGGAACAGATCCCCTCTTTCTAGTTTGATCTTCCTTTAGTAGCA
GT
Found at i:2131323 original size:3 final size:3
Alignment explanation
Indices: 2131315--2131353 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
2131305 TCCTGACACC
2131315 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2131354 TTCATTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2132431 original size:131 final size:131
Alignment explanation
Indices: 2132175--2132533 Score: 481
Period size: 131 Copynumber: 2.7 Consensus size: 131
2132165 TCAATATTGA
* * * * * *
2132175 AAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCAT
1 AAATAGTGACATCTCTTAATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCAAGAGAGGTCAT
* * *
2132240 TTATTCTCGATTGGAAATAATTAGATATTATTGTTTTCTCTCGAAACAATATTGATTTTTAAGAT
66 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAAACAATATTAAATTTTAAGAT
2132305 G
131 G
** * *
2132306 AAATAAGT-ATTTCTCTTAATTTCGATTGGAGTAATAAATGAATGCTTTAAGGCAAGCGAGGTCA
1 AAAT-AGTGACATCTCTTAATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCAAGAGAGGTCA
* * * *
2132370 TTTATTCTCGATTGGAAATCATTAGATATTATCGTTTTCAT-TCTAATCAGTATTAAATTTTAAG
65 TTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTC-TCTCGAAACAATATTAAATTTTAAG
2132434 ATG
129 ATG
* * *
2132437 AAATAGTGACATCTCTTCATTTTGACTGGAGTAATAAATGACTGCTTTAAGGCATA-AGAGGTCA
1 AAATAGTGACATCTCTTAATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCA-AGAGAGGTCA
*
2132501 TTTATTATCGATTGGAAATAATTAGATATTATC
65 TTTATTCTCGATTGGAAATAATTAGATATTATC
2132534 ATTTCATCTC
Statistics
Matches: 201, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
130 3 0.01
131 193 0.96
132 5 0.02
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (131 bp):
AAATAGTGACATCTCTTAATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCAAGAGAGGTCAT
TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAAACAATATTAAATTTTAAGAT
G
Found at i:2133826 original size:36 final size:36
Alignment explanation
Indices: 2133759--2133828 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
2133749 TATGTTTCAA
* *
2133759 AGGAAAACTACCTCAAGCGAGACGATATTTGTTTTC
1 AGGAAAACAACCTCAAGCGAGACAATATTTGTTTTC
* *
2133795 AGGAAAACAATCTCAAGTGAGATCAAT-TTTGTTT
1 AGGAAAACAACCTCAAGCGAGA-CAATATTTGTTT
2133829 CAAGTGAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 26 0.90
37 3 0.10
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (36 bp):
AGGAAAACAACCTCAAGCGAGACAATATTTGTTTTC
Found at i:2133892 original size:102 final size:102
Alignment explanation
Indices: 2133680--2133912 Score: 231
Period size: 102 Copynumber: 2.3 Consensus size: 102
2133670 TAGGGGAAAT
* * * * * ** *
2133680 AAATTTGTTTCAAGAAAAACTATCTCATGTGACAAAAATTTTTGTTTCGAGTGAAACAATTTCAA
1 AAATTTGTTTCGAGAGAAACAATCTCAAGTGAGATCAA-TTTTGTTTCAAGTGAAACAATTTCAA
*
2133745 AATTTATGTTTCAAAGGAAAACTACCTCAAGCGAGACG
65 AATTTATGTTTCAAAGGAAAACTACCTCAAGCGAGACA
* *
2133783 ATATTTGTTTTC-AG-GAAAACAATCTCAAGTGAGATCAATTTTGTTTCAAGTGAAACAATTTTA
1 AAATTTG-TTTCGAGAG-AAACAATCTCAAGTGAGATCAATTTTGTTTCAAGTGAAACAATTTCA
* * * *** *
2133846 AAATTTGA-GTTT-TAGGGGAAACTGTTTCAAGTGAGACA
64 AAATTT-ATGTTTCAAAGGAAAACTACCTCAAGCGAGACA
2133884 AAACTTTGTTTCGAGAGAAACAATCTCAA
1 AAA-TTTGTTTCGAGAGAAACAATCTCAA
2133913 AGGTTTATGT
Statistics
Matches: 106, Mismatches: 18, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
101 24 0.23
102 51 0.48
103 27 0.25
104 4 0.04
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (102 bp):
AAATTTGTTTCGAGAGAAACAATCTCAAGTGAGATCAATTTTGTTTCAAGTGAAACAATTTCAAA
ATTTATGTTTCAAAGGAAAACTACCTCAAGCGAGACA
Found at i:2133904 original size:66 final size:66
Alignment explanation
Indices: 2133805--2134215 Score: 495
Period size: 66 Copynumber: 6.2 Consensus size: 66
2133795 AGGAAAACAA
* * * * * * * *
2133805 TCTCAAGTGAGATC-AATTTTGTTTCAAGTGAAACAATTTTAAA-ATTTGA-GTTTTAGGGGAAA
1 TCTCAAGCGAGA-CAAAATTTGTTTCAAGAGAAACAATCTCAAAGATTT-ATGTTTCAAGAGAAA
2133867 CTG
64 CTG
* * * * *
2133870 TTTCAAGTGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAAT
1 TCTCAAGCGAGACAAAA-TTTGTTTCAAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAAC
2133935 TG
65 TG
* * *
2133937 TCTCAAGCGAGACAAAAATTGTTTCAAGAGAAACAATATCAAAGGTTTATGTTTCAAGAGAAACT
1 TCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAACT
*
2134002 A
66 G
* * * * *
2134003 TCTCAAGCGAGACAAAATTTATTTGAAGAGAAAAAATCTCAAAGGTTTATGTTTCAAGAGAAATT
1 TCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAACT
2134068 G
66 G
* * *
2134069 TCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAATGGTTTATGTGTCAAGAGAAACT
1 TCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAACT
2134134 G
66 G
* * ** *
2134135 TCTCAAGTGAGACAAAATTTGTTTTAAGAGAAACAATCAGAAAGGTTTATGTTTCAAGAGAAACT
1 TCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAACT
2134200 G
66 G
*
2134201 TCTCAAGGGAGACAA
1 TCTCAAGCGAGACAA
2134216 GCAGTCTGCT
Statistics
Matches: 304, Mismatches: 38, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
64 1 0.00
65 13 0.04
66 260 0.86
67 30 0.10
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29
Consensus pattern (66 bp):
TCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAACT
G
Found at i:2133972 original size:21 final size:21
Alignment explanation
Indices: 2133931--2133972 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2133921 GTTTCAAGAG
* *
2133931 AAATTGTCTCAAGCGAGACAA
1 AAATTGTCTCAAGAGAAACAA
*
2133952 AAATTGTTTCAAGAGAAACAA
1 AAATTGTCTCAAGAGAAACAA
2133973 TATCAAAGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (21 bp):
AAATTGTCTCAAGAGAAACAA
Found at i:2134099 original size:36 final size:36
Alignment explanation
Indices: 2133920--2134168 Score: 126
Period size: 36 Copynumber: 7.4 Consensus size: 36
2133910 CAAAGGTTTA
* * *
2133920 TGTTTCAAGAGAAATTGTCTCAAGCGAGACAAAAAT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
* * **
2133956 TGTTTCAAGAGAAACAATATCAA---AG----GTTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
2133985 ATGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
1 -TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
* * ** **
2134022 TATTTGAAGAGAAAAAATCTCAA---AG----GTTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
* *
2134051 ATGTTTCAAGAGAAATTGTCTCAAGCGAGACAAAATT
1 -TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
* * *
2134088 TGTTTCAAGAGAAACAATCTCAA-TG-G-----TTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
* * *
2134117 ATGTGTCAAGAGAAACTGTCTCAAGTGAGACAAAATT
1 -TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
*
2134154 TGTTTTAAGAGAAAC
1 TGTTTCAAGAGAAAC
2134169 AATCAGAAAG
Statistics
Matches: 154, Mismatches: 35, Indels: 48
0.65 0.15 0.20
Matches are distributed among these distances:
29 5 0.03
30 59 0.38
31 2 0.01
32 1 0.01
33 8 0.05
34 1 0.01
35 1 0.01
36 71 0.46
37 6 0.04
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
Found at i:2136312 original size:7 final size:7
Alignment explanation
Indices: 2136297--2136417 Score: 83
Period size: 7 Copynumber: 17.1 Consensus size: 7
2136287 CTCATTTCAG
2136297 TTTTC-T
1 TTTTCTT
2136303 TTTTCTT
1 TTTTCTT
2136310 TTTT-TT
1 TTTTCTT
2136316 ATTTTCTTTCT
1 -TTTTC--T-T
2136327 TTTTCTCT
1 TTTTCT-T
2136335 TTTTCTT
1 TTTTCTT
*
2136342 TCTT-TT
1 TTTTCTT
2136348 TTTT-TT
1 TTTTCTT
*
2136354 TTTTCCT
1 TTTTCTT
*
2136361 TTTTCCT
1 TTTTCTT
*
2136368 TTTTCCT
1 TTTTCTT
2136375 TTTTCTT
1 TTTTCTT
*
2136382 TTCTCTCT
1 TTTTCT-T
*
2136390 TTTT-TA
1 TTTTCTT
2136396 TTTT-TT
1 TTTTCTT
2136402 TTTTCTT
1 TTTTCTT
2136409 CTTTTCTT
1 -TTTTCTT
2136417 T
1 T
2136418 AGGTGAAATA
Statistics
Matches: 97, Mismatches: 8, Indels: 19
0.78 0.06 0.15
Matches are distributed among these distances:
6 27 0.28
7 43 0.44
8 20 0.21
10 6 0.06
11 1 0.01
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:2136320 original size:14 final size:13
Alignment explanation
Indices: 2136297--2136417 Score: 77
Period size: 13 Copynumber: 9.1 Consensus size: 13
2136287 CTCATTTCAG
*
2136297 TTTTCTTTTTCTT
1 TTTTTTTTTTCTT
2136310 TTTTTTATTTTC-T
1 TTTTTT-TTTTCTT
* *
2136323 TTCTTTTTCTCTT
1 TTTTTTTTTTCTT
*
2136336 TTTCTTTCTTT-TT
1 TTT-TTTTTTTCTT
*
2136349 TTTTTTTTTCCTT
1 TTTTTTTTTTCTT
* *
2136362 TTTCCTTTTTCCTT
1 TTT-TTTTTTTCTT
*
2136376 TTTCTTTTCTCTCTT
1 TTT-TTTT-TTTCTT
2136391 TTTTATTTTTT-TT
1 TTTT-TTTTTTCTT
* *
2136404 TTCTTCTTTTCTT
1 TTTTTTTTTTCTT
2136417 T
1 T
2136418 AGGTGAAATA
Statistics
Matches: 85, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
12 14 0.16
13 32 0.38
14 29 0.34
15 10 0.12
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:2136327 original size:18 final size:17
Alignment explanation
Indices: 2136304--2136413 Score: 91
Period size: 18 Copynumber: 6.5 Consensus size: 17
2136294 CAGTTTTCTT
2136304 TTTCTTTTTTTTATTTTC
1 TTTCTTTTTTTT-TTTTC
*
2136322 TTTCTTTTTCTCTTTTTC
1 TTTCTTTTT-TTTTTTTC
2136340 TTTCTTTTTTTTTTTT-
1 TTTCTTTTTTTTTTTTC
* **
2136356 TTCCTTTTTCCTTTTTC
1 TTTCTTTTTTTTTTTTC
* * * *
2136373 CTT-TTTCTTTTCTCTC
1 TTTCTTTTTTTTTTTTC
*
2136389 TTTTTTATTTTTTTTTTC
1 TTTCTT-TTTTTTTTTTC
2136407 -TTCTTTT
1 TTTCTTTT
2136414 CTTTAGGTGA
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
16 25 0.35
17 13 0.18
18 31 0.44
19 2 0.03
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTCTTTTTTTTTTTTC
Found at i:2136399 original size:22 final size:21
Alignment explanation
Indices: 2136297--2136413 Score: 100
Period size: 21 Copynumber: 5.6 Consensus size: 21
2136287 CTCATTTCAG
*
2136297 TTTTCTT-TTTCTTT-TTTTTA
1 TTTTCTTCTTT-TTTCTTTTTC
2136317 TTTTCTTTCTTTTTCTCTTTTTC
1 TTTTC-TTCTTTTT-TCTTTTTC
*
2136340 -TTTCTT-TTTTTTTTTTTTCC
1 TTTTCTTCTTTTTTCTTTTT-C
* *
2136360 TTTT-TCCTTTTTCCTTTTTC
1 TTTTCTTCTTTTTTCTTTTTC
* *
2136380 TTTTCTCTCTTTTTTATTTTTT
1 TTTTCT-TCTTTTTTCTTTTTC
2136402 TTTTCTTCTTTT
1 TTTTCTTCTTTT
2136414 CTTTAGGTGA
Statistics
Matches: 79, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
19 6 0.08
20 17 0.22
21 26 0.33
22 25 0.32
23 5 0.06
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTCTTCTTTTTTCTTTTTC
Found at i:2144877 original size:72 final size:72
Alignment explanation
Indices: 2144786--2144926 Score: 194
Period size: 72 Copynumber: 2.0 Consensus size: 72
2144776 TGAAATATTA
* * * * *
2144786 GCATAAAATTATAACCTCTAGAGGGTGGTAGG-TATGTATTTCCCTCTCTTTGTGCATGAAAATA
1 GCATAAAATTATAACCTCTAGAGAGTAGT-GGCCATGTATTGCCCTCTCTTGGTGCATGAAAATA
2144850 ATGGCACC
65 ATGGCACC
* * *
2144858 GCATAAAATTATTACCTCTAGAGAGTAGTGGCCATGTATTGCTCTCTCTTGGTGCATGGAAATAA
1 GCATAAAATTATAACCTCTAGAGAGTAGTGGCCATGTATTGCCCTCTCTTGGTGCATGAAAATAA
2144923 TGGC
66 TGGC
2144927 TATCTTAAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 2 0.03
72 58 0.97
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (72 bp):
GCATAAAATTATAACCTCTAGAGAGTAGTGGCCATGTATTGCCCTCTCTTGGTGCATGAAAATAA
TGGCACC
Found at i:2151778 original size:56 final size:56
Alignment explanation
Indices: 2151666--2151778 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 56
2151656 TCTTTAAAAA
2151666 ATAATTAAAAATAATAATAAAAGTATTTTAAACTAATACAATCCTTAAAAAAACTT
1 ATAATTAAAAATAATAATAAAAGTATTTTAAACTAATACAATCCTTAAAAAAACTT
2151722 ATAATTACAAAATAATAATAAAAGTATTTTAAACTAATACAATCCTT-AAAAAACTT
1 ATAATTA-AAAATAATAATAAAAGTATTTTAAACTAATACAATCCTTAAAAAAACTT
2151778 A
1 A
2151779 CTTATATTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 17 0.30
57 39 0.70
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.32
Consensus pattern (56 bp):
ATAATTAAAAATAATAATAAAAGTATTTTAAACTAATACAATCCTTAAAAAAACTT
Found at i:2174027 original size:23 final size:24
Alignment explanation
Indices: 2173997--2174046 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
2173987 TTTGAGACAC
2173997 AGTGGTCCTTCGGGAC-ATTTCAT
1 AGTGGTCCTTCGGGACAATTTCAT
*
2174020 AGTGGTCCTTTGGGACAAATTTCAT
1 AGTGGTCCTTCGGGAC-AATTTCAT
2174045 AG
1 AG
2174047 CCCCTAGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 15 0.62
25 9 0.38
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (24 bp):
AGTGGTCCTTCGGGACAATTTCAT
Found at i:2177648 original size:2 final size:2
Alignment explanation
Indices: 2177641--2177679 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
2177631 AGATTACAGG
*
2177641 TA TA TA TA TA TA TGA TA TA TA TA TA TA -A GA TA TA TA TA T
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
2177680 GTATGTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2177660 original size:13 final size:13
Alignment explanation
Indices: 2177642--2177680 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2177632 GATTACAGGT
2177642 ATATATATATATG
1 ATATATATATATG
*
2177655 ATATATATATATA
1 ATATATATATATG
*
2177668 AGATATATATATG
1 ATATATATATATG
2177681 TATGTAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATATATATATATG
Found at i:2177661 original size:15 final size:15
Alignment explanation
Indices: 2177641--2177684 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
2177631 AGATTACAGG
2177641 TATATATATATATGA
1 TATATATATATATGA
*
2177656 TATATATATATAAGA
1 TATATATATATATGA
*
2177671 TATATATATGTATG
1 TATATATATATATG
2177685 TAAAACCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (15 bp):
TATATATATATATGA
Found at i:2181612 original size:33 final size:33
Alignment explanation
Indices: 2181575--2181644 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
2181565 TCTATTTTCC
*
2181575 ATTTCTCTCTTTTCTCTCATCTAAAGTCTCTCT
1 ATTTCTCTCTTCTCTCTCATCTAAAGTCTCTCT
* *
2181608 ATTTCTTTCTTCTCTCTCATCTAAATTCTCTCT
1 ATTTCTCTCTTCTCTCTCATCTAAAGTCTCTCT
2181641 ATTT
1 ATTT
2181645 ACCCTAGTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.16, C:0.29, G:0.01, T:0.54
Consensus pattern (33 bp):
ATTTCTCTCTTCTCTCTCATCTAAAGTCTCTCT
Found at i:2186127 original size:18 final size:18
Alignment explanation
Indices: 2186099--2186143 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
2186089 TAAAATCTAT
2186099 TTTTGCCACTGCATTTCCA
1 TTTT-CCACTGCATTTCCA
2186118 TTTTCCACTGCATTTCCA
1 TTTTCCACTGCATTTCCA
*
2186136 TTTACCAC
1 TTTTCCAC
2186144 CTCATCAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.18, C:0.33, G:0.07, T:0.42
Consensus pattern (18 bp):
TTTTCCACTGCATTTCCA
Found at i:2192293 original size:24 final size:25
Alignment explanation
Indices: 2192247--2192294 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
2192237 AAAATATTCT
*
2192247 TTTTGATTTCTTCATTTTTCTTTTA
1 TTTTGATTTCTTCATTTTACTTTTA
2192272 TTTT-ATTTCTT-ATTTTAACTTTT
1 TTTTGATTTCTTCATTTT-ACTTTT
2192295 CTCTCTCCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTGATTTCTTCATTTTACTTTTA
Found at i:2204600 original size:20 final size:20
Alignment explanation
Indices: 2204575--2204647 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
2204565 TCCGAATTCT
2204575 CAATGCGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
2204595 CAATGCGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
*
2204615 CAATGTGAATATGTAAATCG
1 CAATGCGAATATGTAAATCG
*
2204635 CAATGCGATTATG
1 CAATGCGAATATG
2204648 ACTATCGCAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (20 bp):
CAATGCGAATATGTAAATCG
Found at i:2204654 original size:20 final size:20
Alignment explanation
Indices: 2204591--2204697 Score: 83
Period size: 20 Copynumber: 5.3 Consensus size: 20
2204581 GAATATGTAA
* *
2204591 ATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGATTATG-ACT
* * *
2204611 ATCGCAATGTGAATATGTA-A
1 ATCGCAATGCGATTATG-ACT
2204631 ATCGCAATGCGATTATGACT
1 ATCGCAATGCGATTATGACT
** *
2204651 ATCGCAGCGCGATTCTGACT
1 ATCGCAATGCGATTATGACT
* *
2204671 ATCGCAACGCGATTCTGACT
1 ATCGCAATGCGATTATGACT
*
2204691 GTCGCAA
1 ATCGCAA
2204698 CACTGAATTT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
19 1 0.01
20 76 0.99
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATTATGACT
Found at i:2204698 original size:20 final size:20
Alignment explanation
Indices: 2204631--2204698 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
2204621 GAATATGTAA
* *
2204631 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
2204651 ATCGCAGCGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
2204671 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
2204691 GTCGCAAC
1 ATCGCAAC
2204699 ACTGAATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:2205546 original size:24 final size:24
Alignment explanation
Indices: 2205519--2205572 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2205509 GTATTCGAAA
2205519 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
2205543 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
2205567 TTTGAT
1 TTTGAT
2205573 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2208659 original size:64 final size:64
Alignment explanation
Indices: 2208606--2208769 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
2208596 CGGTGCACCA
* *
2208606 AGTGTGCATCGATGCATGAAATTCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * **
2208670 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * *
2208735 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
2208770 CAATTAATTC
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
64 31 0.36
65 54 0.64
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:2208733 original size:65 final size:63
Alignment explanation
Indices: 2208608--2208818 Score: 219
Period size: 65 Copynumber: 3.3 Consensus size: 63
2208598 GTGCACCAAG
* * ** *
2208608 TGTGCATCGATGCATGAAATTCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGGCT
1 TGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAATATTCAGAGTGCATCGATGCATGG-T
2208672 TGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG-
1 TGTGCATCGATGCATCAAATGCATTCGATG-TTTGAAAATATTCAGAGTGCATCGATGCATGGT
* * ** * * * *
2208735 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT-CAATTAATTCACTAATGCATCGATGCATG
1 TG--TGCATCGATGCATCAAATGCATTCGATGTTTGAAAAT-ATTCA-GAGTGCATCGATGCATG
2208799 GT
62 GT
*
2208801 TGATGCATCGGTGCATCA
1 TG-TGCATCGATGCATCA
2208819 CCTCAAATAA
Statistics
Matches: 125, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
63 4 0.03
64 36 0.29
65 84 0.67
66 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (63 bp):
TGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAATATTCAGAGTGCATCGATGCATGGT
Found at i:2208758 original size:17 final size:19
Alignment explanation
Indices: 2208720--2208766 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
2208710 ATATTCAGAG
2208720 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
2208739 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
2208756 TGCATTCGATG
1 TGCA-TCGATG
2208767 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:2212859 original size:22 final size:21
Alignment explanation
Indices: 2212833--2212879 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
2212823 AAGGTCAAAA
*
2212833 ATCAAATTGTTTGAAAATTG-AT
1 ATCAAATGGTTT-AAAA-TGAAT
2212855 ATC-AATGGTTTAAAATGAAT
1 ATCAAATGGTTTAAAATGAAT
2212875 ATCAA
1 ATCAA
2212880 TTACGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 2 0.09
20 9 0.41
21 8 0.36
22 3 0.14
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (21 bp):
ATCAAATGGTTTAAAATGAAT
Found at i:2214991 original size:64 final size:64
Alignment explanation
Indices: 2214938--2215101 Score: 229
Period size: 65 Copynumber: 2.5 Consensus size: 64
2214928 CGGTGCACCA
*
2214938 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * **
2215002 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * *
2215067 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
2215102 CAATTAATTC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 32 0.37
65 54 0.63
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:2215090 original size:17 final size:19
Alignment explanation
Indices: 2215052--2215098 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
2215042 ATATTCAGAG
2215052 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
2215071 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
2215088 TGCATTCGATG
1 TGCA-TCGATG
2215099 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:2215121 original size:65 final size:62
Alignment explanation
Indices: 2214942--2215141 Score: 199
Period size: 65 Copynumber: 3.1 Consensus size: 62
2214932 GCACCAAGTG
* *
2214942 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGC-CTGAGTGCATCGATGCATGGCTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAT-TCACT-AGTGCATCGATGCATGG--AG
2215006 -
62 A
* *
2215006 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGAGA
1 TGCATCGATGCATGAAATGCATTCGATG-TTTG-AAA-ATTCACTAGTGCATCGATGCATGGAG-
2215070 A
62 A
* * * * *
2215071 TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTAATTCACTAATGCATCGATGCATGGTTGA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATTCACTAGTGCATCGATGCATGG-AGA
2215136 TGCATC
1 TGCATC
2215142 AGTGCATCAC
Statistics
Matches: 115, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
63 3 0.03
64 35 0.30
65 70 0.61
66 5 0.04
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (62 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCACTAGTGCATCGATGCATGGAGA
Found at i:2215343 original size:20 final size:21
Alignment explanation
Indices: 2215318--2215357 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2215308 GAAACGAATA
2215318 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
2215338 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
2215358 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:2215561 original size:20 final size:20
Alignment explanation
Indices: 2215536--2215706 Score: 183
Period size: 20 Copynumber: 8.8 Consensus size: 20
2215526 TTACACATTC
*
2215536 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
2215556 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
2215576 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
2215595 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
2215610 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
*
2215630 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
2215650 ATGTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* * * *
2215670 ATTTGATTATCGTAACGGGT
1 ATTTGACTATCGCAACGCGA
*
2215690 ATTCGACTATCGCAACG
1 ATTTGACTATCGCAACG
2215707 AGAAAATCGC
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
14 9 0.07
15 3 0.02
19 3 0.02
20 112 0.88
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:2215698 original size:60 final size:60
Alignment explanation
Indices: 2215543--2215710 Score: 188
Period size: 54 Copynumber: 2.9 Consensus size: 60
2215533 TTCATTTGAA
* * * *
2215543 TATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACTCA-AA----A-
1 TATCGCAACGCGAATTTGACTATCGCAACGGGAATTCGACTATCGCAAC-GAGAATGTGAC
* *
2215598 -ATCGCAACGCGAATTTGACTATCGCAACGTGAATTTGACTATCGCAACGAGAATGTGAC
1 TATCGCAACGCGAATTTGACTATCGCAACGGGAATTCGACTATCGCAACGAGAATGTGAC
* * * *
2215657 TATCGCAACGTGAATTTGATTATCGTAACGGGTATTCGACTATCGCAACGAGAA
1 TATCGCAACGCGAATTTGACTATCGCAACGGGAATTCGACTATCGCAACGAGAA
2215711 AATCGCAAAG
Statistics
Matches: 97, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
53 1 0.01
54 48 0.49
58 1 0.01
60 47 0.48
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (60 bp):
TATCGCAACGCGAATTTGACTATCGCAACGGGAATTCGACTATCGCAACGAGAATGTGAC
Found at i:2215755 original size:19 final size:20
Alignment explanation
Indices: 2215543--2215755 Score: 69
Period size: 20 Copynumber: 11.3 Consensus size: 20
2215533 TTCATTTGAA
* *
2215543 TATCGCAACGCGAATTTGAC
1 TATCGCAAAGCGAATTAGAC
* * *
2215563 TATCGCAACGCGAATTTGAT
1 TATCGCAAAGCGAATTAGAC
**
2215583 TATCGCAACTC-AA--A-A-
1 TATCGCAAAGCGAATTAGAC
* *
2215598 -ATCGCAACGCGAATTTGAC
1 TATCGCAAAGCGAATTAGAC
* * *
2215617 TATCGCAACGTGAATTTGAC
1 TATCGCAAAGCGAATTAGAC
* *
2215637 TATCGCAACGAGAATGT-GAC
1 TATCGCAAAGCGAAT-TAGAC
* * * *
2215657 TATCGCAACGTGAATTTGAT
1 TATCGCAAAGCGAATTAGAC
* * * * *
2215677 TATCGTAACGGGTATTCGAC
1 TATCGCAAAGCGAATTAGAC
2215697 TATCGC-AA-CGAGA--A-A-
1 TATCGCAAAGCGA-ATTAGAC
*
2215712 -ATCGCAAAGCGTATTAGAC
1 TATCGCAAAGCGAATTAGAC
*
2215731 TATCGCAATGCGAATT-GAC
1 TATCGCAAAGCGAATTAGAC
*
2215750 TTTCGC
1 TATCGC
2215756 GTTGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 33
0.73 0.11 0.16
Matches are distributed among these distances:
14 14 0.09
15 5 0.03
16 4 0.03
17 1 0.01
18 3 0.02
19 13 0.08
20 113 0.73
21 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (20 bp):
TATCGCAAAGCGAATTAGAC
Found at i:2215961 original size:14 final size:14
Alignment explanation
Indices: 2215926--2215962 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2215916 AATATTAAAT
*
2215926 AAATCAACTTTTAC
1 AAATCAATTTTTAC
2215940 AAATCAATTTTTAC
1 AAATCAATTTTTAC
2215954 AAATCAATT
1 AAATCAATT
2215963 AAACAAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATCAATTTTTAC
Found at i:2217378 original size:21 final size:21
Alignment explanation
Indices: 2217349--2217452 Score: 102
Period size: 21 Copynumber: 5.0 Consensus size: 21
2217339 GAATGTTGGG
* *
2217349 AGGGACCTCTTCAACGATGAT
1 AGGGGCCTCTTGAACGATGAT
* * **
2217370 AGTGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTGAACGATGAT
* **
2217391 AGGGGACTCTTGAGGGATGAT
1 AGGGGCCTCTTGAACGATGAT
2217412 AGGGGCCTCTTGAACGAT-AT
1 AGGGGCCTCTTGAACGATGAT
*
2217432 GGGAGGCCTCTTGAACGATGA
1 AGG-GGCCTCTTGAACGATGA
2217453 CAGGTGAGTC
Statistics
Matches: 64, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 4 0.06
21 59 0.92
22 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAT
Found at i:2217452 original size:42 final size:41
Alignment explanation
Indices: 2217345--2217452 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 41
2217335 TCTAGAATGT
* * *
2217345 TGGGAGGGACCTCTTCAACGATGATAGTGGCCTCTTGAACGG
1 TGGGAGGG-CCTCTTGAACGATGATAGGGGCCTCTTGAACGA
* **
2217387 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATA
1 TGGGA-GGGCCTCTTGAACGATGATAGGGGCCTCTTGAACG--A
2217431 TGGGA-GGCCTCTTGAACGATGA
1 TGGGAGGGCCTCTTGAACGATGA
2217453 CAGGTGAGTC
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
42 46 0.85
43 3 0.06
44 5 0.09
ACGTcount: A:0.22, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
TGGGAGGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGA
Found at i:2218056 original size:20 final size:20
Alignment explanation
Indices: 2218031--2218078 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
2218021 GCGATTCTTT
2218031 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
2218051 CGTTGCAATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
2218071 CGTTGCGA
1 CGTTGCGA
2218079 AAGTAAACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2219985 original size:20 final size:20
Alignment explanation
Indices: 2219962--2220068 Score: 119
Period size: 20 Copynumber: 5.5 Consensus size: 20
2219952 TCTGAAACTT
*
2219962 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
*
2219982 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** **
2220002 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
**
2220022 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
*
2220041 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
2220060 AAAATCGCA
1 AAAATCGCA
2220069 TTGTGATTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
19 24 0.32
20 52 0.68
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:2220638 original size:20 final size:20
Alignment explanation
Indices: 2220604--2220697 Score: 152
Period size: 20 Copynumber: 4.7 Consensus size: 20
2220594 GCACTTTGAA
*
2220604 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
2220624 CATCGCGTTGTGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
2220644 AATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
2220664 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
2220684 AATCGCGTTGCGAT
1 AATCGCGTTGCGAT
2220698 TTACATATTC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:2220709 original size:20 final size:20
Alignment explanation
Indices: 2220686--2220756 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
2220676 ATAGTCAGAA
*
2220686 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
2220706 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
2220726 TCGCATTGCAATTTACATAT
1 TCGCATTGCGATTTACATAT
2220746 TCGCATTGCGA
1 TCGCATTGCGA
2220757 ATTCGGAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:2220715 original size:40 final size:40
Alignment explanation
Indices: 2220626--2220756 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 40
2220616 ATAGTCAGCA
* * * * *
2220626 TCGCGTTGTGATAGTCAGAATCGCGTTGCGATAGT-CAGAA
1 TCGCATTGCGATAGTCAGAATCGCGTTGCGAT-TTACATAT
* *
2220666 TCTCGTTGCGATAGTCAGAATCGCGTTGCGATTTACATAT
1 TCGCATTGCGATAGTCAGAATCGCGTTGCGATTTACATAT
* * * * *
2220706 TCGCATTGCGAT-TTACATATTCGCATTGCAATTTACATAT
1 TCGCATTGCGATAGT-CAGAATCGCGTTGCGATTTACATAT
2220746 TCGCATTGCGA
1 TCGCATTGCGA
2220757 ATTCGGAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.03
40 75 0.97
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (40 bp):
TCGCATTGCGATAGTCAGAATCGCGTTGCGATTTACATAT
Found at i:2220770 original size:21 final size:21
Alignment explanation
Indices: 2220746--2220798 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2220736 ATTTACATAT
*
2220746 TCGCATTGCGAATTCGGAAAA
1 TCGCAATGCGAATTCGGAAAA
* *
2220767 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTCGGAAAA
2220788 TCGCAATGCGA
1 TCGCAATGCGA
2220799 TAGTCAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTCGGAAAA
Found at i:2227550 original size:17 final size:17
Alignment explanation
Indices: 2227517--2227554 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2227507 ACTAAAACCT
*
2227517 AAATCTGGAAAATAACA
1 AAATCAGGAAAATAACA
2227534 AAATCAGGACAAA-AACA
1 AAATCAGGA-AAATAACA
2227551 AAAT
1 AAAT
2227555 GCTAAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.63, C:0.13, G:0.11, T:0.13
Consensus pattern (17 bp):
AAATCAGGAAAATAACA
Found at i:2229930 original size:21 final size:21
Alignment explanation
Indices: 2229892--2229931 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2229882 CACTCAATAT
*
2229892 TTTCAAAAATTTTAATTAGAC
1 TTTCAAAAATTCTAATTAGAC
* *
2229913 TTTCATAAATTCTGATTAG
1 TTTCAAAAATTCTAATTAG
2229932 GTCATCAACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
TTTCAAAAATTCTAATTAGAC
Found at i:2232468 original size:18 final size:18
Alignment explanation
Indices: 2232442--2232482 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2232432 AAACACATAT
2232442 ACACATGATCATAACACC
1 ACACATGATCATAACACC
*
2232460 ACACGTGATCATAACACC
1 ACACATGATCATAACACC
2232478 A-ACAT
1 ACACAT
2232483 TCATCCTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.44, C:0.32, G:0.07, T:0.17
Consensus pattern (18 bp):
ACACATGATCATAACACC
Found at i:2233908 original size:3 final size:3
Alignment explanation
Indices: 2233891--2233946 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
2233881 TTTATTTCAT
* *
2233891 TTA TT- TTA TTTA TTA TTA TTA TT- TTG TT- TTA TTA TCA -TA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2233933 -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
2233947 AATAATTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
2 9 0.20
3 33 0.73
4 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2233924 original size:16 final size:16
Alignment explanation
Indices: 2233891--2233945 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
2233881 TTTATTTCAT
2233891 TTATTTTATTTATTATTA
1 TTATTTTA--TATTATTA
* *
2233909 TTATTTTGTTTTATTA
1 TTATTTTATATTATTA
* *
2233925 TCATATTATATTATTA
1 TTATTTTATATTATTA
2233941 TTATT
1 TTATT
2233946 AAATAATTAA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 22 0.76
18 7 0.24
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
TTATTTTATATTATTA
Found at i:2238566 original size:18 final size:18
Alignment explanation
Indices: 2238543--2238577 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2238533 TATAACATGA
2238543 TTATTATAATATTTTAAG
1 TTATTATAATATTTTAAG
2238561 TTATTATAATATTTTAA
1 TTATTATAATATTTTAA
2238578 ATTCACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTATTATAATATTTTAAG
Found at i:2244699 original size:425 final size:424
Alignment explanation
Indices: 2243903--2245180 Score: 1894
Period size: 424 Copynumber: 3.0 Consensus size: 424
2243893 AACAAGGGTA
* * * *
2243903 AGATTCTCCAACTCCACCTT-CCCTTCAACACAATCACCCATGTCATTCTCTTGTGAAATAATTT
1 AGATTCTCCAACTCCA-CTTCCCCTTTAACACGATCACCCATATCATTCTCTTGTGAAAGAATTT
* * * * * * *
2243967 TTCTAATGATTCCGATAAGAATCAAAATGATGAAACAAAGAGGCGTTGTCGTCACCATTCTTCAG
65 TTTTGATGATTCCGATGAGAAGCAAAATGATGAAACAAA-AGGTGTTGTTGTTACCATTCTTCAG
* * ** * * * * *
2244032 CTAATTCGTCTGCGCCGACTGTTCCCAATACAACTCCATTTTATCACTCTCCAAATTTATCTGAA
129 CTAATTTGCCCACGCCGGCTATTCCCAATAGAACTCCATTTTATCACTTTTCAAATTTATCTGAA
* * * *
2244097 GCTTTATGATATGATCCTCCTAGTTTGATGTCTCGAGTCATATACATAGTTGCCCGATCGTGATT
194 GCTTTGTGATATGAT-CT--TGGTTTGATGTCCCGAGTCATATACATAGTTTCCCGATCGTGATT
* * *
2244162 CTAGTAAAAAACCCCGTAGTGATAGTTGAACTCTAAAATGGCATAAATATAAGCATAAGAAGAAA
256 CTAGTAAGAAACCCCGTAGTGATAGTTGAACTCTGAAATGTCATAAATATAAGCATAAGAAGAAA
*
2244227 ATGATATGAAATAATAATTGAAATAATGGAATGAAAAGATTGAGGAAGTTGTTTGAATGTGTTGG
321 ATGATATGAAATAATAATTGAAATAATGGAATGAAAAGATTGAGGAAGTTATTTGAATGTGTTGG
*
2244292 AAAAGTGATGGTTGTTGTGGTTTAATAATAAATGAAAGT
386 AAAAGTGATGGTTGTTGTGGTTTAATGATAAATGAAAGT
* *
2244331 AGATTCTCCAACTCCACTTCCCCTTTAACACGATCACCCACATCATTCTCTTATGAAAGAATTTT
1 AGATTCTCCAACTCCACTTCCCCTTTAACACGATCACCCATATCATTCTCTTGTGAAAGAATTTT
* ** *
2244396 TTTGATGATTCCAATGAGAAGCAAAACAATGAAAGAAAATGGTGTTGTTGTTACCATTCTTCAGC
66 TTTGATGATTCCGATGAGAAGCAAAATGATGAAACAAAA-GGTGTTGTTGTTACCATTCTTCAGC
** *
2244461 TAATTTGCCCACGTTGGCTATTCCCAATAGAACTCCATTTTATCACTTTTCATATTTATCTGAAG
130 TAATTTGCCCACGCCGGCTATTCCCAATAGAACTCCATTTTATCACTTTTCAAATTTATCTGAAG
* ***
2244526 CGTTGTGATATGATCTTGGTTTGATGTCCCGAGTCATATTTGTAGTTTCCCGATCGTGATTCTAG
195 CTTTGTGATATGATCTTGGTTTGATGTCCCGAGTCATATACATAGTTTCCCGATCGTGATTCTAG
* * *
2244591 TAAGAAACCTCGTAGTGATATTTGAACTCTGAAATGTCATAAATATAAGCATAAAAAGAAAATGA
260 TAAGAAACCCCGTAGTGATAGTTGAACTCTGAAATGTCATAAATATAAGCATAAGAAGAAAATGA
* * *
2244656 AATGAAATAATAATTGAAATAATGAAATGAAAAGATGGAGGAAGTTATTTGAATGTGTTGGAAAA
325 TATGAAATAATAATTGAAATAATGGAATGAAAAGATTGAGGAAGTTATTTGAATGTGTTGGAAAA
2244721 GTGATGGTTGTTGTGGTTTAATGATAAATGAAAGT
390 GTGATGGTTGTTGTGGTTTAATGATAAATGAAAGT
*
2244756 ATATTCTCCAACTCCACTTCCCCTTTAACACGATCACCCATATCATTCTCTTGTGAAAGAA-TTT
1 AGATTCTCCAACTCCACTTCCCCTTTAACACGATCACCCATATCATTCTCTTGTGAAAGAATTTT
* * * * *
2244820 TTTGATGATTCCGATGAGAAGCAAAATGATGAAATAAAAAGGTATTGTTCTTAACATTCTTTAGC
66 TTTGATGATTCCGATGAGAAGCAAAATGATGAAA-CAAAAGGTGTTGTTGTTACCATTCTTCAGC
* * *
2244885 TAATTTGCCCACGCCCGCTATTCCCAATAGAACTCCATTTTATCACTTTTTAGATTTATCTGAAG
130 TAATTTGCCCACGCCGGCTATTCCCAATAGAACTCCATTTTATCACTTTTCAAATTTATCTGAAG
* * *
2244950 CTTTGTGATATGATCTTGGTTTAATGTTCCGAGTCATATACATAGTTTCCCGATTGTGATTCTAG
195 CTTTGTGATATGATCTTGGTTTGATGTCCCGAGTCATATACATAGTTTCCCGATCGTGATTCTAG
*
2245015 TAAGAAACCCCGTAGTGATAGTTGAACTCTGAAATGTAATAAATATAAGCATAAGAAGAAAATGA
260 TAAGAAACCCCGTAGTGATAGTTGAACTCTGAAATGTCATAAATATAAGCATAAGAAGAAAATGA
* * *
2245080 TATGAAATTATAATTGAAATAATGGAATGAAAAGATTGAGGAAGTTATTTGAAGGTGTTGGAAGA
325 TATGAAATAATAATTGAAATAATGGAATGAAAAGATTGAGGAAGTTATTTGAATGTGTTGGAAAA
*
2245145 GTGATGGTTGTTGTGGTTTAATGATAAATAAAAGT
390 GTGATGGTTGTTGTGGTTTAATGATAAATGAAAGT
2245180 A
1 A
2245181 TATAGTGAAG
Statistics
Matches: 765, Mismatches: 82, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
424 328 0.43
425 259 0.34
427 6 0.01
428 172 0.22
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (424 bp):
AGATTCTCCAACTCCACTTCCCCTTTAACACGATCACCCATATCATTCTCTTGTGAAAGAATTTT
TTTGATGATTCCGATGAGAAGCAAAATGATGAAACAAAAGGTGTTGTTGTTACCATTCTTCAGCT
AATTTGCCCACGCCGGCTATTCCCAATAGAACTCCATTTTATCACTTTTCAAATTTATCTGAAGC
TTTGTGATATGATCTTGGTTTGATGTCCCGAGTCATATACATAGTTTCCCGATCGTGATTCTAGT
AAGAAACCCCGTAGTGATAGTTGAACTCTGAAATGTCATAAATATAAGCATAAGAAGAAAATGAT
ATGAAATAATAATTGAAATAATGGAATGAAAAGATTGAGGAAGTTATTTGAATGTGTTGGAAAAG
TGATGGTTGTTGTGGTTTAATGATAAATGAAAGT
Found at i:2246289 original size:34 final size:34
Alignment explanation
Indices: 2246234--2246322 Score: 83
Period size: 34 Copynumber: 2.6 Consensus size: 34
2246224 TAGTGTAACC
* *
2246234 AATGAACTAGATGCA-TGAATGAAGTAGCTT-ACTA
1 AATGAACTAAATG-ATTAAATGAAGTA-CTTCACTA
* * *
2246268 AATGATCTAAATGATTAAATGAATTACTTCCCTA
1 AATGAACTAAATGATTAAATGAAGTACTTCACTA
* *
2246302 AATGAACTAGATGCTTAAATG
1 AATGAACTAAATGATTAAATG
2246323 TAATGCATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
33 4 0.09
34 41 0.91
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (34 bp):
AATGAACTAAATGATTAAATGAAGTACTTCACTA
Found at i:2252366 original size:18 final size:18
Alignment explanation
Indices: 2252340--2252379 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2252330 CTTTAGATTA
* *
2252340 TTTATTTAATTATTTTCT
1 TTTAATTAATTATTATCT
*
2252358 TTTAATTAATTCTTATCT
1 TTTAATTAATTATTATCT
2252376 TTTA
1 TTTA
2252380 TTTTTAAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTAATTAATTATTATCT
Found at i:2252523 original size:30 final size:31
Alignment explanation
Indices: 2252489--2252547 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
2252479 TTTATTTTCC
*
2252489 CACTTTTTAT-T-TTTTTATTTTCTCTTTTAA
1 CACTTTTTATATATTATTATTTT-TCTTTTAA
2252519 CACTTTTTATATATTATTATTTTTCTTTT
1 CACTTTTTATATATTATTATTTTTCTTTT
2252548 CTGAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.38
31 7 0.27
32 9 0.35
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (31 bp):
CACTTTTTATATATTATTATTTTTCTTTTAA
Found at i:2257884 original size:84 final size:86
Alignment explanation
Indices: 2257774--2257955 Score: 296
Period size: 84 Copynumber: 2.1 Consensus size: 86
2257764 AAGAACATCT
** * *
2257774 CACATGACTTTCTCGTGAAGGGGAGTCATCGAAAGATCATCTCACCTGGTTCAGACCCGTGAAGG
1 CACATGACTTTCTCGTGAAGAAGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGG
2257839 GGAACCACCTGAAGAATATAC
66 GGAACCACCTGAAGAATATAC
2257860 CACA-GACTTTCTC-TGAAGAAGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGG
1 CACATGACTTTCTCGTGAAGAAGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGG
2257923 GGAACCACCTGAAGAATATAC
66 GGAACCACCTGAAGAATATAC
* *
2257944 CACTTGGCTTTC
1 CACATGACTTTC
2257956 CCCTGAAGGG
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
84 70 0.79
85 15 0.17
86 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.21
Consensus pattern (86 bp):
CACATGACTTTCTCGTGAAGAAGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGG
GGAACCACCTGAAGAATATAC
Found at i:2258748 original size:198 final size:200
Alignment explanation
Indices: 2258034--2258965 Score: 1019
Period size: 198 Copynumber: 4.7 Consensus size: 200
2258024 AGAGGAACTG
* * * * * * * * *
2258034 TTTACAACATATCTCAAGGCGATAAAGGTTATTTGTCAACAAAACTATCTAGTTTGATTCCATTC
1 TTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGATTCCATTC
* ***
2258099 AGCTCGAAGGCATATCAACCGCATGGTAGCAACGAGGAACTA-TTTTTAGTTGAAGTTTAAACCG
66 AGCTCGAAGGCATATCAACCGCATGGTAGCAACGAGAAACTACTTTCCGGTTGAAGTTTAAACCG
* * * * * * * *
2258163 ATGTCTTTAAGTTAAGAAGAATACCTAGGTTGGTTGCG-TTTAACAACAAGAAACTATATCCCAA
131 AGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCAG
* *
2258227 CCGAG
196 CCAAA
* * *
2258232 TTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCTAGTTCGATTTCATTC
1 TTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGATTCCATTC
* **
2258297 AGCTCGAAGGCATATCAACCGCATGGTAGCAATGA-AGAACTACTTTTTGGTTGAAGTTTAAACC
66 AGCTCGAAGGCATATCAACCGCATGGTAGCAACGAGA-AACTACTTTCCGGTTGAAGTTTAAACC
* * * *
2258361 AAGGTCTTTAAGTC------AAGACCTAGGTTGGTTGTGATTTAGCAACAAGGAACTATCTCACA
130 GAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCA
2258420 G-CAAA
195 GCCAAA
* *
2258425 GTTTACAGCATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAACTTTTGAGTTCGATTCCATT
1 -TTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGATTCCATT
* * *
2258490 CAGCTCGAAGGTC-TATCAACCGCATGGTAGCAATGAGGAACTACTTTCCGATTGAAGTTTAAAC
65 CAGCTCGAAGG-CATATCAACCGCATGGTAGCAACGAGAAACTACTTTCCGGTTGAAGTTTAAAC
* * *
2258554 TGAGGTCTTTAAGTCAAGAAGAAGACCTCGGTTGGCTGCGATTTAGCAACATGGAACTATCTCCC
129 CGAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCC
*
2258619 AGCCGAA
194 AGCCAAA
* * *
2258626 TTTACAACATAGCTTAAGGCGAGAAGGGCTATCTGT-AA-AAAACTTTCGAGTTCGATTCCATTC
1 TTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGATTCCATTC
* * * * * * * *
2258689 AGATTGAAGGCATATCAACCACTTGGTAGCAACGAGAAAATACATTCCGGTTCAAGTTTAAACTG
66 AGCTCGAAGGCATATCAACCGCATGGTAGCAACGAGAAACTACTTTCCGGTTGAAGTTTAAACCG
* * * * * *
2258754 AGGTCTTTACGTCAAAAAGAAGACCTAGGTTAGCTGTGATTTAGCAACAAAGATCTATCTCCCAG
131 AGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCAG
**
2258819 AAAAA
196 CCAAA
* * * * * *
2258824 TTTATAGTATAACTCAAGACGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCTATT
1 TTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAACTTTCGAGTTCGATTCCATT
* * ** * ** * *
2258889 CAGCTTGAGGGCATATCAACCATATGGTGGCTTCGA-AGAACTACTTTCCGATTGAATTTTCAAA
65 CAGCTCGAAGGCATATCAACCGCATGGTAGCAACGAGA-AACTACTTTCCGGTTGAAGTTT-AAA
*
2258953 CCGAGGTATTTAA
128 CCGAGGTCTTTAA
2258966 ACCGACAAAA
Statistics
Matches: 624, Mismatches: 91, Indels: 34
0.83 0.12 0.05
Matches are distributed among these distances:
193 19 0.03
194 150 0.24
195 1 0.00
197 1 0.00
198 261 0.42
199 35 0.06
200 74 0.12
201 70 0.11
202 13 0.02
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (200 bp):
TTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGATTCCATTC
AGCTCGAAGGCATATCAACCGCATGGTAGCAACGAGAAACTACTTTCCGGTTGAAGTTTAAACCG
AGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCAG
CCAAA
Found at i:2258760 original size:392 final size:393
Alignment explanation
Indices: 2258033--2258965 Score: 1115
Period size: 392 Copynumber: 2.4 Consensus size: 393
2258023 TAGAGGAACT
* * * * * * * *
2258033 GTTTACAACATATCTCAAGGCGATAAAGGTTATTTGTCAACAAAACTATCTAGTTTGATTCCATT
1 GTTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAACT-TTTAGTTCGATTCCATT
* * **
2258098 CAGCTCGAAGGCATATCAACCGCATGGTAGCAACGAGGAACTATTTTTAG-TTGAAGTTTAAACC
65 CAGCTCGAAGGCATATCAACCGCATGGTAGCAATGAGGAACTACTTTCCGATTGAAGTTTAAACC
* * * *
2258162 GATGTCTTTAAGTTAAGAAGAATACCTAGGTTGGTTGCGTTTAACAACAAGAAACTATATCCCAA
130 GAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGTTTAACAACAAGAAACTATATCCCAA
* * * *
2258227 CCGAGTTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCTAGTTCGATTT
195 CCGAATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGATTC
* * * * * ** *
2258292 CATTCAGCTCGAAGGCATATCAACCGCATGGTAGCAATGAAGAACTACTTTTTGGTTGAAGTTTA
260 CATTCAGATCGAAGGCATATCAACCACATGGTAGCAACGAAGAAATACATTCCGGTTCAAGTTTA
* * *
2258357 AACCAAGGTCTTTAAGTC-AAGACCTAGGTTGGTTGTGATTTAGCAACAAGGAACTATCTCACAG
325 AACCAAGGTCTTTAAGTCAAAGACCTAGGTTAGCTGTGATTTAGCAACAAAGAACTATCTCACAG
*
2258421 CAAA
390 AAAA
*
2258425 GTTTACAGCATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAACTTTTGAGTTCGATTCCATT
1 GTTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTT-AGTTCGATTCCATT
2258490 CAGCTCGAAGGTC-TATCAACCGCATGGTAGCAATGAGGAACTACTTTCCGATTGAAGTTTAAAC
65 CAGCTCGAAGG-CATATCAACCGCATGGTAGCAATGAGGAACTACTTTCCGATTGAAGTTTAAAC
* * * * * *
2258554 TGAGGTCTTTAAGTCAAGAAGAAGACCTCGGTTGGCTGCGATTTAGCAACATGGAACTATCTCCC
129 CGAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCG-TTTAACAACAAGAAACTATATCCC
* *
2258619 AGCCGAATTTACAACATAGCTTAAGGCGAGAAGGGCTATCTGT-AA-AAAACTTTCGAGTTCGAT
193 AACCGAATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGAT
* *
2258682 TCCATTCAGATTGAAGGCATATCAACCACTTGGTAGCAACG-AGAAAATACATTCCGGTTCAAGT
258 TCCATTCAGATCGAAGGCATATCAACCACATGGTAGCAACGAAG-AAATACATTCCGGTTCAAGT
** * *
2258746 TTAAACTGAGGTCTTTACGTCAAAAAGAAGACCTAGGTTAGCTGTGATTTAGCAACAAAGATCTA
322 TTAAACCAAGGTCTTTAAGTC----A-AAGACCTAGGTTAGCTGTGATTTAGCAACAAAGAACTA
*
2258811 TCTCCCAGAAAA
382 TCTCACAGAAAA
* * * * ** *
2258823 ATTTATAGTATAACTCAAGACGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCTAT
1 GTTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAA-CTTTTAGTTCGATTCCAT
* * ** * * * *
2258888 TCAGCTTGAGGGCATATCAACCATATGGTGGC-TTCGAAGAACTACTTTCCGATTGAATTTTCAA
64 TCAGCTCGAAGGCATATCAACCGCATGGTAGCAAT-GAGGAACTACTTTCCGATTGAAGTTT-AA
*
2258952 ACCGAGGTATTTAA
127 ACCGAGGTCTTTAA
2258966 ACCGACAAAA
Statistics
Matches: 459, Mismatches: 66, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
391 4 0.01
392 182 0.40
393 50 0.11
394 59 0.13
398 82 0.18
399 65 0.14
400 17 0.04
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (393 bp):
GTTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTTAGTTCGATTCCATTC
AGCTCGAAGGCATATCAACCGCATGGTAGCAATGAGGAACTACTTTCCGATTGAAGTTTAAACCG
AGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGTTTAACAACAAGAAACTATATCCCAAC
CGAATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACTTTCGAGTTCGATTCC
ATTCAGATCGAAGGCATATCAACCACATGGTAGCAACGAAGAAATACATTCCGGTTCAAGTTTAA
ACCAAGGTCTTTAAGTCAAAGACCTAGGTTAGCTGTGATTTAGCAACAAAGAACTATCTCACAGA
AAA
Found at i:2260002 original size:18 final size:18
Alignment explanation
Indices: 2259979--2260021 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2259969 CTTTAGATTA
* *
2259979 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCC
*
2259997 TTTATTTAATTCTTATCC
1 TTTATTTAATTATTATCC
2260015 TTTATTT
1 TTTATTT
2260022 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATTATTATCC
Found at i:2260250 original size:15 final size:14
Alignment explanation
Indices: 2260183--2260250 Score: 50
Period size: 15 Copynumber: 4.8 Consensus size: 14
2260173 CTTTTCTGAA
*
2260183 ATTTAATATTCATTT
1 ATTTAATATT-TTTT
2260198 ATTT--TATTTTTT
1 ATTTAATATTTTTT
* *
2260210 CTTTTAACATTTTTT
1 -ATTTAATATTTTTT
* *
2260225 ATATAACATTTTTT
1 ATTTAATATTTTTT
2260239 AATTTAATATTT
1 -ATTTAATATTT
2260251 CCATCTTTGA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
12 3 0.07
13 7 0.17
14 12 0.29
15 20 0.48
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTTAATATTTTTT
Found at i:2265487 original size:81 final size:83
Alignment explanation
Indices: 2265349--2265508 Score: 243
Period size: 81 Copynumber: 2.0 Consensus size: 83
2265339 CTCACATATT
* *
2265349 TCCCGTGAAGGGGAGTCATCGAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACTACCT
1 TCCCGTGAAGAGGAGTCATCGAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCT
*
2265414 GAAGAATATACCACACTC
66 AAAGAATATACCACACTC
* * * *
2265432 TCCCGTGAAGAGGAGTCATC-CAATATTATCTCACCT-GTTCAGACTCGCGAAGGGGAACCACCT
1 TCCCGTGAAGAGGAGTCATCGAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCT
2265495 AAAGAATATACCAC
66 AAAGAATATACCAC
2265509 TGACTTTCCG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
81 38 0.54
82 13 0.19
83 19 0.27
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (83 bp):
TCCCGTGAAGAGGAGTCATCGAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCT
AAAGAATATACCACACTC
Found at i:2266097 original size:192 final size:194
Alignment explanation
Indices: 2265592--2266512 Score: 894
Period size: 195 Copynumber: 4.7 Consensus size: 194
2265582 TAGAGGAACC
* * *
2265592 GTTTACAACATAGC-AAAGGCGAGAA-AGATTATCTCTCAACAAAACTATT-GAGTTT-GATTCC
1 GTTTACAACATAGCTCAAGGCGAGAAGAG-CTATCTGTCAA-AAAACT-TTCGA-TTTCGATTCC
* * *
2265653 ATTCAGCTCGAAGGCATATCAACCGCATGGTAGCAACGAGGAACTATTTTCTGGTTGAAGTTTAA
62 ATTCAGCTCGAAGGCATATCAACCACATGGTAGCAACGAGGAACTACTTTCCGGTTGAAGTTTAA
* * *
2265718 ACCGATGTCTTTAAGTCAAGAATAAGACCTAGGTTGGTTGCG-TTTAGCAACAAAGAACTATCTC
127 ACTGAGGTCTTTAAGTC----A-AAGACCTAGGTTGGTTGCGATTTAGCAACAAGGAACTATCTC
2265782 CCA-ACGA
187 CCAGACGA
* * * * * *
2265789 GTTTA-AGA-ATAGCTCAAGGCGATAAG-GGT-TATGTTAACAAAACTTTCGAGTTCGATTTCAT
1 GTTTACA-ACATAGCTCAAGGCGAGAAGAGCTATCTGTCAA-AAAACTTTCGATTTCGATTCCAT
* * * *
2265850 TCAGCTCAAAGGCCTATCAACCGCATGGTAGCAACGAGGAACTACTTTTCGGTTGAAGTTTAAAC
64 TCAGCTCGAAGGCATATCAACCACATGGTAGCAACGAGGAACTACTTTCCGGTTGAAGTTTAAAC
* *
2265915 TGAGGTCTTTAAGTC-AAGACCTAGGTTGGTTGCGATTTAGCAACAAGGAACTATCTCACAGCCG
129 TGAGGTCTTTAAGTCAAAGACCTAGGTTGGTTGCGATTTAGCAACAAGGAACTATCTCCCAGACG
2265979 A
194 A
* * *
2265980 GTTTACAACATAGCTC-AGGCGAGAAGAGCTATCTATCAATAAACTTTCGATTTCAATTCCATTC
1 GTTTACAACATAGCTCAAGGCGAGAAGAGCTATCTGTCAAAAAACTTTCGATTTCGATTCCATTC
* * * * *
2266044 AGCTCAAAGGCATATGAACCACGTAGTAGCAACGAGGAACTTCTTTCCGGTTGAAGTTTAAACTG
66 AGCTCGAAGGCATATCAACCACATGGTAGCAACGAGGAACTACTTTCCGGTTGAAGTTTAAACTG
* *
2266109 AGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGTGATTTAGCAACAAGG-ACTATCTCCCAG
131 AGGTCTTTAAGTC----A-AAGACCTAGGTTGGTTGCGATTTAGCAACAAGGAACTATCTCCCAG
**
2266173 AAAA
191 ACGA
** * * * * *
2266177 AATTACAGCATAGCTCAAGGTGATAAGAGATATATGTCAAAAAACTTTCGAGTTT-GATTCCATT
1 GTTTACAACATAGCTCAAGGCGAGAAGAGCTATCTGTCAAAAAACTTTCGA-TTTCGATTCCATT
* ** * *
2266241 CAGATCGAAGGC-TATCAACC-GTTGGTAG--ACGAGGAAATACTTTCCGCTTGAAGTTTAAACT
65 CAGCTCGAAGGCATATCAACCACATGGTAGCAACGAGGAACTACTTTCCGGTTGAAGTTTAAACT
* ** * *
2266302 GAGGTCTTTAGGTCAAGAAGAAGACCTAGGTTGGTTGTTATTTAACAATAAGGAACTATCTCCCA
130 GAGGTCTTTAAGTC----A-AAGACCTAGGTTGGTTGCGATTTAGCAACAAGGAACTATCTCCCA
*
2266367 GCCGA
190 GACGA
* * * *
2266372 ATTTACAGA-ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGA-GTCGA-TCCA
1 GTTTACA-ACATAGCTCAAGGCGAGAAGAGCTATCTGTC-A-AAAAACTTTCGATTTCGATTCCA
* * ** * * *
2266434 TTCAGCTCGAGGGCATATCAACCATATGGTAGCATTGACGAACTACTTTCTGGTTGAATTTTCAA
63 TTCAGCTCGAAGGCATATCAACCACATGGTAGCAACGAGGAACTACTTTCCGGTTGAAGTTT-AA
*
2266499 ACCGAGGTCTTTAA
127 ACTGAGGTCTTTAA
2266513 ACCGAGAAAA
Statistics
Matches: 606, Mismatches: 89, Indels: 55
0.81 0.12 0.07
Matches are distributed among these distances:
189 19 0.03
190 23 0.04
191 18 0.03
192 102 0.17
193 5 0.01
194 82 0.14
195 154 0.25
196 23 0.04
197 65 0.11
198 77 0.13
199 24 0.04
200 14 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (194 bp):
GTTTACAACATAGCTCAAGGCGAGAAGAGCTATCTGTCAAAAAACTTTCGATTTCGATTCCATTC
AGCTCGAAGGCATATCAACCACATGGTAGCAACGAGGAACTACTTTCCGGTTGAAGTTTAAACTG
AGGTCTTTAAGTCAAAGACCTAGGTTGGTTGCGATTTAGCAACAAGGAACTATCTCCCAGACGA
Found at i:2266726 original size:19 final size:19
Alignment explanation
Indices: 2266702--2266739 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2266692 CACAAAAAAT
*
2266702 CGTTACATGAAAAAGGACA
1 CGTTACATGAAAAAAGACA
2266721 CGTTACATGAAAAAAGACA
1 CGTTACATGAAAAAAGACA
2266740 AAGAGAGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (19 bp):
CGTTACATGAAAAAAGACA
Found at i:2266881 original size:12 final size:13
Alignment explanation
Indices: 2266854--2266882 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2266844 TCAATTAAGA
2266854 TTTAAGATATTAT
1 TTTAAGATATTAT
2266867 TTTAA-ATATTAT
1 TTTAAGATATTAT
2266879 TTTA
1 TTTA
2266883 TTTTATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTTAAGATATTAT
Found at i:2267530 original size:18 final size:18
Alignment explanation
Indices: 2267507--2267549 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2267497 CTTTAGATTA
*
2267507 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
2267525 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
2267543 TTTATTT
1 TTTATTT
2267550 TAAAAATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:2267644 original size:33 final size:31
Alignment explanation
Indices: 2267600--2267677 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 31
2267590 TTATTTATTA
**
2267600 TTTTATTTATTTTCA-TTTTTTATTTTATTTTG
1 TTTTATTTATTTTCACACTTTT-TTTTA-TTTG
2267632 TTTTATCTTATTTTCACACTTTTTTTTATTTG
1 TTTTAT-TTATTTTCACACTTTTTTTTATTTG
*
2267664 TTTTATTTTTTTTC
1 TTTTATTTATTTTC
2267678 TTTAACACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 7 0.17
32 16 0.39
33 14 0.34
34 4 0.10
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.76
Consensus pattern (31 bp):
TTTTATTTATTTTCACACTTTTTTTTATTTG
Found at i:2267790 original size:67 final size:73
Alignment explanation
Indices: 2267659--2267813 Score: 184
Period size: 67 Copynumber: 2.2 Consensus size: 73
2267649 ACTTTTTTTT
* * *
2267659 ATTTGTTTTATTTTTTTTCTTTAACACTTTTATATTTTATTATTTTTCTTTTCTAAAATTTAATA
1 ATTTATTTTATTTTTTTTCTTTAACACTTTTATATTATATTAATTTTCTTTTCTAAAATTTAATA
*
2267724 TTTTCTTC
66 TTTCCTTC
*
2267732 ATTTATTTTA-TTTTTTTCTTTTAACA-TTTTTTA-TATA-TAATTTT-TTTT-T-AAATTTAAT
1 ATTTATTTTATTTTTTTTC-TTTAACACTTTTATATTATATTAATTTTCTTTTCTAAAATTTAAT
2267790 ATTTCCTTC
65 ATTTCCTTC
2267799 -TTTGA-TTTATTTTTT
1 ATTT-ATTTTATTTTTT
2267814 AAATTTATTT
Statistics
Matches: 74, Mismatches: 5, Indels: 12
0.81 0.05 0.13
Matches are distributed among these distances:
66 7 0.09
67 23 0.31
68 1 0.01
69 4 0.05
70 6 0.08
71 3 0.04
72 14 0.19
73 16 0.22
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (73 bp):
ATTTATTTTATTTTTTTTCTTTAACACTTTTATATTATATTAATTTTCTTTTCTAAAATTTAATA
TTTCCTTC
Found at i:2267819 original size:13 final size:13
Alignment explanation
Indices: 2267803--2267827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2267793 TCCTTCTTTG
2267803 ATTTATTTTTTAA
1 ATTTATTTTTTAA
2267816 ATTTATTTTTTA
1 ATTTATTTTTTA
2267828 TTTGATATTT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTATTTTTTAA
Found at i:2283813 original size:7 final size:7
Alignment explanation
Indices: 2283803--2283833 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
2283793 TTAAAATTTA
2283803 AAATATG
1 AAATATG
2283810 AAATATG
1 AAATATG
2283817 AAATATG
1 AAATATG
2283824 AAATATG
1 AAATATG
2283831 AAA
1 AAA
2283834 AAAATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (7 bp):
AAATATG
Found at i:2285778 original size:31 final size:30
Alignment explanation
Indices: 2285743--2285828 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 30
2285733 ATTGTAAGAT
2285743 GTCTGAACAATATGTTTCCTAAATTCTATG-C
1 GTCTGAACAATATGTTTCCTAAA--CTATGAC
* * * * *
2285774 GTCTGAGCAATATATTTCATGAACTATGATT
1 GTCTGAACAATATGTTTCCTAAACTATGA-C
*
2285805 GTATGAACAATATGTTTCCTAAAC
1 GTCTGAACAATATGTTTCCTAAAC
2285829 CGTGACATTC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 5 0.12
31 38 0.88
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (30 bp):
GTCTGAACAATATGTTTCCTAAACTATGAC
Found at i:2285865 original size:31 final size:31
Alignment explanation
Indices: 2285837--2285929 Score: 123
Period size: 32 Copynumber: 3.0 Consensus size: 31
2285827 ACCGTGACAT
2285837 TCTAAACGATATGTTTTTTGAATTGTGACTA
1 TCTAAACGATATGTTTTTTGAATTGTGACTA
* * * * *
2285868 ACTGAACAATATGTTTTTTTGAGTTGTTACTA
1 TCTAAACGATATG-TTTTTTGAATTGTGACTA
*
2285900 TCTAAACGATATGTTTTTTGAACTGTGACT
1 TCTAAACGATATGTTTTTTGAATTGTGACT
2285930 GTTCGTATAT
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
31 24 0.48
32 26 0.52
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (31 bp):
TCTAAACGATATGTTTTTTGAATTGTGACTA
Found at i:2296386 original size:12 final size:12
Alignment explanation
Indices: 2296369--2296414 Score: 83
Period size: 12 Copynumber: 3.8 Consensus size: 12
2296359 TTAACATTAA
*
2296369 TTTTTATTTAAC
1 TTTTTATTCAAC
2296381 TTTTTATTCAAC
1 TTTTTATTCAAC
2296393 TTTTTATTCAAC
1 TTTTTATTCAAC
2296405 TTTTTATTCA
1 TTTTTATTCA
2296415 TGTCTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTTATTCAAC
Found at i:2296582 original size:112 final size:112
Alignment explanation
Indices: 2296393--2296980 Score: 1054
Period size: 112 Copynumber: 5.3 Consensus size: 112
2296383 TTTATTCAAC
* * *
2296393 TTTTTATTCAACTTTTTATTCATGTCTATATATGTTG-TAATCTAGGCTCCATTTTAGTCATACT
1 TTTTTATTTAACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCATACT
*
2296457 TTTAATTATTGATTTATTATATTTATGTCTTTAAAGTTGAACATTAT
66 TTTAATTATTGATTTATTATATTTATGTCTTTAAAGTTGAACATTAA
* ** *
2296504 TTTTTATTTAACTTCTTATTCATGTCTATATCTGTTGCTAATCTAAGCTCCATTTTAGTCATATT
1 TTTTTATTTAACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCATACT
2296569 TTTAATTATTGATTTATTATATTTATGTCTTTAAAGTTGAACATTAA
66 TTTAATTATTGATTTATTATATTTATGTCTTTAAAGTTGAACATTAA
* * *
2296616 TTTTTATTTGACTTTTTATTCATGTCTCTATCTGTTGCTAATCTTGGCTCCATTTTAATCATACT
1 TTTTTATTTAACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCATACT
*
2296681 TTTAATTATTGATTTATTATATTTATGTCTTTAAAGTTAAACATTAA
66 TTTAATTATTGATTTATTATATTTATGTCTTTAAAGTTGAACATTAA
2296728 TTTTTATTTAACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCATACT
1 TTTTTATTTAACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCATACT
2296793 TTTAATTATTGATTTATTATATTTATGTCTTTAAAGTTGAACATTAA
66 TTTAATTATTGATTTATTATATTTATGTCTTTAAAGTTGAACATTAA
2296840 TTTTTATTTAACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCATACT
1 TTTTTATTTAACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCATACT
2296905 TTTAATTATTGATTTATTATATTTATGTCTTTAAAGTTGAACATTAA
66 TTTAATTATTGATTTATTATATTTATGTCTTTAAAGTTGAACATTAA
2296952 TTTTTATTTAACTTTTTATTCATGT-TATA
1 TTTTTATTTAACTTTTTATTCATGTCTATA
2296981 CGATATTTAT
Statistics
Matches: 458, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
111 38 0.08
112 420 0.92
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.54
Consensus pattern (112 bp):
TTTTTATTTAACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCATACT
TTTAATTATTGATTTATTATATTTATGTCTTTAAAGTTGAACATTAA
Found at i:2296794 original size:52 final size:52
Alignment explanation
Indices: 2296738--2296907 Score: 137
Period size: 52 Copynumber: 3.1 Consensus size: 52
2296728 TTTTTATTTA
2296738 ACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCAT
1 ACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCAT
* * * * ** * ** * *
2296790 ACTTTTAATT-ATTGATTTATTATATTTATGTCTTTAAAGTTGAACATTAATTTTTATTTA-
1 ACTTTTTATTCA-TG-TCTA-TATCTGT-TG-C--TAATCTTG-GC-TCCA-TTTTAGTCAT
2296850 ACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCAT
1 ACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCAT
2296902 ACTTTT
1 ACTTTT
2296908 AATTATTGAT
Statistics
Matches: 84, Mismatches: 22, Indels: 24
0.65 0.17 0.18
Matches are distributed among these distances:
51 8 0.10
52 19 0.23
53 4 0.05
54 11 0.13
55 2 0.02
56 2 0.02
57 2 0.02
58 11 0.13
59 4 0.05
60 13 0.15
61 8 0.10
ACGTcount: A:0.24, C:0.14, G:0.09, T:0.53
Consensus pattern (52 bp):
ACTTTTTATTCATGTCTATATCTGTTGCTAATCTTGGCTCCATTTTAGTCAT
Found at i:2297203 original size:21 final size:20
Alignment explanation
Indices: 2297160--2297243 Score: 132
Period size: 20 Copynumber: 4.2 Consensus size: 20
2297150 TTTTCCAAAT
* *
2297160 TCGCAACGTGAATATGTAAA
1 TCGCAACGCGAATTTGTAAA
*
2297180 TCGCAACGCGAATTTGGAAAA
1 TCGCAACGCGAATTT-GTAAA
2297201 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAA
2297221 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAA
2297241 TCG
1 TCG
2297244 TAACACAGAG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 40 0.68
21 19 0.32
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGAATTTGTAAA
Found at i:2297265 original size:40 final size:40
Alignment explanation
Indices: 2297221--2297328 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
2297211 AATTTGTAAA
* * *
2297221 TCGCAACGCGAATTTGTAAA-TCGTAACACAGAGGTCAAAT
1 TCGCAACACGAATTT-TAAATTCGCAACACAGAAGTCAAAT
* ** *
2297261 TCGCAACACAAAAGTTAAATTTGCAACACAGAAGTCAAAT
1 TCGCAACACGAATTTTAAATTCGCAACACAGAAGTCAAAT
*
2297301 TCGCAACACTGAATTTCAAATTCGCAAC
1 TCGCAACAC-GAATTTTAAATTCGCAAC
2297329 TGAATTTCAA
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
39 4 0.07
40 37 0.69
41 13 0.24
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (40 bp):
TCGCAACACGAATTTTAAATTCGCAACACAGAAGTCAAAT
Found at i:2297270 original size:20 final size:20
Alignment explanation
Indices: 2297245--2297328 Score: 105
Period size: 20 Copynumber: 4.2 Consensus size: 20
2297235 TGTAAATCGT
*
2297245 AACACAGAGGTCAAATTCGC
1 AACACAGAAGTCAAATTCGC
* * *
2297265 AACACAAAAGTTAAATTTGC
1 AACACAGAAGTCAAATTCGC
2297285 AACACAGAAGTCAAATTCGC
1 AACACAGAAGTCAAATTCGC
* *
2297305 AACACTGAATTTCAAATTCGC
1 AACACAGAA-GTCAAATTCGC
2297326 AAC
1 AAC
2297329 TGAATTTCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 41 0.76
21 13 0.24
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (20 bp):
AACACAGAAGTCAAATTCGC
Found at i:2297332 original size:19 final size:19
Alignment explanation
Indices: 2297308--2297405 Score: 142
Period size: 19 Copynumber: 5.1 Consensus size: 19
2297298 AATTCGCAAC
*
2297308 ACTGAATTTCAAATTCGCA
1 ACTGAATTTCAAATTCGTA
2297327 ACTGAATTTCAAATTCGTA
1 ACTGAATTTCAAATTCGTA
*
2297346 ACTGAATTTCAAATTAGTA
1 ACTGAATTTCAAATTCGTA
2297365 ACTGAATTTCAAATTCGTA
1 ACTGAATTTCAAATTCGTA
* **
2297384 ACTCGATTTTTGAATTCGTA
1 ACT-GAATTTCAAATTCGTA
2297404 AC
1 AC
2297406 ACGAATTTAA
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
19 57 0.79
20 15 0.21
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
ACTGAATTTCAAATTCGTA
Found at i:2300520 original size:18 final size:18
Alignment explanation
Indices: 2300497--2300532 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2300487 AAGCAAAAGG
2300497 AAATCAAAATCACAATCA
1 AAATCAAAATCACAATCA
*
2300515 AAATCAAAATCTCAATCA
1 AAATCAAAATCACAATCA
2300533 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCACAATCA
Found at i:2300823 original size:20 final size:20
Alignment explanation
Indices: 2300782--2300824 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2300772 TGCTAAAGTT
* *
2300782 AAATTCGCAACGCGATAGTC
1 AAATTCGCAACGCGAAAATC
2300802 AAATTCGCAACGCGAAAATC
1 AAATTCGCAACGCGAAAATC
2300822 AAA
1 AAA
2300825 ATCGAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.16
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAATC
Found at i:2300832 original size:13 final size:13
Alignment explanation
Indices: 2300814--2300838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2300804 ATTCGCAACG
2300814 CGAAAATCAAAAT
1 CGAAAATCAAAAT
2300827 CGAAAATCAAAA
1 CGAAAATCAAAA
2300839 ATCACAATGC
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:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (13 bp):
CGAAAATCAAAAT
Found at i:2300871 original size:20 final size:20
Alignment explanation
Indices: 2300846--2300903 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
2300836 AAAATCACAA
2300846 TGCGAATTTGACTTTCGCGT
1 TGCGAATTTGACTTTCGCGT
* **
2300866 TGCGAATTTAACTTTAACGT
1 TGCGAATTTGACTTTCGCGT
*
2300886 TGCGAATTTGACTATCGC
1 TGCGAATTTGACTTTCGC
2300904 AACGCGAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TGCGAATTTGACTTTCGCGT
Found at i:2300910 original size:20 final size:20
Alignment explanation
Indices: 2300887--2300941 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
2300877 CTTTAACGTT
2300887 GCGAATTTGACTATCGCAAC
1 GCGAATTTGACTATCGCAAC
*
2300907 GCGAA----A--ATCGCAAT
1 GCGAATTTGACTATCGCAAC
2300921 GCGAATTTGACTATCGCAAC
1 GCGAATTTGACTATCGCAAC
2300941 G
1 G
2300942 AGAAAATCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
14 12 0.44
16 1 0.04
18 1 0.04
20 13 0.48
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (20 bp):
GCGAATTTGACTATCGCAAC
Found at i:2300929 original size:34 final size:34
Alignment explanation
Indices: 2300886--2300953 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
2300876 ACTTTAACGT
*
2300886 TGCGAATTTGACTATCGCAACGCGAAAATCGCAA
1 TGCGAATTTGACTATCGCAACGAGAAAATCGCAA
2300920 TGCGAATTTGACTATCGCAACGAGAAAATCGCAA
1 TGCGAATTTGACTATCGCAACGAGAAAATCGCAA
2300954 CACAGATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (34 bp):
TGCGAATTTGACTATCGCAACGAGAAAATCGCAA
Found at i:2300963 original size:34 final size:34
Alignment explanation
Indices: 2300888--2300971 Score: 116
Period size: 34 Copynumber: 2.5 Consensus size: 34
2300878 TTTAACGTTG
* **
2300888 CGAATTTGACTATCGCAACGCGAAAATCGCAATG
1 CGAATTTGACTATCGCAACGAGAAAATCGCAACA
2300922 CGAATTTGACTATCGCAACGAGAAAATCGCAACA
1 CGAATTTGACTATCGCAACGAGAAAATCGCAACA
*
2300956 C-AGATTTGACTTTCGC
1 CGA-ATTTGACTATCGC
2300972 GTTGCGAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 1 0.02
34 44 0.98
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (34 bp):
CGAATTTGACTATCGCAACGAGAAAATCGCAACA
Found at i:2302355 original size:45 final size:46
Alignment explanation
Indices: 2302306--2302396 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
2302296 GAACATCAAA
* * * *
2302306 TGTATTTTATGCATCGATGCA-CATACCATGAATCGATGCACTCAG
1 TGTATTTGATGCATCAATGCATAAGACCATGAATCGATGCACTCAG
* *
2302351 TGTATTTGATGCATCAATGCATAAGACTATGCATCGATGCACTCAG
1 TGTATTTGATGCATCAATGCATAAGACCATGAATCGATGCACTCAG
2302397 GCTTTTTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 19 0.49
46 20 0.51
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (46 bp):
TGTATTTGATGCATCAATGCATAAGACCATGAATCGATGCACTCAG
Found at i:2309764 original size:20 final size:19
Alignment explanation
Indices: 2309714--2309769 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
2309704 AACCAATAAT
2309714 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
2309733 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
2309753 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
2309770 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:2309881 original size:26 final size:24
Alignment explanation
Indices: 2309852--2309900 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
2309842 TAAGAACTAA
*
2309852 AATATAATAAATAAATAGTATAAAAT
1 AATAAAATAAATAAA-A-TATAAAAT
*
2309878 AATAAAATATATAAAATATAAAA
1 AATAAAATAAATAAAATATAAAA
2309901 ATGTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 1 0.05
26 13 0.62
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AATAAAATAAATAAAATATAAAAT
Found at i:2309883 original size:17 final size:17
Alignment explanation
Indices: 2309861--2309950 Score: 59
Period size: 17 Copynumber: 5.5 Consensus size: 17
2309851 AAATATAATA
2309861 AATAAATAGTATAAAAT
1 AATAAATAGTATAAAAT
2309878 AATAAAATA-TATAAAAT
1 AAT-AAATAGTATAAAAT
* **
2309895 -ATAAAAATGTAT-GTAT
1 AATAAATA-GTATAAAAT
2309911 AAT--ATA--ATAAAAT
1 AATAAATAGTATAAAAT
*
2309924 ACTAAATAGTAATAATAAT
1 AATAAATAGT-ATAA-AAT
2309943 AATAAATA
1 AATAAATA
2309951 AATGAAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
12 2 0.04
13 4 0.07
15 9 0.17
16 4 0.07
17 16 0.30
18 9 0.17
19 10 0.19
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (17 bp):
AATAAATAGTATAAAAT
Found at i:2309918 original size:38 final size:40
Alignment explanation
Indices: 2309849--2309924 Score: 111
Period size: 38 Copynumber: 1.9 Consensus size: 40
2309839 AGCTAAGAAC
2309849 TAAAATATAATAAATAAATAGTATAAAATAATAAAATATA
1 TAAAATATAATAAATAAATAGTATAAAATAATAAAATATA
** *
2309889 TAAAATATAA-AAATGTAT-GTATAATATAATAAAATA
1 TAAAATATAATAAATAAATAGTATAAAATAATAAAATA
2309925 CTAAATAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 17 0.52
39 6 0.18
40 10 0.30
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (40 bp):
TAAAATATAATAAATAAATAGTATAAAATAATAAAATATA
Found at i:2309941 original size:29 final size:29
Alignment explanation
Indices: 2309875--2309952 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 29
2309865 AATAGTATAA
*
2309875 AATAATAAAATATATAAAATATAAAAATGT
1 AATAATAATATA-ATAAAATATAAAAATGT
* *
2309905 -ATGTATAATATAATAAAATACTAAATA-GT
1 AAT-AATAATATAATAAAATA-TAAAAATGT
2309934 AATAATAATAATAAATAAA
1 AATAATAAT-AT-AATAAA
2309953 TGAAAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
29 17 0.44
30 16 0.41
31 6 0.15
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (29 bp):
AATAATAATATAATAAAATATAAAAATGT
Found at i:2310071 original size:78 final size:75
Alignment explanation
Indices: 2309982--2310133 Score: 184
Period size: 76 Copynumber: 2.0 Consensus size: 75
2309972 TAATATTAAC
*
2309982 TAAAAAAATAGT-AATCATAG-AAATATAAAATAAAATAAAGTAAGAATAT-ATATATATATAAC
1 TAAAAAAATAGTAAAT-A-AGTAAACAT-AAATAAAAT-AA-TAAGAATATAATATATATATAAC
*
2310044 ATTAGGAAAATATAG
61 AATAGGAAAATATAG
* * *
2310059 TAAAAAACATAGTAAATAAGTAAACATAGATAAAATAATAATAATATAATATATATATAATAATA
1 TAAAAAA-ATAGTAAATAAGTAAACATAAATAAAATAATAAGAATATAATATATATATAACAATA
2310124 GGAAAATATA
65 GGAAAATATA
2310134 TAATATAACG
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
75 8 0.12
76 27 0.41
77 17 0.26
78 11 0.17
79 3 0.05
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (75 bp):
TAAAAAAATAGTAAATAAGTAAACATAAATAAAATAATAAGAATATAATATATATATAACAATAG
GAAAATATAG
Found at i:2310192 original size:22 final size:22
Alignment explanation
Indices: 2310164--2310214 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
2310154 TGAAAAATAT
2310164 TATAATAAATAAATAAATAAAA
1 TATAATAAATAAATAAATAAAA
* * *
2310186 TATAATAAATATATAGATATAA
1 TATAATAAATAAATAAATAAAA
2310208 -ATAATAA
1 TATAATAA
2310215 GGGTTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
TATAATAAATAAATAAATAAAA
Found at i:2310210 original size:18 final size:17
Alignment explanation
Indices: 2310167--2310211 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
2310157 AAAATATTAT
2310167 AATAAATAAATAAATAA
1 AATAAATAAATAAATAA
*
2310184 AATATAATAAATATATAGA
1 AATA-AATAAATAAATA-A
*
2310203 TATAAATAA
1 AATAAATAA
2310212 TAAGGGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AATAAATAAATAAATAA
Found at i:2310948 original size:14 final size:14
Alignment explanation
Indices: 2310929--2310977 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
2310919 GCAATAATGT
2310929 ATATTATAAAAATA
1 ATATTATAAAAATA
*
2310943 ATATTAATTAAAAGTA
1 ATATT-A-TAAAAATA
2310959 A-ATTATAAAAATA
1 ATATTATAAAAATA
2310972 ATATTA
1 ATATTA
2310978 ATCAAAAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 8 0.27
14 10 0.33
15 4 0.13
16 8 0.27
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
ATATTATAAAAATA
Found at i:2310963 original size:15 final size:16
Alignment explanation
Indices: 2310935--2310984 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
2310925 ATGTATATTA
2310935 TAAAAATAATATTAAT
1 TAAAAATAATATTAAT
*
2310951 TAAAAGTAA-ATT-A-
1 TAAAAATAATATTAAT
2310964 TAAAAATAATATTAAT
1 TAAAAATAATATTAAT
*
2310980 CAAAA
1 TAAAA
2310985 GGGACGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 8 0.29
14 4 0.14
15 4 0.14
16 12 0.43
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (16 bp):
TAAAAATAATATTAAT
Found at i:2311872 original size:100 final size:100
Alignment explanation
Indices: 2311736--2311915 Score: 270
Period size: 100 Copynumber: 1.8 Consensus size: 100
2311726 CGGGAAAGTG
* * * *
2311736 TTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCTAATATCC
1 TTTGTTGACAACCAGCCGCCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAAGATCC
*
2311801 TTCGCTGTGAAGTTGAAATTGACTCTGAATGAAAT
66 TTCGCTGAGAAGTTGAAATTGACTCTGAATGAAAT
* * * * *
2311836 TTTGTTGACAATCGGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGGGTCCAAGATCC
1 TTTGTTGACAACCAGCCGCCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAAGATCC
2311901 TTCGCTGAGAAGTTG
66 TTCGCTGAGAAGTTG
2311916 TTTATTGACA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 70 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (100 bp):
TTTGTTGACAACCAGCCGCCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAAGATCC
TTCGCTGAGAAGTTGAAATTGACTCTGAATGAAAT
Found at i:2312098 original size:106 final size:106
Alignment explanation
Indices: 2311909--2312616 Score: 1019
Period size: 106 Copynumber: 6.6 Consensus size: 106
2311899 CCTTCGCTGA
* * *
2311909 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGCTGTCTTGAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
2311974 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GG
*
2312016 GAA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * *
2312080 AATATCATTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
*
2312121 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * *
2312186 AATATCCTTCGCTGTGAAGTTGAAATTGGTTATGAAATTGG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
2312227 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
2312292 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * * * *
2312333 GAAGTTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTTAACTTGCGTTTTCTGGAGTCT
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * *
2312398 AATATTCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * * *
2312439 GAA---GTTTGTTGACAACCAGCGGTCCCTTCGTCATGAATTTTAACTTGCGTTGTCTAGAGTCC
1 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* **
2312501 AATTTTATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGCTCTGAAATTG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA-----T-TG-----G
2312553 AGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
1 -GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
2312617 GGCACGATAT
Statistics
Matches: 543, Mismatches: 42, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
103 86 0.16
105 4 0.01
106 391 0.72
107 3 0.01
108 1 0.00
109 2 0.00
115 3 0.01
118 53 0.10
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (106 bp):
GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
Found at i:2312538 original size:12 final size:12
Alignment explanation
Indices: 2312521--2312552 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
2312511 GTTGTGAAGT
2312521 TGAAATTGGCTC
1 TGAAATTGGCTC
2312533 TGAAATTGGCTC
1 TGAAATTGGCTC
2312545 TGAAATTG
1 TGAAATTG
2312553 AGAAGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (12 bp):
TGAAATTGGCTC
Found at i:2313375 original size:24 final size:22
Alignment explanation
Indices: 2313317--2313379 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
2313307 TTTTATTTTC
*
2313317 AAAGTTCTGAAAATA-TCAATA
1 AAAGTTTTGAAAATATTCAATA
* *
2313338 AAGAGTTTTAAAAAATATTTAATCA
1 AA-AGTTTT-GAAAATATTCAAT-A
2313363 AAAGTTTTGAAAATATT
1 AAAGTTTTGAAAATATT
2313380 GTCCCGTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.06
22 5 0.15
23 14 0.41
24 10 0.29
25 3 0.09
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.35
Consensus pattern (22 bp):
AAAGTTTTGAAAATATTCAATA
Found at i:2313642 original size:22 final size:22
Alignment explanation
Indices: 2313566--2313627 Score: 115
Period size: 22 Copynumber: 2.8 Consensus size: 22
2313556 TTGTGTTTGG
2313566 TCAAAGGTTTGGCATTTGATGT
1 TCAAAGGTTTGGCATTTGATGT
*
2313588 TCAAATGTTTGGCATTTGATGT
1 TCAAAGGTTTGGCATTTGATGT
2313610 TCAAAGGTTTGGCATTTG
1 TCAAAGGTTTGGCATTTG
2313628 CTGCTATAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.42
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGT
Found at i:2314273 original size:32 final size:33
Alignment explanation
Indices: 2314236--2314307 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
2314226 TTTGCATGTG
**
2314236 CTTTTTGTCCCT-TTTTCTTTTTGATTTTTGTT
1 CTTTTTGTCCCTCTTTTCTTTTTGATTTTTGCC
* **
2314268 CTTTTT-TCCTTCTTTTCTTTTTTCTTTTTGCC
1 CTTTTTGTCCCTCTTTTCTTTTTGATTTTTGCC
2314300 CTTTTTGT
1 CTTTTTGT
2314308 TCTGATTGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 4 0.12
32 28 0.85
33 1 0.03
ACGTcount: A:0.01, C:0.19, G:0.07, T:0.72
Consensus pattern (33 bp):
CTTTTTGTCCCTCTTTTCTTTTTGATTTTTGCC
Found at i:2318586 original size:19 final size:19
Alignment explanation
Indices: 2318532--2318586 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
2318522 AACCAATAAT
2318532 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
2318551 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
2318570 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
2318587 GAAGATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 18 0.62
20 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:2318959 original size:21 final size:21
Alignment explanation
Indices: 2318918--2318966 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
2318908 GATAAAAAAA
* *
2318918 ATAATAATATAATATATATAT
1 ATAATAATAGAAAATATATAT
2318939 ATAATAATAGGAAAATAATATAAT
1 ATAATAATA-GAAAAT-ATAT-AT
2318963 ATAA
1 ATAA
2318967 CGCAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 9 0.39
22 4 0.17
23 4 0.17
24 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
ATAATAATAGAAAATATATAT
Found at i:2319787 original size:14 final size:14
Alignment explanation
Indices: 2319768--2319816 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
2319758 GCAATAATGT
2319768 ATATTATAAAAATA
1 ATATTATAAAAATA
*
2319782 ATATTAATTAAAAGTA
1 ATATT-A-TAAAAATA
2319798 A-ATTATAAAAATA
1 ATATTATAAAAATA
2319811 ATATTA
1 ATATTA
2319817 ATCAAAAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 8 0.27
14 10 0.33
15 4 0.13
16 8 0.27
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
ATATTATAAAAATA
Found at i:2319802 original size:15 final size:16
Alignment explanation
Indices: 2319774--2319823 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
2319764 ATGTATATTA
2319774 TAAAAATAATATTAAT
1 TAAAAATAATATTAAT
*
2319790 TAAAAGTAA-ATT-A-
1 TAAAAATAATATTAAT
2319803 TAAAAATAATATTAAT
1 TAAAAATAATATTAAT
*
2319819 CAAAA
1 TAAAA
2319824 GGGACGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 8 0.29
14 4 0.14
15 4 0.14
16 12 0.43
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (16 bp):
TAAAAATAATATTAAT
Found at i:2320356 original size:21 final size:21
Alignment explanation
Indices: 2320314--2320357 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
2320304 ACTCCGGGAG
* *
2320314 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
2320335 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
2320356 CT
1 CT
2320358 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:2321468 original size:20 final size:20
Alignment explanation
Indices: 2321443--2321481 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2321433 TTTTCAAGGG
2321443 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
2321463 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
2321482 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:2322922 original size:21 final size:21
Alignment explanation
Indices: 2322862--2322929 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
2322852 GTGAATCGGG
* * *
2322862 CTCTTGAACGGCGGGCGGGAC
1 CTCTTGAACGGTGGGAGGGGC
* ** *
2322883 CTCTTGAACGATGACAGGGGT
1 CTCTTGAACGGTGGGAGGGGC
2322904 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
2322925 CTCTT
1 CTCTT
2322930 CAATGATGAA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.24, G:0.38, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Done.