Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009368.1 Hibiscus syriacus cultivar Beakdansim tig00113201_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: 85879
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:2870 original size:41 final size:42
Alignment explanation
Indices: 2809--2923 Score: 125
Period size: 41 Copynumber: 2.8 Consensus size: 42
2799 AACCTGAATA
* *
2809 TATTAATATTTA-AAACAATTAAAATAATATATTATAATTATT
1 TATT-ATATTTATAAATAATTAAAATAATATATTATAATAATT
*
2851 TATTAT-TTTATAAATAATTAAAATAATAAATTTTATAATAATT
1 TATTATATTTATAAATAATTAAAATAAT--ATATTATAATAATT
2894 TATTATAATTT-T-AAT-ATT-AAATAATATATT
1 TATTAT-ATTTATAAATAATTAAAATAATATATT
2924 TTAACATTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
39 4 0.06
40 4 0.06
41 24 0.38
42 7 0.11
43 21 0.33
44 1 0.02
45 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (42 bp):
TATTATATTTATAAATAATTAAAATAATATATTATAATAATT
Found at i:2896 original size:43 final size:40
Alignment explanation
Indices: 2817--2899 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 40
2807 TATATTAATA
*
2817 TTTAAAACAATTAAAATAATATATTATAATTATTTATTAT
1 TTTAAAACAATTAAAATAATATATTATAATAATTTATTAT
* *
2857 TTTATAAATAATTAAAATAATAAATTTTATAATAATTTATTAT
1 TTTA-AAACAATTAAAATAAT--ATATTATAATAATTTATTAT
2900 AATTTTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 4 0.11
41 15 0.41
43 18 0.49
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (40 bp):
TTTAAAACAATTAAAATAATATATTATAATAATTTATTAT
Found at i:2921 original size:21 final size:21
Alignment explanation
Indices: 2871--2942 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
2861 TAAATAATTA
*
2871 AAATAATA-AATTTT-ATAAT
1 AAATAATATAATTTTAATATT
* *
2890 AATTTATTATAATTTTAATATT
1 AA-ATAATATAATTTTAATATT
*
2912 AAATAATAT-ATTTTAACATT
1 AAATAATATAATTTTAATATT
*
2932 ATAAAAATATA
1 A-AATAATATA
2943 TTAAAAATCT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
19 2 0.05
20 15 0.37
21 18 0.44
22 6 0.15
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATAATATAATTTTAATATT
Found at i:2926 original size:20 final size:21
Alignment explanation
Indices: 2901--2944 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
2891 ATTTATTATA
* *
2901 ATTTTAATATTA-AATAATAT
1 ATTTTAACATTATAAAAATAT
2921 ATTTTAACATTATAAAAATAT
1 ATTTTAACATTATAAAAATAT
2942 ATT
1 ATT
2945 AAAAATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTTAACATTATAAAAATAT
Found at i:4864 original size:7 final size:7
Alignment explanation
Indices: 4852--4878 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4842 AGAAAGGGAG
4852 GAAGCAT
1 GAAGCAT
4859 GAAGCAT
1 GAAGCAT
4866 GAAGCAT
1 GAAGCAT
4873 GAAGCA
1 GAAGCA
4879 ACAAAGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.30, T:0.11
Consensus pattern (7 bp):
GAAGCAT
Found at i:7844 original size:21 final size:21
Alignment explanation
Indices: 7802--7844 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7792 TTTCTGGGTT
* * *
7802 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
7823 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
7844 A
1 A
7845 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:7905 original size:66 final size:67
Alignment explanation
Indices: 7802--7973 Score: 222
Period size: 67 Copynumber: 2.6 Consensus size: 67
7792 TTTCTGGGTT
* * *
7802 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATG
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATG
7865 CTAG
64 CTAG
* * *
7869 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
*
7934 TG
66 AG
* *
7936 AGGGGAATCGATACCCCCAGGGGGGGAACCGATTCCCC
1 AGGGGAATCGGTACCCCCA-GGGGGGAACCGATACCCC
7974 ATGAGAAAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.02
66 22 0.24
67 52 0.56
68 17 0.18
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.17
Consensus pattern (67 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
AG
Found at i:8686 original size:22 final size:22
Alignment explanation
Indices: 8612--8678 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
8602 TTATGGACAT
8612 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
8634 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
8656 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
8678 A
1 A
8679 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:14752 original size:21 final size:21
Alignment explanation
Indices: 14710--14752 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
14700 TTTCTGGGTT
* * *
14710 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
14731 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
14752 A
1 A
14753 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:14813 original size:66 final size:67
Alignment explanation
Indices: 14710--14882 Score: 224
Period size: 67 Copynumber: 2.6 Consensus size: 67
14700 TTTCTGGGTT
* * *
14710 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATG
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATG
14773 CTAG
64 CTAG
* * *
14777 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
*
14842 TG
66 AG
* *
14844 AGGGGAATCGATACCCCCAGGGGGGGAACCGATTCCCCC
1 AGGGGAATCGGTACCCCCA-GGGGGGAACCGATACCCCC
14883 ATGAGAAAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.02
66 22 0.23
67 52 0.55
68 18 0.19
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (67 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
AG
Found at i:15595 original size:22 final size:22
Alignment explanation
Indices: 15521--15587 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
15511 TTATGGACAT
15521 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
15543 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
15565 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
15587 A
1 A
15588 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:17758 original size:28 final size:25
Alignment explanation
Indices: 17707--17756 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
17697 TTCAAGATCT
17707 CGGATATTGAATACAATGAAGAAGA
1 CGGATATTGAATACAATGAAGAAGA
17732 CGGATATTGAATACAATGAAGAAGA
1 CGGATATTGAATACAATGAAGAAGA
17757 AGAAACAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (25 bp):
CGGATATTGAATACAATGAAGAAGA
Found at i:20457 original size:417 final size:422
Alignment explanation
Indices: 19741--21000 Score: 1429
Period size: 417 Copynumber: 3.0 Consensus size: 422
19731 GCACGCTCTT
* * ** *
19741 TGTTTGATTAATTCTAAGTGTTTCAATTACTTTATCAAATGGTTCGGAATTATAGTTAATACGGT
1 TGTTTGATTGATTCTAAGTGTTTCAATTACTTTATCGAATGGTTCGGAATTATAGTTGTTATGGT
** * * * * *
19806 GTTTGATTCGAGTGACGGTCATGGTTAAAGGATACTTTTAGTAAAACCAGAGCTGTAGCTTTGTT
66 GTTTGATGAGAGCGAGGGTAATGGTTTAAGGATACTTTTAGTAAAACCAGAGATGTAGCTTTGTT
* *
19871 AATGTGAGT-AGATATCTT-GCTAGGGAGGATTTAGGGTTTTGTGATTATCCTCGAATGCTTTTT
131 AATGTGAATAAGTTAT-TTGGCTA-GGAGGATTTAGGGTTTTGTGATTATCCTCGAATGCTTTTT
* * * *
19934 ATGAAACTCGTGCACTCCATGTTTGTTTGATTCTAAGCGTTTCA-ATTACATTATTGAATGGTTT
194 ATGAACCTCGTGCACTCCGTGTTTGATTGATTCTAAGCGTTT-AGATTACATTATCGAATGGTTT
* *
19998 GGAATTATAGTTGTTATGGTGTTTGATGAAAGCGAGGGTTATGGTTTAAGGATACCTTTAGTAAA
258 GGAATTGTAGTTGTTATGGTGTTTGATGAAAGAGAGGGTTATGGTTTAAGGATACCTTTAGTAAA
20063 ACCAGAGATGTAACTTTG-T-T-AAT-G-TT-TTTGGCTAGGG-GGATTTAGGGTTTTGTGATTA
323 ACCAGAGATGTAACTTTGATGTGAATAGATTATTTGGCTAGGGAGGATTTAGGGTTTTGTGATTA
20121 TCCTCAAATGCTTTTTATGAACCCTGTGAACCCTG
388 TCCTCAAATGCTTTTTATGAACCCTGTGAACCCTG
* ** * * *
20156 TGTTTGATTGATTCTAGGCT-TTTCGGTTACTTTATCGAGTGGTTCGGAATTGTAGCTGTTATGG
1 TGTTTGATTGATTCTAAG-TGTTTCAATTACTTTATCGAATGGTTCGGAATTATAGTTGTTATGG
* *
20220 TGTTTGATGAGAGCGAGGGCT-ATGGTTTAAGGATACTTTTAGTGAAACCAGAGTTGTAGCTTTG
65 TGTTTGATGAGAGCGAGGG-TAATGGTTTAAGGATACTTTTAGTAAAACCAGAGATGTAGCTTTG
*
20284 TTAATGAGAATAAAGTTATTTGGCTAGGTAGGATTTAGGGTTTTGTGATTATCCTCGAATGCTTT
129 TTAATGTGAAT-AAGTTATTTGGCTAGG-AGGATTTAGGGTTTTGTGATTATCCTCGAATGCTTT
* * * * * ** * * *
20349 TTGTGAACCTCATGCATTCTGTGTTTAATTGATTCTAAGCGTTTAGGGTACTTTATCCAGTGGTT
192 TTATGAACCTCGTGCACTCCGTGTTTGATTGATTCTAAGCGTTTAGATTACATTATCGAATGGTT
* * * * *
20414 TGGAGTTGTAGTTGTTATGGTGTTTGACGAGAGTGAGGGTTATGGTTTAAGGACACCTTTAGTAA
257 TGGAATTGTAGTTGTTATGGTGTTTGATGAAAGAGAGGGTTATGGTTTAAGGATACCTTTAGTAA
* *
20479 AACCAGAGCTGTAGCTTTGTTAATGTGAATAGATTTATTTGGCTAGGGAGGATTTAGGGTTTTGT
322 AACCAGAGATGTAACTTTG---ATGTGAATAGA-TTATTTGGCTAGGGAGGATTTAGGGTTTTGT
* * * * * **
20544 GATTATCCTCGAATGTTTTTTATGAACCTTTTGCACTTTG
383 GATTATCCTCAAATGCTTTTTATGAACCCTGTGAACCCTG
* *
20584 TGTTTGATTGATTCTAAGTGTTTCAATTACTTTATCGAATGTTTCAGAATTATAGTTGTTATGGT
1 TGTTTGATTGATTCTAAGTGTTTCAATTACTTTATCGAATGGTTCGGAATTATAGTTGTTATGGT
* * *
20649 GATCGTTGA-GAACGAG-GAGGGTAATGGTTTAAGAATACCTTTAGTAAAACCTGAGATGTAGCT
66 G-T--TTGATG-A-GAGCGAGGGTAATGGTTTAAGGATACTTTTAGTAAAACCAGAGATGTAGCT
* ** * * *
20712 TTGTTAATGTGAATAGAGTTATTTGGCTTGGAGGATTTAGGGTTTCATGAGTATCATCGAATACT
126 TTGTTAATGTGAATA-AGTTATTTGGCTAGGAGGATTTAGGGTTTTGTGATTATCCTCGAATGCT
* * * * * * *
20777 TTTCATGAACCTTGTGCACCCCGTGTTTGATTGATTCTAACCATTTCGATTACCTTATCGAATGG
190 TTTTATGAACCTCGTGCACTCCGTGTTTGATTGATTCTAAGCGTTTAGATTACATTATCGAATGG
* * **
20842 TTTGGAATTGTAGTTGTTATGGTGTTTGATGATAGAAAGGGTTACCGTTTAAGGATACC-TTAGT
255 TTTGGAATTGTAGTTGTTATGGTGTTTGATGAAAGAGAGGGTTATGGTTTAAGGATACCTTTAGT
* * * * ** *
20906 AGAACTAGAGCTTTAGTTTTATTAATGTGAATAGAGTTATTTGGCTAGGGAGGATTTAGGAG-TT
320 AAAACCAGAGATGTA--ACT-TTGATGTGAATAGA-TTATTTGGCTAGGGAGGATTTAGG-GTTT
* * *
20970 TGTGGTTATCCATGAACT-CTTTTTATGAACC
380 TGTGATTATCC-TCAAATGCTTTTTATGAACC
21001 TTGCACTCTC
Statistics
Matches: 708, Mismatches: 106, Indels: 48
0.82 0.12 0.06
Matches are distributed among these distances:
415 115 0.16
416 7 0.01
417 170 0.24
421 1 0.00
422 1 0.00
423 3 0.00
424 1 0.00
426 2 0.00
427 12 0.02
428 105 0.15
429 77 0.11
430 136 0.19
431 73 0.10
432 5 0.01
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.40
Consensus pattern (422 bp):
TGTTTGATTGATTCTAAGTGTTTCAATTACTTTATCGAATGGTTCGGAATTATAGTTGTTATGGT
GTTTGATGAGAGCGAGGGTAATGGTTTAAGGATACTTTTAGTAAAACCAGAGATGTAGCTTTGTT
AATGTGAATAAGTTATTTGGCTAGGAGGATTTAGGGTTTTGTGATTATCCTCGAATGCTTTTTAT
GAACCTCGTGCACTCCGTGTTTGATTGATTCTAAGCGTTTAGATTACATTATCGAATGGTTTGGA
ATTGTAGTTGTTATGGTGTTTGATGAAAGAGAGGGTTATGGTTTAAGGATACCTTTAGTAAAACC
AGAGATGTAACTTTGATGTGAATAGATTATTTGGCTAGGGAGGATTTAGGGTTTTGTGATTATCC
TCAAATGCTTTTTATGAACCCTGTGAACCCTG
Found at i:20484 original size:214 final size:214
Alignment explanation
Indices: 19736--21009 Score: 1380
Period size: 214 Copynumber: 6.0 Consensus size: 214
19726 GCCTCGCACG
* * * * * * **
19736 CTCTTTGTTTGATTAATTCTAAGTGTTTCA-ATTACTTTATCAAATGGTTCGGAATTATAGTTAA
1 CTCTGTGTTTGATTGATTCTAAGCGTTT-AGATTACTTTATCGAATGGTTTGGAATTGTAGTTGT
* ** * * * * * *
19800 TACGGTGTTTGATTCGAGTGACGGTCATGGTTAAAGGATACTTTTAGTAAAACCAGAGCTGTAGC
65 TATGGTGTTTGATGAGAGCGAGGGTTATGGTTTAAGGATACCTTTAGTAAAACCAGAGATGTAGC
*
19865 TTTGTTAATGTGAGTAGA--TATCTT-GCTAGGGAGGATTTAGGGTTTTGTGATTATCCTCGAAT
130 TTTGTTAATGTGAATAGAGTTAT-TTGGCTAGGGAGGATTTAGGGTTTTGTGATTATCCTCGAAT
*
19927 GCTTTTTATGAAACTCGTGCA
194 GCTTTTTATGAACCTCGTGCA
** * * * *
19948 CTCCATGTTTGTTTGATTCTAAGCGTTTCA-ATTACATTATTGAATGGTTTGGAATTATAGTTGT
1 CTCTGTGTTTGATTGATTCTAAGCGTTT-AGATTACTTTATCGAATGGTTTGGAATTGTAGTTGT
* *
20012 TATGGTGTTTGATGAAAGCGAGGGTTATGGTTTAAGGATACCTTTAGTAAAACCAGAGATGTAAC
65 TATGGTGTTTGATGAGAGCGAGGGTTATGGTTTAAGGATACCTTTAGTAAAACCAGAGATGTAGC
*
20077 TTTG----T-T-AAT---GTT-TTTGGCTAGGG-GGATTTAGGGTTTTGTGATTATCCTCAAATG
130 TTTGTTAATGTGAATAGAGTTATTTGGCTAGGGAGGATTTAGGGTTTTGTGATTATCCTCGAATG
*
20131 CTTTTTATGAACC-CTGTGAA
195 CTTTTTATGAACCTC-GTGCA
* * * * * * * *
20151 CCCTGTGTTTGATTGATTCTAGGCTTTTCGGTTACTTTATCGAGTGGTTCGGAATTGTAGCTGTT
1 CTCTGTGTTTGATTGATTCTAAGCGTTTAGATTACTTTATCGAATGGTTTGGAATTGTAGTTGTT
* * * *
20216 ATGGTGTTTGATGAGAGCGAGGGCTATGGTTTAAGGATACTTTTAGTGAAACCAGAGTTGTAGCT
66 ATGGTGTTTGATGAGAGCGAGGGTTATGGTTTAAGGATACCTTTAGTAAAACCAGAGATGTAGCT
* * *
20281 TTGTTAATGAGAATAAAGTTATTTGGCTAGGTAGGATTTAGGGTTTTGTGATTATCCTCGAATGC
131 TTGTTAATGTGAATAGAGTTATTTGGCTAGGGAGGATTTAGGGTTTTGTGATTATCCTCGAATGC
* *
20346 TTTTTGTGAACCTCATGCA
196 TTTTTATGAACCTCGTGCA
* * ** * * *
20365 TTCTGTGTTTAATTGATTCTAAGCGTTTAGGGTACTTTATCCAGTGGTTTGGAGTTGTAGTTGTT
1 CTCTGTGTTTGATTGATTCTAAGCGTTTAGATTACTTTATCGAATGGTTTGGAATTGTAGTTGTT
* * * *
20430 ATGGTGTTTGACGAGAGTGAGGGTTATGGTTTAAGGACACCTTTAGTAAAACCAGAGCTGTAGCT
66 ATGGTGTTTGATGAGAGCGAGGGTTATGGTTTAAGGATACCTTTAGTAAAACCAGAGATGTAGCT
* *
20495 TTGTTAATGTGAATAGATTTATTTGGCTAGGGAGGATTTAGGGTTTTGTGATTATCCTCGAATGT
131 TTGTTAATGTGAATAGAGTTATTTGGCTAGGGAGGATTTAGGGTTTTGTGATTATCCTCGAATGC
**
20560 TTTTTATGAACCTTTTGCA
196 TTTTTATGAACCTCGTGCA
* * * *
20579 CTTTGTGTTTGATTGATTCTAAGTGTTTCA-ATTACTTTATCGAAT-GTTTCAGAATTATAGTTG
1 CTCTGTGTTTGATTGATTCTAAGCGTTT-AGATTACTTTATCGAATGGTTT-GGAATTGTAGTTG
* * *
20642 TTATGGTGATCGTTGA-GAACGAG-GAGGGTAATGGTTTAAGAATACCTTTAGTAAAACCTGAGA
64 TTATGGTG-T--TTGATG-A-GAGCGAGGGTTATGGTTTAAGGATACCTTTAGTAAAACCAGAGA
* ** * *
20705 TGTAGCTTTGTTAATGTGAATAGAGTTATTTGGCT-TGGAGGATTTAGGGTTTCATGAGTATCAT
124 TGTAGCTTTGTTAATGTGAATAGAGTTATTTGGCTAGGGAGGATTTAGGGTTTTGTGATTATCCT
* * *
20769 CGAATACTTTTCATGAACCTTGTGCA
189 CGAATGCTTTTTATGAACCTCGTGCA
* * * * * *
20795 CCCCGTGTTTGATTGATTCTAACCATTTCGATTACCTTATCGAATGGTTTGGAATTGTAGTTGTT
1 CTCTGTGTTTGATTGATTCTAAGCGTTTAGATTACTTTATCGAATGGTTTGGAATTGTAGTTGTT
* ** ** * * * * *
20860 ATGGTGTTTGATGATAGAAAGGGTTACCGTTTAAGGATACC-TTAGTAGAACTAGAGCTTTAGTT
66 ATGGTGTTTGATGAGAGCGAGGGTTATGGTTTAAGGATACCTTTAGTAAAACCAGAGATGTAGCT
* *
20924 TTATTAATGTGAATAGAGTTATTTGGCTAGGGAGGATTTAGGAG-TTTGTGGTTATCCAT-GAAC
131 TTGTTAATGTGAATAGAGTTATTTGGCTAGGGAGGATTTAGG-GTTTTGTGATTATCC-TCGAA-
20987 T-CTTTTTATGAACCT--TGCA
193 TGCTTTTTATGAACCTCGTGCA
21006 CTCT
1 CTCT
21010 CCGTGTTCCA
Statistics
Matches: 894, Mismatches: 136, Indels: 65
0.82 0.12 0.06
Matches are distributed among these distances:
202 1 0.00
203 160 0.18
204 8 0.01
205 1 0.00
206 2 0.00
207 2 0.00
208 1 0.00
209 3 0.00
211 6 0.01
212 160 0.18
213 73 0.08
214 290 0.32
215 4 0.00
216 102 0.11
217 78 0.09
218 3 0.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.40
Consensus pattern (214 bp):
CTCTGTGTTTGATTGATTCTAAGCGTTTAGATTACTTTATCGAATGGTTTGGAATTGTAGTTGTT
ATGGTGTTTGATGAGAGCGAGGGTTATGGTTTAAGGATACCTTTAGTAAAACCAGAGATGTAGCT
TTGTTAATGTGAATAGAGTTATTTGGCTAGGGAGGATTTAGGGTTTTGTGATTATCCTCGAATGC
TTTTTATGAACCTCGTGCA
Found at i:22050 original size:2 final size:2
Alignment explanation
Indices: 22043--22073 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22033 GATTATACGT
22043 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22074 CTCATTGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22195 original size:14 final size:14
Alignment explanation
Indices: 22176--22202 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22166 TTTCCCCTAT
22176 GTTGAAGGTAAAAC
1 GTTGAAGGTAAAAC
22190 GTTGAAGGTAAAA
1 GTTGAAGGTAAAA
22203 TGTTTTTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.30, T:0.22
Consensus pattern (14 bp):
GTTGAAGGTAAAAC
Found at i:24798 original size:2 final size:2
Alignment explanation
Indices: 24793--24827 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24783 ACATACATAC
24793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24828 AAGTTAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26777 original size:141 final size:142
Alignment explanation
Indices: 26612--26896 Score: 443
Period size: 144 Copynumber: 2.0 Consensus size: 142
26602 ATGAAGTTAT
*
26612 AGTCAACTATTCTTGAACTC-TTTTTTTTTT-AATAATTTGGGGTAAGTACAAGGTAGTAT-TCG
1 AGTCAACTATTCTTGAACTCTTTTTTTTTTTGAATAATCTGGGGTAAGTACAAGGTAGTATAT-G
*
26674 TTAGAAGATAACTCTCAACCTTTTAACATTGAACGCTCACACCCCT-GTCATCTATGGTGCTCGA
65 TTAGAAGATAACTCTCAACCTTTCAACATTGAACGCTCACACCCCTAG-CATCTATGGTGCTCGA
26738 ACTCGGGTCCTCAAG
129 AC-CGGGTCCTCAAG
*
26753 AGTCAACTATTCTTGAACTCTTTTTTTTTTTGGAATAATCTGGGGTAAGTATAAGGTAGTATATG
1 AGTCAACTATTCTTGAACTCTTTTTTTTTTT-GAATAATCTGGGGTAAGTACAAGGTAGTATATG
* * * *
26818 TTCGAAGATAACTCTCAACCTTTCAATATTGAACGCTCACATCCCTAGCATTTATGGTGCTCGAA
65 TTAGAAGATAACTCTCAACCTTTCAACATTGAACGCTCACACCCCTAGCATCTATGGTGCTCGAA
26883 CCGGGTCCTCAAG
130 CCGGGTCCTCAAG
26896 A
1 A
26897 ATAACAATAG
Statistics
Matches: 132, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
141 20 0.15
142 10 0.08
143 13 0.10
144 87 0.66
145 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (142 bp):
AGTCAACTATTCTTGAACTCTTTTTTTTTTTGAATAATCTGGGGTAAGTACAAGGTAGTATATGT
TAGAAGATAACTCTCAACCTTTCAACATTGAACGCTCACACCCCTAGCATCTATGGTGCTCGAAC
CGGGTCCTCAAG
Found at i:27799 original size:2 final size:2
Alignment explanation
Indices: 27792--27823 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
27782 AATTTCTCAT
*
27792 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27824 ACGACCTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:30265 original size:58 final size:59
Alignment explanation
Indices: 30201--30321 Score: 226
Period size: 58 Copynumber: 2.1 Consensus size: 59
30191 ATTGGATTTC
30201 TTTTCTCTTAATAAAACCCTTTTTCAACTAAACATAAAGAAGGAAAATCTACG-CAGCA
1 TTTTCTCTTAATAAAACCCTTTTTCAACTAAACATAAAGAAGGAAAATCTACGCCAGCA
*
30259 TTTTCTCTTAATAAAACCCTTTTTCAACTAAACATAAAGAAGGAAAATTTACGCCAGCA
1 TTTTCTCTTAATAAAACCCTTTTTCAACTAAACATAAAGAAGGAAAATCTACGCCAGCA
30318 TTTT
1 TTTT
30322 AATTAAAATA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 52 0.85
59 9 0.15
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (59 bp):
TTTTCTCTTAATAAAACCCTTTTTCAACTAAACATAAAGAAGGAAAATCTACGCCAGCA
Found at i:31693 original size:13 final size:13
Alignment explanation
Indices: 31675--31700 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31665 AAAAAAATTA
31675 AAAATTTTTGTTT
1 AAAATTTTTGTTT
31688 AAAATTTTTGTTT
1 AAAATTTTTGTTT
31701 TCATATACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
AAAATTTTTGTTT
Found at i:32691 original size:11 final size:10
Alignment explanation
Indices: 32664--32705 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
32654 TGATTGGAAG
32664 AAAATAAA-T
1 AAAATAAATT
32673 AAAA-AAATT
1 AAAATAAATT
32682 AAAAATAAATT
1 -AAAATAAATT
32693 AAAATAAACTT
1 AAAATAAA-TT
32704 AA
1 AA
32706 CCTTATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 3 0.10
9 5 0.17
10 12 0.41
11 9 0.31
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAATAAATT
Found at i:35542 original size:60 final size:60
Alignment explanation
Indices: 35469--35596 Score: 247
Period size: 60 Copynumber: 2.1 Consensus size: 60
35459 CTCCATCCAA
35469 AAATGGATCACCTGGTATGTGGTTCTTTCTCCACCATTGAGTTTTCAGGAATACCTTGAT
1 AAATGGATCACCTGGTATGTGGTTCTTTCTCCACCATTGAGTTTTCAGGAATACCTTGAT
*
35529 AAATGGATCACCTGGTATGTGGTTCTTTCTCCACCCTTGAGTTTTCAGGAATACCTTGAT
1 AAATGGATCACCTGGTATGTGGTTCTTTCTCCACCATTGAGTTTTCAGGAATACCTTGAT
35589 AAATGGAT
1 AAATGGAT
35597 ATGTTTGGTG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 67 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (60 bp):
AAATGGATCACCTGGTATGTGGTTCTTTCTCCACCATTGAGTTTTCAGGAATACCTTGAT
Found at i:37460 original size:27 final size:27
Alignment explanation
Indices: 37422--37474 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
37412 TTTAGCAGTG
37422 TAATTGTAATTCAGTCCCAAATCAACA
1 TAATTGTAATTCAGTCCCAAATCAACA
*
37449 TAATTTTAATTCAGTCCCAAATCAAC
1 TAATTGTAATTCAGTCCCAAATCAAC
37475 TGATTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.32
Consensus pattern (27 bp):
TAATTGTAATTCAGTCCCAAATCAACA
Found at i:37999 original size:3 final size:3
Alignment explanation
Indices: 37991--38015 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37981 GGAAATATGT
37991 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
38016 AGATACGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:38550 original size:12 final size:12
Alignment explanation
Indices: 38533--38560 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38523 TGTGTCAGTT
38533 ACAAGAGTTATA
1 ACAAGAGTTATA
38545 ACAAGAGTTATA
1 ACAAGAGTTATA
38557 ACAA
1 ACAA
38561 CAATTACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.21
Consensus pattern (12 bp):
ACAAGAGTTATA
Found at i:53428 original size:105 final size:105
Alignment explanation
Indices: 53241--53856 Score: 1119
Period size: 105 Copynumber: 5.9 Consensus size: 105
53231 TACCCATAGC
53241 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
53306 GGACCGCTGGTTTTCAACAAACATTTCTCAGATTCAGAGT
66 GGACCGCTGGTTGTCAACAAACATTTCTCAGATTCAGAGT
*
53346 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
53411 GGACCGCTGGTTGTCAACAAACATTTCTCAGATTCAGAGT
66 GGACCGCTGGTTGTCAACAAACATTTCTCAGATTCAGAGT
*
53451 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
53516 GGACCGCTGGTTGTCAACAAACATTTCTCAGATTCAGAGT
66 GGACCGCTGGTTGTCAACAAACATTTCTCAGATTCAGAGT
*
53556 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
53621 GGACCGCTGGTTGTCAACAAACATTTCTCAGATTCAGAGT
66 GGACCGCTGGTTGTCAACAAACATTTCTCAGATTCAGAGT
* *
53661 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
53726 GGACCACTGGTTGTCATCAAACATTTCTCCA-ATTTAGAGC
66 GGACCGCTGGTTGTCAACAAACATTTCT-CAGATTCAGAGT
53766 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
53831 GGACCGCTGGTTGTCAACAAA-ATTTC
66 GGACCGCTGGTTGTCAACAAACATTTC
53857 CCAGTTTAAA
Statistics
Matches: 493, Mismatches: 17, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
104 5 0.01
105 486 0.99
106 2 0.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (105 bp):
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGGTTGTCAACAAACATTTCTCAGATTCAGAGT
Found at i:53980 original size:269 final size:265
Alignment explanation
Indices: 53599--54114 Score: 637
Period size: 263 Copynumber: 1.9 Consensus size: 265
53589 CCAGACAACG
* * * *
53599 CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAGATTCAGAGTCAA
1 CAAGTTCAACTTCACAACGAAGGGACCGCTGGCTGTCAACAAACATTTCCCAGATTC--A--CAA
** *
53664 TTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGA
62 TTTCAACTTCACAGAAAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACAACGAAGGGA
** * * *
53729 CCACTGGTTGTCATCAAAC-ATTTCTCCAATTTAGAGCCAATTTCAACTTCACA-ACGAAGGATA
127 CCACTGACTGTCAACAAACAATTT-T-C-----AGAGCCAAGTTCAACTTCACAGA-AAAGGATA
* * **
53792 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAATTTC
184 TTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACAGCTGACTGTCAACAAAATTTC
53857 CCAGTTTAAAGACAGCA
249 CCAGTTTAAAGACAGCA
*
53874 CAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAATTTCCCA-A-TC-CAATTT
1 CAAGTTCAACTTCACAACGAAGGGACCGCTGGCTGTCAACAAAC-ATTTCCCAGATTCACAATTT
* * * * *
53936 CAACTTCACAGAAAATGATATTGGACTCGAGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCG
65 CAACTTCACAGAAAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACAACGAAGGGACCA
* *
54001 CTGACTGTCAACAAACAATTTTCAGAGCCAAGTTCAACTTCACAGAAAATGATATTGGACTCGAG
130 CTGACTGTCAACAAACAATTTTCAGAGCCAAGTTCAACTTCACAGAAAAGGATATTGGACTCCAG
* * *
54066 ACAGCTCAAGTTCAACTTCACAACGAAGGGGCAGCTGACTGTCAACAAA
195 ACAACGCAAGTTCAACTTCACAACGAAGGGACAGCTGACTGTCAACAAA
54115 CAATTTTCAG
Statistics
Matches: 211, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
263 78 0.37
264 1 0.00
268 1 0.00
269 77 0.36
270 4 0.02
274 2 0.01
275 41 0.19
276 7 0.03
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (265 bp):
CAAGTTCAACTTCACAACGAAGGGACCGCTGGCTGTCAACAAACATTTCCCAGATTCACAATTTC
AACTTCACAGAAAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACAACGAAGGGACCAC
TGACTGTCAACAAACAATTTTCAGAGCCAAGTTCAACTTCACAGAAAAGGATATTGGACTCCAGA
CAACGCAAGTTCAACTTCACAACGAAGGGACAGCTGACTGTCAACAAAATTTCCCAGTTTAAAGA
CAGCA
Found at i:53981 original size:164 final size:166
Alignment explanation
Indices: 53704--54015 Score: 416
Period size: 164 Copynumber: 1.9 Consensus size: 166
53694 CGAGACAACG
* * *
53704 CAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCATCAAACATTTCTCCAATTTAGAGCCAA
1 CAAGTTCAACTTCACAACGAAGGGACCACTGGCTGTCAACAAACATTTCTCCAA-TT--A-CCAA
* *
53769 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
62 TTTCAACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGA
**
53834 CCGCTGGTTGTCAACAAAATTTCCCAGTTTAAAGACAGCA
127 CCGCTGACTGTCAACAAAATTTCCCAGTTTAAAGACAGCA
* *
53874 CAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAATTTC-CCAA-T-CCAATTT
1 CAAGTTCAACTTCACAACGAAGGGACCACTGGCTGTCAACAAAC-ATTTCTCCAATTACCAATTT
* * * * *
53936 CAACTTCACAGA-AAATGATATTGGACTCGAGACAGCTCAAGTTCAACTTCACAACGAAGGGGCC
65 CAACTTCACA-ACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACC
54000 GCTGACTGTCAACAAA
129 GCTGACTGTCAACAAA
54016 CAATTTTCAG
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
164 76 0.60
165 1 0.01
168 1 0.01
170 43 0.34
171 5 0.04
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (166 bp):
CAAGTTCAACTTCACAACGAAGGGACCACTGGCTGTCAACAAACATTTCTCCAATTACCAATTTC
AACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGC
TGACTGTCAACAAAATTTCCCAGTTTAAAGACAGCA
Found at i:54037 original size:99 final size:99
Alignment explanation
Indices: 53866--54314 Score: 738
Period size: 99 Copynumber: 4.5 Consensus size: 99
53856 CCCAGTTTAA
* * * *
53866 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAATTTCCCA-ATC
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTT-TCAGAGC
*
53930 CAATTTCAACTTCACAGAAAATGATATTGGACTCG
65 CAAGTTCAACTTCACAGAAAATGATATTGGACTCG
53965 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTTCAGAGCC
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTTCAGAGCC
54030 AAGTTCAACTTCACAGAAAATGATATTGGACTCG
66 AAGTTCAACTTCACAGAAAATGATATTGGACTCG
*
54064 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCAGCTGACTGTCAACAAACAATTTTCAGAGCC
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTTCAGAGCC
*
54129 AAGTTCAACTTCACAGAAAATGATATTGGACTCA
66 AAGTTCAACTTCACAGAAAATGATATTGGACTCG
54163 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTTCAGAGCC
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTTCAGAGCC
* ** * *
54228 AATTTCAACTTCACAGCGAAGGATATTGGACTTG
66 AAGTTCAACTTCACAGAAAATGATATTGGACTCG
* * **
54262 AGACAACGCAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAACA
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACA
54315 CTTTCCAAGT
Statistics
Matches: 331, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
98 2 0.01
99 329 0.99
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (99 bp):
AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTTCAGAGCC
AAGTTCAACTTCACAGAAAATGATATTGGACTCG
Found at i:56084 original size:30 final size:28
Alignment explanation
Indices: 56039--56094 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 28
56029 ACCTTTATTA
56039 TATTATTACTTTATATATATATACGTCTCG
1 TATTATTACTTTATAT-TAT-TACGTCTCG
56069 TATT-TTACTTTTATATTATTACGTCT
1 TATTATTAC-TTTATATTATTACGTCT
56095 TGTTATATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 7 0.28
29 7 0.28
30 11 0.44
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.55
Consensus pattern (28 bp):
TATTATTACTTTATATTATTACGTCTCG
Found at i:56091 original size:28 final size:30
Alignment explanation
Indices: 56039--56094 Score: 82
Period size: 28 Copynumber: 1.9 Consensus size: 30
56029 ACCTTTATTA
56039 TATTATTACTTTATATATATATACGTCTCG
1 TATTATTACTTTATATATATATACGTCTCG
56069 TATT-TTACTTT-TATAT-TATTACGTCT
1 TATTATTACTTTATATATATA-TACGTCT
56095 TGTTATATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 2 0.08
28 12 0.48
29 7 0.28
30 4 0.16
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.55
Consensus pattern (30 bp):
TATTATTACTTTATATATATATACGTCTCG
Found at i:56199 original size:18 final size:17
Alignment explanation
Indices: 56169--56211 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
56159 TATATATCTA
*
56169 TTTATGTATTACATTTAT
1 TTTAT-TATTACATATAT
56187 TTTATTATATACATATAT
1 TTTATTAT-TACATATAT
56205 TATTATT
1 T-TTATT
56212 TTTTCCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 14 0.64
19 5 0.23
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTATTATTACATATAT
Found at i:59036 original size:27 final size:27
Alignment explanation
Indices: 59005--59064 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
58995 TTGAGTTTGC
59005 GCTGCCATAAGCTTTCTCCTTTACGTT
1 GCTGCCATAAGCTTTCTCCTTTACGTT
*
59032 GCTGCCATGAGCTTTCTCCTTTACGTT
1 GCTGCCATAAGCTTTCTCCTTTACGTT
59059 GCTGCC
1 GCTGCC
59065 CGTCTTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.12, C:0.32, G:0.18, T:0.38
Consensus pattern (27 bp):
GCTGCCATAAGCTTTCTCCTTTACGTT
Found at i:61960 original size:21 final size:21
Alignment explanation
Indices: 61935--61975 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
61925 AATCATAAGG
*
61935 GGTTTTGAAACCTACTGTAGA
1 GGTTTAGAAACCTACTGTAGA
61956 GGTTTAGAAACCTACTGTAG
1 GGTTTAGAAACCTACTGTAG
61976 TGGTCTGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (21 bp):
GGTTTAGAAACCTACTGTAGA
Found at i:63257 original size:18 final size:19
Alignment explanation
Indices: 63227--63272 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
63217 AAAATGAAAG
*
63227 TTTTTAAAGTTTTG-G-GT
1 TTTTTAAATTTTTGTGTGT
63244 TTTTTGAAATTTTTGTGTGT
1 TTTTT-AAATTTTTGTGTGT
63264 TTTTTAAAT
1 TTTTTAAAT
63273 ATAACATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
18 8 0.32
19 5 0.20
20 7 0.28
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (19 bp):
TTTTTAAATTTTTGTGTGT
Found at i:75917 original size:33 final size:33
Alignment explanation
Indices: 75880--75990 Score: 168
Period size: 33 Copynumber: 3.2 Consensus size: 33
75870 CGAGTGACAT
75880 ACGAGCCATACAAGCCATATACTCACCATGCAG
1 ACGAGCCATACAAGCCATATACTCACCATGCAG
75913 ACGAGCCATACAAGCCATATACTCACTATCACCATGCAG
1 ACGAGCCATACAAGCC--ATA-T-AC--TCACCATGCAG
75952 ACGAGCCATACAAGCCATATACTCACCATGCAG
1 ACGAGCCATACAAGCCATATACTCACCATGCAG
75985 ACGAGC
1 ACGAGC
75991 TAGCCAACGG
Statistics
Matches: 72, Mismatches: 0, Indels: 12
0.86 0.00 0.14
Matches are distributed among these distances:
33 33 0.46
35 5 0.07
36 2 0.03
37 5 0.07
39 27 0.38
ACGTcount: A:0.36, C:0.33, G:0.15, T:0.15
Consensus pattern (33 bp):
ACGAGCCATACAAGCCATATACTCACCATGCAG
Found at i:75952 original size:39 final size:37
Alignment explanation
Indices: 75880--75977 Score: 150
Period size: 39 Copynumber: 2.7 Consensus size: 37
75870 CGAGTGACAT
75880 ACGAGCCATACAAGCC--ATA-T-ACTCACCATGCAG
1 ACGAGCCATACAAGCCATATACTCACTCACCATGCAG
75913 ACGAGCCATACAAGCCATATACTCACTATCACCATGCAG
1 ACGAGCCATACAAGCCATATACTCAC--TCACCATGCAG
75952 ACGAGCCATACAAGCCATATACTCAC
1 ACGAGCCATACAAGCCATATACTCAC
75978 CATGCAGACG
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
33 16 0.27
35 3 0.05
36 1 0.02
37 2 0.03
39 37 0.63
ACGTcount: A:0.37, C:0.34, G:0.13, T:0.16
Consensus pattern (37 bp):
ACGAGCCATACAAGCCATATACTCACTCACCATGCAG
Found at i:76126 original size:29 final size:29
Alignment explanation
Indices: 76022--76116 Score: 163
Period size: 29 Copynumber: 3.3 Consensus size: 29
76012 GCCAATAGAG
* **
76022 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
76051 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
76080 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
76109 AGGTCGCC
1 AGGTCGCC
76117 CCGGCGTCCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:76185 original size:50 final size:50
Alignment explanation
Indices: 76143--76258 Score: 170
Period size: 50 Copynumber: 2.4 Consensus size: 50
76133 CCCGAGACCA
*
76143 TGCATG-C-ACATGCA-GCCAA-ATAACTTCACGTGCTCCTGCTCCCCGC
1 TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCAGC
* *
76189 TGCATGCCTGCATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCCGC
1 TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCAGC
76239 TGCATGCCTACA-GCATGCCA
1 TGCATGCCTACATGCATGCCA
76259 TGTGATCCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
46 6 0.09
47 1 0.02
48 6 0.09
49 13 0.20
50 38 0.59
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.22
Consensus pattern (50 bp):
TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCAGC
Found at i:76494 original size:16 final size:18
Alignment explanation
Indices: 76473--76511 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
76463 GGAGATAAGG
*
76473 TAAATTTGTTTA-TATT-
1 TAAATTAGTTTATTATTA
76489 TAAATTAGTTTATTATTA
1 TAAATTAGTTTATTATTA
76507 TAAAT
1 TAAAT
76512 GTTAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TAAATTAGTTTATTATTA
Found at i:76674 original size:46 final size:48
Alignment explanation
Indices: 76611--76702 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 48
76601 TTATATAGTT
76611 AAAAAATAATTAATTAGTTTGTT-TT-GTT-AATAGTT-AGTTATATAA
1 AAAAAATAATTAATTAGTTT-TTGTTAGTTAAATAGTTAAGTTATATAA
*
76656 AAAAAATTATTTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAA-TAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
76703 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
45 8 0.20
46 15 0.37
47 3 0.07
48 7 0.17
49 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (48 bp):
AAAAAATAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATATAA
Found at i:76777 original size:30 final size:29
Alignment explanation
Indices: 76743--76818 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 29
76733 TTAGTTAGTA
76743 AGTTTATTAGTAGTATATTATA-AAAAAAAT
1 AGTTTATTAGTAGT-T-TTATATAAAAAAAT
76773 AGTTTATTAGTTAGTTTTATATAAAAAAAT
1 AGTTTATTAG-TAGTTTTATATAAAAAAAT
* *
76803 ATTTTATTAGTTGTTT
1 AGTTTATTAGTAGTTT
76819 AAGGGTTTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 10 0.24
30 28 0.67
31 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (29 bp):
AGTTTATTAGTAGTTTTATATAAAAAAAT
Found at i:76895 original size:15 final size:16
Alignment explanation
Indices: 76872--76911 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
76862 GTTTGTTAGT
*
76872 TTATTAGTTTA-TATA
1 TTATAAGTTTATTATA
76887 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
76902 TTA-AAGTTTA
1 TTATAAGTTTA
76912 GTGTTGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:79057 original size:17 final size:17
Alignment explanation
Indices: 79035--79067 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
79025 CAATGATGTT
*
79035 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
79052 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
79068 GTATTAAATC
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:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:79086 original size:21 final size:21
Alignment explanation
Indices: 79062--79105 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
79052 TAGTATCAAA
* *
79062 TAATTAGTATTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
*
79083 TAATAATTAGTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
79104 TA
1 TA
79106 TCAAATCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (21 bp):
TAATAAGTAGTAAATCATTAG
Found at i:79104 original size:11 final size:11
Alignment explanation
Indices: 79072--79105 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
79062 TAATTAGTAT
79072 TAAATCATTAG
1 TAAATCATTAG
*
79083 T-AATAATTAG
1 TAAATCATTAG
79093 TAAATCATTAG
1 TAAATCATTAG
79104 TA
1 TA
79106 TCAAATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (11 bp):
TAAATCATTAG
Found at i:79113 original size:14 final size:14
Alignment explanation
Indices: 79034--79116 Score: 63
Period size: 14 Copynumber: 6.2 Consensus size: 14
79024 ACAATGATGT
79034 TTAGTATCAAATCA
1 TTAGTATCAAATCA
*
79048 TTACTAGTATCAAATAA
1 -T--TAGTATCAAATCA
*
79065 TTAGTATTAAATCA
1 TTAGTATCAAATCA
*
79079 TTAG--T--AATAA
1 TTAGTATCAAATCA
79089 TTAG--T-AAATCA
1 TTAGTATCAAATCA
79100 TTAGTATCAAATCA
1 TTAGTATCAAATCA
79114 TTA
1 TTA
79117 AATATTTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
10 9 0.16
11 8 0.14
12 1 0.02
13 1 0.02
14 24 0.42
15 1 0.02
16 1 0.02
17 12 0.21
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.39
Consensus pattern (14 bp):
TTAGTATCAAATCA
Found at i:79248 original size:11 final size:11
Alignment explanation
Indices: 79218--79625 Score: 102
Period size: 11 Copynumber: 33.9 Consensus size: 11
79208 ATTAGTAATA
79218 ATTATTAAATC
1 ATTATTAAATC
79229 ATTAGTATTAAATC
1 A-T--TATTAAATC
*
79243 ATTATTATAA-A
1 ATTATTA-AATC
*
79254 ATTACTAAATAAC
1 ATTATTAAAT--C
* *
79267 A-TAATAAATT
1 ATTATTAAATC
*
79277 ATTATAAAATC
1 ATTATTAAATC
*
79288 ATTATTATAATG
1 ATTATTA-AATC
79300 ATTATTATCAAATC
1 ATTA-T-T-AAATC
*
79314 ATTACTAAATC
1 ATTATTAAATC
*
79325 ---ATCAAATC
1 ATTATTAAATC
79333 ATTAAATTTAAATC
1 ATT--A-TTAAATC
79347 ATTATTAAATC
1 ATTATTAAATC
* *
79358 ATTTTTATAATG
1 ATTATTA-AATC
79370 ATTATTACTAAATC
1 ATTA-T--TAAATC
*
79384 ATTATTATAATG
1 ATTATTA-AATC
79396 ATTATTATCAAATC
1 ATTA-T-T-AAATC
*
79410 ATTACTATAATGATT
1 ATTA-T-TAA--ATC
*
79425 ATTATCAAATC
1 ATTATTAAATC
*
79436 ATTACTAAATC
1 ATTATTAAATC
79447 ATCAAATCATTAAAT-
1 AT----T-ATTAAATC
79462 A-T-TTAAATC
1 ATTATTAAATC
79471 ATTATTAAATC
1 ATTATTAAATC
* *
79482 ATTTTTATAATG
1 ATTATTA-AATC
79494 ATTATTACTAAATC
1 ATTA-T--TAAATC
*
79508 ATTATATAATGATT
1 ATTAT-TAA--ATC
*
79522 ATTATCAAATC
1 ATTATTAAATC
*
79533 ATTACTATAATGATT
1 ATTA-T-TAA--ATC
*
79548 ATTATCAAATC
1 ATTATTAAATC
*
79559 ATTACTAAATC
1 ATTATTAAATC
79570 ATCAAATCATTAAAT-
1 AT----T-ATTAAATC
79585 A-T-TTAAATC
1 ATTATTAAATC
79594 ATTATTAAATC
1 ATTATTAAATC
*
79605 ATT-TTATAATG
1 ATTATTA-AATC
*
79616 ATTAATAAAT
1 ATTATTAAAT
79626 ACATAGAAAT
Statistics
Matches: 296, Mismatches: 45, Indels: 112
0.65 0.10 0.25
Matches are distributed among these distances:
8 18 0.06
9 2 0.01
10 10 0.03
11 108 0.36
12 44 0.15
13 19 0.06
14 61 0.21
15 22 0.07
16 12 0.04
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.43
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:79255 original size:14 final size:13
Alignment explanation
Indices: 79218--79562 Score: 156
Period size: 14 Copynumber: 26.1 Consensus size: 13
79208 ATTAGTAATA
79218 ATTATTAAATCATT
1 ATTA-TAAATCATT
*
79232 AGTATTAAATCATT
1 ATTA-TAAATCATT
79246 ATTATAAA--ATT
1 ATTATAAATCATT
* *
79257 ACTA-AATAACA-T
1 ATTATAA-ATCATT
*
79269 A--ATAAATTATT
1 ATTATAAATCATT
79280 A-TA-AAATCATT
1 ATTATAAATCATT
*
79291 ATTAT-AATGATT
1 ATTATAAATCATT
79303 ATTATCAAATCATT
1 ATTAT-AAATCATT
79317 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
79336 AAATT-TAAATCATT
1 --ATTATAAATCATT
79350 A-T-TAAATCATT
1 ATTATAAATCATT
* *
79361 TTTAT-AATGATT
1 ATTATAAATCATT
79373 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
79387 ATTAT-AATGATT
1 ATTATAAATCATT
79399 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
79413 ACTAT-AATGATT
1 ATTATAAATCATT
79425 ATTATCAAATCATT
1 ATTAT-AAATCATT
79439 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
79458 AAATATTTAAATCATT
1 --AT-TATAAATCATT
79474 A-T-TAAATCATT
1 ATTATAAATCATT
* *
79485 TTTAT-AATGATT
1 ATTATAAATCATT
79497 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
79511 A-TAT-AATGATT
1 ATTATAAATCATT
79522 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
79536 ACTAT-AATGATT
1 ATTATAAATCATT
79548 ATTATCAAATCATT
1 ATTAT-AAATCATT
79562 A
1 A
79563 CTAAATCATC
Statistics
Matches: 261, Mismatches: 29, Indels: 82
0.70 0.08 0.22
Matches are distributed among these distances:
10 5 0.02
11 45 0.17
12 73 0.28
13 12 0.05
14 83 0.32
15 3 0.01
16 8 0.03
17 2 0.01
18 4 0.02
19 22 0.08
20 2 0.01
21 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (13 bp):
ATTATAAATCATT
Found at i:79312 original size:26 final size:26
Alignment explanation
Indices: 79274--79562 Score: 247
Period size: 26 Copynumber: 11.7 Consensus size: 26
79264 AACATAATAA
*
79274 ATTATTATAAAATCATTATTATAATG
1 ATTATTATCAAATCATTATTATAATG
*
79300 ATTATTATCAAATCATTA--CT-A--
1 ATTATTATCAAATCATTATTATAATG
*
79321 A--ATCATCAAATCATTAAATT-TAA--
1 ATTATTATCAAATCATT--ATTATAATG
* * *
79344 ATCATTATTAAATCATTTTTATAATG
1 ATTATTATCAAATCATTATTATAATG
79370 ATTATTA-CTAAATCATTATTATAATG
1 ATTATTATC-AAATCATTATTATAATG
*
79396 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
* *
79422 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATCAAATCATTATTATAATG
* * * * *
79447 ATCA-AATC-ATTAAATATT-TAA--
1 ATTATTATCAAATCATTATTATAATG
* * *
79468 ATCATTATTAAATCATTTTTATAATG
1 ATTATTATCAAATCATTATTATAATG
79494 ATTATTA-CTAAATCATTA-TATAATG
1 ATTATTATC-AAATCATTATTATAATG
*
79519 ATTATTATCAAATCATTACTATAATG
1 ATTATTATCAAATCATTATTATAATG
79545 ATTATTATCAAATCATTA
1 ATTATTATCAAATCATTA
79563 CTAAATCATC
Statistics
Matches: 216, Mismatches: 26, Indels: 42
0.76 0.09 0.15
Matches are distributed among these distances:
19 13 0.06
21 6 0.03
22 3 0.01
23 19 0.09
24 10 0.05
25 41 0.19
26 123 0.57
27 1 0.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATTATCAAATCATTATTATAATG
Found at i:79562 original size:123 final size:124
Alignment explanation
Indices: 79274--79619 Score: 646
Period size: 123 Copynumber: 2.8 Consensus size: 124
79264 AACATAATAA
* *
79274 ATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATT-AA
1 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
79338 -ATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATG
66 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATG
79396 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
1 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
79461 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTA-TATAATG
66 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATG
79519 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
1 ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
79584 TATTTAAATCATTATTAAATCA-TTTTATAATGATTA
66 TATTTAAATCATTATTAAATCATTTTTATAATGATTA
79620 ATAAATACAT
Statistics
Matches: 220, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
122 74 0.34
123 96 0.44
124 50 0.23
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (124 bp):
ATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATG
Found at i:82476 original size:25 final size:23
Alignment explanation
Indices: 82429--82477 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
82419 TAATTACTAA
82429 TATTATTAATAATGATTTAATAT
1 TATTATTAATAATGATTTAATAT
*
82452 TATTATTAATCTAATGATTTGATAT
1 TATTATTAA--TAATGATTTAATAT
82477 T
1 T
82478 TAATGATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.39
25 14 0.61
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (23 bp):
TATTATTAATAATGATTTAATAT
Found at i:82721 original size:18 final size:18
Alignment explanation
Indices: 82698--82767 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
82688 TACAATATAA
*
82698 TAAACAAAATATTTTTTT
1 TAAACAAAATATTATTTT
* *
82716 TAAACAACACTAAATATTTT
1 TAAACAA-AAT-ATTATTTT
* *
82736 TAAACACAATATAATTTT
1 TAAACAAAATATTATTTT
82754 TAAACAAAA-ATTAT
1 TAAACAAAATATTAT
82768 CTCGCACAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 4 0.10
18 21 0.51
19 4 0.10
20 12 0.29
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAACAAAATATTATTTT
Found at i:83215 original size:8 final size:8
Alignment explanation
Indices: 83204--83229 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
83194 ACTTAATAAC
83204 TTAACTAA
1 TTAACTAA
83212 TTAACTAA
1 TTAACTAA
83220 TTAACTAA
1 TTAACTAA
83228 TT
1 TT
83230 TTTATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (8 bp):
TTAACTAA
Found at i:83282 original size:21 final size:21
Alignment explanation
Indices: 83249--83297 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
83239 AATATAATAT
*
83249 ATAACTTAAACTAACCAACTA
1 ATAACTTAAACTAACAAACTA
* *
83270 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
83291 ATTAACT
1 A-TAACT
83298 AGATTTTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:83763 original size:35 final size:35
Alignment explanation
Indices: 83723--83790 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
83713 TGGATGCAAC
*
83723 GCATGCATGAGTGATACAGTTAAAGCTTGGTCGTT
1 GCATGCATGAGTGATACAGTTAAAGCTGGGTCGTT
*
83758 GCATGCATGAGTGCTACAGTTAAAGCTGGGTCG
1 GCATGCATGAGTGATACAGTTAAAGCTGGGTCG
83791 CGATGCAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (35 bp):
GCATGCATGAGTGATACAGTTAAAGCTGGGTCGTT
Found at i:83844 original size:12 final size:12
Alignment explanation
Indices: 83827--83851 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83817 TCCATGGCGA
83827 CCTACCACCTAC
1 CCTACCACCTAC
83839 CCTACCACCTAC
1 CCTACCACCTAC
83851 C
1 C
83852 ATGTCGTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.60, G:0.00, T:0.16
Consensus pattern (12 bp):
CCTACCACCTAC
Found at i:84131 original size:13 final size:13
Alignment explanation
Indices: 84113--84167 Score: 67
Period size: 13 Copynumber: 4.1 Consensus size: 13
84103 GATGGACGAG
84113 CAACAGCGGCCAC
1 CAACAGCGGCCAC
*
84126 CAACAGCGGCCCCC
1 CAACAGCGG-CCAC
84140 CAA-AGCAGCGCCAC
1 CAACAGC-G-GCCAC
84154 CAACAGCGGCCAC
1 CAACAGCGGCCAC
84167 C
1 C
84168 CCAAGCAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 18 0.50
14 14 0.39
15 4 0.11
ACGTcount: A:0.29, C:0.49, G:0.22, T:0.00
Consensus pattern (13 bp):
CAACAGCGGCCAC
Found at i:84157 original size:28 final size:30
Alignment explanation
Indices: 84116--84171 Score: 98
Period size: 28 Copynumber: 1.9 Consensus size: 30
84106 GGACGAGCAA
84116 CAGCGGCCACCAACAGCGGCC-CCCCAAAG
1 CAGCGGCCACCAACAGCGGCCACCCCAAAG
84145 CAGC-GCCACCAACAGCGGCCACCCCAA
1 CAGCGGCCACCAACAGCGGCCACCCCAA
84172 GCAAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.29, C:0.50, G:0.21, T:0.00
Consensus pattern (30 bp):
CAGCGGCCACCAACAGCGGCCACCCCAAAG
Found at i:84204 original size:40 final size:39
Alignment explanation
Indices: 84145--84223 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 39
84135 CCCCCCAAAG
*
84145 CAGCGCCACCAACAGCGGCCACCCCAAGCAAATAATTAT
1 CAGCGCCACCAACAACGGCCACCCCAAGCAAATAATTAT
84184 CAGCGGCCACCAACAACGGCCACCCCAAGCAAATAATTAT
1 CAGC-GCCACCAACAACGGCCACCCCAAGCAAATAATTAT
84224 AGGACGCCGG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 4 0.11
40 34 0.89
ACGTcount: A:0.37, C:0.38, G:0.15, T:0.10
Consensus pattern (39 bp):
CAGCGCCACCAACAACGGCCACCCCAAGCAAATAATTAT
Found at i:84308 original size:29 final size:30
Alignment explanation
Indices: 84221--84309 Score: 155
Period size: 29 Copynumber: 3.0 Consensus size: 30
84211 AGCAAATAAT
*
84221 TATAGGACGCCGGGCGTGCATGGCGTCCT-
1 TATAGGACGCCGGGCGTGCATGGCGACCTA
84250 TATAGGACGCCGGGCGTGCATGGCGACCTA
1 TATAGGACGCCGGGCGTGCATGGCGACCTA
84280 TA-AGGACGCCGGGCGTGCATGGCGACCTA
1 TATAGGACGCCGGGCGTGCATGGCGACCTA
84309 T
1 T
84310 GTTGCCACTG
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
29 56 0.97
30 2 0.03
ACGTcount: A:0.18, C:0.27, G:0.37, T:0.18
Consensus pattern (30 bp):
TATAGGACGCCGGGCGTGCATGGCGACCTA
Done.